[English] 日本語
Yorodumi
- PDB-7dul: Crystal structure of the Thermus thermophilus (HB8) 30S ribosomal... -

+
Open data


ID or keywords:

Loading...

-
Basic information

Entry
Database: PDB / ID: 7dul
TitleCrystal structure of the Thermus thermophilus (HB8) 30S ribosomal subunit with mRNA and cognate transfer RNA anticodon stem-loop and sisomicin derivative N3''MS bound
Components
  • (30S ribosomal protein ...) x 20
  • 30S Ribosomal RNA rRNA
  • RNA (5'-R(*GP*GP*GP*AP*UP*UP*GP*AP*AP*AP*AP*UP*CP*CP*C)-3')
  • RNA (5'-R(*UP*UP*UP*UP*UP*U)-3')
KeywordsRIBOSOME / 30S ribosomal subunit / Sisomicin / RNA structure / Thermus thermophilus / Antibiotic resistance / Decoding
Function / homology
Function and homology information


ribosomal small subunit biogenesis / ribosomal small subunit assembly / small ribosomal subunit / small ribosomal subunit rRNA binding / cytosolic small ribosomal subunit / tRNA binding / rRNA binding / structural constituent of ribosome / ribosome / translation ...ribosomal small subunit biogenesis / ribosomal small subunit assembly / small ribosomal subunit / small ribosomal subunit rRNA binding / cytosolic small ribosomal subunit / tRNA binding / rRNA binding / structural constituent of ribosome / ribosome / translation / ribonucleoprotein complex / mRNA binding / zinc ion binding / metal ion binding / cytosol / cytoplasm
Similarity search - Function
Ribosomal protein S4/S9, N-terminal domain / Ribosomal Protein S4 Delta 41; Chain A, domain 1 / Ribosomal protein S11/S14 / Helix hairpin bin / RNA-binding S4 domain / Structural Genomics Hypothetical 15.5 Kd Protein In mrcA-pckA Intergenic Region; Chain A / Double Stranded RNA Binding Domain - #20 / Ribosomal Protein S5; domain 2 - #10 / 30S ribosomal protein Thx / 30S ribosomal protein Thx ...Ribosomal protein S4/S9, N-terminal domain / Ribosomal Protein S4 Delta 41; Chain A, domain 1 / Ribosomal protein S11/S14 / Helix hairpin bin / RNA-binding S4 domain / Structural Genomics Hypothetical 15.5 Kd Protein In mrcA-pckA Intergenic Region; Chain A / Double Stranded RNA Binding Domain - #20 / Ribosomal Protein S5; domain 2 - #10 / 30S ribosomal protein Thx / 30S ribosomal protein Thx / 30S ribosomal protein / Ribosomal Protein S5; domain 2 / Ribosomal protein S14, type Z / Double Stranded RNA Binding Domain / Ribosomal protein S3, bacterial-type / Ribosomal protein S14/S29 / Ribosomal protein S19, bacterial-type / Ribosomal protein S13, bacterial-type / Ribosomal protein S6, conserved site / Ribosomal protein S6 signature. / Ribosomal protein S7, bacterial/organellar-type / Ribosomal protein S11, bacterial-type / Ribosomal protein S20 / Ribosomal protein S20 superfamily / Ribosomal protein S20 / Ribosomal protein S4, bacterial-type / 30S ribosomal protein S17 / Ribosomal protein S5, bacterial-type / Ribosomal protein S6, plastid/chloroplast / Ribosomal protein S2, bacteria/mitochondria/plastid / Ribosomal protein S9, bacterial/plastid / Ribosomal protein S18, conserved site / Ribosomal protein S18 signature. / Ribosomal protein S16 / Ribosomal protein S16 domain superfamily / Ribosomal protein S16 / Ribosomal protein S15, bacterial-type / Ribosomal protein S6 / Ribosomal protein S6 / Ribosomal protein S6 superfamily / Ribosomal protein S12, bacterial-type / Translation elongation factor EF1B/ribosomal protein S6 / Ribosomal protein S18 / Ribosomal protein S18 / Ribosomal protein S18 superfamily / K Homology domain / K homology RNA-binding domain / Ribosomal protein S3, conserved site / Ribosomal protein S3 signature. / Ribosomal protein S10, conserved site / Ribosomal protein S10 signature. / Ribosomal protein S14, conserved site / Ribosomal protein S14 signature. / Ribosomal protein S2 signature 1. / Nucleotidyltransferase; domain 5 / KH domain / Type-2 KH domain profile. / K Homology domain, type 2 / Ribosomal protein S3, C-terminal / Ribosomal protein S3, C-terminal domain / Ribosomal protein S3, C-terminal domain superfamily / Ribosomal protein S15/S19, conserved site / Ribosomal protein S19 signature. / Ribosomal protein S10 / Ribosomal protein S5, N-terminal, conserved site / Ribosomal protein S5 signature. / Ribosomal protein S19/S15 / Ribosomal protein S19/S15, superfamily / Ribosomal protein S19 / : / Ribosomal protein S7, conserved site / Ribosomal protein S2, conserved site / Ribosomal protein S7 signature. / Helix Hairpins / Ribosomal protein S2 / Ribosomal protein S2, flavodoxin-like domain superfamily / Ribosomal protein S2 / Ribosomal protein S17, conserved site / Ribosomal protein S17 signature. / K homology domain superfamily, prokaryotic type / Ribosomal protein S5 / S5 double stranded RNA-binding domain profile. / Ribosomal protein S5, N-terminal / Ribosomal protein S5, C-terminal / Ribosomal protein S13, conserved site / Ribosomal protein S13 signature. / Ribosomal protein S5, N-terminal domain / Ribosomal protein S5, C-terminal domain / Ribosomal protein S13 / 30s ribosomal protein S13, C-terminal / Ribosomal protein S13/S18 / Ribosomal protein S13 family profile. / Ribosomal protein S8 signature. / Ribosomal protein S4/S9 N-terminal domain / Ribosomal protein S4, conserved site / Ribosomal protein S15 signature. / Ribosomal protein S4 signature. / Ribosomal protein S4/S9 N-terminal domain / Ribosomal protein S4/S9, N-terminal / Ribosomal protein S14
Similarity search - Domain/homology
Chem-SIS / RNA / RNA (> 10) / RNA (> 100) / RNA (> 1000) / Small ribosomal subunit protein uS12 / Small ribosomal subunit protein uS14 / Small ribosomal subunit protein uS8 / Small ribosomal subunit protein uS7 / Small ribosomal subunit protein uS17 ...Chem-SIS / RNA / RNA (> 10) / RNA (> 100) / RNA (> 1000) / Small ribosomal subunit protein uS12 / Small ribosomal subunit protein uS14 / Small ribosomal subunit protein uS8 / Small ribosomal subunit protein uS7 / Small ribosomal subunit protein uS17 / Small ribosomal subunit protein uS2 / Small ribosomal subunit protein uS3 / Small ribosomal subunit protein uS4 / Small ribosomal subunit protein uS9 / Small ribosomal subunit protein uS11 / Small ribosomal subunit protein uS13 / Small ribosomal subunit protein bS20 / Small ribosomal subunit protein uS10 / Small ribosomal subunit protein uS19 / Small ribosomal subunit protein uS5 / Small ribosomal subunit protein bTHX / Small ribosomal subunit protein uS15 / Small ribosomal subunit protein bS16 / Small ribosomal subunit protein bS6 / Small ribosomal subunit protein bS18
Similarity search - Component
Biological speciesThermus thermophilus HB8 (bacteria)
Thermus thermophilus (bacteria)
MethodX-RAY DIFFRACTION / SYNCHROTRON / FOURIER SYNTHESIS / Resolution: 3.62 Å
AuthorsDeMirci, H. / Destan, E.
Funding support United States, Turkey, 2items
OrganizationGrant numberCountry
National Science Foundation (NSF, United States)1231306 United States
Other government118C270 Turkey
CitationJournal: To Be Published
Title: Crystal structure of the Thermus thermophilus (HB8) 30S ribosomal subunit with mRNA and cognate transfer RNA anticodon stem-loop and sisomicin derivative N3''MS bound
Authors: DeMirci, H. / Destan, E.
History
DepositionJan 9, 2021Deposition site: PDBJ / Processing site: PDBJ
Revision 1.0Jan 26, 2022Provider: repository / Type: Initial release
Revision 1.1Feb 12, 2025Group: Data collection / Derived calculations / Structure summary
Category: chem_comp_atom / chem_comp_bond ...chem_comp_atom / chem_comp_bond / pdbx_entry_details / pdbx_modification_feature / pdbx_struct_conn_angle / struct_conn
Item: _pdbx_entry_details.has_protein_modification

-
Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

Downloads & links

-
Assembly

Deposited unit
A: 30S Ribosomal RNA rRNA
B: 30S ribosomal protein S2
C: 30S ribosomal protein S3
D: 30S ribosomal protein S4
E: 30S ribosomal protein S5
F: 30S ribosomal protein S6
G: 30S ribosomal protein S7
H: 30S ribosomal protein S8
I: 30S ribosomal protein S9
J: 30S ribosomal protein S10
K: 30S ribosomal protein S11
L: 30S ribosomal protein S12
M: 30S ribosomal protein S13
N: 30S ribosomal protein S14 type Z
O: 30S ribosomal protein S15
P: 30S ribosomal protein S16
Q: 30S ribosomal protein S17
R: 30S ribosomal protein S18
S: 30S ribosomal protein S19
T: 30S ribosomal protein S20
U: 30S ribosomal protein Thx
Y: RNA (5'-R(*UP*UP*UP*UP*UP*U)-3')
W: RNA (5'-R(*GP*GP*GP*AP*UP*UP*GP*AP*AP*AP*AP*UP*CP*CP*C)-3')
hetero molecules


Theoretical massNumber of molelcules
Total (without water)797,173275
Polymers790,54323
Non-polymers6,630252
Water4,306239
1


  • Idetical with deposited unit
  • defined by author
  • Evidence: native gel electrophoresis
TypeNameSymmetry operationNumber
identity operation1_555x,y,z1
Buried area101860 Å2
ΔGint-756 kcal/mol
Surface area280570 Å2
Unit cell
Length a, b, c (Å)400.830, 400.830, 174.670
Angle α, β, γ (deg.)90.000, 90.000, 90.000
Int Tables number92
Space group name H-MP41212

-
Components

-
RNA chain , 3 types, 3 molecules AYW

#1: RNA chain 30S Ribosomal RNA rRNA


Mass: 494169.781 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Thermus thermophilus HB8 (bacteria) / Strain: HB8
#22: RNA chain RNA (5'-R(*UP*UP*UP*UP*UP*U)-3')


Mass: 1792.037 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Thermus thermophilus (bacteria)
#23: RNA chain RNA (5'-R(*GP*GP*GP*AP*UP*UP*GP*AP*AP*AP*AP*UP*CP*CP*C)-3')


Mass: 4815.937 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Thermus thermophilus (bacteria)

-
30S ribosomal protein ... , 20 types, 20 molecules BCDEFGHIJKLMNOPQRSTU

#2: Protein 30S ribosomal protein S2


Mass: 29317.703 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Thermus thermophilus HB8 (bacteria) / Strain: HB8 / References: UniProt: P80371
#3: Protein 30S ribosomal protein S3


Mass: 26751.076 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Thermus thermophilus HB8 (bacteria) / Strain: HB8 / References: UniProt: P80372
#4: Protein 30S ribosomal protein S4


Mass: 24373.447 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Thermus thermophilus HB8 (bacteria) / Strain: HB8 / References: UniProt: P80373
#5: Protein 30S ribosomal protein S5


Mass: 17583.416 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Thermus thermophilus HB8 (bacteria) / Strain: HB8 / References: UniProt: Q5SHQ5
#6: Protein 30S ribosomal protein S6 / TS9


Mass: 11988.753 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Thermus thermophilus HB8 (bacteria) / Strain: HB8 / References: UniProt: Q5SLP8
#7: Protein 30S ribosomal protein S7


Mass: 18050.973 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Thermus thermophilus HB8 (bacteria) / Strain: HB8 / References: UniProt: P17291
#8: Protein 30S ribosomal protein S8


Mass: 15868.570 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Thermus thermophilus HB8 (bacteria) / Strain: HB8 / References: UniProt: P0DOY9
#9: Protein 30S ribosomal protein S9


Mass: 14410.614 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Thermus thermophilus HB8 (bacteria) / Strain: HB8 / References: UniProt: P80374
#10: Protein 30S ribosomal protein S10


Mass: 11954.968 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Thermus thermophilus HB8 (bacteria) / Strain: HB8 / References: UniProt: Q5SHN7
#11: Protein 30S ribosomal protein S11


Mass: 13737.868 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Thermus thermophilus HB8 (bacteria) / Strain: HB8 / References: UniProt: P80376
#12: Protein 30S ribosomal protein S12


Mass: 14966.846 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Thermus thermophilus HB8 (bacteria) / Strain: HB8 / References: UniProt: A0A3P4AU90
#13: Protein 30S ribosomal protein S13


Mass: 14338.861 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Thermus thermophilus HB8 (bacteria) / Strain: HB8 / References: UniProt: P80377
#14: Protein 30S ribosomal protein S14 type Z


Mass: 7158.725 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Thermus thermophilus HB8 (bacteria) / Strain: HB8 / References: UniProt: P0DOY6
#15: Protein 30S ribosomal protein S15


Mass: 10578.407 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Thermus thermophilus HB8 (bacteria) / Strain: HB8 / References: UniProt: Q5SJ76
#16: Protein 30S ribosomal protein S16


Mass: 10409.983 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Thermus thermophilus HB8 (bacteria) / Strain: HB8 / References: UniProt: Q5SJH3
#17: Protein 30S ribosomal protein S17


Mass: 12324.670 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Thermus thermophilus HB8 (bacteria) / Strain: HB8 / References: UniProt: P24321
#18: Protein 30S ribosomal protein S18


Mass: 10258.299 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Thermus thermophilus HB8 (bacteria) / Strain: HB8 / References: UniProt: Q5SLQ0
#19: Protein 30S ribosomal protein S19


Mass: 10605.464 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Thermus thermophilus HB8 (bacteria) / Strain: HB8 / References: UniProt: Q5SHP2
#20: Protein 30S ribosomal protein S20


Mass: 11736.143 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Thermus thermophilus HB8 (bacteria) / Strain: HB8 / References: UniProt: P80380
#21: Protein/peptide 30S ribosomal protein Thx / S31


Mass: 3350.030 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Thermus thermophilus HB8 (bacteria) / Strain: HB8 / References: UniProt: Q5SIH3

-
Non-polymers , 4 types, 491 molecules

#24: Chemical...
ChemComp-MG / MAGNESIUM ION


Mass: 24.305 Da / Num. of mol.: 249 / Source method: obtained synthetically / Formula: Mg
#25: Chemical ChemComp-SIS / (1S,2S,3R,4S,6R)-4,6-diamino-3-{[(2S,3R)-3-amino-6-(aminomethyl)-3,4-dihydro-2H-pyran-2-yl]oxy}-2-hydroxycyclohexyl 3-deoxy-4-C-methyl-3-(methylamino)-beta-L-arabinopyranoside / Sisomicin


Mass: 447.526 Da / Num. of mol.: 1 / Source method: obtained synthetically / Formula: C19H37N5O7 / Feature type: SUBJECT OF INVESTIGATION / Comment: antibiotic*YM
#26: Chemical ChemComp-ZN / ZINC ION


Mass: 65.409 Da / Num. of mol.: 2 / Source method: obtained synthetically / Formula: Zn
#27: Water ChemComp-HOH / water


Mass: 18.015 Da / Num. of mol.: 239 / Source method: isolated from a natural source / Formula: H2O

-
Details

Has ligand of interestY
Has protein modificationY

-
Experimental details

-
Experiment

ExperimentMethod: X-RAY DIFFRACTION / Number of used crystals: 1

-
Sample preparation

CrystalDensity Matthews: 4.44 Å3/Da / Density % sol: 72.28 %
Crystal growTemperature: 277 K / Method: vapor diffusion, hanging drop / Details: 17% MPD

-
Data collection

DiffractionMean temperature: 100 K / Serial crystal experiment: N
Diffraction sourceSource: SYNCHROTRON / Site: SSRL / Beamline: BL12-2 / Wavelength: 0.9898 Å
DetectorType: DECTRIS PILATUS 6M-F / Detector: PIXEL / Date: Jun 19, 2016
RadiationProtocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray
Radiation wavelengthWavelength: 0.9898 Å / Relative weight: 1
ReflectionResolution: 2.92→39.884 Å / Num. obs: 297269 / % possible obs: 97.5 % / Redundancy: 83.262 % / Biso Wilson estimate: 184.456 Å2 / CC1/2: 0.999 / Rmerge(I) obs: 0.86 / Rrim(I) all: 0.865 / Χ2: 0.904 / Net I/σ(I): 6.09 / Num. measured all: 24751080 / Scaling rejects: 18866
Reflection shell

Diffraction-ID: 1

Resolution (Å)Redundancy (%)Num. unique obsCC1/2% possible allMean I/σ(I) obsRrim(I) allRmerge(I) obs
2.92-2.9926.516157060.36870.2
2.99-3.0843.022212720.36897.8
3.08-3.1760.285211660.36899.7
3.17-3.2669.232205980.36899.9
3.26-3.3773.579199730.36899.9
3.37-3.4975.482193090.36899.8
3.49-3.6274.928186090.17899.8
3.62-3.7792.332179640.36899.90.7714.75
3.77-3.9398.989172680.5411001.316.9686.933
3.93-4.13100.834165290.6991001.965.024.995
4.13-4.35100.758157320.8151002.873.4993.481
4.35-4.6199.946148850.89399.84.22.3562.344
4.61-4.93110.558140240.9471006.411.5811.574
4.93-5.33109.736130990.97199.98.941.1571.152
5.33-5.84103.751120870.98110011.740.8870.882
5.84-6.52108.876109680.9910015.60.6490.646
6.52-7.53109.34897320.99710024.620.3850.383
7.53-9.2398.36982660.99899.934.310.2370.236
9.23-13.05101.2496499110055.070.1180.118
13.05-39.88488.4973583195.168.650.0660.066

-
Processing

Software
NameVersionClassification
PHENIXDEV-3318refinement
XDSdata reduction
XSCALEdata scaling
PDB_EXTRACT3.27data extraction
PHENIXphasing
RefinementMethod to determine structure: FOURIER SYNTHESIS / Resolution: 3.62→39.884 Å / SU ML: 0.53 / Cross valid method: THROUGHOUT / σ(F): 1.33 / Phase error: 25.1 / Stereochemistry target values: ML
RfactorNum. reflection% reflection
Rfree0.22 1078 0.67 %
Rwork0.1828 159157 -
obs0.183 160235 99.72 %
Solvent computationShrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL
Displacement parametersBiso max: 367.03 Å2 / Biso mean: 166.6815 Å2 / Biso min: 77.7 Å2
Refinement stepCycle: final / Resolution: 3.62→39.884 Å
ProteinNucleic acidLigandSolventTotal
Num. atoms19088 32943 521 0 52552
Biso mean--160.46 --
Num. residues----3910
LS refinement shell

Refine-ID: X-RAY DIFFRACTION / Rfactor Rfree error: 0

Resolution (Å)Rfactor RfreeNum. reflection RfreeRfactor RworkNum. reflection Rwork% reflection obs (%)
3.62-3.78460.35141320.33321940198
3.7846-3.9840.30791330.284119741100
3.984-4.23330.26351340.247619755100
4.2333-4.55980.26071330.21619796100
4.5598-5.01790.21641350.182519849100
5.0179-5.74210.20331350.168219945100
5.7421-7.22740.21181370.171320062100
7.2274-39.40.19021390.145720608100
Refinement TLS params.

Method: refined / Refine-ID: X-RAY DIFFRACTION

IDL11 (°2)L12 (°2)L13 (°2)L22 (°2)L23 (°2)L33 (°2)S11 (Å °)S12 (Å °)S13 (Å °)S21 (Å °)S22 (Å °)S23 (Å °)S31 (Å °)S32 (Å °)S33 (Å °)T11 (Å2)T12 (Å2)T13 (Å2)T22 (Å2)T23 (Å2)T33 (Å2)Origin x (Å)Origin y (Å)Origin z (Å)
10.48310.1595-0.15980.4779-0.05460.3328-0.01290.0123-0.01060.17450.09940.11950.09790.0356-0.09151.32790.12590.08981.2152-0.0591.5192143.7783.4507-12.9119
21.1288-0.28030.22120.6182-0.16410.35740.0559-0.62720.34790.27630.0166-0.1468-0.20960.0366-0.05641.1848-0.2240.11051.7644-0.5831.4686222.3307129.31989.1697
32.37120.8309-0.78360.5087-0.41910.2733-0.3282-0.1612-0.6165-0.27920.2703-0.56580.21270.15730.0581.4770.19660.03391.5141-0.12831.5887164.645869.9998-26.549
43.4628-0.36735.01375.1963-4.28971.99990.1958-1.7688-0.25520.53342.54072.1588-1.2741-0.321-2.80992.4214-0.29460.74844.07110.39063.1576203.556112.0036-33.751
52.619-1.3571-2.24673.02825.19238.77670.5210.0144-0.322-4.27080.428-1.2101-1.04370.9711-0.79791.8231-0.22840.33120.95440.03971.6253155.5382158.0853-35.1471
69.2876-2.6218-2.74568.5255.86944.14650.9715-0.10750.3848-1.2731-0.51760.9896-0.8279-1.3784-0.51651.59330.16590.33340.82320.21142.0135149.5219156.2073-27.9738
78.6432-1.1501-2.97927.11832.30492.72150.2355-0.3032.1914-0.123-0.0686-0.3025-2.13311.6578-0.22151.5868-0.1360.22321.264-0.00652.0089166.6003162.8033-19.5439
88.63854.33471.97298.2015-3.33353.70340.1458-1.02990.81880.06440.38240.5025-0.8570.0086-0.41011.22990.07880.44491.1019-0.61691.8236173.6828157.7253-7.3811
92.8205-1.6574-0.17815.8434-2.48431.3757-0.1096-0.76431.41670.68470.8194-1.0007-1.36961.4981-0.51321.9813-0.37640.33351.5976-0.98732.6465189.7603162.9118-5.3352
103.89370.46772.98286.0599-4.06465.8158-0.0106-0.14690.3151-0.96860.3081-0.6251-0.26770.4857-0.3281.57220.07590.65390.7335-0.21932.1123159.7856156.6691-18.9612
119.25098.0629-7.62827.6854-7.07366.56242.8562-0.02143.9606-1.87940.7958-0.1251-4.6131-0.7858-3.62963.19730.00770.26631.37410.51943.5882162.5832175.0364-23.8477
126.5296-0.9244-1.81832.3619-1.18251.8291-0.1886-1.0530.82770.77020.2542-0.2577-0.3020.0887-0.0951.6742-0.0521-0.02731.8538-0.73421.249204.942141.783433.4315
131.9028-1.98411.83552.5114-1.51882.9129-0.2204-1.23830.41030.29390.55620.42910.1554-0.9526-0.3341.1446-0.11190.41482.6584-0.60151.657189.6673133.541217.4635
148.0572-4.9855-2.40153.30580.54554.7227-0.18060.6257-0.73630.26711.51211.32251.2811-0.1505-1.39661.3356-0.1648-0.06331.0212-0.13781.3855154.9579110.75837.4517
158.03972.16070.27346.8189-4.17272.95590.6012-1.28971.3418-0.0186-0.2192-0.1815-0.40590.8865-0.27151.57820.00210.08941.1765-0.30471.253161.1223112.891125.0784
163.94062.0343-0.70755.8356-4.52073.70060.21310.0849-0.16240.73890.0916-0.17960.6345-0.5471-0.22211.5860.11490.32631.0132-0.17751.3362136.7828103.479931.0096
173.34270.9961-1.3424.1269-6.07968.99560.4978-1.82751.23233.2980.77921.9206-2.62380.0581-1.1011.93810.02440.42111.4271-0.32441.2777133.1091109.690147.7819
184.7684-0.5241-6.7357.37570.10569.6531.88631.83341.9892-0.8961-0.5679-0.2596-3.0171-1.6783-1.15371.44220.3928-0.09561.32540.14591.2034140.2158113.839223.4357
195.0761-4.6708-5.10034.2534.67385.1527-0.1993-1.91021.90781.654-0.0765-0.10730.02590.48350.28131.3812-0.08710.06311.7051-0.39021.585161.7965126.80867.9519
202.6926-0.99971.20532.8651.9652.8815-1.10930.7754-1.9139-0.2137-0.66950.8018-1.2144-2.16251.73611.26850.1007-0.08722.027-0.53911.7815183.7339122.6999-2.7938
219.0337-4.5618-4.7462.51523.00228.23960.5174-1.50293.01440.09290.3924-0.45510.04230.0874-1.00411.0761-0.2260.19060.9932-0.4131.7803161.8498129.71174.3898
227.3109-5.19731.47094.17590.7587.056-1.2343-0.46592.57441.8281.10860.1495-1.30130.59030.10741.9626-0.43570.48681.1039-0.37281.7846167.5268133.48725.2864
233.17283.3776-5.34883.6869-5.67429.23662.0879-0.58744.6740.3416-0.68293.5597-1.0437-0.0527-1.54721.25610.26130.3041.2093-0.32022.4379144.9868129.23180.2095
245.7838-4.6522-0.94884.22132.0923.8336-1.1953.1238-4.5199-0.3092-0.19370.35180.9866-1.53731.43341.13080.0618-0.00621.4327-0.17442.0739152.3811120.0326-11.226
259.7863-6.6768-4.93656.93036.15937.5089-1.7067-0.9298-1.2441-0.09740.33570.79170.0211-0.52641.28961.47720.17830.60610.9001-0.35431.6595145.5717116.68490.7552
265.9268-6.5383-4.297.99796.75969.7367-0.15660.0018-0.87910.535-0.16590.5730.72130.03090.32820.8442-0.32610.22441.0588-0.22381.0261153.2298120.6839-0.6315
274.7279-4.85914.60394.9976-4.73344.5083-0.5711-0.17211.99791.5711-0.7071-0.031-1.6722-1.59311.21161.39680.27020.15311.1692-0.28591.8929136.3207133.9571-9.4771
288.14240.5911-7.53847.96870.74177.4352-0.72671.4185-0.5827-1.04140.1470.55310.5596-0.01740.63811.7009-0.0424-0.1882.048-0.16121.0549173.8058114.9597-94.4532
296.13821.57164.88849.07613.20834.45840.53141.5119-0.2086-0.7535-0.212-0.49080.00890.5726-0.2651.1508-0.03040.17391.50360.04230.9903174.6322115.9619-87.8968
307.52641.98897.18512.13451.99969.319-1.7278-0.56152.0862-3.36010.17424.438-2.2103-2.03131.591.62590.1456-0.32652.30220.53122.0047165.5191131.7887-74.3027
314.29022.5719-5.51126.8646-4.93778.95661.11690.06266.25740.5454-1.01954.4536-1.8451-1.3885-0.21211.29320.00950.1451.2451-0.28692.4452217.2439143.2369-23.9749
323.60883.2566-1.75862.9426-1.59120.86480.7194-0.30574.517-0.68510.0588-1.8718-1.7592-0.1295-0.69211.67650.09330.25751.0695-0.04543.0812239.3559152.2331-25.5232
338.5472-6.82631.03238.643-3.86416.5391-1.1024-0.85390.85730.84370.7196-1.294-1.30580.37280.3381.274-0.14910.06841.3287-0.64611.753245.0683142.8732-23.1909
348.35613.9656-0.50596.302-4.00953.375-0.33930.00991.2132-0.8780.12251.5163-0.82390.91470.162.0149-0.96730.49271.72910.24052.6384253.957146.219-37.6339
354.20956.29634.64769.68735.56778.4978-0.07470.69230.9931-0.8928-0.21930.6782-0.1339-0.24070.33271.30170.1750.04231.71610.19351.5035232.9761136.4558-38.239
362.01157.0256.76935.44375.76216.48541.0569-1.3573-0.76691.8612-1.1645-0.78142.1140.16290.08081.75760.2634-0.07141.61840.27871.4466219.318124.7247-39.1927
376.8307-1.96372.87542.69511.35673.49790.1226-0.7059-2.0482-0.1496-0.40570.51480.3351-1.18130.27741.427-0.6210.42121.3701-0.15971.828234.8062135.5945-31.3713
385.1609-5.06015.6446.1444-4.9246.47520.08971.39190.5282-0.14660.2332-0.29640.22052.2192-0.251.2467-0.10580.48781.31080.02891.699250.6169134.0693-31.0466
393.26722.10113.27711.95212.10173.2758-0.16212.5529-3.41320.10310.8917-1.77832.11560.7934-0.61361.54880.0088-0.02871.5554-0.25031.7255237.5908128.3864-41.0169
404.6301-4.1167-0.86376.82854.73375.14051.2839-3.27835.19011.41250.00440.6702-1.43290.1278-1.42051.6441-0.06770.35761.7561-0.49672.1028219.1845125.3712-45.1021
412.2142.5843-2.30343.6805-3.42443.21570.2036-0.8387-0.9813-1.326-0.0322-0.42171.30771.9863-0.33481.15170.25210.29261.1163-0.00411.3852139.7662122.914-31.1066
426.88736.93186.93387.00497.0057.0043-0.241-0.25331.1699-1.0675-0.80751.5758-1.5394-0.95960.99741.21850.31190.18521.19460.01521.4747138.7203132.677-32.2388
438.26927.41165.92599.91437.55355.8451-0.5473-0.2605-0.20.269-0.73592.0214-0.3411-2.29461.21050.93890.13690.35141.13610.33091.7449126.1989126.0083-27.9571
443.3621-1.00043.33377.26412.59095.1361-0.5886-0.51260.8176-0.6350.01632.4475-2.3949-1.31740.57221.59260.05530.05161.04470.09161.9561130.0626133.317-30.2964
455.03331.22276.97534.39291.25989.7191-0.01130.49920.5773-0.04611.1274-1.8955-0.50510.4101-0.9480.95280.05520.10461.02040.19612.1009133.1094132.2131-39.0955
468.69116.04916.68014.24244.6735.13670.0584-0.66630.34040.52360.37130.80710.49890.2498-0.44891.21-0.04790.19911.1117-0.25131.9869145.0048140.2587-17.2169
479.79966.81436.49334.93495.57259.57640.0649-1.34530.15-0.0831-0.64680.0140.0691-0.42920.63871.40350.25080.21681.09670.03581.2703143.1131129.5552-19.0484
489.43667.6656-6.20818.7066-6.83777.7753-1.1740.5476-1.2725-0.39810.5196-1.11781.1784-0.00750.72021.24180.2310.19851.44630.00151.2421133.6002108.978-24.8291
493.6974-2.4396-1.52623.491-1.37243.6428-1.6143-0.5328-5.5895-0.45210.0144-2.73593.98443.40931.54491.27380.30020.49361.34690.28231.9373125.2241109.689-12.7806
504.85064.8284.35915.07974.91575.11760.3018-6.24771.10242.986-3.2831-3.1149-1.2156-2.5272.77371.5751-0.0191-0.40662.1527-0.14111.5243133.7485119.2224-8.4565
511.9385-2.1930.28946.27354.42298.4195-0.7936-1.5696-0.3850.770.04510.50491.0177-0.44710.66781.2240.22710.46921.2340.24711.5172125.89118.7354-19.306
525.01043.004-5.34574.3202-4.01365.9620.74080.51611.5890.1569-0.2823-3.7036-1.49061.4361-0.30360.94980.05180.20371.30770.03362.2517122.1865120.0534-15.8837
534.04614.348-1.71275.1854-0.60323.68791.2921-0.482-3.31010.1588-0.716-1.98940.64760.125-0.51261.02750.2858-0.14150.88360.24691.3443130.9813117.298-19.3335
547.6929-5.1228-3.10643.50391.22498.6450.5025-0.69591.2298-0.4628-0.4498-0.7078-1.80960.5681-0.05951.5548-0.38820.38821.5862-0.71262.2537239.557166.8455-5.1913
559.46021.44284.3461.3602-2.3771.99930.06-0.464-0.2331.8991-1.3925-2.5884-1.91372.14061.15731.3162-0.582-0.38811.8582-0.81462.5691250.2264161.8499-4.1993
564.2512.12532.1724.2972-2.17394.3857-0.66540.40760.7386-0.3272-1.2289-0.88920.5940.55411.86941.3009-0.28410.23841.721-0.21171.9469245.0115158.6345-13.9259
576.1332-5.62413.21616.673-6.02057.70120.1360.01661.13671.0949-0.3273-0.5224-1.19661.00110.28561.3333-0.432-0.12041.3491-0.53652.2045239.8059164.8426-8.9202
588.5541-0.00642.3415.77825.54135.9597-0.25470.73461.6611-1.13311.6778-1.8477-1.861.8673-1.36061.4738-0.27970.05551.8824-0.70692.8739229.7067172.6365-17.7472
593.97913.0151-0.99033.7021-2.66972.92390.2148-0.67120.92541.29010.16750.0047-0.82410.1164-0.43371.4847-0.19370.25842.072-0.72021.7629225.8609147.5466-6.753
607.7363-3.97012.19984.3479-3.58378.12540.11520.413-0.7687-1.40380.3571-0.99640.8593-0.5762-0.38631.3753-0.05940.07882.266-0.72121.8731222.1641124.3493-7.1592
614.92563.6125.76158.54926.24319.8541-1.07910.2326-0.10440.43041.10890.6829-1.23440.33150.08221.47050.058-0.04042.2353-0.62152.1677221.8909162.600126.7708
624.1606-0.9702-3.15981.73662.91898.08931.26020.67011.7142-1.24233.325-5.4394-2.44073.1059-4.57181.4764-0.24590.63991.6442-1.08112.8423227.9872166.322922.6039
634.30475.32733.75526.5794.64873.31470.2814-1.90621.20721.5187-0.18581.5819-0.3992-0.7843-0.16721.8670.00341.02042.2114-0.10091.7458225.0297142.467817.0377
643.35441.8423-1.72214.0463-3.81623.5975-0.69671.1756-1.0446-3.27462.1395-3.1405-0.4632-0.6311-1.45661.52890.1220.26971.8143-0.67861.5573218.0111135.609912.8031
652.37010.52470.92637.72391.20167.0307-0.0908-0.43511.23771.0412-0.42170.0847-1.65820.50790.6852.2827-1.0923-0.69082.2877-1.29582.8474230.82169.715730.5913
661.6731-3.6536-1.29028.56141.82452.6508-0.1032-1.43692.18931.89480.08281.0825-1.5712-1.0284-0.06352.69211.2990.63821.9798-0.87262.9905222.9638171.787538.8043
676.65634.97665.48913.724.10024.51821.2051-4.8662.9493.0921-2.42144.0811-2.5427-4.85991.15752.0460.15990.3082.9185-0.88292.2865215.677160.585335.1487
683.7818-3.1021-3.70218.37793.6613.6928-0.93242.3281-1.64811.0470.9802-0.7951-0.49312.79740.03892.14770.6175-0.6812.681-0.89612.0772227.7008156.758832.9467
695.3639-4.30665.0963.5374-4.11464.8672-0.22421.6071-0.861-0.63050.0511-0.5384-0.2323-1.25130.0621.3663-0.11320.43381.5409-0.17121.5492212.9611118.828-70.0039
706.0816-1.8242.97513.9307-5.91228.95780.3719-0.72640.13560.21340.48240.2156-1.02751.2066-0.81581.3789-0.04840.30941.4042-0.31341.162217.1597115.1846-63.3556
718.23543.8722-5.56066.4807-3.1453.86310.28540.29610.3403-0.28290.137-2.14260.54592.3753-0.310.99160.12540.06541.49220.11421.9051221.2224122.0984-65.2591
729.11935.36423.97378.48643.76558.1068-0.7062-0.88741.77750.0146-0.44730.9832-0.281-0.62761.15791.04210.1198-0.09271.186-0.26211.3659211.3638126.1561-65.4045
733.83993.9888-3.7394.2347-3.95113.688-0.39470.1384-1.2340.4965-0.997-2.5107-0.58750.66281.39831.0957-0.1982-0.12961.32750.21361.4392210.9501130.0974-70.5598
747.86364.4102-2.83594.8359-4.27934.12520.84510.5684-0.85180.1565-0.849-1.2869-0.17610.1817-0.02441.44860.06250.11081.2104-0.10021.9794193.4656110.7197-58.2366
758.8844-8.5397.48278.2552-7.11746.16050.56460.6135-0.0587-0.4942-0.1022-0.04850.34220.0841-0.56630.987-0.0322-0.07581.2632-0.08341.1832153.245489.0193-14.4609
765.8531.2549-5.96284.44510.40747.703-0.0752-0.0161-0.0230.0971-0.1068-0.54660.27030.73250.16841.15920.2779-0.17031.25340.0431.3644174.496278.94769.4708
775.5497-5.75424.73396.1171-5.21644.6925-0.5491-0.6452-2.2001-1.91290.14393.32911.1693-1.550.30771.2965-0.1211-0.22111.6292-0.37052.5103273.5145115.2711-8.8403
784.0984-2.83282.27673.6163-3.70735.551-0.7803-0.69130.56311.20030.77690.8489-0.3130.0095-0.11291.05881.0262-0.37541.5401-0.31521.5615267.9992119.5588-5.6534
792.96183.9233-5.04047.8867-6.44548.5562-0.6111-0.143-0.46190.9988-0.7049-2.2248-0.80080.1671.30830.9494-0.0823-0.24781.5141-0.17761.9934275.3662121.18-1.4393
808.69748.8077-4.84339.1163-4.44748.36350.4698-0.6827-1.59231.5898-0.0307-2.403-0.60321.4681-0.36561.11490.0115-0.28131.8782-0.44671.3659264.4286103.97648.8713
815.0931-3.20415.7842.5091-2.43959.415-0.1877-1.0934-1.09330.3578-0.15820.4689-0.0984-0.8760.15211.2329-0.09390.13252.4248-0.22781.8099248.714898.551313.6465
824.58321.82682.92199.71044.7023.238-1.3675-0.0775-1.0842-0.06210.46161.1430.05290.69820.88771.0685-0.15780.24181.97640.0121.6212239.8866103.23562.2573
836.52996.0555-7.52185.63-7.01138.72610.5238-4.44542.41773.3234-0.63410.1915-1.6516-1.16960.15212.08390.5892-0.23471.8638-0.47571.1578219.4632117.573833.8655
845.0132-2.5737-2.90753.6571-0.59053.95140.91363.5711-2.7541-2.3249-2.53517.8199-1.3676-3.63511.55512.01950.2465-0.71942.3577-0.75023.365231.8999119.023537.629
855.21241.02875.21990.24611.04165.2277-0.59141.65931.04760.3532-0.09960.50590.1766-0.21890.75021.3556-0.35580.22412.3125-0.32311.5632227.6992121.623429.9715
865.0056-3.4467-4.39912.58873.01483.86472.3564-0.72020.19220.4376-1.21640.87913.3427-1.0074-1.1861.4417-0.1164-0.3761.9351-0.28821.719214.87125.103726.3422
877.75934.06331.26634.2432-2.2974.6673-0.4544-1.19761.2601-0.2349-0.49470.30790.4257-0.33580.89171.2685-0.07850.12911.7294-0.80461.6275216.3559134.703719.7673
884.2955.462-3.68929.4671-0.79379.2057-0.89823.36460.0832-2.07981.0539-0.2937-0.9625-0.2135-0.19591.87360.4210.0541.929-0.06471.1256141.1877111.2512-75.0237
894.4116-4.5204-3.46074.57173.50252.76570.94821.39260.1875-1.06170.14880.3419-0.04940.4701-1.12691.34350.1822-0.11291.52370.10241.1643144.6538104.599-67.533
905.8863-5.721-6.32077.58195.23429.02160.2794-4.3583-1.47750.53550.89940.0270.3111.4231-1.05551.29090.0735-0.20011.50720.24161.0693143.3551102.0723-57.1462
917.65944.1795-4.46556.34761.5516.5159-0.68531.2619-2.61880.4310.14540.09792.3899-2.24920.31551.3569-0.2194-0.35471.3895-0.02561.9719130.62398.0369-64.5989
925.71451.93084.7331.92741.42573.99910.1844-0.30870.08820.9735-0.13660.09770.150.00190.03191.8556-0.01950.66921.1684-0.20291.7177118.101376.810815.015
937.70222.54824.6265.36983.7933.96340.01450.22071.5512-0.0049-0.1610.2094-0.59730.29910.01261.2435-0.06250.34171.0265-0.06461.918115.532377.303210.4865
946.44135.32296.10634.79435.92667.7145-0.71590.65673.3002-0.32730.22030.7829-4.16771.0320.50171.8163-0.00630.86590.94360.25632.2045110.214186.651120.6663
955.89076.60714.87097.62025.48734.0309-0.97050.18011.149-1.5962-0.20431.9825-3.0533-1.21381.03781.62640.42430.17551.32010.81082.407101.201879.47435.7762
967.9626-3.8347-0.26336.51513.49992.4506-0.3763-1.1166-2.79631.873-0.55981.780.7097-0.57960.97461.7403-0.18880.63171.14520.21792.1245101.688975.037916.6185
975.5534.7186-1.27214.1419-1.47371.7128-0.01260.51940.1839-0.52650.5390.098-0.0889-0.4386-0.57340.99180.01030.01631.1410.13991.4787119.814280.9443-38.7441
981.0956-1.23020.81042.28990.25753.48750.23140.1239-0.37320.12790.02020.99220.3033-0.1777-0.20380.9097-0.10860.13521.18160.15791.4018121.826184.8356-35.9567
992.96191.62463.86158.3341-2.69828.11790.51741.92860.2223-0.4926-0.5296-0.047-0.46081.08110.05571.8027-0.3609-0.02871.9085-0.0611.3491137.974785.9406-45.1029
1007.93876.53336.81736.01165.90746.0004-1.3605-1.97837.91060.22461.0155-0.4145-4.12030.67790.49422.1286-0.0980.30711.0617-0.35652.2921180.1606140.3925-64.4537
1013.80313.33553.40213.6343.52713.733-2.6737-1.77648.08480.43690.18830.9856-5.4007-1.33792.48173.19110.41690.8391.4321-0.06763.09174.8538141.9644-72.227
1027.4276-6.5909-6.08389.68142.36449.4766-0.17250.1081-0.3347-0.3605-0.8551-1.52260.01470.70980.96921.36930.18960.13522.31580.29681.6797172.4109129.4318-77.4732
1035.04144.43954.83473.97724.27174.77160.55811.65012.1354-2.4376-0.636-2.7504-2.85130.28630.00721.11840.26140.47991.02780.40961.7156181.3947133.4295-75.27
1046.0057-0.8596-4.79719.65634.33466.670.6136-0.92982.44821.13221.047-4.2939-1.35854.5308-1.59620.8328-0.0576-0.18162.1585-0.51191.4242186.4405128.8039-66.8652
1054.7603-4.363-5.10834.00534.38778.43631.4463-1.37750.9101-0.09440.4299-0.1776-0.5766-1.0715-1.71461.0761-0.03350.21341.49670.19141.0849175.7723127.3644-67.8448
1068.41310.81630.3093.9751-2.64071.908-0.2618-0.2188-0.33370.4258-0.2952-0.6868-0.05280.22620.5441.61350.30060.00081.4994-0.05381.388193.0063126.1779-71.514
1077.50514.398-4.44198.6768-6.04165.5414-1.20733.41770.0336-1.92050.46591.82342.6079-3.92190.59891.4938-0.1968-0.31462.9653-0.86341.9065251.7248112.570728.1229
1087.3206-6.73845.89986.2867-5.57995.0203-3.5369-4.781.44495.99322.2002-0.1684-2.2959-0.13741.20722.19390.2384-0.15892.6022-0.43981.3266250.718299.423842.3459
1098.26-7.31317.95859.4428-7.36729.5496-0.66730.2342-0.75870.9730.1259-0.6281-0.335-1.69270.48131.1113-0.2238-0.45642.4814-0.21311.8378246.190392.885737.0086
1106.33376.66786.31447.02246.66786.3687-0.5025-6.06162.08080.78-1.12390.352-2.1143-1.32021.58551.5953-0.3552-0.13982.9825-0.15241.6651246.4163104.537628.9819
1119.56143.07875.58269.6535-0.25013.7546-0.5274-0.5617-0.3037-0.00940.6592-0.2419-0.73130.4185-0.14971.40240.06770.03521.7017-0.09081.3883249.398895.768229.0263
1129.22064.17126.30559.3448-0.55838.7284-0.90422.6121-1.8129-0.93430.6572-1.61910.18072.3410.08981.29880.09380.29732.3536-0.19531.5404241.042696.564817.9248
1133.0535-2.28875.11811.9595-2.9539.60340.2833-0.0882-0.6860.05120.4420.511-0.2096-0.2948-0.81371.2913-0.09870.35110.78790.18531.6196107.9641.9789-20.3302
1142.32883.3178-3.84764.9777-5.62656.43951.66930.73371.0041.12331.0792.76580.86430.7081-2.66581.3305-0.1673-0.18461.79940.27891.4257105.653551.9892-14.9784
1158.53728.03776.72468.27066.76695.5617-0.55611.55661.1436-0.4471-0.3981-0.0684-2.40552.73490.73521.1224-0.27880.27521.44750.68952.2168103.138352.443-31.8181
1164.9609-3.42852.54144.20420.26713.52810.4516-0.1592-0.4991-1.2497-3.36472.5723-0.0211-2.52112.62211.3607-0.1156-0.00581.827-0.1571.542692.510648.1313-39.8953
1174.6608-5.9667-1.46567.87292.4672.3975-0.0919-0.8853-0.38322.2260.26052.788-0.97030.3431-0.12961.285-0.01460.11651.5035-0.81442.5278250.9926124.20112.1932
Refinement TLS group
IDRefine-IDRefine TLS-IDSelection detailsAuth asym-IDAuth seq-ID
1X-RAY DIFFRACTION1chain 'A' and (resseq 5:920)A5 - 920
2X-RAY DIFFRACTION2chain 'A' and (resseq 921:1400)A921 - 1400
3X-RAY DIFFRACTION3chain 'A' and (resseq 1401:1532)A1401 - 1532
4X-RAY DIFFRACTION4chain 'A' and (resseq 1533:1541)A1533 - 1541
5X-RAY DIFFRACTION5chain 'B' and (resseq 7:25)B7 - 25
6X-RAY DIFFRACTION6chain 'B' and (resseq 26:64)B26 - 64
7X-RAY DIFFRACTION7chain 'B' and (resseq 65:86)B65 - 86
8X-RAY DIFFRACTION8chain 'B' and (resseq 87:122)B87 - 122
9X-RAY DIFFRACTION9chain 'B' and (resseq 123:148)B123 - 148
10X-RAY DIFFRACTION10chain 'B' and (resseq 149:226)B149 - 226
11X-RAY DIFFRACTION11chain 'B' and (resseq 227:240)B227 - 240
12X-RAY DIFFRACTION12chain 'C' and (resseq 2:112)C2 - 112
13X-RAY DIFFRACTION13chain 'C' and (resseq 113:207)C113 - 207
14X-RAY DIFFRACTION14chain 'D' and (resseq 2:34)D2 - 34
15X-RAY DIFFRACTION15chain 'D' and (resseq 35:67)D35 - 67
16X-RAY DIFFRACTION16chain 'D' and (resseq 68:148)D68 - 148
17X-RAY DIFFRACTION17chain 'D' and (resseq 149:181)D149 - 181
18X-RAY DIFFRACTION18chain 'D' and (resseq 182:209)D182 - 209
19X-RAY DIFFRACTION19chain 'E' and (resseq 5:14)E5 - 14
20X-RAY DIFFRACTION20chain 'E' and (resseq 15:27)E15 - 27
21X-RAY DIFFRACTION21chain 'E' and (resseq 28:50)E28 - 50
22X-RAY DIFFRACTION22chain 'E' and (resseq 51:63)E51 - 63
23X-RAY DIFFRACTION23chain 'E' and (resseq 64:79)E64 - 79
24X-RAY DIFFRACTION24chain 'E' and (resseq 80:86)E80 - 86
25X-RAY DIFFRACTION25chain 'E' and (resseq 87:103)E87 - 103
26X-RAY DIFFRACTION26chain 'E' and (resseq 104:140)E104 - 140
27X-RAY DIFFRACTION27chain 'E' and (resseq 141:154)E141 - 154
28X-RAY DIFFRACTION28chain 'F' and (resseq 1:32)F1 - 32
29X-RAY DIFFRACTION29chain 'F' and (resseq 33:92)F33 - 92
30X-RAY DIFFRACTION30chain 'F' and (resseq 93:101)F93 - 101
31X-RAY DIFFRACTION31chain 'G' and (resseq 2:11)G2 - 11
32X-RAY DIFFRACTION32chain 'G' and (resseq 12:20)G12 - 20
33X-RAY DIFFRACTION33chain 'G' and (resseq 21:52)G21 - 52
34X-RAY DIFFRACTION34chain 'G' and (resseq 53:57)G53 - 57
35X-RAY DIFFRACTION35chain 'G' and (resseq 58:79)G58 - 79
36X-RAY DIFFRACTION36chain 'G' and (resseq 80:92)G80 - 92
37X-RAY DIFFRACTION37chain 'G' and (resseq 93:109)G93 - 109
38X-RAY DIFFRACTION38chain 'G' and (resseq 110:129)G110 - 129
39X-RAY DIFFRACTION39chain 'G' and (resseq 130:144)G130 - 144
40X-RAY DIFFRACTION40chain 'G' and (resseq 145:156)G145 - 156
41X-RAY DIFFRACTION41chain 'H' and (resseq 1:18)H1 - 18
42X-RAY DIFFRACTION42chain 'H' and (resseq 19:29)H19 - 29
43X-RAY DIFFRACTION43chain 'H' and (resseq 30:41)H30 - 41
44X-RAY DIFFRACTION44chain 'H' and (resseq 42:53)H42 - 53
45X-RAY DIFFRACTION45chain 'H' and (resseq 54:62)H54 - 62
46X-RAY DIFFRACTION46chain 'H' and (resseq 63:72)H63 - 72
47X-RAY DIFFRACTION47chain 'H' and (resseq 73:85)H73 - 85
48X-RAY DIFFRACTION48chain 'H' and (resseq 86:95)H86 - 95
49X-RAY DIFFRACTION49chain 'H' and (resseq 96:100)H96 - 100
50X-RAY DIFFRACTION50chain 'H' and (resseq 101:106)H101 - 106
51X-RAY DIFFRACTION51chain 'H' and (resseq 107:116)H107 - 116
52X-RAY DIFFRACTION52chain 'H' and (resseq 117:127)H117 - 127
53X-RAY DIFFRACTION53chain 'H' and (resseq 128:138)H128 - 138
54X-RAY DIFFRACTION54chain 'I' and (resseq 2:25)I2 - 25
55X-RAY DIFFRACTION55chain 'I' and (resseq 26:32)I26 - 32
56X-RAY DIFFRACTION56chain 'I' and (resseq 33:53)I33 - 53
57X-RAY DIFFRACTION57chain 'I' and (resseq 54:88)I54 - 88
58X-RAY DIFFRACTION58chain 'I' and (resseq 89:97)I89 - 97
59X-RAY DIFFRACTION59chain 'I' and (resseq 98:117)I98 - 117
60X-RAY DIFFRACTION60chain 'I' and (resseq 118:128)I118 - 128
61X-RAY DIFFRACTION61chain 'J' and (resseq 3:29)J3 - 29
62X-RAY DIFFRACTION62chain 'J' and (resseq 30:42)J30 - 42
63X-RAY DIFFRACTION63chain 'J' and (resseq 43:47)J43 - 47
64X-RAY DIFFRACTION64chain 'J' and (resseq 48:70)J48 - 70
65X-RAY DIFFRACTION65chain 'J' and (resseq 71:78)J71 - 78
66X-RAY DIFFRACTION66chain 'J' and (resseq 79:85)J79 - 85
67X-RAY DIFFRACTION67chain 'J' and (resseq 86:93)J86 - 93
68X-RAY DIFFRACTION68chain 'J' and (resseq 94:100)J94 - 100
69X-RAY DIFFRACTION69chain 'K' and (resseq 11:34)K11 - 34
70X-RAY DIFFRACTION70chain 'K' and (resseq 35:57)K35 - 57
71X-RAY DIFFRACTION71chain 'K' and (resseq 58:75)K58 - 75
72X-RAY DIFFRACTION72chain 'K' and (resseq 76:100)K76 - 100
73X-RAY DIFFRACTION73chain 'K' and (resseq 101:110)K101 - 110
74X-RAY DIFFRACTION74chain 'K' and (resseq 111:126)K111 - 126
75X-RAY DIFFRACTION75chain 'L' and (resseq 5:32)L5 - 32
76X-RAY DIFFRACTION76chain 'L' and (resseq 33:128)L33 - 128
77X-RAY DIFFRACTION77chain 'M' and (resseq 2:14)M2 - 14
78X-RAY DIFFRACTION78chain 'M' and (resseq 15:21)M15 - 21
79X-RAY DIFFRACTION79chain 'M' and (resseq 22:61)M22 - 61
80X-RAY DIFFRACTION80chain 'M' and (resseq 62:83)M62 - 83
81X-RAY DIFFRACTION81chain 'M' and (resseq 84:93)M84 - 93
82X-RAY DIFFRACTION82chain 'M' and (resseq 94:119)M94 - 119
83X-RAY DIFFRACTION83chain 'N' and (resseq 2:11)N2 - 11
84X-RAY DIFFRACTION84chain 'N' and (resseq 12:16)N12 - 16
85X-RAY DIFFRACTION85chain 'N' and (resseq 17:24)N17 - 24
86X-RAY DIFFRACTION86chain 'N' and (resseq 25:29)N25 - 29
87X-RAY DIFFRACTION87chain 'N' and (resseq 30:61)N30 - 61
88X-RAY DIFFRACTION88chain 'O' and (resseq 2:15)O2 - 15
89X-RAY DIFFRACTION89chain 'O' and (resseq 16:49)O16 - 49
90X-RAY DIFFRACTION90chain 'O' and (resseq 50:73)O50 - 73
91X-RAY DIFFRACTION91chain 'O' and (resseq 74:88)O74 - 88
92X-RAY DIFFRACTION92chain 'P' and (resseq 1:19)P1 - 19
93X-RAY DIFFRACTION93chain 'P' and (resseq 20:43)P20 - 43
94X-RAY DIFFRACTION94chain 'P' and (resseq 44:52)P44 - 52
95X-RAY DIFFRACTION95chain 'P' and (resseq 53:62)P53 - 62
96X-RAY DIFFRACTION96chain 'P' and (resseq 63:83)P63 - 83
97X-RAY DIFFRACTION97chain 'Q' and (resseq 2:17)Q2 - 17
98X-RAY DIFFRACTION98chain 'Q' and (resseq 18:82)Q18 - 82
99X-RAY DIFFRACTION99chain 'Q' and (resseq 83:100)Q83 - 100
100X-RAY DIFFRACTION100chain 'R' and (resseq 19:23)R19 - 23
101X-RAY DIFFRACTION101chain 'R' and (resseq 24:28)R24 - 28
102X-RAY DIFFRACTION102chain 'R' and (resseq 29:36)R29 - 36
103X-RAY DIFFRACTION103chain 'R' and (resseq 37:43)R37 - 43
104X-RAY DIFFRACTION104chain 'R' and (resseq 44:52)R44 - 52
105X-RAY DIFFRACTION105chain 'R' and (resseq 53:76)R53 - 76
106X-RAY DIFFRACTION106chain 'R' and (resseq 77:88)R77 - 88
107X-RAY DIFFRACTION107chain 'S' and (resseq 2:12)S2 - 12
108X-RAY DIFFRACTION108chain 'S' and (resseq 13:25)S13 - 25
109X-RAY DIFFRACTION109chain 'S' and (resseq 26:35)S26 - 35
110X-RAY DIFFRACTION110chain 'S' and (resseq 36:40)S36 - 40
111X-RAY DIFFRACTION111chain 'S' and (resseq 41:70)S41 - 70
112X-RAY DIFFRACTION112chain 'S' and (resseq 71:81)S71 - 81
113X-RAY DIFFRACTION113chain 'T' and (resseq 8:66)T8 - 66
114X-RAY DIFFRACTION114chain 'T' and (resseq 67:75)T67 - 75
115X-RAY DIFFRACTION115chain 'T' and (resseq 76:91)T76 - 91
116X-RAY DIFFRACTION116chain 'T' and (resseq 92:106)T92 - 106
117X-RAY DIFFRACTION117chain 'U' and (resseq 2:8)U2 - 8

+
About Yorodumi

-
News

-
Feb 9, 2022. New format data for meta-information of EMDB entries

New format data for meta-information of EMDB entries

  • Version 3 of the EMDB header file is now the official format.
  • The previous official version 1.9 will be removed from the archive.

Related info.:EMDB header

External links:wwPDB to switch to version 3 of the EMDB data model

-
Aug 12, 2020. Covid-19 info

Covid-19 info

URL: https://pdbj.org/emnavi/covid19.php

New page: Covid-19 featured information page in EM Navigator.

Related info.:Covid-19 info / Mar 5, 2020. Novel coronavirus structure data

+
Mar 5, 2020. Novel coronavirus structure data

Novel coronavirus structure data

Related info.:Yorodumi Speices / Aug 12, 2020. Covid-19 info

External links:COVID-19 featured content - PDBj / Molecule of the Month (242)：Coronavirus Proteases

+
Jan 31, 2019. EMDB accession codes are about to change! (news from PDBe EMDB page)

EMDB accession codes are about to change! (news from PDBe EMDB page)

  • The allocation of 4 digits for EMDB accession codes will soon come to an end. Whilst these codes will remain in use, new EMDB accession codes will include an additional digit and will expand incrementally as the available range of codes is exhausted. The current 4-digit format prefixed with “EMD-” (i.e. EMD-XXXX) will advance to a 5-digit format (i.e. EMD-XXXXX), and so on. It is currently estimated that the 4-digit codes will be depleted around Spring 2019, at which point the 5-digit format will come into force.
  • The EM Navigator/Yorodumi systems omit the EMD- prefix.

Related info.:Q: What is EMD? / ID/Accession-code notation in Yorodumi/EM Navigator

External links:EMDB Accession Codes are Changing Soon! / Contact to PDBj

+
Jul 12, 2017. Major update of PDB

Major update of PDB

  • wwPDB released updated PDB data conforming to the new PDBx/mmCIF dictionary.
  • This is a major update changing the version number from 4 to 5, and with Remediation, in which all the entries are updated.
  • In this update, many items about electron microscopy experimental information are reorganized (e.g. em_software).
  • Now, EM Navigator and Yorodumi are based on the updated data.

External links:wwPDB Remediation / Enriched Model Files Conforming to OneDep Data Standards Now Available in the PDB FTP Archive

-
Yorodumi

Thousand views of thousand structures

  • Yorodumi is a browser for structure data from EMDB, PDB, SASBDB, etc.
  • This page is also the successor to EM Navigator detail page, and also detail information page/front-end page for Omokage search.
  • The word "yorodu" (or yorozu) is an old Japanese word meaning "ten thousand". "mi" (miru) is to see.

Related info.:EMDB / PDB / SASBDB / Comparison of 3 databanks / Yorodumi Search / Aug 31, 2016. New EM Navigator & Yorodumi / Yorodumi Papers / Jmol/JSmol / Function and homology information / Changes in new EM Navigator and Yorodumi

Read more