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- PDB-5vzj: STRUCTURE OF A TWELVE COMPONENT MPP6-NUCLEAR RNA EXOSOME COMPLEX ... -

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Basic information

Entry
Database: PDB / ID: 5vzj
TitleSTRUCTURE OF A TWELVE COMPONENT MPP6-NUCLEAR RNA EXOSOME COMPLEX BOUND TO RNA
Components
  • (Exosome complex component ...) x 9
  • (Exosome complex exonuclease ...) x 2
  • M-phase phosphoprotein 6 homolog
  • RNA (11-MER)
  • RNA (19-MER)
KeywordsHYDROLASE/RNA / EXORIBONUCLEASE / COMPLEX / RNA / STRUCTURAL PROTEIN / HYDROLASE-RNA COMPLEX
Function / homology
Function and homology information


nuclear mRNA surveillance of spliceosomal pre-mRNA splicing / mRNA decay by 3' to 5' exoribonuclease / Butyrate Response Factor 1 (BRF1) binds and destabilizes mRNA / Tristetraprolin (TTP, ZFP36) binds and destabilizes mRNA / nuclear mRNA surveillance of mRNA 3'-end processing / regulatory ncRNA 3'-end processing / nuclear polyadenylation-dependent antisense transcript catabolic process / nuclear polyadenylation-dependent snoRNA catabolic process / nuclear polyadenylation-dependent snRNA catabolic process / CUT catabolic process ...nuclear mRNA surveillance of spliceosomal pre-mRNA splicing / mRNA decay by 3' to 5' exoribonuclease / Butyrate Response Factor 1 (BRF1) binds and destabilizes mRNA / Tristetraprolin (TTP, ZFP36) binds and destabilizes mRNA / nuclear mRNA surveillance of mRNA 3'-end processing / regulatory ncRNA 3'-end processing / nuclear polyadenylation-dependent antisense transcript catabolic process / nuclear polyadenylation-dependent snoRNA catabolic process / nuclear polyadenylation-dependent snRNA catabolic process / CUT catabolic process / U1 snRNA 3'-end processing / nuclear polyadenylation-dependent mRNA catabolic process / nuclear polyadenylation-dependent CUT catabolic process / U5 snRNA 3'-end processing / TRAMP-dependent tRNA surveillance pathway / exosome (RNase complex) / cytoplasmic exosome (RNase complex) / nuclear-transcribed mRNA catabolic process, non-stop decay / U4 snRNA 3'-end processing / nuclear polyadenylation-dependent rRNA catabolic process / poly(A)-dependent snoRNA 3'-end processing / nuclear-transcribed mRNA catabolic process, 3'-5' exonucleolytic nonsense-mediated decay / nuclear exosome (RNase complex) / exonucleolytic trimming to generate mature 3'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / histone mRNA catabolic process / nuclear mRNA surveillance / rRNA catabolic process / post-transcriptional tethering of RNA polymerase II gene DNA at nuclear periphery / mRNA 3'-UTR AU-rich region binding / rRNA primary transcript binding / Hydrolases; Acting on ester bonds; Endoribonucleases producing 5'-phosphomonoesters / RNA catabolic process / regulation of telomere maintenance / poly(U) RNA binding / nonfunctional rRNA decay / rRNA metabolic process / Major pathway of rRNA processing in the nucleolus and cytosol / mRNA catabolic process / nuclear-transcribed mRNA catabolic process / RNA processing / RNA endonuclease activity / mRNA processing / manganese ion binding / endonuclease activity / Hydrolases; Acting on ester bonds; Exoribonucleases producing 5'-phosphomonoesters / 3'-5'-RNA exonuclease activity / tRNA binding / single-stranded RNA binding / nucleotide binding / protein-containing complex binding / nucleolus / mitochondrion / RNA binding / nucleoplasm / nucleus / cytoplasm / cytosol
Similarity search - Function
OB fold (Dihydrolipoamide Acetyltransferase, E2P) - #700 / M-phase phosphoprotein 6 / : / Exosome complex component CSL4, N-terminal domain / Exosome complex exonuclease Rrp40, N-terminal / Exosome complex exonuclease Rrp40 N-terminal domain / Exosome complex exonuclease RRP44, S1 domain / S1 domain / PIN domain / HRDC domain ...OB fold (Dihydrolipoamide Acetyltransferase, E2P) - #700 / M-phase phosphoprotein 6 / : / Exosome complex component CSL4, N-terminal domain / Exosome complex exonuclease Rrp40, N-terminal / Exosome complex exonuclease Rrp40 N-terminal domain / Exosome complex exonuclease RRP44, S1 domain / S1 domain / PIN domain / HRDC domain / Exosome complex component RRP45 / Rrp40, S1 domain / : / Exosome complex component RRP40, S1 domain / Exosome complex component CSL4, C-terminal / Exosome complex component, N-terminal domain / Exosome complex component Csl4 / Exosome component EXOSC1/CSL4 / Exosome complex exonuclease RRP4 N-terminal region / RRP4, S1 domain / Rrp44-like cold shock domain / Rrp44-like cold shock domain / : / KH domain / Exosome complex RNA-binding protein 1/RRP40/RRP4 / Dis3-like cold-shock domain 2 / Dis3-like cold-shock domain 2 (CSD2) / Exosome-associated factor Rrp6, N-terminal / Exosome complex exonuclease Rrp6-like / : / PMC2NT (NUC016) domain / GHMP Kinase, N-terminal domain / : / Ribonuclease II/R, conserved site / Ribonuclease II family signature. / : / Ribonuclease II/R / RNB domain / RNB / : / K Homology domain, type 1 / Helicase and RNase D C-terminal / HRDC domain / HRDC domain / HRDC domain profile. / Exoribonuclease, phosphorolytic domain 2 / 3' exoribonuclease family, domain 2 / Exoribonuclease, phosphorolytic domain 1 / PNPase/RNase PH domain superfamily / Exoribonuclease, PH domain 2 superfamily / 3' exoribonuclease family, domain 1 / HRDC domain superfamily / Large family of predicted nucleotide-binding domains / 3'-5' exonuclease / PIN domain / K Homology domain, type 1 / 3'-5' exonuclease / 3'-5' exonuclease domain / Ribosomal Protein S8; Chain: A, domain 1 / RNA polymerase II/Efflux pump adaptor protein, barrel-sandwich hybrid domain / K Homology domain, type 1 superfamily / PIN-like domain superfamily / Ribosomal Protein S5; domain 2 / S1 domain profile. / HRDC-like superfamily / Nucleic acid-binding proteins / Ribosomal protein S1-like RNA-binding domain / S1 domain / Ribonuclease H-like superfamily/Ribonuclease H / DNA polymerase; domain 1 / OB fold (Dihydrolipoamide Acetyltransferase, E2P) / Nucleotidyltransferase; domain 5 / Ribonuclease H superfamily / Ribonuclease H-like superfamily / Ribosomal protein S5 domain 2-type fold / Nucleic acid-binding, OB-fold / Beta Barrel / 2-Layer Sandwich / Orthogonal Bundle / Mainly Beta / Mainly Alpha / Alpha Beta
Similarity search - Domain/homology
RNA / RNA (> 10) / Exosome complex component RRP43 / Exosome complex component RRP4 / Exosome complex component SKI6 / Exosome complex component MTR3 / Exosome complex component RRP46 / M-phase phosphoprotein 6 homolog / Exosome complex component CSL4 / Exosome complex component RRP45 ...RNA / RNA (> 10) / Exosome complex component RRP43 / Exosome complex component RRP4 / Exosome complex component SKI6 / Exosome complex component MTR3 / Exosome complex component RRP46 / M-phase phosphoprotein 6 homolog / Exosome complex component CSL4 / Exosome complex component RRP45 / Exosome complex exonuclease DIS3 / Exosome complex component RRP40 / Exosome complex exonuclease RRP6 / Exosome complex component RRP42
Similarity search - Component
Biological speciesSaccharomyces cerevisiae (brewer's yeast)
Homo sapiens (human)
MethodX-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / molecular replacement / Resolution: 3.3 Å
AuthorsLima, C.D. / Wasmuth, E.V.
Funding support United States, 5items
OrganizationGrant numberCountry
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)R01GM079196 United States
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)R35GM118080 United States
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)F31GM097910 United States
Howard Hughes Medical Institute (HHMI) United States
National Institutes of Health/National Cancer Institute (NIH/NCI)P30CA008748 United States
CitationJournal: Elife / Year: 2017
Title: Structure and reconstitution of yeast Mpp6-nuclear exosome complexes reveals that Mpp6 stimulates RNA decay and recruits the Mtr4 helicase.
Authors: Wasmuth, E.V. / Zinder, J.C. / Zattas, D. / Das, M. / Lima, C.D.
History
DepositionMay 28, 2017Deposition site: RCSB / Processing site: RCSB
Revision 1.0Aug 2, 2017Provider: repository / Type: Initial release
Revision 1.1Aug 9, 2017Group: Database references / Category: citation
Item: _citation.journal_volume / _citation.pdbx_database_id_PubMed / _citation.title
Revision 1.2Nov 20, 2019Group: Author supporting evidence / Category: pdbx_audit_support / Item: _pdbx_audit_support.funding_organization
Revision 1.3Oct 4, 2023Group: Data collection / Database references / Refinement description
Category: chem_comp_atom / chem_comp_bond ...chem_comp_atom / chem_comp_bond / database_2 / pdbx_initial_refinement_model
Item: _database_2.pdbx_DOI / _database_2.pdbx_database_accession

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Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

Downloads & links

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Assembly

Deposited unit
A: Exosome complex component RRP45
B: Exosome complex component SKI6
C: Exosome complex component RRP43
D: Exosome complex component RRP46
E: Exosome complex component RRP42
F: Exosome complex component MTR3
G: Exosome complex component RRP40
H: Exosome complex component RRP4
I: Exosome complex component CSL4
J: Exosome complex exonuclease RRP6
K: Exosome complex exonuclease DIS3
L: M-phase phosphoprotein 6 homolog
M: RNA (11-MER)
N: RNA (19-MER)
hetero molecules


Theoretical massNumber of molelcules
Total (without water)479,98322
Polymers479,25314
Non-polymers7308
Water1,15364
1


  • Idetical with deposited unit
  • defined by author
  • Evidence: gel filtration, ASYMMETRIC UNIT IS THE BIOLOGICAL ASSEMBLY ACCORDING TO GEL FILTRATION CHROMATOGRAPHY AND ACTIVITY ASSAYS
TypeNameSymmetry operationNumber
identity operation1_555x,y,z1
Unit cell
Length a, b, c (Å)141.090, 213.592, 225.909
Angle α, β, γ (deg.)90.000, 90.000, 90.000
Int Tables number19
Space group name H-MP212121

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Components

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Exosome complex component ... , 9 types, 9 molecules ABCDEFGHI

#1: Protein Exosome complex component RRP45 / Ribosomal RNA-processing protein 45


Mass: 34001.859 Da / Num. of mol.: 1
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / Gene: RRP45, YDR280W, D9954.1 / Plasmid: PRSFDUET / Production host: ESCHERICHIA COLI (E. coli) / Strain (production host): BL21 (DE3) RIL / References: UniProt: Q05636
#2: Protein Exosome complex component SKI6 / Extracellular mutant protein 20 / Ribosomal RNA-processing protein 41 / Superkiller protein 6


Mass: 28007.129 Da / Num. of mol.: 1
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / Gene: SKI6, ECM20, RRP41, YGR195W, G7587 / Plasmid: PRSFDUET / Production host: ESCHERICHIA COLI (E. coli) / Strain (production host): BL21 (DE3) RIL / References: UniProt: P46948
#3: Protein Exosome complex component RRP43 / Ribosomal RNA-processing protein 43


Mass: 44060.934 Da / Num. of mol.: 1
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / Gene: RRP43, YCR035C, YCR35C, YCR522 / Plasmid: PRSFDUET / Production host: ESCHERICHIA COLI (E. coli) / Strain (production host): BL21 (DE3) RIL / References: UniProt: P25359
#4: Protein Exosome complex component RRP46 / Ribosomal RNA-processing protein 46


Mass: 24574.324 Da / Num. of mol.: 1
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / Gene: RRP46, YGR095C / Plasmid: PRSFDUET / Production host: ESCHERICHIA COLI (E. coli) / Strain (production host): BL21 (DE3) RIL / References: UniProt: P53256
#5: Protein Exosome complex component RRP42 / Ribosomal RNA-processing protein 42


Mass: 29492.574 Da / Num. of mol.: 1
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / Gene: RRP42, YDL111C / Plasmid: PRSFDUET / Production host: ESCHERICHIA COLI (E. coli) / Strain (production host): BL21 (DE3) RIL / References: UniProt: Q12277
#6: Protein Exosome complex component MTR3 / mRNA transport regulator 3


Mass: 27603.988 Da / Num. of mol.: 1
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / Gene: MTR3, YGR158C, G6676 / Plasmid: PRSFDUET / Production host: ESCHERICHIA COLI (E. coli) / Strain (production host): BL21 (DE3) RIL / References: UniProt: P48240
#7: Protein Exosome complex component RRP40 / Ribosomal RNA-processing protein 40


Mass: 26990.756 Da / Num. of mol.: 1
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / Gene: RRP40, YOL142W / Plasmid: PTOPO-SMT3 / Production host: ESCHERICHIA COLI (E. coli) / Strain (production host): BL21 (DE3) RIL / References: UniProt: Q08285
#8: Protein Exosome complex component RRP4 / Ribosomal RNA-processing protein 4


Mass: 39877.574 Da / Num. of mol.: 1
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / Gene: RRP4, YHR069C / Plasmid: PTOPO-SMT3 / Production host: ESCHERICHIA COLI (E. coli) / Strain (production host): BL21 (DE3) RIL / References: UniProt: P38792
#9: Protein Exosome complex component CSL4 / CEP1 synthetic lethal protein 4


Mass: 32026.684 Da / Num. of mol.: 1
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / Gene: CSL4, SKI4, YNL232W, N1154 / Plasmid: PTOPO-SMT3 / Production host: ESCHERICHIA COLI (E. coli) / Strain (production host): BL21 (DE3) RIL / References: UniProt: P53859

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Exosome complex exonuclease ... , 2 types, 2 molecules JK

#10: Protein Exosome complex exonuclease RRP6 / Ribosomal RNA-processing protein 6


Mass: 64515.590 Da / Num. of mol.: 1 / Fragment: UNP residues 129-684 / Mutation: D238N
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / Gene: RRP6, UNC733, YOR001W / Plasmid: PTOPO-SMT3 / Production host: ESCHERICHIA COLI (E. coli) / Strain (production host): BL21 (DE3) RIL
References: UniProt: Q12149, Hydrolases; Acting on ester bonds; Exoribonucleases producing 5'-phosphomonoesters
#11: Protein Exosome complex exonuclease DIS3 / Chromosome disjunction protein 3 / Ribosomal RNA-processing protein 44


Mass: 114056.008 Da / Num. of mol.: 1 / Mutation: D171N, D551N
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / Gene: DIS3, RRP44, YOL021C, O2197 / Plasmid: PTOPO-SMT3 / Production host: ESCHERICHIA COLI (E. coli) / Strain (production host): BL21 (DE3) RIL
References: UniProt: Q08162, Hydrolases; Acting on ester bonds; Exoribonucleases producing 5'-phosphomonoesters, Hydrolases; Acting on ester bonds; Endoribonucleases producing 5'-phosphomonoesters

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Protein/peptide , 1 types, 1 molecules L

#12: Protein/peptide M-phase phosphoprotein 6 homolog / Exosome-associated RNA-binding protein MPP6


Mass: 4674.346 Da / Num. of mol.: 1 / Fragment: UNP residues 81-120
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) Saccharomyces cerevisiae (brewer's yeast)
Strain: ATCC 204508 / S288c / Gene: MPP6, YNR024W, N3230 / Plasmid: PRSFDUET-SMT3 / Production host: ESCHERICHIA COLI (E. coli) / Strain (production host): BL21 (DE3) RIL / References: UniProt: P53725

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RNA chain , 2 types, 2 molecules MN

#13: RNA chain RNA (11-MER)


Mass: 3438.066 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) Homo sapiens (human)
#14: RNA chain RNA (19-MER)


Mass: 5933.474 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) Homo sapiens (human)

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Non-polymers , 4 types, 72 molecules

#15: Chemical
ChemComp-SO4 / SULFATE ION


Mass: 96.063 Da / Num. of mol.: 5 / Source method: obtained synthetically / Formula: SO4
#16: Chemical ChemComp-GOL / GLYCEROL / GLYCERIN / PROPANE-1,2,3-TRIOL


Mass: 92.094 Da / Num. of mol.: 2 / Source method: obtained synthetically / Formula: C3H8O3
#17: Chemical ChemComp-ZN / ZINC ION


Mass: 65.409 Da / Num. of mol.: 1 / Source method: obtained synthetically / Formula: Zn
#18: Water ChemComp-HOH / water


Mass: 18.015 Da / Num. of mol.: 64 / Source method: isolated from a natural source / Formula: H2O

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Experimental details

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Experiment

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

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Sample preparation

CrystalDensity Matthews: 3.55 Å3/Da / Density % sol: 65.36 %
Crystal growTemperature: 277 K / Method: vapor diffusion
Details: 11-13% PEG3350, 100mM NaCitrate pH 5.6, 7 mM MES pH 6.5, 175-200 mM ammonium sulfate.
PH range: 5.6-6.5

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Data collection

DiffractionMean temperature: 100 K
Diffraction sourceSource: SYNCHROTRON / Site: APS / Beamline: 23-ID-D / Wavelength: 1.0332 Å
DetectorType: DECTRIS PILATUS3 6M / Detector: PIXEL / Date: Jul 27, 2015
RadiationProtocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray
Radiation wavelengthWavelength: 1.0332 Å / Relative weight: 1
ReflectionResolution: 3.3→44.247 Å / Num. obs: 101546 / % possible obs: 97.3 % / Redundancy: 3.4 % / Biso Wilson estimate: 99.72 Å2 / Rmerge(I) obs: 0.086 / Rpim(I) all: 0.051 / Rrim(I) all: 0.101 / Χ2: 1.168 / Net I/σ(I): 8.6 / Num. measured all: 343880
Reflection shell

Diffraction-ID: 1

Resolution (Å)Redundancy (%)Rmerge(I) obsCC1/2Rpim(I) allRrim(I) allΧ2% possible all
3.3-3.422.60.6170.1420.4240.7540.97194.7
3.42-3.552.80.5570.3010.3710.6751.00195.6
3.55-3.722.90.4520.5340.2930.5431.0395.8
3.72-3.912.90.3430.7460.220.411.09995.8
3.91-4.163.10.2540.8810.1560.31.15397.1
4.16-4.483.70.1690.9670.0950.1951.23298.3
4.48-4.933.80.1090.9870.060.1251.24598.3
4.93-5.643.80.0870.9910.0480.11.26398.9
5.64-7.114.10.070.9950.0370.0791.24899.3
7.11-1504.10.0430.9960.0240.0491.19898.8

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Phasing

PhasingMethod: molecular replacement

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Processing

Software
NameVersionClassification
HKL-2000data reduction
SCALEPACKdata scaling
PHASERphasing
PHENIX1.10_2155refinement
PDB_EXTRACT3.22data extraction
RefinementMethod to determine structure: MOLECULAR REPLACEMENT
Starting model: 4001, 5K36

5k36


Resolution: 3.3→44.247 Å / SU ML: 0.56 / Cross valid method: THROUGHOUT / σ(F): 1.39 / Phase error: 29.19
RfactorNum. reflection% reflectionSelection details
Rfree0.2659 4993 4.97 %Random
Rwork0.2167 ---
obs0.2192 100411 97.39 %-
Solvent computationShrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å
Displacement parametersBiso max: 324.38 Å2 / Biso mean: 138.1469 Å2 / Biso min: 36.16 Å2
Refinement stepCycle: final / Resolution: 3.3→44.247 Å
ProteinNucleic acidLigandSolventTotal
Num. atoms29147 249 38 64 29498
Biso mean--141.07 60.66 -
Num. residues----3719
Refine LS restraints
Refine-IDTypeDev idealNumber
X-RAY DIFFRACTIONf_bond_d0.00129959
X-RAY DIFFRACTIONf_angle_d0.39840591
X-RAY DIFFRACTIONf_chiral_restr0.044703
X-RAY DIFFRACTIONf_plane_restr0.0035180
X-RAY DIFFRACTIONf_dihedral_angle_d11.54118335
LS refinement shell

Refine-ID: X-RAY DIFFRACTION / Rfactor Rfree error: 0 / Total num. of bins used: 30

Resolution (Å)Rfactor RfreeNum. reflection RfreeRfactor RworkNum. reflection RworkNum. reflection all% reflection obs (%)
3.3-3.33750.40551630.39743067323094
3.3375-3.37670.41241550.38933089324495
3.3767-3.41790.43821670.37143058322595
3.4179-3.46120.37831620.35423065322795
3.4612-3.50670.35591570.34413119327696
3.5067-3.55470.34151420.32543099324196
3.5547-3.60550.37011660.31863087325396
3.6055-3.65920.40221810.323089327096
3.6592-3.71640.31391600.3013105326596
3.7164-3.77730.35221640.28683098326296
3.7773-3.84240.31091470.26033098324595
3.8424-3.91220.29781870.24583097328496
3.9122-3.98740.2651720.23923117328997
3.9874-4.06880.28671680.23683176334498
4.0688-4.15720.29461700.22353166333697
4.1572-4.25380.27851600.20353187334798
4.2538-4.36010.22161870.18393170335798
4.3601-4.47790.23421510.16943200335199
4.4779-4.60950.23791790.15893192337198
4.6095-4.75810.21521760.16583221339798
4.7581-4.9280.23041810.16943194337598
4.928-5.1250.23621440.16463248339299
5.125-5.35790.22491300.17353267339799
5.3579-5.63980.25431640.18923284344899
5.6398-5.99240.22771580.18943261341999
5.9924-6.45370.27521840.19783273345799
6.4537-7.10080.23411620.20173304346699
7.1008-8.12280.21711820.18053279346199
8.1228-10.21310.18441710.156233733544100
10.2131-44.25060.27542030.21633435363899
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)
12.3748-0.70.97761.90180.24552.4269-0.22290.51490.21280.0934-0.07190.0154-0.66140.2413-0.00170.9899-0.1986-0.06090.71690.07780.746818.9612-7.232-19.6619
22.74070.52040.19431.20710.26550.74220.05010.303-0.2342-0.08230.0175-0.0031-0.08060.22960.13020.1282-0.26490.02420.68730.13050.613629.7246-32.7475-27.7464
31.23310.1525-0.04680.61630.03860.0152-0.17980.83920.6495-0.53330.2873-0.007-0.34410.1443-0.17021.9015-1.0199-0.40311.57050.60251.529256.375819.0328-32.4102
41.58370.5931-0.46461.0064-0.14450.145-0.1237-0.01670.7604-0.0829-0.0511-0.1102-0.60240.0406-0.32481.8017-0.3378-0.57690.62120.11831.348738.195617.7829-12.2661
51.53380.3997-0.25921.92750.29310.8546-0.10720.1629-0.2764-0.66240.1827-0.1892-0.2890.47310.03350.8257-0.27590.3071.50780.04420.868956.9049-29.6537-47.3205
60.66150.1868-0.07320.70230.18980.0698-0.0688-0.00850.0664-0.47230.0348-0.5489-0.46560.7693-0.2910.9687-0.64740.20721.58350.45360.964370.797-6.7423-42.0106
73.01671.01530.71643.02730.1283.108-0.2782-0.45980.40120.32730.1989-0.2471-0.7042-0.0196-0.0031.27760.0296-0.17050.8963-0.0990.806137.895-0.865414.5556
80.8785-0.2213-0.10570.7742-0.3640.61940.2404-0.5664-0.04290.0858-0.3067-0.1608-0.30650.33230.00350.82950.17680.03131.06190.22151.140561.831-46.453-15.6067
90.7201-0.429-0.77180.74750.00781.1244-0.3638-0.19990.031-0.1712-0.0976-0.5848-0.04750.9346-0.05980.9057-0.4535-0.12161.4820.13791.21679.2217-2.7528-9.1859
100.76390.6623-0.11970.9626-0.76791.0289-0.0585-0.03830.06490.19170.39930.08120.08280.31530.10071.15420.15210.15580.9691-0.0461.069263.3899-38.153614.3118
110.3224-0.51530.04282.0961-0.00770.22380.04750.0656-0.0097-0.2755-0.03520.2543-0.1123-0.1776-01.0991-0.0253-0.07870.98850.0940.8555-5.79620.1598-56.1469
120.0103-0.0586-0.02090.32480.12840.0522-0.3726-0.95831.4281.55710.355-0.2043-0.8634-0.0556-0.00062.10210.2011-0.30141.4963-0.09351.918941.17934.213622.9258
130.03940.0008-0.04370.0019-0.00220.0483-0.02450.52711.2791-0.35910.3370.0541-0.12531.28120.00011.98260.7109-0.09741.77290.28381.396855.1751-35.882116.714
140.6715-0.13140.24660.09170.01040.1430.61330.2434-0.3559-0.89960.30290.52231.23990.14930.02981.620.01280.05130.94440.34941.0367-14.508519.5837-55.2258
Refinement TLS group
IDRefine-IDRefine TLS-IDSelection detailsAuth asym-IDAuth seq-ID
1X-RAY DIFFRACTION1(chain 'A' and resid 3 through 304)A3 - 304
2X-RAY DIFFRACTION2(chain 'B' and resid 1 through 241)B1 - 241
3X-RAY DIFFRACTION3(chain 'C' and resid 9 through 393)C9 - 393
4X-RAY DIFFRACTION4(chain 'D' and resid 2 through 223)D2 - 223
5X-RAY DIFFRACTION5(chain 'E' and resid 1 through 264)E1 - 264
6X-RAY DIFFRACTION6(chain 'F' and resid 8 through 248)F8 - 248
7X-RAY DIFFRACTION7(chain 'G' and resid 0 through 236)G0 - 236
8X-RAY DIFFRACTION8(chain 'H' and resid 4 through 356)H4 - 356
9X-RAY DIFFRACTION9(chain 'I' and resid 4 through 290)I4 - 290
10X-RAY DIFFRACTION10(chain 'J' and resid 128 through 618)J128 - 618
11X-RAY DIFFRACTION11(chain 'K' and resid 8 through 1001)K8 - 1001
12X-RAY DIFFRACTION12(chain 'L' and resid 90 through 118)L90 - 118
13X-RAY DIFFRACTION13(chain 'M' and resid 13 through 17)M13 - 17
14X-RAY DIFFRACTION14(chain 'N' and resid 11 through 17)N11 - 17

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