[English] 日本語
Yorodumi
- PDB-10ha: Crystal Structure of Honeybee (Apis mellifera) omega class glutat... -

+
Open data


ID or keywords:

Loading...

-
Basic information

Entry
Database: PDB / ID: 10ha
TitleCrystal Structure of Honeybee (Apis mellifera) omega class glutathione S-transferase AmGST-O1
ComponentsPyrimidodiazepine synthase
KeywordsTRANSFERASE / Glutathione / Complex / Honey Bee / Omega / GST / Glutathione S-transferase
Function / homology
Function and homology information


glutathione dehydrogenase (ascorbate) activity / glutathione transferase activity / glutathione metabolic process / cytoplasm
Similarity search - Function
Glutathione S-transferase, omega-class / : / Glutathione S-transferase, C-terminal domain / Glutathione S-transferase, N-terminal domain / Glutathione transferase family / Glutathione S-transferase, C-terminal-like / Soluble glutathione S-transferase C-terminal domain profile. / Soluble glutathione S-transferase N-terminal domain profile. / Glutathione S-transferase, N-terminal / Glutathione S-transferase, C-terminal domain superfamily / Thioredoxin-like superfamily
Similarity search - Domain/homology
: / GLUTATHIONE / Pyrimidodiazepine synthase
Similarity search - Component
Biological speciesApis mellifera (honey bee)
MethodX-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.05 Å
AuthorsMoural, T.W. / Zhu, F. / Koirala, S.
Funding support United States, 3items
OrganizationGrant numberCountry
United States Department of Agriculture (USDA)7006507 United States
United States Department of Agriculture (USDA)2020-67034-31780 United States
United States Department of Agriculture (USDA)7005652 United States
CitationJournal: J.Agric.Food Chem. / Year: 2026
Title: Structural and Functional Insights into a Honey Bee Omega-Class Glutathione S-Transferase Mediating Chemical Sequestration and Antioxidative Stress.
Authors: Koirala, S. / Moural, T.W. / Bhattarai, G. / Phan, N.T. / Rajotte, E.G. / Biddinger, D.J. / Zhu, F.
History
DepositionJan 19, 2026Deposition site: RCSB / Processing site: RCSB
Revision 1.0Jun 17, 2026Provider: repository / Type: Initial release

-
Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

Downloads & links

-
Assembly

Deposited unit
A: Pyrimidodiazepine synthase
B: Pyrimidodiazepine synthase
C: Pyrimidodiazepine synthase
D: Pyrimidodiazepine synthase
hetero molecules


Theoretical massNumber of molelcules
Total (without water)120,7228
Polymers119,4934
Non-polymers1,2294
Water3,117173
1
A: Pyrimidodiazepine synthase
D: Pyrimidodiazepine synthase
hetero molecules


Theoretical massNumber of molelcules
Total (without water)60,3614
Polymers59,7462
Non-polymers6152
Water362
TypeNameSymmetry operationNumber
identity operation1_555x,y,z1
2
B: Pyrimidodiazepine synthase
C: Pyrimidodiazepine synthase
hetero molecules


Theoretical massNumber of molelcules
Total (without water)60,3614
Polymers59,7462
Non-polymers6152
Water362
TypeNameSymmetry operationNumber
identity operation1_555x,y,z1
Unit cell
Length a, b, c (Å)64.143, 78.385, 107.966
Angle α, β, γ (deg.)90.000, 106.701, 90.000
Int Tables number4
Space group name H-MP1211
Space group name HallP2yb
Symmetry operation#1: x,y,z
#2: -x,y+1/2,-z
Noncrystallographic symmetry (NCS)NCS domain:
IDEns-IDDetails (eV)
d_1ens_1chain "A"
d_2ens_1chain "B"
d_3ens_1chain "C"
d_4ens_1chain "D"

NCS domain segments:

Ens-ID: ens_1

Dom-IDComponent-IDBeg auth comp-IDBeg label comp-IDEnd auth comp-IDEnd label comp-IDAuth asym-IDLabel asym-IDAuth seq-IDLabel seq-ID
d_11SERSERILEILEAA3 - 2393 - 239
d_12GSHGSHGSHGSHAE301
d_21SERSERILEILEBB3 - 2393 - 239
d_22GSHGSHGSHGSHBF301
d_31SERSERILEILECC3 - 2393 - 239
d_32GSHGSHGSHGSHCG301
d_41SERSERILEILEDD3 - 2393 - 239
d_42GSHGSHGSHGSHDH301

NCS oper:
IDCodeMatrixVector
1given(0.999824685202, -0.0080926695579, -0.0168851283577), (-0.00668445309197, -0.996622217324, 0.0818503147362), (-0.017490481614, -0.0817230973164, -0.996501589772)-15.8428841207, 27.3345352038, 51.8336924292
2given(-0.999769042836, -0.0214620091895, -0.00111496598673), (-0.00187870628022, 0.138962691056, -0.99029583507), (0.0214086769866, -0.990065024458, -0.138970917439)11.0934533529, 43.7825232348, 39.751461051
3given(-0.999987423146, -8.18494023636E-5, 0.00501466361628), (0.00501523114801, -0.0226458446455, 0.9997309704), (3.17339107519E-5, 0.999743546626, 0.0226459703257)-37.0437673371, -14.5997862997, 14.5039555965

-
Components

#1: Protein
Pyrimidodiazepine synthase


Mass: 29873.211 Da / Num. of mol.: 4
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) Apis mellifera (honey bee) / Gene: 552118, LOC552118 / Production host: Escherichia coli (E. coli) / References: UniProt: A0A7M7LSY6
#2: Chemical
ChemComp-GSH / Glutathione


Type: peptide-like, Peptide-like / Class: Oxidation-reduction / Mass: 307.323 Da / Num. of mol.: 4 / Source method: obtained synthetically / Formula: C10H17N3O6S / Feature type: SUBJECT OF INVESTIGATION / References: BIRD: PRD_002593
#3: Water ChemComp-HOH / water


Mass: 18.015 Da / Num. of mol.: 173 / Source method: isolated from a natural source / Formula: H2O
Has ligand of interestY
Has protein modificationY

-
Experimental details

-
Experiment

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

-
Sample preparation

CrystalDensity Matthews: 2.18 Å3/Da / Density % sol: 43.46 %
Crystal growTemperature: 293.15 K / Method: vapor diffusion, sitting drop / Details: 0.2 M ammonium acetate and 20% PEG 3,350

-
Data collection

DiffractionMean temperature: 100 K / Serial crystal experiment: N
Diffraction sourceSource: SYNCHROTRON / Site: APS / Beamline: 19-ID / Wavelength: 0.97918 Å
DetectorType: DECTRIS PILATUS 6M / Detector: PIXEL / Date: Apr 22, 2022
RadiationProtocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray
Radiation wavelengthWavelength: 0.97918 Å / Relative weight: 1
ReflectionResolution: 2.05→61.09 Å / Num. obs: 63482 / % possible obs: 98.4 % / Redundancy: 3.2 % / Biso Wilson estimate: 37.48 Å2 / CC1/2: 0.966 / CC star: 0.991 / Rmerge(I) obs: 0.08935 / Rpim(I) all: 0.0586 / Rrim(I) all: 0.1073 / Net I/σ(I): 6.09
Reflection shellResolution: 2.05→2.1 Å / Redundancy: 3.3 % / Rmerge(I) obs: 0.5398 / Mean I/σ(I) obs: 1.79 / Num. unique obs: 4529 / CC1/2: 0.411 / CC star: 0.763 / Rpim(I) all: 0.3468 / Rrim(I) all: 0.6438 / % possible all: 98.8

-
Processing

Software
NameVersionClassification
PHENIX1.21.2_5419refinement
DIALSdata reduction
Aimlessdata scaling
PHASERphasing
RefinementMethod to determine structure: MOLECULAR REPLACEMENT / Resolution: 2.05→61.09 Å / SU ML: 0.2421 / Cross valid method: FREE R-VALUE / σ(F): 1.37 / Phase error: 26.0638
Stereochemistry target values: GeoStd + Monomer Library + CDL v1.2
RfactorNum. reflection% reflection
Rfree0.2578 1997 3.15 %
Rwork0.221 61421 -
obs0.2221 63418 98.39 %
Solvent computationShrinkage radii: 0.9 Å / VDW probe radii: 1.1 Å / Solvent model: FLAT BULK SOLVENT MODEL
Displacement parametersBiso mean: 55.52 Å2
Refinement stepCycle: LAST / Resolution: 2.05→61.09 Å
ProteinNucleic acidLigandSolventTotal
Num. atoms7768 0 80 173 8021
Refine LS restraints
Refine-IDTypeDev idealNumber
X-RAY DIFFRACTIONf_bond_d0.00388060
X-RAY DIFFRACTIONf_angle_d0.774710928
X-RAY DIFFRACTIONf_chiral_restr0.04771172
X-RAY DIFFRACTIONf_plane_restr0.0061404
X-RAY DIFFRACTIONf_dihedral_angle_d13.06533104
Refine LS restraints NCS
Ens-IDDom-IDAsym-IDAuth asym-IDRefine-IDTypeRms dev position (Å)
ens_1d_2AAX-RAY DIFFRACTIONTorsion NCS0.733017518531
ens_1d_3AAX-RAY DIFFRACTIONTorsion NCS0.927508539656
ens_1d_4AAX-RAY DIFFRACTIONTorsion NCS0.764042103826
LS refinement shell
Resolution (Å)Rfactor RfreeNum. reflection RfreeRfactor RworkNum. reflection RworkRefine-ID% reflection obs (%)
2.05-2.10.33351390.30024378X-RAY DIFFRACTION98.78
2.1-2.160.29881420.27684411X-RAY DIFFRACTION98.89
2.16-2.220.30541420.24644334X-RAY DIFFRACTION97.96
2.22-2.290.27341410.24964292X-RAY DIFFRACTION96.45
2.29-2.380.30121390.23824357X-RAY DIFFRACTION98.51
2.38-2.470.29421460.23854438X-RAY DIFFRACTION99.41
2.47-2.580.25711420.23364368X-RAY DIFFRACTION98.93
2.58-2.720.2371410.23054334X-RAY DIFFRACTION97.9
2.72-2.890.29051430.22154357X-RAY DIFFRACTION97.19
2.89-3.110.27961440.22214411X-RAY DIFFRACTION99.52
3.11-3.430.24611420.2234412X-RAY DIFFRACTION98.76
3.43-3.920.24321420.20664387X-RAY DIFFRACTION97.88
3.92-4.940.23251450.19694466X-RAY DIFFRACTION99.38
4.94-61.090.24851490.21944476X-RAY DIFFRACTION97.99
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)
13.69035561106-2.60565160910.3569503643883.050420269822.187466283135.00532343671-0.2234934000030.4219375211080.772333116012-0.4915677790580.292769410279-0.588182624999-0.272076572773-0.07050008869440.1113759736430.408785930753-0.1309436217630.05489159449790.4985440269220.1102456927340.352958183978-2.684113572714.5374302642-5.2501915448
22.83704715352-0.6440331315410.1642540953783.66869394369-1.137826534262.76710685487-0.1349727736950.376181965011-0.0605495473525-0.3822468562780.151466154912-0.02497623667950.0443369798772-0.2442035243810.02449448826110.222336508123-0.05797736188130.02533565053160.339840798785-0.0475300525540.216788861104-7.900039732682.157651221290.60799651195
34.379579579792.870149126463.65368775358.63875036714.199638934268.98512109745-0.501325082970.2325227660.1021069171890.2088006765310.2314995551220.430783381584-0.261693473180.2462664428150.3913605198930.2104166249870.06098829749730.05590220171660.3679508958660.03548958822280.289388370411-10.3647076976-4.9331854849617.6232494159
45.634881135870.603232144662-0.7814841959796.847228653720.7052834081932.867083885-0.139775180752-1.304213927660.1309000876221.01336286252-0.1371710553491.33918352656-0.649309840578-0.1581958106490.271988604030.6439437693620.081254389772-0.04491454945880.631379320267-0.05519486789270.362477729532-5.1697444967-5.1919561378826.8680319995
54.851652136610.0908566673109-0.6615335964328.858230801150.4410714295654.25562172272-0.119838228834-0.234535781553-0.38723615273-0.2056743610860.254429852775-0.3584448606190.07045551363540.234876949342-0.1273387131190.1930601236070.00441940475653-0.02092169547540.279087451033-0.03798491645150.406575650397-2.01767920746-10.629942682412.0372274777
60.8049704275470.541737523715-0.9211376430122.46035882416-0.5127991033885.47464554520.0494391031807-0.7658301705990.5748721917370.865806734072-0.173366182921-0.8446664281660.1247173695531.093267623310.3105249923920.4843585242580.0230114526616-0.2525949499110.687717194291-0.135700635040.5261245944165.10729308873-0.86162642468126.7379828999
74.024135847571.83726217316-1.347639955135.58135977948-2.699703027677.06883132087-0.240039415975-0.26775958346-0.210026218780.202706569628-0.195891853062-1.908786741660.06864732487170.9947638228320.3121013216460.2460023732250.028201719525-0.0641240915050.435364364336-0.0248312515410.6432463850896.15165594771-8.2814806225112.5962904525
84.50087717256-0.4176364582863.660756422186.68159867453-1.88441116314.45086472392-0.2847687878160.159669319343-0.1203096193830.639247948123-0.181259463309-0.835582200403-0.3599558723080.4569129429480.2430274669720.352650818469-0.036069696949-0.1578235040240.334343720235-0.1585824892230.5909503413134.9673685969212.733499298214.2575110452
90.8786718403530.4696940582190.1485361791691.52066983135-0.3212416623280.925611882846-0.292733515382-0.519849497189-0.493425810421-0.03346545748890.119815869262-0.3204995234450.3125725969660.127744029288-0.304082466190.1289489501870.0076643274728-0.2063575309430.8761121308080.07992542622910.293430659883-18.918179307120.380494616251.462039502
103.56771276989-1.08108255645-0.789702417238.14092642695-1.159994151351.57175967403-0.0203610070159-0.42092319641-0.6037260893010.4656415933190.477660826160.3747045182330.05277409033370.0241539864978-0.4035288271490.30455462224-0.00474943800124-0.05748688091830.9341918832550.178517273970.454981418643-29.042841956818.460003617452.4678389678
111.410527391210.5503019905750.2410326543162.51574168679-2.571250853233.095736144570.201603092667-1.050698959850.4219433686170.6531208018040.0978679124412-0.0354902666395-0.327619881764-0.1988273230970.1568856266220.2325791748070.00582741832567-0.09590224942881.02958161313-0.1220894902450.271177661955-26.701315361137.409149637252.1465547478
125.22386388343-2.1163656436-1.860938915816.859083238583.074595154213.902923087480.0503120055352-0.0384451545061-0.403014203689-0.2944128050630.215584940789-0.1286864128380.1225710100410.109087686126-0.1889627133060.244367929862-0.049612396347-0.1321559991750.5914131683880.03231175936360.396589377082-26.508247737333.909351270834.9741874823
136.147125394610.7569265725211.483886569475.331920817220.975002363213.77856677556-0.1426362935321.28766141267-0.689965714638-1.416227472670.404937125395-0.1607051561640.1575371103320.40193742975-0.3592720839710.467699423898-0.0951491822244-0.01631413967230.783910997484-0.07902997788160.334920971154-21.23146812234.548449145725.5119660123
144.18597815125-1.563278977040.9990369482074.03374968893-0.03446957009831.01872238380.06090428996280.2847331255830.395023496278-0.539516870102-0.0250227346981-0.44496154592-0.09511071189240.142858907347-0.05848255867690.257162344017-0.06151464102010.02359325022130.5706099560160.005030461515710.344342487437-13.022275838335.438002520735.528184575
154.557158101632.35834807967-4.592738781497.90000779311-4.342571465755.22115023136-0.6834518998540.172847980132-0.324080539029-1.108102304930.412061460446-0.4454474663170.675898731590.3908973267830.1572542562270.466776248289-0.107781276248-0.04808877419160.538506291149-0.08107724719290.357317670514-11.395964347715.913242724236.3605644969
164.015776404160.496681248265-0.392825697735.02203527968-0.6563319010363.113998491570.113187006925-0.2083256874660.371906859392-0.260953328328-0.1247039942130.378148262706-0.1782172662-0.1847168987930.04300385637050.1915167393170.0152681163193-0.03670341519660.3517979776830.01051967278670.28171649801613.924974997844.963421715332.9480722954
171.958472023390.1312181239272.001970103514.39123413022-0.003151334312934.637996567820.0681804766058-0.8615005885050.4332410765570.0528994225756-0.0343399507717-0.0832396152048-0.5121867280030.091280136290.1377009224440.214532576773-0.0428304054423-0.005072624717370.701194761472-0.003519635026790.35572504853123.187082092144.079707561539.3198694748
184.045045113172.01869924521-1.142059766854.943095220942.471919049853.0266606174-0.360482945451-0.2749757439060.104919028196-0.2821111758490.07285204618770.629724374946-0.0774733009121-0.07303035511850.1056039026620.0129130541494-0.0005532363306490.03834924288520.8478125103290.2991498837930.5079501515321.814548253925.251945407841.7727372664
194.425024247211.86059042889-0.1823227425114.18943424207-1.14678070091.97859499305-0.174001898743-1.1255932715-1.17090103132-0.231785574207-0.0808756752274-0.1212249687740.2662003481660.1217994411410.09583506096470.2380970722880.02351076396920.04494909098190.6302152120420.2796131999690.60019133521310.445632333223.422738258543.3398579097
207.805632478871.81014110649-2.268591397482.29285247302-3.098629503337.50763088529-0.6362558006620.961657145912-0.211504852134-1.140339461710.3115960748280.5002682609360.332838704904-0.5486144489360.429996028410.571586683307-0.142284699782-0.1176089486590.6147200439410.005481684676040.4571205892275.7383197748631.640798921125.2087421897
212.89152694025-0.203974919483-1.870017382663.496189191170.05607818975833.4433932341-0.139322346740.0306675840251-0.367026333620.532828720860.01805169613950.4537148436870.185105522676-0.3739727854650.08651820541310.284022577167-0.06173286829970.0854575820360.5168148982070.07628959052880.680268277102-34.4053660331-15.685763610919.8190692394
225.22979270411-0.479427603427-1.587845001465.173361836691.62502118446.53708755894-0.0937385322897-0.462623077952-0.2766431973710.826588075260.118934061636-0.05987049340620.2238172426360.1606227419610.0490017598120.3482206740070.03357727775790.04344036714810.4315773301510.1819839960930.458778994751-25.5875601489-14.50951663825.4207748694
234.41449948853-0.0192096303283-0.7455992598412.02201734964-0.5423091673952.45882426778-0.104072307010.2484420405650.193006635149-0.09042054671560.3440273547030.528564294858-0.193251314538-0.357236234388-0.148797903470.209918446755-0.0211918239657-0.04356359003220.4825848648620.1253757261680.47553971119-33.91893212441.926435880968.26214837345
246.38061372644-4.735939970751.989441824655.95606267306-0.2338027332217.58581537952-0.330506691427-0.864098148040.04313518133881.014812707940.7013834268891.20954798085-0.10088815225-1.46809207804-0.2297246847820.4921765972430.1497025928780.2245126977390.630369786830.1652191632120.619595857343-41.8640894804-0.57373447694427.4030548887
Refinement TLS group

Refine-ID: X-RAY DIFFRACTION

IDRefine TLS-IDSelection detailsAuth asym-IDLabel asym-IDAuth seq-IDLabel seq-ID
11chain 'A' and (resid 3 through 17 )AA3 - 171 - 15
22chain 'A' and (resid 18 through 102 )AA18 - 10216 - 100
33chain 'A' and (resid 103 through 128 )AA103 - 128101 - 126
44chain 'A' and (resid 129 through 154 )AA129 - 154127 - 152
55chain 'A' and (resid 155 through 176 )AA155 - 176153 - 174
66chain 'A' and (resid 177 through 196 )AA177 - 196175 - 194
77chain 'A' and (resid 197 through 218 )AA197 - 218195 - 216
88chain 'A' and (resid 219 through 239 )AA219 - 239217 - 237
99chain 'B' and (resid 3 through 56 )BC3 - 561 - 54
1010chain 'B' and (resid 57 through 81 )BC57 - 8155 - 79
1111chain 'B' and (resid 82 through 102 )BC82 - 10280 - 100
1212chain 'B' and (resid 103 through 128 )BC103 - 128101 - 126
1313chain 'B' and (resid 129 through 154 )BC129 - 154127 - 152
1414chain 'B' and (resid 155 through 218 )BC155 - 218153 - 216
1515chain 'B' and (resid 219 through 239 )BC219 - 239217 - 237
1616chain 'C' and (resid 3 through 56 )CE3 - 561 - 54
1717chain 'C' and (resid 57 through 102 )CE57 - 10255 - 100
1818chain 'C' and (resid 103 through 128 )CE103 - 128101 - 126
1919chain 'C' and (resid 129 through 218 )CE129 - 218127 - 216
2020chain 'C' and (resid 219 through 239 )CE219 - 239217 - 237
2121chain 'D' and (resid 3 through 49 )DG3 - 491 - 47
2222chain 'D' and (resid 50 through 81 )DG50 - 8148 - 79
2323chain 'D' and (resid 82 through 218 )DG82 - 21880 - 216
2424chain 'D' and (resid 219 through 239 )DG219 - 239217 - 237

+
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