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1TU4

Crystal Structure of Rab5-GDP Complex

Functional Information from GO Data
ChainGOidnamespacecontents
A0003924molecular_functionGTPase activity
A0005525molecular_functionGTP binding
B0003924molecular_functionGTPase activity
B0005525molecular_functionGTP binding
C0003924molecular_functionGTPase activity
C0005525molecular_functionGTP binding
D0003924molecular_functionGTPase activity
D0005525molecular_functionGTP binding
Functional Information from PDB Data
site_idAC1
Number of Residues6
DetailsBINDING SITE FOR RESIDUE CO A 1201
ChainResidue
ASER34
AHOH301
AHOH302
AHOH308
AGDP1200
DHOH303

site_idAC2
Number of Residues6
DetailsBINDING SITE FOR RESIDUE CO B 2201
ChainResidue
BHOH306
BHOH307
BGDP2200
BSER34
BHOH304
BHOH305

site_idAC3
Number of Residues6
DetailsBINDING SITE FOR RESIDUE CO C 3201
ChainResidue
CSER34
CHOH309
CHOH310
CHOH311
CHOH312
CGDP3200

site_idAC4
Number of Residues6
DetailsBINDING SITE FOR RESIDUE CO D 4201
ChainResidue
DSER34
DHOH313
DHOH314
DHOH315
DHOH316
DGDP4200

site_idAC5
Number of Residues5
DetailsBINDING SITE FOR RESIDUE CO B 251
ChainResidue
AHIS83
AHOH395
BGLU80
BHIS83
BHOH396

site_idAC6
Number of Residues5
DetailsBINDING SITE FOR RESIDUE CO D 252
ChainResidue
CHIS83
CHOH397
CHOH398
DGLU80
DHIS83

site_idAC7
Number of Residues4
DetailsBINDING SITE FOR RESIDUE SO4 B 261
ChainResidue
BGLN79
BGLU80
BARG81
BHOH353

site_idAC8
Number of Residues5
DetailsBINDING SITE FOR RESIDUE SO4 D 262
ChainResidue
DALA77
DGLY78
DGLN79
DHOH315
DHOH316

site_idAC9
Number of Residues4
DetailsBINDING SITE FOR RESIDUE SO4 D 263
ChainResidue
DGLN79
DGLU80
DARG81
DHOH490

site_idBC1
Number of Residues6
DetailsBINDING SITE FOR RESIDUE SO4 B 264
ChainResidue
BALA77
BGLY78
BGLN79
BHOH306
BHOH307
BHOH608

site_idBC2
Number of Residues4
DetailsBINDING SITE FOR RESIDUE SO4 D 265
ChainResidue
AARG81
AHOH552
BGLN121
DASN16

site_idBC3
Number of Residues3
DetailsBINDING SITE FOR RESIDUE SO4 D 266
ChainResidue
DGLN121
DHOH522
DHOH563

site_idBC4
Number of Residues20
DetailsBINDING SITE FOR RESIDUE GDP A 1200
ChainResidue
AGLU28
AALA30
AVAL31
AGLY32
ALYS33
ASER34
ASER35
AASN133
ALYS134
AASP136
ALEU137
ASER163
AALA164
ALYS165
AHOH302
AHOH308
AHOH414
AHOH433
AHOH461
ACO1201

site_idBC5
Number of Residues26
DetailsBINDING SITE FOR RESIDUE GDP B 2200
ChainResidue
BHOH317
BHOH339
BHOH345
BHOH435
BHOH521
BHOH595
BCO2201
AGLN119
AARG120
AALA122
ASER123
APRO124
BALA30
BVAL31
BGLY32
BLYS33
BSER34
BSER35
BASN133
BLYS134
BASP136
BLEU137
BSER163
BALA164
BLYS165
BHOH307

site_idBC6
Number of Residues18
DetailsBINDING SITE FOR RESIDUE GDP C 3200
ChainResidue
CGLU28
CALA30
CVAL31
CGLY32
CLYS33
CSER34
CSER35
CASN133
CLYS134
CASP136
CSER163
CALA164
CLYS165
CHOH310
CHOH311
CHOH422
CHOH523
CCO3201

site_idBC7
Number of Residues20
DetailsBINDING SITE FOR RESIDUE GDP D 4200
ChainResidue
CGLN119
CARG120
CALA122
CSER123
CPRO124
DALA30
DVAL31
DGLY32
DLYS33
DSER34
DSER35
DASN133
DLYS134
DASP136
DLEU137
DSER163
DALA164
DHOH313
DHOH316
DCO4201

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues20
DetailsBINDING: BINDING => ECO:0000269|PubMed:12433916, ECO:0000269|PubMed:14684892, ECO:0000269|PubMed:15378032, ECO:0000269|PubMed:20534488, ECO:0007744|PDB:1N6H, ECO:0007744|PDB:1N6L, ECO:0007744|PDB:1N6N, ECO:0007744|PDB:1N6O, ECO:0007744|PDB:1N6P, ECO:0007744|PDB:1N6R, ECO:0007744|PDB:1R2Q, ECO:0007744|PDB:1TU3, ECO:0007744|PDB:3MJH
ChainResidueDetails
AGLY27
BSER163
CGLY27
CHIS46
CASP75
CASN133
CSER163
DGLY27
DHIS46
DASP75
DASN133
AHIS46
DSER163
AASP75
AASN133
ASER163
BGLY27
BHIS46
BASP75
BASN133

site_idSWS_FT_FI2
Number of Residues4
DetailsMOD_RES: Phosphoserine; by LRRK2 => ECO:0000269|PubMed:29125462
ChainResidueDetails
ASER84
BSER84
CSER84
DSER84

site_idSWS_FT_FI3
Number of Residues4
DetailsCARBOHYD: (Microbial infection) N-beta-linked (GlcNAc) arginine => ECO:0000269|PubMed:32974215
ChainResidueDetails
AARG120
BARG120
CARG120
DARG120

Catalytic Information from CSA
site_idCSA1
Number of Residues1
DetailsAnnotated By Reference To The Literature 1ksj
ChainResidueDetails
AGLN79

site_idCSA2
Number of Residues1
DetailsAnnotated By Reference To The Literature 1ksj
ChainResidueDetails
BGLN79

site_idCSA3
Number of Residues1
DetailsAnnotated By Reference To The Literature 1ksj
ChainResidueDetails
CGLN79

site_idCSA4
Number of Residues1
DetailsAnnotated By Reference To The Literature 1ksj
ChainResidueDetails
DGLN79

site_idCSA5
Number of Residues1
DetailsAnnotated By Reference To The Literature 1ksj
ChainResidueDetails
AALA30

site_idCSA6
Number of Residues1
DetailsAnnotated By Reference To The Literature 1ksj
ChainResidueDetails
BALA30

site_idCSA7
Number of Residues1
DetailsAnnotated By Reference To The Literature 1ksj
ChainResidueDetails
CALA30

site_idCSA8
Number of Residues1
DetailsAnnotated By Reference To The Literature 1ksj
ChainResidueDetails
DALA30

222415

PDB entries from 2024-07-10

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