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3PML

crystal structure of a polymerase lambda variant with a dGTP analog opposite a templating T

Functional Information from GO Data
ChainGOidnamespacecontents
A0003677molecular_functionDNA binding
A0003887molecular_functionDNA-directed DNA polymerase activity
A0006281biological_processDNA repair
A0016779molecular_functionnucleotidyltransferase activity
A0034061molecular_functionDNA polymerase activity
B0003677molecular_functionDNA binding
B0003887molecular_functionDNA-directed DNA polymerase activity
B0006281biological_processDNA repair
B0016779molecular_functionnucleotidyltransferase activity
B0034061molecular_functionDNA polymerase activity
Functional Information from PDB Data
site_idAC1
Number of Residues22
DetailsBINDING SITE FOR RESIDUE 1GC A 701
ChainResidue
AMG1
AGLY426
AASP427
AASP429
ATYR505
APHE506
ATHR507
AGLY508
AASN513
AARG517
CDT5
AMG2
CDG6
HDC6
HHOH12
AHOH42
AHOH55
AARG386
AGLY416
ASER417
AARG420
ACYS425

site_idAC2
Number of Residues5
DetailsBINDING SITE FOR RESIDUE MG A 1
ChainResidue
AMG2
AHOH42
AASP427
AASP429
A1GC701

site_idAC3
Number of Residues7
DetailsBINDING SITE FOR RESIDUE MG A 2
ChainResidue
AMG1
AASP427
AASP429
AASP490
A1GC701
HDC6
HHOH12

site_idAC4
Number of Residues5
DetailsBINDING SITE FOR RESIDUE NA A 5
ChainResidue
ASER339
AILE341
AALA344
HDA5
HHOH29

site_idAC5
Number of Residues20
DetailsBINDING SITE FOR RESIDUE 1GC B 702
ChainResidue
BMG3
BMG4
BHOH117
BHOH136
BARG386
BGLY416
BSER417
BARG420
BGLY426
BASP427
BASP429
BTYR505
BPHE506
BTHR507
BGLY508
BALA510
BASN513
BARG517
EDT5
FDC6

site_idAC6
Number of Residues4
DetailsBINDING SITE FOR RESIDUE MG B 3
ChainResidue
BHOH116
BASP427
BASP429
B1GC702

site_idAC7
Number of Residues6
DetailsBINDING SITE FOR RESIDUE MG B 4
ChainResidue
BHOH117
BASP427
BASP429
BASP490
B1GC702
FDC6

site_idAC8
Number of Residues5
DetailsBINDING SITE FOR RESIDUE NA B 6
ChainResidue
BHOH15
BSER339
BILE341
BALA344
FDA5

site_idAC9
Number of Residues6
DetailsBINDING SITE FOR RESIDUE NA B 7
ChainResidue
ALYS307
BHOH135
BCYS300
BILE302
BILE305
GDC3

Functional Information from PROSITE/UniProt
site_idPS00522
Number of Residues20
DetailsDNA_POLYMERASE_X DNA polymerase family X signature. GSYrRGkatCgDVDVLIthP
ChainResidueDetails
AGLY416-PRO435

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues2
DetailsACT_SITE: Schiff-base intermediate with DNA => ECO:0000269|PubMed:11457865
ChainResidueDetails
ALYS312
BLYS312

site_idSWS_FT_FI2
Number of Residues8
DetailsBINDING: BINDING => ECO:0000269|PubMed:17475573, ECO:0007744|PDB:2PFP, ECO:0007744|PDB:2PFQ
ChainResidueDetails
AARG386
ASER417
AGLY426
AALA518
BARG386
BSER417
BGLY426
BALA518

site_idSWS_FT_FI3
Number of Residues6
DetailsBINDING: BINDING => ECO:0000269|PubMed:17475573, ECO:0007744|PDB:2PFO, ECO:0007744|PDB:2PFQ
ChainResidueDetails
AASP427
AASP429
APRO495
BASP427
BASP429
BPRO495

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PDB entries from 2024-07-17

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