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5DKW

Ternary crystal structure of polymerase lambda with a GA mispair at the primer terminus with Ca2+ in the active

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 Residues15
Detailsbinding site for residue DTP A 601
ChainResidue
AARG386
AGLY508
AASN513
ACA602
AHOH710
PDC6
TDG5
AGLY416
ASER417
AARG420
AGLY426
AASP427
AASP429
ATYR505
APHE506

site_idAC2
Number of Residues4
Detailsbinding site for residue CA A 602
ChainResidue
AASP427
ADTP601
AHOH744
AHOH747

site_idAC3
Number of Residues6
Detailsbinding site for residue CA A 603
ChainResidue
ACYS300
AILE302
AILE305
AHOH786
DDC3
DHOH101

site_idAC4
Number of Residues4
Detailsbinding site for residue CA B 601
ChainResidue
BCYS300
BILE302
BILE305
CDC3

site_idAC5
Number of Residues5
Detailsbinding site for residue CA B 602
ChainResidue
BSER339
BILE341
BALA344
EDA5
EHOH103

site_idAC6
Number of Residues15
Detailsbinding site for residue DTP B 603
ChainResidue
BARG386
BGLY416
BSER417
BARG420
BGLY426
BASP427
BASP429
BTYR505
BPHE506
BGLY508
BASN513
BCA604
BHOH702
EDC6
FDG5

site_idAC7
Number of Residues4
Detailsbinding site for residue CA B 604
ChainResidue
BASP427
BASP429
BDTP603
BHOH745

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
AASN513
BARG386
BSER417
BGLY426
BASN513

site_idSWS_FT_FI3
Number of Residues6
DetailsBINDING: BINDING => ECO:0000269|PubMed:17475573, ECO:0007744|PDB:2PFO, ECO:0007744|PDB:2PFQ
ChainResidueDetails
AASP427
AASP429
AASP490
BASP427
BASP429
BASP490

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PDB entries from 2024-07-10

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