Loading
PDBj
MenuPDBj@FacebookPDBj@X(formerly Twitter)PDBj@BlueSkyPDBj@YouTubewwPDB FoundationwwPDBDonate
RCSB PDBPDBeBMRBAdv. SearchSearch help

6X9I

Human DNMT1(729-1600) Bound to Zebularine-Containing 12mer dsDNA

This is a non-PDB format compatible entry.
Functional Information from GO Data
ChainGOidnamespacecontents
A0003682molecular_functionchromatin binding
A0008168molecular_functionmethyltransferase activity
Functional Information from PDB Data
site_idAC1
Number of Residues24
Detailsbinding site for residue SAH A 1701
ChainResidue
APHE1145
AGLU1189
AASP1190
ACYS1191
AGLY1223
APRO1225
AASN1578
AALA1579
AVAL1580
AHOH1834
AHOH1844
ASER1146
AHOH1869
AHOH1873
AHOH1877
AHOH1916
AHOH1932
ACYS1148
AGLY1149
AGLY1150
ALEU1151
AGLU1168
AMET1169
ATRP1170

site_idAC2
Number of Residues4
Detailsbinding site for residue ZN A 1702
ChainResidue
ACYS1476
ACYS1478
ACYS1485
AHIS1502

site_idAC3
Number of Residues4
Detailsbinding site for residue ZN A 1703
ChainResidue
AHIS793
ACYS820
ACYS893
ACYS896

site_idAC4
Number of Residues7
Detailsbinding site for residue EDO A 1704
ChainResidue
ASER1273
AARG1276
ASER1277
AVAL1344
AHOH1815
AHOH1878
CDG11

site_idAC5
Number of Residues5
Detailsbinding site for residue GOL A 1705
ChainResidue
AGLY1305
ATRP1395
AGLN1399
APRO1583
AHOH1825

site_idAC6
Number of Residues3
Detailsbinding site for residue EDO A 1706
ChainResidue
ASER1184
ATHR1185
AHOH1897

site_idAC7
Number of Residues5
Detailsbinding site for residue EDO A 1707
ChainResidue
ASER1372
ALEU1374
AHIS1541
AGLU1543
AGLN1544

site_idAC8
Number of Residues3
Detailsbinding site for residue EDO A 1708
ChainResidue
APHE1566
AGLY1567
ALYS1572

Functional Information from PROSITE/UniProt
site_idPS00094
Number of Residues13
DetailsC5_MTASE_1 C-5 cytosine-specific DNA methylases active site. EmLcgGpPCqGFS
ChainResidueDetails
AGLU1218-SER1230

site_idPS00095
Number of Residues19
DetailsC5_MTASE_2 C-5 cytosine-specific DNA methylases C-terminal signature. RqvGNAVpPpLakaIgleI
ChainResidueDetails
AARG1574-ILE1592

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues128
DetailsDomain: {"description":"BAH 2","evidences":[{"source":"PROSITE-ProRule","id":"PRU00370","evidenceCode":"ECO:0000255"}]}
ChainResidueDetails

site_idSWS_FT_FI2
Number of Residues460
DetailsDomain: {"description":"SAM-dependent MTase C5-type","evidences":[{"source":"PROSITE-ProRule","id":"PRU01016","evidenceCode":"ECO:0000255"}]}
ChainResidueDetails

site_idSWS_FT_FI3
Number of Residues1
DetailsActive site: {}
ChainResidueDetails

site_idSWS_FT_FI4
Number of Residues4
DetailsBinding site: {"evidences":[{"source":"UniProtKB","id":"P13864","evidenceCode":"ECO:0000250"}]}
ChainResidueDetails

site_idSWS_FT_FI5
Number of Residues3
DetailsBinding site: {"evidences":[{"source":"PubMed","id":"21163962","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"3PTA","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails

site_idSWS_FT_FI6
Number of Residues1
DetailsModified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"18220336","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails

site_idSWS_FT_FI7
Number of Residues6
DetailsModified residue: {"description":"N6-acetyllysine","evidences":[{"source":"PubMed","id":"21947282","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails

site_idSWS_FT_FI8
Number of Residues1
DetailsModified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"23186163","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails

239803

PDB entries from 2025-08-06

PDB statisticsPDBj update infoContact PDBjnumon