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3FDE

Mouse UHRF1 SRA domain bound with hemi-methylated CpG DNA, crystal structure in space group C222(1) at 1.4 A resolution

Functional Information from PDB Data
site_idAC1
Number of Residues6
DetailsBINDING SITE FOR RESIDUE EDO A 629
ChainResidue
AASN479
AARG586
AASP587
AASP588
AHOH662
CUNL359

site_idAC2
Number of Residues5
DetailsBINDING SITE FOR RESIDUE EDO A 630
ChainResidue
ALYS564
AHOH857
AHOH286
AHOH374
APRO536

site_idAC3
Number of Residues7
DetailsBINDING SITE FOR RESIDUE EDO A 631
ChainResidue
AHOH42
AASP476
AGLY545
AGLY546
AHOH651
AHOH653
AHOH700

site_idAC4
Number of Residues7
DetailsBINDING SITE FOR RESIDUE EDO A 632
ChainResidue
ASER549
ALYS550
ATYR551
AALA552
AARG558
ATRP594
ALYS599

site_idAC5
Number of Residues6
DetailsBINDING SITE FOR RESIDUE EDO A 633
ChainResidue
AASN459
AARG511
AHOH682
BHOH144
BHOH325
BPRO430

site_idAC6
Number of Residues6
DetailsBINDING SITE FOR RESIDUE EDO A 634
ChainResidue
AASP460
ALYS535
AHOH661
BARG601
BGLN604
BHOH650

site_idAC7
Number of Residues7
DetailsBINDING SITE FOR RESIDUE EDO A 635
ChainResidue
ASER442
AGLU443
AARG448
AHOH756
AHOH856
EDA429
EDT430

site_idAC8
Number of Residues4
DetailsBINDING SITE FOR RESIDUE EDO A 636
ChainResidue
AASP530
ATRP531
AARG532
AGLN533

site_idAC9
Number of Residues6
DetailsBINDING SITE FOR RESIDUE NA A 637
ChainResidue
APRO449
AHIS450
AVAL451
AALA452
DDG406
EHOH115

site_idBC1
Number of Residues7
DetailsBINDING SITE FOR RESIDUE UNL A 638
ChainResidue
ALEU515
AASN516
ACYS517
AHIS518
AGLN533
AGLY534
BGLN604

site_idBC2
Number of Residues5
DetailsBINDING SITE FOR RESIDUE UNL A 654
ChainResidue
AHOH410
AARG581
AHOH813
BARG572
FHOH835

site_idBC3
Number of Residues7
DetailsBINDING SITE FOR RESIDUE EDO B 629
ChainResidue
ATHR602
AARG603
AGLY606
ALEU607
BHOH267
BGLU529
BTRP531

site_idBC4
Number of Residues5
DetailsBINDING SITE FOR RESIDUE EDO B 630
ChainResidue
BHOH106
BHOH141
BASP476
BGLY545
BHIS548

site_idBC5
Number of Residues6
DetailsBINDING SITE FOR RESIDUE EDO B 631
ChainResidue
BHOH102
BHOH305
BARG586
BASP588
BTHR589
BGLU590

site_idBC6
Number of Residues2
DetailsBINDING SITE FOR RESIDUE EDO B 632
ChainResidue
BHOH671
CHOH18

site_idBC7
Number of Residues6
DetailsBINDING SITE FOR RESIDUE EDO B 633
ChainResidue
AHOH212
AGLU472
BARG572
BGLY573
BLYS574
BGLY576

site_idBC8
Number of Residues5
DetailsBINDING SITE FOR RESIDUE NA B 634
ChainResidue
BHIS450
BVAL451
BALA452
CDG406
FHOH72

site_idBC9
Number of Residues5
DetailsBINDING SITE FOR RESIDUE UNL B 655
ChainResidue
BASN479
BTYR480
BARG585
AARG603
AGLN604

site_idCC1
Number of Residues12
DetailsBINDING SITE FOR RESIDUE UNL B 322
ChainResidue
BHOH347
BLEU515
BASN516
BCYS517
BHIS518
BGLN533
BGLY534
BHOH660
BHOH692
BHOH694
DDT405
DDG406

site_idCC2
Number of Residues5
DetailsBINDING SITE FOR RESIDUE UNL B 215
ChainResidue
BHOH335
BASP476
BSER549
BLYS550
BTYR551

site_idCC3
Number of Residues8
DetailsBINDING SITE FOR RESIDUE UNL B 636
ChainResidue
BGLY487
BGLY488
BARG489
BSER502
BHOH638
CHOH183
CUNL456
CUNL637

site_idCC4
Number of Residues7
DetailsBINDING SITE FOR RESIDUE EDO D 502
ChainResidue
AASN509
DDT405
EHOH128
EDT430
EDG431
EEDO501
ENA504

site_idCC5
Number of Residues8
DetailsBINDING SITE FOR RESIDUE EDO E 501
ChainResidue
DDA404
DDT405
DEDO502
EDT430
EDG431
EDG432
ENA504
EHOH855

site_idCC6
Number of Residues5
DetailsBINDING SITE FOR RESIDUE EDO E 503
ChainResidue
ATHR497
EDC423
EDA424
EDG425
EHOH446

site_idCC7
Number of Residues5
DetailsBINDING SITE FOR RESIDUE NA E 504
ChainResidue
DEDO502
DHOH621
EDT430
EDG431
EEDO501

site_idCC8
Number of Residues6
DetailsBINDING SITE FOR RESIDUE EDO C 505
ChainResidue
BASN509
CDT405
FHOH59
FDT430
FNA503
FEDO506

site_idCC9
Number of Residues5
DetailsBINDING SITE FOR RESIDUE UNL C 359
ChainResidue
AASN479
AARG586
AEDO629
CHOH70
CDC402

site_idDC1
Number of Residues7
DetailsBINDING SITE FOR RESIDUE UNL C 456
ChainResidue
BGLY487
BUNL636
CHOH56
CHOH183
CDT405
CDG406
CUNL637

site_idDC2
Number of Residues8
DetailsBINDING SITE FOR RESIDUE UNL C 637
ChainResidue
BARG489
BLEU491
BUNL636
CHOH113
CHOH135
CDT405
CDG406
CUNL456

site_idDC3
Number of Residues8
DetailsBINDING SITE FOR RESIDUE EDO F 506
ChainResidue
CDA404
CDT405
CEDO505
FHOH264
FDT430
FDG431
FDG432
FNA503

site_idDC4
Number of Residues3
DetailsBINDING SITE FOR RESIDUE EDO F 509
ChainResidue
FDG431
FDG432
FEDO510

site_idDC5
Number of Residues7
DetailsBINDING SITE FOR RESIDUE EDO F 510
ChainResidue
AVAL566
ALEU583
AARG585
BARG457
FHOH219
FDG431
FEDO509

site_idDC6
Number of Residues2
DetailsBINDING SITE FOR RESIDUE EDO F 511
ChainResidue
AARG585
FDG431

site_idDC7
Number of Residues6
DetailsBINDING SITE FOR RESIDUE EDO F 513
ChainResidue
BTHR497
BHOH639
FHOH327
FDC423
FDA424
FDG425

site_idDC8
Number of Residues5
DetailsBINDING SITE FOR RESIDUE NA F 503
ChainResidue
CHOH33
CEDO505
FDT430
FDG431
FEDO506

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues4
DetailsBINDING: BINDING => ECO:0000250
ChainResidueDetails
AALA468
AASP474
BALA468
BASP474

site_idSWS_FT_FI2
Number of Residues2
DetailsSITE: Required to confer preferential recognition of cytosine over thymine => ECO:0000250
ChainResidueDetails
ATHR484
BTHR484

site_idSWS_FT_FI3
Number of Residues2
DetailsSITE: Required to discriminate between hemimethylated DNA versus symmetrically methylated DNA
ChainResidueDetails
AASN494
BASN494

site_idSWS_FT_FI4
Number of Residues2
DetailsSITE: Required for affinity and specificity for 5-mCpG sequence
ChainResidueDetails
AARG496
BARG496

site_idSWS_FT_FI5
Number of Residues2
DetailsMOD_RES: Phosphoserine => ECO:0007744|PubMed:21183079
ChainResidueDetails
ASER519
BSER519

site_idSWS_FT_FI6
Number of Residues2
DetailsMOD_RES: N6-acetyllysine; alternate => ECO:0000250|UniProtKB:Q96T88
ChainResidueDetails
ALYS550
BLYS550

site_idSWS_FT_FI7
Number of Residues4
DetailsCROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2); alternate => ECO:0000250|UniProtKB:Q96T88
ChainResidueDetails
ALYS550
BLYS550

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PDB entries from 2024-10-30

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