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6ZD9

Crystal structure of YTHDC1 apo purified using GST tag

Functional Information from GO Data
ChainGOidnamespacecontents
A0003723molecular_functionRNA binding
B0003723molecular_functionRNA binding
Functional Information from PDB Data
site_idAC1
Number of Residues6
Detailsbinding site for residue SO4 A 602
ChainResidue
AGLY344
ASER346
ALYS347
AHOH712
BLYS386
BGLU479

site_idAC2
Number of Residues2
Detailsbinding site for residue SO4 A 603
ChainResidue
AHIS420
AHIS421

site_idAC3
Number of Residues8
Detailsbinding site for residue PEG B 601
ChainResidue
BLYS385
BASN388
BARG392
BLYS457
BHOH706
BHOH759
BHOH800
BGLU384

site_idAC4
Number of Residues6
Detailsbinding site for residue PEG B 602
ChainResidue
BHIS420
BHIS421
BARG451
BPRO494
BHOH863
BHOH895

site_idAC5
Number of Residues8
Detailsbinding site for residue SO4 B 604
ChainResidue
BARG451
BGLU452
BHOH722
BHOH739
BHOH745
BHOH751
BHOH774
BHOH810

site_idAC6
Number of Residues5
Detailsbinding site for residue SO4 B 605
ChainResidue
BGLY344
BLYS347
BHOH703
BHOH704
BHOH813

site_idAC7
Number of Residues7
Detailsbinding site for residue SO4 B 606
ChainResidue
BASN363
BARG404
BMET434
BSER435
BALA436
BHOH834
BHOH845

site_idAC8
Number of Residues7
Detailsbinding site for residue PEG B 607
ChainResidue
BGLU405
BSER406
BGLY407
BPHE455
BHOH753
BHOH763
BHOH866

site_idAC9
Number of Residues32
Detailsbinding site for Di-peptide PEG A 601 and LYS B 361
ChainResidue
ALEU359
AILE360
ASER362
ASER402
AARG404
APRO425
ALYS472
AGLY474
AASP476
AHOH765
AHOH789
BILE360
BSER362
BGLU384
BLYS385
BASN388
BARG392
BSER402
BARG404
BARG404
BLYS457
BGLY474
BGLY474
BARG475
BASP476
BASP476
BHOH702
BHOH706
BHOH734
BHOH740
BHOH759
BHOH800

site_idAD1
Number of Residues13
Detailsbinding site for Di-peptide PEG B 603 and TRP B 428
ChainResidue
BTYR350
BGLN353
BASN367
BILE426
BHIS427
BHIS427
BVAL429
BVAL429
BLEU430
BMET438
BHOH707
BHOH746
BHOH796

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues4
DetailsBINDING: BINDING => ECO:0000269|PubMed:31670957, ECO:0007744|PDB:6RT4, ECO:0007744|PDB:6RT5, ECO:0007744|PDB:6RT6, ECO:0007744|PDB:6RT7
ChainResidueDetails
ALYS361
AASP476
BLYS361
BASP476

site_idSWS_FT_FI2
Number of Residues2
DetailsBINDING: BINDING => ECO:0000269|PubMed:25242552, ECO:0000269|PubMed:31670957, ECO:0007744|PDB:6RT4, ECO:0007744|PDB:6RT5, ECO:0007744|PDB:6RT6, ECO:0007744|PDB:6RT7
ChainResidueDetails
ATRP377
BTRP377

site_idSWS_FT_FI3
Number of Residues2
DetailsBINDING: BINDING => ECO:0000269|PubMed:25242552
ChainResidueDetails
ATRP428
BTRP428

site_idSWS_FT_FI4
Number of Residues2
DetailsMOD_RES: Phosphoserine => ECO:0007744|PubMed:18669648, ECO:0007744|PubMed:20068231, ECO:0007744|PubMed:23186163
ChainResidueDetails
ASER424
BSER424

site_idSWS_FT_FI5
Number of Residues2
DetailsMOD_RES: Phosphoserine => ECO:0007744|PubMed:20068231
ChainResidueDetails
ASER435
BSER435

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PDB entries from 2024-07-17

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