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6WEA

YTH domain of human YTHDC1 with a 10mer Oligo Containing N6mA

Functional Information from GO Data
ChainGOidnamespacecontents
A0003723molecular_functionRNA binding
B0003723molecular_functionRNA binding
C0003723molecular_functionRNA binding
D0003723molecular_functionRNA binding
Functional Information from PDB Data
site_idAC1
Number of Residues7
Detailsbinding site for residue EDO A 601
ChainResidue
AHIS365
ASER369
ALYS372
AGLN410
ANA612
AHOH718
AHOH773

site_idAC2
Number of Residues8
Detailsbinding site for residue SO4 A 602
ChainResidue
AALA432
AHOH701
AHOH704
AHOH741
AHOH807
CARG392
AASN363
APRO431

site_idAC3
Number of Residues5
Detailsbinding site for residue SO4 A 603
ChainResidue
ASER424
APRO425
ALYS457
AHOH706
AHOH764

site_idAC4
Number of Residues3
Detailsbinding site for residue SO4 A 604
ChainResidue
AARG404
AARG475
AHOH802

site_idAC5
Number of Residues5
Detailsbinding site for residue EDO A 605
ChainResidue
AHIS460
ALEU461
ATHR462
ACYS484
AHOH789

site_idAC6
Number of Residues4
Detailsbinding site for residue SO4 A 606
ChainResidue
AARG451
APRO493
AHOH707
AHOH783

site_idAC7
Number of Residues7
Detailsbinding site for residue SO4 A 607
ChainResidue
ATHR345
ASER346
ALYS347
AHOH710
AHOH725
DTRP465
DHOH710

site_idAC8
Number of Residues4
Detailsbinding site for residue EDO A 608
ChainResidue
ATRP465
AHOH702
AHOH705
AHOH748

site_idAC9
Number of Residues5
Detailsbinding site for residue EDO A 609
ChainResidue
AASN466
AGLU467
ALYS469
ASO4613
AHOH736

site_idAD1
Number of Residues6
Detailsbinding site for residue EDO A 610
ChainResidue
AHIS365
ASER406
ALYS408
AGLN410
AGLU452
BARG451

site_idAD2
Number of Residues4
Detailsbinding site for residue EDO A 611
ChainResidue
AASP499
DARG356
DLYS386
DHOH707

site_idAD3
Number of Residues4
Detailsbinding site for residue NA A 612
ChainResidue
ASER369
AEDO601
BSER369
BEDO601

site_idAD4
Number of Residues3
Detailsbinding site for residue SO4 A 613
ChainResidue
ALYS469
AEDO609
EDC7

site_idAD5
Number of Residues7
Detailsbinding site for residue EDO B 601
ChainResidue
ANA612
BHIS365
BSER369
BLYS372
BGLN410
BHOH724
BHOH760

site_idAD6
Number of Residues5
Detailsbinding site for residue SO4 B 602
ChainResidue
BSER424
BPRO425
BLYS457
BHOH702
BHOH713

site_idAD7
Number of Residues6
Detailsbinding site for residue SO4 B 603
ChainResidue
BASN363
BPRO431
BALA432
BHOH701
BHOH778
DARG392

site_idAD8
Number of Residues3
Detailsbinding site for residue SO4 B 604
ChainResidue
BARG404
BARG475
BHOH768

site_idAD9
Number of Residues4
Detailsbinding site for residue SO4 B 605
ChainResidue
BARG451
BPRO493
BHOH709
BHOH752

site_idAE1
Number of Residues5
Detailsbinding site for residue EDO B 606
ChainResidue
BPRO464
BTRP465
BHOH704
BHOH710
BHOH762

site_idAE2
Number of Residues6
Detailsbinding site for residue EDO B 607
ChainResidue
BGLN410
BGLU452
AARG451
BHIS365
BSER406
BLYS408

site_idAE3
Number of Residues3
Detailsbinding site for residue EDO C 601
ChainResidue
CLYS386
CGLN478
CGLU479

site_idAE4
Number of Residues2
Detailsbinding site for residue SO4 C 602
ChainResidue
CARG451
CGLU452

site_idAE5
Number of Residues7
Detailsbinding site for residue SO4 D 601
ChainResidue
ALYS347
DLYS386
DTRP465
DGLN478
DGLU479
DHOH707
DHOH710

site_idAE6
Number of Residues3
Detailsbinding site for residue SO4 D 602
ChainResidue
DARG451
DGLU452
DHOH708

site_idAE7
Number of Residues5
Detailsbinding site for residue EDO D 603
ChainResidue
DHIS365
DSER369
DLYS372
DGLN410
DHOH714

site_idAE8
Number of Residues2
Detailsbinding site for residue EDO G 101
ChainResidue
GDC7
GHOH202

site_idAE9
Number of Residues27
Detailsbinding site for Di-nucleotide DG E 5 and 6MA E 6
ChainResidue
ALYS361
ASER362
AASN363
AASN367
ATRP377
ASER378
ALEU380
APRO381
AARG404
ATRP428
AMET438
AASP476
EDC3
EDG4
EDC7
EHOH102
EHOH110
EHOH111
EHOH115
EHOH117
EHOH118
EHOH119
EHOH120
EHOH124
EHOH125
EHOH127
EHOH131

site_idAF1
Number of Residues24
Detailsbinding site for Di-nucleotide 6MA E 6 and DC E 7
ChainResidue
ALYS361
ASER362
AASN363
AASN367
ATRP377
ASER378
ALEU380
AARG404
ATRP428
AILE473
AGLY474
AARG475
AASP476
ASO4613
AHOH726
AHOH736
EDG5
EDT8
EHOH102
EHOH109
EHOH111
EHOH117
EHOH120
EHOH131

site_idAF2
Number of Residues17
Detailsbinding site for Di-nucleotide DG F 5 and 6MA F 6
ChainResidue
CLYS361
CSER362
CASN363
CASN367
CTRP377
CSER378
CARG404
CPRO431
CALA432
CGLY433
CMET438
CASP476
CHOH716
EDC10
FDG4
FDC7
FHOH101

site_idAF3
Number of Residues17
Detailsbinding site for Di-nucleotide 6MA F 6 and DC F 7
ChainResidue
CLYS361
CSER362
CASN363
CASN367
CTRP377
CSER378
CARG404
CPRO431
CGLY474
CARG475
CASP476
CHOH716
FDG5
FDT8
FHOH101
FHOH104
FHOH108

site_idAF4
Number of Residues25
Detailsbinding site for Di-nucleotide DG G 5 and 6MA G 6
ChainResidue
BLYS361
BSER362
BASN363
BASN367
BTRP377
BSER378
BLEU380
BPRO381
BTRP428
BMET438
BASP476
BHOH740
BHOH761
GDC3
GDG4
GDC7
GHOH208
GHOH209
GHOH212
GHOH213
GHOH214
GHOH218
GHOH219
GHOH223
GHOH225

site_idAF5
Number of Residues23
Detailsbinding site for Di-nucleotide 6MA G 6 and DC G 7
ChainResidue
BLYS361
BSER362
BASN363
BASN367
BTRP377
BSER378
BLEU380
BARG404
BTRP428
BILE473
BGLY474
BARG475
BASP476
BHOH740
BHOH761
BHOH766
GDG5
GDT8
GEDO101
GHOH208
GHOH213
GHOH215
GHOH216

site_idAF6
Number of Residues17
Detailsbinding site for Di-nucleotide DG H 5 and 6MA H 6
ChainResidue
DLYS361
DSER362
DASN363
DASN367
DTRP377
DSER378
DLEU380
DARG404
DTRP428
DPRO431
DGLY433
DMET438
DASP476
DHOH725
GDC10
HDG4
HDC7

site_idAF7
Number of Residues18
Detailsbinding site for Di-nucleotide 6MA H 6 and DC H 7
ChainResidue
DLYS361
DSER362
DASN363
DASN367
DTRP377
DSER378
DLEU380
DARG404
DTRP428
DPRO431
DGLY474
DARG475
DASP476
DHOH725
HDG5
HDT8
HHOH103
HHOH109

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues8
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
CLYS361
CASP476
DLYS361
DASP476

site_idSWS_FT_FI2
Number of Residues4
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
CTRP377
DTRP377

site_idSWS_FT_FI3
Number of Residues4
DetailsBINDING: BINDING => ECO:0000269|PubMed:25242552
ChainResidueDetails
ATRP428
BTRP428
CTRP428
DTRP428

site_idSWS_FT_FI4
Number of Residues4
DetailsMOD_RES: Phosphoserine => ECO:0007744|PubMed:18669648, ECO:0007744|PubMed:20068231, ECO:0007744|PubMed:23186163
ChainResidueDetails
ASER424
BSER424
CSER424
DSER424

site_idSWS_FT_FI5
Number of Residues4
DetailsMOD_RES: Phosphoserine => ECO:0007744|PubMed:20068231
ChainResidueDetails
ASER435
BSER435
CSER435
DSER435

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PDB entries from 2024-11-06

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