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6XDH

Crystal Structure of NendoU (Uridylate-specific endoribonuclease, nsp15) from Betacoronavirus SARS-CoV-2

Functional Information from GO Data
ChainGOidnamespacecontents
A0016627molecular_functionoxidoreductase activity, acting on the CH-CH group of donors
A0050660molecular_functionflavin adenine dinucleotide binding
B0016627molecular_functionoxidoreductase activity, acting on the CH-CH group of donors
B0050660molecular_functionflavin adenine dinucleotide binding
Functional Information from PDB Data
site_idAC1
Number of Residues6
Detailsbinding site for residue ACT A 401
ChainResidue
AASP37
AASN74
AGLY77
AVAL78
AASP79
AHOH509

site_idAC2
Number of Residues9
Detailsbinding site for residue CIT A 402
ChainResidue
AGLY247
AGLY248
AHIS250
ALYS290
ATHR341
ATYR343
AHIS235
AGLN245
ALEU246

site_idAC3
Number of Residues3
Detailsbinding site for residue FMT A 403
ChainResidue
ASER244
AGLN245
ASER289

site_idAC4
Number of Residues4
Detailsbinding site for residue FMT A 404
ChainResidue
ALEU312
ALYS335
AASP336
AGLY337

site_idAC5
Number of Residues5
Detailsbinding site for residue FMT B 401
ChainResidue
ALYS150
AGLY151
BLYS320
BVAL321
BTHR322

site_idAC6
Number of Residues3
Detailsbinding site for residue ACT B 402
ChainResidue
BASN74
BVAL78
BHOH662

site_idAC7
Number of Residues3
Detailsbinding site for residue FMT B 403
ChainResidue
BGLY126
BTHR145
BGLU146

site_idAC8
Number of Residues9
Detailsbinding site for residue CIT B 404
ChainResidue
BHIS235
BLEU246
BGLY247
BGLY248
BHIS250
BLYS290
BTHR341
BTYR343
BHOH604

site_idAC9
Number of Residues2
Detailsbinding site for residue ACT B 405
ChainResidue
BTYR226
BLYS308

site_idAD1
Number of Residues1
Detailsbinding site for residue EDO B 406
ChainResidue
BGLU45

site_idAD2
Number of Residues2
Detailsbinding site for residue FMT B 407
ChainResidue
BGLU229
BGLY337

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues2
DetailsACT_SITE: Proton donor; for uridylate-specific endoribonuclease nsp15 activity => ECO:0000269|PubMed:33504779, ECO:0000269|PubMed:33564093
ChainResidueDetails
AHIS235
BHIS235

site_idSWS_FT_FI2
Number of Residues2
DetailsACT_SITE: Proton acceptor; for uridylate-specific endoribonuclease nsp15 activity => ECO:0000269|PubMed:33504779, ECO:0000269|PubMed:33564093
ChainResidueDetails
AHIS250
BHIS250

site_idSWS_FT_FI3
Number of Residues2
DetailsACT_SITE: For uridylate-specific endoribonuclease nsp15 activity => ECO:0000269|PubMed:33504779
ChainResidueDetails
ALYS290
BLYS290

site_idSWS_FT_FI4
Number of Residues2
DetailsBINDING: BINDING => ECO:0000269|PubMed:33504779, ECO:0000269|PubMed:33564093
ChainResidueDetails
ALYS290
BLYS290

site_idSWS_FT_FI5
Number of Residues2
DetailsBINDING: BINDING => ECO:0000269|PubMed:33564093
ChainResidueDetails
ATHR341
BTHR341

site_idSWS_FT_FI6
Number of Residues2
DetailsSITE: Transition state stabilizer => ECO:0000269|PubMed:33504779, ECO:0000269|PubMed:33564093
ChainResidueDetails
ALYS290
BLYS290

site_idSWS_FT_FI7
Number of Residues2
DetailsSITE: Uracil recognition site => ECO:0000269|PubMed:33504779, ECO:0000269|PubMed:33564093
ChainResidueDetails
ASER294
BSER294

site_idSWS_FT_FI8
Number of Residues2
DetailsSITE: Cleavage; by 3CL-PRO => ECO:0000250|UniProtKB:P0C6V3
ChainResidueDetails
AGLN347
BGLN347

218853

PDB entries from 2024-04-24

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