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3BBD

M. jannaschii Nep1 complexed with S-adenosyl-homocysteine

Functional Information from GO Data
ChainGOidnamespacecontents
A0003723molecular_functionRNA binding
A0006364biological_processrRNA processing
A0008168molecular_functionmethyltransferase activity
A0016740molecular_functiontransferase activity
A0019843molecular_functionrRNA binding
A0032259biological_processmethylation
A0042254biological_processribosome biogenesis
A0042803molecular_functionprotein homodimerization activity
A0070037molecular_functionrRNA (pseudouridine) methyltransferase activity
A0070475biological_processrRNA base methylation
B0003723molecular_functionRNA binding
B0006364biological_processrRNA processing
B0008168molecular_functionmethyltransferase activity
B0016740molecular_functiontransferase activity
B0019843molecular_functionrRNA binding
B0032259biological_processmethylation
B0042254biological_processribosome biogenesis
B0042803molecular_functionprotein homodimerization activity
B0070037molecular_functionrRNA (pseudouridine) methyltransferase activity
B0070475biological_processrRNA base methylation
Functional Information from PDB Data
site_idAC1
Number of Residues17
DetailsBINDING SITE FOR RESIDUE SAH A 206
ChainResidue
AMSE141
ASER184
AILE185
ATYR186
ALYS188
ALEU190
AVAL195
AHOH327
AHOH328
ATHR142
ALYS143
AILE161
AGLY162
APHE164
APRO165
AGLY167
AILE183

site_idAC2
Number of Residues8
DetailsBINDING SITE FOR RESIDUE GOL A 207
ChainResidue
AASP128
AHOH321
AHOH323
BLYS22
BILE23
BARG24
BTYR38
BHIS39

site_idAC3
Number of Residues6
DetailsBINDING SITE FOR RESIDUE GOL A 208
ChainResidue
ATHR2
AASN4
AASN77
AILE133
AASN134
AASP157

site_idAC4
Number of Residues4
DetailsBINDING SITE FOR RESIDUE GOL A 209
ChainResidue
ALYS124
AGLU132
AILE133
AHOH244

site_idAC5
Number of Residues4
DetailsBINDING SITE FOR RESIDUE GOL A 210
ChainResidue
AASN71
AHIS72
ALYS74
APRO92

site_idAC6
Number of Residues16
DetailsBINDING SITE FOR RESIDUE SAH B 207
ChainResidue
BMSE141
BTHR142
BLYS143
BILE161
BGLY162
BPHE164
BPRO165
BGLY167
BSER184
BILE185
BTYR186
BLYS188
BLEU190
BVAL195
BHOH283
BHOH357

site_idAC7
Number of Residues6
DetailsBINDING SITE FOR RESIDUE GOL B 208
ChainResidue
ALYS136
BTYR79
BLYS89
BGLU132
BILE133
BHOH300

site_idAC8
Number of Residues6
DetailsBINDING SITE FOR RESIDUE GOL B 209
ChainResidue
ATYR201
ASER202
APHE205
BPRO150
BTYR201
BSER202

site_idAC9
Number of Residues5
DetailsBINDING SITE FOR RESIDUE GOL B 210
ChainResidue
BTHR2
BASN4
BILE133
BASN134
BASP157

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues4
DetailsBinding site: {}
ChainResidueDetails

site_idSWS_FT_FI2
Number of Residues8
DetailsSite: {"description":"Interaction with substrate rRNA"}
ChainResidueDetails

site_idSWS_FT_FI3
Number of Residues2
DetailsSite: {"description":"Stabilizes Arg-54"}
ChainResidueDetails

244693

PDB entries from 2025-11-12

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