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4BLU

Crystal structure of Escherichia coli 23S rRNA (A2030-N6)- methyltransferase RlmJ

Functional Information from GO Data
ChainGOidnamespacecontents
A0003676molecular_functionnucleic acid binding
A0003723molecular_functionRNA binding
A0005515molecular_functionprotein binding
A0005829cellular_componentcytosol
A0006364biological_processrRNA processing
A0008168molecular_functionmethyltransferase activity
A0008649molecular_functionrRNA methyltransferase activity
A0008988molecular_functionrRNA (adenine-N6-)-methyltransferase activity
A0015976biological_processcarbon utilization
A0016740molecular_functiontransferase activity
A0032259biological_processmethylation
A0036307molecular_function23S rRNA (adenine(2030)-N(6))-methyltransferase activity
A0070475biological_processrRNA base methylation
B0003676molecular_functionnucleic acid binding
B0003723molecular_functionRNA binding
B0005515molecular_functionprotein binding
B0005829cellular_componentcytosol
B0006364biological_processrRNA processing
B0008168molecular_functionmethyltransferase activity
B0008649molecular_functionrRNA methyltransferase activity
B0008988molecular_functionrRNA (adenine-N6-)-methyltransferase activity
B0015976biological_processcarbon utilization
B0016740molecular_functiontransferase activity
B0032259biological_processmethylation
B0036307molecular_function23S rRNA (adenine(2030)-N(6))-methyltransferase activity
B0070475biological_processrRNA base methylation
Functional Information from PDB Data
site_idAC1
Number of Residues9
DetailsBINDING SITE FOR RESIDUE TRS A 1281
ChainResidue
AASN12
AASP15
ALYS18
AASP164
ATRP195
AEDO1283
AEDO1284
AEDO1287
AHOH2290

site_idAC2
Number of Residues7
DetailsBINDING SITE FOR RESIDUE GOL A 1282
ChainResidue
AARG157
ATHR189
AHOH2039
AHOH2110
AHOH2111
AHOH2118
AHOH2227

site_idAC3
Number of Residues9
DetailsBINDING SITE FOR RESIDUE EDO A 1283
ChainResidue
ASER7
AALA10
AASP15
ATYR48
ATYR97
APRO98
ATRS1281
AEDO1287
AHOH2032

site_idAC4
Number of Residues7
DetailsBINDING SITE FOR RESIDUE EDO A 1284
ChainResidue
ALYS18
AHIS42
AASP164
ATRS1281
AHOH2030
AHOH2074
AHOH2199

site_idAC5
Number of Residues5
DetailsBINDING SITE FOR RESIDUE EDO A 1285
ChainResidue
APRO228
AARG233
ATHR269
AHOH2282
AHOH2291

site_idAC6
Number of Residues7
DetailsBINDING SITE FOR RESIDUE EDO A 1286
ChainResidue
AASN83
ALYS86
AHIS87
AARG90
AHOH2292
BEDO1293
BEDO1294

site_idAC7
Number of Residues6
DetailsBINDING SITE FOR RESIDUE EDO A 1287
ChainResidue
ASER7
AHIS9
AALA10
ATRS1281
AEDO1283
AHOH2015

site_idAC8
Number of Residues9
DetailsBINDING SITE FOR RESIDUE SO4 A 1288
ChainResidue
ALEU29
ALYS32
AARG158
AHOH2043
AHOH2197
AHOH2228
AHOH2287
AHOH2288
AHOH2289

site_idAC9
Number of Residues11
DetailsBINDING SITE FOR RESIDUE TRS B 1281
ChainResidue
BASN12
BASP15
BLYS18
BASP164
BTRP195
BGOL1282
BPEG1285
BEDO1286
BHOH2254
BHOH2255
BHOH2256

site_idBC1
Number of Residues9
DetailsBINDING SITE FOR RESIDUE GOL B 1282
ChainResidue
BLYS18
BTYR48
BASP164
BTRS1281
BEDO1286
BHOH2051
BHOH2054
BHOH2257
BHOH2258

site_idBC2
Number of Residues7
DetailsBINDING SITE FOR RESIDUE PEG B 1283
ChainResidue
BARG67
BTYR184
BLYS185
BGLY215
BHOH2175
BHOH2178
BHOH2181

site_idBC3
Number of Residues4
DetailsBINDING SITE FOR RESIDUE PEG B 1284
ChainResidue
BSER262
BLYS263
BPRO266
BHOH2243

site_idBC4
Number of Residues6
DetailsBINDING SITE FOR RESIDUE PEG B 1285
ChainResidue
BSER7
BPHE8
BHIS9
BTRS1281
BHOH2254
BHOH2256

site_idBC5
Number of Residues9
DetailsBINDING SITE FOR RESIDUE EDO B 1286
ChainResidue
BTYR48
BTYR97
BTRS1281
BGOL1282
BHOH2018
BHOH2254
BSER7
BALA10
BASP15

site_idBC6
Number of Residues4
DetailsBINDING SITE FOR RESIDUE EDO B 1287
ChainResidue
BPRO246
BTRP247
BHOH2035
BHOH2036

site_idBC7
Number of Residues3
DetailsBINDING SITE FOR RESIDUE EDO B 1288
ChainResidue
BLYS32
BARG158
BHOH2260

site_idBC8
Number of Residues4
DetailsBINDING SITE FOR RESIDUE EDO B 1289
ChainResidue
BARG109
BGLN111
BHOH2119
BHOH2261

site_idBC9
Number of Residues3
DetailsBINDING SITE FOR RESIDUE EDO B 1290
ChainResidue
BPRO166
BGLU168
BASP172

site_idCC1
Number of Residues6
DetailsBINDING SITE FOR RESIDUE EDO B 1291
ChainResidue
BTHR58
BGLU182
BLYS185
BARG186
BHOH2063
BHOH2176

site_idCC2
Number of Residues6
DetailsBINDING SITE FOR RESIDUE EDO B 1292
ChainResidue
AARG206
BGLU250
BSER275
BTRP276
BHOH2252
BHOH2262

site_idCC3
Number of Residues5
DetailsBINDING SITE FOR RESIDUE EDO B 1293
ChainResidue
AARG90
AEDO1286
BLEU106
BEDO1294
BHOH2037

site_idCC4
Number of Residues7
DetailsBINDING SITE FOR RESIDUE EDO B 1294
ChainResidue
AARG90
AEDO1286
AHOH2046
BARG90
BEDO1293
BHOH2264
BHOH2265

site_idCC5
Number of Residues6
DetailsBINDING SITE FOR RESIDUE SO4 B 1295
ChainResidue
AHIS87
AHOH2151
BARG47
BHIS87
BPHE88
BHOH2115

Functional Information from PROSITE/UniProt
site_idPS00092
Number of Residues7
DetailsN6_MTASE N-6 Adenine-specific DNA methylases signature. ILIDPPY
ChainResidueDetails
AILE161-TYR167
AILE241-TRP247

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues2
DetailsActive site: {"description":"Proton acceptor","evidences":[{"source":"PubMed","id":"23945937","evidenceCode":"ECO:0000305"}]}
ChainResidueDetails

site_idSWS_FT_FI2
Number of Residues12
DetailsBinding site: {"evidences":[{"source":"PubMed","id":"23945937","evidenceCode":"ECO:0000305"}]}
ChainResidueDetails

site_idSWS_FT_FI3
Number of Residues2
DetailsSite: {"description":"Interaction with substrate rRNA","evidences":[{"evidenceCode":"ECO:0000305"}]}
ChainResidueDetails

246704

PDB entries from 2025-12-24

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