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6JKI

Crystal structure and catalytic mechanism of the essential m1G37 tRNA methyltransferase TrmD from Pseudomonas aeruginosa

Functional Information from GO Data
ChainGOidnamespacecontents
A0002939biological_processtRNA N1-guanine methylation
A0005737cellular_componentcytoplasm
A0005829cellular_componentcytosol
A0006400biological_processtRNA modification
A0008033biological_processtRNA processing
A0008168molecular_functionmethyltransferase activity
A0032259biological_processmethylation
A0052906molecular_functiontRNA (guanine(37)-N1)-methyltransferase activity
B0002939biological_processtRNA N1-guanine methylation
B0005737cellular_componentcytoplasm
B0005829cellular_componentcytosol
B0006400biological_processtRNA modification
B0008033biological_processtRNA processing
B0008168molecular_functionmethyltransferase activity
B0032259biological_processmethylation
B0052906molecular_functiontRNA (guanine(37)-N1)-methyltransferase activity
Functional Information from PDB Data
site_idAC1
Number of Residues20
Detailsbinding site for residue SFG A 301
ChainResidue
ATYR91
AILE138
AGLY139
ATYR141
ALEU143
AGLY145
AGLY146
APRO149
BASP174
BSER175
BASP182
ALEU92
BMN509
ASER93
APRO94
AGLN95
AGLY118
ATYR120
AGLU121
ASER137

site_idAC2
Number of Residues4
Detailsbinding site for residue GOL A 302
ChainResidue
APRO14
ALEU37
AHOH410
AHOH416

site_idAC3
Number of Residues10
Detailsbinding site for residue GOL A 303
ChainResidue
ATYR91
AGLN95
AGLY122
AILE123
AGLU125
AHOH414
AHOH418
BCYS183
BPRO184
BHIS185

site_idAC4
Number of Residues1
Detailsbinding site for residue GOL A 304
ChainResidue
ALYS31

site_idAC5
Number of Residues3
Detailsbinding site for residue GOL A 305
ChainResidue
AGLU173
AASP174
BGLU121

site_idAC6
Number of Residues19
Detailsbinding site for residue SFG A 306
ChainResidue
ASER175
AASP182
AMN307
BTYR91
BLEU92
BSER93
BPRO94
BGLN95
BGLY118
BTYR120
BGLU121
BSER137
BILE138
BGLY139
BTYR141
BLEU143
BGLY145
BGLY146
BPRO149

site_idAC7
Number of Residues6
Detailsbinding site for residue MN A 307
ChainResidue
AGLU173
AASP174
AASP182
ASFG306
BGLU121
BHOH601

site_idAC8
Number of Residues2
Detailsbinding site for residue MN A 308
ChainResidue
AGLU129
BTYR186

site_idAC9
Number of Residues9
Detailsbinding site for residue PEG B 501
ChainResidue
AALA19
ATYR23
ATHR26
AASP155
BARG119
BSER144
BGLY145
BLEU148
BPRO149

site_idAD1
Number of Residues4
Detailsbinding site for residue GOL B 502
ChainResidue
BPRO14
BPHE17
BSER21
BLEU37

site_idAD2
Number of Residues2
Detailsbinding site for residue GOL B 503
ChainResidue
AALA243
BVAL44

site_idAD3
Number of Residues5
Detailsbinding site for residue GOL B 504
ChainResidue
BARG43
BARG49
BGLN51
BTRP222
BGLU223

site_idAD4
Number of Residues3
Detailsbinding site for residue PEG B 505
ChainResidue
BASP174
BTHR177
BASP182

site_idAD5
Number of Residues6
Detailsbinding site for residue GOL B 506
ChainResidue
BASP54
BTYR120
BGLU223
BTYR245
BARG249
BHOH604

site_idAD6
Number of Residues5
Detailsbinding site for residue GOL B 507
ChainResidue
BGLY73
BALA76
BASP77
BGLN80
BHOH639

site_idAD7
Number of Residues5
Detailsbinding site for residue GOL B 508
ChainResidue
BASP133
BGLY236
BGLU237
BLYS240
BHOH636

site_idAD8
Number of Residues6
Detailsbinding site for residue MN B 509
ChainResidue
AGLU121
ASFG301
BGLU173
BASP174
BASP182
BHIS185

site_idAD9
Number of Residues2
Detailsbinding site for residue NA B 510
ChainResidue
BARG188
BLEU202

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues4
DetailsBINDING: BINDING => ECO:0000250
ChainResidueDetails
AGLY118
AILE138
BGLY118
BILE138

219140

PDB entries from 2024-05-01

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