PDB entry 5h4v

View 5h4v on RCSB PDB site
Description: Structure of glutamyl-tRNA synthetase (Xoo1504) from Xanthomonas oryzae pv. oryzae
Class: ligase
Keywords: Glutamyl-tRNA aminoacylation, Ligase, ATP binding, Nucleotide binding
Deposited on 2016-11-02, released 2017-10-11
The last revision prior to the SCOPe 2.06 freeze date was dated 2017-10-11, with a file datestamp of 2017-10-06.
Experiment type: XRAY
Resolution: 3 Å
R-factor: N/A
AEROSPACI score: 0.13 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: Glutamate--tRNA ligase
    Species: Xanthomonas oryzae pv. oryzae (strain KACC10331 / KXO85) [TaxId:291331]
    Gene: gltX, XOO1504
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d5h4va1, d5h4va2
  • Chain 'B':
    Compound: Glutamate--tRNA ligase
    Species: Xanthomonas oryzae pv. oryzae (strain KACC10331 / KXO85) [TaxId:291331]
    Gene: gltX, XOO1504
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d5h4vb1, d5h4vb2
  • Chain 'C':
    Compound: Glutamate--tRNA ligase
    Species: Xanthomonas oryzae pv. oryzae (strain KACC10331 / KXO85) [TaxId:291331]
    Gene: gltX, XOO1504
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d5h4vc1, d5h4vc2
  • Chain 'D':
    Compound: Glutamate--tRNA ligase
    Species: Xanthomonas oryzae pv. oryzae (strain KACC10331 / KXO85) [TaxId:291331]
    Gene: gltX, XOO1504
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d5h4vd1, d5h4vd2
  • Chain 'E':
    Compound: Glutamate--tRNA ligase
    Species: Xanthomonas oryzae pv. oryzae (strain KACC10331 / KXO85) [TaxId:291331]
    Gene: gltX, XOO1504
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d5h4ve1, d5h4ve2
  • Chain 'F':
    Compound: Glutamate--tRNA ligase
    Species: Xanthomonas oryzae pv. oryzae (strain KACC10331 / KXO85) [TaxId:291331]
    Gene: gltX, XOO1504
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d5h4vf1, d5h4vf2
  • Heterogens: HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download) 
    >5h4vA (A:)
mghhhhhhssenlyfqghmasmacrtrfapsptgylhiggartalycwlearrrggqfvl
riedtdrqrstqaaidaileamqwlglgydegpiyqtqrvaryqevaeqllaqgkayyay
etreeldamreaamakqekprydgaareqnlpyrddpnrvirfknpiggtvvfddlikgr
ieianselddmvifrpdglptynfavvvddwdmgitevirgddhinntprqiniyaalga
pvpkfahmpmildeqgtklskrtgaadvmqykdagylphalinylarlgwshgdqelftp
qelldlfdvkdvnskaarldmaklgwvnqhylktddpasiapqleyqlaklgvdlaagpa
aadvvvalrervhtlkemaekavvwyqpletydaaavmkhlklgaevplgkarellaavd
qwsvdsvsaalhdaaaalelgmgkvaqplrvaitgtqvspdisqtvylagregalkrida
altkigaa

    Sequence, based on observed residues (ATOM records): (download) 
    >5h4vA (A:)
acrtrfapsptgylhiggartalycwlearrrggqfvlriedtdrqrstqaaidaileam
qwlglgydegpiyqtqrvaryqevaeqllaqgkayyayetreeldamreaamakqekpry
dgaareqnlpyrddpnrvirfknpiggtvvfddlikgrieianselddmvifrpdglpty
nfavvvddwdmgitevirgddhinntprqiniyaalgapvpkfahmpmildeqgtklskr
tgaadvmqykdagylphalinylarlgwshgdqelftpqelldlfdvkdvnskaarldma
klgwvnqhylktddpasiapqleyqlaklgvdlaagpaaadvvvalrervhtlkemaeka
vvwyqpletydaaavmkhlklgaevplgkarellaavdqwsvdsvsaalhdaaaalelgm
gkvaqplrvaitgtqvspdisqtvylagregalkridaaltkiga

  • Chain 'B':
    Sequence, based on SEQRES records: (download) 
    >5h4vB (B:)
mghhhhhhssenlyfqghmasmacrtrfapsptgylhiggartalycwlearrrggqfvl
riedtdrqrstqaaidaileamqwlglgydegpiyqtqrvaryqevaeqllaqgkayyay
etreeldamreaamakqekprydgaareqnlpyrddpnrvirfknpiggtvvfddlikgr
ieianselddmvifrpdglptynfavvvddwdmgitevirgddhinntprqiniyaalga
pvpkfahmpmildeqgtklskrtgaadvmqykdagylphalinylarlgwshgdqelftp
qelldlfdvkdvnskaarldmaklgwvnqhylktddpasiapqleyqlaklgvdlaagpa
aadvvvalrervhtlkemaekavvwyqpletydaaavmkhlklgaevplgkarellaavd
qwsvdsvsaalhdaaaalelgmgkvaqplrvaitgtqvspdisqtvylagregalkrida
altkigaa

    Sequence, based on observed residues (ATOM records): (download) 
    >5h4vB (B:)
acrtrfapsptgylhiggartalycwlearrrggqfvlriedtdrqrstqaaidaileam
qwlglgydegpiyqtqrvaryqevaeqllaqgkayyayetreeldamreaamakqekpry
dgaareqnlpyrddpnrvirfknpiggtvvfddlikgrieianselddmvifrpdglpty
nfavvvddwdmgitevirgddhinntprqiniyaalgapvpkfahmpmildeqgtklaad
vmqykdagylphalinylarlgwshgdqelftpqelldlfdvkdvnskaarldmaklgwv
nqhylktddpasiapqleyqlaklgvdlaagpaaadvvvalrervhtlkemaekavvwyq
pletydaaavmkhlklgaevplgkarellaavdqwsvdsvsaalhdaaaalelgmgkvaq
plrvaitgtqvspdisqtvylagregalkridaaltkiga

  • Chain 'C':
    Sequence, based on SEQRES records: (download) 
    >5h4vC (C:)
mghhhhhhssenlyfqghmasmacrtrfapsptgylhiggartalycwlearrrggqfvl
riedtdrqrstqaaidaileamqwlglgydegpiyqtqrvaryqevaeqllaqgkayyay
etreeldamreaamakqekprydgaareqnlpyrddpnrvirfknpiggtvvfddlikgr
ieianselddmvifrpdglptynfavvvddwdmgitevirgddhinntprqiniyaalga
pvpkfahmpmildeqgtklskrtgaadvmqykdagylphalinylarlgwshgdqelftp
qelldlfdvkdvnskaarldmaklgwvnqhylktddpasiapqleyqlaklgvdlaagpa
aadvvvalrervhtlkemaekavvwyqpletydaaavmkhlklgaevplgkarellaavd
qwsvdsvsaalhdaaaalelgmgkvaqplrvaitgtqvspdisqtvylagregalkrida
altkigaa

    Sequence, based on observed residues (ATOM records): (download) 
    >5h4vC (C:)
acrtrfapsptgylhiggartalycwlearrrggqfvlriedtdrqstqaaidaileamq
wlglgydegpiyqtqrvaryqevaeqllaqgkayyayetreeldamreaamakqekpryd
gaareqnlpyrddpnrvirfknpiggtvvfddlikgrieianselddmvifrpdglptyn
favvvddwdmgitevirgddhinntprqiniyaalgapvpkfahmpmildeqgklskadv
mqykdagylphalinylarlgwshgdqelftpqelldlfdvkdvnskaarldmaklgwvn
qhylktddpasiapqleyqlaklgvdlaagpaaadvvvalrervhtlkemaekavvwyqp
letydaaavmkhlklgaevplgkarellaavvdsvsaalhdaaaalelgmgkvaqplrva
itgtqvspdisqtvylagregalkridaaltkiga

  • Chain 'D':
    Sequence, based on SEQRES records: (download) 
    >5h4vD (D:)
mghhhhhhssenlyfqghmasmacrtrfapsptgylhiggartalycwlearrrggqfvl
riedtdrqrstqaaidaileamqwlglgydegpiyqtqrvaryqevaeqllaqgkayyay
etreeldamreaamakqekprydgaareqnlpyrddpnrvirfknpiggtvvfddlikgr
ieianselddmvifrpdglptynfavvvddwdmgitevirgddhinntprqiniyaalga
pvpkfahmpmildeqgtklskrtgaadvmqykdagylphalinylarlgwshgdqelftp
qelldlfdvkdvnskaarldmaklgwvnqhylktddpasiapqleyqlaklgvdlaagpa
aadvvvalrervhtlkemaekavvwyqpletydaaavmkhlklgaevplgkarellaavd
qwsvdsvsaalhdaaaalelgmgkvaqplrvaitgtqvspdisqtvylagregalkrida
altkigaa

    Sequence, based on observed residues (ATOM records): (download) 
    >5h4vD (D:)
acrtrfapsptgylhiggartalycwlearrrggqfvlriedtdrqrstqaaidaileam
qwlglgydegpiyqtqrvaryqevaeqllaqgkayyayetreeldamreaamakqekpry
dgaareqnlpyrddpnrvirfknpiggtvvfddlikgrieianselddmvifrpdglpty
nfavvvddwdmgitevirgddhinntprqiniyaalgapvpkfahmpmildeqgtklskr
tgaadvmqykdagylphalinylarlgwshgdqelftpqelldlfdvkdvnskaarldma
klgwvnqhylktddpasiapqleyqlaklgvdlaagpaaadvvvalrervhtlkemaeka
vvwyqpletydaaavmkhlklgaevplgkarellaavdqwsvdsvsaalhdaaaalelgm
gkvaqplrvaitgtqvspdisqtvylagregalkridaaltkiga

  • Chain 'E':
    Sequence, based on SEQRES records: (download) 
    >5h4vE (E:)
mghhhhhhssenlyfqghmasmacrtrfapsptgylhiggartalycwlearrrggqfvl
riedtdrqrstqaaidaileamqwlglgydegpiyqtqrvaryqevaeqllaqgkayyay
etreeldamreaamakqekprydgaareqnlpyrddpnrvirfknpiggtvvfddlikgr
ieianselddmvifrpdglptynfavvvddwdmgitevirgddhinntprqiniyaalga
pvpkfahmpmildeqgtklskrtgaadvmqykdagylphalinylarlgwshgdqelftp
qelldlfdvkdvnskaarldmaklgwvnqhylktddpasiapqleyqlaklgvdlaagpa
aadvvvalrervhtlkemaekavvwyqpletydaaavmkhlklgaevplgkarellaavd
qwsvdsvsaalhdaaaalelgmgkvaqplrvaitgtqvspdisqtvylagregalkrida
altkigaa

    Sequence, based on observed residues (ATOM records): (download) 
    >5h4vE (E:)
acrtrfapsptgylhiggartalycwlearrrggqfvlriedtdrqrstqaaidaileam
qwlglgydegpiyqtqrvaryqevaeqllaqgkayyayetreeldamreaamakqekpry
dgaareqnlpyrddpnrvirfknpiggtvvfddlikgrieianselddmvifrpdglpty
nfavvvddwdmgitevirgddhinntprqiniyaalgapvpkfahmpmildeqgtklskr
tgaadvmqykdagylphalinylarlgwshgdqelftpqelldlfdvkdvnskaarldma
klgwvnqhylktddpasiapqleyqlaklgvdlaagpaaadvvvalrervhtlkemaeka
vvwyqpletydaaavmkhlklgaevplgkarellaavdqwsvdsvsaalhdaaaalelgm
gkvaqplrvaitgtqvspdisqtvylagregalkridaaltkiga

  • Chain 'F':
    Sequence, based on SEQRES records: (download) 
    >5h4vF (F:)
mghhhhhhssenlyfqghmasmacrtrfapsptgylhiggartalycwlearrrggqfvl
riedtdrqrstqaaidaileamqwlglgydegpiyqtqrvaryqevaeqllaqgkayyay
etreeldamreaamakqekprydgaareqnlpyrddpnrvirfknpiggtvvfddlikgr
ieianselddmvifrpdglptynfavvvddwdmgitevirgddhinntprqiniyaalga
pvpkfahmpmildeqgtklskrtgaadvmqykdagylphalinylarlgwshgdqelftp
qelldlfdvkdvnskaarldmaklgwvnqhylktddpasiapqleyqlaklgvdlaagpa
aadvvvalrervhtlkemaekavvwyqpletydaaavmkhlklgaevplgkarellaavd
qwsvdsvsaalhdaaaalelgmgkvaqplrvaitgtqvspdisqtvylagregalkrida
altkigaa

    Sequence, based on observed residues (ATOM records): (download) 
    >5h4vF (F:)
acrtrfapsptgylhiggartalycwlearrrggqfvlriedtdrqrstqaaidaileam
qwlglgydegpiyqtqrvaryqevaeqllaqgkayyayetreeldamreaamakqekpry
dgaareqnlpyrddpnrvirfknpiggtvvfddlikgrieianselddmvifrpdglpty
nfavvvddwdmgitevirgddhinntprqiniyaalgapvpkfahmpmildeqgtklskr
tgaadvmqykdagylphalinylarlgwshgdqelftpqelldlfdvkdvnskaarldma
klgwvnqhylktddpasiapqleyqlaklgvdlaagpaaadvvvalrervhtlkemaeka
vvwyqpletydaaavmkhlklgaevplgkarellaavdqwsvdsvsaalhdaaaalelgm
gkvaqplrvaitgtqvspdisqtvylagregalkridaaltkiga