PDB entry 5lnv

View 5lnv on RCSB PDB site
Description: Crystal structure of Arabidopsis thaliana Pdx1-I320 complex from multiple crystals
Class: lyase
Keywords: beta/alpha barrel, pyridoxal phosphate synthase, glutamine amidotransferase, vitamin B6 biosythesis, LYASE
Deposited on 2016-08-06, released 2017-01-18
The last revision prior to the SCOPe 2.08 freeze date was dated 2018-09-19, with a file datestamp of 2018-09-14.
Experiment type: XRAY
Resolution: 2.24 Å
R-factor: N/A
AEROSPACI score: 0.26 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: Pyridoxal 5'-phosphate synthase subunit PDX1.3
    Species: Arabidopsis thaliana [TaxId:3702]
    Gene: PDX13, GIP2, PDX1L3, RSR4, At5g01410, T10O8.120
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d5lnva_
  • Chain 'B':
    Compound: Pyridoxal 5'-phosphate synthase subunit PDX1.3
    Species: Arabidopsis thaliana [TaxId:3702]
    Gene: PDX13, GIP2, PDX1L3, RSR4, At5g01410, T10O8.120
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d5lnvb_
  • Chain 'C':
    Compound: Pyridoxal 5'-phosphate synthase subunit PDX1.3
    Species: Arabidopsis thaliana [TaxId:3702]
    Gene: PDX13, GIP2, PDX1L3, RSR4, At5g01410, T10O8.120
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d5lnvc_
  • Chain 'D':
    Compound: Pyridoxal 5'-phosphate synthase subunit PDX1.3
    Species: Arabidopsis thaliana [TaxId:3702]
    Gene: PDX13, GIP2, PDX1L3, RSR4, At5g01410, T10O8.120
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d5lnvd_
  • Heterogens: PO4, SO4, KIK, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download) 
    >5lnvA (A:)
megtgvvavygngaiteakkspfsvkvglaqmlrggvimdvvnaeqariaeeagacavma
lervpadiraqggvarmsdpqmikeikqavtipvmakarighfveaqileaigidyides
evltladedhhinkhnfripfvcgcrnlgealrriregaamirtkgeagtgniieavrhv
rsvngdirvlrnmdddevftfakklaapydlvmqtkqlgrlpvvqfaaggvatpadaalm
mqlgcdgvfvgsgifksgdparraraivqavthysdpemlvevscglgeamvginlndek
verfanrseehhhhhh

    Sequence, based on observed residues (ATOM records): (download) 
    >5lnvA (A:)
spfsvkvglaqmlrggvimdvvnaeqariaeeagacavmalervpadiraqggvarmsdp
qmikeikqavtipvmakarighfveaqileaigidyidesevltladedhhinkhnfrip
fvcgcrnlgealrriregaamirtkgeagtgniieavrhvrsvngdirvlrnmdddevft
fakklaapydlvmqtkqlgrlpvvqfaaggvatpadaalmmqlgcdgvfvgsgifksgdp
arraraivqavthysdpemlvevscglgeamvginln

  • Chain 'B':
    Sequence, based on SEQRES records: (download) 
    >5lnvB (B:)
megtgvvavygngaiteakkspfsvkvglaqmlrggvimdvvnaeqariaeeagacavma
lervpadiraqggvarmsdpqmikeikqavtipvmakarighfveaqileaigidyides
evltladedhhinkhnfripfvcgcrnlgealrriregaamirtkgeagtgniieavrhv
rsvngdirvlrnmdddevftfakklaapydlvmqtkqlgrlpvvqfaaggvatpadaalm
mqlgcdgvfvgsgifksgdparraraivqavthysdpemlvevscglgeamvginlndek
verfanrseehhhhhh

    Sequence, based on observed residues (ATOM records): (download) 
    >5lnvB (B:)
kspfsvkvglaqmlrggvimdvvnaeqariaeeagacavmalervpadiraqggvarmsd
pqmikeikqavtipvmakarighfveaqileaigidyidesevltladedhhinkhnfri
pfvcgcrnlgealrriregaamirtkgeagtgniieavrhvrsvngdirvlrnmdddevf
tfakklaapydlvmqtkqlgrlpvvqfaaggvatpadaalmmqlgcdgvfvgsgifksgd
parraraivqavthysdpemlvevscglgeamvginln

  • Chain 'C':
    Sequence, based on SEQRES records: (download) 
    >5lnvC (C:)
megtgvvavygngaiteakkspfsvkvglaqmlrggvimdvvnaeqariaeeagacavma
lervpadiraqggvarmsdpqmikeikqavtipvmakarighfveaqileaigidyides
evltladedhhinkhnfripfvcgcrnlgealrriregaamirtkgeagtgniieavrhv
rsvngdirvlrnmdddevftfakklaapydlvmqtkqlgrlpvvqfaaggvatpadaalm
mqlgcdgvfvgsgifksgdparraraivqavthysdpemlvevscglgeamvginlndek
verfanrseehhhhhh

    Sequence, based on observed residues (ATOM records): (download) 
    >5lnvC (C:)
spfsvkvglaqmlrggvimdvvnaeqariaeeagacavmalervpadiraqggvarmsdp
qmikeikqavtipvmakarighfveaqileaigidyidesevltladedhhinkhnfrip
fvcgcrnlgealrriregaamirtkgeagtgniieavrhvrsvngdirvlrnmdddevft
fakklaapydlvmqtkqlgrlpvvqfaaggvatpadaalmmqlgcdgvfvgsgifksgdp
arraraivqavthysdpemlvevscglgeamvginl

  • Chain 'D':
    Sequence, based on SEQRES records: (download) 
    >5lnvD (D:)
megtgvvavygngaiteakkspfsvkvglaqmlrggvimdvvnaeqariaeeagacavma
lervpadiraqggvarmsdpqmikeikqavtipvmakarighfveaqileaigidyides
evltladedhhinkhnfripfvcgcrnlgealrriregaamirtkgeagtgniieavrhv
rsvngdirvlrnmdddevftfakklaapydlvmqtkqlgrlpvvqfaaggvatpadaalm
mqlgcdgvfvgsgifksgdparraraivqavthysdpemlvevscglgeamvginlndek
verfanrseehhhhhh

    Sequence, based on observed residues (ATOM records): (download) 
    >5lnvD (D:)
pfsvkvglaqmlrggvimdvvnaeqariaeeagacavmalervpadiraqggvarmsdpq
mikeikqavtipvmakarighfveaqileaigidyidesevltladedhhinkhnfripf
vcgcrnlgealrriregaamirtkgeagtgniieavrhvrsvngdirvlrnmdddevftf
akklaapydlvmqtkqlgrlpvvqfaaggvatpadaalmmqlgcdgvfvgsgifksgdpa
rraraivqavthysdpemlvevscglgeamvginl