PDB entry 3fyp

View 3fyp on RCSB PDB site
Description: Crystal structure of the quadruple mutant (N23C/C246S/D247E/P249A) of 3-deoxy-D-manno-octulosonate 8-phosphate synthase (KDO8PS) from Neisseria meningitidis
Class: transferase
Keywords: MANNO-OCTULOSONATE, SYNTHASE, LIPOPOLYSACCHARIDE, KDOP, KDO8 KDOPS, KDO8PS, TIM BARREL, BIOSYNTHESIS, TRANSFERASE, LYASE, Lipopolysaccharide biosynthesis
Deposited on 2009-01-22, released 2009-03-31
The last revision prior to the SCOPe 2.08 freeze date was dated 2011-07-13, with a file datestamp of 2011-05-08.
Experiment type: XRAY
Resolution: 1.85 Å
R-factor: 0.207
AEROSPACI score: 0.48 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: 3-deoxy-D-manno-octulosonic acid 8-phosphate synthetase
    Species: Neisseria meningitidis serogroup B [TaxId:491]
    Gene: kdsA, NMB1283
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q9JZ55 (0-End)
      • engineered (22)
    Domains in SCOPe 2.08: d3fypa_
  • Chain 'B':
    Compound: 3-deoxy-D-manno-octulosonic acid 8-phosphate synthetase
    Species: Neisseria meningitidis serogroup B [TaxId:491]
    Gene: kdsA, NMB1283
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q9JZ55 (0-End)
      • engineered (22)
    Domains in SCOPe 2.08: d3fypb_
  • Chain 'C':
    Compound: 3-deoxy-D-manno-octulosonic acid 8-phosphate synthetase
    Species: Neisseria meningitidis serogroup B [TaxId:491]
    Gene: kdsA, NMB1283
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q9JZ55 (0-End)
      • engineered (22)
    Domains in SCOPe 2.08: d3fypc_
  • Chain 'D':
    Compound: 3-deoxy-D-manno-octulosonic acid 8-phosphate synthetase
    Species: Neisseria meningitidis serogroup B [TaxId:491]
    Gene: kdsA, NMB1283
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q9JZ55 (0-End)
      • engineered (22)
    Domains in SCOPe 2.08: d3fypd_
  • Heterogens: CL, GOL, NA, PEP, MN, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download) 
    >3fypA (A:)
mdikinditlgnnspfvlfggicvlesldstlqtcahyvevtrklgipyifkasfdkanr
ssihsyrgvgleeglkifekvkaefgipvitdvhephqcqpvaevcdviqlpaflarqtd
lvvamaktgnvvnikkpqflspsqmknivekfheagngklilcergssfgydnlvvdmlg
fgvmkqtcgnlpvifdvthslqtrdagsaasggrraqaldlalagmatrlaglfleshpd
pklaksegasalplhlledflirikalddliksqpiltie

    Sequence, based on observed residues (ATOM records): (download) 
    >3fypA (A:)
mdikinditlgnnspfvlfggicvlesldstlqtcahyvevtrklgipyifkasfdkanr
ssihsyrgvgleeglkifekvkaefgipvitdvhephqcqpvaevcdviqlpaflarqtd
lvvamaktgnvvnikkpqflspsqmknivekfheagngklilcergssfgydnlvvdmlg
fgvmkqtcgnlpvifdvthslqtsggrraqaldlalagmatrlaglfleshplhlledfl
irikalddliksqpilt

  • Chain 'B':
    Sequence, based on SEQRES records: (download) 
    >3fypB (B:)
mdikinditlgnnspfvlfggicvlesldstlqtcahyvevtrklgipyifkasfdkanr
ssihsyrgvgleeglkifekvkaefgipvitdvhephqcqpvaevcdviqlpaflarqtd
lvvamaktgnvvnikkpqflspsqmknivekfheagngklilcergssfgydnlvvdmlg
fgvmkqtcgnlpvifdvthslqtrdagsaasggrraqaldlalagmatrlaglfleshpd
pklaksegasalplhlledflirikalddliksqpiltie

    Sequence, based on observed residues (ATOM records): (download) 
    >3fypB (B:)
mdikinditlgnnspfvlfggicvlesldstlqtcahyvevtrklgipyifkasfdkanr
ssihsyrgvgleeglkifekvkaefgipvitdvhephqcqpvaevcdviqlpaflarqtd
lvvamaktgnvvnikkpqflspsqmknivekfheagngklilcergssfgydnlvvdmlg
fgvmkqtcgnlpvifdvthslqggrraqaldlalagmatrlaglfleshlledflirika
lddliksqpilti

  • Chain 'C':
    Sequence, based on SEQRES records: (download) 
    >3fypC (C:)
mdikinditlgnnspfvlfggicvlesldstlqtcahyvevtrklgipyifkasfdkanr
ssihsyrgvgleeglkifekvkaefgipvitdvhephqcqpvaevcdviqlpaflarqtd
lvvamaktgnvvnikkpqflspsqmknivekfheagngklilcergssfgydnlvvdmlg
fgvmkqtcgnlpvifdvthslqtrdagsaasggrraqaldlalagmatrlaglfleshpd
pklaksegasalplhlledflirikalddliksqpiltie

    Sequence, based on observed residues (ATOM records): (download) 
    >3fypC (C:)
mdikinditlgnnspfvlfggicvlesldstlqtcahyvevtrklgipyifkasfdkanr
ssihsyrgvgleeglkifekvkaefgipvitdvhephqcqpvaevcdviqlpaflarqtd
lvvamaktgnvvnikkpqflspsqmknivekfheagngklilcergssfgydnlvvdmlg
fgvmkqtcgnlpvifdvthslqggrraqaldlalagmatrlaglfleshalplhlledfl
irikalddliksqpil

  • Chain 'D':
    Sequence, based on SEQRES records: (download) 
    >3fypD (D:)
mdikinditlgnnspfvlfggicvlesldstlqtcahyvevtrklgipyifkasfdkanr
ssihsyrgvgleeglkifekvkaefgipvitdvhephqcqpvaevcdviqlpaflarqtd
lvvamaktgnvvnikkpqflspsqmknivekfheagngklilcergssfgydnlvvdmlg
fgvmkqtcgnlpvifdvthslqtrdagsaasggrraqaldlalagmatrlaglfleshpd
pklaksegasalplhlledflirikalddliksqpiltie

    Sequence, based on observed residues (ATOM records): (download) 
    >3fypD (D:)
mdikinditlgnnspfvlfggicvlesldstlqtcahyvevtrklgipyifkasfdkanr
ssiyrgvgleeglkifekvkaefgipvitdvhephqcqpvaevcdviqlpaflarqtdlv
vamaktgnvvnikkpqflspsqmknivekfheagngklilcergssfgydnlvvdmlgfg
vmkqtcgnlpvifdvthslqtgrraqaldlalagmatrlaglfleshpalplhlledfli
rikalddliksqpil