PDB entry 2ynm

View 2ynm on RCSB PDB site
Description: Structure of the ADPxAlF3-Stabilized Transition State of the Nitrogenase-like Dark-Operative Protochlorophyllide Oxidoreductase Complex from Prochlorococcus marinus with Its Substrate Protochlorophyllide a
Class: oxidoreductase
Keywords: iron-sulfur cluster, oxidoreductase, metalloenzyme, electron transfer, chlorophyll synthesis, ATPase, dynamic switch
Deposited on 2012-10-16, released 2013-01-30
The last revision prior to the SCOPe 2.08 freeze date was dated 2013-03-06, with a file datestamp of 2013-03-01.
Experiment type: XRAY
Resolution: 2.1 Å
R-factor: 0.2006
AEROSPACI score: 0.42 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: Light-independent protochlorophyllide reductase iron-sulfur ATP-binding protein
    Species: PROCHLOROCOCCUS MARINUS [TaxId:1219]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d2ynma_
  • Chain 'B':
    Compound: Light-independent protochlorophyllide reductase iron-sulfur ATP-binding protein
    Species: PROCHLOROCOCCUS MARINUS [TaxId:1219]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d2ynmb_
  • Chain 'C':
    Compound: Light-independent protochlorophyllide reductase subunit N
    Species: PROCHLOROCOCCUS MARINUS [TaxId:1219]
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q7VD37 (8-End)
      • expression tag (2-7)
  • Chain 'D':
    Compound: Light-independent protochlorophyllide reductase subunit B
    Species: PROCHLOROCOCCUS MARINUS [TaxId:1219]
    Database cross-references and differences (RAF-indexed):
  • Heterogens: 1PE, EPE, AF3, ADP, MG, SF4, GOL, PMR, K, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download) 
    >2ynmA (A:)
gplgsmtttlanrpdgegsvqvkldpkvnieegalviavygkggigksttssnlsaafsk
lgkkvlqigcdpkhdstftlthkmvptvidileevdfhseelrpqdfmfegfngvqcves
ggppagtgcggyvtgqtvkllkehhlledtdvvifdvlgdvvcggfaaplqhanyclivt
andfdsifamnrivaainakaknykvrlggvianrsaeldqiekfnektglktmahfrnv
dairrsrlkkctifemdpeeegvlevqneylslakkmidnvepleaeplkdreifdllgf
d

    Sequence, based on observed residues (ATOM records): (download) 
    >2ynmA (A:)
alviavygkggigksttssnlsaafsklgkkvlqigcdpkhdstftlthkmvptvidile
evdfhseelrpqdfmfegfngvqcvesggppagtgcggyvtgqtvkllkehhlledtdvv
ifdvlgdvvcggfaaplqhanyclivtandfdsifamnrivaainakaknykvrlggvia
nrsaeldqiekfnektglktmahfrnvdairrsrlkkctifemdpeeegvlevqneylsl
akkmidnvepleaeplkdreifdllgf

  • Chain 'B':
    Sequence, based on SEQRES records: (download) 
    >2ynmB (B:)
gplgsmtttlanrpdgegsvqvkldpkvnieegalviavygkggigksttssnlsaafsk
lgkkvlqigcdpkhdstftlthkmvptvidileevdfhseelrpqdfmfegfngvqcves
ggppagtgcggyvtgqtvkllkehhlledtdvvifdvlgdvvcggfaaplqhanyclivt
andfdsifamnrivaainakaknykvrlggvianrsaeldqiekfnektglktmahfrnv
dairrsrlkkctifemdpeeegvlevqneylslakkmidnvepleaeplkdreifdllgf
d

    Sequence, based on observed residues (ATOM records): (download) 
    >2ynmB (B:)
galviavygkggigksttssnlsaafsklgkkvlqigcdpkhdstftlthkmvptvidil
eevdfhseelrpqdfmfegfngvqcvesggppagtgcggyvtgqtvkllkehhlledtdv
vifdvlgdvvcggfaaplqhanyclivtandfdsifamnrivaainakaknykvrlggvi
anrsaeldqiekfnektglktmahfrnvdairrsrlkkctifemdpeeegvlevqneyls
lakkmidnvepleaeplkdreifdllgf

  • Chain 'C':
    No sequence available.

  • Chain 'D':
    No sequence available.