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PDBsum entry 2y3i

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protein ligands metals Protein-protein interface(s) links
Transferase PDB id
2y3i
Jmol
Contents
Protein chain
414 a.a.
Ligands
LA8-ALF-3PG
LA8-ALF
3PG
Metals
_MG ×2
_CL ×2
Waters ×16
PDB id:
2y3i
Name: Transferase
Title: The structure of the fully closed conformation of human pgk in complex with l-adp, 3pg and the tsa aluminium tetrafluoride
Structure: Phosphoglycerate kinase 1. Chain: a, d. Fragment: residues 1-416. Synonym: phosphoglycerate kinase, cell migration-inducing g protein, primer recognition protein 2, prp 2. Engineered: yes
Source: Homo sapiens. Human. Organism_taxid: 9606. Expressed in: escherichia coli. Expression_system_taxid: 511693.
Resolution:
2.90Å     R-factor:   0.264     R-free:   0.303
Authors: M.W.Bowler,L.Chaloin,C.Lionne
Key ref: P.Lallemand et al. (2011). Interaction of human 3-phosphoglycerate kinase with its two substrates: is substrate antagonism a kinetic advantage? J Mol Biol, 409, 742-757. PubMed id: 21549713
Date:
21-Dec-10     Release date:   27-Apr-11    
PROCHECK
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 Headers
 References

Protein chains
Pfam   ArchSchema ?
P00558  (PGK1_HUMAN) -  Phosphoglycerate kinase 1
Seq:
Struc:
417 a.a.
414 a.a.*
Key:    PfamA domain  Secondary structure  CATH domain
* PDB and UniProt seqs differ at 1 residue position (black cross)

 Enzyme reactions 
   Enzyme class: E.C.2.7.2.3  - Phosphoglycerate kinase.
[IntEnz]   [ExPASy]   [KEGG]   [BRENDA]

      Pathway:
Calvin Cycle (carbon fixation stages)
      Reaction: ATP + 3-phospho-D-glycerate = ADP + 3-phospho-D-glyceroyl phosphate
ATP
+
3-phospho-D-glycerate
Bound ligand (Het Group name = 3PG)
corresponds exactly
=
ADP
Bound ligand (Het Group name = LA8)
corresponds exactly
+ 3-phospho-D-glyceroyl phosphate
Molecule diagrams generated from .mol files obtained from the KEGG ftp site
 Gene Ontology (GO) functional annotation 
  GO annot!
  Cellular component     membrane   4 terms 
  Biological process     small molecule metabolic process   8 terms 
  Biochemical function     nucleotide binding     6 terms  

 

 
    reference    
 
 
J Mol Biol 409:742-757 (2011)
PubMed id: 21549713  
 
 
Interaction of human 3-phosphoglycerate kinase with its two substrates: is substrate antagonism a kinetic advantage?
P.Lallemand, L.Chaloin, B.Roy, T.Barman, M.W.Bowler, C.Lionne.
 
  ABSTRACT  
 
No abstract given.