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PDBsum entry 2ypn

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protein ligands links
Transferase PDB id
2ypn
Jmol
Contents
Protein chain
294 a.a. *
Ligands
DPM
Waters ×150
* Residue conservation analysis
PDB id:
2ypn
Name: Transferase
Title: Hydroxymethylbilane synthase
Structure: Protein (hydroxymethylbilane synthase). Chain: a. Fragment: three domains. Synonym: porphobilinogen deaminase. Engineered: yes. Other_details: contains a dipyrromethane cofactor linked to residue cysteine 242
Source: Escherichia coli. Organism_taxid: 562. Expressed in: escherichia coli. Expression_system_taxid: 562
Biol. unit: Dimer (from PQS)
Resolution:
2.30Å     R-factor:   0.194     R-free:   0.269
Authors: Y.P.Nieh,J.Raftery,S.Weisgerber,J.Habash,F.Schotte,T.Ursby,M A.Haedener,J.W.Campbell,Q.Hao,J.R.Helliwell
Key ref: Y.P.Nieh et al. (1999). Accurate and highly complete synchrotron protein crystal laue diffraction data using the esrf ccd and the daresbury laue software. J.Synchrotron radiat., 6, 995-1006.
Date:
11-Jan-99     Release date:   02-Feb-99    
PROCHECK
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 Headers
 References

Protein chain
Pfam   ArchSchema ?
P06983  (HEM3_ECOLI) -  Porphobilinogen deaminase
Seq:
Struc:
313 a.a.
294 a.a.
Key:    PfamA domain  Secondary structure  CATH domain

 Enzyme reactions 
   Enzyme class: E.C.2.5.1.61  - Hydroxymethylbilane synthase.
[IntEnz]   [ExPASy]   [KEGG]   [BRENDA]

      Pathway:
Porphyrin Biosynthesis (early stages)
      Reaction: 4 porphobilinogen + H2O = hydroxymethylbilane + 4 NH3
4 × porphobilinogen
+ H(2)O
=
hydroxymethylbilane
Bound ligand (Het Group name = DPM)
matches with 49.18% similarity
+ 4 × NH(3)
      Cofactor: Dipyrromethane
Molecule diagrams generated from .mol files obtained from the KEGG ftp site
 Gene Ontology (GO) functional annotation 
  GO annot!
  Cellular component     cytoplasm   1 term 
  Biological process     tetrapyrrole biosynthetic process   5 terms 
  Biochemical function     transferase activity     2 terms