1GBN Transferase date May 29, 1997
title Human Ornithine Aminotransferase Complexed With The Neurotoxin Gabaculine
authors S.A.Shah, B.W.Shen, A.T.Brunger
compound source
Molecule: Ornithine Aminotransferase
Chain: A, B, C
Ec: 2.6.1.13
Engineered: Yes
Biological_unit: Homotetramer
Other_details: Bound Inhibitor Gabaculine
 Organism_scientific: Homo Sapiens
Organism_common: Human
Expression_system: Escherichia Coli
symmetry Space Group: P 32 2 1
R_factor 0.209
crystal
cell
length a length b length c angle alpha angle beta angle gamma
115.013 115.013 185.753 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.3 Å
ligand GBC, PLPenzyme Ornithine-oxo-acid transaminase. Ornithine d-transaminase. L-ornithine. Alpha-ketoglutarate d-aminotransferase. OAT. L-ornithine 5-aminotransferase. L-ornithine aminotransferase. Ornithine 5-aminotransferase. Ornithine transaminase. Ornithine-alpha-ketoglutarate aminotransferase. Ornithine-2-oxoacid aminotransferase. Ornithine-keto acid aminotransferase. Ornithine-keto acid transaminase. Ornithine-ketoglutarate aminotransferase. Ornithine-oxo acid aminotransferase. Ornithine. Alpha-oxoglutarate transaminase. Transferase E.C.2.6.1.13
related structures by homologous chain: 2CAN, 2OAT
similarity Belongs to class-iii of pyridoxal-phosphate-dependent aminotransferases.[aminotran_3]
subunit Homotetramer.
catalytic activ. L-ornithine + a 2-oxo acid = l-glutamate 5- semialdehyde + an l-amino acid.
subcellular loc. Mitochondrial matrix.
gene OAT (H. sapiens)
disease Gyrate atrophy of choroid and retina with ornithinemia,B6responsive or unresponsive
Defects in oat are the cause of ornithinemia with gyrate atrophy (ga) of choroid and retina. Ga is a slowly progressive blinding autosomal recessive disorder.
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (261 Kb) [Save to disk]
  • LPC: Ligand-Protein Contacts for 1GBN
  • CSU: Contacts of Structural Units for 1GBN
  • Likely Quarternary Molecular Structure file(s) for 1GBN
  • Structure Factors (r1gbnsf.ent.Z) 464 Kb
  • Retrieve 1GBN in mmCIF format [Save to disk]
    • View 1GBN in 3D
  • Protein Explorer, Easier to use and more powerful than RasMol. (Win and Mac only)
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  • RasMol (Install RasMol freeware) Here's help on how to use RasMol.
    • Visual 3D analysis of 1GBN
  • STING, shows the sequence and maps the locations of sequence residues or residue ranges onto the 3D structure.
  • Noncovalent Bond Finder displays the closest contacts to ligand or interface, reports distances, walks over water bridges.
  • GRASS (Graphical Representation and Analysis of Structure Server)
  • Cartoon representation from PDB Cartoon
    • Structure-derived information
  • Electro Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Genome occurence of 1GBN's fold from GeneCensus
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1gbna_, region A: [rasmolscript] [script source]
        - Domain d1gbnb_, region B: [rasmolscript] [script source]
        - Domain d1gbnc_, region C: [rasmolscript] [script source]
  • Fold representative 1gbn from FSSP and Dali (Families of Structurally Similar Proteins)
  • Domain Definition for 1gbn from 3Dee ( The Database of Protein Domain Definitions )
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily: CATH
  • Summaries and structural analyses of PDB data files: PDBSum
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1gbn_A] [1gbn_B] [1gbn_C]
  • SWISS-PROT database: [OAT_HUMAN]
  • Domain organization of [OAT_HUMAN] by SWISSPFAM
  • Conserved protein region description, domain view and alignment from family aminotran_3 (PF00202) of Pfam.
  • Alignments of the sequence of 1GBN with the sequences similar proteins can be viewed for classification [OAT_HUMAN] at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list.
  • A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification [OAT_HUMAN] at ProtoMap. Click on the Cluster number.
    • Other resources with information on 1GBN
  • InterPro: IPR005814
  • PDBREPORT (protein verification by WHAT_CHECK procedures)
  • MMDB (Entrez's Structure Database)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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