3I2B Lyase date Jun 29, 2009
title The Crystal Structure Of Human 6 Pyruvoyl Tetrahydrobiopteri
authors E.Ugochukwu, R.Cocking, E.Pilka, W.W.Yue, J.E.Bray, A.Chaikuad, T. J.Muniz, F.Von Delft, C.Bountra, C.H.Arrowsmith, J.Weigelt, A.Ed U.Oppermann, Structural Genomics Consortium (Sgc)
compound source
Molecule: 6-Pyruvoyl Tetrahydrobiopterin Synthase
Chain: A, D, E, B, C, F, G, H, I, J, K, L
Fragment: Unp Residues 7-145
Synonym: Pts, Ptp Synthase, Ptps
Ec: 4.2.3.12
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Pts
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)-R3-Prare2
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pnic28-Bsa4
symmetry Space Group: P 21 21 21
R_factor 0.206 R_Free 0.246
crystal
cell
length a length b length c angle alpha angle beta angle gamma
73.290 118.720 234.980 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.30 Å
ligand EDO, MG, NI, PEG enzyme Lyase E.C.4.2.3.12 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
F, A, J, K, E, B, H, C, D, I, G, L


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (272 Kb) [Save to disk]
  • Biological Unit Coordinates (3i2b.pdb1.gz) 69 Kb
  • Biological Unit Coordinates (3i2b.pdb2.gz) 70 Kb
  • Biological Unit Coordinates (3i2b.pdb3.gz) 67 Kb
  • Biological Unit Coordinates (3i2b.pdb4.gz) 69 Kb
  • LPC: Ligand-Protein Contacts for 3I2B
  • CSU: Contacts of Structural Units for 3I2B
  • Likely Quarternary Molecular Structure file(s) for 3I2B
  • Structure Factors (1371 Kb)
  • Retrieve 3I2B in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3I2B from S2C, [Save to disk]
  • Re-refined 3i2b structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3I2B in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 3I2B
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 3I2B, from MSDmotif at EBI
  • Fold representative 3i2b from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3i2b_H] [3i2b_G] [3i2b_E] [3i2b_K] [3i2b_F] [3i2b_C] [3i2b_D] [3i2b_L] [3i2b_J] [3i2b_A] [3i2b_B] [3i2b_I] [3i2b]
  • SWISS-PROT database: [Q03393]
  • Domain organization of [PTPS_HUMAN] by SWISSPFAM
  • Alignments of the sequence of 3I2B with the sequences similar proteins can be viewed for 3I2B's classification [PTPS_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 [PTPS_HUMAN] at ProtoMap. Click on the Cluster number.
  • Other resources with information on 3I2B
  • Community annotation for 3I2B at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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