3LAW Proton Transport date Jan 07, 2010
title Structure Of Gtp-Bound L129f Mutant Rab7
authors B.A.Mccray, E.Skordalakes, J.P.Taylor
compound source
Molecule: Ras-Related Protein Rab-7a
Chain: A, B, C, D, E
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Rab7a, Rab7
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 1
R_factor 0.220 R_Free 0.273
crystal
cell
length a length b length c angle alpha angle beta angle gamma
35.554 89.335 89.378 71.24 85.97 85.91
method X-Ray Diffractionresolution 2.80 Å
ligand GNP, MG enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, E, B


Primary referenceDisease mutations in Rab7 result in unregulated nucleotide exchange and inappropriate activation., McCray BA, Skordalakes E, Taylor JP, Hum Mol Genet. 2010 Jan 12. PMID:20028791
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (154 Kb) [Save to disk]
  • Biological Unit Coordinates (3law.pdb1.gz) 32 Kb
  • Biological Unit Coordinates (3law.pdb2.gz) 32 Kb
  • Biological Unit Coordinates (3law.pdb3.gz) 32 Kb
  • Biological Unit Coordinates (3law.pdb4.gz) 32 Kb
  • Biological Unit Coordinates (3law.pdb5.gz) 32 Kb
  • LPC: Ligand-Protein Contacts for 3LAW
  • CSU: Contacts of Structural Units for 3LAW
  • Structure Factors (172 Kb)
  • Retrieve 3LAW in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3LAW from S2C, [Save to disk]
  • Re-refined 3law structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3LAW 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 3LAW
  • 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 3LAW, from MSDmotif at EBI
  • Fold representative 3law from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3law_D] [3law_B] [3law] [3law_A] [3law_C] [3law_E]
  • SWISS-PROT database: [P51149]
  • Domain organization of [RAB7A_HUMAN] by SWISSPFAM
  • Domain found in 3LAW: [RAB ] by SMART
  • Alignments of the sequence of 3LAW with the sequences similar proteins can be viewed for 3LAW's classification [RAB7A_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 [RAB7A_HUMAN] at ProtoMap. Click on the Cluster number.
  • Other resources with information on 3LAW
  • Community annotation for 3LAW 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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