2BMD	Protein Transport	date	Mar 13, 2005
title	High Resolution Structure Of Gdp-Bound Human Rab4a
authors	A.J.Scheidig, S.K.Huber
compound		source
Molecule: Ras-Related Protein Rab4a Chain: A Fragment: Nucleotide-Binding Domain, Residues 1-184 Synonym: Rab4a Ec: 3.6.5.2 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Expression_system: Escherichia Coli Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet19tev
symmetry	Space Group: C 1 2 1	R_factor 0.160 R_Free 0.205
crystal cell	length a length b length c angle alpha angle beta angle gamma 71.140 63.750 38.280 90.00 100.03 90.00
method	X-Ray Diffraction	resolution	1.80 Å
ligand	GDP, GOL	enzyme	Hydrolase E.C.3.6.5.2 BRENDA
related structures	by homologous chain: 2BME
Gene Ontology	Chain Function Process Component A
Primary reference	High resolution crystal structures of human Rab4a in its active and inactive conformations., Huber SK, Scheidig AJ, FEBS Lett. 2005 May 23;579(13):2821-9. Epub 2005 Apr 25. PMID:15907487

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (39 Kb) [Save to disk] Biological Unit Coordinates (2bmd.pdb1.gz) 34 Kb LPC: Ligand-Protein Contacts for 2BMD CSU: Contacts of Structural Units for 2BMD Likely Quarternary Molecular Structure file(s) for 2BMD Structure Factors (116 Kb) Retrieve 2BMD in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2BMD from S2C, [Save to disk] Re-refined 2bmd structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2BMD 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 2BMD

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 3D motif for 2BMD, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2bmd] [2bmd_A] SWISS-PROT database: [P20338] Domain organization of [RAB4A_HUMAN] by SWISSPFAM Domain found in 2BMD: [RAB ] by SMART

Other resources with information on 2BMD

Community annotation for 2BMD at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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