1TU4	Protein Transport	date	Jun 24, 2004
title	Crystal Structure Of Rab5-Gdp Complex
authors	G.Zhu, P.Zhai, J.Liu, S.Terzyan, G.Li, X.C.Zhang
compound		source
Molecule: Ras-Related Protein Rab-5a Chain: A, B, C, D Fragment: Gtp Binding Domain Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Rab5a, Rab5 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: B834 Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet11a
symmetry	Space Group: P 31 2 1	R_factor 0.217 R_Free 0.274
crystal cell	length a length b length c angle alpha angle beta angle gamma 84.900 84.900 199.900 90.00 90.00 120.00
method	X-Ray Diffraction	resolution	2.20 Å
ligand	CO, GDP, MSE, SO4	enzyme
related structures	by homologous chain: 1HUQ, 1TU3
Gene Ontology	Chain Function Process Component A, D, C, B
Primary reference	Structural basis of Rab5-Rabaptin5 interaction in endocytosis., Zhu G, Zhai P, Liu J, Terzyan S, Li G, Zhang XC, Nat Struct Mol Biol 2004 Oct;11(10):975-83. Epub 2004 Sep 19. PMID:15378032

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (124 Kb) [Save to disk] Biological Unit Coordinates (1tu4.pdb1.gz) 33 Kb Biological Unit Coordinates (1tu4.pdb2.gz) 31 Kb Biological Unit Coordinates (1tu4.pdb3.gz) 32 Kb Biological Unit Coordinates (1tu4.pdb4.gz) 31 Kb Biological Unit Coordinates (1tu4.pdb5.gz) 228 Kb Biological Unit Coordinates (1tu4.pdb6.gz) 116 Kb Biological Unit Coordinates (1tu4.pdb7.gz) 118 Kb Biological Unit Coordinates (1tu4.pdb8.gz) 114 Kb Biological Unit Coordinates (1tu4.pdb9.gz) 59 Kb LPC: Ligand-Protein Contacts for 1TU4 CSU: Contacts of Structural Units for 1TU4 Likely Quarternary Molecular Structure file(s) for 1TU4 Structure Factors (516 Kb) Retrieve 1TU4 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1TU4 from S2C, [Save to disk] Re-refined 1tu4 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1TU4 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 1TU4

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 1TU4, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1tu4a_, region A [Jmol] [rasmolscript] [script source]     - Domain d1tu4b_, region B [Jmol] [rasmolscript] [script source]     - Domain d1tu4c_, region C [Jmol] [rasmolscript] [script source]     - Domain d1tu4d_, region D [Jmol] [rasmolscript] [script source] Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH Summaries and structural analyses of PDB data files from PDBSum Identification of Protein Pockets & Cavities at CASTp

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1tu4_B] [1tu4_D] [1tu4_C] [1tu4] [1tu4_A] SWISS-PROT database: [P20339] Domain organization of [RAB5A_HUMAN] by SWISSPFAM Domain found in 1TU4: [RAB ] by SMART

Other resources with information on 1TU4

Community annotation for 1TU4 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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