3DWD	Transport Protein	date	Jul 22, 2008
title	Crystal Structure Of The Arfgap Domain Of Human Arfgap1
authors	L.Nedyalkova, Y.Tong, W.Tempel, R.Landry, C.H.Arrowsmith, A.M.Edw C.Bountra, M.Wilkstrom, A.Bochkarev, H.Park, Structural Genomic Consortium (Sgc)
compound		source
Molecule: Adp-Ribosylation Factor Gtpase-Activating Protein Chain: A, B Fragment: Arf-Gap Domain, Unp Residues 1-128 Synonym: Adp-Ribosylation Factor 1 Gtpase-Activating Protei Gap, Arf1-Directed Gtpase-Activating Protein, Gap Protein; Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Arfgap1, Arf1gap Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21-Codonplus(De3)-V2r Expression_system_plasmid: Pet28a-Lic (Gi:145307000)
symmetry	Space Group: P 6	R_factor 0.234 R_Free 0.273
crystal cell	length a length b length c angle alpha angle beta angle gamma 82.422 82.422 81.008 90.00 90.00 120.00
method	X-Ray Diffraction	resolution	2.40 Å
ligand	UNX, ZN	enzyme

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (42 Kb) [Save to disk] Biological Unit Coordinates (3dwd.pdb1.gz) 36 Kb Biological Unit Coordinates (3dwd.pdb2.gz) 36 Kb LPC: Ligand-Protein Contacts for 3DWD CSU: Contacts of Structural Units for 3DWD Likely Quarternary Molecular Structure file(s) for 3DWD Structure Factors (190 Kb) Retrieve 3DWD in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3DWD from S2C, [Save to disk] Re-refined 3dwd structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3DWD 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. On AstexViewer, from MSD-EBI (viewer documentation). On RasMol (Install RasMol freeware) Here's help on how to use RasMol.

Visual 3D analysis of 3DWD

Cartoon representation from PDB Cartoon Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute Crystal Contacts, from CryCo at Weizmann Institute 3D motif for 3DWD, from MSDmotif at EBI Fold representative 3dwd from FSSP and Dali (Families of Structurally Similar Proteins)

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3dwd_A] [3dwd_B] SWISS-PROT database: [Q8N6T3] Domain organization of [ARFG1_HUMAN] by SWISSPFAM Domain found in 3DWD: [ArfGap ] by SMART Alignments of the sequence of 3DWD with the sequences similar proteins can be viewed for 3DWD's classification [ARFG1_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 [ARFG1_HUMAN] at ProtoMap. Click on the Cluster number.

Other resources with information on 3DWD

Community annotation for 3DWD at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

Movements, Movies and Images

Images from IMB Jena Image Library of Biological Macromolecules.

You may enter another PDB ID code

Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]

---

OCA© by Jaime Prilusky, 1996-2010 Bioinformatics Unit Weizmann Institute of Science

---