4KVG	Signaling Protein	date	May 22, 2013
title	Crystal Structure Of Riam Ra-Ph Domains In Complex With Gtp
authors	H.Zhang, Y.E.Chang, M.L.Brennan, J.Wu
compound		source
Molecule: Ras-Related Protein Rap-1a Chain: A, C Fragment: Unp Residues 1-167 Synonym: C21kg, G-22k, Gtp-Binding Protein Smg P21a, Ras-Re Protein Krev-1; Engineered: Yes Mutation: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Krev1, Rap1a Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet281
Molecule: Amyloid Beta A4 Precursor Protein-Binding Family 1-Interacting Protein; Chain: B, D Fragment: Ra-Ph Domains (Unp Residues 179-437) Synonym: Apbb1-Interacting Protein 1, Proline-Rich Evh1 Lig Prel-1, Proline-Rich Protein 48; Engineered: Yes		Organism_scientific: Mus Musculus Organism_common: Mouse Organism_taxid: 10090 Gene: Apbb1ip, Prel1 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet281
symmetry	Space Group: P 21 21 21	R_factor 0.197 R_Free 0.219
crystal cell	length a length b length c angle alpha angle beta angle gamma 82.467 85.848 160.852 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	1.65 Å
ligand	EDO, GTP, MG	enzyme
Gene Ontology	Chain Function Process Component A, C D, B
Primary reference	The structure of Rap1 in complex with RIAM reveals specificity determinants and recruitment mechanism., Zhang H, Chang YC, Brennan ML, Wu J, J Mol Cell Biol. 2014 Apr;6(2):128-39. doi: 10.1093/jmcb/mjt044. Epub 2013 Nov, 28. PMID:24287201

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (306 Kb) [Save to disk] Biological Unit Coordinates (4kvg.pdb1.gz) 154 Kb Biological Unit Coordinates (4kvg.pdb2.gz) 150 Kb LPC: Ligand-Protein Contacts for 4KVG CSU: Contacts of Structural Units for 4KVG Structure Factors (2956 Kb) Retrieve 4KVG in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 4KVG from S2C, [Save to disk] Re-refined 4kvg structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 4KVG 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 4KVG

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 4KVG, from MSDmotif at EBI Fold representative 4kvg from FSSP and Dali (Families of Structurally Similar Proteins)

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [4kvg_D] [4kvg_A] [4kvg_C] [4kvg_B] [4kvg] SWISS-PROT database: Domain organization of by SWISSPFAM Domains found in 4KVG: [PH] [RA] [RAS ] by SMART

Other resources with information on 4KVG

Community annotation for 4KVG at PDBWiki (http://pdbwiki.org)

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, 1996-2014 Bioinformatics Unit Weizmann Institute of Science

---