5IBM	Hydrolase	date	Feb 22, 2016
title	Structure Of S502p, A Cancer-Associated Mutation Of The Onco Phosphatase Shp2
authors	S.C.Blacklow, T.Stams, M.Fodor, J.R.Larochelle
compound		source
Molecule: Tyrosine-Protein Phosphatase Non-Receptor Type 11 Chain: A, B Synonym: Protein-Tyrosine Phosphatase 1d,Ptp-1d,Protein-Tyr Phosphatase 2c,Ptp-2c,Sh-Ptp2,Shp2,Sh-Ptp3; Ec: 3.1.3.48 Engineered: Yes Mutation: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Ptpn11, Ptp2c, Shptp2 Expression_system: Escherichia Coli Expression_system_taxid: 469008 Expression_system_strain: Bl21 (De3)
symmetry	Space Group: P 1 21 1	R_factor 0.189 R_Free 0.240
crystal cell	length a length b length c angle alpha angle beta angle gamma 45.190 214.240 55.470 90.00 95.55 90.00
method	X-Ray Diffraction	resolution	2.18 Å
ligand		enzyme	Hydrolase E.C.3.1.3.48 BRENDA
Gene Ontology	Chain Function Process Component A, B
Primary reference	Structural and Functional Consequences of Three Cancer-Associated Mutations of the Oncogenic Phosphatase SHP2., LaRochelle JR, Fodor M, Xu X, Durzynska I, Fan L, Stams T, Chan HM, LaMarche MJ, Chopra R, Wang P, Fortin PD, Acker MG, Blacklow SC, Biochemistry. 2016 Apr 19;55(15):2269-77. doi: 10.1021/acs.biochem.5b01287. Epub , 2016 Apr 11. PMID:27030275

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (336 Kb) [Save to disk] Biological Unit Coordinates (5ibm.pdb1.gz) 167 Kb Biological Unit Coordinates (5ibm.pdb2.gz) 168 Kb CSU: Contacts of Structural Units for 5IBM Structure Factors (1512 Kb) Retrieve 5IBM in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 5IBM from S2C, [Save to disk] Re-refined 5ibm structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 5IBM 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 5IBM

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

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [5ibm_B] [5ibm_A] [5ibm] SWISS-PROT database: Domain organization of by SWISSPFAM Domains found in 5IBM: [PTPc] [SH2 ] by SMART

Other resources with information on 5IBM

Community annotation for 5IBM 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, 1996-2014,2022 Bioinformatics Unit Weizmann Institute of Science

---