2DOH	Hydrolase	date	Apr 29, 2006
title	The X-Ray Crystallographic Structure Of The Angiogenesis Inh Angiostatin, Bound A To A Peptide From The Group A Streptoc Surface Protein Pam
authors	S.E.Cnudde, M.Prorok, F.J.Castellino, J.H.Geiger
compound		source
Molecule: Angiostatin Chain: X Fragment: Kringle 1,Kringle 2 And Kringle 3 Ec: 3.4.21.7 Engineered: Yes Mutation: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Plg Expression_system: Pichia Pastoris Expression_system_taxid: 4922
Molecule: Plasminogen-Binding Group A Streptococcal M-Like Pam; Chain: C Fragment: Vek-30 Synonym: Fragment Engineered: Yes		Synthetic: Yes Other_details: Vek-30 Is An Internal Peptide Within Pam
symmetry	Space Group: P 61 2 2	R_factor 0.210 R_Free 0.260
crystal cell	length a length b length c angle alpha angle beta angle gamma 58.377 58.377 391.033 90.00 90.00 120.00
method	X-Ray Diffraction	resolution	2.30 Å
ligand	DIO	enzyme	Hydrolase E.C.3.4.21.7 BRENDA
Gene Ontology	Chain Function Process Component X serine-type endopeptidase ac... protein binding peptidase activity serine-type peptidase activi... hydrolase activity protein domain specific bind... apolipoprotein binding cell surface binding platelet degranulation proteolysis blood coagulation hemostasis negative regulation of cell ... negative regulation of cell-... extracellular matrix disasse... platelet activation extracellular matrix organiz... fibrinolysis cellular protein metabolic p... tissue remodeling negative regulation of fibri... positive regulation of fibri... negative regulation of cell-... extracellular region extracellular space plasma membrane platelet alpha granule lumen... extrinsic to external side o...
Primary reference	X-ray crystallographic structure of the angiogenesis inhibitor, angiostatin, bound to a peptide from the group A streptococcal surface protein PAM., Cnudde SE, Prorok M, Castellino FJ, Geiger JH, Biochemistry. 2006 Sep 19;45(37):11052-60. PMID:16964966

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (45 Kb) [Save to disk] Biological Unit Coordinates (2doh.pdb1.gz) 38 Kb LPC: Ligand-Protein Contacts for 2DOH CSU: Contacts of Structural Units for 2DOH Likely Quarternary Molecular Structure file(s) for 2DOH Structure Factors (181 Kb) Retrieve 2DOH in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2DOH from S2C, [Save to disk] Re-refined 2doh structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2DOH 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 2DOH

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 2DOH, from MSDmotif at EBI Fold representative 2doh from FSSP and Dali (Families of Structurally Similar Proteins)

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2doh_X] [2doh_C] SWISS-PROT database: [P49054] [P00747] Domain organization of [PAM_STRPY] [PLMN_HUMAN] by SWISSPFAM Domain found in 2DOH: [KR ] by SMART Alignments of the sequence of 2DOH with the sequences similar proteins can be viewed for 2DOH's classification [PAM_STRPY] [PLMN_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 [PAM_STRPY] [PLMN_HUMAN] at ProtoMap. Click on the Cluster number.

Other resources with information on 2DOH

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

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