2B5T	Blood Clotting	date	Sep 29, 2005
title	2.1 Angstrom Structure Of A Nonproductive Complex Between Antithrombin, Synthetic Heparin Mimetic Sr123781 And Two S1 Thrombin Molecules
authors	D.J.Johnson, W.Li, S.A.Luis, R.W.Carrell, J.A.Huntington
compound		source
Molecule: Thrombin Chain: A, C Fragment: Thrombin Light Chain Synonym: Coagulation Factor II Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: F2 Expression_system: Mesocricetus Auratus Expression_system_common: Golden Hamster Expression_system_taxid: 10036 Expression_system_cell_line: Bhk Cell Line
Molecule: Thrombin Chain: B, D Fragment: Thrombin Heavy Chain, Serine Protease Synonym: Coagulation Factor II Ec: 3.4.21.5 Engineered: Yes Mutation: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: F2 Expression_system: Mesocricetus Auratus Expression_system_common: Golden Hamster Expression_system_taxid: 10036 Expression_system_cell_line: Bhk Cell Line
Molecule: Antithrombin-III Chain: I Synonym: Atiii Engineered: Yes Mutation: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Serpinc1, At3 Expression_system: Mesocricetus Auratus Expression_system_common: Golden Hamster Expression_system_taxid: 10036 Expression_system_cell_line: Bhk Cell Line
symmetry	Space Group: P 1	R_factor 0.209 R_Free 0.247
crystal cell	length a length b length c angle alpha angle beta angle gamma 59.280 59.530 108.410 77.55 78.94 68.08
method	X-Ray Diffraction	resolution	2.10 Å
ligand	BMA, FUC, GOL, GU0, GU1, GU2, GU3, GU4, GU5, GU6, GU8, GU9, MAN, NAG, SO4	enzyme	Hydrolase E.C.3.4.21.5 BRENDA
Gene Ontology	Chain Function Process Component A, C D, B I
Primary reference	Crystal structure of monomeric native antithrombin reveals a novel reactive center loop conformation., Johnson DJ, Langdown J, Li W, Luis SA, Baglin TP, Huntington JA, J Biol Chem. 2006 Nov 17;281(46):35478-86. Epub 2006 Sep 13. PMID:16973611

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (190 Kb) [Save to disk] Biological Unit Coordinates (2b5t.pdb1.gz) 180 Kb Biological Unit Coordinates (2b5t.pdb2.gz) 181 Kb LPC: Ligand-Protein Contacts for 2B5T CSU: Contacts of Structural Units for 2B5T Likely Quarternary Molecular Structure file(s) for 2B5T Structure Factors (529 Kb) Retrieve 2B5T in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2B5T from S2C, [Save to disk] Re-refined 2b5t structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2B5T 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 2B5T

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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 2B5T, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2b5t_A] [2b5t] [2b5t_B] [2b5t_C] [2b5t_I] [2b5t_D] SWISS-PROT database: [P01008] [P00734] Domain organization of [ANT3_HUMAN] [THRB_HUMAN] by SWISSPFAM Domains found in 2B5T: [SERPIN] [Tryp_SPc ] by SMART

Other resources with information on 2B5T

Community annotation for 2B5T at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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