2ZGB	Hydrolase Hydrolase Inhibitor	date	Jan 21, 2008
title	Thrombin Inhibition
authors	B.Baum, A.Heine, G.Klebe
compound		source
Molecule: Thrombin Light Chain Chain: L Synonym: Coagulation Factor II Ec: 3.4.21.5		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Tissue: Blood Plasma
Molecule: Thrombin Heavy Chain Chain: H Synonym: Coagulation Factor II Ec: 3.4.21.5		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Tissue: Blood Plasma
Molecule: Hirudin Variant-1 Chain: I Fragment: Unp Residues 54-64 Synonym: Lepirudin Engineered: Yes		Synthetic: Yes Organism_scientific: Hirudo Medicinalis Organism_taxid: 6421 Other_details: Synthetic Fragment Of Hirudin From Hirudo Me
symmetry	Space Group: C 1 2 1	R_factor R_Free
crystal cell	length a length b length c angle alpha angle beta angle gamma 69.760 71.370 72.570 90.00 100.28 90.00
method	X-Ray Diffraction	resolution	1.60 Å
ligand	21U, NA, TYS	enzyme	Hydrolase E.C.3.4.21.5 BRENDA
Gene Ontology	Chain Function Process Component H L
Primary reference	Non-additivity of functional group contributions in protein-ligand binding: a comprehensive study by crystallography and isothermal titration calorimetry., Baum B, Muley L, Smolinski M, Heine A, Hangauer D, Klebe G, J Mol Biol. 2010 Apr 9;397(4):1042-54. Epub 2010 Feb 12. PMID:20156458

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (56 Kb) [Save to disk] Biological Unit Coordinates (2zgb.pdb1.gz) 51 Kb LPC: Ligand-Protein Contacts for 2ZGB CSU: Contacts of Structural Units for 2ZGB Likely Quarternary Molecular Structure file(s) for 2ZGB Structure Factors (316 Kb) Retrieve 2ZGB in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2ZGB from S2C, [Save to disk] Re-refined 2zgb structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2ZGB 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 2ZGB

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 3D motif for 2ZGB, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2zgb_H] [2zgb] [2zgb_L] [2zgb_I] SWISS-PROT database: [P01050] [P00734] Domain organization of [HIRV1_HIRME] [THRB_HUMAN] by SWISSPFAM Domain found in 2ZGB: [Tryp_SPc ] by SMART

Other resources with information on 2ZGB

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

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Images from IMB Jena Image Library of Biological Macromolecules.

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