5HVF	Hydrolase Hydrolase Inhibitor	date	Jan 28, 2016
title	Crystal Structure Of Thrombin-Activatable Fibrinolysis Inhib Complex With An Inhibitory Nanobody (Vhh-I83)
authors	X.Zhou, S.D.Weeks, S.V.Strelkov, P.J.Declerck
compound		source
Molecule: Carboxypeptidase B2 Chain: A Fragment: Unp Residues 23-423 Synonym: Carboxypeptidase U,Cpu,Plasma Carboxypeptidase B,P Thrombin-Activable Fibrinolysis Inhibitor,Tafi; Ec: 3.4.17.20 Engineered: Yes Mutation: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Cpb2 Expression_system: Pichia Pastoris Expression_system_taxid: 4922 Expression_system_strain: M5 Expression_system_vector_type: Plasmid Expression_system_plasmid: Ppic9
Molecule: Vhh-I83 Chain: B Engineered: Yes		Organism_scientific: Vicugna Pacos Organism_common: Alpaca Organism_taxid: 30538 Expression_system: Escherichia Coli Bl21(De3) Expression_system_taxid: 469008 Expression_system_strain: Rosetta2 Plyss Expression_system_vector_type: Plasmid Expression_system_plasmid: Pethsuk
symmetry	Space Group: P 21 21 21	R_factor 0.192 R_Free 0.230
crystal cell	length a length b length c angle alpha angle beta angle gamma 51.290 69.978 165.337 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.85 Å
ligand	BMA, FLC, MAN, NAG, ZN	enzyme	Hydrolase E.C.3.4.17.20 BRENDA
Gene Ontology	Chain Function Process Component A
Primary reference	Elucidation of the molecular mechanisms of two nanobodies that inhibit TAFI activation and TAFIa activity., Zhou X, Weeks SD, Ameloot P, Callewaert N, Strelkov SV, Declerck PJ, J Thromb Haemost. 2016 Jun 9. doi: 10.1111/jth.13381. PMID:27279497

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (172 Kb) [Save to disk] Biological Unit Coordinates (5hvf.pdb1.gz) 166 Kb LPC: Ligand-Protein Contacts for 5HVF CSU: Contacts of Structural Units for 5HVF Structure Factors (835 Kb) Retrieve 5HVF in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 5HVF from S2C, [Save to disk] Re-refined 5hvf structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 5HVF 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 5HVF

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: [5hvf] [5hvf_B] [5hvf_A] SWISS-PROT database: Domain organization of by SWISSPFAM Domains found in 5HVF: [IGv] [Zn_pept ] by SMART

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