3FIB	Blood Coagulation	date	Jul 14, 1997
title	Recombinant Human Gamma-Fibrinogen Carboxyl Terminal Fragment (Residues 143-411) Bound To Calcium At Ph 6.0: A Further Refinement Of Pdb Entry 1fib, And Differs From 1fib By The Modelling Of A Cis Peptide Bond Between Residues K338 And C339
authors	K.P.Pratt, H.C.F.Cote, D.W.Chung, R.E.Stenkamp, E.W.Davie
compound		source
Molecule: Fibrinogen Gamma Chain Residues Chain: A Fragment: Residues 143 - 411 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Organ: Blood Expression_system: Pichia Pastoris Expression_system_taxid: 4922 Expression_system_strain: Gs115 Expression_system_plasmid: Ppic9k
symmetry	Space Group: P 1 21 1	R_factor 0.154 R_Free 0.206
crystal cell	length a length b length c angle alpha angle beta angle gamma 37.530 68.420 47.670 90.00 105.36 90.00
method	X-Ray Diffraction	resolution	2.10 Å
ligand	CA	enzyme
related structures	by homologous chain: 1FIB
Gene Ontology	Chain Function Process Component A eukaryotic cell surface bind... metal ion binding platelet degranulation blood coagulation hemostasis platelet activation response to calcium ion extracellular region fibrinogen complex extracellular space plasma membrane cell cortex external side of plasma memb... platelet alpha granule platelet alpha granule lumen... blood microparticle
Primary reference	The primary fibrin polymerization pocket: three-dimensional structure of a 30-kDa C-terminal gamma chain fragment complexed with the peptide Gly-Pro-Arg-Pro., Pratt KP, Cote HC, Chung DW, Stenkamp RE, Davie EW, Proc Natl Acad Sci U S A 1997 Jul 8;94(14):7176-81. PMID:9207064

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (48 Kb) [Save to disk] Biological Unit Coordinates (3fib.pdb1.gz) 44 Kb LPC: Ligand-Protein Contacts for 3FIB CSU: Contacts of Structural Units for 3FIB Likely Quarternary Molecular Structure file(s) for 3FIB Retrieve 3FIB in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3FIB from S2C, [Save to disk]

View 3FIB 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 3FIB

Cartoon representation from PDB Cartoon Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute Crystal Contacts, from CryCo at Weizmann Institute 3D motif for 3FIB, from MSDmotif at EBI Genome occurence of 3FIB's fold from GeneCensus Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d3fib__, region [Jmol] [rasmolscript] [script source] Fold representative 3fib from FSSP and Dali (Families of Structurally Similar Proteins) Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH Summaries and structural analyses of PDB data files from PDBSum Identification of Protein Pockets & Cavities at CASTp

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3fib_A] SWISS-PROT database: [P02679] Domain organization of [FIBG_HUMAN] by SWISSPFAM Domain found in 3FIB: [FBG ] by SMART Alignments of the sequence of 3FIB with the sequences similar proteins can be viewed for 3FIB's classification [FIBG_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 [FIBG_HUMAN] at ProtoMap. Click on the Cluster number.

Other resources with information on 3FIB

Community annotation for 3FIB at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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