1FZG	Blood Coagulation	date	Jan 01, 1999
title	Crystal Structure Of Fragment D From Human Fibrinogen With T Ligand Gly-His-Arg-Pro-Amide
authors	S.J.Everse, G.Spraggon, L.Veerapandian, R.F.Doolittle
compound		source
Molecule: Fibrinogen Chain: A, D Fragment: Fragment Double-D		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Organ: Blood Tissue: Blood
Molecule: Fibrinogen Chain: B, E Fragment: Fragment Double-D		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Organ: Blood Tissue: Blood
Molecule: Fibrinogen Chain: C, F Fragment: Fragment Double-D		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Organ: Blood Tissue: Blood
Molecule: Fibrinogen Chain: S, T, M, N Fragment: Fragment Double-D		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Tissue: Blood
symmetry	Space Group: P 21 21 21	R_factor 0.233 R_Free 0.302
crystal cell	length a length b length c angle alpha angle beta angle gamma 54.800 149.400 234.700 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.50 Å
ligand	CA, NAG	enzyme
related structures	by homologous chain: 1FIC, 1RE3, 1RF1
Gene Ontology	Chain Function Process Component F, C 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 S, T, N, E, B, M eukaryotic cell surface bind... chaperone 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	Conformational changes in fragments D and double-D from human fibrin(ogen) upon binding the peptide ligand Gly-His-Arg-Pro-amide., Everse SJ, Spraggon G, Veerapandian L, Doolittle RF, Biochemistry 1999 Mar 9;38(10):2941-6. PMID:10074346

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (228 Kb) [Save to disk] Biological Unit Coordinates (1fzg.pdb1.gz) 218 Kb LPC: Ligand-Protein Contacts for 1FZG CSU: Contacts of Structural Units for 1FZG Likely Quarternary Molecular Structure file(s) for 1FZG Retrieve 1FZG in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1FZG from S2C, [Save to disk]

View 1FZG 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 1FZG

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 1FZG, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1fzga_, region A [Jmol] [rasmolscript] [script source]     - Domain d1fzgb2, region B:157-199 [Jmol] [rasmolscript] [script source]     - Domain d1fzgb1, region B:200-459 [Jmol] [rasmolscript] [script source]     - Domain d1fzgc2, region C:102-141 [Jmol] [rasmolscript] [script source]     - Domain d1fzgc1, region C:142-393 [Jmol] [rasmolscript] [script source]     - Domain d1fzgd_, region D [Jmol] [rasmolscript] [script source]     - Domain d1fzge2, region E:164-199 [Jmol] [rasmolscript] [script source]     - Domain d1fzge1, region E:200-459 [Jmol] [rasmolscript] [script source]     - Domain d1fzgf2, region F:109-141 [Jmol] [rasmolscript] [script source]     - Domain d1fzgf1, region F:142-393 [Jmol] [rasmolscript] [script source] Fold representative 1fzg 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: [1fzg_A] [1fzg_B] [1fzg_C] [1fzg_D] [1fzg_E] [1fzg_F] [1fzg_M] [1fzg_N] [1fzg_S] [1fzg_T] SWISS-PROT database: [P02671] [P02675] [P02679] Domain organization of [FIBA_HUMAN] [FIBB_HUMAN] [FIBG_HUMAN] by SWISSPFAM Domain found in 1FZG: [FBG ] by SMART Alignments of the sequence of 1FZG with the sequences similar proteins can be viewed for 1FZG's classification [FIBA_HUMAN] [FIBB_HUMAN] [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 [FIBA_HUMAN] [FIBB_HUMAN] [FIBG_HUMAN] at ProtoMap. Click on the Cluster number.

Other resources with information on 1FZG

Community annotation for 1FZG at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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