1GP9	Hormone Growth Factor	date	Oct 31, 2001
title	A New Crystal Form Of The Nk1 Splice Variant Of Hgfsf Demon Extensive Hinge Movement And Suggests That The Nk1 Dimer Or By Domain Swapping
authors	K.Watanabe, D.Y.Chirgadze, D.Lietha, E.Gherardi, T.L.Blundell
compound		source
Molecule: Hepatocyte Growth Factor Chain: A, B, C, D Fragment: Nk1, Residues 40-210 Synonym: Scatter Factor, Sf, Hepatopoeitin A Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Cell: Fibroblast Expression_system: Komagataella Pastoris Expression_system_taxid: 4922 Expression_system_variant: Gs115 Expression_system_vector: Ppic-9k Expression_system_plasmid: Ppic-9k
symmetry	Space Group: C 2 2 21	R_factor 0.237 R_Free 0.288
crystal cell	length a length b length c angle alpha angle beta angle gamma 73.480 78.260 304.460 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.50 Å
ligand	EPE	enzyme
related structures	by homologous chain: 1GMN, 1NK1
Primary reference	A new crystal form of the NK1 splice variant of HGF/SF demonstrates extensive hinge movement and suggests that the NK1 dimer originates by domain swapping., Watanabe K, Chirgadze DY, Lietha D, de Jonge H, Blundell TL, Gherardi E, J Mol Biol 2002 May 31;319(2):283-8. PMID:12051906

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (120 Kb) [Save to disk] Biological Unit Coordinates (1gp9.pdb1.gz) 58 Kb Biological Unit Coordinates (1gp9.pdb2.gz) 58 Kb LPC: Ligand-Protein Contacts for 1GP9 CSU: Contacts of Structural Units for 1GP9 Likely Quarternary Molecular Structure file(s) for 1GP9 Structure Factors (246 Kb) Retrieve 1GP9 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1GP9 from S2C, [Save to disk] Re-refined 1gp9 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1GP9 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 1GP9

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 1GP9, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1gp9a2, region A:126-208 [Jmol] [rasmolscript] [script source]     - Domain d1gp9a1, region A:39-125 [Jmol] [rasmolscript] [script source]     - Domain d1gp9b2, region B:126-208 [Jmol] [rasmolscript] [script source]     - Domain d1gp9b1, region B:39-125 [Jmol] [rasmolscript] [script source]     - Domain d1gp9c2, region C:126-208 [Jmol] [rasmolscript] [script source]     - Domain d1gp9c1, region C:38-125 [Jmol] [rasmolscript] [script source]     - Domain d1gp9d2, region D:126-208 [Jmol] [rasmolscript] [script source]     - Domain d1gp9d1, region D:39-125 [Jmol] [rasmolscript] [script source] 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: [1gp9_C] [1gp9] [1gp9_D] [1gp9_B] [1gp9_A] SWISS-PROT database: [P14210] Domain organization of [HGF_HUMAN] by SWISSPFAM Domains found in 1GP9: [KR] [PAN_AP ] by SMART

Other resources with information on 1GP9

Community annotation for 1GP9 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

Movements, Movies and Images

Images from IMB Jena Image Library of Biological Macromolecules.

You may enter another PDB ID code

Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]

---

OCA© by Jaime Prilusky, 1996-2014,2022 Bioinformatics Unit Weizmann Institute of Science

---