1V7N	Immune System Cytokine	date	Dec 18, 2003
title	Human Thrombopoietin Functional Domain Complexed To Neutrali Antibody Tn1 Fab
authors	M.D.Feese, T.Tamada, Y.Kato, Y.Maeda, M.Hirose, Y.Matsukura, H.Shi T.Kato, H.Miyazaki, R.Kuroki
compound		source
Molecule: Monoclonal Tn1 Fab Light Chain Chain: L, M, N, O Fragment: Fab Light Chain Engineered: Yes		Organism_scientific: Mus Musculus Organism_common: House Mouse Organism_taxid: 10090 Expression_system: Mus Musculus Expression_system_common: House Mouse Expression_system_taxid: 10090 Expression_system_cell_line: Hybridoma
Molecule: Monoclonal Tn1 Fab Heavy Chain Chain: H, I, J, K Fragment: Fab Heavy Chain Engineered: Yes		Organism_scientific: Mus Musculus Organism_common: House Mouse Organism_taxid: 10090 Expression_system: Mus Musculus Expression_system_common: House Mouse Expression_system_taxid: 10090 Expression_system_cell_line: Hybridoma
Molecule: Thrombopoietin Chain: V, X, Y, Z Fragment: Tpo Functional Domain Synonym: Megakaryocyte Colony Stimulating Factor, Myeloprol Leukemia Virus Oncogene Ligand, C-Mpl Ligand, Ml, Megakaryo Growth And Development Factor, Mgdf; Engineered: Yes Mutation: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Expression_system: Escherichia Coli Expression_system_taxid: 562
symmetry	Space Group: P 1 21 1	R_factor 0.167 R_Free 0.305
crystal cell	length a length b length c angle alpha angle beta angle gamma 133.038 46.582 191.359 90.00 90.28 90.00
method	X-Ray Diffraction	resolution	3.30 Å
Gene Ontology	Chain Function Process Component Z, X, Y, V
Primary reference	Structure of the receptor-binding domain of human thrombopoietin determined by complexation with a neutralizing antibody fragment., Feese MD, Tamada T, Kato Y, Maeda Y, Hirose M, Matsukura Y, Shigematsu H, Muto T, Matsumoto A, Watarai H, Ogami K, Tahara T, Kato T, Miyazaki H, Kuroki R, Proc Natl Acad Sci U S A 2004 Feb 17;101(7):1816-21. Epub 2004 Feb 9. PMID:14769915

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (354 Kb) [Save to disk] Biological Unit Coordinates (1v7n.pdb1.gz) 92 Kb Biological Unit Coordinates (1v7n.pdb2.gz) 92 Kb Biological Unit Coordinates (1v7n.pdb3.gz) 91 Kb Biological Unit Coordinates (1v7n.pdb4.gz) 91 Kb CSU: Contacts of Structural Units for 1V7N Likely Quarternary Molecular Structure file(s) for 1V7N Structure Factors (535 Kb) Retrieve 1V7N in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1V7N from S2C, [Save to disk] Re-refined 1v7n structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1V7N 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 1V7N

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 1V7N, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1v7nh1, region H:1-116 [Jmol] [rasmolscript] [script source]     - Domain d1v7nh2, region H:117-217 [Jmol] [rasmolscript] [script source]     - Domain d1v7ni1, region I:1-116 [Jmol] [rasmolscript] [script source]     - Domain d1v7ni2, region I:117-217 [Jmol] [rasmolscript] [script source]     - Domain d1v7nj1, region J:1-116 [Jmol] [rasmolscript] [script source]     - Domain d1v7nj2, region J:117-217 [Jmol] [rasmolscript] [script source]     - Domain d1v7nk1, region K:1-116 [Jmol] [rasmolscript] [script source]     - Domain d1v7nk2, region K:117-217 [Jmol] [rasmolscript] [script source]     - Domain d1v7nl1, region L:1-107 [Jmol] [rasmolscript] [script source]     - Domain d1v7nl2, region L:108-213 [Jmol] [rasmolscript] [script source]     - Domain d1v7nm1, region M:1-107 [Jmol] [rasmolscript] [script source]     - Domain d1v7nm2, region M:108-212 [Jmol] [rasmolscript] [script source]     - Domain d1v7nn1, region N:1-107 [Jmol] [rasmolscript] [script source]     - Domain d1v7nn2, region N:108-212 [Jmol] [rasmolscript] [script source]     - Domain d1v7no1, region O:1-107 [Jmol] [rasmolscript] [script source]     - Domain d1v7no2, region O:108-213 [Jmol] [rasmolscript] [script source]     - Domain d1v7nv_, region V [Jmol] [rasmolscript] [script source]     - Domain d1v7nx_, region X [Jmol] [rasmolscript] [script source]     - Domain d1v7ny_, region Y [Jmol] [rasmolscript] [script source]     - Domain d1v7nz_, region Z [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: [1v7n_K] [1v7n_V] [1v7n] [1v7n_M] [1v7n_O] [1v7n_L] [1v7n_Y] [1v7n_H] [1v7n_I] [1v7n_J] [1v7n_Z] [1v7n_X] [1v7n_N] SWISS-PROT database: [P40225] Domain organization of [TPO_HUMAN] by SWISSPFAM Domains found in 1V7N: [IG_like] [IGv ] by SMART

Other resources with information on 1V7N

Community annotation for 1V7N at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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