1B98 Hormone Growth Factor date Feb 22, 1999
title Neurotrophin 4 (Homodimer)
authors R.C.Robinson, C.Radziejewski, D.I.Stuart, E.Y.Jones, S.Choe
compound source
Molecule: Protein (Neurotrophin-4)
Chain: A, M
Fragment: Precursor Residues 81-210
Synonym: Nt4
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Other_details: Supplied By Regeneron Pharmacuticals
symmetry Space Group: P 1 21 1
R_factor 0.235 R_Free 0.336
crystal
cell
length a length b length c angle alpha angle beta angle gamma
43.800 50.800 53.000 90.00 109.40 90.00
method X-Ray Diffractionresolution 2.75 Å
ligand CL enzyme
note 1B98 (Molecule of the Month:pdb68)
related structures by homologous chain: 1B8M
Gene
Ontology
ChainFunctionProcessComponent
A, M


Primary referenceThe structures of the neurotrophin 4 homodimer and the brain-derived neurotrophic factor/neurotrophin 4 heterodimer reveal a common Trk-binding site., Robinson RC, Radziejewski C, Spraggon G, Greenwald J, Kostura MR, Burtnick LD, Stuart DI, Choe S, Jones EY, Protein Sci 1999 Dec;8(12):2589-97. PMID:10631974
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (39 Kb) [Save to disk]
  • Biological Unit Coordinates (1b98.pdb1.gz) 35 Kb
  • LPC: Ligand-Protein Contacts for 1B98
  • CSU: Contacts of Structural Units for 1B98
  • Likely Quarternary Molecular Structure file(s) for 1B98
  • Retrieve 1B98 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1B98 from S2C, [Save to disk]
  • View 1B98 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 1B98
  • 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 1B98, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1b98a_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1b98m_, region M [Jmol] [rasmolscript] [script source]
  • Fold representative 1b98 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: [1b98] [1b98_A] [1b98_M]
  • SWISS-PROT database: [P34130]
  • Domain organization of [NTF4_HUMAN] by SWISSPFAM
  • Domain found in 1B98: [NGF ] by SMART
  • Other resources with information on 1B98
  • Community annotation for 1B98 at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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