1HCF Transferase Hormone date May 03, 2001
title Crystal Structure Of Trkb-D5 Bound To Neurotrophin-45
authors M.J.Banfield, R.L.Naylor, A.G.S.Robertson, S.J.Allen, D.Dawbarn, R.L.Brady
compound source
Molecule: Neurotrophin-4
Chain: A, B
Fragment: Active, Fragment. Pro-Region Cleaved
Synonym: Neurotrophin-5, Neurotrophin-45, Nt-45
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cellular_location: Extracellular

Molecule: Bdnfnt-3 Growth Factors Receptor
Chain: X , Y
Fragment: Extracellular Domain 5 (Residues 286 - 383)
Synonym: Trkb, Gp145-Trkb
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cellular_location: Plasma Membrane
Expression_system: Escherichia Coli
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet-15b
symmetry Space Group: P 21 21 21
R_factor 0.218 R_Free 0.264
length a length b length c angle alpha angle beta angle gamma
74.372 80.406 91.318 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.7 Å
ligand SO4 enzyme
related structures by homologous chain: 1B8M, 1WWB
A, B

X, Y

Primary referenceSpecificity in Trk receptor:neurotrophin interactions: the crystal structure of TrkB-d5 in complex with neurotrophin-4/5., Banfield MJ, Naylor RL, Robertson AG, Allen SJ, Dawbarn D, Brady RL, Structure (Camb) 2001 Dec;9(12):1191-9. PMID:11738045
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (77 Kb) [Save to disk]
  • Biological Unit Coordinates (1hcf.pdb1.gz) 73 Kb
  • LPC: Ligand-Protein Contacts for 1HCF
  • CSU: Contacts of Structural Units for 1HCF
  • Likely Quarternary Molecular Structure file(s) for 1HCF
  • Structure Factors (112 Kb)
  • Retrieve 1HCF in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1HCF from S2C, [Save to disk]
  • Re-refined 1hcf structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1HCF 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 1HCF
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1HCF, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1hcfa_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1hcfb_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1hcfx_, region X [Jmol] [rasmolscript] [script source]
        - Domain d1hcfy_, region Y [Jmol] [rasmolscript] [script source]
  • Fold representative 1hcf 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: [1hcf] [1hcf_A] [1hcf_X] [1hcf_B] [1hcf_Y]
  • SWISS-PROT database: [P34130] [Q16620]
  • Domain organization of [NTF4_HUMAN] [NTRK2_HUMAN] by SWISSPFAM
  • Domain found in 1HCF: [NGF ] by SMART
  • Other resources with information on 1HCF
  • Community annotation for 1HCF 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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