3H0T Immune System Antimicrobial Protein date Apr 10, 2009
title Hepcidin-Fab Complex
authors R.Syed, V.Li
compound source
Molecule: Fab Fragment, Light Chain
Chain: A
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Fab Fragment, Heavy Chain
Chain: B
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Hepcidin
Chain: C
Fragment: Unp Residues 60-84
Synonym: Liver-Expressed Antimicrobial Peptide, Leap-1, Putative Liver Tumor Regressor, Pltr, Hepcidin-25, Hepc25, Hepcidin-20, Hepc20;
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Hamp, Hepc, Hepcidin, Leap1
Expression_system: Cricetulus Griseus
Expression_system_taxid: 10029
symmetry Space Group: C 1 2 1
R_factor 0.202 R_Free 0.251
crystal
cell
length a length b length c angle alpha angle beta angle gamma
174.077 52.169 65.630 90.00 99.24 90.00
method X-Ray Diffractionresolution 1.89 Å
subcellular loc. Membrane localization by OPM: Secreted
out side
in side
Gene
Ontology
ChainFunctionProcessComponent
C


Primary referenceHepcidin revisited, disulfide connectivity, dynamics, and structure., Jordan JB, Poppe L, Haniu M, Arvedson T, Syed R, Li V, Kohno H, Kim H, Schnier PD, Harvey TS, Miranda LP, Cheetham J, Sasu BJ, J Biol Chem. 2009 Sep 4;284(36):24155-67. Epub 2009 Jun 24. PMID:19553669
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (83 Kb) [Save to disk]
  • Biological Unit Coordinates (3h0t.pdb1.gz) 154 Kb
  • Biological Unit Coordinates (3h0t.pdb2.gz) 78 Kb
  • CSU: Contacts of Structural Units for 3H0T
  • Likely Quarternary Molecular Structure file(s) for 3H0T
  • Structure Factors (348 Kb)
  • Retrieve 3H0T in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3H0T from S2C, [Save to disk]
  • Re-refined 3h0t structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3H0T 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 3H0T
  • 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 3H0T, from MSDmotif at EBI
  • Fold representative 3h0t from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3h0t_B] [3h0t_C] [3h0t_A] [3h0t]
  • SWISS-PROT database: [P81172]
  • Belongs to the hepcidin (hepcidin) family according to TCDB.
  • Domain organization of [HEPC_HUMAN] by SWISSPFAM
  • Domains found in 3H0T: [IG_like] [IGv ] by SMART
  • Other resources with information on 3H0T
  • Community annotation for 3H0T 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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