1NKV Structural Genomics, Unknown Function date Jan 03, 2003
title X-Ray Structure Of Yjhp From E.Coli Northeast Structural Genomics Research Consortium (Nesg) Target Er13
authors A.Kuzin, P.Manor, J.Benach, P.Smith, B.Rost, R.Xiao, G.Montelione, J.Hunt, Northeast Structural Genomics Consortium (Nesg)
compound source
Molecule: Hypothetical Protein Yjhp
Chain: A, B, C
Engineered: Yes
 Organism_scientific: Escherichia Coli
Organism_taxid: 562
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 1 21 1
R_factor 0.220 R_Free 0.290
crystal
cell
length a length b length c angle alpha angle beta angle gamma
59.968 54.418 118.325 90.00 99.83 90.00
method X-Ray Diffractionresolution 2.90 Å
ligand MSE enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, C, B


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (123 Kb) [Save to disk]
  • Biological Unit Coordinates (1nkv.pdb1.gz) 117 Kb
  • LPC: Ligand-Protein Contacts for 1NKV
  • CSU: Contacts of Structural Units for 1NKV
  • Likely Quarternary Molecular Structure file(s) for 1NKV
  • Structure Factors (484 Kb)
  • Retrieve 1NKV in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1NKV from S2C, [Save to disk]
  • Re-refined 1nkv structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1NKV 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 1NKV
  • 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 1NKV, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1nkva_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1nkvb_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1nkvc_, region C [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: [1nkv_A] [1nkv_B] [1nkv_C] [1nkv]
  • SWISS-PROT database: [P39367]
  • Domain organization of [YJHP_ECOLI] by SWISSPFAM
    • Other resources with information on 1NKV
  • Community annotation for 1NKV 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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