1MKM Transcription date Aug 29, 2002
title Crystal Structure Of The Thermotoga Maritima Iclr
authors Y.Kim, R.G.Zhang, A.Joachimiak, T.Skarina, A.Edwards, A.Savchenko Center For Structural Genomics (Mcsg)
compound source
Molecule: Iclr Transcriptional Regulator
Chain: A, B
Engineered: Yes
 Organism_scientific: Thermotoga Maritima
Organism_taxid: 2336
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: C 1 2 1
R_factor 0.232 R_Free 0.300
crystal
cell
length a length b length c angle alpha angle beta angle gamma
115.229 61.076 95.911 90.00 110.51 90.00
method X-Ray Diffractionresolution 2.20 Å
ligand FMT, ZN enzyme
note 1MKM supersedes 1JMR
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceCrystal structure of Thermotoga maritima 0065, a member of the IclR transcriptional factor family., Zhang RG, Kim Y, Skarina T, Beasley S, Laskowski R, Arrowsmith C, Edwards A, Joachimiak A, Savchenko A, J Biol Chem 2002 May 24;277(21):19183-90. PMID:11877432
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (87 Kb) [Save to disk]
  • Biological Unit Coordinates (1mkm.pdb1.gz) 163 Kb
  • LPC: Ligand-Protein Contacts for 1MKM
  • CSU: Contacts of Structural Units for 1MKM
  • Likely Quarternary Molecular Structure file(s) for 1MKM
  • Structure Factors (210 Kb)
  • Retrieve 1MKM in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1MKM from S2C, [Save to disk]
  • Re-refined 1mkm structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1MKM 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 1MKM
  • 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 1MKM, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1mkma1, region A:1-75 [Jmol] [rasmolscript] [script source]
        - Domain d1mkma2, region A:76-246 [Jmol] [rasmolscript] [script source]
        - Domain d1mkmb1, region B:0-75 [Jmol] [rasmolscript] [script source]
        - Domain d1mkmb2, region B:76-246 [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: [1mkm_A] [1mkm_B] [1mkm]
  • SWISS-PROT database: [Q9WXS0]
  • Domain organization of [Q9WXS0_THEMA] by SWISSPFAM
  • Domain found in 1MKM: [HTH_ICLR ] by SMART
    • Other resources with information on 1MKM
  • Community annotation for 1MKM 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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