1MKF Immune System date Aug 29, 2002
title Viral Chemokine Binding Protein M3 From Murine Gammaherpesvirus 68
authors J.M.Alexander, D.H.Fremont, Midwest Center For Structural Genomics (Mcsg)
compound source
Molecule: M3
Chain: A, B
Engineered: Yes
Organism_scientific: Murid Herpesvirus 4
Organism_common: Murine Herpesvirus 68
Organism_taxid: 33708
Gene: M3
Expression_system: Spodoptera Frugiperda
Expression_system_common: Fall Armyworm
Expression_system_taxid: 7108
Expression_system_cell_line: Sf9
Expression_system_vector_type: Baculovirus
Expression_system_plasmid: Pfb-1
symmetry Space Group: C 1 2 1
R_factor 0.228 R_Free 0.273
crystal
cell
length a length b length c angle alpha angle beta angle gamma
140.900 67.300 93.900 90.00 120.40 90.00
method X-Ray Diffractionresolution 2.10 Å
note 1MKF is a representative structure
related structures by homologous chain: 1ML0, 1OGM
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceStructural basis of chemokine sequestration by a herpesvirus decoy receptor., Alexander JM, Nelson CA, van Berkel V, Lau EK, Studts JM, Brett TJ, Speck SH, Handel TM, Virgin HW, Fremont DH, Cell 2002 Nov 1;111(3):343-56. PMID:12419245
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (128 Kb) [Save to disk]
  • Biological Unit Coordinates (1mkf.pdb1.gz) 123 Kb
  • Biological Unit Coordinates (1mkf.pdb2.gz) 244 Kb
  • CSU: Contacts of Structural Units for 1MKF
  • Likely Quarternary Molecular Structure file(s) for 1MKF
  • Retrieve 1MKF in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1MKF from S2C, [Save to disk]
  • View 1MKF 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 1MKF
  • 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 1MKF, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1mkfa_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1mkfb_, region B [Jmol] [rasmolscript] [script source]
  • Fold representative 1mkf 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: [1mkf] [1mkf_B] [1mkf_A]
  • SWISS-PROT database: [O41925]
  • Domain organization of [O41925_MHV68] by SWISSPFAM
  • Other resources with information on 1MKF
  • Community annotation for 1MKF 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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