1QQD Immune System date Jun 03, 1999
title Crystal Structure Of Hla-Cw4, A Ligand For The Kir2d Natural Killer Cell Inhibitory Receptor
authors Q.R.Fan, D.C.Wiley
compound source
Molecule: Histocompatibility Leukocyte Antigen (Hla)-Cw4 (Heavy Chain);
Chain: A
Fragment: Extracellular Domain
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Plm-1

Molecule: Beta-2 Microglobulin
Chain: B
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Plm-1

Molecule: Hla-Cw4 Specific Peptide
Chain: C
Engineered: Yes

Synthetic: Yes
Other_details: The Peptide Was Chemically Synthesized. The Nonameric Peptide Contains The Consensus Peptide-Binding Motif For Hla-Cw4, Which Was Determined By Pool Sequencing.
symmetry Space Group: P 21 21 21
R_factor 0.223 R_Free 0.275
crystal
cell
length a length b length c angle alpha angle beta angle gamma
54.960 77.490 108.590 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.70 Å
related structures by homologous chain: 1CG9, 1ZHB
Gene
Ontology
ChainFunctionProcessComponent
A


B


Primary referenceStructure of human histocompatibility leukocyte antigen (HLA)-Cw4, a ligand for the KIR2D natural killer cell inhibitory receptor., Fan QR, Wiley DC, J Exp Med 1999 Jul 5;190(1):113-23. PMID:10429675
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (69 Kb) [Save to disk]
  • Biological Unit Coordinates (1qqd.pdb1.gz) 65 Kb
  • CSU: Contacts of Structural Units for 1QQD
  • Likely Quarternary Molecular Structure file(s) for 1QQD
  • Structure Factors (99 Kb)
  • Retrieve 1QQD in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1QQD from S2C, [Save to disk]
  • Re-refined 1qqd structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1QQD 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 1QQD
  • 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 1QQD, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1qqda1, region A:182-274 [Jmol] [rasmolscript] [script source]
        - Domain d1qqda2, region A:2-181 [Jmol] [rasmolscript] [script source]
        - Domain d1qqdb_, region B [Jmol] [rasmolscript] [script source]
  • Fold representative 1qqd 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: [1qqd_C] [1qqd] [1qqd_A] [1qqd_B]
  • SWISS-PROT database: [P30504] [P61769]
  • Domain organization of [1C04_HUMAN] [B2MG_HUMAN] by SWISSPFAM
  • Domain found in 1QQD: [IGc1 ] by SMART
  • Alignments of the sequence of 1QQD with the sequences similar proteins can be viewed for 1QQD's classification [1C04_HUMAN] [B2MG_HUMAN] at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list.
  • A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification [1C04_HUMAN] [B2MG_HUMAN] at ProtoMap. Click on the Cluster number.
  • Other resources with information on 1QQD
  • Community annotation for 1QQD 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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