1SYS Immune System date Apr 01, 2004
title Crystal Structure Of Hla, B4403, And Peptide Eeptvikky
authors D.Zernich, A.W.Purcell, W.A.Macdonald, L.Kjer-Nielsen, L.K.Ely, N.Laham, T.Crockford, N.A.Mifsud, B.D.Tait, R.Holdsworth, A.G.Brooks, S.P.Bottomley, T.Beddoe, C.A.Peh, J.Rossjohn, J.Mccluskey
compound source
Molecule: Leukocyte Antigen (Hla) Class I Molecule
Chain: A
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Hla-B, Hlab
Expression_system: Escherichia Coli Bl21
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet30

Molecule: Beta-2-Microglobulin
Chain: B
Synonym: Hdcma22p
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: B2m
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Sorting Nexin 5
Chain: C
Engineered: Yes

Synthetic: Yes
Other_details: The Peptide Was Chemically Synthesized. The Sequence Of The Peptide Is Naturally Found In Homo Sapiens (Human).
symmetry Space Group: P 21 21 21
R_factor 0.241 R_Free 0.271
crystal
cell
length a length b length c angle alpha angle beta angle gamma
50.823 81.985 110.155 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.40 Å
related structures by homologous chain: 1Q94, 1QR1
Gene
Ontology
ChainFunctionProcessComponent
B
  • cellular response to iron io...

  • Primary referenceNatural HLA class I polymorphism controls the pathway of antigen presentation and susceptibility to viral evasion., Zernich D, Purcell AW, Macdonald WA, Kjer-Nielsen L, Ely LK, Laham N, Crockford T, Mifsud NA, Bharadwaj M, Chang L, Tait BD, Holdsworth R, Brooks AG, Bottomley SP, Beddoe T, Peh CA, Rossjohn J, McCluskey J, J Exp Med 2004 Jul 5;200(1):13-24. Epub 2004 Jun 28. PMID:15226359
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (72 Kb) [Save to disk]
  • Biological Unit Coordinates (1sys.pdb1.gz) 69 Kb
  • CSU: Contacts of Structural Units for 1SYS
  • Likely Quarternary Molecular Structure file(s) for 1SYS
  • Retrieve 1SYS in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1SYS from S2C, [Save to disk]
  • View 1SYS 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 1SYS
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1SYS, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1sysa2, region A:1-181 [Jmol] [rasmolscript] [script source]
        - Domain d1sysa1, region A:182-276 [Jmol] [rasmolscript] [script source]
        - Domain d1sysb_, region B [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: [1sys_C] [1sys_B] [1sys] [1sys_A]
  • SWISS-PROT database: [P30481] [P61769] [Q9Y5X3]
  • Domain organization of [1B44_HUMAN] [B2MG_HUMAN] [SNX5_HUMAN] by SWISSPFAM
  • Domain found in 1SYS: [IGc1 ] by SMART
  • Other resources with information on 1SYS
  • Community annotation for 1SYS 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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