1UVQ	Immunology	date	Jan 22, 2004
title	Crystal Structure Of Hla-Dq0602 In Complex With A Hypocretin Peptide
authors	C.Siebold, B.E.Hansen, J.R.Wyer, K.Harlos, R.E.Esnouf, A.Svejgaard, J.I.Bell, J.L.Strominger, E.Y.Jones, L.Fugger
compound		source
Molecule: Hla Class II Histocompatibility Antigen Chain: A Synonym: Qa10602, Dq(5) Alpha Chain, Dc-1 Alpha Chain Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Cell_line: S2 Expression_system: Drosophila Melanogaster Expression_system_taxid: 7227
Molecule: Hla Class II Histocompatibility Antigen Chain: B Synonym: Dqb10602, Dqb10602 Beta Chain, Dq(5), Dc-1 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Cell_line: S2 Expression_system: Drosophila Melanogaster Expression_system_taxid: 7227
Molecule: Orexin Chain: C Synonym: Hcrt, Hypocretin-1, Hcrt1, Orexin-B, Hypocretin-2, Hcrt2; Engineered: Yes Other_details: Chain C Is Covalently Connected At The N-Terminus Of Chain B Via A Glycine-Rich Linker. As Per Definition For The Mhc Class II Molecules, The Chains Of The Peptide Ligand (Chain C) And The Beta-Chain (Chain B) Should Be Different.		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Expression_system: Drosophila Melanogaster Expression_system_taxid: 7227
symmetry	Space Group: P 21 21 2	R_factor 0.189 R_Free 0.205
crystal cell	length a length b length c angle alpha angle beta angle gamma 102.078 129.304 40.619 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	1.8 Å
ligand	ACY, BMA, FUC, GLY, NAG, ZN	enzyme
note	1UVQ is a representative structure
related structures	by homologous chain: 1IAK
Primary reference	Crystal structure of HLA-DQ0602 that protects against type 1 diabetes and confers strong susceptibility to narcolepsy., Siebold C, Hansen BE, Wyer JR, Harlos K, Esnouf RE, Svejgaard A, Bell JI, Strominger JL, Jones EY, Fugger L, Proc Natl Acad Sci U S A 2004 Feb 17;101(7):1999-2004. Epub 2004 Feb 9. PMID:14769912

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (78 Kb) [Save to disk] Biological Unit Coordinates (1uvq.pdb1.gz) 73 Kb LPC: Ligand-Protein Contacts for 1UVQ CSU: Contacts of Structural Units for 1UVQ Likely Quarternary Molecular Structure file(s) for 1UVQ Structure Factors (371 Kb) Retrieve 1UVQ in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1UVQ from S2C, [Save to disk] Re-refined 1uvq structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1UVQ 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. On AstexViewer, from MSD-EBI (viewer documentation). On RasMol (Install RasMol freeware) Here's help on how to use RasMol.

Visual 3D analysis of 1UVQ

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 1UVQ, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1uvqa2, region A:2-84 [Jmol] [rasmolscript] [script source]     - Domain d1uvqa1, region A:85-183 [Jmol] [rasmolscript] [script source]     - Domain d1uvqb2, region B:3-94 [Jmol] [rasmolscript] [script source]     - Domain d1uvqb1, region B:95-191 [Jmol] [rasmolscript] [script source] Fold representative 1uvq 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: [1uvq_A] [1uvq_B] [1uvq_C] SWISS-PROT database: [P01909] [P01920] [O43612] Domain organization of [DQA1_HUMAN] [DQB1_HUMAN] [OREX_HUMAN] by SWISSPFAM Domains found in 1UVQ: [IGc1] [MHC_II_alpha] [MHC_II_beta ] by SMART Alignments of the sequence of 1UVQ with the sequences similar proteins can be viewed for 1UVQ's classification [DQA1_HUMAN] [DQB1_HUMAN] [OREX_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 [DQA1_HUMAN] [DQB1_HUMAN] [OREX_HUMAN] at ProtoMap. Click on the Cluster number.

Other resources with information on 1UVQ

Community annotation for 1UVQ at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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