1AQD	Complex (Mhc Protein Antigen)	date	Jul 28, 1997
title	Hla-Dr1 (Dra, Drb1 0101) Human Class II Histocompatibility P (Extracellular Domain) Complexed With Endogenous Peptide
authors	V.L.Murthy, L.J.Stern
compound		source
Molecule: Hla-Dr1 Class II Histocompatibility Protein Chain: A, D, G, J Fragment: Secreted Extracellular Domains Synonym: Dra, Drb1 01010 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Organ: Plasma Tissue: Lymphoid Cellular_location: Plasma Membrane Gene: Dra0101, Drb10101 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_vector: Pvl1392-Based
Molecule: Hla-Dr1 Class II Histocompatibility Protein Chain: B, E, H, K Fragment: Secreted Extracellular Domains Synonym: Dra, Drb1 01010 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Organ: Plasma Tissue: Lymphoid Cellular_location: Plasma Membrane Gene: Dra0101, Drb10101 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_vector: Pvl1392-Based
Molecule: Hla-A2 Chain: C, F, I, L Fragment: Antigenic Peptide Engineered: Yes Other_details: Hla-Dr1 Is A Class II Mhc Protein, Hla-A2 Is Histocompatibility Antigen		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606
symmetry	Space Group: C 1 2 1	R_factor 0.216 R_Free 0.279
crystal cell	length a length b length c angle alpha angle beta angle gamma 134.514 134.320 131.232 90.00 104.82 90.00
method	X-Ray Diffraction	resolution	2.45 Å
related structures	by homologous chain: 1D5X, 1D6E
Gene Ontology	Chain Function Process Component A, J, D, G H, K, E, B
Primary reference	The class II MHC protein HLA-DR1 in complex with an endogenous peptide: implications for the structural basis of the specificity of peptide binding., Murthy VL, Stern LJ, Structure 1997 Oct 15;5(10):1385-96. PMID:9351812

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (258 Kb) [Save to disk] Biological Unit Coordinates (1aqd.pdb1.gz) 66 Kb Biological Unit Coordinates (1aqd.pdb2.gz) 66 Kb Biological Unit Coordinates (1aqd.pdb3.gz) 66 Kb Biological Unit Coordinates (1aqd.pdb4.gz) 67 Kb CSU: Contacts of Structural Units for 1AQD Likely Quarternary Molecular Structure file(s) for 1AQD Structure Factors (676 Kb) Retrieve 1AQD in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1AQD from S2C, [Save to disk] Re-refined 1aqd structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1AQD 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 1AQD

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 1AQD, from MSDmotif at EBI Genome occurence of 1AQD's fold from GeneCensus Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1aqda2, region A:3-81 [Jmol] [rasmolscript] [script source]     - Domain d1aqda1, region A:82-181 [Jmol] [rasmolscript] [script source]     - Domain d1aqdb2, region B:4-92 [Jmol] [rasmolscript] [script source]     - Domain d1aqdb1, region B:93-190 [Jmol] [rasmolscript] [script source]     - Domain d1aqdd2, region D:3-81 [Jmol] [rasmolscript] [script source]     - Domain d1aqdd1, region D:82-179 [Jmol] [rasmolscript] [script source]     - Domain d1aqde2, region E:4-92 [Jmol] [rasmolscript] [script source]     - Domain d1aqde1, region E:93-190 [Jmol] [rasmolscript] [script source]     - Domain d1aqdg2, region G:3-81 [Jmol] [rasmolscript] [script source]     - Domain d1aqdg1, region G:82-179 [Jmol] [rasmolscript] [script source]     - Domain d1aqdh2, region H:4-92 [Jmol] [rasmolscript] [script source]     - Domain d1aqdh1, region H:93-190 [Jmol] [rasmolscript] [script source]     - Domain d1aqdj2, region J:3-81 [Jmol] [rasmolscript] [script source]     - Domain d1aqdj1, region J:82-179 [Jmol] [rasmolscript] [script source]     - Domain d1aqdk2, region K:4-92 [Jmol] [rasmolscript] [script source]     - Domain d1aqdk1, region K:93-191 [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: [1aqd_K] [1aqd_F] [1aqd_B] [1aqd_A] [1aqd_E] [1aqd_L] [1aqd] [1aqd_G] [1aqd_D] [1aqd_H] [1aqd_I] [1aqd_J] [1aqd_C] SWISS-PROT database: [P01892] [P04229] [P01903] Domain organization of [1A02_HUMAN] [2B11_HUMAN] [DRA_HUMAN] by SWISSPFAM Domains found in 1AQD: [IGc1] [MHC_II_alpha] [MHC_II_beta ] by SMART

Other resources with information on 1AQD

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

Movements, Movies and Images

Images from IMB Jena Image Library of Biological Macromolecules.

You may enter another PDB ID code

Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]

---

OCA© by Jaime Prilusky, 1996-2014,2022 Bioinformatics Unit Weizmann Institute of Science

---