1F3J	Immune System	date	Jun 04, 2000
title	Histocompatibility Antigen I-Ag7
authors	R.R.Latek, E.R.Unanue, D.H.Fremont
compound		source
Molecule: H-2 Class II Histocompatibility Antigen Chain: A, D Fragment: A-D Alpha Chain Engineered: Yes		Organism_scientific: Mus Musculus Organism_common: House Mouse Organism_taxid: 10090 Expression_system: Spodoptera Frugiperda Expression_system_common: Fall Armyworm Expression_system_taxid: 7108 Expression_system_vector: Baculovirus
Molecule: Mhc Class II Nod Chain: B, E Fragment: Beta Chain Engineered: Yes		Organism_scientific: Mus Musculus Organism_common: House Mouse Organism_taxid: 10090 Expression_system: Spodoptera Frugiperda Expression_system_common: Fall Armyworm Expression_system_taxid: 7108 Expression_system_vector: Baculovirus
Molecule: Lysozyme C Chain: P, Q Fragment: Residues 11-24, Correspond To Binding Sites P-3 T Engineered: Yes		Organism_scientific: Gallus Gallus Organism_common: Chicken Organism_taxid: 9031 Expression_system: Spodoptera Frugiperda Expression_system_common: Fall Armyworm Expression_system_taxid: 7108 Expression_system_vector: Baculovirus
symmetry	Space Group: P 41 21 2	R_factor 0.221 R_Free 0.299
crystal cell	length a length b length c angle alpha angle beta angle gamma 109.540 109.540 176.360 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	3.10 Å
ligand	NAG	enzyme
Gene Ontology	Chain Function Process Component A, D E, B
Primary reference	Structural basis of peptide binding and presentation by the type I diabetes-associated MHC class II molecule of NOD mice., Latek RR, Suri A, Petzold SJ, Nelson CA, Kanagawa O, Unanue ER, Fremont DH, Immunity 2000 Jun;12(6):699-710. PMID:10894169

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (135 Kb) [Save to disk] Biological Unit Coordinates (1f3j.pdb1.gz) 128 Kb LPC: Ligand-Protein Contacts for 1F3J CSU: Contacts of Structural Units for 1F3J Likely Quarternary Molecular Structure file(s) for 1F3J Retrieve 1F3J in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1F3J from S2C, [Save to disk]

View 1F3J 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 1F3J

Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 1F3J, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1f3ja2, region A:1-82 [Jmol] [rasmolscript] [script source]     - Domain d1f3ja1, region A:83-181 [Jmol] [rasmolscript] [script source]     - Domain d1f3jb2, region B:4-93 [Jmol] [rasmolscript] [script source]     - Domain d1f3jb1, region B:94-191 [Jmol] [rasmolscript] [script source]     - Domain d1f3jd2, region D:1-82 [Jmol] [rasmolscript] [script source]     - Domain d1f3jd1, region D:83-181 [Jmol] [rasmolscript] [script source]     - Domain d1f3je2, region E:4-93 [Jmol] [rasmolscript] [script source]     - Domain d1f3je1, region E:94-191 [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: [1f3j_B] [1f3j_E] [1f3j_Q] [1f3j_A] [1f3j_P] [1f3j_D] [1f3j] SWISS-PROT database: [P04228] [P00698] [Q31135] Domain organization of [HA2D_MOUSE] [LYSC_CHICK] [Q31135_MOUSE] by SWISSPFAM Domains found in 1F3J: [IGc1] [MHC_II_alpha] [MHC_II_beta ] by SMART

Other resources with information on 1F3J

Community annotation for 1F3J at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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