1KJ2	Immune System	date	Dec 04, 2001
title	Murine Alloreactive Scfv Tcr-Peptide-Mhc Class I Molecule Co
authors	J.B.Reiser, C.Gregoire, C.Darnault, T.Mosser, A.Guimezanes, A.M Verhulst, J.C.Fontecilla-Camps, G.Mazza, B.Malissen, D.Housset
compound		source
Molecule: Allogeneic H-2kb Mhc Class I Molecule Chain: H, I Fragment: Extracellular Domains (Alpha1, Alpha2, Alpha3) Synonym: Mhc Class I Heavy Chain Engineered: Yes		Organism_scientific: Mus Musculus Organism_common: House Mouse Organism_taxid: 10090 Expression_system: Escherichia Coli Expression_system_taxid: 562
Molecule: Naturally Processed Octapeptide Pkb1 Chain: P, Q Engineered: Yes		Synthetic: Yes Other_details: Sequence Naturally Occurs In Mus Muculus
Molecule: Beta-2 Microglobulin Chain: L, M Engineered: Yes		Organism_scientific: Mus Musculus Organism_common: House Mouse Organism_taxid: 10090 Expression_system: Escherichia Coli Expression_system_taxid: 562
Molecule: Kb5-C20 T-Cell Receptor Alpha-Chain Chain: A, D Fragment: Fv Fragment , Variable Domain Synonym: T-Cell Receptor Alpha Variable Domain Alpha Chain Engineered: Yes		Organism_scientific: Mus Musculus Organism_common: House Mouse Organism_taxid: 10090 Expression_system: Mus Musculus Expression_system_common: House Mouse Expression_system_taxid: 10090
Molecule: Kb5-C20 T-Cell Receptor Beta-Chain Chain: B, E Fragment: Fv Fragment , Variable Domain Synonym: T-Cell Receptor Beta Variable Domain Alpha Chain Engineered: Yes		Organism_scientific: Mus Musculus Organism_common: House Mouse Organism_taxid: 10090 Expression_system: Mus Musculus Expression_system_common: House Mouse Expression_system_taxid: 10090
symmetry	Space Group: P 1 21 1	R_factor 0.220 R_Free 0.278
crystal cell	length a length b length c angle alpha angle beta angle gamma 89.200 77.920 132.960 90.00 108.23 90.00
method	X-Ray Diffraction	resolution	2.71 Å
ligand	GAL, MAN, NAG, SIA	enzyme
related structures	by homologous chain: 1B88, 1FFN, 1FG2, 1NAM
Gene Ontology	Chain Function Process Component M, L
Primary reference	A T cell receptor CDR3beta loop undergoes conformational changes of unprecedented magnitude upon binding to a peptide/MHC class I complex., Reiser JB, Gregoire C, Darnault C, Mosser T, Guimezanes A, Schmitt-Verhulst AM, Fontecilla-Camps JC, Mazza G, Malissen B, Housset D, Immunity 2002 Mar;16(3):345-54. PMID:11911820

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (211 Kb) [Save to disk] Biological Unit Coordinates (1kj2.pdb1.gz) 106 Kb Biological Unit Coordinates (1kj2.pdb2.gz) 103 Kb LPC: Ligand-Protein Contacts for 1KJ2 CSU: Contacts of Structural Units for 1KJ2 Likely Quarternary Molecular Structure file(s) for 1KJ2 Structure Factors (380 Kb) Retrieve 1KJ2 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1KJ2 from S2C, [Save to disk] Re-refined 1kj2 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1KJ2 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 1KJ2

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 1KJ2, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1kj2a_, region A [Jmol] [rasmolscript] [script source]     - Domain d1kj2b_, region B [Jmol] [rasmolscript] [script source]     - Domain d1kj2d_, region D [Jmol] [rasmolscript] [script source]     - Domain d1kj2e_, region E [Jmol] [rasmolscript] [script source]     - Domain d1kj2h2, region H:1-181 [Jmol] [rasmolscript] [script source]     - Domain d1kj2h1, region H:182-276 [Jmol] [rasmolscript] [script source]     - Domain d1kj2i2, region I:1-181 [Jmol] [rasmolscript] [script source]     - Domain d1kj2i1, region I:182-277 [Jmol] [rasmolscript] [script source]     - Domain d1kj2l_, region L [Jmol] [rasmolscript] [script source]     - Domain d1kj2m_, region M [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: [1kj2_M] [1kj2_Q] [1kj2_I] [1kj2] [1kj2_B] [1kj2_H] [1kj2_A] [1kj2_D] [1kj2_E] [1kj2_L] [1kj2_P] SWISS-PROT database: [P01887] [O08582] [P01901] [P04214] Domain organization of [B2MG_MOUSE] [GTPB1_MOUSE] [HA1B_MOUSE] [TVB6_MOUSE] by SWISSPFAM Domains found in 1KJ2: [IG] [IGc1] [IGv ] by SMART

Other resources with information on 1KJ2

Community annotation for 1KJ2 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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