1KA6	Immune System	date	Oct 31, 2001
title	Sapsh2d1a Bound To Peptide N-Py
authors	P.M.Hwang, C.Li, M.Morra, J.Lillywhite, F.Gertler, C.Terhorst, L.E.Kay, T.Pawson, J.Forman-Kay, S.C.Li
compound		source
Molecule: Sh2 Domain Protein 1a Chain: A Synonym: Slam-Associated Protein Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Expression_system: Escherichia Coli Bl21(De3) Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet3a
Molecule: Peptide N-Py Chain: B Fragment: Cytoplasmic Region (Residues 275-282) Synonym: Signaling Lymphocytic Activation Molecule Engineered: Yes Mutation: Yes		Synthetic: Yes Other_details: This Peptide Was Chemically Synthesized (Solid Phase Synthesis). The Sequence Of The Peptide Is Naturally Found In Homo Sapiens (Human).
method	Solution NMR
ligand	NH2, PTR	enzyme
related structures	by homologous chain: 1KA7, 1M27
Gene Ontology	Chain Function Process Component A SH3/SH2 adaptor activity humoral immune response cellular defense response cell-cell signaling positive regulation of natur... cytoplasm
Primary reference	A "three-pronged" binding mechanism for the SAP/SH2D1A SH2 domain: structural basis and relevance to the XLP syndrome., Hwang PM, Li C, Morra M, Lillywhite J, Muhandiram DR, Gertler F, Terhorst C, Kay LE, Pawson T, Forman-Kay JD, Li SC, EMBO J 2002 Feb 1;21(3):314-23. PMID:11823424

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (37 Kb) [Save to disk] LPC: Ligand-Protein Contacts for 1KA6 CSU: Contacts of Structural Units for 1KA6 Original NMR restraints for 1KA6 from PDB Retrieve 1KA6 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1KA6 from S2C, [Save to disk]

View 1KA6 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 1KA6

Cartoon representation from PDB Cartoon Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute Crystal Contacts, from CryCo at Weizmann Institute 3D motif for 1KA6, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1ka6a_, region A [Jmol] [rasmolscript] [script source] Fold representative 1ka6 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: [1ka6_A] [1ka6_B] SWISS-PROT database: [O60880] [Q13291] Domain organization of [SH21A_HUMAN] [SLAF1_HUMAN] by SWISSPFAM Domain found in 1KA6: [SH2 ] by SMART Alignments of the sequence of 1KA6 with the sequences similar proteins can be viewed for 1KA6's classification [SH21A_HUMAN] [SLAF1_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 [SH21A_HUMAN] [SLAF1_HUMAN] at ProtoMap. Click on the Cluster number.

Other resources with information on 1KA6

Community annotation for 1KA6 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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