1TJM	Endocytosis Exocytosis	date	Jun 06, 2004
title	Crystallographic Identification Of Sr2+ Coordination Site In Synaptotagmin I C2b Domain
authors	Y.Cheng, S.M.Sequeira, L.Malinina, V.Tereshko, T.H.Sollner, D.J.P
compound		source
Molecule: Synaptotagmin I Chain: A Fragment: C2b Domain Synonym: Syti, P65 Engineered: Yes		Organism_scientific: Rattus Norvegicus Organism_common: Norway Rat Organism_taxid: 10116 Gene: Syt1, Syt Expression_system: Escherichia Coli Bl21(De3) Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pgex-Kg
symmetry	Space Group: P 32 2 1	R_factor 0.158 R_Free 0.174
crystal cell	length a length b length c angle alpha angle beta angle gamma 54.644 54.644 103.317 90.00 90.00 120.00
method	X-Ray Diffraction	resolution	1.18 Å
ligand	GOL, SR	enzyme
related structures	by homologous chain: 1UOV, 1UOW
Gene Ontology	Chain Function Process Component A
Primary reference	Crystallographic identification of Ca2+ and Sr2+ coordination sites in synaptotagmin I C2B domain., Cheng Y, Sequeira SM, Malinina L, Tereshko V, Sollner TH, Patel DJ, Protein Sci 2004 Oct;13(10):2665-72. Epub 2004 Aug 31. PMID:15340165

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (94 Kb) [Save to disk] Biological Unit Coordinates (1tjm.pdb1.gz) 89 Kb LPC: Ligand-Protein Contacts for 1TJM CSU: Contacts of Structural Units for 1TJM Likely Quarternary Molecular Structure file(s) for 1TJM Structure Factors (766 Kb) Retrieve 1TJM in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1TJM from S2C, [Save to disk] Re-refined 1tjm structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

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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 1TJM

Ramachandran plot from PDBSum

Structure-derived information

Conformational Epitope Prediction for 1TJM from the CEP Server. Electron Density related parameters from EDS Electron Density Server, at Upsala Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 1TJM, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1tjma_, region A [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: [1tjm_A] [1tjm] SWISS-PROT database: [P21707] Domain organization of [SYT1_RAT] by SWISSPFAM Domain found in 1TJM: [C2 ] by SMART

Other resources with information on 1TJM

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

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