1NTE	Signaling Protein	date	Jan 29, 2003
title	Crystal Structure Analysis Of The Second Pdz Domain Of Synte
authors	B.S.Kang, D.R.Cooper, Y.Devedjiev, U.Derewenda, Z.S.Derewenda
compound		source
Molecule: Syntenin 1 Chain: A Fragment: Pdz 2 Synonym: Syndecan Binding Protein 1, Melanoma Differentiati Associated Protein-9, Mda-9, Scaffold Protein Pbp1, Pro-Tgf Cytoplasmic Domain-Interacting Protein 18, Tacip18; Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Sdcbp Or Mda9 Or Sycl Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_vector_type: Plasmid Expression_system_plasmid: Pgst-Parallel
symmetry	Space Group: P 1 21 1	R_factor 0.113 R_Free 0.153
crystal cell	length a length b length c angle alpha angle beta angle gamma 25.292 42.570 31.038 90.00 108.71 90.00
method	X-Ray Diffraction	resolution	1.24 Å
ligand	O	enzyme
related structures	by homologous chain: 1OBX, 1R6J
Gene Ontology	Chain Function Process Component A
Primary reference	Molecular roots of degenerate specificity in syntenin's PDZ2 domain: reassessment of the PDZ recognition paradigm., Kang BS, Cooper DR, Devedjiev Y, Derewenda U, Derewenda ZS, Structure (Camb) 2003 Jul;11(7):845-53. PMID:12842047

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (35 Kb) [Save to disk] Biological Unit Coordinates (1nte.pdb1.gz) 31 Kb LPC: Ligand-Protein Contacts for 1NTE CSU: Contacts of Structural Units for 1NTE Likely Quarternary Molecular Structure file(s) for 1NTE Structure Factors (202 Kb) Retrieve 1NTE in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1NTE from S2C, [Save to disk] Re-refined 1nte structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1NTE 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 1NTE

Ramachandran plot from PDBSum

Structure-derived information

Conformational Epitope Prediction for 1NTE 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 1NTE, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1ntea_, 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: [1nte] [1nte_A] SWISS-PROT database: [O00560] Belongs to the ezrin/radixin/moesin-binding phosphoprotein 50 (ebp50) family according to TCDB. Domain organization of [SDCB1_HUMAN] by SWISSPFAM Domain found in 1NTE: [PDZ ] by SMART

Other resources with information on 1NTE

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

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