1SMO Immune System date Mar 09, 2004
title Crystal Structure Of Human Triggering Receptor Expressed On Cells 1 (Trem-1) At 1.47 .
authors M.S.Kelker, T.R.Foss, W.Peti, L.Teyton, J.W.Kelly, I.A.Wilson
compound source
Molecule: Triggering Receptor Expressed On Myeloid Cells 1
Chain: A, B
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Trem-1
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl-21 Ril (De3)Codon Plus
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet22b(+)
symmetry Space Group: P 61
R_factor 0.193 R_Free 0.206
crystal
cell
length a length b length c angle alpha angle beta angle gamma
110.937 110.937 46.835 90.00 90.00 120.00
method X-Ray Diffractionresolution 1.47 Å
ligand TLA enzyme
note 1SMO is a representative structure
related structures by homologous chain: 1Q8M
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceCrystal Structure of Human Triggering Receptor Expressed on Myeloid Cells 1 (TREM-1) at 1.47A., Kelker MS, Foss TR, Peti W, Teyton L, Kelly JW, Wuthrich K, Wilson IA, J Mol Biol 2004 Sep 24;342(4):1237-48. PMID:15351648
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (46 Kb) [Save to disk]
  • Biological Unit Coordinates (1smo.pdb1.gz) 41 Kb
  • LPC: Ligand-Protein Contacts for 1SMO
  • CSU: Contacts of Structural Units for 1SMO
  • Likely Quarternary Molecular Structure file(s) for 1SMO
  • Structure Factors (683 Kb)
  • Retrieve 1SMO in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1SMO from S2C, [Save to disk]
  • Re-refined 1smo structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1SMO 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 1SMO
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Conformational Epitope Prediction for 1SMO 1SMOA 1SMOB from the CEP Server.
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1SMO, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1smoa_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1smob_, region B [Jmol] [rasmolscript] [script source]
  • Fold representative 1smo 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: [1smo_A] [1smo] [1smo_B]
  • SWISS-PROT database: [Q9NP99]
  • Domain organization of [TREM1_HUMAN] by SWISSPFAM
  • Domain found in 1SMO: [IG ] by SMART
  • Other resources with information on 1SMO
  • Community annotation for 1SMO at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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