1QB2 Signaling Protein date Apr 29, 1999
title Crystal Structure Of The Conserved Subdomain Of Human Protei At 2.1a Resolution: Evidence For The Mechanism Of Signal Pe Binding
authors W.M.Clemons Jr., K.Gowda, S.D.Black, C.Zwieb, V.Ramakrishnan
compound source
Molecule: Human Signal Recognition Particle 54 Kd Protein
Chain: A, B
Fragment: Srp54
Synonym: Srp54
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Organ: Placenta
Tissue: Placenta
Cellular_location: Cytoplasm
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: B834(De3)
Expression_system_vector_type: Plasmid
Expression_system_vector: Pet19
Other_details: T7 Based Expression System
symmetry Space Group: P 21 21 21
R_factor 0.245 R_Free 0.318
crystal
cell
length a length b length c angle alpha angle beta angle gamma
28.910 61.340 129.220 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.10 Å
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceCrystal structure of the conserved subdomain of human protein SRP54M at 2.1 A resolution: evidence for the mechanism of signal peptide binding., Clemons WM Jr, Gowda K, Black SD, Zwieb C, Ramakrishnan V, J Mol Biol 1999 Sep 24;292(3):697-705. PMID:10497032
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (40 Kb) [Save to disk]
  • Biological Unit Coordinates (1qb2.pdb1.gz) 36 Kb
  • CSU: Contacts of Structural Units for 1QB2
  • Likely Quarternary Molecular Structure file(s) for 1QB2
  • Structure Factors (228 Kb)
  • Retrieve 1QB2 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1QB2 from S2C, [Save to disk]
  • Re-refined 1qb2 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1QB2 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 1QB2
  • 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 1QB2, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1qb2a_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1qb2b_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1k1qb2, region B:1-239 [Jmol] [rasmolscript] [script source]
        - Domain d1g1qb2, region B:119-160 [Jmol] [rasmolscript] [script source]
        - Domain d1e1qb2, region B:24-94 [Jmol] [rasmolscript] [script source]
        - Domain d1h1qb2, region B:310-432 [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: [1qb2_B] [1qb2] [1qb2_A]
  • SWISS-PROT database: [P61011]
  • Belongs to the general secretory pathway (sec) family according to TCDB.
  • Domain organization of [SRP54_HUMAN] by SWISSPFAM
  • Other resources with information on 1QB2
  • Community annotation for 1QB2 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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