3KVH Rna Binding Protein date Nov 30, 2009
title Crystal Structure Of Human Protein Syndesmos (Nudt16-Like Pr
authors L.Tresaugues, M.I.Siponen, C.H.Arrowsmith, H.Berglund, C.Bountra R.Collins, A.M.Edwards, S.Flodin, A.Flores, S.Graslund, M.Hammar A.Johansson, I.Johansson, A.Kallas, T.Karlberg, T.Kotenyova, A.K P.Kraulis, M.Moche, T.K.Nielsen, T.Nyman, C.Persson, A.K.Roos, H. P.Schutz, A.G.Thorsell, S.Van Den Berg, J.Weigelt, M.Welin, M.Wi P.Nordlund, Structural Genomics Consortium (Sgc)
compound source
Molecule: Protein Syndesmos
Chain: A
Synonym: Nudt16-Like Protein 1
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Nudt16l1, Sdos
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pnic-Ch2
symmetry Space Group: C 1 2 1
R_factor 0.184 R_Free 0.217
length a length b length c angle alpha angle beta angle gamma
68.811 60.278 60.483 90.00 118.64 90.00
method X-Ray Diffractionresolution 1.70 Å
ligand CL, GOL enzyme
  • nucleotide phosphatase activ...
  • phosphodiesterase decapping ...

  • Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (40 Kb) [Save to disk]
  • Biological Unit Coordinates (3kvh.pdb1.gz) 69 Kb
  • LPC: Ligand-Protein Contacts for 3KVH
  • CSU: Contacts of Structural Units for 3KVH
  • Structure Factors (348 Kb)
  • Retrieve 3KVH in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3KVH from S2C, [Save to disk]
  • Re-refined 3kvh structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3KVH 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 3KVH
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 3KVH, from MSDmotif at EBI
  • Fold representative 3kvh from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3kvh] [3kvh_A]
  • SWISS-PROT database: [Q9BRJ7]
  • Domain organization of [SDOS_HUMAN] by SWISSPFAM
  • Other resources with information on 3KVH
  • Community annotation for 3KVH 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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