5LLI Ligase date Jul 27, 2016
title Pvhl:Elob:Eloc In Complex With Vh298
authors M.S.Gadd, P.Soares, C.Galdeano, A.Ciulli
compound source
Molecule: Transcription Elongation Factor B Polypeptide 2
Chain: A, D, G, J
Synonym: Elongin 18 Kda Subunit,Elongin-B,Elob,Rna Polymera Transcription Factor Siii Subunit B,Siii P18;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Tceb2
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pcdfduet-1

Molecule: Transcription Elongation Factor B Polypeptide 1
Chain: B, E, H, K
Synonym: Elongin 15 Kda Subunit,Elongin-C,Eloc,Rna Polymera Transcription Factor Siii Subunit C,Siii P15;
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Tceb1
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pcdfduet-1

Molecule: Von Hippel-Lindau Disease Tumor Suppressor
Chain: C, F, I, L
Synonym: Protein G7,Pvhl
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Vhl
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Phat4
symmetry Space Group: P 41 2 2
R_factor 0.196 R_Free 0.252
crystal
cell
length a length b length c angle alpha angle beta angle gamma
94.643 94.643 368.582 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.40 Å
ligand 6Z3, CAS enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, J, D, G


H, K, E, B


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (465 Kb) [Save to disk]
  • Biological Unit Coordinates (5lli.pdb1.gz) 117 Kb
  • Biological Unit Coordinates (5lli.pdb2.gz) 118 Kb
  • Biological Unit Coordinates (5lli.pdb3.gz) 118 Kb
  • Biological Unit Coordinates (5lli.pdb4.gz) 118 Kb
  • LPC: Ligand-Protein Contacts for 5LLI
  • CSU: Contacts of Structural Units for 5LLI
  • Structure Factors (1413 Kb)
  • Retrieve 5LLI in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5LLI from S2C, [Save to disk]
  • Re-refined 5lli structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5LLI 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 5LLI
  • 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
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5lli_G] [5lli_F] [5lli_B] [5lli_D] [5lli_L] [5lli_I] [5lli_A] [5lli_H] [5lli_J] [5lli_K] [5lli_C] [5lli_E] [5lli]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 5LLI: [Skp1] [UBQ ] by SMART
  • Other resources with information on 5LLI
  • Community annotation for 5LLI at PDBWiki (http://pdbwiki.org)

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