6PI7 Protein Binding date Jun 26, 2019
title Crystal Structure Of The Tdrd2 Extended Tudor Domain In Comp An Antibody Fragment And The Piwil1 Peptide
authors K.Liu, J.R.Min, Structural Genomics Consortium (Sgc)
compound source
Molecule: Tudor And Kh Domain-Containing Protein
Chain: A, D
Synonym: Tudor Domain-Containing Protein 2
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Tdrkh, Tdrd2
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Uncharacterized Protein
Chain: B, E
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Fab Antigen-Binding Fragment
Chain: C, F
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Piwi-Like Protein 1
Chain: G
Engineered: Yes

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_taxid: 9606
symmetry Space Group: P 63
R_factor 0.190 R_Free 0.206
crystal
cell
length a length b length c angle alpha angle beta angle gamma
148.099 148.099 168.026 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.80 Å
ligand UNX enzyme
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (382 Kb) [Save to disk]
  • Biological Unit Coordinates (6pi7.pdb1.gz) 189 Kb
  • Biological Unit Coordinates (6pi7.pdb2.gz) 187 Kb
  • LPC: Ligand-Protein Contacts for 6PI7
  • CSU: Contacts of Structural Units for 6PI7
  • Structure Factors (9576 Kb)
  • Retrieve 6PI7 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6PI7 from S2C, [Save to disk]
  • View 6PI7 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 6PI7
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6pi7_A] [6pi7_B] [6pi7_D] [6pi7_E] [6pi7_G] [6pi7_C] [6pi7_F]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6PI7
  • Community annotation for 6PI7 at PDBWiki (http://pdbwiki.org)

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