6PAI Ligase date Jun 11, 2019
title Structure Of The Human Ddb1-Dda1-Dcaf15 E3 Ubiquitin Ligase Rbm39 And Sulfonamide E7820
authors O.A.Volkov, X.Du
compound source
Molecule: Dna Damage-Binding Protein 1
Chain: A
Synonym: Ddb P127 Subunit,Dna Damage-Binding Protein A,Ddba Specific Dna-Binding Protein 1,Hbv X-Associated Protein 1,X Damaged Dna-Binding Factor,Uv-Damaged Dna-Binding Protein 1 Xpe-Binding Factor,Xpe-Bf,Xeroderma Pigmentosum Group E-Com Protein,Xpce;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ddb1, Xap1
Expression_system: Spodoptera Frugiperda
Expression_system_common: Fall Armyworm
Expression_system_taxid: 7108
Expression_system_vector_type: Bacmid
Expression_system_plasmid: Pfastbac1

Molecule: Ddb1- And Cul4-Associated Factor 15
Chain: C
Engineered: Yes
Mutation: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Dcaf15, C19orf72
Expression_system: Spodoptera Frugiperda
Expression_system_common: Fall Armyworm
Expression_system_taxid: 7108
Expression_system_vector_type: Bacmid
Expression_system_plasmid: Pfastbac1

Molecule: Rna-Binding Protein 39
Chain: D
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Dkfzp781i1140
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid

Molecule: Det1- And Ddb1-Associated Protein 1
Chain: E
Synonym: Placenta Cross-Immune Reaction Antigen 1,Pcia-1
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Dda1, C19orf58, Pcia1
Expression_system: Spodoptera Frugiperda
Expression_system_common: Fall Armyworm
Expression_system_taxid: 7108
Expression_system_vector_type: Bacmid
Expression_system_plasmid: Pfastbac1
symmetry Space Group: P 1 21 1
R_factor 0.208 R_Free 0.252
crystal
cell
length a length b length c angle alpha angle beta angle gamma
81.507 94.767 145.706 90.00 98.06 90.00
method X-Ray Diffractionresolution 2.90 Å
Gene
Ontology
ChainFunctionProcessComponent
A


C


D


E


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (572 Kb) [Save to disk]
  • Biological Unit Coordinates (6pai.pdb1.gz) 563 Kb
  • CSU: Contacts of Structural Units for 6PAI
  • Structure Factors (987 Kb)
  • Retrieve 6PAI in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6PAI from S2C, [Save to disk]
  • View 6PAI 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 6PAI
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • Fold representative 6pai from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6pai_C] [6pai_E] [6pai_A] [6pai_D]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6PAI
  • Community annotation for 6PAI at PDBWiki (http://pdbwiki.org)

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