OCA Atlas for 3WA0

3WA0

Cell Adhesion

date

Apr 20, 2013

title

Crystal Structure Of Merlin Complexed With Dcaf1vprbp

authors

T.Mori, S.Gotoh, M.Shirakawa, T.Hakoshima

compound

source

Molecule: Merlin
Chain: A, B, C, D, E, F
Fragment: Unp Residues 19-314
Synonym: Moesin-Ezrin-Radixin-Like Protein, Neurofibromin-2 Schwannomin;
Engineered: Yes

Organism_scientific: Mus Musculus
Organism_common: Mouse
Organism_taxid: 10090
Strain: Dh5a
Gene: Nf2
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21star(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pgex-6p3

Molecule: Protein Vprbp
Chain: G, H
Fragment: Unp Residues 1417-1506
Synonym: Ddb1- And Cul4-Associated Factor 1, Hiv-1 Vpr-Bind Protein, Vprbp, Vpr-Interacting Protein;
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Strain: Dh5a
Gene: Dcaf1
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21star(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pgex-6p3

Molecule: Protein Vprbp
Chain: I
Fragment: Unp Residues 1417-1506
Engineered: Yes

Molecule: Protein Vprbp
Chain: J
Fragment: Unp Residues 1417-1506
Engineered: Yes

Molecule: Protein Vprbp
Chain: K
Fragment: Unp Residues 1417-1506
Engineered: Yes

symmetry

Space Group: P 21 21 21

R_factor

0.235

R_Free

0.264

crystal
cell

length a	length b	length c	angle alpha	angle beta	angle gamma
85.363	135.760	238.495	90.00	90.00	90.00

method

X-Ray Diffraction

resolution

2.31 Å

Gene
Ontology

Chain	Function	Process	Component
F, A, D, C, E, B

Primary reference

Structural basis of DDB1-and-Cullin 4-associated Factor 1 (DCAF1) recognition by merlin/NF2 and its implication in tumorigenesis by CD44-mediated inhibition of merlin suppression of DCAF1 function., Mori T, Gotoh S, Shirakawa M, Hakoshima T, Genes Cells. 2014 Jun 9. doi: 10.1111/gtc.12161. PMID:24912773

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (311 Kb) [Save to disk]

Biological Unit Coordinates (3wa0.pdb1.gz) 54 Kb

Biological Unit Coordinates (3wa0.pdb2.gz) 55 Kb

Biological Unit Coordinates (3wa0.pdb3.gz) 54 Kb

Biological Unit Coordinates (3wa0.pdb4.gz) 54 Kb

Biological Unit Coordinates (3wa0.pdb5.gz) 54 Kb

Biological Unit Coordinates (3wa0.pdb6.gz) 54 Kb

CSU: Contacts of Structural Units for 3WA0

Structure Factors (1720 Kb)

Retrieve 3WA0 in mmCIF format [Save to disk]

SEQRES to COORDINATES correlation for 3WA0 from S2C, [Save to disk]

Re-refined 3wa0 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3WA0 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 3WA0

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 3WA0, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3wa0_I] [3wa0_D] [3wa0_A] [3wa0_J] [3wa0] [3wa0_E] [3wa0_C] [3wa0_H] [3wa0_F] [3wa0_K] [3wa0_G] [3wa0_B]

SWISS-PROT database:

Domain organization of by SWISSPFAM

Domains found in 3WA0: [B41] [FERM_C ] by SMART

Other resources with information on 3WA0

Community annotation for 3WA0 at PDBWiki (http://pdbwiki.org)

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