OCA Atlas for 5FU7

5FU7

Gene Regulation

date

Jan 21, 2016

title

Drosophila Nanos Nbr Peptide Bound To The Not Module Of The Ccr4-Not Complex

authors

T.Raisch, D.Bhandari, K.Sabath, S.Helms, E.Valkov, O.Weichenriede E.Izaurralde

compound

source

Molecule: Ccr4-Not Transcription Complex Subunit 1
Chain: A, E
Fragment: Not1 Superfamily Homology Domain, Residues 1833-
Synonym: Ccr4-Associated Factor 1, Negative Regulator Of Transcription Subunit 1 Homolog, Not1h, Hnot1;
Engineered: Yes
Mutation: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_variant: Star
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Petmcn(Pnyc)

Molecule: Ccr4-Not Transcription Complex Subunit 2
Chain: B, F
Fragment: Not Anchor Region And Not-Box Domain, Residues 35
Synonym: Ccr4-Associated Factor 2
Engineered: Yes

Molecule: Ccr4-Not Transcription Complex Subunit 3
Chain: C, G
Fragment: Not Anchor Region And Not-Box Domain, Residues 60
Synonym: Ccr4-Associated Factor 3, Leukocyte Receptor Clust 2;
Engineered: Yes

Molecule: Nanos, Isoform B
Chain: D, H
Fragment: Not Module Binding Region (Nbr), Residues 116-163
Engineered: Yes

Organism_scientific: Drosophila Melanogaster
Organism_common: Fruit Fly
Organism_taxid: 7227
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_variant: Star
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Petmcn(Pnea)

symmetry

Space Group: P 1 21 1

R_factor

0.165

R_Free

0.227

crystal
cell

length a	length b	length c	angle alpha	angle beta	angle gamma
75.950	135.670	104.970	90.00	107.98	90.00

method

X-Ray Diffraction

resolution

3.10 Å

Gene
Ontology

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

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (618 Kb) [Save to disk]

Biological Unit Coordinates (5fu7.pdb1.gz) 309 Kb

Biological Unit Coordinates (5fu7.pdb2.gz) 306 Kb

CSU: Contacts of Structural Units for 5FU7

Structure Factors (329 Kb)

Retrieve 5FU7 in mmCIF format [Save to disk]

SEQRES to COORDINATES correlation for 5FU7 from S2C, [Save to disk]

Re-refined 5fu7 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 5FU7 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 5FU7

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: [5fu7_B] [5fu7_E] [5fu7_C] [5fu7_G] [5fu7_D] [5fu7_H] [5fu7_A] [5fu7] [5fu7_F]

SWISS-PROT database:

Domain organization of by SWISSPFAM

Other resources with information on 5FU7

Community annotation for 5FU7 at PDBWiki (http://pdbwiki.org)

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