OCA Atlas for 6R7F

6R7F

Ligase

date

Mar 28, 2019

title

Structural Basis Of Cullin-2 Ring E3 Ligase Regulation By Th Signalosome

authors

S.V.Faull, A.M.C.Lau, C.Martens, Z.Ahdash, H.Yebenes, C.Schmidt, F N.B.Cronin, E.P.Morris, A.Politis

compound

source

Molecule: Cop9 Signalosome Complex Subunit 1
Chain: A
Synonym: Signalosome Subunit 1,G Protein Pathway Suppressor Jab1-Containing Signalosome Subunit 1,Protein Mfh;
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Gps1, Cops1, Csn1
Expression_system: Spodoptera Frugiperda
Expression_system_taxid: 7108

Molecule: Cop9 Signalosome Complex Subunit 2
Chain: B
Synonym: Signalosome Subunit 2,Alien Homolog,Jab1-Containin Signalosome Subunit 2,Thyroid Receptor-Interacting Protein 15;
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Cops2, Csn2, Trip15
Expression_system: Spodoptera Frugiperda
Expression_system_taxid: 7108

Molecule: Cop9 Signalosome Complex Subunit 3
Chain: C
Synonym: Signalosome Subunit 3,Jab1-Containing Signalosome
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Cops3, Csn3
Expression_system: Spodoptera Frugiperda
Expression_system_taxid: 7108

Molecule: Cop9 Signalosome Complex Subunit 4
Chain: D
Synonym: Signalosome Subunit 4,Jab1-Containing Signalosome
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Cops4, Csn4
Expression_system: Spodoptera Frugiperda
Expression_system_taxid: 7108

Molecule: Cop9 Signalosome Complex Subunit 5
Chain: E
Synonym: Signalosome Subunit 5,Jun Activation Domain-Bindin 1;
Ec: 3.4.-.-
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Cops5, Csn5, Jab1
Expression_system: Spodoptera Frugiperda
Expression_system_taxid: 7108

Molecule: Cop9 Signalosome Complex Subunit 6
Chain: F
Synonym: Signalosome Subunit 6,Jab1-Containing Signalosome Mov34 Homolog,Vpr-Interacting Protein,Hvip;
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Cops6, Csn6, Hvip
Expression_system: Spodoptera Frugiperda
Expression_system_taxid: 7108

Molecule: Cop9 Signalosome Complex Subunit 8
Chain: H
Synonym: Signalosome Subunit 8,Cop9 Homolog,Hcop9,Jab1-Cont Signalosome Subunit 8;
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Cops8, Csn8
Expression_system: Spodoptera Frugiperda
Expression_system_taxid: 7108

Molecule: Cop9 Signalosome Complex Subunit 7b
Chain: G
Synonym: Signalosome Subunit 7b,Jab1-Containing Signalosome 7b;
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Cops7b, Csn7b
Expression_system: Spodoptera Frugiperda
Expression_system_taxid: 7108

Molecule: Von Hippel-Lindau Disease Tumor Suppressor
Chain: V
Synonym: Protein G7,Pvhl
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Vhl
Expression_system: Spodoptera Frugiperda
Expression_system_taxid: 7108

Molecule: Elongin-B
Chain: P
Synonym: Elob,Elongin 18 Kda Subunit,Rna Polymerase II Tran Factor Siii Subunit B,Siii P18,Transcription Elongation Fac Polypeptide 2;
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Elob, Tceb2
Expression_system: Spodoptera Frugiperda
Expression_system_taxid: 7108

Molecule: Elongin-C
Chain: Q
Synonym: Eloc,Elongin 15 Kda Subunit,Rna Polymerase II Tran Factor Siii Subunit C,Siii P15,Transcription Elongation Fac Polypeptide 1;
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Eloc, Tceb1
Expression_system: Spodoptera Frugiperda
Expression_system_taxid: 7108

Molecule: Cullin-2
Chain: O
Synonym: Cul-2
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Cul2
Expression_system: Spodoptera Frugiperda
Expression_system_taxid: 7108

Molecule: E3 Ubiquitin-Protein Ligase Rbx1
Chain: R
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_taxid: 9606
Expression_system: Spodoptera Frugiperda
Expression_system_taxid: 7108

Molecule: Nedd8
Chain: N
Synonym: Neddylin,Neural Precursor Cell Expressed Developme Down-Regulated Protein 8,Nedd-8,Ubiquitin-Like Protein Nedd
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Nedd8
Expression_system: Spodoptera Frugiperda
Expression_system_taxid: 7108

symmetry

Space Group: P 1

R_factor

R_Free

crystal
cell

length a	length b	length c	angle alpha	angle beta	angle gamma
1.000	1.000	1.000	90.00	90.00	90.00

method

Electron Microscopy

resolution

8.20 Å

ligand

enzyme

Hydrolase E.C.3.4 BRENDA

Gene
Ontology

Chain	Function	Process	Component
A
B
C
D
E	translation initiation facto...
F
G
H
N
O
P
Q
R

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (570 Kb) [Save to disk]

Biological Unit Coordinates (6r7f.pdb1.gz) 562 Kb

CSU: Contacts of Structural Units for 6R7F

Retrieve 6R7F in mmCIF format [Save to disk]

SEQRES to COORDINATES correlation for 6R7F from S2C, [Save to disk]

View 6R7F 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 6R7F

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: [6r7f_B] [6r7f_F] [6r7f_O] [6r7f_N] [6r7f_A] [6r7f_C] [6r7f_E] [6r7f_P] [6r7f_H] [6r7f_R] [6r7f_G] [6r7f_V] [6r7f_Q] [6r7f_D]

SWISS-PROT database:

Domain organization of by SWISSPFAM

Other resources with information on 6R7F

Community annotation for 6R7F at PDBWiki (http://pdbwiki.org)

Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]