OCA Atlas for 1C7Y

1C7Y

Recombination Dna

date

Apr 03, 2000

title

E.Coli Ruva-Holliday Junction Complex

authors

M.Ariyoshi, T.Nishino, H.Iwasaki, H.Shinagawa, K.Morikawa

compound

source

Molecule: Dna (5'- D(Pdapdapdgpdtpdtpdgpdgpdgpdapdtpdtpdgpdt)-3')
Chain: B
Engineered: Yes

Synthetic: Yes

Molecule: Dna (5'- D(Pdcpdtpdgpdtpdgpdtpdgpdtpdapdapdgpdc)-3');
Chain: C
Engineered: Yes

Synthetic: Yes

Molecule: Dna (5'- D(Pdgpdcpdtpdtpdapdcpdapdcpdapdcpdapdgpda)-3')
Chain: D
Engineered: Yes

Synthetic: Yes

Molecule: Dna (5'- D(Pdgpdgpdtpdtpdapdgpdgpdgpdtpdgpdapda)-3');
Chain: E
Engineered: Yes

Synthetic: Yes

Molecule: Dna (5'- D(Pdtpdtpdcpdapdcpdcpdcpdtpdapdapdcpdcpda)-3')
Chain: F
Engineered: Yes

Synthetic: Yes

Molecule: Dna (5'- D(Pdgpdapdcpdapdcpdapdcpdapdtpdtpdcpdg)-3');
Chain: G
Engineered: Yes

Synthetic: Yes

Molecule: Dna (5'- D(Pdcpdgpdapdapdtpdgpdtpdgpdtpdgpdtpdcpdt)-3')
Chain: H
Engineered: Yes

Synthetic: Yes

Molecule: Dna (5'- D(Pdcpdapdapdtpdcpdcpdcpdapdapdcpdtpdt)-3');
Chain: I
Engineered: Yes

Synthetic: Yes

Molecule: Holliday Junction Dna Helicase Ruva
Chain: A
Engineered: Yes

Organism_scientific: Escherichia Coli
Organism_taxid: 562
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet

symmetry

Space Group: I 4 3 2

R_factor

0.249

R_Free

0.279

crystal
cell

length a	length b	length c	angle alpha	angle beta	angle gamma
158.650	158.650	158.650	90.00	90.00	90.00

method

X-Ray Diffraction

resolution

3.10 Å

Gene
Ontology

Chain	Function	Process	Component
A	DNA helicase activity four-way junction helicase a...

Primary reference

Crystal structure of the holliday junction DNA in complex with a single RuvA tetramer., Ariyoshi M, Nishino T, Iwasaki H, Shinagawa H, Morikawa K, Proc Natl Acad Sci U S A 2000 Jul 18;97(15):8257-62. PMID:10890893

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (70 Kb) [Save to disk]

Biological Unit Coordinates (1c7y.pdb1.gz) 254 Kb

CSU: Contacts of Structural Units for 1C7Y

Likely Quarternary Molecular Structure file(s) for 1C7Y

Structure Factors (62 Kb)

Retrieve 1C7Y in mmCIF format [Save to disk]

SEQRES to COORDINATES correlation for 1C7Y from S2C, [Save to disk]

Re-refined 1c7y structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1C7Y 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 1C7Y

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 1C7Y, from MSDmotif at EBI

Classification of representative domains in scop (Structural Classification of Proteins)
- Domain d1c7ya3, region A:1-64 [Jmol] [rasmolscript] [script source]
- Domain d1c7ya1, region A:155-203 [Jmol] [rasmolscript] [script source]
- Domain d1c7ya2, region A:65-150 [Jmol] [rasmolscript] [script source]

Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH

Summaries and structural analyses of PDB data files from PDBSum

Identification of Protein Pockets & Cavities at CASTp

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1c7y] [1c7y_G] [1c7y_D] [1c7y_B] [1c7y_F] [1c7y_I] [1c7y_E] [1c7y_H] [1c7y_A] [1c7y_C]

SWISS-PROT database: [P0A809]

Domain organization of [RUVA_ECOLI] by SWISSPFAM

Domain found in 1C7Y: [HhH1 ] by SMART

Other resources with information on 1C7Y

Community annotation for 1C7Y at PDBWiki (http://pdbwiki.org)

MMDB (Entrez's Structure Database)

Movements, Movies and Images

Images from IMB Jena Image Library of Biological Macromolecules.

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