OCA Atlas for 1RYU

1RYU

Dna Binding Protein

date

Dec 22, 2003

title

Solution Structure Of The Swi1 Arid

authors

S.Kim, Z.Zhang, S.Upchurch, N.Isern, Y.Chen

compound

source

Molecule: Swisnf-Related, Matrix-Associated, Actin-Depende Regulator Of Chromatin Subfamily F Member 1;
Chain: A
Fragment: Swi1 Arid (Residues 617-736)
Synonym: Swi-Snf Complex Protein P270, B120
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21de3
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet28a

method

Solution NMR

Gene
Ontology

Chain	Function	Process	Component
A

Primary reference

Structure and DNA-binding sites of the SWI1 AT-rich interaction domain (ARID) suggest determinants for sequence-specific DNA recognition., Kim S, Zhang Z, Upchurch S, Isern N, Chen Y, J Biol Chem 2004 Apr 16;279(16):16670-6. Epub 2004 Jan 13. PMID:14722072

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (290 Kb) [Save to disk]

Biological Unit Coordinates (1ryu.pdb1.gz) 35 Kb

CSU: Contacts of Structural Units for 1RYU

Experimental data, such as chemical shifts, at BioMagResBank (BMRB)

NMR Restraints Grid from BioMagResBank (BMRB)

Retrieve 1RYU in mmCIF format [Save to disk]

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

View 1RYU 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 1RYU

Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute

3D motif for 1RYU, from MSDmotif at EBI

Classification of representative domains in scop (Structural Classification of Proteins)
- Domain d1ryua_, region A [Jmol] [rasmolscript] [script source]

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1ryu] [1ryu_A]

SWISS-PROT database: [O14497]

Domain organization of [ARI1A_HUMAN] by SWISSPFAM

Domains found in 1RYU: [ARID] [BRIGHT ] by SMART

Other resources with information on 1RYU

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

NMR Ensemble (OLDERADO: core, domain and representative structure database)

MMDB (Entrez's Structure Database)

Movements, Movies and Images

Images from IMB Jena Image Library of Biological Macromolecules.

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