OCA Atlas for 2DC2

2DC2

Structural Protein

date

Dec 20, 2005

title

Solution Structure Of Pdz Domain

authors

X.Li, J.Wu, Y.Shi

compound

source

Molecule: Golgi Associated Pdz And Coiled-Coil Motif Contai Isoform B;
Chain: A
Fragment: Pdz Domain
Synonym: Gopc
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Gopc Gene (270-363)
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet22b (+)

method

Solution NMR

Gene
Ontology

Chain	Function	Process	Component
A

Primary reference

Solution structure of GOPC PDZ domain and its interaction with the C-terminal motif of neuroligin., Li X, Zhang J, Cao Z, Wu J, Shi Y, Protein Sci. 2006 Sep;15(9):2149-58. Epub 2006 Aug 1. PMID:16882988

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (449 Kb) [Save to disk]

Biological Unit Coordinates (2dc2.pdb1.gz) 22 Kb

CSU: Contacts of Structural Units for 2DC2

Original NMR restraints for 2DC2 from PDB

Retrieve 2DC2 in mmCIF format [Save to disk]

SEQRES to COORDINATES correlation for 2DC2 from S2C, [Save to disk]

View 2DC2 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 2DC2

Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute

3D motif for 2DC2, from MSDmotif at EBI

Classification of representative domains in scop (Structural Classification of Proteins)
- Domain d1i2dc2, region C:171-390 [Jmol] [rasmolscript] [script source]

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2dc2] [2dc2_A]

SWISS-PROT database: [Q9HD26]

Domain organization of [GOPC_HUMAN] by SWISSPFAM

Domain found in 2DC2: [PDZ ] by SMART

Other resources with information on 2DC2

Community annotation for 2DC2 at PDBWiki (http://pdbwiki.org)

MMDB (Entrez's Structure Database)

Movements, Movies and Images

Images from IMB Jena Image Library of Biological Macromolecules.

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