User:Ann Taylor/Sandbox 1

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spinqualitylabelsall models PDB ID 1d66 Show:Asymmetric Unit Biological Assembly Drag the structure with the mouse to rotate   Export Animated Image
1d66, resolution 2.70Å ()
Ligands:
Structural annotation: Resources: CATH : 1D66B01 InterPro : Ipr007219, Ipr005600, Ipr001138, Ipr002409 Pfam : PF00172, PF03902 SCOP : d1d66a2, d1d66a1, d1d66b1, d1d66b2 UniProt : P04386
Functional annotation: Cellular component: nucleus Biological process: carbohydrate metabolic process positive regulation of transcription by galactose transcription galactose metabolic process regulation of transcription, DNA-dependent Molecular function: transcription factor activity DNA binding metal ion binding transcription activator activity zinc ion binding
Evolutionary conservation: Toggle Conservation Colors: Rows = identical sequences: Further Information: Caveats, Explanation, Complete Results at ConSurfDB
Resources:	FirstGlance, OCA, RCSB, PDBsum
Coordinates:	save as pdb, mmCIF, xml

Evaluating scenes representing the same structureEvaluating scenes representing the same structure

This sandbox compiles several student-generated scenes that illustrate properties of the Gal4 repressor.

DimerDimer

The protein binds as a to a symmetrical 17-base-pair sequence.

DomainsDomains

There is a compact (residues 8-40), an (41-49), and an (50-64).

Metal bindingMetal binding

A small, Zn(2+)-containing domain recognizes a conserved CCG triplet at each end of the site through direct contacts with the major groove. The metal binding domain contains that coordinate to the metal as shown as cadmium.

DNA/protein interactionDNA/protein interaction

 with all of the base pairs within 5 angstroms of the protein highlighted illustrates that the protein interacts with both strands of the UAS.