OCA Atlas for 3GMD

3GMD

date

authors

compound

source

symmetry

R_factor

R_Free

crystal
cell

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

method

X-Ray Diffraction

resolution

ligand

2M3, NDP, SO4

enzyme

Gene
Ontology

Chain	Function	Process	Component
G, D, H, E, B, F, A, C

Primary reference

Structure-based design of 7-azaindole-pyrrolidine amides as inhibitors of 11beta-hydroxysteroid dehydrogenase type I., Valeur E, Christmann-Franck S, Lepifre F, Carniato D, Cravo D, Charon C, Bozec S, Musil D, Hillertz P, Doare L, Schmidlin F, Lecomte M, Schultz M, Roche D, Bioorg Med Chem Lett. 2012 Sep 15;22(18):5909-14. doi:, 10.1016/j.bmcl.2012.07.070. Epub 2012 Jul 31. PMID:22901389

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (352 Kb) [Save to disk]

Biological Unit Coordinates (3gmd.pdb1.gz) 89 Kb

Biological Unit Coordinates (3gmd.pdb2.gz) 91 Kb

Biological Unit Coordinates (3gmd.pdb3.gz) 90 Kb

Biological Unit Coordinates (3gmd.pdb4.gz) 90 Kb

LPC: Ligand-Protein Contacts for 3GMD

CSU: Contacts of Structural Units for 3GMD

Structure Factors (868 Kb)

Retrieve 3GMD in mmCIF format [Save to disk]

SEQRES to COORDINATES correlation for 3GMD from S2C, [Save to disk]

Re-refined 3gmd structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3GMD 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.

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: [3gmd] [3gmd_A] [3gmd_B] [3gmd_C] [3gmd_D] [3gmd_E] [3gmd_F] [3gmd_G] [3gmd_H]

SWISS-PROT database:

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