7OMF: Structure of a minimal SF3B core in complex with sudemycin D6 (form I)

PDB ID: 7OMFDownload
MMDB ID: 205343
PDB Deposition Date: 2021/5/21
Updated in MMDB: 2024/10
Experimental Method:
x-ray diffraction
Resolution: 3  Å
Source Organism:
Similar Structures:
Biological Unit for 7OMF: tetrameric; determined by author and by software (PISA)
Molecular Components in 7OMF
Label Count Molecule
Proteins (4 molecules)
1
Splicing Factor 3B Subunit 3
(Gene symbol: SF3B3)
Molecule annotation
1
Splicing Factor 3B Subunit 5
(Gene symbol: SF3B5)
Molecule annotation
1
Splicing Factor 3B Subunit 1
(Gene symbol: SF3B1)
Molecule annotation
1
PHD Finger-like Domain-containing Protein 5A
(Gene symbol: PHF5A)
Molecule annotation
Chemicals and Non-standard biopolymers (5 molecules)
1
3
ZINC IONZINC ION
2
1
[(~{Z},2~{S})-5-[[4-[(2~{E},4~{E})-3-methyl-5-[(2~{S},4~{R})-4,6,6-trimethyl-4-oxidanyl-oxan-2-yl]penta-2,4-dienyl]cyclohexyl]amino]-5-oxidanylidene-pent-3-en-2-yl] ~{N}-methylcarbamate[(~{Z},2~{S})-5-[[4-[(2~{E},4~{E})-3-methyl-5-[(2~{S},4~{R})-4,6,6-trimethyl-4-oxidanyl-oxan-2-yl]penta-2,4-dienyl]cyclohexyl]amino]-5-oxidanylidene-pent-3-en-2-yl] ~{N}-methylcarbamate
3
1
THIOCYANATE IONTHIOCYANATE ION
* Click molecule labels to explore molecular sequence information.
Citing MMDB
Madej T, Lanczycki CJ, Zhang D, Thiessen PA, Geer RC, Marchler-Bauer A, Bryant SH. " MMDB and VAST+: tracking structural similarities between macromolecular complexes. Nucleic Acids Res. 2014 Jan; 42(Database issue):D297-303