Download MendeleyCrystal Structure of Human Orotidine 5'-monophosphate Decarboxylase Complexed with 5-CN-UMP
Liu, Y., Tang, H.L., Avina, M.E.M., Kotra, L.P., Pai, E.F.To be published.
3BK0
Crystal Structure of Human Orotidine 5'-monophosphate Decarboxylase Complexed with 5-CN-UMP
- PDB DOI: https://doi.org/10.2210/pdb3BK0/pdb
- Classification: LYASE
- Organism(s): Homo sapiens
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2007-12-05 Released: 2008-11-18
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.60 ?
- R-Value Free: 0.216
- R-Value Work: 0.179
- R-Value Observed: 0.181
Starting Model: experimental
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This is version 1.2 of the entry. See complete history.
Literature
To be published.
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Uridine 5'-monophosphate synthase | 279 | Homo sapiens | Mutation(s): 0 Gene Names: UMPS EC: 4.1.1.23 (PDB Primary Data), 2.4.2.10 (UniProt) |  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P11172 (Homo sapiens) Explore P11172 Go to UniProtKB: P11172 | |||||
PHAROS: P11172 GTEx: ENSG00000114491 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P11172 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 3 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| CNU Query on CNU | E [auth A], H [auth B] | 5-CYANO-URIDINE-5'-MONOPHOSPHATE C10 H12 N3 O9 P BUHKUGLYORHFNN-JXOAFFINSA-N |  | ||
| SO4 Query on SO4 | C [auth A], D [auth A] | SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L |  | ||
| GOL Query on GOL | F [auth A], G [auth A] | GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.60 ?
- R-Value Free: 0.216
- R-Value Work: 0.179
- R-Value Observed: 0.181
- Space Group: P 1 21 1
Unit Cell:
| Length ( ? ) | Angle ( ? ) |
|---|---|
| a = 69.552 | ¦Á = 90 |
| b = 61.554 | ¦Â = 111.81 |
| c = 70.989 | ¦Ă = 90 |
| Software Name | Purpose |
|---|---|
| REFMAC | refinement |
| MxDC | data collection |
| HKL-2000 | data reduction |
| HKL-2000 | data scaling |
| MOLREP | phasing |
| Coot | model building |
Entry History
Deposition Data
- Released Date: 2008-11-18 Deposition Author(s): Liu, Y., Tang, H.L., Avina, M.E.M., Kotra, L.P., Pai, E.F.
Revision History (Full details and data files)
- Version 1.0: 2008-11-18
Type: Initial release - Version 1.1: 2011-07-13
Changes: Non-polymer description, Version format compliance - Version 1.2: 2023-08-30
Changes: Data collection, Database references, Derived calculations, Refinement description
