X-ray structure uridine phosphorylase from Vibrio cholerae in complex with cytosine at 1.06A.
Prokofev, I.I., Lashkov, A.A., Gabdoulkhakov, A.G., Betzel, C., Mikhailov, A.M.To be published.
Experimental Data Snapshot
wwPDB Validation   3D Report Full Report
Entity ID: 1 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
Uridine phosphorylase | 253 | Vibrio cholerae | Mutation(s): 0  Gene Names:  udp, udp_1, udp_2, DN30_1909, EN12_05055, ERS013138_02408, ERS013140_00580, ERS013160_01327, ERS013186_00327, ERS013199_00063... EC: 2.4.2.3 | ||
UniProt | |||||
Find proteins for Q9K4U1 (Vibrio cholerae) Explore Q9K4U1  Go to UniProtKB:  Q9K4U1 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | Q9K4U1 | ||||
Sequence AnnotationsExpand | |||||
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Ligands 7 Unique | |||||
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ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
TRS Query on TRS | IA [auth F], Q [auth B] | 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL C4 H12 N O3 LENZDBCJOHFCAS-UHFFFAOYSA-O | |||
CYT Query on CYT | AA [auth E] G [auth A] GA [auth F] P [auth B] S [auth C] | 6-AMINOPYRIMIDIN-2(1H)-ONE C4 H5 N3 O OPTASPLRGRRNAP-UHFFFAOYSA-N | |||
GOL Query on GOL | DA [auth F] H [auth A] I [auth A] M [auth B] V [auth D] | GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N | |||
EDO Query on EDO | BA [auth E], HA [auth F], T [auth C] | 1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N | |||
CL Query on CL | N [auth B], R [auth C] | CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M | |||
MG Query on MG | EA [auth F] FA [auth F] J [auth A] K [auth A] O [auth B] | MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N | |||
NA Query on NA | CA [auth E], L [auth A], U [auth C] | SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N |
Length ( Å ) | Angle ( ˚ ) |
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a = 92.848 | α = 90 |
b = 96.715 | β = 119.96 |
c = 92.89 | γ = 90 |
Software Name | Purpose |
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REFMAC | refinement |
XSCALE | data scaling |
PDB_EXTRACT | data extraction |
XDS | data reduction |
PHASER | phasing |
Funding Organization | Location | Grant Number |
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RFBR | Russian Federation | 14-04-00952a |