4P5A

Crystal structure of a UMP/dUMP methylase PolB from Streptomyces cacaoi bound with 5-Br UMP


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.76 Å
  • R-Value Free: 0.193 
  • R-Value Work: 0.154 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Crystal structure of a UMP/dUMP methylase PolB from Streptomyces cacaoi with 5-Br UMP

Li, Y.Chen, W.Li, J.Xia, Z.Deng, Z.Zhou, J.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Thymidylate synthase ThyX
A, B, C, D
239Streptomyces cacaoi subsp. asoensisMutation(s): 0 
Gene Names: polB (thyX)
EC: 2.1.1.148
Find proteins for C1IC19 (Streptomyces cacaoi subsp. asoensis)
Go to UniProtKB:  C1IC19
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
5BU
Query on 5BU

Download SDF File 
Download CCD File 
A, B, C, D
5-BROMO-URIDINE-5'-MONOPHOSPHATE
C9 H12 Br N2 O9 P
IDPVUMJNEZFMNU-UAKXSSHOSA-N
 Ligand Interaction
FAD
Query on FAD

Download SDF File 
Download CCD File 
A, B, C, D
FLAVIN-ADENINE DINUCLEOTIDE
C27 H33 N9 O15 P2
VWWQXMAJTJZDQX-UYBVJOGSSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.76 Å
  • R-Value Free: 0.193 
  • R-Value Work: 0.154 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 62.897α = 90.00
b = 94.160β = 98.30
c = 91.948γ = 90.00
Software Package:
Software NamePurpose
REFMACrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2015-12-09
    Type: Initial release