4AM8

Crystal structure of the R54G mutant of putrescine transcarbamylase from Enterococcus faecalis bound to a curing guanidinium ion


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.99 Å
  • R-Value Free: 0.206 
  • R-Value Work: 0.182 
  • R-Value Observed: 0.183 

wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 1.1 of the entry. See complete history


Literature

Curing a Mutant Transcarbamylase with a Small Molecule: A Crystallographic View

Polo, L.M.Rubio, V.

To be published.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
PUTRESCINE CARBAMOYLTRANSFERASE
A, B, C, D, E, F
A, B, C, D, E, F
355Enterococcus faecalisMutation(s): 1 
EC: 2.1.3.6
UniProt
Find proteins for Q837U7 (Enterococcus faecalis (strain ATCC 700802 / V583))
Explore Q837U7 
Go to UniProtKB:  Q837U7
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ837U7
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 6 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
PAO
Query on PAO

Download Ideal Coordinates CCD File 
AA [auth F],
H [auth A],
M [auth B],
Q [auth C],
T [auth D],
AA [auth F],
H [auth A],
M [auth B],
Q [auth C],
T [auth D],
X [auth E]
N-(PHOSPHONOACETYL)-L-ORNITHINE
C7 H15 N2 O6 P
FCIHAQFHXJOLIF-YFKPBYRVSA-N
 Ligand Interaction
GLN
Query on GLN

Download Ideal Coordinates CCD File 
G [auth A],
P [auth C],
W [auth E]
GLUTAMINE
C5 H10 N2 O3
ZDXPYRJPNDTMRX-VKHMYHEASA-N
 Ligand Interaction
ILE
Query on ILE

Download Ideal Coordinates CCD File 
L [auth B]ISOLEUCINE
C6 H13 N O2
AGPKZVBTJJNPAG-WHFBIAKZSA-N
 Ligand Interaction
TRS
Query on TRS

Download Ideal Coordinates CCD File 
CA [auth F],
J [auth A],
O [auth B],
S [auth C]
2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
C4 H12 N O3
LENZDBCJOHFCAS-UHFFFAOYSA-O
 Ligand Interaction
GAI
Query on GAI

Download Ideal Coordinates CCD File 
BA [auth F],
I [auth A],
N [auth B],
R [auth C],
U [auth D],
BA [auth F],
I [auth A],
N [auth B],
R [auth C],
U [auth D],
V [auth D],
Y [auth E]
GUANIDINE
C H5 N3
ZRALSGWEFCBTJO-UHFFFAOYSA-N
 Ligand Interaction
NI
Query on NI

Download Ideal Coordinates CCD File 
K [auth A],
Z [auth F]
NICKEL (II) ION
Ni
VEQPNABPJHWNSG-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.99 Å
  • R-Value Free: 0.206 
  • R-Value Work: 0.182 
  • R-Value Observed: 0.183 
  • Space Group: I 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 103.69α = 90
b = 130.6β = 104.25
c = 164.157γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
SCALAdata scaling
MOLREPphasing

Structure Validation

View Full Validation Report



Ligand Structure Quality Assessment 


Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2013-03-27
    Type: Initial release
  • Version 1.1: 2017-07-12
    Changes: Derived calculations