4DU6

Crystal structure of GTP cyclohydrolase I from Yersinia pestis complexed with GTP


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.11 Å
  • R-Value Free: 0.225 
  • R-Value Work: 0.180 
  • R-Value Observed: 0.182 

Starting Model: experimental
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wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 1.2 of the entry. See complete history


Literature

Crystal structure of GTP cyclohydrolase I from Yersinia pestis complexed with GTP

Maltseva, N.Kim, Y.Kwon, K.Anderson, W.F.Joachimiak, A.CSGID

To be published.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
GTP cyclohydrolase 1
A, B, C, D, E
223Yersinia pestis CO92Mutation(s): 0 
Gene Names: folEYPTB1520
EC: 3.5.4.16
UniProt
Find proteins for Q8ZG15 (Yersinia pestis)
Explore Q8ZG15 
Go to UniProtKB:  Q8ZG15
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8ZG15
Sequence Annotations
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  • Reference Sequence
Small Molecules
Ligands 5 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
GTP
Query on GTP

Download Ideal Coordinates CCD File 
F [auth A],
K [auth B],
N [auth C],
T [auth D],
X [auth E]
GUANOSINE-5'-TRIPHOSPHATE
C10 H16 N5 O14 P3
XKMLYUALXHKNFT-UUOKFMHZSA-N
TRS
Query on TRS

Download Ideal Coordinates CCD File 
J [auth B],
O [auth C],
U [auth D]
2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
C4 H12 N O3
LENZDBCJOHFCAS-UHFFFAOYSA-O
PEG
Query on PEG

Download Ideal Coordinates CCD File 
I [auth B]DI(HYDROXYETHYL)ETHER
C4 H10 O3
MTHSVFCYNBDYFN-UHFFFAOYSA-N
GOL
Query on GOL

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G [auth A]
H [auth B]
M [auth C]
Q [auth C]
R [auth C]
G [auth A],
H [auth B],
M [auth C],
Q [auth C],
R [auth C],
S [auth D],
W [auth E]
GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
CA
Query on CA

Download Ideal Coordinates CCD File 
L [auth B],
P [auth C],
V [auth D]
CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

Unit Cell:
Length ( Å )Angle ( ˚ )
a = 174.047α = 90
b = 104.912β = 96.89
c = 70.07γ = 90
Software Package:
Software NamePurpose
HKL-3000data collection
HKL-3000phasing
MOLREPphasing
PHENIXrefinement
HKL-3000data reduction
HKL-3000data scaling

Structure Validation

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Ligand Structure Quality Assessment 


Entry History 

Revision History  (Full details and data files)

  • Version 1.0: 2012-03-21
    Type: Initial release
  • Version 1.1: 2015-10-21
    Changes: Source and taxonomy
  • Version 1.2: 2023-09-13
    Changes: Data collection, Database references, Derived calculations, Refinement description