3LKT

Tyrosine 447 of Protocatechuate 3,4-Dioxygenase Controls Efficient Progress Through Catalysis


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.65 Å
  • R-Value Free: 0.173 
  • R-Value Work: 0.148 
  • R-Value Observed: 0.150 

Starting Model: other
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wwPDB Validation   3D Report Full Report


This is version 1.5 of the entry. See complete history


Literature

Tyrosine 447 of Protocatechuate 3,4-Dioxygenase Controls Efficient Progress Through Catalysis

Purpero, V.M.Valley, M.P.Ohlendorf, D.H.Lipscomb, J.D.Burk, D.Dolbeare, K.B.Brown, K.C.

To be published.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Protocatechuate 3,4-dioxygenase alpha chain200Pseudomonas putidaMutation(s): 0 
Gene Names: pcaG
EC: 1.13.11.3
UniProt
Find proteins for P00436 (Pseudomonas putida)
Explore P00436 
Go to UniProtKB:  P00436
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP00436
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Protocatechuate 3,4-dioxygenase beta chain238Pseudomonas putidaMutation(s): 1 
Gene Names: pcaH
EC: 1.13.11.3
UniProt
Find proteins for P00437 (Pseudomonas putida)
Explore P00437 
Go to UniProtKB:  P00437
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP00437
Sequence Annotations
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  • Reference Sequence
Small Molecules
Ligands 6 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
TRS
Query on TRS

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AA [auth B],
FB [auth E],
NB [auth F],
O [auth A],
TA [auth D]
2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
C4 H12 N O3
LENZDBCJOHFCAS-UHFFFAOYSA-O
SO4
Query on SO4

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EB [auth E]
HA [auth C]
M [auth A]
MB [auth F]
SA [auth D]
EB [auth E],
HA [auth C],
M [auth A],
MB [auth F],
SA [auth D],
Z [auth B]
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
GOL
Query on GOL

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IA [auth C],
U [auth M]
GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
BME
Query on BME

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AB [auth P]
BB [auth P]
CB [auth P]
DA [auth N]
DB [auth P]
AB [auth P],
BB [auth P],
CB [auth P],
DA [auth N],
DB [auth P],
EA [auth N],
FA [auth N],
GA [auth N],
IB [auth Q],
JA [auth C],
JB [auth Q],
KB [auth Q],
LB [auth Q],
MA [auth O],
N [auth A],
NA [auth O],
OA [auth O],
PA [auth O],
QA [auth O],
QB [auth R],
RA [auth O],
RB [auth R],
SB [auth R],
TB [auth R],
V [auth M],
W [auth M],
WA [auth P],
X [auth M],
XA [auth P],
Y [auth M],
YA [auth P],
ZA [auth P]
BETA-MERCAPTOETHANOL
C2 H6 O S
DGVVWUTYPXICAM-UHFFFAOYSA-N
FE
Query on FE

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BA [auth N]
GB [auth Q]
KA [auth O]
OB [auth R]
P [auth M]
BA [auth N],
GB [auth Q],
KA [auth O],
OB [auth R],
P [auth M],
UA [auth P]
FE (III) ION
Fe
VTLYFUHAOXGGBS-UHFFFAOYSA-N
CL
Query on CL

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CA [auth N]
HB [auth Q]
LA [auth O]
PB [auth R]
Q [auth M]
CA [auth N],
HB [auth Q],
LA [auth O],
PB [auth R],
Q [auth M],
R [auth M],
S [auth M],
T [auth M],
VA [auth P]
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.65 Å
  • R-Value Free: 0.173 
  • R-Value Work: 0.148 
  • R-Value Observed: 0.150 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 190.31α = 90
b = 168.04β = 132.3
c = 128.16γ = 90
Software Package:
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
PHASERphasing
REFMACrefinement
PDB_EXTRACTdata extraction
HKL-3000data collection
HKL-3000data reduction
HKL-3000data scaling

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2011-02-23
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Version format compliance
  • Version 1.2: 2017-11-01
    Changes: Refinement description
  • Version 1.3: 2021-10-13
    Changes: Database references, Derived calculations
  • Version 1.4: 2024-02-21
    Changes: Data collection
  • Version 1.5: 2024-04-03
    Changes: Refinement description