3RCY

CRYSTAL STRUCTURE OF Mandelate racemase/muconate lactonizing enzyme-like protein from Roseovarius sp. TM1035


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.99 Å
  • R-Value Free: 0.181 
  • R-Value Work: 0.147 
  • R-Value Observed: 0.149 

wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 2.0 of the entry. See complete history


Literature

CRYSTAL STRUCTURE OF Mandelate racemase/muconate lactonizing enzyme-like protein from Roseovarius sp. TM1035

Malashkevich, V.N.Toro, R.Seidel, R.Garrett, S.Foti, R.Almo, S.C.

To be published.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Mandelate racemase/muconate lactonizing enzyme-like protein
A, B, C, D, E, F, G, H
A, B, C, D, E, F, G, H
433Roseovarius sp. TM1035Mutation(s): 0 
Gene Names: 149202287RTM1035_13208
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
RIB
Query on RIB

Download Ideal Coordinates CCD File 
CA [auth E],
L [auth A],
LA [auth G],
M [auth A],
NA [auth H],
CA [auth E],
L [auth A],
LA [auth G],
M [auth A],
NA [auth H],
P [auth B],
PA [auth H],
Z [auth D]
alpha-D-ribofuranose
C5 H10 O5
HMFHBZSHGGEWLO-AIHAYLRMSA-N
 Ligand Interaction
GOL
Query on GOL

Download Ideal Coordinates CCD File 
AA [auth E],
DA [auth E],
FA [auth F],
GA [auth G],
HA [auth G],
AA [auth E],
DA [auth E],
FA [auth F],
GA [auth G],
HA [auth G],
J [auth A],
JA [auth G],
K [auth A],
KA [auth G],
MA [auth H],
O [auth B],
Q [auth B],
R [auth B],
T [auth C],
U [auth C],
W [auth D],
X [auth D],
Y [auth D]
GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
MG
Query on MG

Download Ideal Coordinates CCD File 
BA [auth E],
EA [auth F],
I [auth A],
IA [auth G],
N [auth B],
BA [auth E],
EA [auth F],
I [auth A],
IA [auth G],
N [auth B],
OA [auth H],
S [auth C],
V [auth D]
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.99 Å
  • R-Value Free: 0.181 
  • R-Value Work: 0.147 
  • R-Value Observed: 0.149 
  • Space Group: P 21 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 144.978α = 90
b = 162.143β = 90
c = 141.954γ = 90
Software Package:
Software NamePurpose
SCALEPACKdata scaling
PHASERphasing
REFMACrefinement
PDB_EXTRACTdata extraction
CBASSdata collection
HKL-3000data reduction

Structure Validation

View Full Validation Report



Ligand Structure Quality Assessment 



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2011-05-18
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Version format compliance
  • Version 2.0: 2020-07-29
    Type: Remediation
    Reason: Carbohydrate remediation
    Changes: Advisory, Atomic model, Data collection, Database references, Derived calculations, Structure summary