6EB3

Structural and enzymatic characterization of an esterase from a metagenomic library


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.35 Å
  • R-Value Free: 0.233 
  • R-Value Work: 0.193 
  • R-Value Observed: 0.195 

wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 1.1 of the entry. See complete history


Literature

Functional and Structural characterisation of an Esterase from Amazonian Dark Soil

Guzzo, C.R.Maciel, N.K.Barbosa, A.S.Farah, C.S.

To be published.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Est1A, B, C, D268metagenomeMutation(s): 0 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 7 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
J3G
Query on J3G

Download Ideal Coordinates CCD File 
J [auth B]2-hydroxypropane-1,3-diyl dibutanoate
C11 H20 O5
KBWFWZJNPVZRRG-UHFFFAOYSA-N
 Ligand Interaction
J3J
Query on J3J

Download Ideal Coordinates CCD File 
H [auth A]1,3-dihydroxypropan-2-yl butanoate
C7 H14 O4
PVPWPCLNZDBNFK-UHFFFAOYSA-N
 Ligand Interaction
ABU
Query on ABU

Download Ideal Coordinates CCD File 
L [auth C],
Q [auth D]
GAMMA-AMINO-BUTANOIC ACID
C4 H9 N O2
BTCSSZJGUNDROE-UHFFFAOYSA-N
 Ligand Interaction
SO4
Query on SO4

Download Ideal Coordinates CCD File 
M [auth C],
N [auth C],
R [auth D],
S [auth D]
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
PO4
Query on PO4

Download Ideal Coordinates CCD File 
K [auth B]PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
 Ligand Interaction
GOL
Query on GOL

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E [auth A],
F [auth A],
G [auth A],
T [auth D]
GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
EDO
Query on EDO

Download Ideal Coordinates CCD File 
I [auth B],
O [auth C],
P [auth C]
1,2-ETHANEDIOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.35 Å
  • R-Value Free: 0.233 
  • R-Value Work: 0.193 
  • R-Value Observed: 0.195 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 71.65α = 90
b = 105.95β = 90
c = 145.94γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
PHASERphasing
MOSFLMdata reduction
SCALAdata scaling

Structure Validation

View Full Validation Report



Ligand Structure Quality Assessment 


Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Sao Paulo Research Foundation (FAPESP)Brazil2016/084147
Sao Paulo Research Foundation (FAPESP)Brazil2013/18664-2
Brazilian National Council for Scientific and Technological Development (CNPq)Brazil403965/2016-0
Brazilian National Council for Scientific and Technological Development (CNPq)Brazil303677/2017-1

Revision History  (Full details and data files)

  • Version 1.0: 2019-08-07
    Type: Initial release
  • Version 1.1: 2020-01-01
    Changes: Author supporting evidence