1GVY

Substrate distorsion by beta-mannanase from Pseudomonas cellulosa


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.170 
  • R-Value Work: 0.144 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Substrate Distortion by a Beta-Mannanase: Snapshots of the Michaelis and Covalent-Intermediate Complexes Suggest a B2,5 Conformation for the Transition State

Ducros, V.Zechel, D.L.Murshudov, G.Gilbert, H.J.Szabo, L.Stoll, D.Withers, S.G.Davies, G.J.

(2002) Angew.Chem.Int.Ed.Engl. 41: 2824


Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
MANNAN ENDO-1,4-BETA-MANNOSIDASE
A
383Cellvibrio japonicus (strain Ueda107)Gene Names: manA (man26A)
EC: 3.2.1.78
Find proteins for P49424 (Cellvibrio japonicus (strain Ueda107))
Go to UniProtKB:  P49424
Small Molecules
Ligands 6 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

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A
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
NA
Query on NA

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A
SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
 Ligand Interaction
BMA
Query on BMA

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A
BETA-D-MANNOSE
C6 H12 O6
WQZGKKKJIJFFOK-RWOPYEJCSA-N
 Ligand Interaction
NIN
Query on NIN

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A
DINITROPHENYLENE
C6 H4 N2 O4
WDCYWAQPCXBPJA-UHFFFAOYSA-N
 Ligand Interaction
TRS
Query on TRS

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A
2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
TRIS BUFFER
C4 H12 N O3
LENZDBCJOHFCAS-UHFFFAOYSA-O
 Ligand Interaction
MBF
Query on MBF

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A
2-DEOXY-2-FLUORO-BETA-D-MANNOSE
C6 H11 F O5
ZCXUVYAZINUVJD-AIECOIEWSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.170 
  • R-Value Work: 0.144 
  • Space Group: P 41
Unit Cell:
Length (Å)Angle (°)
a = 93.192α = 90.00
b = 93.192β = 90.00
c = 54.343γ = 90.00
Software Package:
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
AMoREphasing
REFMACrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2002-09-05
    Type: Initial release
  • Version 1.1: 2016-12-14
    Type: Database references, Derived calculations, Non-polymer description, Other, Source and taxonomy, Structure summary, Version format compliance