› › Function and Biology

Crystal structure of pectate lyase Pel9A

Source organism: Dickeya chrysanthemi
Biochemical function: metal ion binding
Biological process: symbiont-mediated disruption of host cell wall
Cellular component: extracellular region

Quick links

EC 4.2.2.2: Pectate lyase

Reaction catalysed:
Eliminative cleavage of (1->4)-alpha-D-galacturonan to give oligosaccharides with 4-deoxy-alpha-D-galact-4-enuronosyl groups at their non-reducing ends
Systematic name:
(1->4)-alpha-D-galacturonan lyase
Alternative Name(s):
  • Alpha-1,4-D-endopolygalacturonic acid lyase
  • Endo-alpha-1,4-polygalacturonic acid lyase
  • Endogalacturonate transeliminase
  • Endopectin methyltranseliminase
  • PGA lyase
  • PPase-N
  • Pectate transeliminase
  • Pectic acid lyase
  • Pectic acid transeliminase
  • Pectic lyase
  • Pectin trans-eliminase
  • Polygalacturonate lyase
  • Polygalacturonic acid lyase
  • Polygalacturonic acid trans-eliminase
  • Polygalacturonic transeliminase

GO terms

Sequence family

Pfam Protein family (Pfam)
PF13229
Domain description: Right handed beta helix region
Occurring in:
  1. Pectate lyase L
The deposited structure of PDB entry 1ru4 contains 1 copy of Pfam domain PF13229 (Right handed beta helix region) in Pectate lyase L. Showing 1 copy in chain A.

InterPro InterPro annotations
IPR006626
Domain description: Parallel beta-helix repeat
Occurring in:
  1. Pectate lyase L
IPR039448
Domain description: Right handed beta helix domain
Occurring in:
  1. Pectate lyase L
IPR011050
Domain description: Pectin lyase fold/virulence factor
Occurring in:
  1. Pectate lyase L
IPR012334
Domain description: Pectin lyase fold
Occurring in:
  1. Pectate lyase L

Structure domain

CATH CATH domain
2.160.20.10
Class: Mainly Beta
Architecture: 3 Solenoid
Topology: Pectate Lyase C-like
Homology: Single-stranded right-handed beta-helix, Pectin lyase-like
Occurring in:
  1. Pectate lyase L
The deposited structure of PDB entry 1ru4 contains 1 copy of CATH domain 2.160.20.10 (Pectate Lyase C-like) in Pectate lyase L. Showing 1 copy in chain A.
SCOP SCOP annotation
101951
Class: All beta proteins
Fold: Single-stranded right-handed beta-helix
Superfamily: Pectin lyase-like
Occurring in:
  1. Pectate lyase L
The deposited structure of PDB entry 1ru4 contains 1 copy of SCOP domain 101951 (Pectate transeliminase) in Pectate lyase L. Showing 1 copy in chain A.

Quick links