Table 1.
PL genes in the C. rosea genome with assigned protein IDs, gene name, PL families, additional domains and subfamily identification, known activity based on Cazy database, list of crystal structures related to the PL families and organisms for which 3D structures are available in the PDB database
| C. rosea protein ID | Gene name | CAZy module(s) and subfamilies | Known Activities | PDB/3D structure accession nr. | 3D structure status | Organism with known 3D structure |
|---|---|---|---|---|---|---|
| PL1 genes identified in C. rosea | ||||||
| BN869_T00011408 | pel1 | PL1 | pectate lyase (EC 4.2.2.2); exo-pectate lyase (EC 4.2.2.9); pectin lyase (EC 4.2.2.10) | 1IDJ[A,B] 1IDK[A] 1QCX[A] 1PXZ[A,B] | parallel β-helix | Aspergillus niger, Juniperus ashei |
| BN869_T00008859 | pel2 | |||||
| BN869_T00000002 | pel3 | CE8-PL1 | ||||
| BN869_T00000920 | pel4 | PL1_2 | ||||
| BN869_T00008472 | pel5 | PL1_4 | ||||
| BN869_T00010915 | pel6 | |||||
| BN869_T00006080 | pel7 | |||||
| BN869_T00010737 | pel8 | |||||
| BN869_T00008735 | pel9 | |||||
| BN869_T00007710 | pel10 | PL1_4-CBM1 | ||||
| BN869_T00005779 | pel11 | |||||
| BN869_T00006915 | pel12 | PL1_7 | ||||
| BN869_T00007653 | pel13 | |||||
| BN869_T00008627 | pel14 | |||||
| BN869_T00002081 | pel15 | |||||
| BN869_T00010228 | pel16 | |||||
| BN869_T00007566 | pel17 | CBM1-PL1_9 | ||||
| Other PL gene families and PL subfamilies identified in C. rosea | ||||||
| BN869_T00011160 | PL20 | endo-β-1,4-glucuronan lyase A (GlA) (EC 4.2.2.14) | 2ZZJ[A] | putative beta-jelly roll fold | Trichoderma reesei NBRC 31329 | |
| BN869_T00008392 | PL3_2 | pectate lyase (EC 4.2.2.2) | 1EE6[A] 3B4N[A,B] 3B8Y[A,B] 3B90[A,B] | parallel β-helix | Bacillus sp. KSM-P15, Dickeya dadantii 3937 | |
| BN869_T00003737 | ||||||
| BN869_T00012955 | ||||||
| BN869_T00007220 | ||||||
| BN869_T00010913 | ||||||
| BN869_T00013332 | ||||||
| BN869_T00000798 | ||||||
| BN869_T00011510 | ||||||
| BN869_T00010121 | ||||||
| BN869_T00013099 | ||||||
| BN869_T00002494 | PL4_1 | rhamnogalacturonan lyase (EC 4.2.2.23) | 1NKG[A] 2XHN[A,B] 3NJV[A] 3NJX[A] | β-sandwich and β-sheet | Aspergillus aculeatus KSM 510 | |
| BN869_T00003115 | ||||||
| BN869_T00009470 | PL4_3 | |||||
| BN869_T00000818 | PL9_3 | pectate lyase (EC 4.2.2.2); exopolygalacturonate lyase (EC 4.2.2.9); thiopeptidoglycan lyase (EC 4.2.2.-) | 1RU4[A] | parallel β-helix | Dickeya dadantii 3937 | |
List of polysaccharide lyase (PL) genes in the C. rosea genome