TABLE 2.
Dockerin-containing proteins found in the draft genome of C. thermocellum
| Protein family or putative function group | Gene producta | Putative function and/or reading frameb | Mol mass (kDa) | Reference(s) | Module structurec |
|---|---|---|---|---|---|
| Structural component | CipA (+) | Scaffoldin, Chte02002467, ZP_00312244 | 197 | 88, 96, 374 | 2(Coh1)-CBM3a-7(Coh1)-UN-Doc2 |
| Cellulase/β-glucanase | CelO | Cellobiohydrolase, Chte02003367, ZP_00311446 | 75 | 372 | CBM3b-GH5-Doc1 |
| — | Chte02003044, ZP_00311743 | 103 | GH5-CBM6-Fn3-Doc1 | ||
| CelB | Endoglucanase, Chte02000960, ZP_00313593 | 64 | 105 | GH5-Doc1 | |
| CelG (+) | Endoglucanase, Chte02001813, ZP_00312831 | 63 | 188 | GH5-Doc1 | |
| — | Chte02001497, ZP_00313148 | 58 | GH5-Doc1 | ||
| CelA (+) | Endoglucanase, Chte02000171, ZP_00314359 | 53 | 30 | GH8-Doc1 | |
| CbhA (+) | Cellobiohydrolase, Chte02001488, ZP_00313140 | 138 | 375 | CBM4-Ig-GH9-2(Fn3)-CBD3b-Doc1 | |
| CelK (+) | Cellobiohydrolase, Chte02001490, ZP_00313141 | 101 | 152, 374 | CBM4-Ig-GH9-Doc1 | |
| CelD | Endoglucanase, Chte02001777, ZP_00312895 | 72 | 143 | Ig-GH9-Doc1 | |
| — | Chte02001890, ZP_00312800 | 110 | GH9-CBM3c-CBM3b-Doc1 | ||
| — | Chte02001086, ZP_00313565 | 105 | GH9-CBM3c-CBM3b-Doc1 | ||
| CelN (+) | Endoglucanase, Chte02000571, ZP_00314035 | 82 | 373 | GH9-CBM3c-Doc1 | |
| CelR (+) | Endoglucanase, Chte02001003, ZP_00313635 | 85 | GH9-CBM3c-Doc1 | ||
| CelQ (+) | Endoglucanase, Chte02001251, ZP_00313301 | 80 | 9 | GH9-CBM3c-Doc1 | |
| CelF | endoglucanase, Chte02000967, ZP_00313600 | 82 | 245 | GH9-CBM3c-Doc1 | |
| — | Chte02001891, ZP_00312801 | 80 | GH9-CBM3c-Doc1 | ||
| — | Chte02001467, ZP_00313120 | 89 | GH9-CBM3c-Doc1 | ||
| — | Chte02002786, ZP_00311957 | 82 | GH9-CBM3c-Doc1 | ||
| — | Chte02000166, ZP_00314354 | 63 | GH9-Doc1 | ||
| CelT (+) | Endoglucanase, Chte02001327, ZP_00313235 | 69 | 172 | GH9-Doc1 | |
| CelS (+) | Exoglucanase, Chte02001227, ZP_00313420 | 83 | 341 | GH48-Doc1 | |
| Xylanases | XynD (+) | Xylanase, Chte02000364, ZP_00314122 | 72 | CBM22-GH10-Doc1 | |
| XynC (+) | Xylanase, Chte02001156, ZP_00313489 | 70 | 120 | CBM22-GH10-Doc1 | |
| XynA, XynU (+) | Xylanase, Chte02001934, ZP_00312745 | 74 | 121 | GH11-CBM4-Doc1-NodB | |
| XynB, XynV (+) | Xylanase connecting error? | 50 | 121 | GH11-CBM4-Doc1 | |
| Other hemicellulases | LicB (+) | Lichenase, Chte02000203, ZP_00314391 | 38 | 367 | GH16-Doc1 |
| ChiA (+) | Chitinase, Chte02000170, ZP_00314358 | 55 | 366 | GH18-Doc1 | |
| ManA (+) | Mannanase, Chte02001325, ZP_00313234 | 67 | 114 | CBM-GH26-Doc1 | |
| — | Chte02000583, ZP_00314046 | 67 | GH26-Doc1 | ||
| — | Chte02002707, ZP_00312042 | 71 | GH30-CBM6-Doc1 | ||
| — | Chte02002259, ZP_00312443 | 47 | GH53-Doc1 | ||
| — | Chte02002200, ZP_00312458 | 86 | GH81-Doc1 | ||
| Putative glycosidases | — | Chte02003048, ZP_00311747 | 104 | GH2-CBM6-Doc1 | |
| — | Chte02003396, ZP_00311430 | 88 | GH39-2(CBM6)-Doc1 | ||
| — | Chte02003047, ZP_00311746 | 59 | GH43-CBM6-Doc1 | ||
| — | Chte02002202, ZP_00312459 | 64 | GH43-CBM13-Doc1 | ||
| — | Chte02000090, ZP_00314291 | 75 | GH43-2(CBM6)-Doc1 | ||
| Xyloglucan hydrolase | XghA (+) | Xyloglucanase, Chte02002261, ZP_00312445 | 92 | GH74-CBM2-Doc1 | |
| Putative carbohydrate esterases | — | Chte02001642, ZP_00312970 | 91 | Fn3-CE12-Doc1-CBM6-CE12 | |
| — | Chte02001749, ZP_00312868 | 55 | CE3-CE3-Doc1 | ||
| — | Chte02001822, ZP_00312838 | 55 | Doc1-CE6 | ||
| /PICK> | |||||
| — | Chte02003045, ZP_00311744 | 54 | CE1-CBM6-Doc1 | ||
| Putative pectinases | — | Chte02001171, ZP_00313369 | 92 | GH28-Doc1 | |
| — | Chte02002538, ZP_00312205 | 60 | PL1-Doc1-CBM6 | ||
| — | Chte02000923, ZP_00313704 | 98 | PL1-Doc1-CBM6-PL9 | ||
| — | Chte02002537, ZP_00312204 | 42 | PL10-UN-Doc1 | ||
| — | Chte02002767, ZP_00311987 | 89 | Doc1-CBM6-PL11 | ||
| Multifunctional components | CelJ (+) | Cellulase, Chte02001252, ZP_00313302 | 178 | 1 | CBM30-Ig-GH9-GH44-Doc1-UN |
| CelH | Endoglucanase, Chte02003109, ZP_00311690 | 102 | 361 | GH26-GH5-CBM9-Doc1 | |
| — | Chte02003393, ZP_00311428 | 111 | GH30-GH54-GH43-Doc1 | ||
| — | Chte02001578, ZP_00313008; Chte02001577, ZP_00313007, frame shift? | 79 | GH54-Doc1-GH43 | ||
| — | Chte02003394, ZP_00311429 | 66 | GH54-GH43-Doc1 | ||
| ZynZ (+) | Xylanase, Chte02002412, ZP_00312306 | 92 | 106 | CE1-CBM6-Doc1-GH10 | |
| XynY | Xylanase, Chte02002344, ZP_00312390 | 120 | 83 | CBM22-GH10-CBM22-Doc1-CE1 | |
| CelE (+) | Endoglucanase, Chte02001748, ZP_00312867 | 90 | 122 | GH5-Doc1-CE2 | |
| Putative protease and protease inhibitors | — | Chte02001648, ZP_00312975 | 40 | Subtilisin-like serine protease-Doc1 | |
| — | Chte02000228, ZP_00314411 | 64 | Fn3-Doc1-serpin | ||
| — | Chte02000229, ZP_00314412 | 68 | Doc1-serpin | ||
| Components with unknown function | — | Chte02002760, ZP_00311980 | 117 | 2(UN)-UN-UN(CelP 550-870)-Doc1 | |
| — | Chte02003046, ZP_00311745 | 105 | UN-CBM6-Doc1 | ||
| CseP (+) | Chte02000570, ZP_00314034 (structural component) | 62 | 373 | UN-Doc1 | |
| — | Chte02002500, ZP_00312225 | 58 | Doc1-UN | ||
| — | Chte02000182, ZP_00314370 | 51 | Doc1-U | ||
| — | Chte02001566, ZP_00313102 | 76 | Doc1-UN | ||
| — | Chte02002663, ZP_00312096 | 65 | 2(UN)-Doc1 | ||
| — | Chte02003357, ZP_00311454 | 135 | UN-UN-UN-Doc1 | ||
| Chte02001465, ZP_00313118 | 40 | Doc1-UN | |||
| Chte02001653, ZP_00312979 | 47 | UN-Doc1 | |||
| Chte02000318, ZP_00314080 | 37 | UN-Doc1 | |||
| Chte02001119, ZP_00313455 | 236 | 2(UN)-UN-Doc2 | |||
| Chte02002121, ZP_00312553 | 19 | Doc1-Doc1 |
The ORFs in the draft genome sequence, each containing at least a dockerin molecule, are listed. A gene designation indicates that the gene encoding the component has been cloned and the encoded protein has been biochemically characterized; a dash indicates that this is not the case. +, the existence of the component in the cellulosome has been experimentally verified.
The enzymatic activity or function (putative or known) and the ORF number (Chte) from REFSEQ accession number AABG00000000 on the NCBI website (http://www.ncbi.nlm.nih.gov/RefSeq/; database as of 17 June 2004) are provided. The Chte number indicates the locus tag in the genome sequence (nucleotide search RefSeq_DNA); the ZP number indicates the protein identification code (protein search RefSeq_Prot).
Module classification according to P. M. Coutinho and B. Henrissat (Carbohydrate- Active Enzymes server at http://afmb.cnrs-mrs.fr/CAZY/index.html, 1999). Coh, cohesion; Doc, dockerin; CBM, carbohydrate-binding module; GH, glycosyl hydrolase family; Fn3, fibronectin III; Ig, Ig-like fold; CE, carbohydrate esterase; PL, pectin lyase; UN, module with unknown function; serpin, serine protease inhibitor homologous module. Adapted from reference 368 with permission of Wiley-VCH Verlag.