TABLE 4.
Selected CBM proteins
| Namea | Sde no.c | Module(s)d | No. of amino acidse | MM (kDa)e | MSf |
|---|---|---|---|---|---|
| Cbm2Ab | 1182 | CBM2/EPR(48)/UNK(191) | 371 | 38.0 | |
| Cbm2Bb | 1183 | CBM2/UNK(914) | 1,042 | 112.1 | av |
| Cbm2Cb | 0182 | CBM2/PSL(58)/Y94/PSL(25)/UNK(577) | 933 | 97.5 | xn |
| Cbm2D-cbm10A | 0650 | CBM2/PSL(43)/CBM10/PSL(101)/UNK(231) | 558 | 56.3 | |
| Cbm2E | 0569 | CBM2/PSL(18)/PSL(18)/UNK(471) | 781 | 85.0 | |
| Cbm2F | 2939 | CBM2/PSL(33)/PSL(17)/UNK(544) | 787 | 84.8 | |
| Cbm6A | 0242 | LPB/PSL(28)/CBM6/UNK(476) | 681 | 72.5 | |
| Cbm6B | 0216 | CBM6/CBM6/UNK(217) | 630 | 67.2 | |
| Cbm6C | 3892 | CBM6/UNK(216) | 550 | 59.8 | |
| Cbm6D | 3260 | CBM6/UNK(262) | 500 | 54.6 | |
| Cbm6E | 1445 | LPB/UNK(311)/CBM6 | 473 | 53.0 | |
| Cbm6F | 3927 | UNK(311)/CBM6 | 465 | 50.4 | |
| Cbm6G-Cbm16B | 0112 | UNK(620)/CBM6/CBM16 | 1,024 | 111.4 | |
| Cbm6H-Cbm32F | 2795 | UNK(514)CBM6/CBM32 | 912 | 97.5 | |
| Cbm16A-Cbm32E | 3272 | CBM16/PTR(16)/CBM32/PTR(22)/UNK(232) | 552 | 58.5 | |
| Cbm32A | 0478 | CBM32/CBM32/UNK(251)/COG3488 | 1,028 | 111.9 | xn |
| Cbm32B | 3845 | UNK(109)/CBM32/CBM32/CBM32 | 557 | 59.5 | |
| Cbm32C | 1503 | ZDP/CBM32/FN3/FN3/CBM32 | 674 | 73.6 | |
| Cbm32D | 3709 | CBM32/FCL/UNK(521) | 818 | 88.8 |
Cbm, carbohydrate-binding module.
ORF was cloned, expressed as a HisTag fusion protein, and assayed for cellulose binding and enzyme activity.
ORF number having the prefix “Sde,” for Saccharophagus degradans as assigned in the 15 June 2005 genome assembly (http://genome.ornl.gov/microbial/mdeg/15jun05/mdeg.html).
Predictions of function and module determination by CAZy ModO at AFMB-CNRS. Module abbreviations: CBM, carbohydrate-binding module; COG3488, thiol-oxidoreductase like domain; EPR, glutamic acid-proline-rich region; FCL, similar to fucose-binding lectins in eel serum proteins; FN3, fibronectin type 3 module; LPB, lipobox signature sequence; PSL, polyserine linker; PTR, proline-threonine repeat; UNK, unknown function; Y94, novel domain identified in this protein and two xylanases by CAZyme analysis; ZDP, zinc-dependent protease domain.
Molecular mass (MM) and amino acid count calculated by the protParam tool at http://us.expasy.org/tools/protparam.html using DOE/JGI gene model amino acid sequence translations including any predicted signal peptide.
Protein identified by MS/MS in concentrated supernatant from cultures grown in Avicel (av) or xylan (xn).