Metaproteomics-guided selection of targeted enzymes for bioprospecting of mixed microbial communities

Speda, Jutta; Jonsson, Bengt-Harald; Carlsson, Uno; Karlsson, Martin

doi:10.1186/s13068-017-0815-z

Biotechnology for Biofuels and Bioproducts

Table 3 Upregulated non-carbohydrate-active proteins/enzymes

From: Metaproteomics-guided selection of targeted enzymes for bioprospecting of mixed microbial communities

Spot no.	Method	No. of peptides	Of which unique	Score (−10lgP)	Database entry by PEAKS DB and SPIDER	Name	Category^a
18	PEAKS DB SPIDER	25	20	247.8	Gi\|740455585^b	ABC transporter	substrate binding protein, NC, SP (1–21)
18	PEAKS DB SPIDER	50	45	274.5	Gi\|740455585^b	ABC transporter	substrate binding protein, NC, SP (1–21)
19	PEAKS DB SPIDER	43	42	234.4	Gi\|740455585^b	ABC transporter	substrate binding protein, NC, SP (1–21)
19	PEAKS DB SPIDER	76	69	251.8	Gi\|740455585^b	ABC transporter	substrate binding protein, NC, SP (1–21)
20	PEAKS DB SPIDER	2	2	110.7	Gi\|740455585^b	ABC transporter	substrate binding protein, NC, SP (1–21)
20	PEAKS DB SPIDER	4	4	143.8	Gi\|740455585^b	ABC transporter	substrate binding protein, NC, SP (1–21)
21	PEAKS DB SPIDER	3	3	94.4	Gi\|740455585^b	ABC transporter	substrate binding protein, NC, SP (1–21)
21	PEAKS DB SPIDER	5	5	112.9	Gi\|740455585^b	ABC transporter	substrate binding protein, NC, SP (1–21)
22	PEAKS DB SPIDER	4	4	118.8	Gi\|503373723^d	ABC transporter substrate-binding	Solute-binding family 1, NC, SP (1–24)
22	PEAKS DB SPIDER	5	5	131.2	Gi\|503373723^d	ABC transporter substrate-binding	Solute-binding family 1, NC, SP (1–24)
23	PEAKS DB SPIDER	8	7	156.1	Gi\|502813980^e	ABC transporter substrate-binding	Solute-binding family 1, TM (weak), SP (1–27)
23	PEAKS DB SPIDER	8	7	156.1	Gi\|502813980^e	ABC transporter substrate-binding	Solute-binding family 1, TM (weak), SP (1–27)
24	PEAKS DB SPIDER	17	16	197.0	Gi\|697632338^f	Putative outer membrane protein	Nutrient binding, NC, SP (1–30)
24	PEAKS DB SPIDER	20	18	203.3	Gi\|697632338^f	Putative outer membrane protein	Nutrient binding, NC, SP (1–30)
25	PEAKS DB SPIDER	10	7	209.0	Gi\|697632338^f	Putative outer membrane binding	Nutrient binding, NC, SP (1–30)
25	PEAKS DB SPIDER	12	8	214.2	Gi\|697632338^f	Putative outer membrane binding	Nutrient binding, NC, SP (1–30)
26	PEAKS DB SPIDER	2	2	56.3	Gi\|489614243^b Gi\|489608260^b	Copper amine oxidase	NC, SP (1–32)
26	PEAKS DB SPIDER	2	2	56.3	Gi\|489614243^b Gi\|489608260^b	Copper amine oxidase	NC, SP (1–32)
27	PEAKS DB SPIDER	13	13	174.0	Gi\|489608992^b	Copper amine oxidase	NC, SP (1–22)
27	PEAKS DB SPIDER	27	27	199.9	Gi\|489608992^b	Copper amine oxidase	NC, SP (1–22)
28	PEAKS DB SPIDER	2	2	86.2	Gi\|489608992^b	Copper amine oxidase	NC, SP (1–22)
28	PEAKS DB SPIDER	6	6	120.3	Gi\|489608992^b	Copper amine oxidase	NC, SP (1–22)
29	PEAKS DB SPIDER	9	1	155.7	Gi\|489613949^b	Copper amine oxidase	NC, SP (1–24)
29	PEAKS DB SPIDER	11	3	160.6	Gi\|489613949^b	Copper amine oxidase	NC, SP (1–24)
30	PEAKS DB SPIDER	3	3	113.6	Gi\|489613949^b Gi\|500163071^b	Copper amine oxidase	NC, SP (1–24)
30	PEAKS DB SPIDER	3	3	113.6	Gi\|489613949^b Gi\|500163071^b	Copper amine oxidase	NC, SP (1–24)
31	PEAKS DB SPIDER	2	2	83.2	Gi\|740459505^c Gi\|553726325^b	Copper amine oxidase	NC, SP (1–26)
31	PEAKS DB SPIDER	4	2	100.8	Gi\|740459505^c Gi\|553726325^b	Copper amine oxidase	NC, SP (1–26)
32	PEAKS DB SPIDER	1	1	76.4	Gi\|740459505^c	Copper amine oxidase	NC, SP (1–26)
32	PEAKS DB SPIDER	2	2	94.4	Gi\|740459505^c	Copper amine oxidase	NC, SP (1–26)
33	PEAKS DB SPIDER	12	2	184.3	Gi\|575090155^c	Translation elongation factor G	Protein synthesis
33	PEAKS DB SPIDER	14	2	186.9	Gi\|575090155^c	Translation elongation factor G	Protein synthesis
34	PEAKS DB SPIDER	29	4	167.3	Gi\|489609866^b Gi\|575090155^c	Translation elongation factor G	Protein synthesis
34	PEAKS DB SPIDER	36	9	175.8	Gi\|489609866^b Gi\|575090155^c	Translation elongation factor G	Protein synthesis
35	PEAKS DB SPIDER	4	1	144.6	Gi\|575090155^c	Translation elongation factor G	Protein synthesis
35	PEAKS DB SPIDER	5	1	152.6	Gi\|575090155^c	Translation elongation factor G	Protein synthesis
36	PEAKS DB SPIDER	50	2	169.2	Gi\|740455515^c	Translation elongation factor Tu	Protein synthesis
36	PEAKS DB SPIDER	55	2	169.2	Gi\|740455515^c	Translation elongation factor Tu	Protein synthesis
37	PEAKS DB SPIDER	45	10	241.4	Gi\|489611743^b	Carboxyl transferase	Gluconeogenesis, TM (weak)
37	PEAKS DB SPIDER	48	11	244.5	Gi\|489611743^b	Carboxyl transferase	Gluconeogenesis, TM (weak)
38	PEAKS DB SPIDER	56	9	278.6	Gi\|740456462^b	Glyceraldehyde-3-phosphate dehydrogenase	Glycolysis
38	PEAKS DB SPIDER	62	11	281.2	Gi\|740456462^b	Glyceraldehyde-3-phosphate dehydrogenase	Glycolysis
39	PEAKS DB SPIDER	33	5	234.6	Gi\|740455993^c	Flagellin	Motility
39	PEAKS DB SPIDER	41	5	241.3	Gi\|740455993^c	Flagellin	Motility

^aIn CAZy database; GH glycoside hydrolase family no., NC non-cellulosomal, SP signal peptide, signal peptide sequence length in brackets, TM transmembrane
^b Ruminiclostridium thermocellum
^c Clostridium straminisolvens
^d Sphaerochaeta globose
^e Aminobacterium colombiense
^f Fermentimonas caenicola

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ISSN: 2731-3654

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