Table 1 Targeted quantitative analyses of selected proteins using isotopically-labeled (15N) peptide standards.

From: Metabolic versatility of the nitrite-oxidizing bacterium Nitrospira marina and its proteomic response to oxygen-limited conditions

Target proteina

15N-Peptide sequence

Peptide concentration (copies cell −1)

  

atm. O2

low O2

Nitrite oxidoreductase, alpha subunit 1

LVVITPEYNPTAYR

845 (52)

1924 (275)

 

DYAFPDFANSYSGK

241 (40)

451 (91)

 

HPFWEETNESKPQWTR

673 (39)

1571 (388)

Nitrite oxidoreductase, alpha subunit 2

VVVITPEYNPTAQR

1,154 (27)

851 (187)

Nitrite oxidoreductase, alpha subunit 3

DYQFPDFTSTYSGK

1,761 (159)

1,261 (242)

 

SGIDPALTGTHR

4,519 (516)

3,400 (526)

 

IAVITPEYNPTAYR

4,860 (496)

3,741 (710)

Nitrite oxidoreductase, alpha subunit (all)

GWKPSDPYYK

11,467 (1,957)

9,564 (1,083)

 

AIALDTGYQSNFR

13,996 (962)

13,116 (2,934)

Pyruvate:ferredoxin oxidoreductase,

TPSFFTGSEVIK

2,026 (192)

1,550 (248)

alpha subunit

EAIAILEEEGIR

1,362 (80)

1,054 (170)

 

EVSATVPNNER

2,453 (169)

1,736 (215)

Ribonucleotide reductase

TGESPYQTIPFSHR

300 (46)

198 (30)

 

EAAVPEPYIHR

705 (132)

472 (77)

 

IINQSLPPALR

750 (88)

546 (68)

  1. Nitrite oxidoreductase peptide targets were designed to match a specific NxrA copy (1, 2, or 3), or to match all three as indicated in the target protein column. Values represent the mean of triplicate measurements and standard deviations are shown in brackets.
  2. aA complete list of quantified proteins can be found in Data Set 2.
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