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Table 3 Identified carbohydrate-modifying enzymes from hypoxia-acclimated (Hyp) and normoxia-acclimated (Norm) Daphnia pulex

From: Acclimatory responses of the Daphnia pulex proteome to environmental changes. I. Chronic exposure to hypoxia affects the oxygen transport system and carbohydrate metabolism

Spot no. Specificity
Hyp: Norm 		Matched peptide
sequencesa) 		Sequence
coverageb) 		Mascot
scorec) 		Mr predicted/Mr geld) pI predicted/
pI gele) 		SP
Length 		Functionf)
Model name [Protein ID, Reference ID]
1 7.2 MFQLLNR
WINGLANSK
DGCDFASYR
MNDHTFYGPGSTFK
FYVQNGVR
GLFGDLDDHK
GLFGDLDDHKNK 		13.3% 284 48.2/58 4.73/4.72 19 Cellubiohydrolase (CEL7A) PIR_PASA_GEN_1000209 [347598, 300366]
19 1.4 GNPTVEVDLTTEK
MGTETYHHLKK
NGKYDLDFK
NPASDPATYLESNK
RIQMAVDCK
ACNCLLLK
VNQIGTVTESIAAHK
LAKYNQILR
IEEELGAAAK 		22.6% 468 46.8/51 5.98/6.01   Enolase (ENO) PIR_PASA_GEN_1500033 [347595, 301844]
29 1.2 KSILFYEAQR
SILFYEAQR
NAYTAAGELDNGLAALR
QLYDFAK
MAGISVLLSR
ILGDQKYK
QQIDYALGSTGR
SYVVGFGNNPPVK 		17.7% 355 47.3/53 5.09/5.00 18 Endo-β-1,4-Glucanase (CEL9A)
PIR_estExt_fgenesh1_kg.C_70001
[347602, 230437]
   VQLEEEAEAR
LTHELDKTR
KLGDENAELK
LKTEIQR 		4.1% 124 103.7/53 5.42/5.00   Myosin
estExt_Genewise1.C_2380001
[219409, 219409]
30 0.8 DSILHIKPTLTEDR
GGGNTINPAMAAR
YGRVEVNAK
SSTPGYNSAFHR
YQLEWTPDYLK
FSIDDVETGR 		19.8% 327 38.5/39 4.76/4.77 19 β-1,3-Glucan-binding protein
(gram-negative bacteria-binding protein)
PASA_GEN_0200102 [303036, 303036]
   SFLDFAQSK
FVNWQADGVK
NYYTDSCLVAAGGK 		9.1% 88 39.0 4.75 19 Endo-β-1,4-Mannanase (MAN5A)
PASA_GEN_8600009 [347627, 308762]
34 0.3* YLGHEVGDAR
LKDYYLR
DLINDCIMDPK 		7.3% 160 43.1/44 4.75/4.76 19 Exo-β-1,3-Glucanase (EXG5)
PIR_PASA_GEN_1000289
[347606,300436]
35 0.5 WDDIAAECER
YQPVSYK
SGDENAFKSMVDR
GKILEFLNK
ILEFLNK
LTSYGVAGFR
HMWPGDLK
KLSDVFHK
LSDVFHK
LSDVFHKK
GHGGGGDLLTFR
QIYNMAK 		17.2% 536 54.9/62 6.03/6.30 19 α-Amylase (AMY)
PASA_GEN_2100059 [303445, 303445]
  1. Identification was based on 2D gel electrophoresis and nano-HPLC-ESI-MS/MS analysis of trypsin-digested proteins matched against the "Frozen Gene Catalog" of the D. pulex protein database [26], which contains all manual curations as of July 3, 2007 as well as automatically annotated models chosen from the "Filtered Models" v1.1 reference set. The compiled information includes the spot number (Figure 1A, B), the hypoxia-to-normoxia expression ratio, the number and sequences of matched peptides, the sequence coverage, the Mascot score as a statistical measure of identification probability, the theoretical and experimental molecular weight (Mr) and isolectric point (pI) of the mature protein (without signal peptide), the predicted length of the N-terminal signal peptide (SP) in extracellular proteins, the putative function of the protein, as well as the gene model name and protein identification number for the locus. The protein IDs may differ from those contained in the "Filtered Models v1.1" reference set. The Reference ID can be used to retrieve the corresponding models from this reference set. Underlined and bold-printed sequences indicate peptides that are specific for a globin gene.
  2. a) Matched peptide sequences: tryptic peptide sequences identified via nano-HPLC-ESI-MS/MS.
  3. b) Sequence coverage %: percentage of predicted protein sequence covered by matched peptides.
  4. c)Probability based Mascot score: -10*Log(P), where P is the probability that the observed match is a random event. Scores > 38 indicate identity or extensive homology (p < 0.05). Protein scores are derived from ions scores as a non-probabilistic basis for ranking protein hits. The Mascot-score calculation was performed using whole-protein sequence (including the N-terminal signal peptide in case of extracellular proteins).
  5. d) Mr predicted/Mr gel: molecular mass of predicted protein/of protein on gel.
  6. e) pI predicted/pI gel: isoelectric point of predicted proteins/of proteins on gel.
  7. f) Function of identified proteins was obtained either via automated blastp search provided by JGI or after manual curation of a gene model.
  8. * p < 0.05 (t-Test)
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BMC Physiology

ISSN: 1472-6793

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