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Table 2 Results of the neighbor-jackknife test

From: pkaPS: prediction of protein kinase A phosphorylation sites with the simplified kinase-substrate binding model

Score

Profile

Tj

Access.

Site

Sequence

Reference

-0.108

0.268

T 7 ,T 8

P02687

33

SASTMDHARHGFLPRHRDT GILDSLGRFFGSDRGAPKRGSGK

Kishimoto et al. 1985 [37]

-0.158

0.733

T 2 ,T 4

P12336

489

VLVFTLFTFFKVPETKGKS FDEIAAEFRKKSGSAPPRKATVQ

Thorens et al. 1996 [61]

-0.174

0.560

T 4 ,T 7

P24155

643

RFKQEGVLSPKVGMDYRTS ILRPGGSEDASTMLKQFLGRDPK

Tullai et al. 2000 [69]

-0.264

0.145

T 2

P02643

19

GDEEKRNRAITARRQHLKS VMLQIAATELEKEEGRREAEKQN

Huang et al. 1974 [82]

-0.367

0.113

T 2 ,T 10

Q07954

4517

PTNFTNPVYATLYMGGHGS RHSLASTDEKRELLGRGPEDEIG

Li et al. 2001 [83]

-0.469

0.564

T 4 ,T 12

P25961

473

VAIIYCFCNGEVQAEIRKS WSRWTLALDFKRKARSGSSSYSY

Blind et al. 1996 [62]

-0.469

-0.028

T 2 ,T 12

Q13002

697

KIEYGAVEDGATMTFFKKS KISTYDKMWAFMSSRRQSVLVKS

Wang et al. 1993 [84]

-0.619

0.891

T 1 ,T 2

P02687

10

---------AAQKRPSQRS KYLASASTMDHARHGFLPRHRDT

Kishimoto et al. 1985 [37]

-1.813

0.038

T 1 -T 4

P19112

356

SRPSLPLPQSRARESPVHS ICDELF-----------------

Ekdahl 1987 [38]

-1.867

-0.409

many

P24385

197

RKHAQTFVALCATDVKFIS NPPSMVAAGSVVAAVQGLNLRSP

Sewing & Müller 1994 [39]

  1. Phosphorylated sites from the learning set that are not predicted by pkaPS in the neighbor-jackknife test. The three entries with the lowest scores are not predicted in the self-consistency test either (Table 1). The listed penalties T j are the terms which make the highest contributions to the negative overall scores.