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Table 1 CDK-related kinases used in this study.

From: Comparative genomics of cyclin-dependent kinases suggest co-evolution of the RNAP II C-terminal domain and CTD-directed CDKs

Species

Genes

gi number

Abbreviations

Trypanosoma brucei

Cdc2-related kinase2

397162

TbCrk2

 

Cdc2-related kinase3

397365

TbCrk3

 

Cdc2-related kinase6

23392965

TbCrk6

 

Cdc2-like kinase

10458

TbCdc2L

Leishmania major

Cdc2-related kinase 1

9857049

LmCrk1

 

Cdc2-related kinase 3

15526337

LmCrk3

Giardia lamblia

Cdc2-like1

29248279

GlCdc2L1

 

Cdc2-like2

29245850

GlCdc2L2

 

Cdc2-like3

29250990

GlCdc2L3

 

Cdc2-like4

29249431

GlCdc2L4

 

CAKlike

29249713

GlCAKlike

Cryptosporidium parvum

Cdc2-like kinase

3329529

CpCdc2L

Plasmodium falciparum

MO15-related kinase

23507945

PfMrk

 

PK5

23619490

PfPk5

 

PK6

23618947

PfPk6

 

Crk1

23510162

PfCrk1

 

Crk3

23509994

PfCrk3

 

Crk4

23957709

PfCrk4

Dictyostelium discoideum

Cdc2 kinase

167686

DdCdc2

 

Cdc2-related protein

167696

DdCrp

 

Cdk7

1705721

DdCdk7

 

Cdk8

15778146

DdCdk8

 

Cdk9-like kinase

28828850

DdCdk9L

Entamoeba histolytica

Cdc2 kinase

543971

EhCdc2

Guillardia theta

Cdc2 kinase

13812042

GtCdc2

Saccharomyces cerevisiae

Cdc28

115915

ScCdc28

 

Pho85

295932

ScPho85

 

Kin28

1199540

ScKin28

 

Cdk8/Srb10

2131219

ScSrb10

 

Ctk1

486235

ScCtk1

 

Bur1

218486

ScBur1

 

Cak1

1480663

ScCak1

Schizosaccharomyces pombe

Cdc2

173359

SpCdc2

 

PhoA

19075421

SpPhoA

 

Mcs6

19113141

SpMcs6

 

Cdk8/Srb10

7493197

SpSrb10

 

AC2F3.15

19115305

SpAC2F3.15

 

Cdk9

32363142

SpCdk9

 

Csk1

299548

SpCsk1

 

BC18H10.5

3006177

SpBC18H10.5

Encephalitozoon cuniculi

Cdc2-related kinaseA

19173516

EcCrkA

 

Cdc2-related kinaseB

19069621

EcCrkB

 

Cdc2-related kinaseC

19171093

EcCrkC

 

Cdc2-related kinaseD

19074929

EcCrkD

 

Cdc2-related kinaseE

19173349

EcCrkE

 

Cdk7 like kinase

19068706

EcCdk7

Drosophila melanogaster

Cdk1

115921

DmCdk1

 

Cdc2c

7708

DmCdk2

 

Cdk4

1523997

DmCdk4

 

Cdk5

1523999

DmCdk5

 

Cdk7

1336061

DmCdk7

 

Cdk8

1718193

DmCdk8

 

Cdk9

24658274

DmCdk9

 

Dcdrk

541654

DmDcdrk

 

CG6800

23171908

DmCG6800

 

Pitslre

1524005

DmPitslre

 

CG7597

24668136

DmCG7597

 

EiP63E

1524003

DmEip63E

Caenorhabditis elegans

K03E5.3

3158523

CeK03E5.3

 

Cdk1

5001728

CeCdk1

 

Cdk4

21902501

CeCdk4

 

Cdk5

5001732

CeCdk5

 

Zc123.4

21913082

CeZc123.4

 

Pctaire1

5001730

CePctaire1

 

Cdc2-like kinase5

7494824

CeB0385.1

 

Cdk7

5031478

CeCdk7

 

Cdk8

32563668

CeCdk8

 

Cdk9

17507939

CeCdk9

 

B0495.2

2499649

CeB0495.2

 

Zc504.3

897712

CeZc504.3

 

H01G02.2

7504821

CeH01G02.2

Homo sapiens

Cdk1

115922

HsCdk1

 

Cdk2

29849

HsCdk2

 

Cdk3

4557439

HsCdk3

 

Cdk4

33304135

HsCdk4

 

Cdk5

7434324

HsCdk5

 

Cdk6

21885467

HsCdk6

 

Pctaire1

13623189

HsPctaire1

 

Pctaire2

21542571

HsPctaire2

 

Pctaire3

30583437

HsPctaire3

 

Pftaire1

6912584

HsPftaire1

 

Cdk7

13529020

HsCdk7

 

Cdk8

1000491

HsCdk8

 

Cdk9

12805029

HsCdk9

 

Cdk10

6226784

HsCdk10

 

Cdk11

16357492

HsCdk11

 

Cdc2-Like kinase5

10443222

HsCdc2L5

 

Cdc2-related kinase with RS domain

7107392

HsCrkRS

 

Cell cycle related kinase

23344742

HsCCRK

Oryza sativa

CdkA.1

20343

OsCdkA.1

 

CdkA.2

266410

OsCdkA.2

 

CdkB2.1

7489567

OsCdkB2.1

 

CdkB1.1

34907628

OsCdkB1.1

 

R2

231707

OsCdk7

 

CdkE

12039362

OsCdkE

 

CdkC.1

31442141

OsCdkC.1

 

OJ991113_30.14

38344237

OsCAD41330

 

B1015E06.16

34903661

OsB1015E06.16

 

P0560B06.11

34914693

OsP0560B06.11

 

P0453E05.113

28460677

OsP0453E05.113

 

P0450A04.129

34899281

OsP0450A04.129

 

P0498H04.21

42408343

OsP0498H04.21

 

P0435E12.11

46390990

OsP0435E12.11

 

P0482D04.8

34907029

OsP0482D04.8

 

OJ1562.H01.5

38424086

Os1562.H01.5

Arabidopsis thaliana

CdkA1

30693081

AtCdkA.1

 

CdkB1.1

30694007

AtCdkB1.1

 

CdkB1.2

42569740

AtCdkB1.2

 

CdkB2.1

30699181

AtCdkB2.1

 

CdkB2.2

18394928

AtCdkB2.2

 

CAK1

15235518

AtCdkF

 

CAK2

15147864

AtCdkD.3

 

CAK3

15147866

AtCdkD.1

 

CAK4

20521156

AtCdkD.2

 

CdkE

10177042

AtCdkE

 

CdkC.1

30698081

AtCdkC.1

 

CdkC.2

11346412

AtCdkC.2

 

F12B7.13

17065202

AtF12B7.13

 

K9H21.7

17064770

AtK9H21.7

 

K9L2.5

15241455

AtK9L2.5

 

T22H22.5

25405751

AtT22H22.5

 

T12H1.1

15229881

AtT12H1.1

 

K16E14.2

26449318

AtK16E14.2

 

F21B7.1

7488248

AtF21B7.1

 

AT4g22940

15235867

At4g22940

 

F8L10.9

15219169

AtF8L10.9

 

F26A9.10

42572067

AtF26A9.10

 

AT4g10010

30681286

At4g10010

 

F14J9.26

18391043

AtF14J9.26

 

F6A14.22

15221833

AtF6A14.22

 

F1M20.1

25406336

AtF1M20.1

 

AAF21469.1

6649591

AtAAF21469.1

 

T4P13.34

42570106

AtT4P13.34

  1. Note: The sequences in bold are the additional sequences from incomplete genomes and uncharacterized CDK9 like-kinases from Arabidopsis and Oryza included in supplemental phylogenetic tree (additional file 1).