Regulatory proteins (RPs)

  In this study, we systemically compared TF/TR classification rules used in different databases, and derived a set of consensus rules based on the available literature for accurate plant TF/TR identification and classification. For plant PKs, we directly used the HMM profiles developed by Lehti-Shiu and Shiu (2012) to provide a comprehensive classification system. These consensus rules for TF/TR classification and HMM profiles for PK classification were implemented in iTAK, a computational program that provides consistency and uniformity on the identification and classification of plant TFs, TRs, and PKs.
  The relevant gene ids can be obtained from the legume blast and match under the Tools module.This link is Legume blast and match.

Regulatory proteins (RPs)

Transcription factors (TFs)

Column 1 Column 2 Column 3 Column 4 Column 5 Column 6 Column 7 Column 8
AP2 or ERF-AP2 AP2 or ERF-ERF AP2 or ERF-RAV Alfin-like B3 B3-ARF BBR-BPC BES1
BSD C2C2-CO-like C2C2-Dof C2C2-GATA C2C2-LSD C2C2-YABBY C2H2 C3H
CAMTA CPP CSD DBB DBP E2F-DP EIL FAR1
GARP-ARR-B GARP-G2-like GRAS GRF GeBP HB-BELL HB-HD-ZIP HB-KNOX
HB-PHD HB-WOX HB-other HRT HSF LFY LIM LOB
MADS-M-type MADS-MIKC MYB MYB-related NAC NF-X1 NF-YA NF-YB
NF-YC NOZZLE OFP PLATZ RWP-RK S1Fa-like SAP SBP
SRS STAT TCP TUB Tify Trihelix ULT VOZ
WRKY Whirly bHLH bZIP zf-HD --- --- ---

Transcription regulators (TRs)

Column 1 Column 2 Column 3 Column 4 Column 5 Column 6 Column 7 Column 8
ARID AUX or IAA Coactivator p15 DDT GNAT HMG IWS1 Jumonji
LUG MBF1 MED6 MED7 Others PHD Pseudo ARR-B RB
Rcd1-like SET SNF2 SOH1 SWI or SNF-BAF60b SWI or SNF-SWI3 TAZ TRAF
mTERF --- --- --- --- --- --- ---

Protein kinases (PKs)

Column 1 Column 2 Column 3 Column 4 Column 5 Column 6 Column 7 Column 8
AGC-Pl AGC_MAST AGC_NDR AGC_PDK1 AGC_PKA-PKG AGC_RSK-2 Aur AurL-Cr-1
BUB CAMK_AMPK CAMK_CAMK1-DCAMKL CAMK_CAMK1-Tthe CAMK_CAMKL-CHK1 CAMK_CAMKL-LKB CAMK_CDPK CAMK_Cr-1
CAMK_OST1L CK1_CK1 CK1_CK1-Pl CMGC_CDK-CCRK CMGC_CDK-CDK7 CMGC_CDK-CDK8 CMGC_CDK-CRK7-CDK9 CMGC_CDK-PITSLRE
CMGC_CDK-Pl CMGC_CDKL-Cr CMGC_CDKL-Os CMGC_CK2 CMGC_CLK CMGC_DYRK-PRP4 CMGC_DYRK-YAK CMGC_GSK
CMGC_GSKL CMGC_MAPK CMGC_Pl-Tthe CMGC_RCK CMGC_SRPK Group-Cr-1 Group-Pl-2 Group-Pl-3
Group-Pl-4 Group-other IRE1 NAK NEK PEK_GCN2 PEK_PEK RLK-Pelle_C-LEC
RLK-Pelle_CR4L RLK-Pelle_CrRLK1L-1 RLK-Pelle_DLSV RLK-Pelle_DSLV RLK-Pelle_Extensin RLK-Pelle_L-LEC RLK-Pelle_LRK10L-2 RLK-Pelle_LRR-I-1
RLK-Pelle_LRR-I-2 RLK-Pelle_LRR-II RLK-Pelle_LRR-III RLK-Pelle_LRR-IV RLK-Pelle_LRR-IX RLK-Pelle_LRR-V RLK-Pelle_LRR-VI-1 RLK-Pelle_LRR-VI-2
RLK-Pelle_LRR-VII-1 RLK-Pelle_LRR-VII-2 RLK-Pelle_LRR-VII-3 RLK-Pelle_LRR-VIII-1 RLK-Pelle_LRR-XI-1 RLK-Pelle_LRR-XI-2 RLK-Pelle_LRR-XII-1 RLK-Pelle_LRR-XIIIa
RLK-Pelle_LRR-XIIIb RLK-Pelle_LRR-XIV RLK-Pelle_LRR-XV RLK-Pelle_LRR-Xa RLK-Pelle_LRR-Xb-1 RLK-Pelle_LRR-Xb-2 RLK-Pelle_LysM RLK-Pelle_PERK-1
RLK-Pelle_PERK-2 RLK-Pelle_RKF3 RLK-Pelle_RLCK-II RLK-Pelle_RLCK-IV RLK-Pelle_RLCK-IXa RLK-Pelle_RLCK-IXb RLK-Pelle_RLCK-Os RLK-Pelle_RLCK-V
RLK-Pelle_RLCK-VI RLK-Pelle_RLCK-VIII RLK-Pelle_RLCK-VIIa-1 RLK-Pelle_RLCK-VIIa-2 RLK-Pelle_RLCK-VIIb RLK-Pelle_RLCK-X RLK-Pelle_RLCK-XI RLK-Pelle_RLCK-XII-1
RLK-Pelle_RLCK-XII-2 RLK-Pelle_RLCK-XIII RLK-Pelle_RLCK-XV RLK-Pelle_RLCK-XVI RLK-Pelle_SD-2b RLK-Pelle_Singleton RLK-Pelle_URK-1 RLK-Pelle_URK-2
RLK-Pelle_URK-3 RLK-Pelle_URK-Pp-1 RLK-Pelle_WAK RLK-Pelle_WAK_LRK10L-1 SCY1_SCYL1 SCY1_SCYL2 STE_STE-Pl STE_STE11
STE_STE20-Fray STE_STE20-Pl STE_STE20-YSK STE_STE7 TKL-Cr-3 TKL-Cr-4 TKL-Cr-Single TKL-Pl-1
TKL-Pl-2 TKL-Pl-3 TKL-Pl-4 TKL-Pl-5 TKL-Pl-6 TKL-Pl-7 TKL-Pl-8 TKL_CTR1-DRK-1
TKL_CTR1-DRK-2 TKL_Gdt TLK TTK ULK_Fused ULK_ULK4 WEE WNK_NRBP

Results

Select RPs_name Species RPs_type Gene ID Hmm_acc Hmm_name E-value Clan
TKL-Pl-8 Acco PK Acco05g2112 PF00069 Pkinase 1.5e-27 CL0016
TKL-Pl-8 Acco PK Acco05g2113 PF07714 PK_Tyr_Ser-Thr 7.2e-16 CL0016
TKL-Pl-8 Acco PK Acco1000397g0006 PF00069 Pkinase 1.5e-27 CL0016
TKL-Pl-8 Acco PK Acco1000397g0007 PF07714 PK_Tyr_Ser-Thr 7.2e-16 CL0016
TKL-Pl-8 Accr PK Accr3g00885 PF00069 Pkinase 5.9e-46 CL0016
TKL-Pl-8 Adu PK Adu06g02980 PF00069 Pkinase 3.4e-50 CL0016
TKL-Pl-8 Adu PK Adu10g01964 PF00069 Pkinase 1.2e-47 CL0016
TKL-Pl-8 Aed PK Aed4g1677 PF07714 PK_Tyr_Ser-Thr 2e-14 CL0016
TKL-Pl-8 Aed PK Aed6g1281 PF07714 PK_Tyr_Ser-Thr 2.5e-10 CL0016
TKL-Pl-8 Aev PK Aev07g1059 PF00069 Pkinase 6.8e-46 CL0016
TKL-Pl-8 Aev PK Aev08g0493 PF00069 Pkinase 1.2e-39 CL0016
TKL-Pl-8 Ahy PK Ahy10g1731 PF00069 Pkinase 8.00E-47 CL0016
TKL-Pl-8 Ahy PK Ahy20g2179 PF00069 Pkinase 2.70E-47 CL0016
TKL-Pl-8 Ahy PK Ahy6g2585 PF00069 Pkinase 6.80E-50 CL0016
TKL-Pl-8 Aip PK Aip06g03527 PF00069 Pkinase 2e-50 CL0016
TKL-Pl-8 Aip PK Aip10g02568 PF00069 Pkinase 2.7e-47 CL0016
TKL-Pl-8 Alju PK Alju07g2075 PF00069 Pkinase 1.4e-46 CL0016
TKL-Pl-8 Amo PK Amo16g3999 PF07714 PK_Tyr_Ser-Thr 4.2e-15 CL0016
TKL-Pl-8 Amo PK Amo20g2825 PF00069 Pkinase 2.7e-47 CL0016
TKL-Pl-8 Apr PK Apr5g1372 PF00069 Pkinase 2.6e-44 CL0016
TKL-Pl-8 Apr PK Apr9g0270 PF00069 Pkinase 7.4e-45 CL0016
TKL-Pl-8 Arst PK Arst10g02501 PF00069 Pkinase 1.2e-47 CL0016
TKL-Pl-8 Arst PK Arst6g03865 PF00069 Pkinase 8.1e-50 CL0016
TKL-Pl-8 Bach PK Bach3g02078 PF00069 Pkinase 7e-47 CL0016
TKL-Pl-8 Bisa PK Bisa05g0032 PF00069 Pkinase 1.9e-45 CL0016
TKL-Pl-8 Bva PK Bva10g00518 PF00069 Pkinase 3e-47 CL0016
TKL-Pl-8 Car PK Car05g02863 PF00069 Pkinase 4.3e-47 CL0016
TKL-Pl-8 Cca PK Cca03g01696 PF00069 Pkinase 2.1e-45 CL0016
TKL-Pl-8 Cca PK Cca05g00793 PF00069 Pkinase 1.7e-45 CL0016
TKL-Pl-8 Dere PK Dere05g1825 PF00069 Pkinase 1.3e-48 CL0016
TKL-Pl-8 Dod PK Dod08g1838 PF00069 Pkinase 6.7e-47 CL0016
TKL-Pl-8 Enph PK Enph7g0854 PF07714 PK_Tyr_Ser-Thr 2.5e-11 CL0016
TKL-Pl-8 Eupl PK Eupl09g00545 PF07714 PK_Tyr_Ser-Thr 1.7e-43 CL0016
TKL-Pl-8 Gabi PK Gabi3450g00079 PF00069 Pkinase 1.1e-45 CL0016
TKL-Pl-8 Glsi PK Glsi10g0559 PF00069 Pkinase 2.7e-44 CL0016
TKL-Pl-8 Gma PK Gma06g00498 PF00069 Pkinase 9.7e-45 CL0016
TKL-Pl-8 Gma PK Gma07g01176 PF02358 Trehalose_PPase 1.5e-27 CL0137
TKL-Pl-8 Gma PK Gma14g00898 PF00069 Pkinase 2.7e-44 CL0016
TKL-Pl-8 Gma PK Gma17g02151 PF00069 Pkinase 6.3e-46 CL0016
TKL-Pl-8 Gso PK Gso14g0870 PF00069 Pkinase 2.8e-44 CL0016
TKL-Pl-8 Gso PK Gso17g1911 PF00069 Pkinase 6.3e-46 CL0016
TKL-Pl-8 Gso PK Gso6g0451 PF00069 Pkinase 9.8e-45 CL0016
TKL-Pl-8 Lapu PK Lapu8g00727 PF00069 Pkinase 2.1e-46 CL0016
TKL-Pl-8 Lapu PK Lapu9g02002 PF00069 Pkinase 8.1e-47 CL0016
TKL-Pl-8 Lasa PK Lasa5g03900 PF00069 Pkinase 2.1e-44 CL0016
TKL-Pl-8 Lele PK Lele26g0746 PF00069 Pkinase 1.6e-46 CL0016
TKL-Pl-8 Lele PK Lele27g1339 PF07714 PK_Tyr_Ser-Thr 1.3e-14 CL0016
TKL-Pl-8 Lele PK Lele28g0729 PF07714 PK_Tyr_Ser-Thr 2.3e-15 CL0016
TKL-Pl-8 Lele PK Lele28g0730 PF00069 Pkinase 2.9e-26 CL0016
TKL-Pl-8 Lja PK Lja5g2964 PF00069 Pkinase 1.2e-47 CL0016
TKL-Pl-8 Mal PK Mal2g1029 PF00069 Pkinase 2.6e-44 CL0016
TKL-Pl-8 Mepo PK Mepo3g07305 PF00069 Pkinase 7e-44 CL0016
TKL-Pl-8 Mesa PK Mesa10g04784 PF00069 Pkinase 8.8e-44 CL0016
TKL-Pl-8 Mesa PK Mesa11g05014 PF00069 Pkinase 4.9e-44 CL0016
TKL-Pl-8 Mesa PK Mesa12g04962 PF00069 Pkinase 9.1e-44 CL0016
TKL-Pl-8 Mesa PK Mesa26g04292 PF07714 PK_Tyr_Ser-Thr 6.4e-08 CL0016
TKL-Pl-8 Mesa PK Mesa9g04853 PF00069 Pkinase 4.6e-44 CL0016
TKL-Pl-8 Mibi PK Mibi08g1828 PF00069 Pkinase 6.8e-27 CL0016
TKL-Pl-8 Mibi PK Mibi08g1829 PF07714 PK_Tyr_Ser-Thr 3e-15 CL0016
TKL-Pl-8 Mtr PK Mtr3g3798 PF00069 Pkinase 1.2e-43 CL0016
TKL-Pl-8 Mupr PK Mupr2791g00005 PF00069 Pkinase 6.3e-09 CL0016
TKL-Pl-8 Mupr PK Mupr6997g00001 PF00069 Pkinase 2.8e-32 CL0016
TKL-Pl-8 Mupr PK Mupr7166g00002 PF00069 Pkinase 1.5e-43 CL0016
TKL-Pl-8 Phac PK Phac1g00509 PF00069 Pkinase 2.4e-44 CL0016
TKL-Pl-8 Phac PK Phac9g00180 PF00069 Pkinase 4.1e-24 CL0016
TKL-Pl-8 Phco PK Phco2g00458 PF00069 Pkinase 1e-43 CL0016
TKL-Pl-8 Phco PK Phco7g00622 PF00069 Pkinase 7.6e-47 CL0016
TKL-Pl-8 Pral PK Pral3976g00040 PF00069 Pkinase 8.7e-47 CL0016
TKL-Pl-8 Prci PK Prci2g1172 PF00069 Pkinase 2.2e-47 CL0016
TKL-Pl-8 Pste PK Pste2g01383 PF00069 Pkinase 5.7e-44 CL0016
TKL-Pl-8 Pste PK Pste8g00447 PF00069 Pkinase 5.2e-36 CL0016
TKL-Pl-8 Pte PK Pte2g01072 PF07714 PK_Tyr_Ser-Thr 5e-49 CL0016
TKL-Pl-8 Pte PK Pte3g01247 PF00069 Pkinase 1.8e-10 CL0016
TKL-Pl-8 Pumo PK Pumo10g00223 PF00069 Pkinase 5.1e-42 CL0016
TKL-Pl-8 Pumo PK Pumo9g00468 PF07714 PK_Tyr_Ser-Thr 1.9e-16 CL0016
TKL-Pl-8 Pumo PK Pumo9g00469 PF07714 PK_Tyr_Ser-Thr 1.1e-09 CL0016
TKL-Pl-8 Pvu PK Pvu1g0399 PF00069 Pkinase 6.6e-45 CL0016
TKL-Pl-8 Pvu PK Pvu9g0834 PF00069 Pkinase 2.8e-46 CL0016
TKL-Pl-8 Rops PK Rops10g01270 PF00069 Pkinase 3.8e-40 CL0016
TKL-Pl-8 Rops PK Rops9g02023 PF00069 Pkinase 2.6e-44 CL0016
TKL-Pl-8 Sebi PK Sebi4g00119 PF07714 PK_Tyr_Ser-Thr 2.1e-15 CL0016
TKL-Pl-8 Sebi PK Sebi697g00036 PF00069 Pkinase 2.5e-40 CL0016
TKL-Pl-8 Seca PK Seca3g01176 PF00069 Pkinase 1.1e-42 CL0016
TKL-Pl-8 Seca PK Seca4g01186 PF00069 Pkinase 1.9e-44 CL0016
TKL-Pl-8 Seca PK Seca7g03383 PF00069 Pkinase 2.7e-46 CL0016
TKL-Pl-8 Seca PK Seca8g03357 PF00069 Pkinase 8.5e-47 CL0016
TKL-Pl-8 Spst PK Spst8g02387 PF00069 Pkinase 3.8e-44 CL0016
TKL-Pl-8 Spst PK Spst9g00642 PF00069 Pkinase 7.2e-43 CL0016
TKL-Pl-8 Ssu PK Ssu1g3596 PF07714 PK_Tyr_Ser-Thr 6.6e-45 CL0016
TKL-Pl-8 Ssu PK Ssu5g0444 PF00069 Pkinase 8.6e-45 CL0016
TKL-Pl-8 Stsc PK Stsc1705g00003 PF00069 Pkinase 6.9e-47 CL0016
TKL-Pl-8 Stsc PK Stsc242372g00003 PF07714 PK_Tyr_Ser-Thr 2.1e-49 CL0016
TKL-Pl-8 Stsc PK Stsc272324g00001 PF00069 Pkinase 2.7e-44 CL0016
TKL-Pl-8 Stsc PK Stsc90668g00007 PF00069 Pkinase 5.1e-47 CL0016
TKL-Pl-8 Tpr PK Tpr7g0773 PF00069 Pkinase 5.6e-47 CL0016
TKL-Pl-8 Trme PK Trme21826g00001 PF00069 Pkinase 3e-09 CL0016
TKL-Pl-8 Trre PK Trre5g05039 PF00069 Pkinase 7.5e-47 CL0016
TKL-Pl-8 Trre PK Trre6g05236 PF00069 Pkinase 1.2e-46 CL0016
TKL-Pl-8 Tsu PK Tsu07g00781 PF07714 PK_Tyr_Ser-Thr 1.3e-14 CL0016
TKL-Pl-8 Tsu PK Tsu07g00782 PF00069 Pkinase 6.5e-26 CL0016
TKL-Pl-8 Vian PK Vian7g00554 PF00069 Pkinase 8.3e-45 CL0016
TKL-Pl-8 Vifa PK Vifa2g03810 PF00069 Pkinase 3.3e-44 CL0016
TKL-Pl-8 Vimu PK Vimu10g03105 PF00069 Pkinase 5.8e-47 CL0016
TKL-Pl-8 Vimu PK Vimu1g02781 PF00069 Pkinase 7.4e-46 CL0016
TKL-Pl-8 Vium PK Vium1389g00003 PF00069 Pkinase 1.9e-47 CL0016
TKL-Pl-8 Vium PK Vium3462g00002 PF00069 Pkinase 1.8e-45 CL0016
TKL-Pl-8 Vium PK Vium3462g00003 PF00069 Pkinase 2e-45 CL0016
TKL-Pl-8 Viun PK Viun8g00581 PF00069 Pkinase 1.1e-46 CL0016
TKL-Pl-8 Viun PK Viun9g03255 PF00069 Pkinase 2.5e-47 CL0016
TKL-Pl-8 Viun PK Viun9g03256 PF00069 Pkinase 2.4e-47 CL0016
TKL-Pl-8 Vivi PK Vivi3g01579 PF00069 Pkinase 2.3e-44 CL0016
TKL-Pl-8 Vivi PK Vivi3g01649 PF00069 Pkinase 1.4e-44 CL0016
TKL-Pl-8 Vra PK Vra5g1360 PF00069 Pkinase 3.6e-47 CL0016
TKL-Pl-8 Vra PK Vra6g1700 PF00069 Pkinase 3.9e-45 CL0016
TKL-Pl-8 Vvi PK Vvi4g0160 PF07714 PK_Tyr_Ser-Thr 3.3e-41 CL0016