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
TTK Acco PK Acco05g2679 PF00069 Pkinase 5.2e-56 CL0016
TTK Accr PK Accr3g00343 PF00069 Pkinase 1.4e-55 CL0016
TTK Accr PK Accr3g00344 PF00069 Pkinase 1.3e-55 CL0016
TTK Adu PK Adu08g00632 PF00069 Pkinase 3.9e-56 CL0016
TTK Aed PK Aed10g0268 PF00069 Pkinase 4.8e-55 CL0016
TTK Aed PK Aed3g1597 PF10250 O-FucT 6.1e-47 CL0113
TTK Aev PK Aev08g0979 PF00069 Pkinase 2.6e-55 CL0016
TTK Ahy PK Ahy17g2874 PF00069 Pkinase 2.60E-56 CL0016
TTK Ahy PK Ahy8g0588 PF00069 Pkinase 4.10E-56 CL0016
TTK Aip PK Aip07g03132 PF00069 Pkinase 2.4e-56 CL0016
TTK Alju PK Alju07g2646 PF00069 Pkinase 6.3e-56 CL0016
TTK Amo PK Amo17g2778 PF00069 Pkinase 2.6e-56 CL0016
TTK Amo PK Amo17g2781 PF00069 Pkinase 1.5e-54 CL0016
TTK Apr PK Apr1g0149 PF00069 Pkinase 1.1e-55 CL0016
TTK Arst PK Arst8g00821 PF00069 Pkinase 4.2e-56 CL0016
TTK Arst PK Arst8g00822 PF00069 Pkinase 3.9e-56 CL0016
TTK Bisa PK Bisa05g0988 PF00069 Pkinase 1.3e-55 CL0016
TTK Bva PK Bva06g02794 PF00069 Pkinase 1.8e-42 CL0016
TTK Bva PK Bva12g02137 PF00069 Pkinase 2.8e-55 CL0016
TTK Car PK Car05g01555 PF00069 Pkinase 2.1e-55 CL0016
TTK Cca PK Cca03g01167 PF00069 Pkinase 1e-55 CL0016
TTK Cca PK Cca05g01002 PF00069 Pkinase 4.5e-56 CL0016
TTK Dere PK Dere05g2467 PF00069 Pkinase 1.5e-55 CL0016
TTK Dod PK Dod09g1365 PF00069 Pkinase 2.1e-55 CL0016
TTK Enph PK Enph7g1266 PF00069 Pkinase 5.1e-55 CL0016
TTK Eupl PK Eupl13g01260 PF00069 Pkinase 1.9e-56 CL0016
TTK Gabi PK Gabi179g00011 PF00069 Pkinase 2.1e-56 CL0016
TTK Gabi PK Gabi877g00002 PF00069 Pkinase 1.7e-54 CL0016
TTK Glsi PK Glsi10g1138 PF00069 Pkinase 2.7e-56 CL0016
TTK Gma PK Gma04g02414 PF00069 Pkinase 1.1e-55 CL0016
TTK Gma PK Gma06g00982 PF00069 Pkinase 1.7e-54 CL0016
TTK Gma PK Gma13g00641 PF00069 Pkinase 2.9e-55 CL0016
TTK Gma PK Gma14g01648 PF00069 Pkinase 3.8e-55 CL0016
TTK Gso PK Gso13g0579 PF00069 Pkinase 3.3e-55 CL0016
TTK Gso PK Gso14g1385 PF00069 Pkinase 2.9e-55 CL0016
TTK Gso PK Gso4g2112 PF00069 Pkinase 7.8e-55 CL0016
TTK Gso PK Gso6g0928 PF00069 Pkinase 1.6e-54 CL0016
TTK Lal PK Lal17g0454 PF00069 Pkinase 3.3e-55 CL0016
TTK Lal PK Lal21g0507 PF00069 Pkinase 1.9e-53 CL0016
TTK Lan PK Lan15g0813 PF00069 Pkinase 2.3e-09 CL0016
TTK Lan PK Lan15g0814 PF00069 Pkinase 7.3e-55 CL0016
TTK Lapu PK Lapu9g01529 PF00069 Pkinase 6.2e-55 CL0016
TTK Lasa PK Lasa5g01700 PF00069 Pkinase 4.1e-56 CL0016
TTK Lele PK Lele25g0300 PF00069 Pkinase 5.4e-56 CL0016
TTK Lele PK Lele26g0310 PF00069 Pkinase 1.2e-55 CL0016
TTK Lele PK Lele27g1786 PF00069 Pkinase 5.7e-56 CL0016
TTK Lele PK Lele28g0314 PF00069 Pkinase 5.4e-56 CL0016
TTK Lja PK Lja1g5155 PF00069 Pkinase 3.4e-55 CL0016
TTK Mal PK Mal2g2593 PF00069 Pkinase 2.1e-56 CL0016
TTK Mal PK Mal8g2683 PF00069 Pkinase 1.4e-54 CL0016
TTK Mepo PK Mepo3g05646 PF00069 Pkinase 4.6e-56 CL0016
TTK Mepo PK Mepo7g01436 PF00069 Pkinase 1.5e-54 CL0016
TTK Mesa PK Mesa10g03051 PF00069 Pkinase 4.1e-56 CL0016
TTK Mesa PK Mesa12g03327 PF00069 Pkinase 4.3e-11 CL0016
TTK Mesa PK Mesa12g03328 PF00069 Pkinase 4.3e-11 CL0016
TTK Mesa PK Mesa17g02634 PF00069 Pkinase 1.4e-54 CL0016
TTK Mesa PK Mesa18g02800 PF00069 Pkinase 1.4e-54 CL0016
TTK Mesa PK Mesa19g02567 PF00069 Pkinase 1.4e-54 CL0016
TTK Mesa PK Mesa20g02699 PF00069 Pkinase 1.4e-54 CL0016
TTK Mesa PK Mesa9g03022 PF00069 Pkinase 4.1e-56 CL0016
TTK Mibi PK Mibi08g2349 PF00069 Pkinase 1.3e-55 CL0016
TTK Mtr PK Mtr3g2271 PF00069 Pkinase 5.3e-56 CL0016
TTK Mtr PK Mtr5g2071 PF00069 Pkinase 1.4e-54 CL0016
TTK Mupr PK Mupr3044g00001 PF00069 Pkinase 1e-54 CL0016
TTK Mupr PK Mupr843g00003 PF00069 Pkinase 5.7e-55 CL0016
TTK Phac PK Phac8g02115 PF00069 Pkinase 5.2e-11 CL0016
TTK Phac PK Phac8g02116 PF00069 Pkinase 5.6e-32 CL0016
TTK Phac PK Phac8g02117 PF00069 Pkinase 2e-32 CL0016
TTK Phac PK Phac8g02118 PF00069 Pkinase 2e-32 CL0016
TTK Phac PK Phac9g00816 PF00069 Pkinase 3.7e-55 CL0016
TTK Phac PK Phac9g00817 PF00069 Pkinase 4e-55 CL0016
TTK Phco PK Phco3g01381 PF00069 Pkinase 1.7e-14 CL0016
TTK Phco PK Phco3g01382 PF00069 Pkinase 4.1e-20 CL0016
TTK Phco PK Phco7g01210 PF00069 Pkinase 1.4e-54 CL0016
TTK Pral PK Pral4428g00009 PF00069 Pkinase 6.1e-56 CL0016
TTK Pral PK Pral4428g00010 PF00069 Pkinase 6.5e-56 CL0016
TTK Pral PK Pral4428g00011 PF00069 Pkinase 4e-56 CL0016
TTK Prci PK Prci2g0467 PF00069 Pkinase 2e-55 CL0016
TTK Prci PK Prci2g0468 PF00069 Pkinase 1.9e-55 CL0016
TTK Prci PK Prci2g0469 PF00069 Pkinase 1.3e-55 CL0016
TTK Psa PK Psa2g1649 PF00069 Pkinase 2.5e-08 CL0016
TTK Psa PK Psa2g1825 PF00069 Pkinase 1.9e-53 CL0016
TTK Psa PK Psa4g3922 None None None None
TTK Psa PK Psa5g3112 PF00069 Pkinase 4.3e-56 CL0016
TTK Pste PK Pste2g02970 PF00069 Pkinase 4.3e-49 CL0016
TTK Pste PK Pste8g01909 PF00069 Pkinase 8.4e-56 CL0016
TTK Pte PK Pte16g01175 PF00069 Pkinase 1.2e-54 CL0016
TTK Pumo PK Pumo10g01211 PF00069 Pkinase 2.1e-55 CL0016
TTK Pumo PK Pumo9g01238 PF00069 Pkinase 3.7e-55 CL0016
TTK Pumo PK Pumo9g01274 PF00069 Pkinase 3.7e-55 CL0016
TTK Pvu PK Pvu8g1728 PF00069 Pkinase 1.1e-08 CL0016
TTK Pvu PK Pvu9g1249 PF00069 Pkinase 3e-55 CL0016
TTK Rops PK Rops10g01861 PF00069 Pkinase 3.1e-55 CL0016
TTK Rops PK Rops2g01145 PF00069 Pkinase 3.1e-44 CL0016
TTK Rops PK Rops9g01564 PF00069 Pkinase 1.4e-54 CL0016
TTK Sebi PK Sebi15g00031 PF00069 Pkinase 3.4e-55 CL0016
TTK Seca PK Seca3g02138 PF00069 Pkinase 2.2e-56 CL0016
TTK Seca PK Seca4g02246 PF00069 Pkinase 2.2e-56 CL0016
TTK Seca PK Seca7g02094 PF00069 Pkinase 6.9e-55 CL0016
TTK Seca PK Seca8g02120 PF00069 Pkinase 3.4e-55 CL0016
TTK Spst PK Spst8g01307 PF00069 Pkinase 2.8e-18 CL0016
TTK Spst PK Spst9g01253 PF00069 Pkinase 1.3e-53 CL0016
TTK Ssu PK Ssu1g3038 PF00069 Pkinase 8e-56 CL0016
TTK Ssu PK Ssu6g2372 PF00069 Pkinase 7.8e-55 CL0016
TTK Sto PK Sto5g0428 PF00069 Pkinase 2e-55 CL0016
TTK Stsc PK Stsc211454g00004 PF00069 Pkinase 8.9e-51 CL0016
TTK Tpr PK Tpr2g2295 PF00069 Pkinase 3.1e-54 CL0016
TTK Tpr PK Tpr7g1084 PF00069 Pkinase 7e-56 CL0016
TTK Trme PK Trme11199g00001 PF00069 Pkinase 6.9e-18 CL0016
TTK Trme PK Trme26601g00001 PF00069 Pkinase 1.6e-12 CL0016
TTK Trre PK Trre10g03120 PF00069 Pkinase 3.2e-54 CL0016
TTK Trre PK Trre5g02226 PF00069 Pkinase 3.5e-56 CL0016
TTK Trre PK Trre5g02227 PF00069 Pkinase 3.5e-56 CL0016
TTK Trre PK Trre6g02247 PF00069 Pkinase 3.5e-56 CL0016
TTK Trre PK Trre6g02248 PF00069 Pkinase 3.5e-56 CL0016
TTK Trre PK Trre6g02249 PF00069 Pkinase 3.3e-56 CL0016
TTK Trre PK Trre9g03173 PF00069 Pkinase 3.1e-54 CL0016
TTK Trre PK Trre9g03174 PF00069 Pkinase 3.2e-54 CL0016
TTK Tsu PK Tsu03g02013 PF00069 Pkinase 2.8e-56 CL0016
TTK Tsu PK Tsu05g02161 PF00069 Pkinase 4.5e-54 CL0016
TTK Vian PK Vian4g01578 PF00069 Pkinase 4.6e-54 CL0016
TTK Vian PK Vian7g00219 PF00069 Pkinase 7.4e-56 CL0016
TTK Vifa PK Vifa1g00258 PF00069 Pkinase 7.8e-53 CL0016
TTK Vifa PK Vifa2g01791 PF00069 Pkinase 2.8e-56 CL0016
TTK Vifa PK Vifa2g01792 PF00069 Pkinase 2.8e-56 CL0016
TTK Vimu PK Vimu10g02205 PF00069 Pkinase 2.3e-54 CL0016
TTK Vimu PK Vimu1g02252 PF00069 Pkinase 2.8e-29 CL0016
TTK Vimu PK Vimu1g02253 PF00069 Pkinase 8.7e-18 CL0016
TTK Vium PK Vium2043g00001 PF00069 Pkinase 4.5e-28 CL0016
TTK Vium PK Vium2043g00002 PF00069 Pkinase 3.1e-32 CL0016
TTK Vium PK Vium4034g00002 PF00069 Pkinase 3.5e-54 CL0016
TTK Vium PK Vium4034g00003 PF00069 Pkinase 3.7e-54 CL0016
TTK Vium PK Vium4109g00001 PF00069 Pkinase 2.5e-18 CL0016
TTK Viun PK Viun8g01386 PF00069 Pkinase 6.9e-56 CL0016
TTK Viun PK Viun8g01387 PF00069 Pkinase 1.1e-51 CL0016
TTK Viun PK Viun9g02469 PF00069 Pkinase 1.9e-54 CL0016
TTK Viun PK Viun9g02470 PF00069 Pkinase 1.8e-54 CL0016
TTK Vivi PK Vivi1432g00005 PF00069 Pkinase 4.3e-56 CL0016
TTK Vivi PK Vivi1432g00006 PF00069 Pkinase 4.6e-56 CL0016
TTK Vivi PK Vivi239g00026 PF00069 Pkinase 6e-56 CL0016
TTK Vivi PK Vivi239g00027 PF00069 Pkinase 6.4e-56 CL0016
TTK Vivi PK Vivi239g00028 PF00069 Pkinase 6.4e-56 CL0016
TTK Vivi PK Vivi7g01053 PF00069 Pkinase 3.8e-54 CL0016
TTK Vivi PK Vivi7g01054 PF00069 Pkinase 3.5e-54 CL0016
TTK Vra PK Vra5g0828 PF00069 Pkinase 3.3e-54 CL0016
TTK Vra PK Vra6g1348 PF00069 Pkinase 6.4e-56 CL0016
TTK Vvi PK Vvi18g0349 PF00069 Pkinase 1.4e-55 CL0016