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
BUB Acco PK Acco01g3461 PF00069 Pkinase 9.6e-12 CL0016
BUB Accr PK Accr1g03145 PF00069 Pkinase 5e-12 CL0016
BUB Adu PK Adu03g03847 PF00069 Pkinase 2e-09 CL0016
BUB Adu PK Adu04g00194 PF00069 Pkinase 2.1e-13 CL0016
BUB Aed PK Aed5g0875 PF00069 Pkinase 1.3e-10 CL0016
BUB Aev PK Aev03g1992 PF00069 Pkinase 8.7e-13 CL0016
BUB Ahy PK Ahy13g3777 PF00069 Pkinase 9.00E-14 CL0016
BUB Ahy PK Ahy14g0263 PF00069 Pkinase 7.40E-14 CL0016
BUB Ahy PK Ahy4g0191 PF00069 Pkinase 8.00E-13 CL0016
BUB Aip PK Aip04g00290 PF00069 Pkinase 2e-09 CL0016
BUB Alju PK Alju02g0541 PF00069 Pkinase 6.1e-12 CL0016
BUB Apr PK Apr3g1036 PF00069 Pkinase 2.2e-12 CL0016
BUB Arst PK Arst26234509g00001 PF00069 Pkinase 8.6e-09 CL0016
BUB Arst PK Arst3g05060 PF00069 Pkinase 2e-09 CL0016
BUB Arst PK Arst4g00320 PF00069 Pkinase 2.1e-13 CL0016
BUB Bisa PK Bisa12g0811 PF00069 Pkinase 2.9e-11 CL0016
BUB Bva PK Bva07g01997 PF00069 Pkinase 1.7e-13 CL0016
BUB Car PK Car06g02011 PF00069 Pkinase 6.2e-12 CL0016
BUB Cca PK Cca04g01148 PF00069 Pkinase 6.7e-12 CL0016
BUB Dere PK Dere08g0686 PF00069 Pkinase 1.1e-12 CL0016
BUB Dod PK Dod04g0747 PF00069 Pkinase 6.8e-12 CL0016
BUB Enph PK Enph3g1127 PF00069 Pkinase 2.3e-10 CL0016
BUB Eupl PK Eupl06g00986 PF00069 Pkinase 6.6e-13 CL0016
BUB Gabi PK Gabi1427g00006 PF00069 Pkinase 4.8e-13 CL0016
BUB Glsi PK Glsi14g1276 PF00069 Pkinase 2.6e-12 CL0016
BUB Gma PK Gma06g02608 PF00069 Pkinase 1.5e-12 CL0016
BUB Gma PK Gma12g01044 PF00069 Pkinase 6e-11 CL0016
BUB Gso PK Gso12g0959 PF00069 Pkinase 1.4e-12 CL0016
BUB Gso PK Gso6g2385 PF00069 Pkinase 1.5e-12 CL0016
BUB Lal PK Lal9g0435 PF00069 Pkinase 1.4e-11 CL0016
BUB Lan PK Lan8g1477 PF00069 Pkinase 3.7e-12 CL0016
BUB Lapu PK Lapu11g01326 PF00069 Pkinase 2.3e-12 CL0016
BUB Lasa PK Lasa7g02575 PF00069 Pkinase 8.7e-13 CL0016
BUB Lele PK Lele09g0841 PF00069 Pkinase 3.4e-12 CL0016
BUB Lele PK Lele10g0768 PF00069 Pkinase 1.4e-11 CL0016
BUB Lele PK Lele11g0847 PF00069 Pkinase 4.4e-11 CL0016
BUB Lele PK Lele12g0496 PF00069 Pkinase 3.6e-11 CL0016
BUB Lja PK Lja3g1223 PF00069 Pkinase 5e-12 CL0016
BUB Mal PK Mal7g2990 PF00069 Pkinase 3.6e-11 CL0016
BUB Mepo PK Mepo2g02735 PF00069 Pkinase 2.7e-10 CL0016
BUB Mesa PK Mesa13g02340 PF00069 Pkinase 8.2e-11 CL0016
BUB Mesa PK Mesa15g02501 PF00069 Pkinase 1.9e-10 CL0016
BUB Mesa PK Mesa16g02608 PF00069 Pkinase 6.9e-11 CL0016
BUB Mibi PK Mibi01g0469 PF00069 Pkinase 1.3e-12 CL0016
BUB Mtr PK Mtr4g2472 PF00069 Pkinase 1.8e-10 CL0016
BUB Mupr PK Mupr7635g00002 PF00069 Pkinase 1.4e-08 CL0016
BUB Phac PK Phac11g01717 PF00069 Pkinase 4.2e-10 CL0016
BUB Phco PK Phco9g01450 PF00069 Pkinase 5.2e-12 CL0016
BUB Pral PK Pral4651g00024 PF00069 Pkinase 1.3e-11 CL0016
BUB Pral PK Pral5362g00013 PF00069 Pkinase 1.3e-11 CL0016
BUB Prci PK Prci7g2114 PF00069 Pkinase 2.9e-12 CL0016
BUB Prci PK Prci7g2115 PF00069 Pkinase 2.6e-12 CL0016
BUB Psa PK Psa7g3867 PF00069 Pkinase 9.6e-13 CL0016
BUB Pste PK Pste1g03462 PF00069 Pkinase 4.7e-12 CL0016
BUB Pte PK Pte15g01871 PF00069 Pkinase 6e-15 CL0016
BUB Pumo PK Pumo149g00004 PF00069 Pkinase 1e-12 CL0016
BUB Pvu PK Pvu11g1303 PF00069 Pkinase 5.1e-12 CL0016
BUB Rops PK Rops3g01438 PF00069 Pkinase 1.1e-11 CL0016
BUB Sebi PK Sebi491g00040 PF00069 Pkinase 2.1e-09 CL0016
BUB Sebi PK Sebi536g00024 PF00069 Pkinase 2.3e-11 CL0016
BUB Spst PK Spst11g00960 PF00069 Pkinase 1.6e-08 CL0016
BUB Ssu PK Ssu3g2113 PF00069 Pkinase 3.5e-12 CL0016
BUB Sto PK Sto7g0510 PF00069 Pkinase 1.2e-11 CL0016
BUB Stsc PK Stsc242565g00001 PF00069 Pkinase 7.2e-12 CL0016
BUB Stsc PK Stsc30488g00004 PF00069 Pkinase 9.7e-12 CL0016
BUB Tpr PK Tpr3g2723 PF00069 Pkinase 2.3e-12 CL0016
BUB Trre PK Trre7g02276 PF00069 Pkinase 2.9e-12 CL0016
BUB Trre PK Trre8g02371 PF00069 Pkinase 2.6e-11 CL0016
BUB Trre PK Trre8g02372 PF00069 Pkinase 6.9e-13 CL0016
BUB Trre PK Trre8g02373 PF00069 Pkinase 2.6e-11 CL0016
BUB Tsu PK Tsu02g01621 PF00069 Pkinase 1.3e-11 CL0016
BUB Tsu PK Tsu02g02896 PF00069 Pkinase 2.2e-11 CL0016
BUB Vian PK Vian5g00766 PF00069 Pkinase 1.7e-12 CL0016
BUB Vifa PK Vifa6g01485 PF00069 Pkinase 1.8e-12 CL0016
BUB Vimu PK Vimu5g01397 PF00069 Pkinase 3.1e-10 CL0016
BUB Vium PK Vium7651g00002 PF00069 Pkinase 2.2e-12 CL0016
BUB Vium PK Vium7651g00003 PF00069 Pkinase 2.2e-12 CL0016
BUB Viun PK Viun11g01370 PF00069 Pkinase 6.7e-12 CL0016
BUB Vivi PK Vivi5g03310 PF00069 Pkinase 8.4e-12 CL0016
BUB Vivi PK Vivi5g03312 PF00069 Pkinase 5.5e-12 CL0016
BUB Vvi PK Vvi12g0320 PF00069 Pkinase 4.8e-13 CL0016