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
AGC_PKA-PKG Acco PK Acco02g2137 PF00481 PP2C 1.3e-34 CL0238
AGC_PKA-PKG Accr PK Accr2g01644 PF00069 Pkinase 4.6e-29 CL0016
AGC_PKA-PKG Adu PK Adu05g02505 PF00481 PP2C 2.5e-34 CL0238
AGC_PKA-PKG Aed PK Aed7g0098 PF00069 Pkinase 1.5e-32 CL0016
AGC_PKA-PKG Aev PK Aev05g3333 PF00481 PP2C 1.1e-34 CL0238
AGC_PKA-PKG Ahy PK Ahy15g2925 PF00481 PP2C 2.30E-34 CL0238
AGC_PKA-PKG Ahy PK Ahy5g2345 PF00481 PP2C 2.50E-34 CL0238
AGC_PKA-PKG Aip PK Aip05g03270 PF00481 PP2C 2.3e-34 CL0238
AGC_PKA-PKG Alju PK Alju01g2151 PF00069 Pkinase 1.6e-28 CL0016
AGC_PKA-PKG Alju PK Alju1000304g0005 PF00069 Pkinase 3.6e-09 CL0016
AGC_PKA-PKG Amo PK Amo05g3843 PF00481 PP2C 2.5e-34 CL0238
AGC_PKA-PKG Apr PK Apr6g1154 PF00069 Pkinase 9.3e-33 CL0016
AGC_PKA-PKG Arst PK Arst5g03177 PF00481 PP2C 2.5e-34 CL0238
AGC_PKA-PKG Arst PK Arst5g03178 PF00481 PP2C 2.4e-34 CL0238
AGC_PKA-PKG Bach PK Bach8g01644 PF00069 Pkinase 6.6e-34 CL0016
AGC_PKA-PKG Bisa PK Bisa03g1037 PF00069 Pkinase 2.2e-30 CL0016
AGC_PKA-PKG Bva PK Bva04g00733 PF00069 Pkinase 2.1e-32 CL0016
AGC_PKA-PKG Car PK Car08g01781 PF00481 PP2C 6e-32 CL0238
AGC_PKA-PKG Dere PK Dere01g1551 PF00069 Pkinase 4.1e-31 CL0016
AGC_PKA-PKG Dod PK Dod02g3536 PF00481 PP2C 1.9e-31 CL0238
AGC_PKA-PKG Enph PK Enph2g1586 PF00069 Pkinase 4.4e-25 CL0016
AGC_PKA-PKG Eupl PK Eupl09g00140 PF00069 Pkinase 7.7e-34 CL0016
AGC_PKA-PKG Eupl PK Eupl09g00155 PF00481 PP2C 1.2e-33 CL0238
AGC_PKA-PKG Gabi PK Gabi1751g00008 PF00069 Pkinase 9.9e-32 CL0016
AGC_PKA-PKG Gabi PK Gabi1751g00009 PF00481 PP2C 4.1e-36 CL0238
AGC_PKA-PKG Gabi PK Gabi1751g00010 PF00069 Pkinase 9.8e-32 CL0016
AGC_PKA-PKG Glsi PK Glsi01g2284 PF00069 Pkinase 2e-32 CL0016
AGC_PKA-PKG Glsi PK Glsi12g1653 PF00069 Pkinase 1.9e-29 CL0016
AGC_PKA-PKG Gma PK Gma01g01507 PF00069 Pkinase 3.3e-31 CL0016
AGC_PKA-PKG Gma PK Gma09g01801 PF00481 PP2C 3.6e-35 CL0238
AGC_PKA-PKG Gso PK Gso1g1248 PF00069 Pkinase 2.9e-31 CL0016
AGC_PKA-PKG Gso PK Gso9g1600 PF00481 PP2C 3.6e-35 CL0238
AGC_PKA-PKG Lal PK Lal10g1025 PF00481 PP2C 1.3e-33 CL0238
AGC_PKA-PKG Lal PK Lal25g0419 PF00069 Pkinase 9e-32 CL0016
AGC_PKA-PKG Lan PK Lan3g0291 PF00069 Pkinase 4.5e-32 CL0016
AGC_PKA-PKG Lan PK Lan6g2224 PF00069 Pkinase 4.5e-33 CL0016
AGC_PKA-PKG Lapu PK Lapu4g00095 PF00069 Pkinase 1.5e-32 CL0016
AGC_PKA-PKG Lasa PK Lasa1g03844 PF00481 PP2C 7.8e-34 CL0238
AGC_PKA-PKG Lasa PK Lasa1g03845 PF00481 PP2C 7.4e-34 CL0238
AGC_PKA-PKG Lele PK Lele05g1695 PF00069 Pkinase 6e-29 CL0016
AGC_PKA-PKG Lele PK Lele06g1539 PF00069 Pkinase 2e-29 CL0016
AGC_PKA-PKG Lele PK Lele07g1762 PF00069 Pkinase 2.2e-28 CL0016
AGC_PKA-PKG Lele PK Lele08g1544 PF00069 Pkinase 4.9e-30 CL0016
AGC_PKA-PKG Lja PK Lja2g1982 PF00069 Pkinase 1.6e-32 CL0016
AGC_PKA-PKG Mal PK Mal1g2690 PF00481 PP2C 1.6e-34 CL0238
AGC_PKA-PKG Mepo PK Mepo7g00389 PF00481 PP2C 7.6e-34 CL0238
AGC_PKA-PKG Mesa PK Mesa21g02926 PF00069 Pkinase 2.2e-30 CL0016
AGC_PKA-PKG Mesa PK Mesa22g03300 PF00069 Pkinase 3.6e-30 CL0016
AGC_PKA-PKG Mesa PK Mesa23g03266 PF00069 Pkinase 2.2e-30 CL0016
AGC_PKA-PKG Mesa PK Mesa24g02196 PF00069 Pkinase 2.2e-30 CL0016
AGC_PKA-PKG Mibi PK Mibi02g1961 PF00069 Pkinase 1.2e-29 CL0016
AGC_PKA-PKG Mtr PK Mtr6g2313 PF00069 Pkinase 9.4e-31 CL0016
AGC_PKA-PKG Mupr PK Mupr7232g00001 PF00481 PP2C 6.6e-34 CL0238
AGC_PKA-PKG Phac PK Phac4g02257 PF00481 PP2C 4e-35 CL0238
AGC_PKA-PKG Phco PK Phco5g00108 PF00069 Pkinase 4.9e-32 CL0016
AGC_PKA-PKG Pral PK Pral3962g00035 PF00069 Pkinase 8.5e-31 CL0016
AGC_PKA-PKG Pral PK Pral3962g00036 PF00069 Pkinase 4.9e-31 CL0016
AGC_PKA-PKG Prci PK Prci1g2014 PF00069 Pkinase 2.9e-29 CL0016
AGC_PKA-PKG Prci PK Prci1g2015 PF00069 Pkinase 2.8e-29 CL0016
AGC_PKA-PKG Prci PK Prci1g2016 PF00069 Pkinase 3e-29 CL0016
AGC_PKA-PKG Prci PK Prci1g2017 PF00069 Pkinase 1.7e-29 CL0016
AGC_PKA-PKG Psa PK Psa1g1041 PF00481 PP2C 5.1e-34 CL0238
AGC_PKA-PKG Pste PK Pste9g01589 PF00069 Pkinase 1.9e-32 CL0016
AGC_PKA-PKG Pte PK Pte7g00069 PF00069 Pkinase 5e-33 CL0016
AGC_PKA-PKG Pumo PK Pumo6g03160 PF00069 Pkinase 3.6e-32 CL0016
AGC_PKA-PKG Pvu PK Pvu4g1790 PF00069 Pkinase 4.9e-32 CL0016
AGC_PKA-PKG Rops PK Rops5g00125 PF00069 Pkinase 3.6e-32 CL0016
AGC_PKA-PKG Sebi PK Sebi825g00013 PF00069 Pkinase 2.7e-32 CL0016
AGC_PKA-PKG Spst PK Spst4g02638 PF00069 Pkinase 2.7e-31 CL0016
AGC_PKA-PKG Sto PK Sto8g2064 PF00069 Pkinase 3e-30 CL0016
AGC_PKA-PKG Stsc PK Stsc181511g00003 PF00481 PP2C 1.6e-35 CL0238
AGC_PKA-PKG Stsc PK Stsc90846g00004 PF00481 PP2C 2.1e-35 CL0238
AGC_PKA-PKG Tpr PK Tpr5g0100 PF00481 PP2C 2.8e-34 CL0238
AGC_PKA-PKG Trre PK Trre3g04114 PF00481 PP2C 1.6e-34 CL0238
AGC_PKA-PKG Trre PK Trre4g04027 PF00069 Pkinase 5.5e-31 CL0016
AGC_PKA-PKG Tsu PK Tsu03g03422 PF00481 PP2C 1.6e-34 CL0238
AGC_PKA-PKG Vian PK Vian8g01588 PF00069 Pkinase 2.9e-32 CL0016
AGC_PKA-PKG Vifa PK Vifa1g06797 PF00481 PP2C 9.9e-33 CL0238
AGC_PKA-PKG Vimu PK Vimu8g01361 PF00069 Pkinase 7.7e-31 CL0016
AGC_PKA-PKG Vium PK Vium2136g00020 PF00069 Pkinase 1.5e-32 CL0016
AGC_PKA-PKG Viun PK Viun4g00138 PF00069 Pkinase 1.1e-31 CL0016
AGC_PKA-PKG Viun PK Viun4g00139 PF00069 Pkinase 7.8e-32 CL0016
AGC_PKA-PKG Vivi PK Vivi56g00013 PF00481 PP2C 1.4e-33 CL0238
AGC_PKA-PKG Vra PK Vra1g0490 PF00069 Pkinase 2.2e-32 CL0016
AGC_PKA-PKG Vvi PK Vvi11g0325 PF00069 Pkinase 4.9e-33 CL0016