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
PEK_GCN2 Acco PK Acco01g3951 PF00069 Pkinase 7.7e-50 CL0016
PEK_GCN2 Accr PK Accr1g03613 PF00069 Pkinase 5e-51 CL0016
PEK_GCN2 Adu PK Adu03g00374 PF00069 Pkinase 3.3e-49 CL0016
PEK_GCN2 Aed PK Aed5g0365 PF00069 Pkinase 3.1e-50 CL0016
PEK_GCN2 Aev PK Aev04g3248 PF00069 Pkinase 5.7e-49 CL0016
PEK_GCN2 Ahy PK Ahy13g0594 PF00069 Pkinase 3.40E-49 CL0016
PEK_GCN2 Ahy PK Ahy3g0364 PF00069 Pkinase 3.40E-49 CL0016
PEK_GCN2 Aip PK Aip03g00626 PF00069 Pkinase 3.3e-49 CL0016
PEK_GCN2 Alju PK Alju02g0015 PF00069 Pkinase 4e-37 CL0016
PEK_GCN2 Amo PK Amo13g0588 PF00069 Pkinase 3.5e-49 CL0016
PEK_GCN2 Apr PK Apr5g0216 PF00069 Pkinase 3.5e-49 CL0016
PEK_GCN2 Arst PK Arst3g00492 PF00069 Pkinase 3.3e-49 CL0016
PEK_GCN2 Arst PK Arst3g00493 PF00069 Pkinase 2.8e-49 CL0016
PEK_GCN2 Bach PK Bach11g01533 PF00069 Pkinase 1.7e-47 CL0016
PEK_GCN2 Bisa PK Bisa12g0017 PF04100 Vps53_N 2.1e-147 CL0295
PEK_GCN2 Bva PK Bva09g02130 PF00069 Pkinase 3.6e-49 CL0016
PEK_GCN2 Car PK Car06g03687 PF00069 Pkinase 4.8e-49 CL0016
PEK_GCN2 Cca PK Cca04g00526 PF00069 Pkinase 9.9e-49 CL0016
PEK_GCN2 Dere PK Dere08g1338 PF00069 Pkinase 6.2e-50 CL0016
PEK_GCN2 Dod PK Dod03g3033 PF00069 Pkinase 2.2e-48 CL0016
PEK_GCN2 Enph PK Enph3g1524 PF00069 Pkinase 4.7e-49 CL0016
PEK_GCN2 Eupl PK Eupl07g00171 PF00069 Pkinase 5e-49 CL0016
PEK_GCN2 Gabi PK Gabi1679g00022 PF00069 Pkinase 1.2e-48 CL0016
PEK_GCN2 Gabi PK Gabi1679g00023 PF00069 Pkinase 9.9e-49 CL0016
PEK_GCN2 Glsi PK Glsi14g1947 PF00069 Pkinase 1.8e-31 CL0016
PEK_GCN2 Gma PK Gma12g00467 PF00069 Pkinase 1.5e-49 CL0016
PEK_GCN2 Gso PK Gso12g0437 PF00069 Pkinase 1.5e-49 CL0016
PEK_GCN2 Lal PK Lal1g0280 PF00069 Pkinase 3e-49 CL0016
PEK_GCN2 Lan PK Lan13g0279 PF00069 Pkinase 1.2e-49 CL0016
PEK_GCN2 Lan PK Lan13g0280 PF00069 Pkinase 3.1e-45 CL0016
PEK_GCN2 Lapu PK Lapu11g00670 PF00069 Pkinase 2.6e-49 CL0016
PEK_GCN2 Lasa PK Lasa7g01358 PF00069 Pkinase 3.7e-48 CL0016
PEK_GCN2 Lele PK Lele10g1287 PF00069 Pkinase 2.1e-50 CL0016
PEK_GCN2 Lele PK Lele12g0006 PF00069 Pkinase 1.8e-50 CL0016
PEK_GCN2 Lja PK Lja3g0604 PF00069 Pkinase 8.3e-49 CL0016
PEK_GCN2 Mal PK Mal7g2419 PF00069 Pkinase 2.2e-50 CL0016
PEK_GCN2 Mepo PK Mepo2g02204 PF00069 Pkinase 2e-49 CL0016
PEK_GCN2 Mesa PK Mesa13g02912 PF00069 Pkinase 1e-48 CL0016
PEK_GCN2 Mesa PK Mesa14g03212 PF00069 Pkinase 1.8e-49 CL0016
PEK_GCN2 Mesa PK Mesa14g03232 PF00069 Pkinase 2e-50 CL0016
PEK_GCN2 Mesa PK Mesa15g03072 PF00069 Pkinase 1e-37 CL0016
PEK_GCN2 Mesa PK Mesa16g03209 PF00069 Pkinase 1.1e-48 CL0016
PEK_GCN2 Mibi PK Mibi01g0016 PF00069 Pkinase 1.1e-48 CL0016
PEK_GCN2 Mtr PK Mtr4g1991 PF00069 Pkinase 2e-49 CL0016
PEK_GCN2 Mupr PK Mupr425g00032 PF00069 Pkinase 2.2e-41 CL0016
PEK_GCN2 Phac PK Phac11g00825 PF00069 Pkinase 4.8e-50 CL0016
PEK_GCN2 Phac PK Phac11g00826 PF00069 Pkinase 8.5e-50 CL0016
PEK_GCN2 Phac PK Phac11g00827 PF00069 Pkinase 5.7e-50 CL0016
PEK_GCN2 Phco PK Phco9g00610 PF00069 Pkinase 7.9e-50 CL0016
PEK_GCN2 Pral PK Pral4406g00027 PF00069 Pkinase 3e-50 CL0016
PEK_GCN2 Pral PK Pral4406g00028 PF00069 Pkinase 3.1e-50 CL0016
PEK_GCN2 Pral PK Pral4406g00029 PF00069 Pkinase 2.9e-50 CL0016
PEK_GCN2 Pral PK Pral4406g00030 PF00069 Pkinase 3e-50 CL0016
PEK_GCN2 Pral PK Pral4406g00031 PF00069 Pkinase 3.1e-50 CL0016
PEK_GCN2 Pral PK Pral4406g00032 PF00069 Pkinase 2.8e-50 CL0016
PEK_GCN2 Pral PK Pral4406g00033 PF00069 Pkinase 2.6e-50 CL0016
PEK_GCN2 Prci PK Prci7g2734 PF00069 Pkinase 1.9e-49 CL0016
PEK_GCN2 Prci PK Prci7g2735 PF00069 Pkinase 1.9e-49 CL0016
PEK_GCN2 Prci PK Prci7g2736 PF00069 Pkinase 2e-49 CL0016
PEK_GCN2 Prci PK Prci7g2737 PF00069 Pkinase 1.6e-49 CL0016
PEK_GCN2 Psa PK Psa7g4917 PF00069 Pkinase 4.1e-48 CL0016
PEK_GCN2 Pste PK Pste1g02117 PF00069 Pkinase 3.1e-48 CL0016
PEK_GCN2 Pte PK Pte17g00754 PF00069 Pkinase 4.9e-50 CL0016
PEK_GCN2 Pte PK Pte17g00767 PF00069 Pkinase 2.3e-36 CL0016
PEK_GCN2 Pumo PK Pumo11g01692 PF00069 Pkinase 2.4e-48 CL0016
PEK_GCN2 Pvu PK Pvu11g0558 PF00069 Pkinase 7.8e-50 CL0016
PEK_GCN2 Rops PK Rops3g00671 PF00069 Pkinase 3e-47 CL0016
PEK_GCN2 Sebi PK Sebi539g00014 PF13393 tRNA-synt_His 7.3e-11 CL0040
PEK_GCN2 Seca PK Seca3g03486 PF00069 Pkinase 1.2e-48 CL0016
PEK_GCN2 Seca PK Seca4g03693 PF00069 Pkinase 2.1e-48 CL0016
PEK_GCN2 Spst PK Spst2g02417 PF00069 Pkinase 5.9e-49 CL0016
PEK_GCN2 Ssu PK Ssu3g2737 PF00069 Pkinase 1.9e-49 CL0016
PEK_GCN2 Sto PK Sto7g1863 PF00069 Pkinase 3.2e-49 CL0016
PEK_GCN2 Sto PK Sto7g1864 PF00069 Pkinase 6.5e-36 CL0016
PEK_GCN2 Stsc PK Stsc183877g00001 PF13393 tRNA-synt_His 1.9e-12 CL0040
PEK_GCN2 Stsc PK Stsc30421g00005 PF00069 Pkinase 3.9e-48 CL0016
PEK_GCN2 Stsc PK Stsc90728g00015 PF00069 Pkinase 6.8e-34 CL0016
PEK_GCN2 Tpr PK Tpr3g2199 PF00069 Pkinase 6.5e-50 CL0016
PEK_GCN2 Tpr PK Tpr3g4305 PF00069 Pkinase 9.5e-09 CL0016
PEK_GCN2 Tpr PK Tpr4g3350 PF00069 Pkinase 8.9e-44 CL0016
PEK_GCN2 Trme PK Trme10070g00001 PF00069 Pkinase 7.4e-29 CL0016
PEK_GCN2 Trme PK Trme2398g00001 PF00069 Pkinase 6.9e-25 CL0016
PEK_GCN2 Trme PK Trme254637g00001 PF00069 Pkinase 2.7e-09 CL0016
PEK_GCN2 Trre PK Trre3g04286 PF00069 Pkinase 2.8e-22 CL0016
PEK_GCN2 Trre PK Trre7g03042 PF00069 Pkinase 5.8e-49 CL0016
PEK_GCN2 Trre PK Trre8g03090 PF00069 Pkinase 6.4e-49 CL0016
PEK_GCN2 Trre PK Trre8g03091 PF00069 Pkinase 6.5e-49 CL0016
PEK_GCN2 Tsu PK Tsu02g02243 PF00069 Pkinase 4.7e-49 CL0016
PEK_GCN2 Vian PK Vian5g01412 PF00069 Pkinase 4.4e-49 CL0016
PEK_GCN2 Vifa PK Vifa6g00911 PF00069 Pkinase 3.2e-49 CL0016
PEK_GCN2 Vifa PK Vifa6g00912 PF00069 Pkinase 3.2e-49 CL0016
PEK_GCN2 Vimu PK Vimu5g02239 PF00069 Pkinase 7e-49 CL0016
PEK_GCN2 Vium PK Vium2671g00022 PF00069 Pkinase 4.4e-49 CL0016
PEK_GCN2 Vium PK Vium2671g00023 PF00069 Pkinase 3.9e-49 CL0016
PEK_GCN2 Vium PK Vium2671g00024 PF00069 Pkinase 3.1e-49 CL0016
PEK_GCN2 Viun PK Viun11g02271 PF00069 Pkinase 3.5e-48 CL0016
PEK_GCN2 Viun PK Viun11g02272 PF00069 Pkinase 3.5e-48 CL0016
PEK_GCN2 Vivi PK Vivi5g02763 PF00069 Pkinase 4.4e-49 CL0016
PEK_GCN2 Vivi PK Vivi5g02764 PF00069 Pkinase 4.2e-49 CL0016
PEK_GCN2 Vra PK Vra2g0497 PF00069 Pkinase 8.5e-49 CL0016
PEK_GCN2 Vvi PK Vvi5g1443 PF00069 Pkinase 1.9e-32 CL0016