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
IRE1 Acco PK Acco11g2476 PF00069 Pkinase 9.7e-40 CL0016
IRE1 Acco PK Acco12g0359 PF00069 Pkinase 1.3e-34 CL0016
IRE1 Accr PK Accr10g01660 PF00069 Pkinase 7e-37 CL0016
IRE1 Accr PK Accr10g01661 PF00069 Pkinase 7.5e-37 CL0016
IRE1 Accr PK Accr9g00026 PF00069 Pkinase 8.1e-40 CL0016
IRE1 Adu PK Adu01g00871 PF00069 Pkinase 1.7e-37 CL0016
IRE1 Adu PK Adu05g00319 PF03547 Mem_trans 1.7e-69 CL0064
IRE1 Aed PK Aed11g1112 PF00069 Pkinase 2.3e-38 CL0016
IRE1 Aed PK Aed7g1303 PF00069 Pkinase 1.2e-35 CL0016
IRE1 Aev PK Aev05g0322 PF00069 Pkinase 1e-35 CL0016
IRE1 Aev PK Aev05g2733 PF00069 Pkinase 5.2e-38 CL0016
IRE1 Ahy PK Ahy15g0297 PF00069 Pkinase 1.50E-38 CL0016
IRE1 Ahy PK Ahy1g0847 PF00069 Pkinase 1.70E-37 CL0016
IRE1 Ahy PK Ahy20g0074 PF00069 Pkinase 1.80E-37 CL0016
IRE1 Ahy PK Ahy5g0297 PF00069 Pkinase 1.50E-38 CL0016
IRE1 Aip PK Aip05g00256 PF01011 PQQ 4.1e-05 CL0186
IRE1 Aip PK Aip10g00068 PF00069 Pkinase 1.2e-37 CL0016
IRE1 Alju PK Alju03g1146 PF00069 Pkinase 4.3e-09 CL0016
IRE1 Alju PK Alju03g1155 PF00069 Pkinase 4.3e-09 CL0016
IRE1 Alju PK Alju09g2477 PF00069 Pkinase 1.4e-38 CL0016
IRE1 Alju PK Alju12g1732 PF00069 Pkinase 9.7e-37 CL0016
IRE1 Amo PK Amo01g0926 PF00069 Pkinase 1.7e-37 CL0016
IRE1 Amo PK Amo01g0979 PF00069 Pkinase 1.8e-37 CL0016
IRE1 Amo PK Amo05g0264 PF00069 Pkinase 1.5e-38 CL0016
IRE1 Apr PK Apr7g0281 PF00069 Pkinase 6.3e-37 CL0016
IRE1 Arst PK Arst1g01176 PF00069 Pkinase 1.7e-37 CL0016
IRE1 Arst PK Arst1g01177 PF00069 Pkinase 1.2e-37 CL0016
IRE1 Arst PK Arst26234487g00076 PF00069 Pkinase 1.7e-37 CL0016
IRE1 Arst PK Arst26234487g00077 PF00069 Pkinase 1.2e-37 CL0016
IRE1 Arst PK Arst5g00397 PF00069 Pkinase 1.5e-38 CL0016
IRE1 Bach PK Bach10g00682 PF00069 Pkinase 3.8e-39 CL0016
IRE1 Bach PK Bach4g00829 PF00069 Pkinase 1.3e-39 CL0016
IRE1 Bisa PK Bisa11g1924 PF00069 Pkinase 3.6e-40 CL0016
IRE1 Bva PK Bva08g00968 PF00069 Pkinase 4e-39 CL0016
IRE1 Bva PK Bva11g01444 PF00069 Pkinase 5.6e-40 CL0016
IRE1 Car PK Car07g01692 PF00069 Pkinase 2.5e-38 CL0016
IRE1 Car PK Car08g00762 PF00069 Pkinase 1.1e-38 CL0016
IRE1 Cca PK Cca06g01166 PF00069 Pkinase 2.7e-38 CL0016
IRE1 Cca PK Cca11g00946 PF00069 Pkinase 3.6e-41 CL0016
IRE1 Dere PK Dere09g1196 PF00069 Pkinase 4e-40 CL0016
IRE1 Dod PK Dod05g0093 PF00069 Pkinase 3.6e-31 CL0016
IRE1 Enph PK Enph13g0773 PF00069 Pkinase 4.9e-40 CL0016
IRE1 Eupl PK Eupl03g02466 PF00069 Pkinase 1.8e-35 CL0016
IRE1 Gabi PK Gabi1334g00002 PF00069 Pkinase 2.3e-37 CL0016
IRE1 Gabi PK Gabi4511g00017 PF00069 Pkinase 1.4e-38 CL0016
IRE1 Glsi PK Glsi05g1217 PF00069 Pkinase 2.9e-39 CL0016
IRE1 Glsi PK Glsi09g0731 PF00069 Pkinase 5.1e-39 CL0016
IRE1 Gma PK Gma01g01615 PF00069 Pkinase 3.5e-39 CL0016
IRE1 Gma PK Gma09g01829 PF00069 Pkinase 2.3e-36 CL0016
IRE1 Gma PK Gma11g00798 PF03547 Mem_trans 7.9e-71 CL0064
IRE1 Gma PK Gma16g01040 PF00069 Pkinase 1.3e-36 CL0016
IRE1 Gso PK Gso11g0737 PF00069 Pkinase 1.1e-39 CL0016
IRE1 Gso PK Gso16g0910 PF00069 Pkinase 3e-36 CL0016
IRE1 Gso PK Gso1g1346 PF00069 Pkinase 2.8e-39 CL0016
IRE1 Gso PK Gso9g1626 PF00069 Pkinase 2.1e-36 CL0016
IRE1 Lal PK Lal16g1807 PF00069 Pkinase 2.2e-37 CL0016
IRE1 Lan PK Lan6g1508 PF00069 Pkinase 1.3e-37 CL0016
IRE1 Lapu PK Lapu2g01014 PF00069 Pkinase 1.7e-36 CL0016
IRE1 Lapu PK Lapu3g01775 PF00069 Pkinase 5.6e-36 CL0016
IRE1 Lasa PK Lasa2g03549 PF00069 Pkinase 2.6e-38 CL0016
IRE1 Lasa PK Lasa4g02037 PF00069 Pkinase 2.9e-40 CL0016
IRE1 Lele PK Lele53g1203 PF00069 Pkinase 2.1e-37 CL0016
IRE1 Lele PK Lele54g1173 PF00069 Pkinase 2.7e-35 CL0016
IRE1 Lele PK Lele55g0282 PF00069 Pkinase 2.3e-37 CL0016
IRE1 Lele PK Lele56g0269 PF00069 Pkinase 1.6e-35 CL0016
IRE1 Lja PK Lja2g0645 PF00069 Pkinase 2e-40 CL0016
IRE1 Lja PK Lja3g3713 None None None None
IRE1 Lja PK Lja3g4007 PF00069 Pkinase 2.6e-09 CL0016
IRE1 Lja PK Lja4g0672 PF00069 Pkinase 8.6e-36 CL0016
IRE1 Lja PK Lja4g3075 PF00069 Pkinase 2.8e-35 CL0016
IRE1 Mal PK Mal5g3225 PF00069 Pkinase 1.1e-37 CL0016
IRE1 Mal PK Mal6g0882 PF00069 Pkinase 3.7e-39 CL0016
IRE1 Mal PK Mal6g2743 PF00069 Pkinase 3.7e-22 CL0016
IRE1 Mepo PK Mepo1g02253 PF00069 Pkinase 7.8e-36 CL0016
IRE1 Mepo PK Mepo1g02280 PF00069 Pkinase 1e-18 CL0016
IRE1 Mepo PK Mepo4g04042 PF00069 Pkinase 9.1e-09 CL0016
IRE1 Mepo PK Mepo5g01118 PF00069 Pkinase 6.4e-39 CL0016
IRE1 Mesa PK Mesa17g01181 PF00069 Pkinase 6.5e-39 CL0016
IRE1 Mesa PK Mesa18g01149 PF00069 Pkinase 6.6e-39 CL0016
IRE1 Mesa PK Mesa19g01095 PF00069 Pkinase 3.3e-32 CL0016
IRE1 Mesa PK Mesa20g01197 PF00069 Pkinase 6.5e-39 CL0016
IRE1 Mesa PK Mesa29g02387 PF00069 Pkinase 6.1e-36 CL0016
IRE1 Mesa PK Mesa29g02416 PF00069 Pkinase 3.3e-32 CL0016
IRE1 Mesa PK Mesa30g02407 PF00069 Pkinase 5.3e-36 CL0016
IRE1 Mesa PK Mesa31g02226 PF00069 Pkinase 6.4e-36 CL0016
IRE1 Mesa PK Mesa31g02252 PF00069 Pkinase 3.1e-30 CL0016
IRE1 Mesa PK Mesa32g02298 PF00069 Pkinase 1.3e-35 CL0016
IRE1 Mesa PK Mesa32g02324 PF00069 Pkinase 2.9e-21 CL0016
IRE1 Mibi PK Mibi12g2160 PF00069 Pkinase 9.2e-40 CL0016
IRE1 Mtr PK Mtr5g0995 PF00069 Pkinase 5.7e-39 CL0016
IRE1 Mtr PK Mtr8g2285 PF00069 Pkinase 7.5e-37 CL0016
IRE1 Mtr PK Mtr8g2301 PF00069 Pkinase 1.6e-36 CL0016
IRE1 Mupr PK Mupr1466g00011 PF00069 Pkinase 3.8e-19 CL0016
IRE1 Mupr PK Mupr6804g00008 PF00069 Pkinase 7.7e-39 CL0016
IRE1 Phac PK Phac2g01850 PF00069 Pkinase 8.5e-40 CL0016
IRE1 Phac PK Phac2g01851 PF00069 Pkinase 7.9e-40 CL0016
IRE1 Phco PK Phco4g00752 PF00069 Pkinase 8.5e-40 CL0016
IRE1 Phco PK Phco8g00318 PF00069 Pkinase 6.1e-36 CL0016
IRE1 Pral PK Pral2637g00030 PF00069 Pkinase 9.1e-40 CL0016
IRE1 Pral PK Pral2637g00031 PF00069 Pkinase 9e-40 CL0016
IRE1 Pral PK Pral5455g00007 PF00069 Pkinase 1.3e-37 CL0016
IRE1 Prci PK Prci10g0028 PF00069 Pkinase 3.1e-38 CL0016
IRE1 Prci PK Prci10g0029 PF00069 Pkinase 3.1e-38 CL0016
IRE1 Prci PK Prci10g0030 PF00069 Pkinase 2.6e-38 CL0016
IRE1 Prci PK Prci5g2103 PF00069 Pkinase 1.8e-38 CL0016
IRE1 Psa PK Psa2g3361 PF00069 Pkinase 3.6e-38 CL0016
IRE1 Psa PK Psa4g2443 PF00069 Pkinase 6.8e-39 CL0016
IRE1 Pste PK Pste1g03384 PF00069 Pkinase 2e-29 CL0016
IRE1 Pste PK Pste1g03386 None None None None
IRE1 Pste PK Pste7g01991 PF00069 Pkinase 3.4e-19 CL0016
IRE1 Pte PK Pte14g00807 PF00069 Pkinase 7.3e-39 CL0016
IRE1 Pumo PK Pumo4g02316 PF06479 Ribonuc_2-5A 6.3e-44 No_clan
IRE1 Pumo PK Pumo8g01629 PF00069 Pkinase 1.4e-38 CL0016
IRE1 Pvu PK Pvu2g1215 PF00069 Pkinase 1.3e-39 CL0016
IRE1 Pvu PK Pvu3g2789 PF00069 Pkinase 2.6e-35 CL0016
IRE1 Rops PK Rops1g01438 PF00069 Pkinase 1.2e-38 CL0016
IRE1 Rops PK Rops2g03151 PF00069 Pkinase 2.4e-38 CL0016
IRE1 Sebi PK Sebi273g00012 PF00069 Pkinase 1.3e-20 CL0016
IRE1 Seca PK Seca10g01114 PF00069 Pkinase 2.1e-39 CL0016
IRE1 Seca PK Seca11g03034 PF00069 Pkinase 3.5e-13 CL0016
IRE1 Seca PK Seca11g03035 PF00069 Pkinase 1.1e-19 CL0016
IRE1 Seca PK Seca12g03108 PF00069 Pkinase 5e-38 CL0016
IRE1 Seca PK Seca9g02158 PF00069 Pkinase 1.2e-39 CL0016
IRE1 Spst PK Spst2g01012 PF00069 Pkinase 3.2e-41 CL0016
IRE1 Spst PK Spst3g03709 PF07714 PK_Tyr_Ser-Thr 7.8e-12 CL0016
IRE1 Ssu PK Ssu2g2148 PF00069 Pkinase 1.8e-38 CL0016
IRE1 Ssu PK Ssu5g0815 PF00069 Pkinase 4.5e-34 CL0016
IRE1 Sto PK Sto6g4037 PF00069 Pkinase 3.9e-40 CL0016
IRE1 Stsc PK Stsc211747g00002 PF00069 Pkinase 9.5e-38 CL0016
IRE1 Stsc PK Stsc211747g00003 PF00069 Pkinase 1.3e-37 CL0016
IRE1 Stsc PK Stsc241666g00033 PF00069 Pkinase 1.5e-37 CL0016
IRE1 Tpr PK Tpr2g1219 PF00069 Pkinase 9.8e-41 CL0016
IRE1 Tpr PK Tpr4g0591 PF00069 Pkinase 1.4e-17 CL0016
IRE1 Tpr PK Tpr4g4392 PF00069 Pkinase 9.3e-42 CL0016
IRE1 Trme PK Trme16810g00001 PF00069 Pkinase 2.6e-23 CL0016
IRE1 Trme PK Trme234741g00001 None None None None
IRE1 Trre PK Trre10g01402 PF00069 Pkinase 3.9e-39 CL0016
IRE1 Trre PK Trre10g05102 PF00704 Glyco_hydro_18 1.2e-12 CL0058
IRE1 Trre PK Trre11g04615 PF00069 Pkinase 2.3e-22 CL0016
IRE1 Trre PK Trre12g04488 PF00069 Pkinase 7.1e-24 CL0016
IRE1 Trre PK Trre15g02501 PF00069 Pkinase 1.9e-42 CL0016
IRE1 Trre PK Trre15g02986 PF00069 Pkinase 3.1e-23 CL0016
IRE1 Trre PK Trre16g02555 PF00069 Pkinase 6.7e-27 CL0016
IRE1 Trre PK Trre16g02556 PF00069 Pkinase 2.7e-25 CL0016
IRE1 Trre PK Trre5g05741 PF06479 Ribonuc_2-5A 3.4e-13 No_clan
IRE1 Trre PK Trre9g01170 None None None None
IRE1 Trre PK Trre9g01422 PF00069 Pkinase 1.8e-40 CL0016
IRE1 Trre PK Trre9g05239 PF00069 Pkinase 3.6e-10 CL0016
IRE1 Tsu PK Tsu04g02676 PF00069 Pkinase 2.8e-42 CL0016
IRE1 Tsu PK Tsu05g00956 PF00069 Pkinase 3.5e-40 CL0016
IRE1 Vian PK Vian10g00899 PF00069 Pkinase 1.2e-40 CL0016
IRE1 Vian PK Vian1g01924 PF00069 Pkinase 4.2e-36 CL0016
IRE1 Vifa PK Vifa1g06325 PF00069 Pkinase 3.7e-38 CL0016
IRE1 Vimu PK Vimu7g03200 PF00069 Pkinase 1.6e-40 CL0016
IRE1 Vium PK Vium2068g00023 PF00069 Pkinase 2e-40 CL0016
IRE1 Vium PK Vium3407g00001 PF00069 Pkinase 6.5e-36 CL0016
IRE1 Viun PK Viun2g01711 PF00069 Pkinase 1.3e-40 CL0016
IRE1 Viun PK Viun3g03431 PF00069 Pkinase 5.8e-36 CL0016
IRE1 Viun PK Viun3g03432 PF00069 Pkinase 4.2e-36 CL0016
IRE1 Vivi PK Vivi1g03257 PF00069 Pkinase 1.1e-39 CL0016
IRE1 Vivi PK Vivi2g02750 PF00069 Pkinase 5.4e-38 CL0016
IRE1 Vivi PK Vivi7g02040 PF00069 Pkinase 1.7e-26 CL0016
IRE1 Vivi PK Vivi925g00013 PF00069 Pkinase 3.5e-39 CL0016
IRE1 Vra PK Vra11g0872 PF00069 Pkinase 2e-40 CL0016
IRE1 Vra PK Vra7g0224 PF00069 Pkinase 1.1e-35 CL0016
IRE1 Vvi PK Vvi18g0074 PF00069 Pkinase 1.1e-36 CL0016
IRE1 Vvi PK Vvi7g1422 PF00069 Pkinase 4.1e-35 CL0016