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
CMGC_CDK-CCRK Acco PK Acco02g2158 PF00069 Pkinase 3.1e-32 CL0016
CMGC_CDK-CCRK Accr PK Accr2g01623 PF00069 Pkinase 2.3e-33 CL0016
CMGC_CDK-CCRK Adu PK Adu02g00266 PF00069 Pkinase 8e-31 CL0016
CMGC_CDK-CCRK Adu PK Adu05g02527 PF00069 Pkinase 8.3e-21 CL0016
CMGC_CDK-CCRK Aed PK Aed5g2493 PF00069 Pkinase 8.1e-56 CL0016
CMGC_CDK-CCRK Aed PK Aed7g0118 PF00069 Pkinase 6.2e-31 CL0016
CMGC_CDK-CCRK Aev PK Aev03g3278 PF00069 Pkinase 3.6e-32 CL0016
CMGC_CDK-CCRK Aev PK Aev05g3351 PF00069 Pkinase 8.8e-21 CL0016
CMGC_CDK-CCRK Ahy PK Ahy12g0205 PF00931 NB-ARC 1.80E-40 CL0023
CMGC_CDK-CCRK Ahy PK Ahy12g0544 PF00069 Pkinase 8.70E-22 CL0016
CMGC_CDK-CCRK Ahy PK Ahy15g2905 PF00069 Pkinase 1.80E-20 CL0016
CMGC_CDK-CCRK Ahy PK Ahy2g0234 PF00069 Pkinase 8.10E-31 CL0016
CMGC_CDK-CCRK Ahy PK Ahy5g2368 PF00069 Pkinase 1.30E-20 CL0016
CMGC_CDK-CCRK Aip PK Aip02g00207 PF00069 Pkinase 3.6e-30 CL0016
CMGC_CDK-CCRK Aip PK Aip02g00553 PF00069 Pkinase 1.1e-29 CL0016
CMGC_CDK-CCRK Aip PK Aip05g03244 PF00069 Pkinase 1.1e-20 CL0016
CMGC_CDK-CCRK Alju PK Alju01g2166 PF00069 Pkinase 8.9e-33 CL0016
CMGC_CDK-CCRK Amo PK Amo02g0299 PF00069 Pkinase 1e-30 CL0016
CMGC_CDK-CCRK Amo PK Amo05g3863 PF00069 Pkinase 1.3e-20 CL0016
CMGC_CDK-CCRK Amo PK Amo12g0048 PF00069 Pkinase 1.5e-30 CL0016
CMGC_CDK-CCRK Amo PK Amo14g3274 PF00069 Pkinase 6.3e-22 CL0016
CMGC_CDK-CCRK Apr PK Apr2g1410 PF00069 Pkinase 1.1e-32 CL0016
CMGC_CDK-CCRK Apr PK Apr6g1136 PF00069 Pkinase 5.5e-31 CL0016
CMGC_CDK-CCRK Arst PK Arst2g00330 PF00069 Pkinase 8e-31 CL0016
CMGC_CDK-CCRK Arst PK Arst5g03201 PF00069 Pkinase 1.3e-20 CL0016
CMGC_CDK-CCRK Bach PK Bach1g01574 PF00069 Pkinase 9.2e-34 CL0016
CMGC_CDK-CCRK Bisa PK Bisa03g1055 PF00069 Pkinase 1.9e-32 CL0016
CMGC_CDK-CCRK Bva PK Bva03g00581 PF00069 Pkinase 2e-33 CL0016
CMGC_CDK-CCRK Car PK Car06g00305 PF00069 Pkinase 5.6e-33 CL0016
CMGC_CDK-CCRK Car PK Car08g01764 PF00069 Pkinase 2.1e-31 CL0016
CMGC_CDK-CCRK Cca PK Cca08g00129 PF00069 Pkinase 6.4e-20 CL0016
CMGC_CDK-CCRK Cca PK Cca09g02658 PF00069 Pkinase 6.9e-56 CL0016
CMGC_CDK-CCRK Dere PK Dere01g1532 PF00069 Pkinase 1.7e-33 CL0016
CMGC_CDK-CCRK Dod PK Dod02g3558 PF00069 Pkinase 1.5e-22 CL0016
CMGC_CDK-CCRK Dod PK Dod04g2988 PF00069 Pkinase 7e-32 CL0016
CMGC_CDK-CCRK Dod PK Dod10g1773 None None None None
CMGC_CDK-CCRK Enph PK Enph2g1598 PF00069 Pkinase 2.1e-33 CL0016
CMGC_CDK-CCRK Eupl PK Eupl10g00857 PF00069 Pkinase 1.3e-35 CL0016
CMGC_CDK-CCRK Gabi PK Gabi4281g00044 PF00069 Pkinase 4.1e-32 CL0016
CMGC_CDK-CCRK Gabi PK Gabi4281g00045 PF00069 Pkinase 4.1e-32 CL0016
CMGC_CDK-CCRK Gabi PK Gabi693g00012 PF00069 Pkinase 3.7e-32 CL0016
CMGC_CDK-CCRK Glsi PK Glsi12g1638 PF00069 Pkinase 2e-32 CL0016
CMGC_CDK-CCRK Gma PK Gma02g01690 PF00069 Pkinase 3e-16 CL0016
CMGC_CDK-CCRK Gma PK Gma05g00741 None None None None
CMGC_CDK-CCRK Gma PK Gma05g02234 PF00069 Pkinase 1.4e-32 CL0016
CMGC_CDK-CCRK Gma PK Gma07g00761 PF00069 Pkinase 7.7e-23 CL0016
CMGC_CDK-CCRK Gma PK Gma08g00358 PF00069 Pkinase 2.1e-21 CL0016
CMGC_CDK-CCRK Gma PK Gma09g01785 PF00069 Pkinase 1.3e-29 CL0016
CMGC_CDK-CCRK Gso PK Gso5g1956 PF00069 Pkinase 4.6e-55 CL0016
CMGC_CDK-CCRK Gso PK Gso7g0726 PF00069 Pkinase 4.5e-23 CL0016
CMGC_CDK-CCRK Gso PK Gso8g0314 PF00069 Pkinase 2.1e-21 CL0016
CMGC_CDK-CCRK Gso PK Gso9g1584 PF00069 Pkinase 1.3e-29 CL0016
CMGC_CDK-CCRK Lal PK Lal16g1057 PF00069 Pkinase 6.5e-33 CL0016
CMGC_CDK-CCRK Lal PK Lal25g0422 PF00069 Pkinase 1.9e-21 CL0016
CMGC_CDK-CCRK Lan PK Lan6g1114 PF00069 Pkinase 1.7e-32 CL0016
CMGC_CDK-CCRK Lan PK Lan6g2226 PF00069 Pkinase 1.5e-30 CL0016
CMGC_CDK-CCRK Lapu PK Lapu1g00395 PF00069 Pkinase 5.8e-19 CL0016
CMGC_CDK-CCRK Lapu PK Lapu4g00114 PF00069 Pkinase 5.3e-29 CL0016
CMGC_CDK-CCRK Lasa PK Lasa1g03880 PF00069 Pkinase 6.5e-33 CL0016
CMGC_CDK-CCRK Lasa PK Lasa7g05071 PF00069 Pkinase 5.3e-34 CL0016
CMGC_CDK-CCRK Lele PK Lele05g1708 PF00069 Pkinase 3.1e-33 CL0016
CMGC_CDK-CCRK Lele PK Lele06g1551 PF00069 Pkinase 4.3e-32 CL0016
CMGC_CDK-CCRK Lele PK Lele07g1774 PF00069 Pkinase 1.6e-32 CL0016
CMGC_CDK-CCRK Lele PK Lele08g1552 PF00069 Pkinase 9.8e-33 CL0016
CMGC_CDK-CCRK Lja PK Lja2g1999 PF00069 Pkinase 6.9e-14 CL0016
CMGC_CDK-CCRK Lja PK Lja4g0198 PF00069 Pkinase 2.3e-33 CL0016
CMGC_CDK-CCRK Mal PK Mal7g5216 PF00069 Pkinase 4.6e-33 CL0016
CMGC_CDK-CCRK Mal PK Mal8g3992 PF00069 Pkinase 1.4e-31 CL0016
CMGC_CDK-CCRK Mepo PK Mepo2g04888 PF00069 Pkinase 1.5e-32 CL0016
CMGC_CDK-CCRK Mepo PK Mepo7g00420 PF00069 Pkinase 9.5e-31 CL0016
CMGC_CDK-CCRK Mesa PK Mesa13g00236 PF00069 Pkinase 1.1e-32 CL0016
CMGC_CDK-CCRK Mesa PK Mesa14g00206 PF00069 Pkinase 1.4e-33 CL0016
CMGC_CDK-CCRK Mesa PK Mesa15g00191 PF00069 Pkinase 1.1e-32 CL0016
CMGC_CDK-CCRK Mesa PK Mesa16g00256 PF00069 Pkinase 1.4e-32 CL0016
CMGC_CDK-CCRK Mesa PK Mesa21g02869 PF00069 Pkinase 5.1e-32 CL0016
CMGC_CDK-CCRK Mesa PK Mesa22g03357 PF00069 Pkinase 1e-29 CL0016
CMGC_CDK-CCRK Mesa PK Mesa22g03358 PF00069 Pkinase 1e-29 CL0016
CMGC_CDK-CCRK Mesa PK Mesa22g03359 PF00069 Pkinase 8.3e-22 CL0016
CMGC_CDK-CCRK Mesa PK Mesa22g03360 PF00069 Pkinase 1.1e-30 CL0016
CMGC_CDK-CCRK Mesa PK Mesa23g03237 PF00069 Pkinase 3e-30 CL0016
CMGC_CDK-CCRK Mesa PK Mesa24g02166 PF00069 Pkinase 9.4e-31 CL0016
CMGC_CDK-CCRK Mesa PK Mesa24g02169 PF00069 Pkinase 1.1e-30 CL0016
CMGC_CDK-CCRK Mibi PK Mibi02g1974 PF00069 Pkinase 5.9e-32 CL0016
CMGC_CDK-CCRK Mtr PK Mtr6g2276 PF00069 Pkinase 5.1e-31 CL0016
CMGC_CDK-CCRK Mtr PK Mtr8g3708 PF00069 Pkinase 9.8e-33 CL0016
CMGC_CDK-CCRK Mupr PK Mupr3231g00004 PF00069 Pkinase 1.1e-54 CL0016
CMGC_CDK-CCRK Mupr PK Mupr8465g00002 PF00069 Pkinase 1.8e-30 CL0016
CMGC_CDK-CCRK Phac PK Phac2g04690 PF00069 Pkinase 7.7e-54 CL0016
CMGC_CDK-CCRK Phac PK Phac2g04691 PF00069 Pkinase 7.7e-54 CL0016
CMGC_CDK-CCRK Phac PK Phac4g02215 PF00069 Pkinase 6.4e-22 CL0016
CMGC_CDK-CCRK Phco PK Phco4g03540 PF00069 Pkinase 2.3e-53 CL0016
CMGC_CDK-CCRK Phco PK Phco5g00141 PF00069 Pkinase 1.5e-21 CL0016
CMGC_CDK-CCRK Pral PK Pral3962g00050 PF00069 Pkinase 1.4e-33 CL0016
CMGC_CDK-CCRK Prci PK Prci1g1997 PF00069 Pkinase 1.3e-32 CL0016
CMGC_CDK-CCRK Psa PK Psa1g0950 PF00069 Pkinase 5e-20 CL0016
CMGC_CDK-CCRK Psa PK Psa7g0344 PF00069 Pkinase 6.6e-33 CL0016
CMGC_CDK-CCRK Pste PK Pste2g01168 PF00069 Pkinase 4.9e-46 CL0016
CMGC_CDK-CCRK Pste PK Pste3g00404 PF00069 Pkinase 2.2e-48 CL0016
CMGC_CDK-CCRK Pte PK Pte9g00050 PF00069 Pkinase 3.6e-32 CL0016
CMGC_CDK-CCRK Pumo PK Pumo6g00255 PF00069 Pkinase 4.9e-21 CL0016
CMGC_CDK-CCRK Pumo PK Pumo6g03139 PF00069 Pkinase 7.9e-22 CL0016
CMGC_CDK-CCRK Pvu PK Pvu2g3209 PF00069 Pkinase 1e-54 CL0016
CMGC_CDK-CCRK Pvu PK Pvu4g1754 PF00069 Pkinase 1.9e-21 CL0016
CMGC_CDK-CCRK Rops PK Rops2g00287 PF00069 Pkinase 6e-32 CL0016
CMGC_CDK-CCRK Rops PK Rops5g00145 PF00069 Pkinase 8.9e-31 CL0016
CMGC_CDK-CCRK Sebi PK Sebi423g00021 PF00069 Pkinase 1.6e-30 CL0016
CMGC_CDK-CCRK Seca PK Seca10g03342 PF00069 Pkinase 2.9e-22 CL0016
CMGC_CDK-CCRK Seca PK Seca11g06888 PF00069 Pkinase 3.2e-33 CL0016
CMGC_CDK-CCRK Seca PK Seca12g06765 PF00069 Pkinase 1.6e-30 CL0016
CMGC_CDK-CCRK Seca PK Seca9g03577 PF00069 Pkinase 7.9e-23 CL0016
CMGC_CDK-CCRK Seca PK Seca9g03578 PF00069 Pkinase 4.9e-31 CL0016
CMGC_CDK-CCRK Spst PK Spst3g00855 PF00069 Pkinase 1.1e-32 CL0016
CMGC_CDK-CCRK Spst PK Spst4g02659 PF00069 Pkinase 7e-31 CL0016
CMGC_CDK-CCRK Ssu PK Ssu5g3310 PF00069 Pkinase 3.6e-55 CL0016
CMGC_CDK-CCRK Sto PK Sto8g2079 PF00069 Pkinase 6.7e-33 CL0016
CMGC_CDK-CCRK Stsc PK Stsc153073g00001 PF00069 Pkinase 1.3e-21 CL0016
CMGC_CDK-CCRK Stsc PK Stsc558g00005 PF00069 Pkinase 4.1e-31 CL0016
CMGC_CDK-CCRK Stsc PK Stsc558g00006 PF00069 Pkinase 4e-31 CL0016
CMGC_CDK-CCRK Stsc PK Stsc60520g00006 PF00069 Pkinase 1.8e-31 CL0016
CMGC_CDK-CCRK Stsc PK Stsc90717g00007 PF00069 Pkinase 1.4e-21 CL0016
CMGC_CDK-CCRK Tpr PK Tpr3g0408 PF00069 Pkinase 1.1e-32 CL0016
CMGC_CDK-CCRK Tpr PK Tpr5g0067 PF00069 Pkinase 3.4e-32 CL0016
CMGC_CDK-CCRK Trme PK Trme16647g00001 PF00069 Pkinase 2.5e-21 CL0016
CMGC_CDK-CCRK Trme PK Trme511061g00001 PF00069 Pkinase 1e-08 CL0016
CMGC_CDK-CCRK Trre PK Trre3g04071 PF00069 Pkinase 3.5e-32 CL0016
CMGC_CDK-CCRK Trre PK Trre4g03974 PF00069 Pkinase 3.1e-32 CL0016
CMGC_CDK-CCRK Trre PK Trre7g05743 PF00069 Pkinase 9.5e-34 CL0016
CMGC_CDK-CCRK Trre PK Trre8g05681 PF00069 Pkinase 1.1e-32 CL0016
CMGC_CDK-CCRK Tsu PK Tsu02g00213 PF00069 Pkinase 1.8e-32 CL0016
CMGC_CDK-CCRK Tsu PK Tsu03g03377 PF00069 Pkinase 2.1e-29 CL0016
CMGC_CDK-CCRK Vian PK Vian1g04039 PF00069 Pkinase 7.2e-55 CL0016
CMGC_CDK-CCRK Vian PK Vian8g01562 PF00069 Pkinase 2.1e-22 CL0016
CMGC_CDK-CCRK Vifa PK Vifa1g06847 PF00069 Pkinase 1.1e-32 CL0016
CMGC_CDK-CCRK Vifa PK Vifa6g03894 PF00069 Pkinase 3.2e-33 CL0016
CMGC_CDK-CCRK Vimu PK Vimu10g01903 PF00069 Pkinase 4.2e-21 CL0016
CMGC_CDK-CCRK Vimu PK Vimu11g04695 PF00069 Pkinase 2e-55 CL0016
CMGC_CDK-CCRK Vimu PK Vimu8g01389 PF00069 Pkinase 1.1e-22 CL0016
CMGC_CDK-CCRK Vium PK Vium4278g00010 PF00069 Pkinase 6.3e-55 CL0016
CMGC_CDK-CCRK Vium PK Vium4278g00011 PF00069 Pkinase 1.7e-21 CL0016
CMGC_CDK-CCRK Vium PK Vium4804g00037 PF00069 Pkinase 2e-22 CL0016
CMGC_CDK-CCRK Vium PK Vium4804g00038 PF00069 Pkinase 2.1e-22 CL0016
CMGC_CDK-CCRK Viun PK Viun3g00280 PF00069 Pkinase 1.4e-56 CL0016
CMGC_CDK-CCRK Viun PK Viun4g00174 PF00069 Pkinase 1.9e-30 CL0016
CMGC_CDK-CCRK Vivi PK Vivi5g06332 PF00069 Pkinase 2e-33 CL0016
CMGC_CDK-CCRK Vivi PK Vivi5g06333 PF00069 Pkinase 2e-33 CL0016
CMGC_CDK-CCRK Vivi PK Vivi811g00018 PF00069 Pkinase 1.6e-33 CL0016
CMGC_CDK-CCRK Vivi PK Vivi871g00016 PF00069 Pkinase 1e-32 CL0016
CMGC_CDK-CCRK Vra PK Vra11g1447 PF00069 Pkinase 1e-22 CL0016
CMGC_CDK-CCRK Vra PK Vra1g0516 PF00069 Pkinase 2.1e-22 CL0016
CMGC_CDK-CCRK Vra PK Vra7g3253 PF00069 Pkinase 1.5e-55 CL0016
CMGC_CDK-CCRK Vvi PK Vvi11g0346 PF00069 Pkinase 6.7e-33 CL0016