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
WEE Acco PK Acco03g0149 PF00069 Pkinase 9.6e-08 CL0016
WEE Acco PK Acco06g0448 PF00069 Pkinase 1.6e-45 CL0016
WEE Acco PK Acco06g0452 PF00069 Pkinase 2.9e-46 CL0016
WEE Acco PK Acco06g0456 PF00069 Pkinase 2.9e-46 CL0016
WEE Acco PK Acco06g0459 PF00069 Pkinase 4.1e-46 CL0016
WEE Accr PK Accr5g02611 PF00069 Pkinase 1.5e-46 CL0016
WEE Adu PK Adu06g00688 PF00069 Pkinase 8e-49 CL0016
WEE Aed PK Aed2g2189 PF00069 Pkinase 5.2e-47 CL0016
WEE Aed PK Aed5g1446 PF00069 Pkinase 5e-36 CL0016
WEE Aed PK Aed5g1447 PF00069 Pkinase 7.5e-32 CL0016
WEE Aed PK Aed5g1451 PF00069 Pkinase 2.1e-30 CL0016
WEE Aev PK Aev06g0569 PF00069 Pkinase 2.7e-50 CL0016
WEE Ahy PK Ahy16g0595 PF00069 Pkinase 1.40E-48 CL0016
WEE Ahy PK Ahy6g0702 PF00069 Pkinase 3.70E-49 CL0016
WEE Aip PK Aip06g00581 PF00069 Pkinase 1.4e-48 CL0016
WEE Alju PK Alju03g2965 PF00069 Pkinase 2.5e-46 CL0016
WEE Amo PK Amo06g0340 PF00069 Pkinase 3.1e-48 CL0016
WEE Apr PK Apr4g0471 PF00069 Pkinase 3.8e-48 CL0016
WEE Arst PK Arst6g00917 PF00069 Pkinase 9.2e-49 CL0016
WEE Arst PK Arst6g00918 PF00069 Pkinase 8e-49 CL0016
WEE Bach PK Bach8g00449 PF00069 Pkinase 1.4e-51 CL0016
WEE Bisa PK Bisa07g1752 PF00069 Pkinase 1.7e-48 CL0016
WEE Bva PK Bva13g02942 PF00069 Pkinase 1.8e-47 CL0016
WEE Car PK Car03g02752 PF00069 Pkinase 3.9e-48 CL0016
WEE Cca PK Cca03g02849 PF00069 Pkinase 8.4e-49 CL0016
WEE Dere PK Dere02g0583 PF00069 Pkinase 5.7e-47 CL0016
WEE Dod PK Dod01g3071 PF00069 Pkinase 3e-50 CL0016
WEE Enph PK Enph4g1925 PF00069 Pkinase 3.5e-47 CL0016
WEE Eupl PK Eupl12g01083 PF00069 Pkinase 7.6e-49 CL0016
WEE Gabi PK Gabi2935g00036 PF00069 Pkinase 1.1e-48 CL0016
WEE Glsi PK Glsi11g0533 PF00069 Pkinase 1.6e-48 CL0016
WEE Gma PK Gma03g01949 PF00069 Pkinase 4.6e-48 CL0016
WEE Gma PK Gma13g00125 PF00069 Pkinase 8.8e-40 CL0016
WEE Gso PK Gso13g0103 PF00069 Pkinase 4.2e-46 CL0016
WEE Gso PK Gso3g1787 PF00069 Pkinase 6.6e-48 CL0016
WEE Lal PK Lal5g0277 PF00069 Pkinase 4.4e-48 CL0016
WEE Lan PK Lan16g0898 PF00069 Pkinase 1.8e-47 CL0016
WEE Lapu PK Lapu6g00788 PF00069 Pkinase 8.9e-47 CL0016
WEE Lapu PK Lapu6g02922 None None None None
WEE Lapu PK Lapu6g02923 PF00069 Pkinase 4e-24 CL0016
WEE Lasa PK Lasa3g03860 PF00069 Pkinase 8.3e-49 CL0016
WEE Lele PK Lele13g2055 PF00069 Pkinase 2.7e-47 CL0016
WEE Lele PK Lele14g1984 PF02705 K_trans 2.3e-196 CL0062
WEE Lele PK Lele15g0352 PF00069 Pkinase 1.6e-32 CL0016
WEE Lele PK Lele16g0370 PF00069 Pkinase 3.9e-47 CL0016
WEE Lja PK Lja1g0351 PF00069 Pkinase 7.9e-49 CL0016
WEE Mal PK Mal3g4612 PF00069 Pkinase 1.7e-49 CL0016
WEE Mepo PK Mepo3g03697 PF00069 Pkinase 3.2e-48 CL0016
WEE Mesa PK Mesa25g00456 PF00069 Pkinase 1.3e-47 CL0016
WEE Mesa PK Mesa25g00460 PF00069 Pkinase 1.3e-47 CL0016
WEE Mesa PK Mesa26g00585 PF00069 Pkinase 1.3e-47 CL0016
WEE Mibi PK Mibi06g2545 PF02705 K_trans 3.4e-195 CL0062
WEE Mtr PK Mtr7g3411 PF00069 Pkinase 1.7e-47 CL0016
WEE Mupr PK Mupr12291g00008 PF00069 Pkinase 3.4e-47 CL0016
WEE Mupr PK Mupr640g00009 PF00069 Pkinase 7e-43 CL0016
WEE Phac PK Phac1g02983 PF00069 Pkinase 6.6e-47 CL0016
WEE Phac PK Phac6g00195 PF00069 Pkinase 1.3e-45 CL0016
WEE Phco PK Phco11g02445 PF00069 Pkinase 6e-47 CL0016
WEE Phco PK Phco2g02351 PF00069 Pkinase 1.6e-45 CL0016
WEE Pral PK Pral3722g00145 PF00069 Pkinase 2e-46 CL0016
WEE Pral PK Pral3722g00146 PF00069 Pkinase 2.1e-46 CL0016
WEE Pral PK Pral3722g00147 PF00069 Pkinase 1.8e-15 CL0016
WEE Pral PK Pral5408g00013 PF00069 Pkinase 2.1e-46 CL0016
WEE Pral PK Pral5408g00014 PF00069 Pkinase 2e-46 CL0016
WEE Prci PK Prci3g3426 PF00069 Pkinase 7.6e-49 CL0016
WEE Prci PK Prci3g3427 PF00069 Pkinase 7.8e-49 CL0016
WEE Psa PK Psa3g0560 PF00069 Pkinase 1.4e-50 CL0016
WEE Pste PK Pste5g02659 PF00069 Pkinase 4e-49 CL0016
WEE Pste PK Pste6g00062 PF00069 Pkinase 1.5e-40 CL0016
WEE Pumo PK Pumo174g00003 PF00069 Pkinase 7.3e-40 CL0016
WEE Pumo PK Pumo1g01956 PF00069 Pkinase 4.2e-23 CL0016
WEE Pumo PK Pumo1g01959 PF00069 Pkinase 1.7e-41 CL0016
WEE Pumo PK Pumo5g03372 PF00069 Pkinase 4e-48 CL0016
WEE Pvu PK Pvu1g1785 PF00069 Pkinase 5.3e-32 CL0016
WEE Pvu PK Pvu1g2122 PF00069 Pkinase 5.2e-47 CL0016
WEE Rops PK Rops8g03653 PF00069 Pkinase 6.4e-50 CL0016
WEE Seca PK Seca1g05448 None None None None
WEE Seca PK Seca2g05020 None None None None
WEE Spst PK Spst1g02561 PF00069 Pkinase 2e-45 CL0016
WEE Ssu PK Ssu4g0674 PF00069 Pkinase 4.3e-45 CL0016
WEE Ssu PK Ssu8g2000 PF00069 Pkinase 9.7e-45 CL0016
WEE Sto PK Sto13g3606 PF00069 Pkinase 4.6e-49 CL0016
WEE Stsc PK Stsc120835g00048 PF00069 Pkinase 1e-48 CL0016
WEE Stsc PK Stsc16g00027 PF00069 Pkinase 8.8e-50 CL0016
WEE Stsc PK Stsc241767g00019 PF00069 Pkinase 8.4e-49 CL0016
WEE Stsc PK Stsc60522g00012 PF00069 Pkinase 1.9e-25 CL0016
WEE Tpr PK Tpr6g0544 PF00069 Pkinase 3.3e-49 CL0016
WEE Trme PK Trme57807g00001 PF00069 Pkinase 9.2e-33 CL0016
WEE Trre PK Trre13g04704 PF00069 Pkinase 1.3e-48 CL0016
WEE Trre PK Trre14g04560 PF00069 Pkinase 2.2e-49 CL0016
WEE Trre PK Trre9g02764 PF00069 Pkinase 3.2e-48 CL0016
WEE Tsu PK Tsu07g04210 PF00069 Pkinase 5.1e-49 CL0016
WEE Vian PK Vian2g02903 PF00069 Pkinase 1.5e-46 CL0016
WEE Vian PK Vian6g00063 PF00069 Pkinase 5.7e-40 CL0016
WEE Vifa PK Vifa5g03469 PF00069 Pkinase 1.5e-49 CL0016
WEE Vimu PK Vimu2g02781 PF00069 Pkinase 1.3e-40 CL0016
WEE Vium PK Vium1841g00032 PF00069 Pkinase 1.3e-46 CL0016
WEE Vium PK Vium8491g00008 PF00069 Pkinase 4.5e-40 CL0016
WEE Vium PK Vium8491g00009 PF00069 Pkinase 4.5e-40 CL0016
WEE Vium PK Vium8491g00010 PF00069 Pkinase 2.6e-40 CL0016
WEE Viun PK Viun1g02721 PF00069 Pkinase 8.8e-45 CL0016
WEE Viun PK Viun6g00157 PF00069 Pkinase 1.4e-38 CL0016
WEE Viun PK Viun6g00164 PF00069 Pkinase 2.3e-40 CL0016
WEE Vivi PK Vivi6g05456 PF00069 Pkinase 1e-47 CL0016
WEE Vra PK Vra3g0687 PF00069 Pkinase 1e-45 CL0016
WEE Vvi PK Vvi7g0288 PF00069 Pkinase 4.8e-49 CL0016