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_PDK1 Acco PK Acco01g1196 PF00069 Pkinase 2.8e-66 CL0016
AGC_PDK1 Acco PK Acco02g3608 PF00069 Pkinase 1.3e-64 CL0016
AGC_PDK1 Accr PK Accr1g00979 PF00069 Pkinase 3.5e-66 CL0016
AGC_PDK1 Accr PK Accr2g00304 PF00069 Pkinase 1.1e-64 CL0016
AGC_PDK1 Adu PK Adu09g02252 PF00069 Pkinase 2.9e-65 CL0016
AGC_PDK1 Aed PK Aed1g2594 PF00069 Pkinase 7.6e-67 CL0016
AGC_PDK1 Aev PK Aev09g1876 PF00069 Pkinase 1.9e-66 CL0016
AGC_PDK1 Ahy PK Ahy19g2394 PF00069 Pkinase 2.90E-65 CL0016
AGC_PDK1 Ahy PK Ahy9g1958 PF00069 Pkinase 2.90E-65 CL0016
AGC_PDK1 Aip PK Aip03g02993 PF00069 Pkinase 7.5e-08 CL0016
AGC_PDK1 Aip PK Aip09g02823 PF00069 Pkinase 3.1e-65 CL0016
AGC_PDK1 Alju PK Alju01g3595 PF00069 Pkinase 1.4e-64 CL0016
AGC_PDK1 Alju PK Alju02g2789 PF00069 Pkinase 7e-65 CL0016
AGC_PDK1 Amo PK Amo09g2694 PF00069 Pkinase 2.9e-65 CL0016
AGC_PDK1 Amo PK Amo16g0070 None None None None
AGC_PDK1 Amo PK Amo19g2962 PF00069 Pkinase 3.1e-65 CL0016
AGC_PDK1 Apr PK Apr8g1870 PF00069 Pkinase 2.3e-66 CL0016
AGC_PDK1 Arst PK Arst9g02979 PF00069 Pkinase 2.8e-65 CL0016
AGC_PDK1 Arst PK Arst9g02980 PF00069 Pkinase 2.9e-65 CL0016
AGC_PDK1 Bach PK Bach1g00323 PF00069 Pkinase 3e-65 CL0016
AGC_PDK1 Bach PK Bach8g02784 PF00069 Pkinase 7.7e-66 CL0016
AGC_PDK1 Bisa PK Bisa01g3184 PF00069 Pkinase 1.5e-64 CL0016
AGC_PDK1 Bisa PK Bisa03g2667 PF00069 Pkinase 2.9e-64 CL0016
AGC_PDK1 Bva PK Bva03g02208 PF00069 Pkinase 1e-64 CL0016
AGC_PDK1 Bva PK Bva04g00131 PF00069 Pkinase 4.4e-65 CL0016
AGC_PDK1 Car PK Car04g00901 PF00069 Pkinase 6.8e-18 CL0016
AGC_PDK1 Cca PK Cca02g01928 PF00069 Pkinase 3.3e-44 CL0016
AGC_PDK1 Dere PK Dere01g0279 PF00069 Pkinase 1e-63 CL0016
AGC_PDK1 Dere PK Dere06g0964 PF00069 Pkinase 6.4e-66 CL0016
AGC_PDK1 Dod PK Dod06g1168 PF00069 Pkinase 8e-66 CL0016
AGC_PDK1 Enph PK Enph2g2565 PF00069 Pkinase 5e-54 CL0016
AGC_PDK1 Eupl PK Eupl01g01355 PF00069 Pkinase 2.9e-65 CL0016
AGC_PDK1 Eupl PK Eupl05g01782 PF00069 Pkinase 1.1e-64 CL0016
AGC_PDK1 Gabi PK Gabi2881g00005 PF00069 Pkinase 4.2e-66 CL0016
AGC_PDK1 Gabi PK Gabi2881g00006 PF00069 Pkinase 4.3e-66 CL0016
AGC_PDK1 Gabi PK Gabi2881g00007 PF00069 Pkinase 1.6e-66 CL0016
AGC_PDK1 Glsi PK Glsi01g1001 PF00069 Pkinase 1.1e-65 CL0016
AGC_PDK1 Glsi PK Glsi12g0704 PF00069 Pkinase 4.4e-56 CL0016
AGC_PDK1 Gma PK Gma10g01935 PF00069 Pkinase 1e-65 CL0016
AGC_PDK1 Gma PK Gma20g01778 PF00069 Pkinase 1.7e-66 CL0016
AGC_PDK1 Gso PK Gso10g1810 PF00069 Pkinase 1e-65 CL0016
AGC_PDK1 Gso PK Gso20g1537 PF00069 Pkinase 1.7e-66 CL0016
AGC_PDK1 Lal PK Lal12g0803 PF00069 Pkinase 1e-42 CL0016
AGC_PDK1 Lal PK Lal13g0913 PF00069 Pkinase 2.1e-65 CL0016
AGC_PDK1 Lal PK Lal9g0970 PF00069 Pkinase 7.5e-64 CL0016
AGC_PDK1 Lan PK Lan11g1310 PF00069 Pkinase 4.4e-65 CL0016
AGC_PDK1 Lan PK Lan11g1521 PF00069 Pkinase 3.8e-65 CL0016
AGC_PDK1 Lan PK Lan4g1159 PF00069 Pkinase 3.7e-65 CL0016
AGC_PDK1 Lapu PK Lapu7g01741 PF00069 Pkinase 1.4e-65 CL0016
AGC_PDK1 Lasa PK Lasa6g03584 PF00069 Pkinase 2.7e-65 CL0016
AGC_PDK1 Lasa PK Lasa6g03585 PF00069 Pkinase 2.9e-65 CL0016
AGC_PDK1 Lele PK Lele05g2662 PF00069 Pkinase 2.4e-63 CL0016
AGC_PDK1 Lele PK Lele06g2651 PF00069 Pkinase 3.3e-64 CL0016
AGC_PDK1 Lele PK Lele07g2685 PF00069 Pkinase 5.7e-63 CL0016
AGC_PDK1 Lele PK Lele08g2591 PF00069 Pkinase 3.5e-64 CL0016
AGC_PDK1 Lele PK Lele45g0758 PF00069 Pkinase 2.8e-65 CL0016
AGC_PDK1 Lele PK Lele47g0639 PF00069 Pkinase 2.4e-42 CL0016
AGC_PDK1 Lele PK Lele47g0640 None None None None
AGC_PDK1 Lja PK Lja5g0997 PF00069 Pkinase 3.4e-66 CL0016
AGC_PDK1 Mal PK Mal1g1916 PF00069 Pkinase 7.5e-66 CL0016
AGC_PDK1 Mepo PK Mepo4g03863 PF00069 Pkinase 4.1e-66 CL0016
AGC_PDK1 Mesa PK Mesa1g04192 PF00069 Pkinase 4.2e-66 CL0016
AGC_PDK1 Mesa PK Mesa2g04267 PF00069 Pkinase 4.1e-66 CL0016
AGC_PDK1 Mesa PK Mesa3g03984 PF00069 Pkinase 4.1e-66 CL0016
AGC_PDK1 Mesa PK Mesa4g04417 PF00069 Pkinase 4.1e-66 CL0016
AGC_PDK1 Mesa PK Mesaun51687g00001 PF00069 Pkinase 1e-26 CL0016
AGC_PDK1 Mibi PK Mibi01g2579 PF00069 Pkinase 1.8e-64 CL0016
AGC_PDK1 Mibi PK Mibi02g3294 PF00069 Pkinase 2.1e-63 CL0016
AGC_PDK1 Mtr PK Mtr1g3368 PF00069 Pkinase 5.5e-66 CL0016
AGC_PDK1 Phac PK Phac7g02123 PF00069 Pkinase 2.2e-65 CL0016
AGC_PDK1 Phco PK Phco6g01549 PF00069 Pkinase 2e-65 CL0016
AGC_PDK1 Pral PK Pral1956g00004 PF00069 Pkinase 2.4e-16 CL0016
AGC_PDK1 Pral PK Pral5079g00105 PF00069 Pkinase 7.3e-66 CL0016
AGC_PDK1 Pral PK Pral5079g00106 PF00069 Pkinase 3.4e-66 CL0016
AGC_PDK1 Pral PK Pral5079g00107 PF00069 Pkinase 1e-61 CL0016
AGC_PDK1 Pral PK Pral5730g00004 PF00069 Pkinase 2.7e-64 CL0016
AGC_PDK1 Pral PK Pral5730g00005 PF00069 Pkinase 2.8e-64 CL0016
AGC_PDK1 Prci PK Prci14g1165 PF00069 Pkinase 4.9e-65 CL0016
AGC_PDK1 Prci PK Prci1g0263 PF00069 Pkinase 1e-64 CL0016
AGC_PDK1 Prci PK Prci1g0264 PF00069 Pkinase 5.8e-65 CL0016
AGC_PDK1 Psa PK Psa6g3999 PF00069 Pkinase 1.2e-56 CL0016
AGC_PDK1 Pste PK Pste4g03190 PF00069 Pkinase 1.2e-62 CL0016
AGC_PDK1 Pte PK Pte16g00593 PF00069 Pkinase 4.9e-65 CL0016
AGC_PDK1 Pte PK Pte5g01588 PF00069 Pkinase 1.8e-64 CL0016
AGC_PDK1 Pte PK Pte9g00627 None None None None
AGC_PDK1 Pumo PK Pumo3g01422 PF00069 Pkinase 1.1e-66 CL0016
AGC_PDK1 Pvu PK Pvu7g1488 PF00069 Pkinase 5.3e-66 CL0016
AGC_PDK1 Rops PK Rops6g02320 PF00069 Pkinase 2.8e-66 CL0016
AGC_PDK1 Sebi PK Sebi261g00002 PF00069 Pkinase 4.9e-67 CL0016
AGC_PDK1 Sebi PK Sebi28g00163 PF00069 Pkinase 1.8e-66 CL0016
AGC_PDK1 Seca PK Seca7g07264 PF00069 Pkinase 5.7e-62 CL0016
AGC_PDK1 Seca PK Seca8g06951 PF00069 Pkinase 1.8e-66 CL0016
AGC_PDK1 Spst PK Spst10g00565 PF00069 Pkinase 6.1e-50 CL0016
AGC_PDK1 Ssu PK Ssu7g1196 PF00069 Pkinase 1.5e-66 CL0016
AGC_PDK1 Sto PK Sto10g0875 PF00069 Pkinase 1.4e-65 CL0016
AGC_PDK1 Sto PK Sto8g2503 PF00069 Pkinase 5.6e-46 CL0016
AGC_PDK1 Stsc PK Stsc112g00016 PF00069 Pkinase 4.1e-66 CL0016
AGC_PDK1 Stsc PK Stsc91138g00003 PF00069 Pkinase 3e-66 CL0016
AGC_PDK1 Tpr PK Tpr1g1123 PF00069 Pkinase 2.4e-65 CL0016
AGC_PDK1 Trre PK Trre1g04801 PF00069 Pkinase 1.9e-65 CL0016
AGC_PDK1 Trre PK Trre2g04589 PF00069 Pkinase 1.7e-65 CL0016
AGC_PDK1 Tsu PK Tsu01g03988 PF00069 Pkinase 1.5e-47 CL0016
AGC_PDK1 Vian PK Vian3g00946 PF00069 Pkinase 1.8e-62 CL0016
AGC_PDK1 Vifa PK Vifa3g02384 PF00069 Pkinase 3.5e-65 CL0016
AGC_PDK1 Vimu PK Vimu3g02635 PF00069 Pkinase 3.5e-43 CL0016
AGC_PDK1 Vium PK Vium4725g00004 PF00069 Pkinase 1.3e-65 CL0016
AGC_PDK1 Vium PK Vium4725g00005 PF00069 Pkinase 2.9e-43 CL0016
AGC_PDK1 Viun PK Viun7g02770 PF00069 Pkinase 3.5e-66 CL0016
AGC_PDK1 Vivi PK Vivi1g04971 PF00069 Pkinase 2.5e-65 CL0016
AGC_PDK1 Vivi PK Vivi1g04972 PF00069 Pkinase 2.6e-65 CL0016
AGC_PDK1 Vra PK Vra8g1917 PF00069 Pkinase 8.4e-66 CL0016
AGC_PDK1 Vvi PK Vvi13g0725 PF00069 Pkinase 2.5e-64 CL0016