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_PEK Acco PK Acco08g1052 PF00400 WD40 0.0039 CL0186
PEK_PEK Acco PK Acco09g1926 PF00400 WD40 0.0039 CL0186
PEK_PEK Accr PK Accr13g01024 PF00400 WD40 0.00029 CL0186
PEK_PEK Accr PK Accr13g01025 PF00400 WD40 0.00029 CL0186
PEK_PEK Adu PK Adu08g02020 PF00400 WD40 0.00011 CL0186
PEK_PEK Aed PK Aed1g0604 PF00400 WD40 0.00023 CL0186
PEK_PEK Ahy PK Ahy18g1352 PF00400 WD40 0.0001 CL0186
PEK_PEK Ahy PK Ahy8g1983 PF00400 WD40 0.0001 CL0186
PEK_PEK Aip PK Aip08g01452 PF00400 WD40 0.0001 CL0186
PEK_PEK Alju PK Alju10g1045 PF00400 WD40 0.0012 CL0186
PEK_PEK Amo PK Amo08g1606 PF00400 WD40 0.0001 CL0186
PEK_PEK Amo PK Amo18g1602 PF00400 WD40 0.0001 CL0186
PEK_PEK Apr PK Apr10g1244 PF00400 WD40 0.037 CL0186
PEK_PEK Arst PK Arst8g02780 PF00400 WD40 8e-05 CL0186
PEK_PEK Arst PK Arst8g02781 PF00400 WD40 0.0001 CL0186
PEK_PEK Arst PK Arst8g02782 PF00400 WD40 0.0001 CL0186
PEK_PEK Arst PK Arst8g02783 PF00400 WD40 0.0001 CL0186
PEK_PEK Arst PK Arst8g02784 PF00400 WD40 0.0001 CL0186
PEK_PEK Bach PK Bach6g00602 PF00400 WD40 0.00039 CL0186
PEK_PEK Bach PK Bach9g00746 PF00400 WD40 0.00013 CL0186
PEK_PEK Bisa PK Bisa02g2957 PF00400 WD40 0.022 CL0186
PEK_PEK Bva PK Bva09g00864 PF00400 WD40 5.2e-05 CL0186
PEK_PEK Car PK Car01g02046 PF00400 WD40 0.00021 CL0186
PEK_PEK Car PK Car07g02846 PF00069 Pkinase 6e-08 CL0016
PEK_PEK Cca PK Cca10g01102 PF00400 WD40 0.00016 CL0186
PEK_PEK Dere PK Dere08g0430 PF00400 WD40 0.029 CL0186
PEK_PEK Eupl PK Eupl08g00372 PF00400 WD40 0.0087 CL0186
PEK_PEK Eupl PK Eupl14g00245 PF00400 WD40 0.0089 CL0186
PEK_PEK Gabi PK Gabi2829g00015 PF00400 WD40 3.9e-05 CL0186
PEK_PEK Gabi PK Gabi2829g00016 PF00400 WD40 3.9e-05 CL0186
PEK_PEK Gabi PK Gabi2829g00017 PF00400 WD40 3e-05 CL0186
PEK_PEK Gabi PK Gabi4700g00007 None None None None
PEK_PEK Gabi PK Gabi4981g00023 PF00400 WD40 0.018 CL0186
PEK_PEK Gma PK Gma06g02211 PF00400 WD40 0.23 CL0186
PEK_PEK Gma PK Gma07g00543 PF00400 WD40 0.018 CL0186
PEK_PEK Gma PK Gma16g00244 PF00069 Pkinase 7.9e-08 CL0016
PEK_PEK Gso PK Gso16g0223 PF00069 Pkinase 7.9e-08 CL0016
PEK_PEK Gso PK Gso6g2033 PF00400 WD40 0.24 CL0186
PEK_PEK Gso PK Gso7g0515 PF00400 WD40 0.018 CL0186
PEK_PEK Lal PK Lal11g1429 PF07714 PK_Tyr_Ser-Thr 1.5e-05 CL0016
PEK_PEK Lal PK Lal18g1029 PF00400 WD40 0.0043 CL0186
PEK_PEK Lal PK Lal20g0334 PF07714 PK_Tyr_Ser-Thr 6.1e-06 CL0016
PEK_PEK Lan PK Lan19g0171 PF07714 PK_Tyr_Ser-Thr 5.3e-06 CL0016
PEK_PEK Lan PK Lan2g0749 PF00400 WD40 0.0069 CL0186
PEK_PEK Lapu PK Lapu10g00220 PF00400 WD40 0.00029 CL0186
PEK_PEK Lapu PK Lapu5g01016 PF00400 WD40 0.0001 CL0186
PEK_PEK Lasa PK Lasa4g00816 PF00400 WD40 0.0093 CL0186
PEK_PEK Lele PK Lele31g0768 None None None None
PEK_PEK Lele PK Lele43g0180 PF00400 WD40 0.0011 CL0186
PEK_PEK Lja PK Lja3g1798 PF00069 Pkinase 1.8e-08 CL0016
PEK_PEK Mal PK Mal4g1448 PF00400 WD40 9.9e-05 CL0186
PEK_PEK Mal PK Mal5g1191 PF00400 WD40 0.0046 CL0186
PEK_PEK Mepo PK Mepo1g03875 PF00400 WD40 0.0047 CL0186
PEK_PEK Mepo PK Mepo6g03106 PF00400 WD40 9.8e-05 CL0186
PEK_PEK Mesa PK Mesa29g04488 PF00400 WD40 0.00032 CL0186
PEK_PEK Mesa PK Mesa30g04354 PF00400 WD40 0.0046 CL0186
PEK_PEK Mesa PK Mesa31g04167 PF00400 WD40 0.00032 CL0186
PEK_PEK Mesa PK Mesa32g04206 PF00400 WD40 0.0047 CL0186
PEK_PEK Mesa PK Mesa5g01461 PF00400 WD40 9.8e-05 CL0186
PEK_PEK Mesa PK Mesa7g01357 PF00400 WD40 9.8e-05 CL0186
PEK_PEK Mesa PK Mesa8g01357 PF00400 WD40 9.8e-05 CL0186
PEK_PEK Mtr PK Mtr2g2632 PF00400 WD40 9.9e-05 CL0186
PEK_PEK Mtr PK Mtr8g0839 PF00400 WD40 0.0046 CL0186
PEK_PEK Mupr PK Mupr1037g00002 PF00400 WD40 0.15 CL0186
PEK_PEK Phac PK Phac5g01040 PF00400 WD40 0.023 CL0186
PEK_PEK Phac PK Phac5g01041 PF07714 PK_Tyr_Ser-Thr 3.5e-05 CL0016
PEK_PEK Phac PK Phac5g01042 PF00400 WD40 0.023 CL0186
PEK_PEK Phco PK Phco10g00773 PF00400 WD40 0.023 CL0186
PEK_PEK Phco PK Phco9g01778 PF00400 WD40 0.0007 CL0186
PEK_PEK Prci PK Prci6g1221 PF00400 WD40 0.00013 CL0186
PEK_PEK Prci PK Prci6g1222 PF00400 WD40 0.00012 CL0186
PEK_PEK Psa PK Psa4g3704 PF00400 WD40 0.0093 CL0186
PEK_PEK Psa PK Psa5g5564 PF00400 WD40 0.00025 CL0186
PEK_PEK Pste PK Pste1g03983 PF00400 WD40 4.9e-06 CL0186
PEK_PEK Pumo PK Pumo11g00670 PF00400 WD40 4.9e-06 CL0186
PEK_PEK Pumo PK Pumo7g00685 PF00069 Pkinase 6.9e-08 CL0016
PEK_PEK Pvu PK Pvu5g0743 PF00400 WD40 0.015 CL0186
PEK_PEK Sebi PK Sebi58g00060 PF00400 WD40 0.018 CL0186
PEK_PEK Seca PK Seca3g11203 PF00400 WD40 0.017 CL0186
PEK_PEK Ssu PK Ssu4g2914 PF00069 Pkinase 5.3e-08 CL0016
PEK_PEK Ssu PK Ssu8g1151 PF00400 WD40 9.6e-05 CL0186
PEK_PEK Stsc PK Stsc271910g00003 PF00400 WD40 0.017 CL0186
PEK_PEK Tpr PK Tpr5g1393 PF00400 WD40 0.0072 CL0186
PEK_PEK Tpr PK Tpr7g3529 PF00400 WD40 0.0001 CL0186
PEK_PEK Trre PK Trre11g03275 PF00400 WD40 8.7e-06 CL0186
PEK_PEK Trre PK Trre11g03276 PF00400 WD40 0.0001 CL0186
PEK_PEK Trre PK Trre12g03144 PF00400 WD40 0.0001 CL0186
PEK_PEK Trre PK Trre15g01041 PF00400 WD40 0.0071 CL0186
PEK_PEK Tsu PK Tsu02g04388 PF00400 WD40 7.7e-05 CL0186
PEK_PEK Tsu PK Tsu08g00961 PF00400 WD40 0.0072 CL0186
PEK_PEK Vian PK Vian11g01022 PF00400 WD40 0.0001 CL0186
PEK_PEK Vifa PK Vifa1g02973 PF00400 WD40 0.00025 CL0186
PEK_PEK Vifa PK Vifa4g00999 PF00400 WD40 0.19 CL0186
PEK_PEK Vimu PK Vimu4g01379 PF00400 WD40 0.00011 CL0186
PEK_PEK Vium PK Vium10901g00004 PF00400 WD40 0.0001 CL0186
PEK_PEK Vium PK Vium10901g00005 PF00400 WD40 0.0001 CL0186
PEK_PEK Vium PK Vium10901g00006 PF00400 WD40 8.2e-05 CL0186
PEK_PEK Viun PK Viun5g02618 PF00400 WD40 0.0001 CL0186
PEK_PEK Viun PK Viun5g02619 PF00400 WD40 0.0001 CL0186
PEK_PEK Viun PK Viun5g02620 PF00400 WD40 0.0001 CL0186
PEK_PEK Viun PK Viun5g02621 PF00400 WD40 0.0001 CL0186
PEK_PEK Viun PK Viun5g02622 PF00400 WD40 0.0001 CL0186
PEK_PEK Viun PK Viun5g02623 PF00400 WD40 0.0001 CL0186
PEK_PEK Viun PK Viun5g02624 PF00400 WD40 7.8e-05 CL0186
PEK_PEK Vivi PK Vivi273g00019 PF00400 WD40 0.00025 CL0186
PEK_PEK Vivi PK Vivi273g00020 PF00400 WD40 0.00025 CL0186
PEK_PEK Vivi PK Vivi273g00021 PF00400 WD40 0.00025 CL0186
PEK_PEK Vivi PK Vivi273g00022 PF00400 WD40 0.00019 CL0186
PEK_PEK Vivi PK Vivi2g06174 PF00400 WD40 0.00025 CL0186
PEK_PEK Vivi PK Vivi2g06175 PF00400 WD40 0.00025 CL0186
PEK_PEK Vivi PK Vivi2g06176 PF00400 WD40 0.00019 CL0186
PEK_PEK Vivi PK Vivi2g06177 PF00400 WD40 0.00025 CL0186
PEK_PEK Vivi PK Vivi7g04305 PF00400 WD40 0.00096 CL0186
PEK_PEK Vra PK Vra2g1233 PF00400 WD40 0.025 CL0186
PEK_PEK Vvi PK Vvi19g0255 PF00400 WD40 0.0012 CL0186