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
RLK-Pelle_Singleton Acco PK Acco05g2450 PF00069 Pkinase 9.8e-17 CL0016
RLK-Pelle_Singleton Acco PK Acco10g2167 PF07714 PK_Tyr_Ser-Thr 7.2e-11 CL0016
RLK-Pelle_Singleton Accr PK Accr3g00559 PF00069 Pkinase 4e-16 CL0016
RLK-Pelle_Singleton Accr PK Accr3g00560 PF00069 Pkinase 3.7e-16 CL0016
RLK-Pelle_Singleton Accr PK Accr4g00611 PF07714 PK_Tyr_Ser-Thr 2e-06 CL0016
RLK-Pelle_Singleton Adu PK Adu10g01978 PF00069 Pkinase 2.6e-16 CL0016
RLK-Pelle_Singleton Aed PK Aed10g0052 PF00069 Pkinase 1.1e-16 CL0016
RLK-Pelle_Singleton Aev PK Aev08g1186 PF00069 Pkinase 8e-13 CL0016
RLK-Pelle_Singleton Ahy PK Ahy10g1746 PF00069 Pkinase 2.60E-16 CL0016
RLK-Pelle_Singleton Ahy PK Ahy20g2192 PF00069 Pkinase 1.10E-15 CL0016
RLK-Pelle_Singleton Aip PK Aip10g02583 PF00069 Pkinase 1.1e-15 CL0016
RLK-Pelle_Singleton Alju PK Alju07g2417 PF00069 Pkinase 1.5e-16 CL0016
RLK-Pelle_Singleton Alju PK Alju08g0635 PF00069 Pkinase 4.9e-08 CL0016
RLK-Pelle_Singleton Amo PK Amo10g2365 PF00069 Pkinase 1.1e-15 CL0016
RLK-Pelle_Singleton Apr PK Apr5g1092 PF00069 Pkinase 1.8e-16 CL0016
RLK-Pelle_Singleton Arst PK Arst10g02521 PF00069 Pkinase 2.6e-16 CL0016
RLK-Pelle_Singleton Bach PK Bach12g00635 PF00069 Pkinase 9.1e-20 CL0016
RLK-Pelle_Singleton Bach PK Bach3g01790 PF00069 Pkinase 1.3e-22 CL0016
RLK-Pelle_Singleton Bisa PK Bisa05g1255 PF00069 Pkinase 3.5e-19 CL0016
RLK-Pelle_Singleton Bisa PK Bisa09g1384 PF07714 PK_Tyr_Ser-Thr 3.8e-07 CL0016
RLK-Pelle_Singleton Bva PK Bva06g02562 PF00069 Pkinase 2.3e-22 CL0016
RLK-Pelle_Singleton Bva PK Bva10g00169 PF00069 Pkinase 3e-21 CL0016
RLK-Pelle_Singleton Car PK Car05g03115 PF00069 Pkinase 5.7e-14 CL0016
RLK-Pelle_Singleton Cca PK Cca03g01395 PF00069 Pkinase 3.1e-12 CL0016
RLK-Pelle_Singleton Dere PK Dere04g0747 PF00069 Pkinase 5e-20 CL0016
RLK-Pelle_Singleton Dere PK Dere05g2193 PF00069 Pkinase 2.1e-19 CL0016
RLK-Pelle_Singleton Dod PK Dod09g1122 PF00069 Pkinase 3e-17 CL0016
RLK-Pelle_Singleton Enph PK Enph1g1514 PF00069 Pkinase 3.2e-16 CL0016
RLK-Pelle_Singleton Enph PK Enph7g1095 PF00069 Pkinase 1.5e-18 CL0016
RLK-Pelle_Singleton Eupl PK Eupl10g00929 PF00069 Pkinase 7.6e-24 CL0016
RLK-Pelle_Singleton Gabi PK Gabi2973g00014 PF00069 Pkinase 6.2e-14 CL0016
RLK-Pelle_Singleton Glsi PK Glsi08g1408 PF00069 Pkinase 2.9e-19 CL0016
RLK-Pelle_Singleton Glsi PK Glsi10g0888 PF00069 Pkinase 9.4e-20 CL0016
RLK-Pelle_Singleton Gma PK Gma04g00776 PF00069 Pkinase 1.1e-16 CL0016
RLK-Pelle_Singleton Gma PK Gma06g00769 PF00069 Pkinase 1.3e-16 CL0016
RLK-Pelle_Singleton Gso PK Gso4g0726 PF00069 Pkinase 2.6e-16 CL0016
RLK-Pelle_Singleton Gso PK Gso6g0731 PF00069 Pkinase 6.8e-13 CL0016
RLK-Pelle_Singleton Lal PK Lal4g0289 PF00069 Pkinase 2.5e-13 CL0016
RLK-Pelle_Singleton Lan PK Lan14g0735 PF13855 LRR_8 3.1e-09 CL0022
RLK-Pelle_Singleton Lapu PK Lapu9g01727 PF07714 PK_Tyr_Ser-Thr 1e-15 CL0016
RLK-Pelle_Singleton Lasa PK Lasa5g04318 PF00069 Pkinase 5e-13 CL0016
RLK-Pelle_Singleton Lele PK Lele01g0510 PF00069 Pkinase 3.5e-15 CL0016
RLK-Pelle_Singleton Lele PK Lele02g0496 PF00069 Pkinase 2.9e-17 CL0016
RLK-Pelle_Singleton Lele PK Lele03g0518 PF00069 Pkinase 2.2e-16 CL0016
RLK-Pelle_Singleton Lele PK Lele04g0516 PF00069 Pkinase 9.3e-18 CL0016
RLK-Pelle_Singleton Lele PK Lele25g0476 PF00069 Pkinase 6.8e-16 CL0016
RLK-Pelle_Singleton Lele PK Lele26g0493 PF00069 Pkinase 4.8e-14 CL0016
RLK-Pelle_Singleton Lele PK Lele27g1603 PF00069 Pkinase 4.7e-15 CL0016
RLK-Pelle_Singleton Lele PK Lele28g0484 PF00069 Pkinase 1e-12 CL0016
RLK-Pelle_Singleton Lja PK Lja1g3691 PF00069 Pkinase 1.4e-20 CL0016
RLK-Pelle_Singleton Mal PK Mal2g0667 PF00069 Pkinase 8.9e-17 CL0016
RLK-Pelle_Singleton Mepo PK Mepo3g07635 PF00069 Pkinase 5e-16 CL0016
RLK-Pelle_Singleton Mesa PK Mesa10g04929 PF00069 Pkinase 1.1e-17 CL0016
RLK-Pelle_Singleton Mesa PK Mesa11g05406 PF00069 Pkinase 1.2e-17 CL0016
RLK-Pelle_Singleton Mesa PK Mesa12g05278 PF00069 Pkinase 3.5e-17 CL0016
RLK-Pelle_Singleton Mesa PK Mesa9g05328 PF00069 Pkinase 3.3e-17 CL0016
RLK-Pelle_Singleton Mibi PK Mibi05g0560 PF07714 PK_Tyr_Ser-Thr 7.6e-08 CL0016
RLK-Pelle_Singleton Mibi PK Mibi08g2127 PF00069 Pkinase 1.1e-18 CL0016
RLK-Pelle_Singleton Mtr PK Mtr3g4097 PF00069 Pkinase 1.5e-17 CL0016
RLK-Pelle_Singleton Mupr PK Mupr13946g00003 PF00069 Pkinase 5.7e-18 CL0016
RLK-Pelle_Singleton Phac PK Phac9g02283 PF07714 PK_Tyr_Ser-Thr 1.2e-05 CL0016
RLK-Pelle_Singleton Phac PK Phac9g02284 PF07714 PK_Tyr_Ser-Thr 4e-12 CL0016
RLK-Pelle_Singleton Phco PK Phco7g00949 PF07714 PK_Tyr_Ser-Thr 3.8e-14 CL0016
RLK-Pelle_Singleton Pral PK Pral3561g00096 PF00069 Pkinase 1.6e-17 CL0016
RLK-Pelle_Singleton Pral PK Pral5520g00069 PF00069 Pkinase 2.9e-15 CL0016
RLK-Pelle_Singleton Prci PK Prci15g0797 PF00069 Pkinase 3.2e-15 CL0016
RLK-Pelle_Singleton Prci PK Prci2g0770 PF00069 Pkinase 9.8e-18 CL0016
RLK-Pelle_Singleton Pste PK Pste2g02248 PF07714 PK_Tyr_Ser-Thr 9.8e-13 CL0016
RLK-Pelle_Singleton Pte PK Pte1g01686 PF00069 Pkinase 2.1e-15 CL0016
RLK-Pelle_Singleton Pte PK Pte8g01112 PF00069 Pkinase 2.5e-15 CL0016
RLK-Pelle_Singleton Pumo PK Pumo10g00964 PF07714 PK_Tyr_Ser-Thr 1.4e-15 CL0016
RLK-Pelle_Singleton Pvu PK Pvu9g1134 PF07714 PK_Tyr_Ser-Thr 1.3e-13 CL0016
RLK-Pelle_Singleton Rops PK Rops10g01595 PF00069 Pkinase 2e-10 CL0016
RLK-Pelle_Singleton Rops PK Rops9g01683 PF13855 LRR_8 3.6e-08 CL0022
RLK-Pelle_Singleton Sebi PK Sebi209g00037 PF00069 Pkinase 4.6e-15 CL0016
RLK-Pelle_Singleton Seca PK Seca3g00709 PF00069 Pkinase 5.3e-12 CL0016
RLK-Pelle_Singleton Seca PK Seca4g00699 PF00069 Pkinase 4.1e-15 CL0016
RLK-Pelle_Singleton Spst PK Spst9g00977 PF00069 Pkinase 3.2e-13 CL0016
RLK-Pelle_Singleton Ssu PK Ssu1g3267 PF07714 PK_Tyr_Ser-Thr 1.9e-15 CL0016
RLK-Pelle_Singleton Sto PK Sto5g0671 PF00069 Pkinase 7.2e-08 CL0016
RLK-Pelle_Singleton Sto PK Sto9g3164 PF00069 Pkinase 4.5e-14 CL0016
RLK-Pelle_Singleton Stsc PK Stsc211849g00002 PF00069 Pkinase 4.5e-14 CL0016
RLK-Pelle_Singleton Stsc PK Stsc211975g00002 PF00069 Pkinase 4.9e-16 CL0016
RLK-Pelle_Singleton Tpr PK Tpr7g0399 PF00069 Pkinase 3.5e-17 CL0016
RLK-Pelle_Singleton Trre PK Trre5g05457 PF00069 Pkinase 7.9e-16 CL0016
RLK-Pelle_Singleton Trre PK Trre6g05668 PF00069 Pkinase 4e-14 CL0016
RLK-Pelle_Singleton Tsu PK Tsu07g00436 PF00069 Pkinase 4.4e-15 CL0016
RLK-Pelle_Singleton Vian PK Vian4g01801 PF07714 PK_Tyr_Ser-Thr 1.4e-12 CL0016
RLK-Pelle_Singleton Vifa PK Vifa2g04249 PF07714 PK_Tyr_Ser-Thr 7.5e-08 CL0016
RLK-Pelle_Singleton Vimu PK Vimu10g02714 PF07714 PK_Tyr_Ser-Thr 4.1e-13 CL0016
RLK-Pelle_Singleton Vium PK Vium7059g00022 PF07714 PK_Tyr_Ser-Thr 3.2e-11 CL0016
RLK-Pelle_Singleton Viun PK Viun9g02795 PF07714 PK_Tyr_Ser-Thr 2.1e-11 CL0016
RLK-Pelle_Singleton Vivi PK Vivi3g00232 PF07714 PK_Tyr_Ser-Thr 3.4e-13 CL0016
RLK-Pelle_Singleton Vra PK Vra5g1018 PF07714 PK_Tyr_Ser-Thr 3.9e-12 CL0016
RLK-Pelle_Singleton Vvi PK Vvi4g0310 PF00069 Pkinase 7.1e-23 CL0016