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
TKL-Pl-3 Acco PK Acco02g1004 PF00069 Pkinase 8.1e-44 CL0016
TKL-Pl-3 Acco PK Acco06g0559 PF00069 Pkinase 3.5e-09 CL0016
TKL-Pl-3 Accr PK Accr2g02717 PF00069 Pkinase 1.3e-45 CL0016
TKL-Pl-3 Accr PK Accr5g02526 PF00069 Pkinase 1.6e-11 CL0016
TKL-Pl-3 Adu PK Adu09g01090 PF00069 Pkinase 3.9e-44 CL0016
TKL-Pl-3 Aed PK Aed5g1241 PF00069 Pkinase 8.3e-43 CL0016
TKL-Pl-3 Aev PK Aev09g1351 PF00069 Pkinase 1e-24 CL0016
TKL-Pl-3 Ahy PK Ahy19g1326 PF00069 Pkinase 5.60E-44 CL0016
TKL-Pl-3 Ahy PK Ahy9g1047 PF00069 Pkinase 5.60E-44 CL0016
TKL-Pl-3 Aip PK Aip09g01460 PF00069 Pkinase 5.6e-44 CL0016
TKL-Pl-3 Alju PK Alju01g0998 PF00069 Pkinase 1.5e-45 CL0016
TKL-Pl-3 Amo PK Amo09g0806 PF00069 Pkinase 2.8e-36 CL0016
TKL-Pl-3 Amo PK Amo19g1380 PF00069 Pkinase 5.6e-44 CL0016
TKL-Pl-3 Apr PK Apr8g0989 PF00481 PP2C 1.8e-61 CL0238
TKL-Pl-3 Arst PK Arst9g01463 PF00069 Pkinase 3.9e-44 CL0016
TKL-Pl-3 Arst PK Arst9g01464 PF00069 Pkinase 2.3e-44 CL0016
TKL-Pl-3 Arst PK Arst9g01465 PF00481 PP2C 9.6e-61 CL0238
TKL-Pl-3 Bach PK Bach1g02050 PF00069 Pkinase 2.9e-46 CL0016
TKL-Pl-3 Bach PK Bach1g02811 PF00069 Pkinase 1.2e-09 CL0016
TKL-Pl-3 Bach PK Bach8g00552 PF00069 Pkinase 1.2e-09 CL0016
TKL-Pl-3 Bisa PK Bisa03g2507 PF00069 Pkinase 1.5e-45 CL0016
TKL-Pl-3 Bva PK Bva04g02861 PF00069 Pkinase 9.8e-10 CL0016
TKL-Pl-3 Bva PK Bva13g02537 PF00069 Pkinase 9.3e-47 CL0016
TKL-Pl-3 Bva PK Bva13g02805 PF00069 Pkinase 5.1e-10 CL0016
TKL-Pl-3 Car PK Car04g02338 PF00069 Pkinase 4.5e-45 CL0016
TKL-Pl-3 Cca PK Cca02g00316 PF00069 Pkinase 4e-44 CL0016
TKL-Pl-3 Dere PK Dere01g2299 PF00069 Pkinase 8.4e-46 CL0016
TKL-Pl-3 Dod PK Dod07g1057 PF00069 Pkinase 5.1e-44 CL0016
TKL-Pl-3 Enph PK Enph2g0773 PF00069 Pkinase 3.2e-44 CL0016
TKL-Pl-3 Eupl PK Eupl05g00281 PF00069 Pkinase 2.1e-42 CL0016
TKL-Pl-3 Gabi PK Gabi4128g00001 PF00069 Pkinase 2.3e-45 CL0016
TKL-Pl-3 Gabi PK Gabi4128g00002 PF00069 Pkinase 2.6e-45 CL0016
TKL-Pl-3 Glsi PK Glsi02g2197 PF00069 Pkinase 2.8e-45 CL0016
TKL-Pl-3 Gma PK Gma02g01485 PF00069 Pkinase 4.5e-44 CL0016
TKL-Pl-3 Gso PK Gso2g1356 PF00069 Pkinase 4.6e-44 CL0016
TKL-Pl-3 Lal PK Lal24g1191 PF00069 Pkinase 2.5e-45 CL0016
TKL-Pl-3 Lan PK Lan8g1049 PF00069 Pkinase 1.9e-45 CL0016
TKL-Pl-3 Lapu PK Lapu7g01364 PF00069 Pkinase 7.8e-44 CL0016
TKL-Pl-3 Lasa PK Lasa6g01774 PF00069 Pkinase 5.2e-42 CL0016
TKL-Pl-3 Lele PK Lele05g0780 PF00069 Pkinase 6.9e-46 CL0016
TKL-Pl-3 Lele PK Lele06g0620 PF00481 PP2C 1.6e-23 CL0238
TKL-Pl-3 Lele PK Lele07g0814 PF00069 Pkinase 5.6e-45 CL0016
TKL-Pl-3 Lele PK Lele08g0621 PF00069 Pkinase 1.1e-45 CL0016
TKL-Pl-3 Lele PK Lele14g1908 PF00069 Pkinase 5.5e-11 CL0016
TKL-Pl-3 Lele PK Lele16g0452 PF00069 Pkinase 5.5e-11 CL0016
TKL-Pl-3 Lja PK Lja5g2137 PF00069 Pkinase 1.5e-45 CL0016
TKL-Pl-3 Mal PK Mal1g3908 PF00069 Pkinase 6.8e-43 CL0016
TKL-Pl-3 Mepo PK Mepo3g05147 PF00069 Pkinase 1.5e-10 CL0016
TKL-Pl-3 Mepo PK Mepo4g00113 PF00069 Pkinase 1e-40 CL0016
TKL-Pl-3 Mesa PK Mesa1g02122 PF00481 PP2C 1.5e-62 CL0238
TKL-Pl-3 Mesa PK Mesa2g02108 PF00481 PP2C 1.3e-62 CL0238
TKL-Pl-3 Mesa PK Mesa3g01992 PF00481 PP2C 1.3e-62 CL0238
TKL-Pl-3 Mesa PK Mesa4g02200 PF00481 PP2C 2.8e-62 CL0238
TKL-Pl-3 Mibi PK Mibi02g0905 PF00069 Pkinase 1.9e-46 CL0016
TKL-Pl-3 Mibi PK Mibi06g2466 PF00069 Pkinase 1.7e-10 CL0016
TKL-Pl-3 Mtr PK Mtr1g1609 PF00069 Pkinase 1.2e-41 CL0016
TKL-Pl-3 Phac PK Phac7g03824 PF00069 Pkinase 7.9e-44 CL0016
TKL-Pl-3 Phco PK Phco6g00390 PF00069 Pkinase 1.8e-44 CL0016
TKL-Pl-3 Pral PK Pral3722g00026 PF00069 Pkinase 1.9e-10 CL0016
TKL-Pl-3 Pral PK Pral3722g00027 PF00069 Pkinase 1.4e-10 CL0016
TKL-Pl-3 Pral PK Pral3722g00028 PF00069 Pkinase 1.9e-10 CL0016
TKL-Pl-3 Pral PK Pral4838g00068 PF00481 PP2C 1.3e-66 CL0238
TKL-Pl-3 Pral PK Pral4838g00069 PF00069 Pkinase 3.3e-45 CL0016
TKL-Pl-3 Pral PK Pral4863g00007 PF00069 Pkinase 8.5e-45 CL0016
TKL-Pl-3 Prci PK Prci1g3416 PF00069 Pkinase 1.1e-45 CL0016
TKL-Pl-3 Prci PK Prci1g3417 PF00481 PP2C 2.1e-66 CL0238
TKL-Pl-3 Psa PK Psa6g2186 PF00069 Pkinase 2.4e-42 CL0016
TKL-Pl-3 Pste PK Pste4g03364 PF00069 Pkinase 4e-33 CL0016
TKL-Pl-3 Pte PK Pte18g01341 PF00069 Pkinase 4.8e-44 CL0016
TKL-Pl-3 Pumo PK Pumo3g02637 PF00069 Pkinase 2.4e-43 CL0016
TKL-Pl-3 Pvu PK Pvu7g2515 PF00069 Pkinase 4.2e-44 CL0016
TKL-Pl-3 Rops PK Rops6g00462 PF07714 PK_Tyr_Ser-Thr 1.2e-35 CL0016
TKL-Pl-3 Sebi PK Sebi269g00024 PF00481 PP2C 6.8e-59 CL0238
TKL-Pl-3 Sebi PK Sebi27g00114 PF00069 Pkinase 5.6e-45 CL0016
TKL-Pl-3 Seca PK Seca7g04831 PF00069 Pkinase 3.4e-45 CL0016
TKL-Pl-3 Seca PK Seca8g04686 PF00069 Pkinase 2.2e-45 CL0016
TKL-Pl-3 Spst PK Spst7g00422 PF00069 Pkinase 1e-42 CL0016
TKL-Pl-3 Ssu PK Ssu7g2936 PF00069 Pkinase 1.5e-41 CL0016
TKL-Pl-3 Sto PK Sto8g1445 PF00069 Pkinase 1.7e-45 CL0016
TKL-Pl-3 Stsc PK Stsc121133g00002 PF00069 Pkinase 2.8e-45 CL0016
TKL-Pl-3 Stsc PK Stsc121133g00003 PF00069 Pkinase 4.8e-45 CL0016
TKL-Pl-3 Stsc PK Stsc242295g00002 PF00069 Pkinase 1.2e-43 CL0016
TKL-Pl-3 Stsc PK Stsc495g00002 PF07714 PK_Tyr_Ser-Thr 2.1e-05 CL0016
TKL-Pl-3 Tpr PK Tpr7g1345 PF00069 Pkinase 1.4e-42 CL0016
TKL-Pl-3 Trme PK Trme19347g00001 None None None None
TKL-Pl-3 Trme PK Trme89238g00001 None None None None
TKL-Pl-3 Trre PK Trre15g02420 PF00069 Pkinase 1.4e-42 CL0016
TKL-Pl-3 Trre PK Trre16g02478 PF00069 Pkinase 1.4e-42 CL0016
TKL-Pl-3 Trre PK Trre6g00812 PF00069 Pkinase 7.9e-10 CL0016
TKL-Pl-3 Tsu PK Tsu08g01738 PF00069 Pkinase 1.4e-42 CL0016
TKL-Pl-3 Vian PK Vian3g02371 PF00069 Pkinase 7.5e-42 CL0016
TKL-Pl-3 Vifa PK Vifa3g00376 PF00069 Pkinase 2.2e-43 CL0016
TKL-Pl-3 Vimu PK Vimu3g00749 PF00069 Pkinase 8.2e-37 CL0016
TKL-Pl-3 Vium PK Vium1797g00001 PF00069 Pkinase 2.6e-40 CL0016
TKL-Pl-3 Viun PK Viun10g01472 PF00069 Pkinase 5.9e-42 CL0016
TKL-Pl-3 Viun PK Viun10g01473 PF00481 PP2C 2.7e-62 CL0238
TKL-Pl-3 Viun PK Viun10g01476 PF00069 Pkinase 6.1e-45 CL0016
TKL-Pl-3 Viun PK Viun10g01477 PF00069 Pkinase 6.1e-45 CL0016
TKL-Pl-3 Viun PK Viun10g01478 PF00069 Pkinase 4.8e-45 CL0016
TKL-Pl-3 Viun PK Viun10g01479 PF00069 Pkinase 4.8e-45 CL0016
TKL-Pl-3 Viun PK Viun10g01480 PF00069 Pkinase 4.8e-45 CL0016
TKL-Pl-3 Viun PK Viun10g01481 PF00069 Pkinase 4.8e-45 CL0016
TKL-Pl-3 Viun PK Viun10g01482 PF00069 Pkinase 4.8e-45 CL0016
TKL-Pl-3 Viun PK Viun10g01483 PF00069 Pkinase 4.8e-45 CL0016
TKL-Pl-3 Vivi PK Vivi4g03801 PF00069 Pkinase 3.2e-42 CL0016
TKL-Pl-3 Vra PK Vra8g0423 PF00069 Pkinase 2.7e-45 CL0016
TKL-Pl-3 Vvi PK Vvi8g0532 PF00069 Pkinase 3.6e-47 CL0016