Family Search for PF06454 (THH1_TOM1-3_dom)
April 2024: See Interactive Tools for Functional Annotation of Bacterial Genomes for advice on using these tools.
Running HMMer for PF06454
PF06454 hits 10 sequences in PaperBLAST's database above the trusted cutoff. Showing all hits. Or show only hits to curated sequences or try another family.
TOM3_TOBAC / Q402F3 Tobamovirus multiplication protein 3; NtTOM3 from Nicotiana tabacum (Common tobacco) (see paper)
Aligns to 22:294 / 294 (92.9%), covers 99.3% of PF06454, 498.4 bits
- function: Necessary for the efficient intracellular multiplication of tobamoviruses, probably being a membrane anchor promoting the formation of the replication complex.
disruption phenotype: Reduced efficiency of intracellular multiplication of tobamoviruses (e.g. TMV-L, ToMV, PMMoV, and TMGMV), characterized by a reduced accumulation of viral coat protein (CP) and reduced amplification of TMV-related RNAs.
TOM3_ARATH / Q9ZUM2 Tobamovirus multiplication protein 3; AtTOM3 from Arabidopsis thaliana (Mouse-ear cress) (see paper)
AT2G02180 TOM3; protein binding from Arabidopsis thaliana
Aligns to 31:303 / 303 (90.1%), covers 99.6% of PF06454, 495.2 bits
- function: Contributes to the intracellular multiplication of tobamoviruses, probably being a membrane anchor promoting the formation of the replication complex.
subunit: Constituent of tobamovirus replication complex. Interacts with the helicase domain of tobamovirus-encoded replication proteins.
disruption phenotype: When associated with TOM1 disruption, reduced efficiency of intracellular multiplication of tobamoviruses (e.g. crucifer strain TMV-Cg), characterized by a reduced accumulation of viral coat protein (CP) and reduced amplification of TMV-related RNAs. - Identification of tobacco proteins associated with the stem-loop 1 RNAs of Potato virus X
Cho, Molecules and cells 2012 - “...Tobamovirus multiplication 3 34023/9.8 (-) 4 28.9 315 AT2G02180 1.00E-114 TF 15 4760596 35940/9.6 (+) 6 15.5 3101 AT4G31550 3.00E-75 TF 16 19716176 TMV-MP30...”
- Expression cassettes for meristem-preferential expression in plants
KEETMAN, 2008 - Mining the Arabidopsis thaliana genome for highly-divergent seven transmembrane receptors
Moriyama, Genome biology 2006 - “...(3/4) At1g75000, At3g06470, At4g36830 Perl1-like family protein (2/2) At1g16560, At5g62130 TOM3 family proteins (3/3) At1g14530, At2g02180, At4g21790 Expressed protein family 2 (3/5) At1g10660, At2g47115, At5g62960 Expressed protein family 3 (2/4) At3g09570, At5g42090 Expressed protein family 4 (2/5) At1g49470, At5g19870 Expressed protein family 5 (2/5) At3g63310, At4g02690...”
THH1_ARATH / Q948R8 Protein TOM THREE HOMOLOG 1 from Arabidopsis thaliana (Mouse-ear cress) (see paper)
AT1G14530 THH1 (TOM THREE HOMOLOG 1); virion binding from Arabidopsis thaliana
Aligns to 21:293 / 293 (93.2%), covers 99.3% of PF06454, 495.0 bits
- function: Contributes to the intracellular multiplication of tobamoviruses, probably being a membrane anchor promoting the formation of the replication complex.
subunit: Constituent of tobamovirus replication complex.
disruption phenotype: When associated with TOM1 disruption, reduced efficiency of intracellular multiplication of tobamoviruses (e.g. crucifer strain TMV-Cg), characterized by a reduced accumulation of viral coat protein (CP) and reduced amplification of TMV-related RNAs. - A gene co-expression network predicts functional genes controlling the re-establishment of desiccation tolerance in germinated Arabidopsis thaliana seeds
Costa, Planta 2015 - “...ACID PHOSPHATASE 10 (PAP10) AT1G13640 Phosphatidylinositol 3- and 4-kinase family protein AT2G31350 GLYOXALASE 2-5 (GLX2-5) AT1G14530 TOM THREE HOMOLOG 1 (THH1) AT2G33830 Dormancy/auxin-associated family protein AT1G15330 Cystathionine beta-synthase protein AT3G03310 LECITHIN:CHOLESTEROL ACYLTRANSFERASE 3 (LCAT3) AT1G15740 Leucine-rich repeat family protein AT3G20250 PUMILIO 5 (PUM5) AT1G21680 DPP6 N-terminal...”
- Expression-based and co-localization detection of arabinogalactan protein 6 and arabinogalactan protein 11 interactors in Arabidopsis pollen and pollen tubes
Costa, BMC plant biology 2013 - “...protein (TIR-NBS-LRR class) family At1g75040 2.63 Pathogenesis-related gene 5 At3g18690 1.88 MAP kinase substrate 1 At1g14530 1.82 TOM THREE HOMOLOG 1 (THH1); Protein of unknown function DUF1084 At1g58170 1.59 Disease resistance-responsive (dirigent-like protein) family protein At2g25240 1.41 Serine protease inhibitor (SERPIN) family protein 20.2.1: stress. abiotic....”
- Comprehensive analysis of genic male sterility-related genes in Brassica rapa using a newly developed Br300K oligomeric chip
Dong, PloS one 2013 - “...Unknown protein . . 3.7 . . . -1.8 3.8 64.2 88.9 Brapa_ESTC028237, 15704 BcMF12 AT1G14530 TOM THREE HOMOLOG . . . . . . 1.6 2.3 2.2 2.4 Brapa_ESTC035970 BcMF9 AT3G07820 Polygalacturonase 3 (PGA3) / pectinase 13.6 4.5 30.0 . 0.0 11.3 9.0 4.7 37.2...”
- MELOGEN: an EST database for melon functional genomics
Gonzalez-Ibeas, BMC genomics 2007 - “...75.4 Transmembrane protein-related/TOM1 (DUF1084) TOM2A bCL3115Contig1 1,113 AT1G32400 60.1 Senescence-associated family protein TOM3 bPSI_36-E03-M13R_c 857 AT1G14530 Tobamovirus multiplication protein 3/THH1 (DUF1084) UGE5 bCL1153Contig1 1,313 AT4G10960 70.9 UDP-glucose 4-epimerase/UDP-galactose 4- epimerase/Galactowaldenase (Epimerase) WRKY70 bA_25-B01-M13R_c 889 AT3G56400 42.1 WRKY family transcription factor, DNA-binding protein (WRKY) Figure 4A illustrates...”
- Mining the Arabidopsis thaliana genome for highly-divergent seven transmembrane receptors
Moriyama, Genome biology 2006 - “...proteins (3/4) At1g75000, At3g06470, At4g36830 Perl1-like family protein (2/2) At1g16560, At5g62130 TOM3 family proteins (3/3) At1g14530, At2g02180, At4g21790 Expressed protein family 2 (3/5) At1g10660, At2g47115, At5g62960 Expressed protein family 3 (2/4) At3g09570, At5g42090 Expressed protein family 4 (2/5) At1g49470, At5g19870 Expressed protein family 5 (2/5) At3g63310,...”
TOM1_ARATH / Q9FEG2 Tobamovirus multiplication protein 1; AtTOM1 from Arabidopsis thaliana (Mouse-ear cress) (see 4 papers)
AT4G21790 TOM1 (TOBAMOVIRUS MULTIPLICATION 1); protein binding from Arabidopsis thaliana
Aligns to 19:291 / 291 (93.8%), covers 99.6% of PF06454, 475.3 bits
- function: Necessary for the efficient intracellular multiplication of tobamoviruses, probably being a membrane anchor promoting the formation of the replication complex.
subunit: Constituent of tobamovirus replication complex. Interacts with TOM2A and with the helicase domain of tobamovirus-encoded replication proteins.
disruption phenotype: Reduced efficiency of intracellular multiplication of tobamoviruses (e.g. crucifer strain TMV-Cg), characterized by a reduced accumulation of viral coat protein (CP) and reduced amplification of TMV-related RNAs. - MELOGEN: an EST database for melon functional genomics
Gonzalez-Ibeas, BMC genomics 2007 - “...endotransglycosylase/endo- xyloglucan transferase/TCH4 TIP4 bA_23-B12-M13R_c 751 AT2G25810 50.5 Tonoplast intrinsic protein (MIP) TOM1 bCL4416Contig1 780 AT4G21790 75.4 Transmembrane protein-related/TOM1 (DUF1084) TOM2A bCL3115Contig1 1,113 AT1G32400 60.1 Senescence-associated family protein TOM3 bPSI_36-E03-M13R_c 857 AT1G14530 Tobamovirus multiplication protein 3/THH1 (DUF1084) UGE5 bCL1153Contig1 1,313 AT4G10960 70.9 UDP-glucose 4-epimerase/UDP-galactose 4- epimerase/Galactowaldenase...”
- A proteomics dissection of Arabidopsis thaliana vacuoles isolated from cell culture
Jaquinod, Molecular & cellular proteomics : MCP 2007 - “...At5g14120 At1g64650 At2g20230 At5g10840 At4g12650 At3g13772 At2g01970 At4g21790 At1g53210 15774 32939 63108 50625 29702 74418 59670 74185 68005 32988 63376 9.2...”
- Mining the Arabidopsis thaliana genome for highly-divergent seven transmembrane receptors
Moriyama, Genome biology 2006 - “...At1g75000, At3g06470, At4g36830 Perl1-like family protein (2/2) At1g16560, At5g62130 TOM3 family proteins (3/3) At1g14530, At2g02180, At4g21790 Expressed protein family 2 (3/5) At1g10660, At2g47115, At5g62960 Expressed protein family 3 (2/4) At3g09570, At5g42090 Expressed protein family 4 (2/5) At1g49470, At5g19870 Expressed protein family 5 (2/5) At3g63310, At4g02690 Single...”
TOM1_TOBAC / Q402F4 Tobamovirus multiplication protein 1; NtTOM1 from Nicotiana tabacum (Common tobacco) (see 2 papers)
Aligns to 16:288 / 288 (94.8%), covers 98.9% of PF06454, 471.7 bits
- function: Necessary for the efficient intracellular multiplication of tobamoviruses, probably being a membrane anchor promoting the formation of the replication complex.
subunit: Constituent of tobamovirus replication complex. Interacts with TOM2A and with the helicase domain of tobamovirus-encoded replication proteins.
disruption phenotype: Reduced efficiency of intracellular multiplication of tobamoviruses (e.g. TMV-L, ToMV, PMMoV, and TMGMV), characterized by a reduced accumulation of viral coat protein (CP) and reduced amplification of TMV-related RNAs.
XP_016449812 tobamovirus multiplication protein 1 from Nicotiana tabacum
Aligns to 16:288 / 288 (94.8%), covers 98.9% of PF06454, 471.7 bits
NP_001319003 tobamovirus multiplication-like protein (DUF1084) from Arabidopsis thaliana
Aligns to 21:244 / 245 (91.4%), covers 79.9% of PF06454, 387.4 bits
AT3G59090 hypothetical protein from Arabidopsis thaliana
2 alignments in 11:330 / 373 (76.7%), covering up to 52.0% of PF06454, 96.9 bits
- Whole proteome identification of plant candidate G-protein coupled receptors in Arabidopsis, rice, and poplar: computational prediction and in-vivo protein coupling
Gookin, Genome biology 2008 - “...for HIV pathogenesis [ 55 ]. Two of the splice variant products encoded by the At3g59090 locus (Cand3 and Cand5) were chosen based on the fact that they differ primarily in their amino-terminal regions and both are annotated as being similar to TOM1. Our BLAST analyses...”
- “...blue blocks, TM domains; red lines, intracellular regions. Queries with all three splice variants of At3g59090 (Cand3, 4, and 5) detected a single sequence in the Oryza proteome (Os01g54784.1) and two sequences (Pop205267, Pop551235) in the Populus proteome (Figure 6e ). BLAST analyses using these At3g59090...”
- Mining the Arabidopsis thaliana genome for highly-divergent seven transmembrane receptors
Moriyama, Genome biology 2006 - “...(2/5) At3g63310, At4g02690 Single copy genes (8) At1g48270 (GCR1), At1g57680, At2g41610, At2g31440, At3g04970, At3g26090 (RGS1), At3g59090, At4g20310 Single member from small gene families (8) At2g01070, At3g19260, At2g35710, At2g16970, At1g15620, At1g63110, At4g36850, At5g27210 Single member from big gene families (4) At1g71960, At3g01550, At5g23990, At5g37310 *The number of...”
DDB_G0293176 hypothetical protein from Dictyostelium discoideum AX4
Aligns to 1393:1684 / 1692 (17.3%), covers 92.7% of PF06454, 36.3 bits
- Identification of novel proteins in the Dictyostelium discoideum chemorepulsion pathway using REMI
Kirolos, microPublication biology 2022 - “...subunit 4 ArcD, the cell-cell adhesion and recognition protein TgrB1, a predicted protein encoded by DDB_G0293176; I-TASSER suggests that this has structural similarity to the mechanical forces sensing protein NompC, a predicted protein encoded by DDB_G0273285; I-TASSER suggests that this has structural similarity to the nuclear...”
- “...(I-Tasser: Trk1) DDB_G0292412 DDB_G0287723 DDB_G0287723 xpo6 DDB_G0293076 sort1 DDB_G0290081 DDB_G0284321 DDB_G0284321 arcD DDB_G0269102 tgrB1 DDB_G0280689 DDB_G0293176 (I-Tasser: NompC) DDB_G0293176 DDB_G02811467 DDB_G0281147 DDB_G0273285 (I-Tasser: Nup205) DDB_G0273285 DDB_G0270016 (I-Tasser: SDR) DDB_G0270016 pikH DDB_G0291093 DDB_G0281723 DDB_G0281723 Reagents Reagent Category Number Source HL5 HLG0102 Formedium Blasticidin B-800-100 GoldBio Quick-DNA Miniprep...”
PITG_12548 type I inositol-3,4-bisphosphate 4-phosphatase, putative from Phytophthora infestans T30-4
Aligns to 45:288 / 1346 (18.1%), covers 71.1% of PF06454, 28.1 bits
- Switchable Nitroproteome States of Phytophthora infestans Biology and Pathobiology
Izbiańska, Frontiers in microbiology 2019 - “...Alcohol dehydrogenase 103 PITG_10292 Oxidoreductase activity / others S25 PREDICTED: Type I inositol-3,4-bisphosphate 4-phosphatase 48 PITG_12548 Signal transduction S26 Peroxiredoxin-like protein 123 PITG_00585 Cell redox homeostasis / response to stress S27 Carbonic anhydrase 292 PITG_00682 Carbohydrate metabolism / energy S28 PREDICTED: Secreted RxLR effector peptide protein...”
Or search for genetic data about PF06454 in the Fitness Browser
by Morgan Price,
Arkin group
Lawrence Berkeley National Laboratory