Detailed information of component protein


Summary

Component ID T6CP000122
Component protein type TssH
T6SS ID (Type) T6SS00016 experimental (Type i5)
Strain Agrobacterium fabrum str. C58
Replicon chromosome linear
Sequence Protein sequence (893 a.a.); Nucleotide sequence (2679 bp)
Reference
[1] Ma LS, Narberhaus F, Lai EM. IcmF family protein TssM exhibits ATPase activity and energizes type VI secretion. J Biol Chem. 2012 May 4;287(19):15610-21. doi: 10.1074/jbc.M111.301630. Epub 2012 Mar 5. PMID: 22393043
[2] Wu HY, Chung PC, Shih HW, et al. Secretome analysis uncovers an Hcp-family protein secreted via a type VI secretion system in Agrobacterium tumefaciens. J Bacteriol. 2008 Apr;190(8):2841-50. doi: 10.1128/JB.01775-07. Epub 2008 Feb 8. PMID: 18263727
[3] Wu CF, Lin JS, Shaw GC, et al. Acid-induced type VI secretion system is regulated by ExoR-ChvG/ChvI signaling cascade in Agrobacterium tumefaciens. PLoS Pathog. 2012 Sep;8(9):e1002938. doi: 10.1371/journal.ppat.1002938. Epub 2012 Sep 27. PMID: 23028331
[4] Lin JS, Ma LS, Lai EM. Systematic dissection of the agrobacterium type VI secretion system reveals machinery and secreted components for subcomplex formation. PLoS One. 2013 Jul 5;8(7):e67647. doi: 10.1371/journal.pone.0067647. Print 2013. PMID: 23861778
[5] Ma LS, Hachani A, Lin JS, et al. Agrobacterium tumefaciens deploys a superfamily of type VI secretion DNase effectors as weapons for interbacterial competition in planta. Cell Host Microbe. 2014 Jul 9;16(1):94-104. doi: 10.1016/j.chom.2014.06.002. Epub 2014 Jun 26. PMID: 24981331
[6] Heckel BC, Tomlinson AD, Morton ER, et al. Agrobacterium tumefaciens exoR controls acid response genes and impacts exopolysaccharide synthesis, horizontal gene transfer, and virulence gene expression. J Bacteriol. 2014 Sep;196(18):3221-33. doi: 10.1128/JB.01751-14. Epub 2014 Jun 30. PMID: 24982308
[7] Lin JS, Wu HH, Hsu PH, et al. Fha interaction with phosphothreonine of TssL activates type VI secretion in Agrobacterium tumefaciens. PLoS Pathog. 2014 Mar 13;10(3):e1003991. doi: 10.1371/journal.ppat.1003991. eCollection 2014 Mar. PMID: 24626341
[8] Heckel BC, Tomlinson AD, Morton ER, et al. Agrobacterium tumefaciens exoR controls acid response genes and impacts exopolysaccharide synthesis, horizontal gene transfer, and virulence gene expression. J Bacteriol. 2014 Sep;196(18):3221-33. doi: 10.1128/JB.01751-14. Epub 2014 Jun 30. PMID: 24982308
[9] Ma LS, Lin JS, Lai EM. An IcmF family protein, ImpLM, is an integral inner membrane protein interacting with ImpKL, and its walker a motif is required for type VI secretion system-mediated Hcp secretion in Agrobacterium tumefaciens. J Bacteriol. 2009 Jul;191(13):4316-29. doi: 10.1128/JB.00029-09. Epub 2009 Apr 24. PMID: 19395482
experimental Experimental investigation has been performed on this T6SS
External database links

Locus tag (Gene) ATU_RS20345
Coordinate (Strand) 1477260..1479938 (+)
NCBI ID WP_010973763.1
RefSeq NC_003063
Uniprot ID Q7CUP5_AGRFC, A0A083ZID1_RHIRD
KEGG ID atu:Atu4344
PDB ID -
Pfam domain hit(s)

Domain Pfam ID E-value Aligned region
AAA_2 PF07724.16 3.7e-36 594..758
AAA_lid_9 PF17871.3 9.7e-27 363..462
ClpB_D2-small PF10431.11 5.2e-11 766..840
AAA PF00004.31 6e-11 223..332
Clp_N PF02861.22 5.6e-06 24..73
Transmembrane helices

  • Transmembrane helices are predicted using TMHMM 2.0 software.

Prediction                 Region     Sequence
Outside 1-892 MSHIDLNRLVGALEPDLRVTLEAAASVAVRMGHRYVDIPHWLLAVVDAGIYAETFDELKIPLPVLKAEIGRSLEEAIIGDGEALSLSQNILTAAREAWILASLEAGRDRVTLCDLLLAMDEETSLRSFVRSAFPSLKAMDRGALERLRSSAENGAGVDVPSALTSSGEAGSAQAAGQNDFLRLYTHDMTTDARNGKVDPVIGRDDELRQLVDILTRRRQNNPILVGEAGVGKTAVAEALALEIASGNVPEKLRNVCLLNLDISLLQAGAGVKGEFERRLHGVIDAVKRSAEPVILFIDEAHGLVGAGGAAGQGDAANILKPALARGEVRTVAATTWSEYKKYFEKDAALTRRFQPVHVREPDEATAIRMLRGVADTFVSHHNVTVRDEAIVAAVQLSARYMPARQLPDKAVSLLDTAAAAVSLARQTLPERLRAMESERHLLSDELNWLLREPQDEDMQNRIQSIRDELERLEAGIDDLRGRYDAEMAELAALSEEQPAETGASNVSHLRPATEMRPANAERLVPTVVDREAIAAVVSRWTGIPLGKLLADQIESARTLDVRMRQRVVGQDAAITRIADAMRTARAGLSDPRRPPAVFFLVGMSGTGKTETALSLADLLYGGNSHLTTINMSEFKEEHKVSLLLGSPPGYVGFGEGGVLTEAVRRRPFGVLLLDEIDKAHPGVQDIFYQVFDKGVLRDGEGRDVDFKNTTIFMTANTGSELLSALSADPDTMPEGEALEALLMPELTKQFKPAFLGRTIILPFMPLGAEELASVVDMQIGKIRDRVLATYGTDLRLSDAARDALVARAGASEIGARAIEIMIGKDLLPPLSSFFLEKVIAGERVGKIVVDFGENGFGIRAEAAGEADEFAVTEEVGVDKVAASDGATRRMRH


Signal peptides
  • Sec/SPI: "standard" secretory signal peptides transported by the Sec translocon and cleaved by Signal Peptidase I (Lep).
  • Sec/SPII: lipoprotein signal peptides transported by the Sec translocon and cleaved by Signal Peptidase II (Lsp).
  • Tat/SPI: Tat signal peptides transported by the Tat translocon and cleaved by Signal Peptidase I (Lep).
Prediction        Probability Cleavage site Signal peptide sequence
Other 0.9980 - -


  Protein sequence: 893 a.a.    

>T6CP000122 NC_003063:1477260-1479938 [Agrobacterium fabrum str. C58] [TssH]
MSHIDLNRLVGALEPDLRVTLEAAASVAVRMGHRYVDIPHWLLAVVDAGIYAETFDELKIPLPVLKAEIGRSLEEAIIGD
GEALSLSQNILTAAREAWILASLEAGRDRVTLCDLLLAMDEETSLRSFVRSAFPSLKAMDRGALERLRSSAENGAGVDVP
SALTSSGEAGSAQAAGQNDFLRLYTHDMTTDARNGKVDPVIGRDDELRQLVDILTRRRQNNPILVGEAGVGKTAVAEALA
LEIASGNVPEKLRNVCLLNLDISLLQAGAGVKGEFERRLHGVIDAVKRSAEPVILFIDEAHGLVGAGGAAGQGDAANILK
PALARGEVRTVAATTWSEYKKYFEKDAALTRRFQPVHVREPDEATAIRMLRGVADTFVSHHNVTVRDEAIVAAVQLSARY
MPARQLPDKAVSLLDTAAAAVSLARQTLPERLRAMESERHLLSDELNWLLREPQDEDMQNRIQSIRDELERLEAGIDDLR
GRYDAEMAELAALSEEQPAETGASNVSHLRPATEMRPANAERLVPTVVDREAIAAVVSRWTGIPLGKLLADQIESARTLD
VRMRQRVVGQDAAITRIADAMRTARAGLSDPRRPPAVFFLVGMSGTGKTETALSLADLLYGGNSHLTTINMSEFKEEHKV
SLLLGSPPGYVGFGEGGVLTEAVRRRPFGVLLLDEIDKAHPGVQDIFYQVFDKGVLRDGEGRDVDFKNTTIFMTANTGSE
LLSALSADPDTMPEGEALEALLMPELTKQFKPAFLGRTIILPFMPLGAEELASVVDMQIGKIRDRVLATYGTDLRLSDAA
RDALVARAGASEIGARAIEIMIGKDLLPPLSSFFLEKVIAGERVGKIVVDFGENGFGIRAEAAGEADEFAVTEEVGVDKV
AASDGATRRMRH*

  Nucleotide sequence: 2679 bp    

>T6CP000122 NC_003063:1477260-1479938 [Agrobacterium fabrum str. C58] [TssH]
ATGTCGCATATCGATCTCAATCGCCTCGTTGGAGCGCTTGAGCCAGACCTGCGCGTTACCCTCGAAGCTGCGGCTTCCGT
TGCGGTGCGTATGGGGCACAGGTACGTGGATATACCGCATTGGCTGCTGGCGGTTGTAGATGCCGGTATCTATGCGGAAA
CATTCGACGAATTAAAAATTCCACTTCCGGTATTGAAGGCTGAAATCGGCCGCAGTCTGGAAGAGGCCATTATCGGCGAC
GGGGAGGCCTTGTCGCTCTCCCAGAACATCCTCACGGCAGCCCGGGAGGCATGGATTCTTGCGTCGCTGGAGGCTGGCCG
TGACCGCGTGACGCTTTGCGATCTCCTGTTGGCGATGGATGAGGAAACCTCACTTCGCTCCTTTGTCCGCTCGGCATTTC
CGTCTCTCAAGGCGATGGATCGCGGTGCGCTTGAGCGTCTTCGCAGCTCGGCCGAGAACGGCGCAGGCGTGGATGTTCCT
TCCGCGCTGACAAGTTCAGGAGAGGCAGGCTCGGCACAGGCCGCCGGCCAGAATGATTTCTTGCGCCTTTACACCCACGA
CATGACCACCGATGCCCGCAACGGCAAGGTCGATCCTGTTATCGGCCGCGATGATGAGTTGCGCCAGCTCGTTGATATTC
TGACCCGCCGCCGACAGAACAATCCTATTCTGGTGGGCGAGGCCGGCGTGGGCAAGACCGCGGTCGCCGAAGCGCTGGCG
TTGGAAATCGCCTCCGGCAACGTTCCGGAGAAACTGCGCAATGTCTGCCTGCTGAACCTCGATATTTCGCTGCTGCAGGC
CGGTGCCGGCGTGAAAGGTGAGTTCGAGCGGCGCCTGCACGGCGTGATCGATGCGGTCAAGCGTTCGGCCGAACCGGTCA
TCCTGTTCATCGATGAGGCCCATGGCCTTGTTGGCGCGGGTGGTGCGGCGGGCCAGGGTGATGCGGCGAATATTCTTAAG
CCCGCACTCGCACGAGGCGAGGTGCGGACCGTCGCGGCAACGACGTGGAGTGAATACAAGAAATATTTCGAGAAGGATGC
GGCGCTGACGCGTCGTTTCCAGCCAGTGCATGTGCGCGAGCCGGACGAGGCGACTGCGATACGGATGTTGCGCGGTGTGG
CGGATACTTTCGTCAGCCATCACAACGTTACCGTTCGTGATGAGGCGATCGTGGCTGCCGTGCAATTATCCGCGCGCTAC
ATGCCCGCTCGGCAATTGCCGGACAAGGCGGTCAGCCTGCTCGATACCGCCGCCGCGGCCGTTTCGCTGGCGCGGCAGAC
GTTGCCAGAGCGGTTACGTGCCATGGAAAGCGAGCGACACCTTCTGTCTGACGAACTGAACTGGCTTCTGCGTGAACCGC
AGGATGAGGACATGCAAAACCGCATCCAGTCGATACGCGACGAGCTTGAACGGCTTGAGGCCGGGATCGATGATCTGCGC
GGCCGTTATGACGCGGAAATGGCTGAACTGGCGGCGCTCAGTGAAGAGCAGCCGGCCGAAACCGGCGCGTCGAATGTTTC
GCACCTGCGGCCTGCCACGGAGATGCGGCCCGCAAATGCCGAAAGACTTGTTCCGACAGTGGTTGATCGTGAAGCGATCG
CCGCCGTCGTCTCGCGATGGACCGGGATTCCGCTCGGCAAACTTCTGGCGGACCAGATCGAAAGCGCCCGCACTCTGGAT
GTGCGCATGCGGCAGCGCGTGGTTGGGCAGGATGCCGCAATTACCCGGATTGCCGATGCCATGCGCACCGCCCGTGCCGG
ATTGTCCGATCCGCGCCGTCCGCCGGCGGTGTTTTTCCTTGTCGGCATGTCCGGAACGGGCAAGACCGAAACGGCGCTGT
CGCTGGCCGATCTTCTCTATGGCGGCAACAGCCATCTGACGACGATCAACATGTCGGAGTTCAAGGAGGAGCACAAGGTT
TCCCTGCTTCTCGGCTCACCGCCTGGCTATGTCGGTTTCGGCGAAGGTGGGGTGCTGACGGAAGCGGTGCGCCGCCGGCC
GTTCGGCGTTCTGCTTCTCGATGAAATCGACAAGGCTCACCCCGGCGTCCAGGATATTTTTTATCAGGTGTTCGACAAGG
GCGTGCTTCGCGATGGCGAAGGCCGCGACGTCGATTTCAAGAACACCACGATCTTCATGACGGCCAATACCGGTTCGGAA
TTGCTGTCGGCGCTTTCCGCCGATCCCGACACTATGCCGGAAGGTGAGGCGCTGGAAGCGCTTCTGATGCCGGAGCTTAC
CAAACAGTTCAAGCCCGCATTCCTCGGGCGCACGATCATCCTGCCCTTCATGCCGCTTGGCGCGGAGGAGCTTGCAAGTG
TCGTGGACATGCAGATTGGCAAGATCAGGGACCGTGTGCTCGCAACATATGGCACCGACCTGAGATTGTCCGATGCGGCG
CGCGATGCCTTGGTGGCGCGCGCCGGTGCAAGTGAAATCGGCGCACGCGCCATCGAAATCATGATCGGCAAGGATCTCCT
GCCGCCTCTTTCCAGCTTTTTCCTCGAGAAGGTCATCGCGGGAGAACGCGTCGGGAAGATCGTTGTCGATTTTGGTGAAA
ACGGGTTCGGCATTCGTGCGGAAGCGGCTGGGGAAGCAGATGAATTCGCCGTAACCGAAGAGGTTGGGGTGGATAAAGTT
GCCGCGTCGGATGGGGCTACCCGACGCATGCGGCATTAA