SecReT4
T4SS ID498
StrainRickettsia typhi str. Wilmington
Repliconchromosome [Browse all T4SS(s) in this replicon]
AccessionNC_006142
Location29679..47423; 230866..231252; 351539..359496; 982177..984609
NameVirB
Functioneffector translocation
ClassificationType IVA; Type P
sequence This T4SS has been mentioned in a genome sequencing report.
structure Information of structure: structureVirB8-like protein

T4SS components
ComponentVirB1VirB2VirB3VirB4VirB5VirB6VirB7VirB8VirB9
Number011205022
ComponentVirB10VirB11VirD4
Number111

The information of T4SS components from NC_006142
Region 1: 29679..47423
#Locus tag (Gene)Coordinates [+/-], size (bp)Protein GIProductComponent
1RT002325145..25381 [+], 23751473236hypothetical protein 
2RT0024 (rplS)25526..25942 [-], 4175147323750S ribosomal protein L19 
3RT0025 (trmD)25959..26663 [-], 70551473238tRNA (guanine-N(1)-)-methyltransferase 
4RT0026 (ackA)27080..28237 [-], 115851473239acetokinase 
5RT0027 (pta)28239..29288 [-], 105051473240phosphate acetyltransferase 
6RT002829679..33143 [-], 346551473241VirB6-like protein of the type IV secretion system  VirB6
7RT002933268..35928 [-], 266151473242VirB6-like protein of the type IV secretion system  VirB6
8RT003036090..39005 [-], 291651473243VirB6-like protein of the type IV secretion system  VirB6
9RT003139009..41033 [-], 202551473244VirB6-like protein of the type IV secretion system  VirB6
10RT003241020..44427 [-], 340851473245VirB6-like protein of the type IV secretion system  VirB6
11RT0033 (virB4a)44546..46963 [-], 241851473246type IV secretion system ATPase VirB4  VirB4
12RT0034 (virB3)47136..47423 [-], 28851473247type IV secretion system protein VirB3  VirB3
13RT0035 (engB)48098..48742 [-], 64551473248ribosome biogenesis GTP-binding protein YsxC 
14RT0037 (rpmE)49208..49444 [-], 2375147324950S ribosomal protein L31 
15RT0038 (rpmB)49441..49734 [-], 2945147325050S ribosomal protein L28 
16RT003951017..51268 [-], 25251473251hypothetical protein 
17RT0040 (mkl)51270..52028 [-], 75951473252ribonucleotide ABC transporter ATP-binding protein 
 
Region 2: 230866..231252
#Locus tag (Gene)Coordinates [+/-], size (bp)Protein GIProductComponent
1RT0178227318..227791 [+], 47451473387hypothetical protein 
2RT0179 (holA)227799..228764 [+], 96651473388DNA polymerase III subunit delta 
3RT0180 (coq7)228891..229427 [+], 53751473389ubiquinone biosynthesis protein CoQ7 
4RT0181230866..231252 [+], 38751473390hypothetical protein  VirB2
5RT0182231515..232138 [-], 62451473391hypothetical protein 
6RT0183 (dapD)232221..233045 [+], 825514733922,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase 
7RT0184233126..233230 [+], 10551473393hypothetical protein 
 
Region 3: 351539..359496
#Locus tag (Gene)Coordinates [+/-], size (bp)Protein GIProductComponent
1RT0274347967..349424 [-], 145851473479monovalent cation/H+ antiporter subunit D 
2RT0275349476..350768 [-], 129351473480monovalent cation/H+ antiporter subunit D 
3RT0276351086..351421 [-], 33651473481monovalent cation/H+ antiporter subunit C 
4RT0277 (trbG)351539..352291 [-], 75351473482VirB9-like conjugal transfer protein precursor  VirB9
5RT0278352293..352991 [-], 69951473483VirB8-like protein of type IV secretion system  VirB8
6RT0279353439..353618 [+], 18051473484hypothetical protein 
7RT0280353669..354400 [+], 73251473485VirB8-like protein of the Type IV secretion system  VirB8
8RT0281 (virB9)354387..354863 [+], 47751473486VirB9 protein precursor of the type IV secretion system  VirB9
9RT0282 (virB10)354946..356397 [+], 145251473487VirB10 protein of the type IV secretion system  VirB10
10RT0283 (virB11)356394..357398 [+], 100551473488type IV secretion system ATPase VirB11  VirB11
11RT0284 (virD4)357721..359496 [+], 177651473489type IV secretion system component VirD4  VirD4
12RT0285 (gppA)359505..360917 [+], 141351473490guanosine pentaphosphate phosphohydrolase 
13RT0286362555..363442 [+], 88851473491hypothetical protein 
14RT0287363426..364250 [+], 82551473492hypothetical protein 
 
Region 4: 982177..984609
#Locus tag (Gene)Coordinates [+/-], size (bp)Protein GIProductComponent
1RT0768 (ampG3)978469..979731 [+], 126351473949murein peptide permease protein AmpG 
2RT0769 (tatC)979906..980661 [+], 75651473950Sec-independent protein translocase protein TatC 
3RT0770 (serS)980639..981916 [+], 127851473951seryl-tRNA synthetase 
4RT0771 (virB4b)982177..984609 [+], 243351473952VirB4 protein precursor  VirB4
5RT0772984575..984706 [-], 13251473953hypothetical protein 
6RT0773984721..988230 [+], 351051473954hypothetical protein 
7RT0774 (terC)988235..989143 [+], 90951473955tellurium resistance protein 
 
flank Genes in the 5-Kb flanking regions if available, or non-essential genes in the T4SS gene cluster if any.

Download FASTA format files
Proteins        Genes

Effectors
RalF

The information of protein effectors
#Locus tag (Gene)Coordinates [+/-], size (bp)Protein GIProduct  *
1RT0362 458514..459878 [+], 136551473566Sec7-domain-containing proteinexperimental  RalFinteraction
experimental T4SE derived from experimental literature.
interaction This effector contains information of interaction.

Download FASTA format files
Proteins        Genes
The information on structure of this T4ss

#NameImageResourceDetailReference
1VirB8-like protein4O3V PDB (4O3V)Crystal structure of a VirB8-like protein of type IV secretion system from Rickettsia typhi.(1) PubMed: 26646013
(1) Gillespie JJ et al. (2015). Structural Insight into How Bacteria Prevent Interference between Multiple Divergent Type IV Secretion Systems. MBio. 6(6):e01867-15. [PudMed:26646013] experimental
The information on host-pathogen interaction.

#Name(Protein GI)Host site/SubstrateSourceFunctionReference
1RalF (51473566)ADP ribosylation factor 6 (ARF6)humanRalF interacts with ARF6 to recruit PI(4,5)P2 at entry foci to initiate actin remodeling and facilitates bacterial invasion ultimately.(1) PubMed: 26291822experimental
experimental This T4SE is mentioned in the literature.

(1) Rennoll-Bankert KE et al. (2015). Which Way In? The RalF Arf-GEF Orchestrates Rickettsia Host Cell Invasion. PLoS Pathog. 11(8):e1005115. [PudMed:26291822] experimental
(1) Gillespie JJ et al. (2016). The Rickettsia type IV secretion system: unrealized complexity mired by gene family expansion. Pathog Dis. 74(6). pii: ftw058. [PudMed:27307105] in_silico
(2) Gillespie JJ; Ammerman NC; Dreher-Lesnick SM; Rahman MS; Worley MJ; Setubal JC; Sobral BS; Azad AF (2009). An anomalous type IV secretion system in Rickettsia is evolutionarily conserved. PLoS One. 4(3):e4833. [PudMed:19279686] in_silico
(3) McLeod MP; Qin X; Karpathy SE; Gioia J; Highlander SK; Fox GE; McNeill TZ; Jiang H; Muzny D; Jacob LS; Hawes AC; Sodergren E; Gill R; Hume J; Morgan M; Fan G; Amin AG; Gibbs RA; Hong C; Yu XJ; Walker DH; Weinstock GM (2004). Complete genome sequence of Rickettsia typhi and comparison with sequences of other rickettsiae. J Bacteriol. 186(17):5842-55. [PudMed:15317790]
 
in_silico This literature contains bioinformatics investigation

Genomics & Bioinformatics Group in MML, SJTU