ICEberg
ICEberg ID39
NameICESpuPO1
FamilySXT/R391
OrganismShewanella putrefaciens W3-18-1
Size (bp)111191
GC content [Genome] (%)48 [45]
Insertion siteprfC (Sputw3181_1184)
FunctionZn/Co/Cd efflux system; restriction modification system
Species that ICE can be transferred toShewanella putrefaciens
Nucleotide SequenceCP000503 (complete ICE sequence in this genome)
Replicon chromosome (4708380 bp, Project:13902) [NC_008750]
Genome coordinates1224492..1335682
Link to view genome context of this ICE in the genome browser
experimental This is a ICE derived from experimental literature.
Complete gene list of ICESpuPO1 form CP000503
#GeneCoordinates [+/-], size (bp)Protein GI Product *
1Sputw3181_10731219611..1219880 [+], 270120557996 SSU ribosomal protein S15P
2Sputw3181_10741219957..1222005 [-], 2049120557997 diguanylate cyclase/phosphodiesterase
3Sputw3181_10751222201..1224300 [+], 2100120557998 Polyribonucleotide nucleotidyltransferase
4Sputw3181_10761224492..1225397 [+], 906120557999  [UniProt]  [KEGG]TPR repeat-containing protein
5Sputw3181_10771226232..1227473 [-], 1242120558000  [UniProt]  [KEGG]phage integrase family protein
6Sputw3181_10781227475..1227744 [-], 270120558001  [UniProt]  [KEGG]hypothetical protein
7Sputw3181_10791227747..1228721 [-], 975120558002  [UniProt]  [KEGG]hypothetical protein
8Sputw3181_10801228826..1229104 [-], 279120558003  [UniProt]  [KEGG]hypothetical protein
9Sputw3181_10811229186..1229629 [+], 444120558004  [UniProt]  [KEGG]hypothetical protein
10Sputw3181_10821229640..1230908 [-], 1269120558005  [UniProt]  [KEGG]DNA-directed DNA polymerase
11Sputw3181_10831230916..1231365 [-], 450120558006  [UniProt]  [KEGG]UmuD protein. Serine peptidase. MEROPS family S24
12Sputw3181_10841232005..1232910 [+], 906120558007  [UniProt]  [KEGG]Exonuclease, RNase T and DNA polymerase III
13Sputw3181_10851232998..1233297 [+], 300120558008  [UniProt]  [KEGG]hypothetical protein
14Sputw3181_10861233619..1234542 [+], 924120558009  [UniProt]  [KEGG]conserved hypothetical protein
15Sputw3181_10871234656..1237079 [+], 2424120558010  [UniProt]  [KEGG]N-6 DNA methylaseVF
16Sputw3181_10881237086..1238375 [+], 1290120558011  [UniProt]  [KEGG]putative type I site-specific restriction-modification system, S subunit
17Sputw3181_10891238385..1239548 [+], 1164120558012  [UniProt]  [KEGG]hypothetical protein
18Sputw3181_10901239563..1242580 [+], 3018120558013  [UniProt]  [KEGG]type III restriction enzyme, res subunitVF
19Sputw3181_10911242603..1243688 [+], 1086120558014  [UniProt]  [KEGG]ATP-binding region, ATPase-like protein
20Sputw3181_10921243711..1244262 [+], 552120558015  [UniProt]  [KEGG]conserved hypothetical protein
21Sputw3181_10931244391..1244564 [+], 174120558016  [UniProt]  [KEGG]conserved hypothetical protein
22Sputw3181_10941244566..1244934 [+], 369120558017  [UniProt]  [KEGG]membrane-bound metal-dependent hydrolase
23Sputw3181_10951244944..1246098 [+], 1155120558018  [UniProt]  [KEGG]conserved hypothetical protein
24Sputw3181_10961246091..1247281 [+], 1191120558019  [UniProt]  [KEGG]conserved hypothetical protein
25Sputw3181_10971247282..1247995 [+], 714120558020  [UniProt]  [KEGG]conserved hypothetical protein
26Sputw3181_10981248113..1250263 [+], 2151120558021  [UniProt]  [KEGG]metal dependent phosphohydrolase
27Sputw3181_10991250312..1252135 [+], 1824120558022  [UniProt]  [KEGG]conserved hypothetical protein
28Sputw3181_11001252145..1252705 [+], 561120558023  [UniProt]  [KEGG]hypothetical protein
29Sputw3181_11011252692..1253327 [+], 636120558024  [UniProt]  [KEGG]hypothetical protein
30Sputw3181_11021253354..1253941 [-], 588120558025  [UniProt]  [KEGG]hypothetical protein
31Sputw3181_11031253955..1254194 [-], 240120558026  [UniProt]  [KEGG]hypothetical protein
32Sputw3181_11041254230..1254511 [+], 282120558027  [UniProt]  [KEGG]hypothetical protein
33Sputw3181_11051254508..1255134 [+], 627120558028  [UniProt]  [KEGG]hypothetical protein
34Sputw3181_11061255115..1256014 [+], 900120558029  [UniProt]  [KEGG]hypothetical protein
35Sputw3181_11071256017..1257306 [+], 1290120558030  [UniProt]  [KEGG]TraB pilus assembly family protein
36Sputw3181_11081257303..1257953 [+], 651120558031  [UniProt]  [KEGG]hypothetical protein
37Sputw3181_11091257950..1258339 [+], 390120558032  [UniProt]  [KEGG]hypothetical protein
38Sputw3181_11101258748..1261243 [+], 2496120558033  [UniProt]  [KEGG]heavy metal translocating P-type ATPase
39Sputw3181_11111261269..1261733 [+], 465120558034  [UniProt]  [KEGG]putative transcriptional regulator, MerR family
40Sputw3181_11131262840..1263595 [-], 756120558035  [UniProt]  [KEGG]IstB domain protein ATP-binding protein
41Sputw3181_11141263607..1265148 [-], 1542120558036  [UniProt]  [KEGG]Integrase, catalytic region
42Sputw3181_11151265250..1265513 [+], 264120558037  [UniProt]  [KEGG]hypothetical protein
43Sputw3181_11161265548..1267053 [+], 1506120558038  [UniProt]  [KEGG]Integrase, catalytic regionVF
44Sputw3181_11171267046..1267801 [+], 756120558039  [UniProt]  [KEGG]IstB domain protein ATP-binding proteinVF
45Sputw3181_11181267824..1268675 [-], 852120558040  [UniProt]  [KEGG]Integrase, catalytic regionVF
46Sputw3181_11191268690..1268974 [-], 285120558041  [UniProt]  [KEGG]transposase IS3/IS911 family proteinVF
47Sputw3181_11201269595..1270020 [+], 426120558042  [UniProt]  [KEGG]transcriptional regulator, MerR family
48Sputw3181_11221270783..1271136 [+], 354120558043  [UniProt]  [KEGG]transcriptional regulator, ArsR family
49Sputw3181_11241272501..1273529 [+], 1029120558044  [UniProt]  [KEGG]cation diffusion facilitator family transporter
50Sputw3181_11251273574..1273852 [+], 279120558045  [UniProt]  [KEGG]regulatory protein, ArsR
51Sputw3181_11261274449..1277103 [+], 2655120558046  [UniProt]  [KEGG]heavy metal translocating P-type ATPase
52Sputw3181_11271277356..1278207 [-], 852120558047  [UniProt]  [KEGG]Integrase, catalytic regionVF
53Sputw3181_11281278222..1278506 [-], 285120558048  [UniProt]  [KEGG]transposase IS3/IS911 family proteinVF
54Sputw3181_11291278712..1280022 [+], 1311120558049  [UniProt]  [KEGG]efflux transporter, RND family, MFP subunit
55Sputw3181_11301280019..1283210 [+], 3192120558050  [UniProt]  [KEGG]transporter, hydrophobe/amphiphile efflux-1 (HAE1) family
56Sputw3181_11311283212..1284705 [+], 1494120558051  [UniProt]  [KEGG]RND efflux system, outer membrane lipoprotein, NodT family
57Sputw3181_11351285681..1285902 [+], 222120558052  [UniProt]  [KEGG]hydrophobe/amphiphile efflux-1 HAE1AR
58Sputw3181_11361286021..1286191 [+], 171120558053  [UniProt]  [KEGG]putative Copper chaperone
59Sputw3181_11381287161..1287415 [+], 255120558054  [UniProt]  [KEGG]hypothetical protein
60Sputw3181_11391287626..1288318 [+], 693120558055  [UniProt]  [KEGG]hypothetical protein
61Sputw3181_11401288318..1290717 [+], 2400120558056  [UniProt]  [KEGG]sex pilus assembly protein
62Sputw3181_11411290710..1291057 [+], 348120558057  [UniProt]  [KEGG]hypothetical protein
63Sputw3181_11421291041..1291553 [+], 513120558058  [UniProt]  [KEGG]hypothetical protein
64Sputw3181_11431291564..1292688 [+], 1125120558059  [UniProt]  [KEGG]hypothetical protein
65Sputw3181_11441292672..1293700 [+], 1029120558060  [UniProt]  [KEGG]TraU family protein
66Sputw3181_11451293703..1297395 [+], 3693120558061  [UniProt]  [KEGG]Mating pair stabilisation TraN
67Sputw3181_11461297637..1297885 [+], 249120558062  [UniProt]  [KEGG]hypothetical protein
68Sputw3181_11471297895..1300168 [+], 2274120558063  [UniProt]  [KEGG]hypothetical protein
69Sputw3181_11481300188..1300706 [+], 519120558064  [UniProt]  [KEGG]hypothetical protein
70Sputw3181_11491300765..1301439 [-], 675120558065  [UniProt]  [KEGG]Deoxyribonuclease I
71Sputw3181_11501301548..1302150 [-], 603120558066  [UniProt]  [KEGG]hypothetical protein
72Sputw3181_11511302518..1302844 [+], 327120558067  [UniProt]  [KEGG]hypothetical protein
73Sputw3181_11521302860..1303279 [+], 420120558068  [UniProt]  [KEGG]single-strand binding proteinVF
74Sputw3181_11531303359..1304177 [+], 819120558069  [UniProt]  [KEGG]phage recombination protein Bet
75Sputw3181_11541304464..1305480 [+], 1017120558070  [UniProt]  [KEGG]predicted endonuclease-like phage-related protein
76Sputw3181_11551305573..1306649 [+], 1077120558071  [UniProt]  [KEGG]ATPase associated with various cellular activities, AAA_5
77Sputw3181_11561306649..1307416 [+], 768120558072  [UniProt]  [KEGG]hypothetical protein
78Sputw3181_11571307516..1308469 [+], 954120558073  [UniProt]  [KEGG]conserved hypothetical protein
79Sputw3181_11581308531..1308971 [+], 441120558074  [UniProt]  [KEGG]hypothetical protein
80Sputw3181_11591309041..1310696 [+], 1656120558075  [UniProt]  [KEGG]von Willebrand factor, type A
81Sputw3181_11601310780..1311277 [+], 498120558076  [UniProt]  [KEGG]DNA repair protein RadCVF
82Sputw3181_11611311277..1311618 [+], 342120558077  [UniProt]  [KEGG]hypothetical protein
83Sputw3181_11621311710..1312783 [+], 1074120558078  [UniProt]  [KEGG]Phage P4 alpha, zinc-binding domain protein
84Sputw3181_11631312873..1313580 [+], 708120558079  [UniProt]  [KEGG]hypothetical protein
85Sputw3181_11641313953..1314363 [+], 411120558080  [UniProt]  [KEGG]conserved hypothetical protein
86Sputw3181_11651314429..1317551 [-], 3123120558081  [UniProt]  [KEGG]heavy metal efflux pump, CzcA family
87Sputw3181_11661317561..1318580 [-], 1020120558082  [UniProt]  [KEGG]biotin/lipoyl attachment domain-containing protein
88Sputw3181_11671318659..1319903 [-], 1245120558083  [UniProt]  [KEGG]outer membrane efflux protein
89Sputw3181_11681319955..1320320 [-], 366120558084  [UniProt]  [KEGG]hypothetical protein
90Sputw3181_11691320363..1321268 [-], 906120558085  [UniProt]  [KEGG]cation efflux system permease, putative
91Sputw3181_11701321291..1321755 [+], 465120558086  [UniProt]  [KEGG]putative transcriptional regulator, MerR family
92Sputw3181_11711321777..1322694 [+], 918120558087  [UniProt]  [KEGG]cation diffusion facilitator family transporter
93Sputw3181_11721322696..1323022 [+], 327120558088  [UniProt]  [KEGG]protein of unknown function UPF0060
94Sputw3181_11731323458..1324402 [+], 945120558089  [UniProt]  [KEGG]sex pilus assembly protein
95Sputw3181_11741324405..1325793 [+], 1389120558090  [UniProt]  [KEGG]TraH family protein
96Sputw3181_11751325797..1329366 [+], 3570120558091  [UniProt]  [KEGG]TraG domain protein
97Sputw3181_11761329399..1329830 [-], 432120558092  [UniProt]  [KEGG]hypothetical protein
98Sputw3181_11771329888..1330421 [-], 534120558093  [UniProt]  [KEGG]hypothetical protein
99Sputw3181_11781330418..1330717 [-], 300120558094  [UniProt]  [KEGG]hypothetical protein
100Sputw3181_11791330714..1331262 [-], 549120558095  [UniProt]  [KEGG]Lytic transglycosylase, catalytic
101Sputw3181_11801331249..1331911 [-], 663120558096  [UniProt]  [KEGG]conserved hypothetical protein
102Sputw3181_11811331898..1332767 [-], 870120558097  [UniProt]  [KEGG]hypothetical protein
103Sputw3181_11821332823..1333074 [-], 252120558098  [UniProt]  [KEGG]hypothetical protein
104Sputw3181_11831333192..1333839 [+], 648120558099  [UniProt]  [KEGG]phage lambda repressor protein. Serine peptidase. MEROPS family S24
105Sputw3181_11841334096..1335682 [+], 1587120558100  [UniProt]  [KEGG]bacterial peptide chain release factor 3 (bRF-3)
106Sputw3181_11851335765..1335950 [+], 186120558101 conserved hypothetical protein
107Sputw3181_11861335961..1336725 [+], 765120558102 TatD-related deoxyribonuclease
108Sputw3181_11871336902..1338161 [+], 1260120558103 nucleoside transporter
109Sputw3181_11881338521..1339378 [+], 858120558104 nucleoside-specific channel-forming protein, Tsx
110Sputw3181_11891339785..1340555 [+], 771120558105 deoxyribose-phosphate aldolase
 
flank Flanking regions
integrase Gene may contribute to site-specific recombination
conjugation Gene may play role in conjugative transfer

ElementNo. of sequencesDownload
Nucleotide sequences1Fasta
Proteins102Fasta
(1) Wozniak RA; Fouts DE; Spagnoletti M; Colombo MM; Ceccarelli D; Garriss G; Dery C; Burrus V; Waldor MK (2009). Comparative ICE genomics: insights into the evolution of the SXT/R391 family of ICEs. PLoS Genet. 5(12):e1000786. [PudMed:20041216] in_silico
(2) Ceccarelli D; Daccord A; Rene M; Burrus V (2008). Identification of the origin of transfer (oriT) and a new gene required for mobilization of the SXT/R391 family of integrating conjugative elements. J Bacteriol. 190(15):5328-38. [PudMed:18539733] experimental
(3) Marrero J; Waldor MK (2007). The SXT/R391 family of integrative conjugative elements is composed of two exclusion groups. J Bacteriol. 189(8):3302-5. [PudMed:17307849] experimental
(4) Pembroke JT; Piterina AV (2006). A novel ICE in the genome of Shewanella putrefaciens W3-18-1: comparison with the SXT/R391 ICE-like elements. FEMS Microbiol Lett. 264(1):80-8. [PudMed:17020552]
 
experimental experimental literature
in_silico in silico analysis literature