ICEberg
I. Information of ICE
ICEberg ID175
Name PAPI-1 This ICE is derived from experimental literature
FamilyPAPI-1
OrganismPseudomonas aeruginosa UCBPP-PA14
Size (bp)107953
GC content [Genome] (%)59.74[66.29]
Insertion sitetRNA-Lys (Lys47)
FunctionVirulence factors and regulation of biofilm formation
Species that ICE can be transferred to-
Nucleotide SequenceAY273869; CP000438 (complete ICE sequence in this genome)
Replicon chromosome (6537648 bp, BioProject:386) [NC_008463]
Genome coordinates5251440..5359392 
Putative oriT region -
Putative relaxase coordinates: 5355824..5357743; Locus tag: PA14_60130;  Family:  MOBH


II. ICE interaction with IME/CIME/

The interaction information of PAPI-1 is not available.



The graph information of PAPI-1 components from CP000438
Complete gene list of PAPI-1 from CP000438
#Gene Coordinates [+/-], size (bp) Product 
(GenBank annotation)
*Reannotation 
1PA14_589005246954..5251207 [+], 4254Large exoprotein
2PA14_589105251580..5252446 [+], 867chromosome partitioning related protein
3PA14_589205252505..5253185 [+], 681conserved hypothetical protein
4PA14_589305253182..5253679 [+], 498conserved hypothetical protein
5PA14_589405253676..5253825 [+], 150hypothetical protein
6PA14_589505253822..5254508 [+], 687conserved hypothetical protein
7PA14_589605254508..5255209 [+], 702hypothetical protein
8PA14_589705255206..5255913 [+], 708putative phage protein
9PA14_589805255897..5256121 [+], 225conserved hypothetical protein
10PA14_589905256118..5257464 [+], 1347Putative DNA helicase
11PA14_590005257636..5258163 [+], 528conserved hypothetical protein
12PA14_590105258160..5258417 [+], 258conserved hypothetical protein
13PA14_590205258410..5258904 [+], 495hypothetical protein
14PA14_590305258897..5259130 [+], 234hypothetical protein
15PA14_590505259130..5260146 [+], 1017conserved hypothetical protein
16PA14_590605260143..5260397 [+], 255hypothetical protein
17PA14_590705260394..5262133 [+], 1740conserved hypothetical protein
18PA14_590905262161..5262928 [+], 768conserved hypothetical protein
19PA14_591005262925..5264250 [+], 1326conserved hypothetical protein
20PA14_591105264247..5264522 [+], 276hypothetical protein
21PA14_591205264513..5264752 [+], 240hypothetical protein
22PA14_591305265022..5265750 [+], 729conserved hypothetical protein
23PA14_591405265756..5266289 [+], 534conserved hypothetical protein
24PA14_591505266303..5266773 [+], 471putative single-stranded DNA binding protein
25PA14_591605267237..5267482 [+], 246hypothetical protein
26PA14_591705267621..5267854 [-], 234hypothetical protein
27PA14_591805268174..5270099 [+], 1926topoisomerase I - like protein
28PA14_591905270173..5270643 [+], 471hypothetical protein
29PA14_592005270777..5272666 [+], 1890conserved hypothetical protein
30PA14_592105272663..5274636 [+], 1974putative DNA helicase
31PA14_592205275324..5276820 [+], 1497pyocin S5
32PA14_592305276845..5277171 [-], 327colicin immunity protein
33pilL25277443..5278567 [+], 1125type IV B pilus proteinTfc2, T4SS component 
34pilN25278639..5280276 [+], 1638Type IV B pilus protein
35pilO25280280..5281605 [+], 1326type IV b pilus protein
36pilP25281595..5282128 [+], 534type IV B pilus protein
37pilQ25282137..5283717 [+], 1581type IV B pilus proteinDotB, T4SS component 
38pilR25283717..5284796 [+], 1080type IV B pilus Protein
39pilS25284818..5285348 [+], 531type IV B pilus protein
40pilT25285345..5286286 [+], 942type IV B pilus proteinTraJ_I, T4SS component 
41pilV25286291..5287619 [+], 1329Type IV B pilus protein
42pilM25287648..5288085 [+], 438type IV B pilus protein
43PA14_593705288357..5289001 [-], 645hypothetical protein
44PA14_593805289000..5289566 [+], 567conserved hypothetical protein
45PA14_593905289818..5289952 [+], 135hypothetical protein
46PA14_594005290227..5290766 [+], 540conserved hypothetical protein
47PA14_594105290815..5291081 [-], 267hypothetical protein
48PA14_594305291101..5291337 [+], 237conserved hypothetical protein
49PA14_594405291822..5292529 [+], 708conserved hypothetical protein
50PA14_594705292765..5293115 [+], 351hypothetical protein
51PA14_594805293173..5293808 [+], 636conserved hypothetical protein
52PA14_594905293805..5294080 [+], 276hypothetical protein
53PA14_595005294150..5294512 [+], 363conserved hypothetical protein
54PA14_595105294580..5294834 [+], 255conserved hypothetical protein
55PA14_595205294926..5295531 [+], 606hypothetical protein
56PA14_595305295561..5297012 [+], 1452conserved hypothetical protein
57PA14_595405297117..5299366 [+], 2250conserved hypothetical protein
58PA14_595505299690..5300916 [+], 1227hypothetical protein
59PA14_595605301173..5301439 [+], 267putative transposase
60PA14_595705301490..5301825 [+], 336putative transposase
61PA14_595805301889..5303424 [+], 1536putative transposase
62PA14_595905303485..5303844 [+], 360conserved hypothetical protein
63PA14_596005303917..5304162 [-], 246hypothetical protein
64PA14_596105304246..5304920 [-], 675conserved hypothetical protein
65PA14_596205305003..5305668 [-], 666conserved hypothetical protein
66PA14_596305305679..5306710 [-], 1032hypothetical protein
67PA14_596405307321..5308010 [+], 690conserved hypothetical proteinTfc2, T4SS component 
68PA14_596505308021..5308776 [+], 756conserved hypothetical proteinTfc3, T4SS component 
69PA14_596605308761..5309342 [+], 582conserved hypothetical proteinTfc4, T4SS component 
70PA14_596705309339..5309839 [+], 501conserved hypothetical proteinTfc5, T4SS component 
71PA14_596805309848..5310105 [+], 258hypothetical protein
72PA14_596905310109..5312343 [+], 2235conserved hypothetical proteinTfc6, T4SS component 
73PA14_597005312343..5313089 [+], 747conserved hypothetical proteinTfc8, T4SS component 
74cupD15313527..5314075 [+], 549putative fimbrial protein precursor
75cupD25314164..5314910 [+], 747putative pili assembly chaperone
76cupD45317504..5318850 [+], 1347fimbrial subunit
77cupD55318840..5319556 [+], 717putative pili assembly chaperone
78rcsB5319600..5320295 [-], 696putative two component response regulator
79rcsC5320295..5323549 [-], 3255putative kinase sensor protein
80pvrR5323630..5324829 [-], 1200two component response regulator
81PA14_598005324826..5327621 [-], 2796kinase sensor protein
82PA14_598205327953..5328603 [+], 651conserved hypothetical proteinTfc8, T4SS component 
83PA14_598305328614..5330095 [+], 1482putative helicaseTraI_F, T4SS component 
84PA14_598405330226..5331335 [+], 1110conserved hypothetical protein
85PA14_598455331379..5331690 [-], 312conserved hypothetical protein
86PA14_598505331863..5332168 [+], 306hypothetical protein
87PA14_598605332241..5332600 [+], 360putative candidate type III effector Hop proteinTfc9, T4SS component 
88PA14_598705332597..5332836 [+], 240conserved hypothetical protein
89PA14_598805332854..5333210 [+], 357conserved hypothetical proteinTfc10, T4SS component 
90PA14_598905333221..5333607 [+], 387conserved hypothetical proteinTfc11, T4SS component 
91PA14_599005333604..5334263 [+], 660conserved hypothetical proteinTfc12, T4SS component 
92PA14_599105334260..5335144 [+], 885conserved hypothetical proteinTfc13, T4SS component 
93PA14_599205335128..5336633 [+], 1506conserved hypothetical proteinTfc14, T4SS component 
94PA14_599305336611..5337054 [+], 444conserved hypothetical proteinTfc15, T4SS component 
95PA14_599405337054..5339996 [+], 2943conserved hypothetical proteinTfc16, T4SS component 
96PA14_599505339993..5340277 [+], 285hypothetical protein
97PA14_599605340274..5340933 [+], 660Putative protein-disulfide isomerase
98PA14_599705340930..5341148 [-], 219conserved hypothetical protein
99PA14_599805341357..5341788 [+], 432hypothetical proteinTfc24, T4SS component 
100PA14_599905341788..5342726 [+], 939conserved hypothetical proteinTfc23, T4SS component 
101PA14_600005342744..5344126 [+], 1383conserved hypothetical proteinTfc22, T4SS component 
102PA14_600105344126..5344467 [+], 342hypothetical protein
103PA14_600205344464..5345975 [+], 1512conserved hypothetical proteinTfc19, T4SS component 
104PA14_600305346001..5346345 [-], 345hypothetical protein
105PA14_600405346464..5346736 [+], 273conserved hypothetical protein
106PA14_600505346740..5347090 [+], 351putative plasmid stablization protein
107PA14_600605347532..5347834 [+], 303hypothetical protein
108PA14_600705348012..5350435 [+], 2424conserved hypothetical protein
109PA14_600805350432..5352363 [+], 1932conserved hypothetical protein
110PA14_600905352790..5353305 [+], 516hypothetical protein
111dtd5353510..5354049 [-], 540deoxycytidine triphosphate deaminase
112PA14_601105354046..5354756 [-], 711hypothetical protein
113dcd25354756..5355289 [-], 534putative deoxycytidine deaminase
114PA14_601305355824..5357743 [+], 1920conserved hypothetical proteinRelaxase, MOBH Family
115PA14_601405357740..5358660 [+], 921xerD-like putative integraseIntegrase 
116clpB5359875..5362439 [-], 2565clpB protein
117PA14_602005362595..5363323 [-], 729conserved hypothetical protein
118rluD5363320..5364282 [-], 963ribosomal large subunit pseudouridine synthase D
 
flank Flanking regions
integrase Gene may contribute to site-specific recombination
conjugation Gene may play role in conjugative transfer

ElementNo. of sequencesDownload
Nucleotide sequences1Fasta
Proteins114Fasta
(1) Seth-Smith HM; Fookes MC; Okoro CK; Baker S; Harris SR; Scott P; Pickard D; Quail MA; Churcher C; Sanders M; Harmse J; Dougan G; Parkhill J; Thomson NR (2012). Structure, diversity, and mobility of the Salmonella pathogenicity island 7 family of integrative and conjugative elements within Enterobacteriaceae. J Bacteriol. 194(6):1494-504. [PudMed:22247511] in_silico
(2) Carter MQ; Chen J; Lory S (2010). The Pseudomonas aeruginosa pathogenicity island PAPI-1 is transferred via a novel type IV pilus. J Bacteriol. 192(13):3249-58. [PudMed:20363934] experimental
(3) Harrison EM; Carter ME; Luck S; Ou HY; He X; Deng Z; O'Callaghan C; Kadioglu A; Rajakumar K (2010). Pathogenicity islands PAPI-1 and PAPI-2 contribute individually and synergistically to the virulence of Pseudomonas aeruginosa strain PA14. Infect Immun. 78(4):1437-46. [PudMed:20123716] experimental
(4) Mathee K; Narasimhan G; Valdes C; Qiu X; Matewish JM; Koehrsen M; Rokas A; Yandava CN; Engels R; Zeng E; Olavarietta R; Doud M; Smith RS; Montgomery P; White JR; Godfrey PA; Kodira C; Birren B; Galagan JE; Lory S (2008). Dynamics of Pseudomonas aeruginosa genome evolution. Proc Natl Acad Sci U S A. 105(8):3100-5. [PudMed:18287045]
(5) He J; Baldini RL; Deziel E; Saucier M; Zhang Q; Liberati NT; Lee D; Urbach J; Goodman HM; Rahme LG (2004). The broad host range pathogen Pseudomonas aeruginosa strain PA14 carries two pathogenicity islands harboring plant and animal virulence genes. Proc Natl Acad Sci U S A. 101(8):2530-5. [PudMed:14983043] experimental
 
experimental experimental literature
in_silico in silico analysis literature