ICEberg

ICE
Gene list
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References

I. Information of ICE

ICEberg ID	338
Name	CMGI-3
Organism	Cupriavidus metallidurans CH34
Size (bp)	97043
GC content [Genome] (%)	64[63.82]
Insertion site	GTAAAA
Function	-
Species that ICE can be transferred to	-
Nucleotide Sequence	CP000352 (complete ICE sequence in this genome)
Replicon	chromosome 1 (3928089 bp, BioProject:250) [NC_007973]
Genome coordinates	1585489..1682531
Putative oriT region	-
Putative relaxase	-

II. ICE interaction with IME/CIME/

The interaction information of CMGI-3 is not available.

The graph information of CMGI-3 components from CP000352

Complete gene list of CMGI-3 from CP000352
#	Gene	Coordinates [+/-], size (bp)	Product (GenBank annotation)	*Reannotation
1	guaB	1581506..1582969 [+], 1464	inosine-5'-monophosphate dehydrogenase
2	Rmet_1462	1583057..1583698 [+], 642	putative membrane protein
3	guaA	1583673..1585292 [+], 1620	GMP synthetase (glutamine aminotransferase)
4	int	1585594..1586850 [+], 1257	tyrosine-based site-specific recombinase	Integrase
5	Rmet_1466	1587051..1587326 [+], 276	conserved hypothetical protein
6	Rmet_1467	1587331..1587855 [+], 525	conserved hypothetical protein
7	Rmet_1468	1587871..1588281 [-], 411	Phage-related protein (modular protein)
8	Rmet_1469	1588375..1589124 [-], 750	TatD-related deoxyribonuclease
9	Rmet_1470	1589138..1590505 [-], 1368	conserved hypothetical protein
10	Rmet_1471	1590502..1591383 [-], 882	conserved hypothetical protein
11	Rmet_1472	1591383..1593317 [-], 1935	KAP P-loop
12	Rmet_1473	1593336..1594307 [-], 972	putative RNA-directed DNA polymerase (Reverse transcriptase)
13	Rmet_6450	1594273..1594578 [-], 306	putative transcriptional regulator (helix-turn-helix motif, XRE-like)
14	Rmet_1474	1594631..1594870 [-], 240	hypothetical protein
15	Rmet_1475	1595652..1596002 [+], 351	lipoprotein
16	Rmet_1476	1596102..1596440 [-], 339	hypothetical protein
17	yupB	1596748..1597578 [+], 831	F plasmid protein 32-like protein (protein belongs to CMGI-3)
18	parB	1597643..1599685 [+], 2043	ParB nuclease
19	Rmet_1479	1599888..1600910 [-], 1023	conserved hypothetical protein
20	Rmet_1480	1601776..1602090 [+], 315	conserved hypothetical protein	TraF, T4SS component
21	ydcN	1602448..1602741 [-], 294	putative DNA-binding transcriptional regulator
22	Rmet_1482	1602957..1603304 [+], 348	lipoprotein
23	Rmet_1483	1603648..1604439 [+], 792	conserved hypothetical protein
24	Rmet_1484	1604478..1604804 [+], 327	putative transcriptional regulator (DNA binding protein)
25	repA	1604819..1605688 [+], 870	replication initiation protein CMGI-3 (GI family Tn4371)
26	parA	1605942..1606580 [+], 639	ATPase involved in plasmid partitioning ParA
27	parG	1606577..1606861 [+], 285	regulator of plasmid copy number (ribbon-helix-helix)
28	Rmet_1487	1606858..1607400 [+], 543	conserved hypothetical protein
29	traF	1607397..1607984 [+], 588	plasmid conjugal transfer transmembrane protein	TraF, T4SS component
30	virD2	1608307..1610409 [+], 2103	Relaxase type IV secretory pathway VirD2
31	Rmet_1490	1610418..1611011 [-], 594	putative transcriptional regulator (fragment)
32	tnpA	1611195..1614110 [+], 2916	transposase IS1071
33	cbbA1	1614223..1615083 [-], 861	Fructose-bisphosphate aldolase 1 (Fba)
34	Rmet_1493	1615177..1615350 [-], 174	-
35	cbbY (delta)	1615529..1615732 [-], 204	-
36	cbbY (delta)	1615745..1615948 [-], 204	-
37	Rmet_1496	1615994..1616368 [-], 375	hypothetical protein
38	Rmet_1497	1616384..1616680 [-], 297	conserved hypothetical protein
39	cbbO	1616689..1619046 [-], 2358	Rubisco activation protein
40	cbbQ	1619059..1619862 [-], 804	Rubisco activation protein
41	cbbS	1620012..1620368 [-], 357	ribulose 1,5-bisphosphate carboxylase/oxygenase, RuBisCO (type I) small subunit (CbbS)
42	cbbL	1620446..1621867 [-], 1422	ribulose 1,5-bisphosphate carboxylase/oxygenase, RuBisCo (type I) large subunit (CbbL)
43	cbbR1	1621992..1622873 [+], 882	RuBisCO operon transcriptional regulator
44	Rmet_6452	1622912..1623031 [+], 120	hypothetical protein
45	tnpA	1623052..1624302 [+], 1251	transposase IS1090
46	Rmet_1504	1624306..1624614 [-], 309	-
47	Rmet_1505	1624713..1625294 [-], 582	-
48	tnpA	1625591..1628506 [-], 2916	transposase IS1071
49	cbbF1	1628605..1629444 [-], 840	fructose-1,6-bisphosphatase
50	Rmet_6453	1629650..1629802 [-], 153	hypothetical protein
51	cbbR2	1629952..1630875 [-], 924	LysR-type transcriptional regulator (RuBisCO operon transcriptional regulator)
52	cbbS(delta)	1630981..1631145 [+], 165	-
53	cbbE1	1631163..1631861 [+], 699	D-ribulose-5-phosphate 3-epimerase
54	cbbF2	1632041..1633138 [+], 1098	fructose-1,6-bisphosphatase I
55	cbbP	1633171..1634055 [+], 885	phosphoribulokinase
56	cbbT1	1634055..1636109 [+], 2055	transketolase 1, thiamin-binding protein
57	cbbZ1	1636111..1636842 [+], 732	phosphoglycolate phosphatase (PGP)
58	cbbG1	1636839..1637846 [+], 1008	glyceraldehyde-3-phosphate dehydrogenase A (GAPDH-A)
59	pgk1	1637843..1639033 [+], 1191	phosphoglycerate kinase (Pgk)
60	cbbY	1639030..1639848 [+], 819	CbbY, protein of unknown function linked to the Calvin-Benson-Bassham cycle, HAD-like hydrolase
61	cbbA2	1639908..1640945 [+], 1038	Fructose-bisphosphate aldolase (Fba)
62	pykA2	1640960..1642378 [+], 1419	pyruvate kinase
63	cbbJ1	1642414..1643232 [+], 819	triosephosphate isomerase (CbbJ)
64	cbbI1	1643232..1643891 [+], 660	ribose 5-phosphate isomerase (cbbI)
65	hoxF	1644017..1645825 [+], 1809	NAD-reducing hydrogenase diaphorase moiety large subunit
66	hoxU	1645822..1646532 [+], 711	NAD-reducing hydrogenase diaphorase moiety small subunit
67	hoxY	1646529..1647158 [+], 630	NAD-reducing hydrogenase hoxS delta subunit
68	hoxH	1647176..1648642 [+], 1467	NAD-reducing hydrogenase hoxS subunit beta
69	hoxW	1648626..1649132 [+], 507	((NiFe) hydrogenase C-terminal protease)
70	hoxI	1649145..1649648 [+], 504	cyclic nucleotide-binding domain (cNMP-BD) protein
71	pntAA'	1649985..1650716 [+], 732	-
72	tnpA	1650747..1651775 [-], 1029	transposase IS1088
73	pntAA'	1651820..1652236 [+], 417	-
74	pntAB	1652237..1652542 [+], 306	-
75	pntB	1652539..1653912 [+], 1374	NAD(P) transhydrogenase subunit beta
76	hoxN	1653974..1654810 [+], 837	High-affinity nickel-transporter
77	Rmet_6454	1655015..1655209 [+], 195	hypothetical protein
78	Rmet_1534	1655263..1655568 [+], 306	-
79	hypA2	1655561..1655902 [+], 342	Hydrogenase nickel incorporation protein hypA (Protein hupA)
80	hypB2	1655936..1656916 [+], 981	GTP hydrolase involved in nickel liganding into hydrogenases
81	hypF2	1656930..1659287 [+], 2358	carbamoyl phosphate phosphatase and maturation protein for (NiFe) hydrogenases
82	hypC2	1659340..1659528 [+], 189	Hydrogenase expression/formation protein HypC
83	hypD2	1659525..1660667 [+], 1143	protein required for maturation of hydrogenases
84	hypE2	1660741..1661790 [+], 1050	carbamoyl phosphate phosphatase, hydrogenase 3 maturation protein
85	hoxX	1661889..1663628 [+], 1740	Hydrogenase maturation factor hoxX
86	hoxA	1663625..1664554 [+], 930	Hydrogenase transcriptional regulatory protein
87	Rmet_6455	1663967..1664401 [-], 435	hypothetical protein
88	cbbA (delta)	1664544..1664927 [-], 384	-
89	tnpA	1665103..1668018 [+], 2916	transposase IS1071
90	Rmet_1545	1668181..1668588 [-], 408	hypothetical protein
91	traR	1668624..1669604 [+], 981	Transcriptional regulator, LysR family (CMGI-3)
92	Rmet_1547	1669601..1669879 [+], 279	lipoprotein precursor (transfer module of CMGI-3)
93	traG	1670131..1672125 [+], 1995	conjugal transfer protein	VirD4, T4SS component
94	Rmet_1549	1672122..1672586 [+], 465	DNA-binding helix-turn-helix domain-containing protein (CopG-like) (belongs to the transfer module of genomic island CMGI-3)
95	trbB	1672583..1673659 [+], 1077	P-type conjugative transfer ATPase TrbB (CMGI-2)	TrbB, T4SS component
96	trbC	1673656..1674039 [+], 384	mating pair formation conjugal transfer TrbC transmembrane protein (module transfer of genomic island CMGI-3)	TrbC, T4SS component
97	trbD	1674036..1674308 [+], 273	putative conjugal transfer transmembrane protein	TrbD, T4SS component
98	trbE	1674324..1676753 [+], 2430	ATPase involved in conjugal transfer CagE TrbE VirB component of type IV transporter system (belongs to transfer module of genomic island CMGI-3)	TrbE, T4SS component
99	trbJ	1676750..1677475 [+], 726	mating pair formation protein	TrbJ, T4SS component
100	Rmet_1555	1677488..1677820 [+], 333	lipoprotein	TrbJ, T4SS component
101	trbL	1677817..1679202 [+], 1386	conjugal transfer transmembrane protein	TrbL, T4SS component
102	trbF	1679215..1679919 [+], 705	conjugal transfer precursor protein	TrbF, T4SS component
103	trbG	1679916..1680917 [+], 1002	Conjugal transfer protein precursor	TrbG, T4SS component
104	trbI	1680920..1682188 [+], 1269	type IV secretion system transmembrane protein (conjugal transfer:mating pair formation )	TrbI, T4SS component
105	Rmet_1560	1682185..1682445 [+], 261	conserved hypothetical protein
106	Rmet_1561	1682540..1683277 [+], 738	conserved hypothetical protein
107	Rmet_1562	1683274..1684194 [+], 921	conserved hypothetical protein
108	tnpA	1684483..1685010 [+], 528	transposase DNA binding site ISRme12
109	tnpB	1685010..1685846 [+], 837	transposase catalytic site ISRme12
110	Rmet_1565	1685944..1687476 [-], 1533	Flavin-containing monooxygenase FMO:IMP dehydrogenase/GMP reductase:FAD dependent oxidoreductase

Flanking regions

Element	No. of sequences	Download
Nucleotide sequences	1	Fasta
Proteins	91	Fasta

(1) Janssen PJ; Van Houdt R; Moors H; Monsieurs P; Morin N; Michaux A; Benotmane MA; Leys N; Vallaeys T; Lapidus A; Monchy S; Medigue C; Taghavi S; McCorkle S; Dunn J; van der Lelie D; Mergeay M (2010). The complete genome sequence of Cupriavidus metallidurans strain CH34, a master survivalist in harsh and anthropogenic environments. PLoS One. 5(5):e10433. [PubMed:20463976]