Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 200424 |
| Name | oriT_ICEMsp.SymAA22-α  |
| Organism | Mesorhizobium sp. AA22 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | CP048406 (64920..64980 [+], 61 nt) |
| oriT length | 61 nt |
| IRs (inverted repeats) | 29..34, 36..41 (GCCTCC..GGAGGC) |
| Location of nic site | _ |
| Conserved sequence flanking the nic site |
_ |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 61 nt
>oriT_ICEMsp.SymAA22-α
AAAACGATGTGCAGACAAAGACTTCGCCGCCTCCTGGAGGCACTGCCTTTATCTTGCCTTA
AAAACGATGTGCAGACAAAGACTTCGCCGCCTCCTGGAGGCACTGCCTTTATCTTGCCTTA
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
T4CP
| ID | 16998 | GenBank | QIA25139 |
| Name | t4cp2_A9K68_027585_ICEMsp.SymAA22-α |
UniProt ID | _ |
| Length | 816 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 816 a.a. Molecular weight: 90043.29 Da Isoelectric Point: 5.8854
>QIA25139.1 conjugal transfer protein TrbE [Mesorhizobium sp. AA22]
MLNLSEYRSKADKLADHLPWAALVSPSIVLNKDGSFQRTLRFRGPDLESATEAELVGICARANNALRRLG
SGWALFFEAERIEALGYPNSTFPDAASWLVDEERRAAFEGKVAHYESRYHLTLLFMPPPDARARAESALV
DAHQSGGGRDWPQELARFRDETDRVLDLLSGFMPEVRVLDDAETLTYLHGTISTRRHPLAVPETPMYLDG
ILVDAPLTGGLEPMLGEHHLRTLTVLGFPNLTRPGILDALNHQDFAYRWVTRFIPLDKTEATKTLTRLRR
QWFAKRKSIAAILREVVTNEPVPLVDSDADNKALDADAALQALGGDHVGFGYLTTTVTVWDEDHQAAAEK
LRAVERIINGLGFTTIRESVNAVEAWLGSLPGHIYANVRQPLVHTLNLAHLIPLSSVWAGPTANEHLAKV
TQREASPLLFAETNGSTPFRLSTHVDDVGHMLIVGPTGAGKSVLLALIALQFRRYAGAQVYVFDKGNSAR
AAVLATGGEHHALGADGALAFQPLRNIGDQAARSWAAEWIAGLIAHENVTVTPEVKEAIWSALTSLATAP
AQERTLTGLSVLLQSNRLKSALMPYTLDGPFGRLLDADDDRLALSNVQCFETEELMQSQGAVLPVLTYLF
HRLEERFDGRPTLLMLDEAWLYLDNPLFAARIREWLKVLRKRNVSVIFATQSLADVGGSSIAPAIIESCP
QRIFLPNDRAVEPQARAAYERFGLNERQIELIARATPKRHYYLQSRSGNRLFELGLGPITLALCGASDPA
TQTLIDKIQSEDGQDSFASRFLSARGLDWAAELLQQFPQPDMEQSS
MLNLSEYRSKADKLADHLPWAALVSPSIVLNKDGSFQRTLRFRGPDLESATEAELVGICARANNALRRLG
SGWALFFEAERIEALGYPNSTFPDAASWLVDEERRAAFEGKVAHYESRYHLTLLFMPPPDARARAESALV
DAHQSGGGRDWPQELARFRDETDRVLDLLSGFMPEVRVLDDAETLTYLHGTISTRRHPLAVPETPMYLDG
ILVDAPLTGGLEPMLGEHHLRTLTVLGFPNLTRPGILDALNHQDFAYRWVTRFIPLDKTEATKTLTRLRR
QWFAKRKSIAAILREVVTNEPVPLVDSDADNKALDADAALQALGGDHVGFGYLTTTVTVWDEDHQAAAEK
LRAVERIINGLGFTTIRESVNAVEAWLGSLPGHIYANVRQPLVHTLNLAHLIPLSSVWAGPTANEHLAKV
TQREASPLLFAETNGSTPFRLSTHVDDVGHMLIVGPTGAGKSVLLALIALQFRRYAGAQVYVFDKGNSAR
AAVLATGGEHHALGADGALAFQPLRNIGDQAARSWAAEWIAGLIAHENVTVTPEVKEAIWSALTSLATAP
AQERTLTGLSVLLQSNRLKSALMPYTLDGPFGRLLDADDDRLALSNVQCFETEELMQSQGAVLPVLTYLF
HRLEERFDGRPTLLMLDEAWLYLDNPLFAARIREWLKVLRKRNVSVIFATQSLADVGGSSIAPAIIESCP
QRIFLPNDRAVEPQARAAYERFGLNERQIELIARATPKRHYYLQSRSGNRLFELGLGPITLALCGASDPA
TQTLIDKIQSEDGQDSFASRFLSARGLDWAAELLQQFPQPDMEQSS
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
| ID | 16999 | GenBank | QIA25144 |
| Name | t4cp2_A9K68_027610_ICEMsp.SymAA22-α |
UniProt ID | _ |
| Length | 676 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 676 a.a. Molecular weight: 74623.15 Da Isoelectric Point: 7.8214
>QIA25144.1 conjugal transfer protein TraG [Mesorhizobium sp. AA22]
MTPTKLLIGQIAVVFAIVILGVWAATQWCAHMLGHQPPLGAPWLVAAGWQIYKPWKLFEWWFHFDAYAPE
VFDKAGALAGASGLLGCAAAIAGSLWRARQLGSVTTYGSSRWAATHEIETAGLFRPAGVFLGKLKDRYLR
HDGPEHVMAFAPTRSGKGIGLVVPTLLSWTGSAVIHDIKGENWQLTSGWRSKFSYCLLFNPTDPRSARYN
PLLEVRKGPDEVRDVQNIADILVDPEGALDRRNHWEKTSHSLLVGAILHVLYAEEEKTLARVATFLSDPQ
RSFAATLRRMMTTNHLGAADKPQVHPVVASAAREVLNKSENERSGVLSTAMSFLGLYRDPTVAAATSACD
WRIADLLDAERPMSLYLVVPPSDISRTKPLVRLVLNQIGRRLTERLEGDPKKSRNHQLLMMLDEFPALGR
LDFFETALAFMAGYGIRAYLIAQSLNQISKAYGDNNAILDNCHVRIAFSSNDERTAKRISDALGTATELR
SMRNYAGHRLAPWLSHVMVSRQETARPLLTPGEVMQLPQADELVLVSGLPPIRAKKLRYYQDRNFTERVL
SAPVLRDGAYADRPVPRPDCWIGQVRSVDRRLAGGGGSAGEAIEDEGGVQQQRHPGLPEEHTAVTLEPDR
DDLLKPADDDSDAVADRRVMDRISTAARAYGINEGTGDNKDIVPGF
MTPTKLLIGQIAVVFAIVILGVWAATQWCAHMLGHQPPLGAPWLVAAGWQIYKPWKLFEWWFHFDAYAPE
VFDKAGALAGASGLLGCAAAIAGSLWRARQLGSVTTYGSSRWAATHEIETAGLFRPAGVFLGKLKDRYLR
HDGPEHVMAFAPTRSGKGIGLVVPTLLSWTGSAVIHDIKGENWQLTSGWRSKFSYCLLFNPTDPRSARYN
PLLEVRKGPDEVRDVQNIADILVDPEGALDRRNHWEKTSHSLLVGAILHVLYAEEEKTLARVATFLSDPQ
RSFAATLRRMMTTNHLGAADKPQVHPVVASAAREVLNKSENERSGVLSTAMSFLGLYRDPTVAAATSACD
WRIADLLDAERPMSLYLVVPPSDISRTKPLVRLVLNQIGRRLTERLEGDPKKSRNHQLLMMLDEFPALGR
LDFFETALAFMAGYGIRAYLIAQSLNQISKAYGDNNAILDNCHVRIAFSSNDERTAKRISDALGTATELR
SMRNYAGHRLAPWLSHVMVSRQETARPLLTPGEVMQLPQADELVLVSGLPPIRAKKLRYYQDRNFTERVL
SAPVLRDGAYADRPVPRPDCWIGQVRSVDRRLAGGGGSAGEAIEDEGGVQQQRHPGLPEEHTAVTLEPDR
DDLLKPADDDSDAVADRRVMDRISTAARAYGINEGTGDNKDIVPGF
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
| ID | 17000 | GenBank | QIA25190 |
| Name | virD4_A9K68_027885_ICEMsp.SymAA22-α |
UniProt ID | _ |
| Length | 581 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 581 a.a. Molecular weight: 64214.64 Da Isoelectric Point: 8.1973
>QIA25190.1 type IV secretion system ATPase VirD4 [Mesorhizobium sp. AA22]
MPSTKTTPPNIAVSIACSLALGFCAASLYATFRHGGGGEALMTFDVRAFWFETPFYLGFATPVFYRGAAI
VLSTSAVVLLIQQIVLRRKLEHHGTARWARVDEMRRTGYLRRYRGVTGPVFGKTSGPFWPGYYLTNGEQP
HSLIVAPTRAGKGVGIVIPTLLTFKGSVIALDVKGELFELTSRARKAAGDDVFKFAPLDSERRTNCYNPL
LDLIALPPQQQFTEARRLAANLITAKGEGAEGFVSGARDIFVAGILACIERGTPTIGAVYDLFAQPGEKF
KLFARLAMETQNKEAQRIFDDMAGNDTKILTSYTSVLGDGGLNLWADPAVKAATSRSDFSVYDLRRRRTC
IYLCVGPNDLEVIAPLIRLFFQQIVSILQRSLPRRDEKNEVLFLLDEFKHLGKLEAIETAITTIAGYKGR
FMLIIQSLSALTGAYGEAGKQNFLSNTGLQVFMATADDETPNYISKAIGEYTFQAQSISYSQARTFDWNI
QNSHQGAPLLRPEQVRLLNDEYEIVLIKGLPPLQLRKVRYFSDRILKRIFESQTGALPEPVPLTIADEGL
SAESQLDDPLRGSAQDFDDTV
MPSTKTTPPNIAVSIACSLALGFCAASLYATFRHGGGGEALMTFDVRAFWFETPFYLGFATPVFYRGAAI
VLSTSAVVLLIQQIVLRRKLEHHGTARWARVDEMRRTGYLRRYRGVTGPVFGKTSGPFWPGYYLTNGEQP
HSLIVAPTRAGKGVGIVIPTLLTFKGSVIALDVKGELFELTSRARKAAGDDVFKFAPLDSERRTNCYNPL
LDLIALPPQQQFTEARRLAANLITAKGEGAEGFVSGARDIFVAGILACIERGTPTIGAVYDLFAQPGEKF
KLFARLAMETQNKEAQRIFDDMAGNDTKILTSYTSVLGDGGLNLWADPAVKAATSRSDFSVYDLRRRRTC
IYLCVGPNDLEVIAPLIRLFFQQIVSILQRSLPRRDEKNEVLFLLDEFKHLGKLEAIETAITTIAGYKGR
FMLIIQSLSALTGAYGEAGKQNFLSNTGLQVFMATADDETPNYISKAIGEYTFQAQSISYSQARTFDWNI
QNSHQGAPLLRPEQVRLLNDEYEIVLIKGLPPLQLRKVRYFSDRILKRIFESQTGALPEPVPLTIADEGL
SAESQLDDPLRGSAQDFDDTV
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 5781246..5790296
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| A9K68_027535 | 5776326..5777957 | - | 1632 | QIA25130 | cytochrome-c oxidase, cbb3-type subunit I | - |
| A9K68_027540 | 5778372..5778542 | + | 171 | QIA25131 | hypothetical protein | - |
| A9K68_027545 | 5778537..5779301 | - | 765 | QIA26065 | Crp/Fnr family transcriptional regulator | - |
| A9K68_027550 | 5779459..5780808 | + | 1350 | QIA25132 | oxygen-independent coproporphyrinogen III oxidase | - |
| A9K68_027555 | 5780961..5781233 | - | 273 | QIA25133 | DUF2274 domain-containing protein | - |
| A9K68_027560 | 5781246..5782457 | - | 1212 | QIA25134 | TrbI/VirB10 family protein | virB10 |
| A9K68_027565 | 5782471..5783496 | - | 1026 | QIA25135 | P-type conjugative transfer protein TrbG | virB9 |
| A9K68_027570 | 5783486..5784217 | - | 732 | QIA25136 | conjugal transfer protein TrbF | virB8 |
| A9K68_027575 | 5784218..5785540 | - | 1323 | QIA25137 | P-type conjugative transfer protein TrbL | virB6 |
| A9K68_027580 | 5785570..5786295 | - | 726 | QIA25138 | P-type conjugative transfer protein TrbJ | virB5 |
| A9K68_027585 | 5786292..5788742 | - | 2451 | QIA25139 | conjugal transfer protein TrbE | virb4 |
| A9K68_027590 | 5788736..5789008 | - | 273 | QIA25140 | conjugal transfer protein | virB3 |
| A9K68_027595 | 5789008..5789316 | - | 309 | QIA25141 | conjugal transfer protein TrbC | virB2 |
| A9K68_027600 | 5789328..5790296 | - | 969 | QIA25142 | P-type conjugative transfer ATPase TrbB | virB11 |
| A9K68_027605 | 5790293..5790706 | - | 414 | QIA25143 | CopG family transcriptional regulator | - |
| A9K68_027610 | 5790827..5792857 | - | 2031 | QIA25144 | conjugal transfer protein TraG | - |
| A9K68_027615 | 5793104..5794927 | - | 1824 | QIA25145 | glutamine--fructose-6-phosphate transaminase (isomerizing) | - |
Region 2: 5835573..5847639
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| A9K68_027785 | 5830723..5831877 | + | 1155 | QIA25175 | porin | - |
| A9K68_027790 | 5832936..5835455 | + | 2520 | QIA25176 | two-component system VirA-like sensor kinase | - |
| A9K68_027795 | 5835573..5836613 | - | 1041 | QIA25177 | P-type DNA transfer ATPase VirB11 | virB11 |
| A9K68_027800 | 5836597..5837739 | - | 1143 | QIA25178 | type IV secretion system protein VirB10 | virB10 |
| A9K68_027805 | 5837736..5838617 | - | 882 | QIA25179 | TrbG/VirB9 family P-type conjugative transfer protein | virB9 |
| A9K68_027810 | 5838614..5839327 | - | 714 | QIA25180 | type IV secretion system protein VirB8 | virB8 |
| A9K68_027815 | 5839324..5839482 | - | 159 | QIA25181 | type IV secretion system lipoprotein VirB7 | - |
| A9K68_027820 | 5839508..5840395 | - | 888 | QIA25182 | type IV secretion system protein | virB6 |
| A9K68_027825 | 5840454..5841137 | - | 684 | QIA25183 | type IV secretion system protein VirB5 | - |
| A9K68_027830 | 5841151..5841531 | - | 381 | Protein_5497 | type IV secretion system protein VirB4 | - |
| A9K68_027835 | 5841680..5842435 | - | 756 | QIA25184 | ATP-binding protein | - |
| A9K68_027840 | 5842448..5843959 | - | 1512 | QIA25185 | IS21 family transposase | - |
| A9K68_027845 | 5844154..5846151 | - | 1998 | Protein_5500 | VirB4 family type IV secretion/conjugal transfer ATPase | - |
| A9K68_027850 | 5846151..5846477 | - | 327 | QIA25186 | type IV secretion system protein VirB3 | virB3 |
| A9K68_027855 | 5846477..5846842 | - | 366 | QIA25187 | pilin major subunit VirB2 | virB2 |
| A9K68_027860 | 5846857..5847639 | - | 783 | QIA25188 | type IV secretion system lytic transglycosylase VirB1 | virB1 |
| A9K68_027865 | 5848940..5849665 | + | 726 | QIA25189 | response regulator | - |
| A9K68_027870 | 5849821..5850906 | + | 1086 | Protein_5505 | IS110 family transposase | - |
| A9K68_027875 | 5851198..5851715 | - | 518 | Protein_5506 | IS66 family transposase | - |
Host bacterium
| ID | 378 | Element type | ICE (Integrative and conjugative element) |
| Element name | ICEMsp.SymAA22-α | GenBank | CP048406 |
| Element size | 6611049 bp | Coordinate of oriT [Strand] | 64920..64980 [+] |
| Host bacterium | Mesorhizobium sp. AA22 | Coordinate of element | 5733916..6500750 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | gmd |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | fixS, fixI, fixH, fixG, fixP, fixQ, fixO, fixN, nodM, mlr6097, nifX, nifN, nifE, nifK, nifD, nifH, nifQ, nifS, nifW, fixA, fixB, fixC, fixX, nifA, nifB, nifZ, nifT, nodU, nodD, nolL, nodB, a4R29_04430, nodJ, nodI, nodC, nodA, nodS, nolK, noeL, nodZ, nodE, nodF |
| Anti-CRISPR | - |