Result : A0A0H3NGF1
| Protein Information |
| Information Type | Description |
|---|---|
| Protein name | Transcription modulator YdgT (H-NS/StpA-binding protein 2) (OriC-binding nucleoid-associated protein) |
| NCBI Accession ID | FQ312003.1 |
| Organism | Salmonella typhimurium (strain SL1344) |
| Left | 1492387 |
| Right | 1492617 |
| Strand | - |
| Nucleotide Sequence | ATGGATCAACTTTATATGACTGTTCAGGATTATCTATTAAAATTCCGCAAAATTAGTTCGCTCGAAAGTCTGGAAAAACTGTTCGACCACCTTAACTATACCCTTACTGATGACATGGACATTGTTAATATGTATCGCGCTGCAGATCACCGCCGTGCCGAACTGGTTTCCGGAGGACGCCTGTTTGATGTAGGTCAGGTTCCGCAATCCGTCTGGCGCTATGTGCAATAA |
| Sequence | MDQLYMTVQDYLLKFRKISSLESLEKLFDHLNYTLTDDMDIVNMYRAADHRRAELVSGGRLFDVGQVPQSVWRYVQ |
| Source of smORF | Swiss-Prot |
| Function | Binds to H-NS and modifies the range of genes it silences; H-NS alone silences 'core' genes while the H-NS-Hha complex (and presumably also H-NS-YdgT) silences genes acquired by horizontal gene transfer (Pubmed:19521501). Plays a role silencing virulence factors in the absence of factors that induce pathogenicity (Pubmed:17307861). {ECO:0000305|Pubmed:19521501}. |
| Pubmed ID | 22538806 17307861 19521501 |
| Domain | CDD:416300 |
| Functional Category | DNA-binding |
| Uniprot ID | A0A0H3NGF1 |
| ORF Length (Amino Acid) | 76 |
++ More..
| Conservation Analysis |
No. of Species: 107
| Sr.No. | Left Position | Right Position | Strand | NCBI Accession id | Species Name |
|---|---|---|---|---|---|
| 1 | 1535526 | 1535756 | - | NC_003197.2 | Salmonella enterica subsp. enterica serovar Typhimurium str. LT2 |
| 2 | 3924744 | 3924959 | - | NZ_CP053416.1 | Salmonella bongori |
| 3 | 1540380 | 1540595 | - | NC_013716.1 | Citrobacter rodentium ICC168 |
| 4 | 3306738 | 3306953 | + | NZ_CP045205.1 | Citrobacter telavivensis |
| 5 | 87467 | 87682 | + | NZ_CP044098.1 | Citrobacter portucalensis |
| 6 | 3682112 | 3682327 | - | NZ_LT556085.1 | Citrobacter amalonaticus |
| 7 | 835809 | 836024 | - | NZ_CP038469.1 | Citrobacter tructae |
| 8 | 1642890 | 1643105 | + | NZ_AP014857.1 | Escherichia albertii |
| 9 | 4971996 | 4972211 | - | NZ_CP033744.1 | Citrobacter freundii |
| 10 | 1577023 | 1577238 | + | NC_009792.1 | Citrobacter koseri ATCC BAA-895 |
| 11 | 2559903 | 2560118 | - | NZ_CP050508.1 | Raoultella terrigena |
| 12 | 4772891 | 4773106 | + | NZ_CP026047.1 | Raoultella planticola |
| 13 | 1406535 | 1406750 | + | NZ_CP027107.1 | Cronobacter sakazakii |
| 14 | 2497626 | 2497841 | - | NZ_CP046672.1 | Raoultella ornithinolytica |
| 15 | 2052072 | 2052287 | - | NZ_CP054058.1 | Scandinavium goeteborgense |
| 16 | 2186781 | 2186996 | + | NZ_CP013940.1 | Cronobacter malonaticus LMG 23826 |
| 17 | 445610 | 445825 | - | NZ_CP057657.1 | Escherichia fergusonii |
| 18 | 2360968 | 2361183 | - | NZ_CP041247.1 | Raoultella electrica |
| 19 | 1981957 | 1982172 | - | NZ_CP012257.1 | Cronobacter universalis NCTC 9529 |
| 20 | 2030460 | 2030675 | - | NZ_CP012266.1 | Cronobacter dublinensis subsp. dublinensis LMG 23823 |
| 21 | 2990855 | 2991070 | + | NZ_CP014007.2 | Kosakonia oryzae |
| 22 | 2143853 | 2144068 | - | NZ_CP015113.1 | Kosakonia radicincitans |
| 23 | 1918155 | 1918370 | - | NZ_CP061527.1 | Shigella dysenteriae |
| 24 | 1681667 | 1681882 | + | NC_004337.2 | Shigella flexneri 2a str. 301 |
| 25 | 1704949 | 1705164 | + | NC_000913.3 | Escherichia coli str. K-12 substr. MG1655 |
| 26 | 2304717 | 2304932 | + | NC_002695.2 | Escherichia coli O157:H7 str. Sakai |
| 27 | 2761364 | 2761579 | - | NZ_CP051548.1 | Phytobacter diazotrophicus |
| 28 | 1499779 | 1499994 | - | NZ_CP011602.1 | Phytobacter ursingii |
| 29 | 2031932 | 2032147 | + | NZ_CP012268.1 | Cronobacter muytjensii ATCC 51329 |
| 30 | 1975399 | 1975614 | - | NZ_CP012264.1 | Cronobacter condimenti 1330 |
| 31 | 2644552 | 2644767 | - | NZ_CP060111.1 | Klebsiella michiganensis |
| 32 | 2718016 | 2718231 | - | NZ_CP036175.1 | Klebsiella huaxiensis |
| 33 | 2842697 | 2842912 | + | NZ_LR134475.1 | Klebsiella aerogenes |
| 34 | 940508 | 940723 | + | NZ_CP016337.1 | Kosakonia sacchari |
| 35 | 2188596 | 2188811 | - | NZ_CP063425.1 | Kosakonia pseudosacchari |
| 36 | 2103791 | 2104006 | - | NZ_LR134340.1 | Escherichia marmotae |
| 37 | 2015178 | 2015393 | - | NZ_AP022508.1 | Enterobacter bugandensis |
| 38 | 513443 | 513658 | + | NZ_CP025034.2 | Enterobacter sp. SGAir0187 |
| 39 | 2032734 | 2032949 | - | NZ_CP009756.1 | Enterobacter cloacae |
| 40 | 2249149 | 2249364 | - | NZ_CP043318.1 | Enterobacter chengduensis |
| 41 | 1986369 | 1986584 | - | NC_015968.1 | Enterobacter soli |
| 42 | 1422775 | 1422990 | + | NZ_CP045769.1 | Enterobacter cancerogenus |
| 43 | 1959392 | 1959607 | - | NZ_CP017184.1 | Enterobacter roggenkampii |
| 44 | 1244476 | 1244691 | - | NZ_CP017279.1 | Enterobacter ludwigii |
| 45 | 2040685 | 2040900 | - | NZ_CP027986.1 | Enterobacter sichuanensis |
| 46 | 2940323 | 2940538 | + | NC_016845.1 | Klebsiella pneumoniae subsp. pneumoniae HS11286 |
| 47 | 901336 | 901551 | - | NZ_CP023529.1 | Lelliottia amnigena |
| 48 | 2566351 | 2566566 | + | NZ_CP035129.1 | Kosakonia cowanii |
| 49 | 55761 | 55976 | - | NZ_AP019007.1 | Enterobacter oligotrophicus |
| 50 | 2382828 | 2383043 | - | NZ_CP054254.1 | Klebsiella variicola |
| 51 | 2300601 | 2300816 | - | NZ_CP065838.1 | Klebsiella quasipneumoniae |
| 52 | 2426589 | 2426804 | + | NZ_CP012871.1 | [Enterobacter] lignolyticus |
| 53 | 2374563 | 2374760 | - | NZ_CP038498.1 | Pectobacterium punjabense |
| 54 | 4156379 | 4156576 | - | NZ_CP015750.1 | Pectobacterium wasabiae CFBP 3304 |
| 55 | 2438086 | 2438301 | + | NZ_CP045845.1 | Kluyvera intermedia |
| 56 | 2688910 | 2689125 | + | NZ_CP013990.1 | Leclercia adecarboxylata |
| 57 | 1586004 | 1586201 | + | NZ_CP015749.1 | Pectobacterium parmentieri |
| 58 | 1848557 | 1848772 | - | NZ_LN907827.1 | Erwinia gerundensis |
| 59 | 2203139 | 2203354 | - | NC_014306.1 | Erwinia billingiae Eb661 |
| 60 | 3813698 | 3813913 | + | NZ_CP020388.1 | Pluralibacter gergoviae |
| 61 | 3721702 | 3721917 | - | NZ_CP042941.1 | Atlantibacter hermannii |
| 62 | 1274727 | 1274942 | - | NZ_CP028271.1 | Mixta intestinalis |
| 63 | 3784080 | 3784295 | + | NZ_CP019706.1 | Pantoea alhagi |
| 64 | 2446435 | 2446650 | - | NZ_CP065044.1 | Pectobacterium aroidearum |
| 65 | 2140846 | 2141061 | - | NZ_CP026377.1 | Mixta gaviniae |
| 66 | 2320115 | 2320330 | + | NZ_CP006569.1 | Sodalis praecaptivus |
| 67 | 238823 | 239038 | - | NZ_CP049115.1 | Pantoea stewartii |
| 68 | 2479051 | 2479266 | + | NC_012912.1 | Dickeya chrysanthemi Ech1591 |
| 69 | 2082643 | 2082858 | - | NZ_CP061511.1 | Mixta calida |
| 70 | 2321635 | 2321856 | + | NC_017910.1 | Shimwellia blattae DSM 4481 = NBRC 105725 |
| 71 | 2523576 | 2523791 | + | NC_017554.1 | Pantoea ananatis PA13 |
| 72 | 1182907 | 1183104 | - | NZ_CP017482.1 | Pectobacterium polaris |
| 73 | 2107420 | 2107635 | - | NZ_AP023184.1 | Buttiauxella agrestis |
| 74 | 384142 | 384357 | + | NZ_CP009460.1 | Dickeya fangzhongdai |
| 75 | 2320763 | 2320978 | - | NZ_CP025799.1 | Dickeya zeae |
| 76 | 2192627 | 2192842 | + | NZ_CP038853.1 | Pantoea vagans |
| 77 | 2380845 | 2381060 | - | NC_014500.1 | Dickeya dadantii 3937 |
| 78 | 4532134 | 4532349 | - | NZ_CP015137.1 | Dickeya solani IPO 2222 |
| 79 | 2333198 | 2333413 | + | NZ_CP050150.1 | Hafnia alvei |
| 80 | 1862561 | 1862776 | - | NZ_CP034148.1 | Pantoea agglomerans |
| 81 | 2195548 | 2195763 | + | NZ_CP045720.1 | Pantoea eucalypti |
| 82 | 2510982 | 2511179 | + | NZ_CP034938.1 | Pectobacterium odoriferum |
| 83 | 1769634 | 1769831 | + | NZ_CP014137.1 | Brenneria goodwinii |
| 84 | 3963435 | 3963650 | - | NZ_CP047495.1 | Pectobacterium brasiliense |
| 85 | 2604814 | 2605008 | + | NZ_LR134201.1 | Cedecea lapagei |
| 86 | 2835891 | 2836085 | + | NZ_CP023525.1 | Cedecea neteri |
| 87 | 2182745 | 2182960 | + | NZ_CP042220.2 | Dickeya poaceiphila |
| 88 | 2417890 | 2418105 | + | NZ_CP051652.1 | Pectobacterium carotovorum |
| 89 | 2247755 | 2247970 | + | NZ_LT615367.1 | Dickeya aquatica |
| 90 | 2281713 | 2281928 | + | NC_012880.1 | Musicola paradisiaca Ech703 |
| 91 | 3762799 | 3763014 | - | NZ_CP006664.1 | Edwardsiella anguillarum ET080813 |
| 92 | 3515743 | 3515958 | - | NZ_CP023706.1 | Edwardsiella tarda |
| 93 | 1845671 | 1845886 | - | NZ_CP016043.1 | Edwardsiella hoshinae |
| 94 | 5417753 | 5417944 | + | NZ_CP011254.1 | Serratia fonticola |
| 95 | 4185920 | 4186111 | + | NZ_CP007044.2 | Chania multitudinisentens RB-25 |
| 96 | 3174666 | 3174857 | + | NZ_LT906479.1 | Serratia ficaria |
| 97 | 1954314 | 1954529 | - | NZ_CP071320.1 | Serratia ureilytica |
| 98 | 2444202 | 2444417 | + | NZ_CP016948.1 | Serratia surfactantfaciens |
| 99 | 3145509 | 3145724 | + | NZ_CP038662.1 | Serratia nematodiphila |
| 100 | 3260790 | 3260981 | + | NZ_CP048784.1 | Serratia liquefaciens |
| 101 | 3289419 | 3289610 | + | NZ_LR134494.1 | Serratia quinivorans |
| 102 | 3272772 | 3272963 | + | NC_015567.1 | Serratia plymuthica AS9 |
| 103 | 1406372 | 1406584 | - | NZ_LS483470.1 | Leminorella richardii |
| 104 | 4953670 | 4953861 | - | NZ_CP014136.1 | Gibbsiella quercinecans |
| 105 | 4510957 | 4511148 | + | NZ_CP065640.1 | Serratia rubidaea |
| 106 | 1382961 | 1383173 | - | NZ_CP029185.2 | Limnobaculum parvum |
| 107 | 2551941 | 2552153 | + | NZ_LR134531.1 | Pragia fontium |
| 108 | 1260101 | 1260313 | + | NZ_CP034752.1 | Jinshanibacter zhutongyuii |
++ More..
| Neighborhood Conservation Analysis |
* Arrows marked in Genome Diagram shows ORFs; Multiple PFAMs can be mapped to a single ORF.
* 'Small ORF' represents the entry/query analyzed.
* Image generated using 'gggenes'(R-Package).
Neighborhood Representative Chosen(Species): NC_003197.2
| Sr.No. | Domain | Co-occurrence Frequency | No. of species in which domain occurs with smORF | Median distance b/w smORF and domain bearing ORFs | Orientation relative to smORF | PFAM Information |
|---|---|---|---|---|---|---|
| 1 | PF03116.17 | 0.79 | 85 | 3886.5 | same-strand | NQR2, RnfD, RnfE family |
| 2 | PF01512.19 | 0.85 | 91 | 1756.0 | same-strand | Respiratory-chain NADH dehydrogenase 51 Kd subunit |
| 3 | PF13375.8 | 0.84 | 90 | 1756 | same-strand | RnfC Barrel sandwich hybrid domain |
| 4 | PF10531.11 | 0.84 | 90 | 1756 | same-strand | SLBB domain |
| 5 | PF12838.9 | 0.84 | 90 | 1755.0 | same-strand | 4Fe-4S dicluster domain |
| 6 | PF13237.8 | 0.86 | 92 | 1369.0 | same-strand | 4Fe-4S dicluster domain |
| 7 | PF13187.8 | 0.86 | 92 | 1368.5 | same-strand | 4Fe-4S dicluster domain |
| 8 | PF13183.8 | 0.84 | 90 | 1756 | same-strand | 4Fe-4S dicluster domain |
| 9 | PF13534.8 | 0.8 | 86 | 1756 | same-strand | 4Fe-4S dicluster domain |
| 10 | PF14697.8 | 0.86 | 92 | 1232 | same-strand | 4Fe-4S dicluster domain |
| 11 | PF00037.29 | 0.86 | 92 | 1186 | same-strand | 4Fe-4S binding domain |
| 12 | PF04060.15 | 0.86 | 92 | 1185 | same-strand | Putative Fe-S cluster |
| 13 | PF12797.9 | 0.86 | 92 | 1186 | same-strand | 4Fe-4S binding domain |
| 14 | PF12837.9 | 0.86 | 92 | 1186.0 | same-strand | 4Fe-4S binding domain |
| 15 | PF02508.16 | 0.86 | 92 | 604 | same-strand | Rnf-Nqr subunit, membrane protein |
| 16 | PF10754.11 | 0.68 | 73 | 87.5 | same-strand | Protein of unknown function (DUF2569) |
++ More..