Result : SDP2
| Protein Information |
| Information Type | Description |
|---|---|
| Protein name | SDP2 |
| NCBI Accession ID | WP_003515516.1 |
| Organism | A.tumefaciens |
| Left | |
| Right | |
| Strand | |
| Nucleotide Sequence | |
| Sequence | MNPIRIAKNWISYRRTINELGSLSNQALSDIGLTRYDIRNVASRSFR |
| Source of smORF | Literature-mining |
| Function | DUF1127 protein, upregulated after heat shock, plays a role in cell aggregation and biofilm formation. The mutant shows increased glycine/serine( c1 metabolism) conversion, increased phosphate acquisition and increased denitrification (nitrate respiration). |
| Pubmed ID | 29967118 |
| Domain | CDD:420128 |
| Functional Category | Others |
| Uniprot ID | |
| ORF Length (Amino Acid) | 47 |
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| Conservation Analysis |
No. of Species: 43
| Sr.No. | Left Position | Right Position | Strand | NCBI Accession id | Species Name |
|---|---|---|---|---|---|
| 1 | 468644 | 468787 | - | NZ_CP048632.1 | Rhizobium oryzihabitans |
| 2 | 469267 | 469413 | - | NZ_CP048632.1 | Rhizobium oryzihabitans |
| 3 | 1271560 | 1271703 | + | NZ_CP061003.1 | Agrobacterium tumefaciens |
| 4 | 1270528 | 1270671 | + | NZ_CP053856.1 | Rhizobium pusense |
| 5 | 2600173 | 2600316 | - | NZ_CP049241.1 | Rhizobium pseudoryzae |
| 6 | 2600579 | 2600725 | - | NZ_CP049241.1 | Rhizobium pseudoryzae |
| 7 | 3777652 | 3777795 | - | NZ_CP071454.1 | Rhizobium lentis |
| 8 | 1940888 | 1941031 | - | NZ_CP013500.1 | Rhizobium esperanzae |
| 9 | 1918305 | 1918448 | - | NZ_CP071612.1 | Rhizobium bangladeshense |
| 10 | 1942751 | 1942894 | - | NZ_CP013532.1 | Rhizobium phaseoli |
| 11 | 1968342 | 1968485 | - | NZ_CP071604.1 | Rhizobium binae |
| 12 | 1532180 | 1532323 | - | NZ_FO082820.1 | Pseudorhizobium banfieldiae |
| 13 | 1532556 | 1532702 | - | NZ_FO082820.1 | Pseudorhizobium banfieldiae |
| 14 | 1630417 | 1630560 | - | NZ_LR723670.1 | Pseudorhizobium flavum |
| 15 | 1630792 | 1630938 | - | NZ_LR723670.1 | Pseudorhizobium flavum |
| 16 | 1828717 | 1828860 | + | NZ_CP059896.1 | Ciceribacter thiooxidans |
| 17 | 1828299 | 1828445 | + | NZ_CP059896.1 | Ciceribacter thiooxidans |
| 18 | 2311752 | 2311895 | - | NZ_CP049250.1 | Rhizobium rhizoryzae |
| 19 | 2312167 | 2312313 | - | NZ_CP049250.1 | Rhizobium rhizoryzae |
| 20 | 2467693 | 2467836 | + | NZ_CP054027.1 | Rhizobium hidalgonense |
| 21 | 2467245 | 2467391 | + | NZ_CP054027.1 | Rhizobium hidalgonense |
| 22 | 1665994 | 1666137 | - | NC_020528.1 | Sinorhizobium meliloti 2011 |
| 23 | 1712190 | 1712333 | - | NZ_CP006877.1 | Rhizobium gallicum bv. gallicum R602sp |
| 24 | 1538077 | 1538220 | - | NZ_CP034998.1 | Rhizobium acidisoli |
| 25 | 1538519 | 1538665 | - | NZ_CP034998.1 | Rhizobium acidisoli |
| 26 | 1348261 | 1348404 | - | NZ_CP023067.1 | Ensifer sojae CCBAU 05684 |
| 27 | 1723199 | 1723342 | - | NZ_CP041238.1 | Ensifer mexicanus |
| 28 | 1923513 | 1923656 | - | NZ_CP032694.1 | Rhizobium jaguaris |
| 29 | 1369281 | 1369424 | - | NZ_CP015880.1 | Ensifer adhaerens |
| 30 | 1630588 | 1630731 | - | NC_020059.1 | Rhizobium tropici CIAT 899 |
| 31 | 1631037 | 1631183 | - | NC_020059.1 | Rhizobium tropici CIAT 899 |
| 32 | 1475161 | 1475304 | - | NZ_CP029451.1 | Sinorhizobium fredii CCBAU 25509 |
| 33 | 1680326 | 1680469 | - | NZ_CP013107.1 | Sinorhizobium americanum |
| 34 | 1289515 | 1289658 | - | NZ_CP034909.1 | Ensifer alkalisoli |
| 35 | 1449251 | 1449394 | - | NZ_HG938353.1 | Neorhizobium galegae bv. orientalis str. HAMBI 540 |
| 36 | 1449644 | 1449790 | - | NZ_HG938353.1 | Neorhizobium galegae bv. orientalis str. HAMBI 540 |
| 37 | 2416731 | 2416877 | - | NZ_HG938353.1 | Neorhizobium galegae bv. orientalis str. HAMBI 540 |
| 38 | 1889876 | 1890019 | - | NZ_CP020906.1 | Rhizobium etli |
| 39 | 2211087 | 2211230 | - | NZ_CP071678.1 | Rhizobium ruizarguesonis |
| 40 | 590529 | 590672 | + | NZ_CP054021.1 | Rhizobium indicum |
| 41 | 1688764 | 1688904 | + | NZ_CP019044.1 | Salaquimonas pukyongi |
| 42 | 1504462 | 1504605 | - | NZ_CP020330.1 | Martelella mediterranea DSM 17316 |
| 43 | 4469977 | 4470117 | + | NZ_CP015318.1 | Mesorhizobium amorphae CCNWGS0123 |
| 44 | 107094 | 107240 | + | NZ_LR723671.1 | Pseudorhizobium flavum |
| 45 | 890439 | 890579 | + | NC_002678.2 | Mesorhizobium japonicum MAFF 303099 |
| 46 | 3668164 | 3668304 | - | NZ_CP033361.1 | Mesorhizobium erdmanii |
| 47 | 4112624 | 4112764 | - | NC_015675.1 | Mesorhizobium opportunistum WSM2075 |
| 48 | 1467130 | 1467276 | + | NZ_CP032695.1 | Rhizobium jaguaris |
| 49 | 448891 | 449037 | - | NZ_CP013503.1 | Rhizobium esperanzae |
| 50 | 2831024 | 2831164 | + | NZ_CP032509.1 | Georhizobium profundi |
| 51 | 1444027 | 1444179 | - | NC_014932.1 | Bartonella clarridgeiae 73 |
| 52 | 85996 | 86148 | + | NC_008783.1 | Bartonella bacilliformis KC583 |
| 53 | 31073 | 31219 | + | NZ_CP035001.1 | Rhizobium acidisoli |
| 54 | 144018 | 144164 | + | NZ_CP071456.1 | Rhizobium lentis |
| 55 | 2249988 | 2250140 | + | NC_012846.1 | Bartonella grahamii as4aup |
| 56 | 1549635 | 1549781 | - | NZ_CP017940.1 | Phyllobacterium zundukense |
| 57 | 1884255 | 1884401 | + | NZ_CP048635.1 | Rhizobium oryzihabitans |
| 58 | 2083959 | 2084105 | + | NZ_CP061004.1 | Agrobacterium tumefaciens |
| 59 | 5147487 | 5147627 | + | NZ_CP018171.1 | Mesorhizobium oceanicum |
| 60 | 1223815 | 1223955 | - | NZ_CP018171.1 | Mesorhizobium oceanicum |
| 61 | 1784057 | 1784209 | + | NZ_LR134527.1 | Bartonella elizabethae |
| 62 | 3427865 | 3428008 | - | NZ_CP041690.1 | Youhaiella tibetensis |
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| 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): NZ_CP071454.1
| 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 | PF01134.24 | 0.74 | 32 | 138.5 | same-strand | Glucose inhibited division protein A |
| 2 | PF06568.13 | 0.81 | 35 | 299.0 | same-strand | Domain of unknown function (DUF1127) |
| 3 | PF05698.16 | 0.72 | 31 | 2678 | opposite-strand | Bacterial trigger factor protein (TF) C-terminus |
| 4 | PF05697.15 | 0.72 | 31 | 2678 | opposite-strand | Bacterial trigger factor protein (TF) |
| 5 | PF00254.30 | 0.72 | 31 | 2678 | opposite-strand | FKBP-type peptidyl-prolyl cis-trans isomerase |
| 6 | PF00494.21 | 0.65 | 28 | 2201 | opposite-strand | Squalene/phytoene synthase |
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