Detailed information of Recipient susceptibility factor
Summary
| ID | RSF000007  |
| Strain | Escherichia coli BW25113 strain K-12 |
| Replicon | chromosome |
| Sequence | Protein sequence (307 a.a.); Nucleotide sequence (921 bp) |
| Response to T6SS attack | protective |
| Known or putative function | peptidoglycan synthesis |
| Description | Tat-TseL was highly toxic to the ddlB (PA4410) mutant |
| Reference | [1] Hersch SJ, Watanabe N, Stietz MS, et al. Envelope stress responses defend against type six secretion system attacks independently of immunity proteins. Nat Microbiol. 2020 May;5(5):706-714. doi: 10.1038/s41564-020-0672-6. Epub 2020 Feb 24. PMID: 32094588 [2] Hersch SJ, Manera K, Dong TG. Defending against the Type Six Secretion System: beyond Immunity Genes. Cell Rep. 2020 Oct 13;33(2):108259. doi: 10.1016/j.celrep.2020.108259. PMID: 33053336 |
Experimental investigation has been performed.External database links
| Locus tag (Gene) | BW25113_RS00460 (ddlB) |
| Coordinates (Strand) | 98720..99640 (+) |
| NCBI ID | 446052201 |
| RefSeq | NZ_CP009273 |
| Uniprot ID | M9GMX9_ECOLX, L3BWJ3_ECOLX, S1EKV6_ECOLX, S1IWL9_ECOLX, V0ADR4_ECOLX, V0Z4J6_ECOLX, U9ZNL7_ECOLX, A0A080JHL2_ECOLX, A0A0A0F6L2_ECOLX, D3H473_ECO44, E3PCE4_ECOH1, A0A0E1T0P2_ECOLX, B6HZ69_ECOSE, J7RMW1_ECOLX, D6II53_ECOLX, D6J5V2_ECOLX, E0IYT7_ECOLW, A0A181WSX4_KLEOX, B7N7W5_ECOLU, A0A238BEP1_SHIBO, A0A0I2EZP5_SHISO, A0A1X3JNE4_ECOLX, A0A1X3LBF1_ECOLX, F4VNH7_ECOLX, F4SF95_ECOLX, A0A1X3ICT9_ECOLX, A0A1X3M2W9_ECOLX, E1J671_ECOLX, D8E5J2_ECOLX, A0A0E1LT43_ECOLX, D7XR32_ECOLX, D7Y6Y1_ECOM1, E9TIG6_ECOLX, I4T5Q3_ECOLX, DDLB_ECOLI, I2UQB0_ECOLX, I2WQK4_ECOLX |
| KEGG ID | eum:ECUMN_0092, elo:EC042_0093, ecy:ECSE_0094, ecj:JW0090, elh:ETEC_0090, elw:ECW_m0091, eco:b0092 |
| PDB ID | 4C5C, 1IOW, 2DLN, 4C5B, 1IOV, 4C5A |
Pfam domain hit(s)
| Domain | Pfam ID | E-value | Aligned region |
|---|---|---|---|
| Dala_Dala_lig_C | PF07478.15 | 7.2e-74 | 103..303 |
| Dala_Dala_lig_N | PF01820.23 | 6.9e-18 | 4..86 |
Transmembrane helices
- Transmembrane helices are predicted using TMHMM 2.0 software.
| Prediction | Region | Sequence |
|---|---|---|
| Outside | 1-306 | MTDKIAVLLGGTSAEREVSLNSGAAVLAGLREGGIDAYPVDPKEVDVTQLKSMGFQKVFIALHGRGGEDGTLQGMLELMGLPYTGSGVMASALSMDKLRSKLLWQGAGLPVAPWVALTRAEFEKGLSDKQLAEISALGLPVIVKPSREGSSVGMSKVVAENALQDALRLAFQHDEEVLIEKWLSGPEFTVAILGEEILPSIRIQPSGTFYDYEAKYLSDETQYFCPAGLEASQEANLQALVLKAWTTLGCKGWGRIDVMLDSDGQFYLLEANTSPGMTSHSLVPMAARQAGMSFSQLVVRILELAD |
Signal peptides
- Sec/SPI: "standard" secretory signal peptides transported by the Sec translocon and cleaved by Signal Peptidase I (Lep).
- Sec/SPII: lipoprotein signal peptides transported by the Sec translocon and cleaved by Signal Peptidase II (Lsp).
- Tat/SPI: Tat signal peptides transported by the Tat translocon and cleaved by Signal Peptidase I (Lep).
| Prediction | Probability | Cleavage site | Signal peptide sequence |
|---|---|---|---|
| Other | 0.9414 | - | - |
Protein sequence: 307 a.a. .
>RSF000007 NZ_CP009273:98720-99640 [Escherichia coli BW25113]
MTDKIAVLLGGTSAEREVSLNSGAAVLAGLREGGIDAYPVDPKEVDVTQLKSMGFQKVFIALHGRGGEDGTLQGMLELMG
LPYTGSGVMASALSMDKLRSKLLWQGAGLPVAPWVALTRAEFEKGLSDKQLAEISALGLPVIVKPSREGSSVGMSKVVAE
NALQDALRLAFQHDEEVLIEKWLSGPEFTVAILGEEILPSIRIQPSGTFYDYEAKYLSDETQYFCPAGLEASQEANLQAL
VLKAWTTLGCKGWGRIDVMLDSDGQFYLLEANTSPGMTSHSLVPMAARQAGMSFSQLVVRILELAD*
MTDKIAVLLGGTSAEREVSLNSGAAVLAGLREGGIDAYPVDPKEVDVTQLKSMGFQKVFIALHGRGGEDGTLQGMLELMG
LPYTGSGVMASALSMDKLRSKLLWQGAGLPVAPWVALTRAEFEKGLSDKQLAEISALGLPVIVKPSREGSSVGMSKVVAE
NALQDALRLAFQHDEEVLIEKWLSGPEFTVAILGEEILPSIRIQPSGTFYDYEAKYLSDETQYFCPAGLEASQEANLQAL
VLKAWTTLGCKGWGRIDVMLDSDGQFYLLEANTSPGMTSHSLVPMAARQAGMSFSQLVVRILELAD*
Nucleotide sequence: 921 bp .
>RSF000007 NZ_CP009273:98720-99640 [Escherichia coli BW25113]
ATGACTGATAAAATCGCGGTCCTGTTGGGTGGGACCTCCGCTGAGCGGGAAGTTTCTCTGAATTCTGGCGCAGCGGTGTT
AGCCGGACTGCGTGAAGGCGGTATTGACGCGTATCCTGTCGACCCGAAAGAAGTCGACGTGACGCAACTGAAGTCGATGG
GCTTTCAGAAAGTGTTTATCGCGCTACACGGTCGCGGCGGTGAAGATGGTACGCTGCAGGGGATGCTCGAGCTGATGGGC
TTGCCTTATACCGGAAGCGGAGTGATGGCATCTGCGCTTTCAATGGATAAACTACGCAGCAAACTTCTATGGCAAGGTGC
CGGTTTACCGGTCGCGCCGTGGGTAGCGTTAACCCGCGCAGAGTTTGAAAAAGGCCTGAGCGATAAGCAGTTAGCAGAAA
TTTCTGCTCTGGGTTTGCCGGTTATCGTTAAGCCGAGCCGCGAAGGTTCCAGTGTGGGAATGTCAAAAGTAGTAGCAGAA
AATGCTCTACAAGATGCATTAAGATTGGCATTTCAGCACGATGAAGAAGTATTGATTGAAAAATGGCTAAGTGGGCCGGA
GTTCACGGTTGCGATACTCGGTGAAGAAATTTTACCGTCAATACGTATTCAACCGTCCGGAACCTTCTATGATTATGAGG
CGAAGTATCTCTCTGATGAGACACAGTATTTCTGCCCCGCAGGTCTGGAAGCGTCACAAGAGGCCAATTTGCAGGCATTA
GTGCTGAAAGCATGGACGACGTTAGGTTGCAAAGGATGGGGACGTATTGACGTTATGCTGGACAGCGATGGACAGTTTTA
TCTGCTGGAAGCCAATACCTCACCGGGTATGACCAGCCACAGCCTGGTGCCGATGGCGGCACGTCAGGCAGGTATGAGCT
TCTCGCAGTTGGTAGTACGAATTCTGGAACTGGCGGACTAA
ATGACTGATAAAATCGCGGTCCTGTTGGGTGGGACCTCCGCTGAGCGGGAAGTTTCTCTGAATTCTGGCGCAGCGGTGTT
AGCCGGACTGCGTGAAGGCGGTATTGACGCGTATCCTGTCGACCCGAAAGAAGTCGACGTGACGCAACTGAAGTCGATGG
GCTTTCAGAAAGTGTTTATCGCGCTACACGGTCGCGGCGGTGAAGATGGTACGCTGCAGGGGATGCTCGAGCTGATGGGC
TTGCCTTATACCGGAAGCGGAGTGATGGCATCTGCGCTTTCAATGGATAAACTACGCAGCAAACTTCTATGGCAAGGTGC
CGGTTTACCGGTCGCGCCGTGGGTAGCGTTAACCCGCGCAGAGTTTGAAAAAGGCCTGAGCGATAAGCAGTTAGCAGAAA
TTTCTGCTCTGGGTTTGCCGGTTATCGTTAAGCCGAGCCGCGAAGGTTCCAGTGTGGGAATGTCAAAAGTAGTAGCAGAA
AATGCTCTACAAGATGCATTAAGATTGGCATTTCAGCACGATGAAGAAGTATTGATTGAAAAATGGCTAAGTGGGCCGGA
GTTCACGGTTGCGATACTCGGTGAAGAAATTTTACCGTCAATACGTATTCAACCGTCCGGAACCTTCTATGATTATGAGG
CGAAGTATCTCTCTGATGAGACACAGTATTTCTGCCCCGCAGGTCTGGAAGCGTCACAAGAGGCCAATTTGCAGGCATTA
GTGCTGAAAGCATGGACGACGTTAGGTTGCAAAGGATGGGGACGTATTGACGTTATGCTGGACAGCGATGGACAGTTTTA
TCTGCTGGAAGCCAATACCTCACCGGGTATGACCAGCCACAGCCTGGTGCCGATGGCGGCACGTCAGGCAGGTATGAGCT
TCTCGCAGTTGGTAGTACGAATTCTGGAACTGGCGGACTAA