Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   J9870_RS19230 Genome accession   NZ_CP072913
Coordinates   4499169..4499681 (+) Length   170 a.a.
NCBI ID   WP_210639537.1    Uniprot ID   -
Organism   Pseudomonas sp. Tri1     
Function   ssDNA binding (predicted from homology)   
DNA processing

Related MGE

Note: This gene co-localizes with putative mobile genetic elements (MGEs) in the genome predicted by VRprofile2, as detailed below.

Gene-MGE association summary

MGE type MGE coordinates Gene coordinates Relative position Distance (bp)
Prophage 4497632..4524921 4499169..4499681 within 0


Gene organization within MGE regions


Location: 4497632..4524921
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  J9870_RS19210 - 4497632..4498051 (+) 420 WP_210639535.1 hypothetical protein -
  J9870_RS19215 - 4498048..4498230 (+) 183 WP_210639536.1 hypothetical protein -
  J9870_RS19220 - 4498374..4498604 (+) 231 WP_246883033.1 hypothetical protein -
  J9870_RS19225 - 4498601..4499160 (+) 560 Protein_3833 siphovirus Gp157 family protein -
  J9870_RS19230 ssb 4499169..4499681 (+) 513 WP_210639537.1 single-stranded DNA-binding protein Machinery gene
  J9870_RS19235 - 4499683..4500039 (+) 357 WP_210639538.1 hypothetical protein -
  J9870_RS19240 - 4500124..4500438 (+) 315 WP_210639539.1 hypothetical protein -
  J9870_RS19245 - 4500465..4500677 (-) 213 WP_149658583.1 hypothetical protein -
  J9870_RS19250 - 4500806..4501237 (-) 432 WP_210639540.1 hypothetical protein -
  J9870_RS19255 - 4501322..4502245 (+) 924 Protein_3839 DNA cytosine methyltransferase -
  J9870_RS19260 - 4502260..4502940 (-) 681 WP_210639541.1 hypothetical protein -
  J9870_RS19265 - 4503003..4503356 (+) 354 WP_246883034.1 DUF4406 domain-containing protein -
  J9870_RS19270 - 4503403..4503603 (+) 201 WP_032864180.1 hypothetical protein -
  J9870_RS19275 - 4503677..4503907 (-) 231 WP_210639542.1 hypothetical protein -
  J9870_RS29580 - 4503994..4504260 (+) 267 WP_246883035.1 hypothetical protein -
  J9870_RS29585 - 4504282..4504425 (+) 144 WP_246883036.1 hypothetical protein -
  J9870_RS19285 - 4504419..4504808 (+) 390 WP_210645475.1 hypothetical protein -
  J9870_RS19290 - 4505023..4505270 (+) 248 Protein_3847 integrase -
  J9870_RS19300 - 4505515..4505871 (-) 357 WP_003179985.1 MerR family transcriptional regulator -
  J9870_RS19305 ihfA 4505852..4506154 (-) 303 WP_002553164.1 integration host factor subunit alpha -
  J9870_RS19310 pheT 4506158..4508536 (-) 2379 WP_210639543.1 phenylalanine--tRNA ligase subunit beta -
  J9870_RS19315 pheS 4508572..4509588 (-) 1017 WP_210639544.1 phenylalanine--tRNA ligase subunit alpha -
  J9870_RS19320 rplT 4509698..4510054 (-) 357 WP_002553161.1 50S ribosomal protein L20 -
  J9870_RS19325 rpmI 4510085..4510279 (-) 195 WP_002553160.1 50S ribosomal protein L35 -
  J9870_RS19330 infC 4510340..4510891 (-) 552 WP_169432615.1 translation initiation factor IF-3 -
  J9870_RS19335 thrS 4510891..4512813 (-) 1923 WP_014337550.1 threonine--tRNA ligase -
  J9870_RS19340 - 4513189..4513491 (+) 303 WP_210639545.1 hypothetical protein -
  J9870_RS19345 - 4513780..4513992 (+) 213 WP_003179963.1 cold-shock protein -
  J9870_RS19350 - 4514061..4514375 (-) 315 WP_210639546.1 I78 family peptidase inhibitor -
  J9870_RS19355 - 4514539..4514844 (-) 306 WP_109754693.1 hypothetical protein -
  J9870_RS19360 - 4514975..4515172 (+) 198 WP_210639547.1 hypothetical protein -
  J9870_RS19365 - 4515221..4516249 (-) 1029 WP_210639548.1 nucleoside hydrolase -
  J9870_RS19370 rbsD 4516278..4516682 (-) 405 WP_210639549.1 D-ribose pyranase -
  J9870_RS19375 rbsK 4516679..4517593 (-) 915 WP_210639550.1 ribokinase -
  J9870_RS19380 - 4517617..4518636 (-) 1020 WP_210639551.1 LacI family DNA-binding transcriptional regulator -
  J9870_RS19385 - 4518640..4519617 (-) 978 WP_210639552.1 ABC transporter permease -
  J9870_RS19390 - 4519614..4521167 (-) 1554 WP_210639553.1 sugar ABC transporter ATP-binding protein -
  J9870_RS19395 - 4521225..4522181 (-) 957 WP_210639554.1 sugar ABC transporter substrate-binding protein -
  J9870_RS19400 - 4522316..4522762 (-) 447 WP_210639555.1 hypothetical protein -
  J9870_RS19405 - 4522960..4523259 (+) 300 WP_176689649.1 DUF1654 domain-containing protein -
  J9870_RS19410 - 4523265..4523954 (+) 690 WP_210639556.1 endonuclease I family protein -
  J9870_RS19415 - 4524112..4524477 (-) 366 WP_210639557.1 SPOR domain-containing protein -
  J9870_RS19420 csrA 4524727..4524921 (+) 195 WP_003179932.1 carbon storage regulator CsrA -

Sequence

Protein


Download         Length: 170 a.a.        Molecular weight: 18918.00 Da        Isoelectric Point: 7.4728

>NTDB_id=556814 J9870_RS19230 WP_210639537.1 4499169..4499681(+) (ssb) [Pseudomonas sp. Tri1]
MARGVNKVILVGTCGQEPDVRYLPNGNAVTNLSLATSEQWTDKQTGQKVEKTEWHRVTLFGKVAEIAGEYLTKGSQVYIE
GKLQTREWEKDGIKRYSTEVHVDMRGTMQILGSPAHRQAGTNAQRPTGQRQQQPRPQQASPQNSQQGAPPDFDSFDDDIP
FAPHHHLNGA

Nucleotide


Download         Length: 513 bp        

>NTDB_id=556814 J9870_RS19230 WP_210639537.1 4499169..4499681(+) (ssb) [Pseudomonas sp. Tri1]
ATGGCCCGTGGAGTAAACAAAGTCATCCTGGTCGGCACCTGTGGCCAGGAGCCAGATGTCCGCTACCTGCCCAACGGCAA
CGCGGTCACGAACTTGAGCCTTGCCACTAGCGAGCAATGGACGGACAAGCAGACCGGCCAGAAGGTCGAGAAGACCGAGT
GGCACCGCGTCACGTTGTTCGGGAAGGTGGCCGAGATCGCCGGCGAGTACCTGACAAAGGGGTCCCAGGTCTACATCGAG
GGCAAGCTGCAAACTCGGGAGTGGGAGAAGGACGGCATCAAGCGCTACAGCACTGAGGTGCACGTCGACATGCGCGGCAC
GATGCAGATCCTGGGATCGCCGGCGCACCGCCAGGCTGGCACGAATGCCCAGCGTCCCACCGGGCAACGTCAGCAACAAC
CCAGGCCACAACAGGCTTCCCCGCAAAACAGCCAGCAAGGCGCGCCGCCGGACTTCGACAGCTTCGACGACGACATCCCC
TTCGCCCCTCATCACCATTTAAACGGTGCCTGA

Domains

Predicted by InterproScan.

Single-strand binding protein family (SSB)

(5-107)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure

Transmembrane helices

Transmembrane helices of protein were predicted by TMHMM 2.0 and visualized by seqviz and ECharts.


Visualization of predicted probability:


Similar proteins

Only experimentally validated proteins are listed.

Protein Organism Identities (%) Coverage (%) Ha-value
  ssb Vibrio cholerae strain A1552

55.429

100

0.571
  ssb Glaesserella parasuis strain SC1401

45.355

100

0.488
  ssb Neisseria meningitidis MC58

41.477

100

0.429
  ssb Neisseria gonorrhoeae MS11

41.477

100

0.429