Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   RG35_RS01270 Genome accession   NZ_CP010137
Coordinates   238157..238642 (-) Length   161 a.a.
NCBI ID   WP_000157061.1    Uniprot ID   A0AAU7IP99
Organism   Escherichia coli strain D2     
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 225331..238642 238157..238642 within 0


Gene organization within MGE regions


Location: 225331..238642
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RG35_RS26300 (RG35_01165) - 225331..226236 (-) 906 Protein_218 IS3-like element IS911 family transposase -
  RG35_RS01210 (RG35_01170) - 226246..227397 (-) 1152 WP_073544045.1 IS30-like element IS30 family transposase -
  RG35_RS01215 (RG35_01175) - 227465..227710 (-) 246 Protein_220 transposase -
  RG35_RS27400 (RG35_01180) - 227689..227883 (+) 195 Protein_221 hypothetical protein -
  RG35_RS27405 - 228251..228364 (-) 114 Protein_222 alkaline phosphatase -
  RG35_RS25760 (RG35_01190) - 228363..228568 (+) 206 Protein_223 hypothetical protein -
  RG35_RS01230 (RG35_01195) - 228743..232240 (-) 3498 WP_001038839.1 autotransporter outer membrane beta-barrel domain-containing protein -
  RG35_RS26305 (RG35_01200) - 232519..232899 (-) 381 Protein_225 integrase core domain-containing protein -
  RG35_RS27120 - 233519..233674 (+) 156 WP_000074142.1 hypothetical protein -
  RG35_RS01250 (RG35_01205) - 233723..234178 (+) 456 Protein_227 hypothetical protein -
  RG35_RS01260 (RG35_01220) - 234214..235427 (+) 1214 WP_085950468.1 IS3-like element ISEc31 family transposase -
  RG35_RS27125 - 235579..235746 (+) 168 WP_001300931.1 hypothetical protein -
  RG35_RS01265 (RG35_01230) trbC 235782..238103 (-) 2322 WP_001164055.1 F-type conjugative transfer protein TrbC -
  RG35_RS01270 (RG35_01235) ssb 238157..238642 (-) 486 WP_000157061.1 single-stranded DNA-binding protein Machinery gene

Sequence

Protein


Download         Length: 161 a.a.        Molecular weight: 17685.62 Da        Isoelectric Point: 7.2017

>NTDB_id=134498 RG35_RS01270 WP_000157061.1 238157..238642(-) (ssb) [Escherichia coli strain D2]
MASKGINKVILIGYLGQDPDIRYMPNGGAVASIALATSETWRDKQTGEMREQTEWHRVVLFGKLAEVASEYLRKGAQVYI
DGQLRTRKWTDQTGQERYTTEVVVHTGGTMQMLGSRQNSAQGGRGQPQQPQQGRQFSGNSPSPGNTAMSGSFSDDDDSIP
F

Nucleotide


Download         Length: 486 bp        

>NTDB_id=134498 RG35_RS01270 WP_000157061.1 238157..238642(-) (ssb) [Escherichia coli strain D2]
ATGGCCTCTAAAGGTATTAACAAAGTTATTCTGATAGGGTATCTGGGTCAGGACCCGGATATTCGCTATATGCCAAACGG
CGGCGCTGTGGCCAGCATTGCGCTGGCCACCTCCGAAACCTGGCGGGACAAACAGACAGGGGAGATGCGGGAACAAACCG
AATGGCACCGCGTGGTGCTGTTCGGCAAACTGGCGGAAGTAGCCAGTGAATACCTGCGCAAAGGAGCTCAGGTGTACATC
GATGGTCAGCTGCGTACCCGAAAATGGACCGACCAGACCGGCCAGGAACGCTACACGACTGAAGTGGTGGTGCATACCGG
CGGTACCATGCAGATGCTGGGCTCCCGGCAGAATAGTGCACAGGGTGGCCGGGGACAGCCTCAACAACCACAACAGGGCA
GACAGTTTTCAGGTAATTCGCCATCTCCGGGCAATACCGCCATGTCCGGCAGTTTCAGCGACGATGACGACAGTATCCCG
TTCTGA

Domains

Predicted by InterproScan.

Single-strand binding protein family (SSB)

(6-112)


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

58.757

100

0.646
  ssb Glaesserella parasuis strain SC1401

52.632

94.41

0.497
  ssb Neisseria meningitidis MC58

41.477

100

0.453
  ssb Neisseria gonorrhoeae MS11

41.477

100

0.453
  ssb Latilactobacillus sakei subsp. sakei 23K

32.402

100

0.36

Multiple sequence alignment