Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   N5094_RS17175 Genome accession   NZ_CP104755
Coordinates   3886166..3886876 (-) Length   236 a.a.
NCBI ID   WP_025008376.1    Uniprot ID   -
Organism   Shewanella putrefaciens strain 4H     
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)
Genomic island 3874500..3886025 3886166..3886876 flank 141


Gene organization within MGE regions


Location: 3874500..3886876
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  N5094_RS17125 (N5094_17125) - 3874500..3876305 (-) 1806 WP_261762020.1 hypothetical protein -
  N5094_RS17130 (N5094_17130) - 3876320..3877231 (-) 912 WP_261762021.1 DUF4433 domain-containing protein -
  N5094_RS20615 - 3877237..3877919 (-) 683 Protein_3310 DUF6977 family protein -
  N5094_RS17145 (N5094_17145) - 3878018..3880276 (-) 2259 WP_261762024.1 ATP-dependent RecD-like DNA helicase -
  N5094_RS17150 (N5094_17150) - 3880273..3880701 (-) 429 WP_261762025.1 hypothetical protein -
  N5094_RS17155 (N5094_17155) - 3880698..3881114 (-) 417 WP_261762026.1 hypothetical protein -
  N5094_RS17160 (N5094_17160) - 3881107..3883197 (-) 2091 WP_261762027.1 hypothetical protein -
  N5094_RS17165 (N5094_17165) - 3883190..3884728 (-) 1539 WP_261762028.1 site-specific integrase -
  N5094_RS17170 (N5094_17170) - 3884730..3886025 (-) 1296 WP_261762029.1 site-specific integrase -
  N5094_RS17175 (N5094_17175) ssb 3886166..3886876 (-) 711 WP_025008376.1 single-stranded DNA-binding protein Machinery gene

Sequence

Protein


Download         Length: 236 a.a.        Molecular weight: 25359.90 Da        Isoelectric Point: 5.2341

>NTDB_id=732037 N5094_RS17175 WP_025008376.1 3886166..3886876(-) (ssb) [Shewanella putrefaciens strain 4H]
MASRGVNKVILVGNLGQDPEVRYMPNGNAVANITVATSESWKDQQGQQQERTEWHRVVLFGKLAEITGEYLRKGSQVYLE
GKLQTRKWKDQSGQDRYSTEVVIDQSGSMQMLGSRGQGGQAQGAPMGGGMPQNAGYQSAPQQAAPAQNQYAPAPQAAPAY
QAPAQQQYAPPAPAQQQGYGQPQAQQSQQGGYAPKPQAAPAPAYQAPAAPAQRPAPQPQQNFTPDLDDGWDDDIPF

Nucleotide


Download         Length: 711 bp        

>NTDB_id=732037 N5094_RS17175 WP_025008376.1 3886166..3886876(-) (ssb) [Shewanella putrefaciens strain 4H]
ATGGCCAGTCGTGGTGTTAACAAGGTAATTTTGGTTGGCAATTTGGGACAAGATCCAGAAGTGCGTTATATGCCAAACGG
TAATGCAGTCGCAAACATTACAGTAGCGACTAGCGAATCGTGGAAAGACCAACAGGGTCAACAGCAAGAGCGCACCGAAT
GGCACCGTGTGGTTCTGTTCGGCAAATTAGCTGAAATTACAGGTGAATATTTACGTAAAGGTTCACAGGTTTATCTTGAA
GGTAAACTGCAAACCCGTAAGTGGAAAGACCAAAGCGGTCAAGATCGCTACAGCACTGAAGTGGTTATCGATCAAAGCGG
TAGCATGCAAATGCTAGGTAGCCGTGGTCAAGGTGGTCAAGCACAAGGTGCGCCAATGGGCGGCGGTATGCCACAAAATG
CAGGCTATCAGTCAGCGCCTCAGCAAGCCGCTCCTGCACAAAATCAGTATGCGCCAGCGCCTCAAGCTGCACCTGCTTAC
CAAGCCCCTGCGCAGCAACAATATGCTCCGCCAGCACCTGCTCAGCAGCAAGGTTATGGTCAGCCACAGGCTCAACAATC
ACAACAAGGTGGTTATGCGCCTAAGCCACAAGCCGCTCCTGCGCCAGCTTATCAAGCGCCAGCAGCACCAGCACAGCGTC
CAGCACCGCAGCCACAACAGAATTTTACGCCAGATTTGGATGATGGCTGGGATGACGATATTCCGTTCTGA

Domains

Predicted by InterproScan.

Single-strand binding protein family (SSB)

(6-109)


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

65.143

74.153

0.483
  ssb Glaesserella parasuis strain SC1401

45.726

99.153

0.453
  ssb Neisseria meningitidis MC58

39.485

98.729

0.39