Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   VRC23_RS20130 Genome accession   NZ_CP142234
Coordinates   4145513..4146061 (-) Length   182 a.a.
NCBI ID   WP_048917558.1    Uniprot ID   -
Organism   Erwinia aphidicola strain W09_8     
Function   ssDNA binding (predicted from homology)   
DNA processing

Genomic Context

Location: 4140513..4151061
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VRC23_RS20105 (VRC23_20105) - 4140740..4142137 (+) 1398 WP_099754668.1 amino acid permease -
  VRC23_RS20110 (VRC23_20110) gdhA 4142193..4143536 (-) 1344 WP_338492166.1 NADP-specific glutamate dehydrogenase -
  VRC23_RS20115 (VRC23_20115) - 4143932..4144834 (+) 903 WP_338492168.1 lipid kinase -
  VRC23_RS20120 (VRC23_20120) - 4144929..4145171 (+) 243 WP_099754667.1 DUF4160 domain-containing protein -
  VRC23_RS20125 (VRC23_20125) - 4145155..4145403 (+) 249 WP_099754666.1 DUF2442 domain-containing protein -
  VRC23_RS20130 (VRC23_20130) ssb 4145513..4146061 (-) 549 WP_048917558.1 single-stranded DNA-binding protein SSB1 Machinery gene
  VRC23_RS20135 (VRC23_20135) uvrA 4146313..4149141 (+) 2829 WP_048917559.1 excinuclease ABC subunit UvrA -
  VRC23_RS20140 (VRC23_20140) - 4149442..4150494 (+) 1053 WP_048917560.1 NAD(P)-dependent alcohol dehydrogenase -
  VRC23_RS20145 (VRC23_20145) - 4150572..4150895 (-) 324 WP_048917561.1 MmcQ/YjbR family DNA-binding protein -

Sequence

Protein


Download         Length: 182 a.a.        Molecular weight: 19328.31 Da        Isoelectric Point: 5.2456

>NTDB_id=923511 VRC23_RS20130 WP_048917558.1 4145513..4146061(-) (ssb) [Erwinia aphidicola strain W09_8]
MASRGVNKVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKQTGETKEKTEWHRVVLFGKLAEVAGEYLRKGSQVYI
EGALQTRKWTDQAGVEKYTTEVVVNVGGTMQMLGGRAQGGGAPAGGGQGAGNNNGWGQPQQPQGGNQFSGGAQQSRPQQA
PQQNSAPANNEPPMDFDDDIPF

Nucleotide


Download         Length: 549 bp        

>NTDB_id=923511 VRC23_RS20130 WP_048917558.1 4145513..4146061(-) (ssb) [Erwinia aphidicola strain W09_8]
ATGGCCAGCAGAGGCGTAAACAAAGTAATTTTAGTCGGAAATCTGGGGCAGGACCCGGAAGTTCGCTACATGCCGAATGG
CGGTGCCGTTGCCAACATCACTCTGGCTACCTCCGAATCCTGGCGCGACAAGCAGACCGGCGAAACCAAAGAGAAAACTG
AATGGCACCGCGTTGTGCTGTTCGGCAAGCTGGCAGAAGTAGCCGGTGAATACCTGCGTAAAGGCTCTCAGGTTTATATC
GAAGGCGCACTGCAGACCCGTAAATGGACTGACCAGGCTGGCGTTGAGAAGTACACCACCGAAGTTGTGGTTAACGTTGG
CGGCACCATGCAGATGCTGGGCGGTCGTGCTCAGGGTGGCGGTGCTCCAGCAGGCGGCGGTCAGGGCGCAGGCAATAACA
ACGGTTGGGGCCAGCCTCAGCAGCCACAGGGCGGCAACCAGTTCAGCGGCGGCGCACAGCAGTCCCGTCCGCAGCAGGCT
CCACAGCAGAACAGCGCACCTGCTAACAATGAGCCACCAATGGACTTCGACGACGACATCCCTTTCTGA

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

73.118

100

0.747
  ssb Glaesserella parasuis strain SC1401

57.219

100

0.588
  ssb Neisseria gonorrhoeae MS11

45.503

100

0.473
  ssb Neisseria meningitidis MC58

45.503

100

0.473
  ssbA Bacillus subtilis subsp. subtilis str. 168

37.43

98.352

0.368