Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   PMPD1_RS20280 Genome accession   NZ_CP054212
Coordinates   4208581..4209117 (-) Length   178 a.a.
NCBI ID   WP_173635748.1    Uniprot ID   -
Organism   Paramixta manurensis strain PD-1     
Function   ssDNA binding (predicted from homology)   
DNA processing

Genomic Context

Location: 4203581..4214117
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PMPD1_RS20260 (PMPD1_4001) - 4204355..4204636 (+) 282 WP_173635744.1 YjcB family protein -
  PMPD1_RS20265 (PMPD1_4002) - 4204669..4205619 (-) 951 WP_173635745.1 ATP-grasp fold amidoligase family protein -
  PMPD1_RS20270 (PMPD1_4003) - 4205628..4206884 (-) 1257 WP_173635746.1 polysaccharide biosynthesis protein -
  PMPD1_RS20275 (PMPD1_4004) - 4207411..4207806 (+) 396 WP_173635747.1 transposase -
  PMPD1_RS20280 (PMPD1_4005) ssb 4208581..4209117 (-) 537 WP_173635748.1 single-stranded DNA-binding protein SSB1 Machinery gene
  PMPD1_RS20285 (PMPD1_4006) uvrA 4209346..4212174 (+) 2829 WP_173635749.1 excinuclease ABC subunit UvrA -
  PMPD1_RS20290 (PMPD1_4007) - 4212454..4213518 (+) 1065 WP_173635750.1 NAD(P)-dependent alcohol dehydrogenase -
  PMPD1_RS20295 (PMPD1_4008) - 4213565..4213912 (-) 348 WP_173635751.1 MmcQ/YjbR family DNA-binding protein -

Sequence

Protein


Download         Length: 178 a.a.        Molecular weight: 19229.14 Da        Isoelectric Point: 5.2456

>NTDB_id=451466 PMPD1_RS20280 WP_173635748.1 4208581..4209117(-) (ssb) [Paramixta manurensis strain PD-1]
MASRGVNKVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKQTGETKEKTEWHRVVLFGKLAEVAGEYLRKGSQVYI
EGALQTRKWQDQSGQERYTTEVVVNVGGTMQMLGGRQGGGAPAGGGQNNNNGWGQPQQPQQQGGNQFSGGAQSRPQQQQP
SAPANNEPPMDFDDDIPF

Nucleotide


Download         Length: 537 bp        

>NTDB_id=451466 PMPD1_RS20280 WP_173635748.1 4208581..4209117(-) (ssb) [Paramixta manurensis strain PD-1]
ATGGCCAGCAGGGGCGTTAACAAAGTGATTCTTGTCGGAAATCTGGGTCAGGATCCGGAAGTCCGTTACATGCCGAATGG
CGGTGCGGTTGCCAACATTACTCTGGCCACCTCCGAAAGCTGGCGTGACAAGCAAACCGGCGAAACCAAAGAGAAAACGG
AATGGCACCGCGTGGTGTTGTTCGGCAAGCTGGCGGAAGTGGCGGGCGAGTACCTGCGTAAAGGCTCTCAGGTATATATT
GAAGGCGCTCTGCAAACGCGTAAGTGGCAGGATCAGAGTGGCCAGGAACGTTACACCACTGAAGTGGTGGTCAACGTTGG
CGGCACCATGCAGATGCTGGGCGGCCGTCAGGGCGGTGGCGCACCGGCGGGCGGCGGTCAGAACAATAATAACGGTTGGG
GCCAACCGCAGCAGCCGCAGCAGCAGGGCGGTAACCAGTTCAGCGGCGGCGCGCAGTCTCGTCCGCAGCAGCAGCAACCA
AGCGCCCCGGCGAATAATGAACCCCCGATGGATTTTGATGACGACATTCCGTTCTAA

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

74.863

100

0.77
  ssb Glaesserella parasuis strain SC1401

58.602

100

0.612
  ssb Neisseria meningitidis MC58

47.253

100

0.483
  ssb Neisseria gonorrhoeae MS11

47.253

100

0.483
  ssbA Bacillus subtilis subsp. subtilis str. 168

37.079

100

0.371