Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   C1P88_RS18965 Genome accession   NZ_CP026803
Coordinates   3630676..3631212 (-) Length   178 a.a.
NCBI ID   WP_000168305.1    Uniprot ID   A0A9P2PPK2
Organism   Shigella flexneri strain 89-141     
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 3612761..3631212 3630676..3631212 within 0
IS/Tn 3630065..3630568 3630676..3631212 flank 108


Gene organization within MGE regions


Location: 3612761..3631212
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  C1P88_RS18865 yjdI 3612761..3612898 (+) 138 Protein_3636 4Fe-4S mono-cluster protein YjdI -
  C1P88_RS18870 - 3612995..3614178 (+) 1184 WP_162943408.1 IS3 family transposase -
  C1P88_RS18875 - 3614217..3614450 (-) 234 Protein_3638 IS3 family transposase -
  C1P88_RS18880 - 3614518..3615674 (+) 1157 WP_086020934.1 IS3-like element IS600 family transposase -
  C1P88_RS18885 cadB 3615718..3616767 (-) 1050 Protein_3640 cadaverine/lysine antiporter -
  C1P88_RS18890 - 3616942..3617639 (+) 698 WP_225620286.1 IS1 family transposase -
  C1P88_RS18900 - 3618184..3618759 (-) 576 WP_005077313.1 transcriptional regulator -
  C1P88_RS18905 dsbD 3618796..3620493 (-) 1698 WP_000068936.1 protein-disulfide reductase DsbD -
  C1P88_RS18910 cutA 3620469..3620807 (-) 339 WP_000883406.1 divalent cation tolerance protein CutA -
  C1P88_RS18915 dcuA 3620923..3622224 (-) 1302 WP_000961959.1 anaerobic C4-dicarboxylate transporter DcuA -
  C1P88_RS18920 aspA 3622342..3623778 (-) 1437 WP_000069437.1 aspartate ammonia-lyase -
  C1P88_RS18925 - 3624115..3624591 (+) 477 WP_001267445.1 FxsA family protein -
  C1P88_RS18930 yjeH 3624607..3625863 (-) 1257 WP_000015861.1 L-methionine/branched-chain amino acid transporter -
  C1P88_RS18935 - 3626139..3626432 (+) 294 WP_001026276.1 co-chaperone GroES -
  C1P88_RS18940 groL 3626476..3628122 (+) 1647 WP_000729117.1 chaperonin GroEL -
  C1P88_RS18945 - 3628260..3628613 (+) 354 WP_000558209.1 DUF4156 domain-containing protein -
  C1P88_RS18950 - 3628816..3629685 (-) 870 WP_001008046.1 YjeJ family protein -
  C1P88_RS18960 - 3629871..3630568 (+) 698 WP_252988955.1 IS1 family transposase -
  C1P88_RS18965 ssb 3630676..3631212 (-) 537 WP_000168305.1 single-stranded DNA-binding protein SSB1 Machinery gene

Sequence

Protein


Download         Length: 178 a.a.        Molecular weight: 18975.00 Da        Isoelectric Point: 5.2358

>NTDB_id=272669 C1P88_RS18965 WP_000168305.1 3630676..3631212(-) (ssb) [Shigella flexneri strain 89-141]
MASRGVNKVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKATGEMKEQTEWHRVVLFGKLAEVASEYLRKGSQVYI
EGQLRTRKWTDQSGQDRYTTEVVVNVGGTMQMLGGRQGGGAPAGGNIGGGQPQGGWGQPQQPQGGNQFSGGAQSRPQQSA
PAAPSNEPPMDFDDDIPF

Nucleotide


Download         Length: 537 bp        

>NTDB_id=272669 C1P88_RS18965 WP_000168305.1 3630676..3631212(-) (ssb) [Shigella flexneri strain 89-141]
ATGGCCAGCAGAGGCGTAAACAAGGTTATTCTCGTTGGTAATCTGGGTCAGGACCCGGAAGTACGCTACATGCCAAATGG
TGGCGCAGTTGCCAACATTACGCTGGCTACTTCCGAATCCTGGCGTGATAAAGCGACCGGCGAGATGAAAGAACAGACTG
AATGGCACCGCGTTGTGCTGTTCGGCAAACTGGCAGAAGTGGCGAGCGAATATCTGCGTAAAGGTTCTCAGGTTTATATC
GAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCGGCCAGGATCGCTACACCACAGAAGTCGTGGTGAACGTTGG
CGGCACCATGCAGATGCTGGGTGGTCGTCAGGGTGGTGGCGCTCCGGCAGGTGGCAATATCGGTGGTGGTCAGCCGCAGG
GCGGTTGGGGTCAGCCTCAGCAGCCGCAGGGTGGCAATCAGTTCAGCGGCGGCGCGCAGTCTCGCCCGCAGCAGTCCGCT
CCGGCAGCGCCGTCTAACGAGCCGCCGATGGACTTTGATGATGACATTCCGTTCTGA

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

74.444

100

0.753
  ssb Glaesserella parasuis strain SC1401

57.923

100

0.596
  ssb Neisseria meningitidis MC58

48.066

100

0.489
  ssb Neisseria gonorrhoeae MS11

48.066

100

0.489

Multiple sequence alignment