Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   C1P83_RS15320 Genome accession   NZ_CP026811
Coordinates   2872678..2873214 (-) Length   178 a.a.
NCBI ID   WP_000168305.1    Uniprot ID   A0A9P2PPK2
Organism   Shigella flexneri strain 64-5500     
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 2868353..2892701 2872678..2873214 within 0
IScluster/Tn 2867605..2872577 2872678..2873214 flank 101


Gene organization within MGE regions


Location: 2867605..2892701
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  C1P83_RS15300 pdeC 2868359..2869093 (-) 735 Protein_2970 c-di-GMP phosphodiesterase PdeC -
  C1P83_RS15305 - 2869523..2869804 (+) 282 WP_001295689.1 YjcB family protein -
  C1P83_RS15310 - 2870048..2871276 (+) 1229 WP_088895425.1 IS3-like element IS2 family transposase -
  C1P83_RS15315 - 2871261..2872577 (+) 1317 WP_051123898.1 IS4-like element IS4 family transposase -
  C1P83_RS15320 ssb 2872678..2873214 (-) 537 WP_000168305.1 single-stranded DNA-binding protein SSB1 Machinery gene
  C1P83_RS15325 uvrA 2873468..2876290 (+) 2823 WP_000357740.1 excinuclease ABC subunit UvrA -
  C1P83_RS15330 - 2876325..2876681 (-) 357 WP_000155650.1 MmcQ/YjbR family DNA-binding protein -
  C1P83_RS15335 - 2876685..2877101 (-) 417 WP_000270377.1 secondary thiamine-phosphate synthase enzyme YjbQ -
  C1P83_RS15340 aphA 2877212..2877925 (-) 714 WP_001226928.1 acid phosphatase AphA -
  C1P83_RS15345 - 2878327..2878549 (+) 223 Protein_2979 hypothetical protein -
  C1P83_RS15360 - 2879803..2881187 (+) 1385 Protein_2981 SopA family protein -
  C1P83_RS15370 - 2881454..2882581 (-) 1128 WP_001063816.1 IS110-like element ISSso6 family transposase -
  C1P83_RS15375 - 2882708..2882902 (+) 195 Protein_2983 hypothetical protein -
  C1P83_RS15380 ubiC 2883125..2883622 (+) 498 WP_001295693.1 chorismate lyase -
  C1P83_RS15385 ubiA 2883635..2884507 (+) 873 WP_000455227.1 4-hydroxybenzoate octaprenyltransferase -
  C1P83_RS15390 plsB 2884662..2887085 (-) 2424 WP_004988121.1 glycerol-3-phosphate 1-O-acyltransferase PlsB -
  C1P83_RS15395 dgkA 2887256..2887624 (+) 369 WP_000002907.1 diacylglycerol kinase -
  C1P83_RS15400 lexA 2887734..2888342 (+) 609 WP_000646078.1 transcriptional repressor LexA -
  C1P83_RS15405 dinF 2888415..2889740 (+) 1326 WP_001308275.1 MATE family efflux transporter DinF -
  C1P83_RS15410 - 2889856..2890065 (+) 210 WP_001030593.1 CsbD family protein -
  C1P83_RS15415 zur 2890107..2890622 (-) 516 WP_004988057.1 zinc uptake transcriptional repressor Zur -
  C1P83_RS26610 yjbL 2890940..2891194 (+) 255 WP_000912571.1 protein YjbL -
  C1P83_RS26615 - 2891218..2891343 (+) 126 WP_274539709.1 DUF2713 family protein -
  C1P83_RS15430 - 2891394..2892091 (+) 698 WP_226342157.1 IS1 family transposase -
  C1P83_RS15435 - 2892099..2892701 (+) 603 Protein_2995 DUF2713 family protein -

Sequence

Protein


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

>NTDB_id=272722 C1P83_RS15320 WP_000168305.1 2872678..2873214(-) (ssb) [Shigella flexneri strain 64-5500]
MASRGVNKVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKATGEMKEQTEWHRVVLFGKLAEVASEYLRKGSQVYI
EGQLRTRKWTDQSGQDRYTTEVVVNVGGTMQMLGGRQGGGAPAGGNIGGGQPQGGWGQPQQPQGGNQFSGGAQSRPQQSA
PAAPSNEPPMDFDDDIPF

Nucleotide


Download         Length: 537 bp        

>NTDB_id=272722 C1P83_RS15320 WP_000168305.1 2872678..2873214(-) (ssb) [Shigella flexneri strain 64-5500]
ATGGCCAGCAGAGGCGTAAACAAGGTTATTCTCGTTGGTAATCTGGGTCAGGACCCGGAAGTACGCTACATGCCAAATGG
TGGCGCAGTTGCCAACATTACGCTGGCTACTTCCGAATCCTGGCGTGATAAAGCGACCGGCGAGATGAAAGAACAGACTG
AATGGCACCGCGTTGTGCTGTTCGGCAAACTGGCAGAAGTGGCCAGCGAATATCTGCGTAAAGGTTCTCAGGTTTATATC
GAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCGGTCAGGATCGCTACACCACAGAAGTCGTGGTGAACGTTGG
CGGCACCATGCAGATGCTGGGTGGTCGTCAGGGTGGTGGCGCTCCGGCAGGTGGTAATATCGGTGGTGGTCAGCCGCAGG
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