Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   AB1X99_RS02135 Genome accession   NZ_CP160649
Coordinates   438038..438574 (+) Length   178 a.a.
NCBI ID   WP_000168305.1    Uniprot ID   A0A9P2PPK2
Organism   Shigella flexneri strain 100537     
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 418551..443133 438038..438574 within 0
IScluster/Tn 438675..443647 438038..438574 flank 101


Gene organization within MGE regions


Location: 418551..443647
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  AB1X99_RS02035 (AB1X99_02035) - 418551..419144 (-) 594 Protein_378 DUF2713 family protein -
  AB1X99_RS02045 - 419915..420312 (-) 398 Protein_380 DUF2713 family protein -
  AB1X99_RS02050 (AB1X99_02055) zur 420630..421145 (+) 516 WP_004988057.1 zinc uptake transcriptional repressor Zur -
  AB1X99_RS02055 (AB1X99_02060) - 421187..421396 (-) 210 WP_001030593.1 CsbD family protein -
  AB1X99_RS02060 (AB1X99_02065) dinF 421512..422837 (-) 1326 WP_001308275.1 MATE family efflux transporter DinF -
  AB1X99_RS02065 (AB1X99_02070) lexA 422910..423518 (-) 609 WP_000646078.1 transcriptional repressor LexA -
  AB1X99_RS02070 (AB1X99_02075) dgkA 423628..423996 (-) 369 WP_000002907.1 diacylglycerol kinase -
  AB1X99_RS02075 (AB1X99_02080) plsB 424167..426590 (+) 2424 WP_004988121.1 glycerol-3-phosphate 1-O-acyltransferase PlsB -
  AB1X99_RS02080 (AB1X99_02085) ubiA 426745..427617 (-) 873 WP_000455227.1 4-hydroxybenzoate octaprenyltransferase -
  AB1X99_RS02085 (AB1X99_02090) ubiC 427630..428127 (-) 498 WP_001295693.1 chorismate lyase -
  AB1X99_RS02090 (AB1X99_02095) - 428350..428556 (-) 207 Protein_389 hypothetical protein -
  AB1X99_RS02095 (AB1X99_02100) - 428671..429798 (+) 1128 WP_001063816.1 IS110-like element ISSso6 family transposase -
  AB1X99_RS02100 (AB1X99_02105) - 430065..431449 (-) 1385 Protein_391 SopA family protein -
  AB1X99_RS02105 (AB1X99_02110) - 431649..432346 (+) 698 WP_226342159.1 IS1 family transposase -
  AB1X99_RS02110 (AB1X99_02115) - 432703..432925 (-) 223 Protein_393 hypothetical protein -
  AB1X99_RS02115 (AB1X99_02120) aphA 433327..434040 (+) 714 WP_001226928.1 acid phosphatase AphA -
  AB1X99_RS02120 (AB1X99_02125) - 434151..434567 (+) 417 WP_073953114.1 secondary thiamine-phosphate synthase enzyme YjbQ -
  AB1X99_RS02125 (AB1X99_02130) - 434571..434927 (+) 357 WP_000155650.1 MmcQ/YjbR family DNA-binding protein -
  AB1X99_RS02130 (AB1X99_02135) uvrA 434962..437784 (-) 2823 WP_000357740.1 excinuclease ABC subunit UvrA -
  AB1X99_RS02135 (AB1X99_02140) ssb 438038..438574 (+) 537 WP_000168305.1 single-stranded DNA-binding protein SSB1 Machinery gene
  AB1X99_RS02140 (AB1X99_02145) - 438675..439991 (-) 1317 WP_051123898.1 IS4-like element IS4 family transposase -
  AB1X99_RS02150 - 441283..441357 (-) 75 Protein_401 hypothetical protein -
  AB1X99_RS02155 (AB1X99_02155) - 441448..441729 (-) 282 WP_001295689.1 YjcB family protein -
  AB1X99_RS02160 (AB1X99_02160) pdeC 442159..442893 (+) 735 Protein_403 c-di-GMP phosphodiesterase PdeC -
  AB1X99_RS02165 (AB1X99_02165) - 442950..443647 (+) 698 WP_094106546.1 IS1 family transposase -

Sequence

Protein


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

>NTDB_id=1021947 AB1X99_RS02135 WP_000168305.1 438038..438574(+) (ssb) [Shigella flexneri strain 100537]
MASRGVNKVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKATGEMKEQTEWHRVVLFGKLAEVASEYLRKGSQVYI
EGQLRTRKWTDQSGQDRYTTEVVVNVGGTMQMLGGRQGGGAPAGGNIGGGQPQGGWGQPQQPQGGNQFSGGAQSRPQQSA
PAAPSNEPPMDFDDDIPF

Nucleotide


Download         Length: 537 bp        

>NTDB_id=1021947 AB1X99_RS02135 WP_000168305.1 438038..438574(+) (ssb) [Shigella flexneri strain 100537]
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