Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   ABE81_RS22725 Genome accession   NZ_CP011511
Coordinates   4180647..4181183 (+) Length   178 a.a.
NCBI ID   WP_000168305.1    Uniprot ID   A0A9P2PPK2
Organism   Shigella boydii strain ATCC 9210     
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 4161936..4185742 4180647..4181183 within 0
IScluster/Tn 4181284..4186256 4180647..4181183 flank 101


Gene organization within MGE regions


Location: 4161936..4186256
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ABE81_RS22630 (ABE81_22625) - 4161936..4162643 (-) 708 WP_011379331.1 DUF2713 family protein -
  ABE81_RS30640 (ABE81_22630) yjbL 4162667..4162921 (-) 255 WP_047931476.1 protein YjbL -
  ABE81_RS22640 (ABE81_22635) zur 4163239..4163754 (+) 516 WP_004988057.1 zinc uptake transcriptional repressor Zur -
  ABE81_RS22645 (ABE81_22640) - 4163796..4164005 (-) 210 WP_001030593.1 CsbD family protein -
  ABE81_RS22650 (ABE81_22645) dinF 4164121..4165446 (-) 1326 WP_001308275.1 MATE family efflux transporter DinF -
  ABE81_RS22655 (ABE81_22650) lexA 4165519..4166127 (-) 609 WP_000646078.1 transcriptional repressor LexA -
  ABE81_RS22660 (ABE81_22655) dgkA 4166237..4166605 (-) 369 WP_000002907.1 diacylglycerol kinase -
  ABE81_RS22665 (ABE81_22660) plsB 4166776..4169199 (+) 2424 WP_004988121.1 glycerol-3-phosphate 1-O-acyltransferase PlsB -
  ABE81_RS22670 (ABE81_22665) ubiA 4169354..4170226 (-) 873 WP_000455227.1 4-hydroxybenzoate octaprenyltransferase -
  ABE81_RS22675 (ABE81_22670) ubiC 4170239..4170736 (-) 498 WP_001295693.1 chorismate lyase -
  ABE81_RS27405 - 4170959..4171153 (-) 195 Protein_4166 hypothetical protein -
  ABE81_RS22680 (ABE81_22675) - 4171280..4172407 (+) 1128 WP_001063816.1 IS110-like element ISSso6 family transposase -
  ABE81_RS22685 (ABE81_22680) - 4172674..4174058 (-) 1385 Protein_4168 SopA family protein -
  ABE81_RS22695 (ABE81_22690) - 4174258..4174955 (+) 698 WP_094106546.1 IS1 family transposase -
  ABE81_RS29835 - 4175312..4175534 (-) 223 Protein_4170 hypothetical protein -
  ABE81_RS22705 (ABE81_22700) aphA 4175936..4176649 (+) 714 WP_001226928.1 acid phosphatase AphA -
  ABE81_RS22710 (ABE81_22705) - 4176760..4177176 (+) 417 WP_000270377.1 secondary thiamine-phosphate synthase enzyme YjbQ -
  ABE81_RS22715 (ABE81_22710) - 4177180..4177536 (+) 357 WP_000155649.1 MmcQ/YjbR family DNA-binding protein -
  ABE81_RS22720 (ABE81_22715) uvrA 4177571..4180393 (-) 2823 WP_000357740.1 excinuclease ABC subunit UvrA -
  ABE81_RS22725 (ABE81_22720) ssb 4180647..4181183 (+) 537 WP_000168305.1 single-stranded DNA-binding protein SSB1 Machinery gene
  ABE81_RS22730 (ABE81_22725) - 4181284..4182600 (-) 1317 WP_005009600.1 IS4-like element IS4 family transposase -
  ABE81_RS22735 (ABE81_22730) - 4182585..4183813 (-) 1229 Protein_4177 IS3-like element IS2 family transposase -
  ABE81_RS22750 (ABE81_22745) - 4184057..4184338 (-) 282 WP_001295689.1 YjcB family protein -
  ABE81_RS22755 (ABE81_22750) pdeC 4184768..4185502 (+) 735 Protein_4179 c-di-GMP phosphodiesterase PdeC -
  ABE81_RS22765 (ABE81_22760) - 4185559..4186256 (+) 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=146467 ABE81_RS22725 WP_000168305.1 4180647..4181183(+) (ssb) [Shigella boydii strain ATCC 9210]
MASRGVNKVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKATGEMKEQTEWHRVVLFGKLAEVASEYLRKGSQVYI
EGQLRTRKWTDQSGQDRYTTEVVVNVGGTMQMLGGRQGGGAPAGGNIGGGQPQGGWGQPQQPQGGNQFSGGAQSRPQQSA
PAAPSNEPPMDFDDDIPF

Nucleotide


Download         Length: 537 bp        

>NTDB_id=146467 ABE81_RS22725 WP_000168305.1 4180647..4181183(+) (ssb) [Shigella boydii strain ATCC 9210]
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