Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   HZT07_RS21140 Genome accession   NZ_CP058786
Coordinates   4326020..4326556 (-) Length   178 a.a.
NCBI ID   WP_000168305.1    Uniprot ID   A0A9P2PPK2
Organism   Shigella flexneri strain STLIN_4     
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 4314428..4351786 4326020..4326556 within 0


Gene organization within MGE regions


Location: 4314428..4351786
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HZT07_RS21110 (HZT07_20955) - 4314428..4315249 (+) 822 WP_001272932.1 abortive infection system antitoxin AbiGi family protein -
  HZT07_RS21115 (HZT07_20960) avs4 4315788..4320551 (-) 4764 WP_000240574.1 AVAST type 4 anti-phage nuclease Avs4 -
  HZT07_RS21120 (HZT07_20965) - 4320627..4321046 (-) 420 WP_001062122.1 hypothetical protein -
  HZT07_RS21125 (HZT07_20970) - 4321039..4323072 (-) 2034 WP_000807722.1 hypothetical protein -
  HZT07_RS21130 (HZT07_20975) - 4323089..4324621 (-) 1533 WP_001061276.1 site-specific integrase -
  HZT07_RS21135 (HZT07_20980) - 4324614..4325861 (-) 1248 WP_000414651.1 site-specific integrase -
  HZT07_RS21140 (HZT07_20985) ssb 4326020..4326556 (-) 537 WP_000168305.1 single-stranded DNA-binding protein SSB1 Machinery gene
  HZT07_RS21145 (HZT07_20990) uvrA 4326810..4329632 (+) 2823 WP_000357740.1 excinuclease ABC subunit UvrA -
  HZT07_RS21150 (HZT07_20995) - 4329667..4330023 (-) 357 WP_000155657.1 MmcQ/YjbR family DNA-binding protein -
  HZT07_RS21155 (HZT07_21000) - 4330027..4330443 (-) 417 WP_000270375.1 secondary thiamine-phosphate synthase enzyme YjbQ -
  HZT07_RS21160 (HZT07_21005) aphA 4330554..4331267 (-) 714 WP_001226928.1 acid phosphatase AphA -
  HZT07_RS21165 (HZT07_21010) - 4331669..4331872 (+) 204 WP_001321562.1 protein YjbS -
  HZT07_RS21170 (HZT07_21015) tyrB 4332374..4333567 (-) 1194 WP_000486985.1 aromatic amino acid transaminase -
  HZT07_RS21175 (HZT07_21020) alr 4333820..4334899 (-) 1080 WP_001147328.1 alanine racemase -
  HZT07_RS21180 (HZT07_21025) dnaB 4334952..4336367 (-) 1416 WP_000918363.1 replicative DNA helicase -
  HZT07_RS21185 (HZT07_21030) - 4336450..4337433 (+) 984 WP_000235508.1 quinone oxidoreductase -
  HZT07_RS21190 (HZT07_21035) pspG 4337599..4337841 (-) 243 WP_000891404.1 envelope stress response protein PspG -
  HZT07_RS21195 (HZT07_21040) dusA 4337975..4339012 (-) 1038 WP_001298868.1 tRNA dihydrouridine(20/20a) synthase DusA -
  HZT07_RS21200 (HZT07_21045) - 4339375..4340082 (-) 708 WP_001311303.1 DUF2713 domain-containing protein -
  HZT07_RS24445 yjbL 4340106..4340186 (-) 81 Protein_4165 protein YjbL -
  HZT07_RS21205 (HZT07_21050) - 4340241..4340938 (+) 698 WP_151884388.1 IS1 family transposase -
  HZT07_RS21210 (HZT07_21055) yjbL 4340955..4341137 (-) 183 Protein_4167 protein YjbL -
  HZT07_RS21215 (HZT07_21060) zur 4341455..4341970 (+) 516 WP_240763438.1 zinc uptake transcriptional repressor Zur -
  HZT07_RS21220 (HZT07_21065) - 4342012..4342221 (-) 210 WP_001030593.1 CsbD family protein -
  HZT07_RS21225 (HZT07_21070) dinF 4342337..4343662 (-) 1326 WP_001326646.1 MATE family efflux transporter DinF -
  HZT07_RS21230 (HZT07_21075) lexA 4343735..4344343 (-) 609 WP_000646078.1 transcriptional repressor LexA -
  HZT07_RS21235 (HZT07_21080) dgkA 4344453..4344821 (-) 369 WP_000002907.1 diacylglycerol kinase -
  HZT07_RS21240 (HZT07_21085) plsB 4344992..4347415 (+) 2424 WP_000017354.1 glycerol-3-phosphate 1-O-acyltransferase PlsB -
  HZT07_RS21245 (HZT07_21090) ubiA 4347570..4348442 (-) 873 WP_000455227.1 4-hydroxybenzoate octaprenyltransferase -
  HZT07_RS21250 (HZT07_21095) ubiC 4348455..4348952 (-) 498 WP_001326644.1 chorismate lyase -
  HZT07_RS21255 (HZT07_21100) - 4349175..4350629 (-) 1455 Protein_4176 SopA family protein -
  HZT07_RS21260 (HZT07_21105) - 4350686..4351383 (+) 698 WP_095033700.1 IS1-like element IS1B family transposase -

Sequence

Protein


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

>NTDB_id=465433 HZT07_RS21140 WP_000168305.1 4326020..4326556(-) (ssb) [Shigella flexneri strain STLIN_4]
MASRGVNKVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKATGEMKEQTEWHRVVLFGKLAEVASEYLRKGSQVYI
EGQLRTRKWTDQSGQDRYTTEVVVNVGGTMQMLGGRQGGGAPAGGNIGGGQPQGGWGQPQQPQGGNQFSGGAQSRPQQSA
PAAPSNEPPMDFDDDIPF

Nucleotide


Download         Length: 537 bp        

>NTDB_id=465433 HZT07_RS21140 WP_000168305.1 4326020..4326556(-) (ssb) [Shigella flexneri strain STLIN_4]
ATGGCCAGCAGAGGCGTAAACAAGGTTATTCTCGTTGGTAATCTGGGTCAGGACCCGGAAGTACGCTACATGCCAAATGG
TGGCGCAGTTGCCAACATTACGCTGGCTACTTCCGAATCCTGGCGTGATAAAGCGACCGGCGAGATGAAAGAACAGACTG
AATGGCACCGCGTTGTGCTGTTCGGCAAACTGGCAGAAGTGGCGAGCGAATATCTGCGTAAAGGTTCTCAGGTTTATATC
GAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCGGTCAGGATCGCTACACCACAGAAGTCGTGGTGAACGTTGG
CGGCACCATGCAGATGCTGGGTGGTCGTCAGGGTGGTGGCGCTCCGGCAGGTGGCAATATCGGTGGTGGTCAGCCGCAGG
GCGGTTGGGGTCAGCCTCAGCAGCCGCAGGGTGGCAATCAGTTCAGCGGCGGCGCGCAGTCTCGCCCGCAGCAGTCCGCT
CCGGCAGCGCCGTCTAACGAGCCGCCGATGGACTTTGATGATGACATTCCGTTCTAG

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