Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   LCE27_RS20915 Genome accession   NZ_CP083872
Coordinates   4317441..4317977 (-) Length   178 a.a.
NCBI ID   WP_000168305.1    Uniprot ID   A0A9P2PPK2
Organism   Escherichia coli strain NDM5     
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 4303847..4341653 4317441..4317977 within 0


Gene organization within MGE regions


Location: 4303847..4341653
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LCE27_RS20870 (LCE27_20870) yjcB 4303847..4304128 (+) 282 WP_001295689.1 YjcB family protein -
  LCE27_RS20875 (LCE27_20875) - 4304536..4305357 (+) 822 WP_001272932.1 abortive infection system antitoxin AbiGi family protein -
  LCE27_RS20880 (LCE27_20880) avs4 4305896..4310659 (-) 4764 WP_000240574.1 AVAST type 4 anti-phage nuclease Avs4 -
  LCE27_RS20885 (LCE27_20885) - 4310735..4311154 (-) 420 WP_001062122.1 hypothetical protein -
  LCE27_RS20890 (LCE27_20890) - 4311147..4312805 (-) 1659 WP_224434065.1 integrase -
  LCE27_RS20895 (LCE27_20895) - 4312815..4313180 (-) 366 WP_224434066.1 hypothetical protein -
  LCE27_RS20905 (LCE27_20905) - 4314507..4316048 (-) 1542 WP_224434067.1 site-specific integrase -
  LCE27_RS20910 (LCE27_20910) - 4316035..4317282 (-) 1248 WP_000414651.1 tyrosine-type recombinase/integrase -
  LCE27_RS20915 (LCE27_20915) ssb 4317441..4317977 (-) 537 WP_000168305.1 single-stranded DNA-binding protein SSB1 Machinery gene
  LCE27_RS20920 (LCE27_20920) uvrA 4318231..4321053 (+) 2823 WP_000357740.1 excinuclease ABC subunit UvrA -
  LCE27_RS20925 (LCE27_20925) yjbR 4321088..4321444 (-) 357 WP_000155657.1 MmcQ/YjbR family DNA-binding protein -
  LCE27_RS20930 (LCE27_20930) yjbQ 4321448..4321864 (-) 417 WP_000270375.1 secondary thiamine-phosphate synthase enzyme YjbQ -
  LCE27_RS20935 (LCE27_20935) aphA 4321975..4322688 (-) 714 WP_001226928.1 acid phosphatase AphA -
  LCE27_RS20940 (LCE27_20940) yjbS 4323090..4323293 (+) 204 WP_001321562.1 protein YjbS -
  LCE27_RS20945 (LCE27_20945) tyrB 4323795..4324988 (-) 1194 WP_000486985.1 aromatic amino acid transaminase -
  LCE27_RS20950 (LCE27_20950) alr 4325241..4326320 (-) 1080 WP_001147328.1 alanine racemase -
  LCE27_RS20955 (LCE27_20955) dnaB 4326373..4327788 (-) 1416 WP_000918363.1 replicative DNA helicase -
  LCE27_RS20960 (LCE27_20960) qorA 4327871..4328854 (+) 984 WP_000235508.1 quinone oxidoreductase -
  LCE27_RS20965 (LCE27_20965) pspG 4329020..4329262 (-) 243 WP_000891404.1 envelope stress response protein PspG -
  LCE27_RS20970 (LCE27_20970) dusA 4329396..4330433 (-) 1038 WP_001298868.1 tRNA dihydrouridine(20/20a) synthase DusA -
  LCE27_RS20975 (LCE27_20975) - 4330796..4331781 (-) 986 Protein_4114 DUF2713 domain-containing protein -
  LCE27_RS20980 (LCE27_20980) zur 4332099..4332614 (+) 516 WP_001295691.1 zinc uptake transcriptional repressor Zur -
  LCE27_RS20985 (LCE27_20985) yjbJ 4332656..4332865 (-) 210 WP_001030593.1 CsbD family protein -
  LCE27_RS20990 (LCE27_20990) dinF 4332981..4334306 (-) 1326 WP_001326646.1 MATE family efflux transporter DinF -
  LCE27_RS20995 (LCE27_20995) lexA 4334379..4334987 (-) 609 WP_000646078.1 transcriptional repressor LexA -
  LCE27_RS21000 (LCE27_21000) dgkA 4335097..4335465 (-) 369 WP_000002907.1 diacylglycerol kinase -
  LCE27_RS21005 (LCE27_21005) plsB 4335636..4338059 (+) 2424 WP_000017354.1 glycerol-3-phosphate 1-O-acyltransferase PlsB -
  LCE27_RS21010 (LCE27_21010) ubiA 4338214..4339086 (-) 873 WP_000455227.1 4-hydroxybenzoate octaprenyltransferase -
  LCE27_RS21015 (LCE27_21015) ubiC 4339099..4339596 (-) 498 WP_001326644.1 chorismate lyase -
  LCE27_RS21020 (LCE27_21020) - 4339819..4341399 (-) 1581 Protein_4123 SopA family protein -

Sequence

Protein


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

>NTDB_id=608350 LCE27_RS20915 WP_000168305.1 4317441..4317977(-) (ssb) [Escherichia coli strain NDM5]
MASRGVNKVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKATGEMKEQTEWHRVVLFGKLAEVASEYLRKGSQVYI
EGQLRTRKWTDQSGQDRYTTEVVVNVGGTMQMLGGRQGGGAPAGGNIGGGQPQGGWGQPQQPQGGNQFSGGAQSRPQQSA
PAAPSNEPPMDFDDDIPF

Nucleotide


Download         Length: 537 bp        

>NTDB_id=608350 LCE27_RS20915 WP_000168305.1 4317441..4317977(-) (ssb) [Escherichia coli strain NDM5]
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