Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   PSYRMG_RS13145 Genome accession   NZ_CP005970
Coordinates   3050765..3051328 (-) Length   187 a.a.
NCBI ID   WP_002555458.1    Uniprot ID   -
Organism   Pseudomonas syringae UMAF0158     
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 3017767..3050678 3050765..3051328 flank 87


Gene organization within MGE regions


Location: 3017767..3051328
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PSYRMG_RS13020 (PSYRMG_13305) - 3017767..3020685 (-) 2919 WP_060708325.1 EAL domain-containing protein -
  PSYRMG_RS13025 (PSYRMG_13310) - 3020717..3021538 (-) 822 WP_003431792.1 phosphate/phosphite/phosphonate ABC transporter substrate-binding protein -
  PSYRMG_RS13030 (PSYRMG_13315) - 3021853..3022740 (+) 888 WP_060708326.1 serine hydrolase domain-containing protein -
  PSYRMG_RS13035 (PSYRMG_13320) - 3022814..3023944 (-) 1131 WP_058397052.1 ROK family transcriptional regulator -
  PSYRMG_RS13040 (PSYRMG_13325) - 3024110..3025426 (+) 1317 WP_058416280.1 extracellular solute-binding protein -
  PSYRMG_RS13045 (PSYRMG_13330) - 3025423..3026316 (+) 894 WP_058416281.1 sugar ABC transporter permease -
  PSYRMG_RS13050 (PSYRMG_13335) - 3026313..3027206 (+) 894 WP_058416282.1 ABC transporter permease subunit -
  PSYRMG_RS13055 (PSYRMG_13340) ugpC 3027203..3028309 (+) 1107 WP_058416283.1 sn-glycerol-3-phosphate ABC transporter ATP-binding protein UgpC -
  PSYRMG_RS13060 (PSYRMG_13345) - 3028316..3029077 (+) 762 WP_003368990.1 glycerophosphoryl diester phosphodiesterase -
  PSYRMG_RS13065 (PSYRMG_13350) - 3029074..3029817 (+) 744 WP_058416284.1 inositol monophosphatase family protein -
  PSYRMG_RS13070 (PSYRMG_13355) - 3029817..3030929 (+) 1113 WP_060708327.1 endo-1,4-beta-xylanase -
  PSYRMG_RS27160 - 3031396..3031917 (-) 522 WP_144423401.1 hypothetical protein -
  PSYRMG_RS13075 (PSYRMG_13360) - 3032080..3033156 (-) 1077 WP_060708328.1 hypothetical protein -
  PSYRMG_RS13080 (PSYRMG_13365) - 3033153..3034148 (-) 996 WP_060708329.1 hypothetical protein -
  PSYRMG_RS13085 (PSYRMG_13370) - 3034439..3035446 (-) 1008 WP_060708330.1 hypothetical protein -
  PSYRMG_RS13090 (PSYRMG_13375) - 3035822..3036148 (-) 327 WP_343286600.1 helix-turn-helix transcriptional regulator -
  PSYRMG_RS13100 (PSYRMG_13385) - 3037322..3038320 (+) 999 WP_060708333.1 hypothetical protein -
  PSYRMG_RS13105 (PSYRMG_13390) - 3038598..3041081 (+) 2484 WP_060708334.1 DEAD/DEAH box helicase family protein -
  PSYRMG_RS13110 (PSYRMG_13395) - 3041236..3042150 (+) 915 WP_060708335.1 hypothetical protein -
  PSYRMG_RS13120 (PSYRMG_13405) - 3042684..3044741 (+) 2058 WP_226995465.1 CHAT domain-containing protein -
  PSYRMG_RS13125 (PSYRMG_13410) - 3045335..3045781 (-) 447 WP_060708336.1 hypothetical protein -
  PSYRMG_RS13130 (PSYRMG_13415) - 3045774..3047801 (-) 2028 WP_060708337.1 integrase -
  PSYRMG_RS13135 (PSYRMG_13420) - 3047794..3049362 (-) 1569 WP_060708338.1 site-specific integrase -
  PSYRMG_RS13140 (PSYRMG_13425) - 3049359..3050678 (-) 1320 WP_060708339.1 tyrosine-type recombinase/integrase -
  PSYRMG_RS13145 (PSYRMG_13430) ssb 3050765..3051328 (-) 564 WP_002555458.1 single-stranded DNA-binding protein Machinery gene

Sequence

Protein


Download         Length: 187 a.a.        Molecular weight: 20804.92 Da        Isoelectric Point: 5.9404

>NTDB_id=112689 PSYRMG_RS13145 WP_002555458.1 3050765..3051328(-) (ssb) [Pseudomonas syringae UMAF0158]
MARGVNKVILVGTCGQDPEVRYLPNGNAVTNLSLATSEQWTDKQSGQKVEKTEWHRVSMFGKVAEIAGEYLRKGSQVYIE
GKLQTREWEKDGIKRYTTEIVVDMQGTMQLLGGRPQGDSQQGQGGGNYNQSAPRPQQSRPQQSAPQQSAPQQNYNQQPPQ
RDSRPAPQQQAPQPAADFDSFDDDIPF

Nucleotide


Download         Length: 564 bp        

>NTDB_id=112689 PSYRMG_RS13145 WP_002555458.1 3050765..3051328(-) (ssb) [Pseudomonas syringae UMAF0158]
ATGGCCCGTGGGGTTAACAAAGTCATATTGGTCGGTACATGCGGCCAGGATCCCGAAGTTCGCTACTTGCCTAACGGTAA
CGCCGTGACCAACCTGAGTCTGGCAACCAGCGAACAGTGGACTGACAAGCAGTCCGGTCAGAAAGTCGAAAAGACCGAAT
GGCACCGTGTATCGATGTTCGGCAAAGTCGCCGAAATCGCTGGCGAATACCTGCGCAAGGGTTCGCAGGTGTACATCGAA
GGCAAGCTGCAGACCCGCGAGTGGGAAAAAGACGGCATCAAGCGCTACACCACTGAAATCGTCGTCGACATGCAGGGCAC
CATGCAACTGCTGGGCGGCCGTCCTCAGGGCGACTCCCAACAAGGTCAGGGCGGCGGCAACTACAACCAGTCCGCACCTC
GTCCACAGCAGTCGCGCCCACAACAATCGGCGCCGCAGCAGTCCGCACCTCAGCAGAACTACAACCAGCAGCCGCCACAA
CGCGACTCGCGCCCAGCGCCGCAACAACAAGCGCCGCAGCCAGCTGCTGACTTCGACAGCTTCGATGATGATATTCCGTT
CTGA

Domains

Predicted by InterproScan.

Single-strand binding protein family (SSB)

(5-107)


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

54.974

100

0.561
  ssb Glaesserella parasuis strain SC1401

47.09

100

0.476
  ssb Neisseria meningitidis MC58

45.161

99.465

0.449
  ssb Neisseria gonorrhoeae MS11

45.161

99.465

0.449

Multiple sequence alignment