Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   EMK97_RS14235 Genome accession   NZ_CP034759
Coordinates   3195422..3197122 (-) Length   566 a.a.
NCBI ID   WP_130603288.1    Uniprot ID   A0A4P6PB00
Organism   Litorilituus sediminis strain JCM 17549     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3190422..3202122
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  EMK97_RS14205 (EMK97_14205) mutT 3190859..3191281 (+) 423 WP_130603276.1 8-oxo-dGTP diphosphatase MutT -
  EMK97_RS14210 (EMK97_14210) yacG 3191289..3191525 (-) 237 WP_130603278.1 DNA gyrase inhibitor YacG -
  EMK97_RS14215 (EMK97_14215) zapD 3191585..3192331 (-) 747 WP_130603280.1 cell division protein ZapD -
  EMK97_RS14220 (EMK97_14220) coaE 3192442..3193050 (-) 609 WP_130603282.1 dephospho-CoA kinase -
  EMK97_RS14225 (EMK97_14225) pilD 3193063..3193965 (-) 903 WP_130603284.1 A24 family peptidase Machinery gene
  EMK97_RS14230 (EMK97_14230) pilC 3194046..3195293 (-) 1248 WP_130603286.1 type II secretion system F family protein Machinery gene
  EMK97_RS14235 (EMK97_14235) pilB 3195422..3197122 (-) 1701 WP_130603288.1 type IV-A pilus assembly ATPase PilB Machinery gene
  EMK97_RS19370 (EMK97_14240) - 3197341..3197826 (-) 486 WP_211342248.1 pilin -
  EMK97_RS14245 (EMK97_14245) - 3198059..3199918 (-) 1860 WP_130603292.1 sulfatase-like hydrolase/transferase -
  EMK97_RS14250 (EMK97_14250) - 3199989..3200630 (-) 642 WP_130603294.1 class I SAM-dependent methyltransferase -
  EMK97_RS14255 (EMK97_14255) rplM 3201030..3201458 (+) 429 WP_130603296.1 50S ribosomal protein L13 -
  EMK97_RS14260 (EMK97_14260) rpsI 3201462..3201854 (+) 393 WP_130603298.1 30S ribosomal protein S9 -

Sequence

Protein


Download         Length: 566 a.a.        Molecular weight: 62276.30 Da        Isoelectric Point: 4.7513

>NTDB_id=332891 EMK97_RS14235 WP_130603288.1 3195422..3197122(-) (pilB) [Litorilituus sediminis strain JCM 17549]
MKGSHQQSSVFSALAKQNLVPLEMADEIWADFADKKKPFIRYLVENRDIDAQQIAKALSKNFGYPQIQLSSFDTSLIPEG
IRNEKLITKHNALPLYLRGKVLFVAMSDPTNLDALEEIQFNTGYSTELVLCDEPSLQACIEKVLEDESDALDISDIDSDE
LSGLDVQETKQEESSVTGEDDAPIVVFINKILLDAIKKGASDLHFEPYEKAFRIRFRVDGILTEIARPPVSLAARMAARL
KVMSKLDIAERRVPQDGRIKLALSQKKSIDFRVSTLPTMWGEKIVMRILDSSSAMLGIDMLGYEADQKAIYMDALAQPQG
MILVTGPTGSGKTVSLYTGLNILNTPERNISTAEDPVEINLEGINQVQINTKAGLTFPSALRSFLRQDPDIVMVGEIRDL
ETAEIAIKAAQTGHLVLSTLHTNSAAETLTRLLNMGVPSYNVASSVSIIIAQRLARRLCPQCKGEENLSEAQLKEQGFPE
DKLSEITLYKPVGCTHCTNGYKGRVGIYEVIEITPTIASIIMEGGTSLDIATQCQKEGYNNLRQSGLVKAMNGMTSLEEV
NRVTSG

Nucleotide


Download         Length: 1701 bp        

>NTDB_id=332891 EMK97_RS14235 WP_130603288.1 3195422..3197122(-) (pilB) [Litorilituus sediminis strain JCM 17549]
ATGAAAGGAAGCCATCAACAATCGAGCGTTTTCTCTGCGCTTGCCAAACAAAATCTTGTTCCGTTAGAGATGGCCGACGA
GATTTGGGCAGACTTTGCCGATAAGAAAAAGCCCTTCATACGCTACTTAGTTGAAAATAGAGACATAGATGCTCAGCAAA
TCGCAAAAGCATTATCTAAAAACTTTGGTTACCCACAAATACAGCTTTCAAGCTTTGATACCAGCTTAATTCCTGAAGGC
ATCCGCAACGAAAAATTAATTACTAAGCACAATGCTCTGCCATTATATTTACGCGGCAAAGTGCTATTCGTTGCCATGTC
AGATCCAACCAACTTGGATGCCTTAGAGGAAATACAATTTAACACTGGCTATAGTACAGAGCTTGTTCTTTGTGATGAGC
CGAGCTTACAAGCTTGCATTGAAAAAGTACTAGAAGATGAAAGTGATGCCCTTGATATCAGCGATATTGATTCAGATGAA
CTTTCTGGCTTAGATGTACAAGAAACTAAGCAAGAGGAAAGTTCCGTTACTGGTGAAGACGATGCGCCCATTGTTGTCTT
TATCAATAAAATACTGTTAGATGCGATAAAAAAAGGCGCTTCCGATTTACATTTTGAGCCTTATGAAAAAGCCTTTCGTA
TCCGTTTTCGTGTTGATGGTATATTAACTGAAATTGCAAGACCTCCTGTTTCACTTGCAGCGAGAATGGCTGCTCGCTTA
AAGGTTATGTCAAAGCTAGATATTGCCGAACGCCGAGTGCCACAAGATGGTCGTATTAAGCTAGCGCTATCGCAAAAAAA
ATCAATAGATTTTCGTGTAAGCACCCTACCCACTATGTGGGGTGAAAAAATCGTAATGCGTATTTTGGACTCTTCTAGTG
CCATGCTAGGTATTGATATGCTCGGATATGAAGCCGATCAAAAAGCCATTTATATGGACGCATTAGCACAGCCTCAAGGT
ATGATTTTAGTAACAGGGCCTACCGGTTCAGGTAAAACAGTATCACTTTATACCGGTTTAAATATTCTAAACACCCCAGA
GCGCAATATTTCCACCGCAGAAGATCCAGTCGAAATTAACTTGGAAGGTATCAACCAAGTACAAATTAATACCAAGGCGG
GTTTAACTTTCCCAAGTGCACTACGCTCTTTCTTACGACAAGATCCAGATATAGTTATGGTTGGTGAGATTCGTGACTTA
GAAACCGCCGAAATTGCCATAAAAGCAGCGCAAACTGGTCACTTGGTTTTATCTACACTACATACCAACTCAGCAGCGGA
AACTTTAACCCGTTTACTTAATATGGGCGTTCCATCCTATAATGTTGCTAGCTCAGTTTCTATTATCATTGCCCAACGTC
TTGCCAGACGATTATGCCCACAATGTAAAGGAGAAGAAAATTTATCAGAAGCACAATTAAAAGAGCAAGGTTTCCCTGAA
GATAAATTATCAGAAATCACCTTATATAAACCTGTAGGCTGCACTCATTGTACTAATGGTTATAAAGGTCGTGTCGGTAT
TTATGAGGTCATTGAGATAACACCGACCATAGCAAGTATTATTATGGAAGGTGGCACCTCTCTTGATATAGCTACTCAGT
GCCAAAAAGAAGGCTACAATAACTTAAGACAATCTGGCCTAGTTAAAGCGATGAATGGTATGACTAGCTTAGAAGAAGTA
AACCGTGTCACAAGTGGTTAA

Domains

Predicted by InterproScan.

Type II secretion system (T2SS), protein E, N-terminal domain (MshEN)

(43-148)

Type II/IV secretion system protein (T2SSE)

(190-457)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB A0A4P6PB00

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
  pilB Acinetobacter baumannii D1279779

59.774

93.993

0.562
  pilB Acinetobacter baylyi ADP1

59.475

94.17

0.56
  pilB Legionella pneumophila strain ERS1305867

56.514

96.29

0.544
  pilB Vibrio cholerae strain A1552

55.303

93.286

0.516
  pilB Vibrio parahaemolyticus RIMD 2210633

54.247

91.519

0.496
  pilB Vibrio campbellii strain DS40M4

54.054

91.519

0.495
  pilF Neisseria gonorrhoeae MS11

47.482

98.233

0.466
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.29

95.053

0.364
  pilB/pilB1 Synechocystis sp. PCC 6803

40.8

88.339

0.36

Multiple sequence alignment