Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   RAM80_RS12940 Genome accession   NZ_CP133165
Coordinates   2792997..2794697 (+) Length   566 a.a.
NCBI ID   WP_416426930.1    Uniprot ID   -
Organism   Pseudomonas sp. App30     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2787997..2799697
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RAM80_RS12905 (RAM80_12885) nadC 2788981..2789829 (+) 849 WP_416426924.1 carboxylating nicotinate-nucleotide diphosphorylase -
  RAM80_RS12910 (RAM80_12890) - 2789873..2790136 (+) 264 WP_416426925.1 hypothetical protein -
  RAM80_RS12915 (RAM80_12895) - 2790231..2791007 (-) 777 WP_416426926.1 EAL domain-containing protein -
  RAM80_RS12920 (RAM80_12900) - 2791297..2791686 (+) 390 WP_416426927.1 hypothetical protein -
  RAM80_RS12930 (RAM80_12910) - 2791866..2792291 (-) 426 WP_416426928.1 pilin -
  RAM80_RS12935 (RAM80_12915) - 2792349..2792768 (-) 420 WP_416426929.1 pilin -
  RAM80_RS12940 (RAM80_12920) pilB 2792997..2794697 (+) 1701 WP_416426930.1 type IV-A pilus assembly ATPase PilB Machinery gene
  RAM80_RS12945 (RAM80_12925) pilC 2794701..2795924 (+) 1224 WP_416426931.1 type II secretion system F family protein Machinery gene
  RAM80_RS12950 (RAM80_12930) pilD 2795926..2796795 (+) 870 WP_416426932.1 prepilin peptidase Machinery gene
  RAM80_RS12955 (RAM80_12935) coaE 2796795..2797418 (+) 624 WP_416426933.1 dephospho-CoA kinase -
  RAM80_RS12960 (RAM80_12940) yacG 2797415..2797618 (+) 204 WP_416426934.1 DNA gyrase inhibitor YacG -
  RAM80_RS12965 (RAM80_12945) - 2797748..2798425 (-) 678 WP_416426935.1 energy-coupling factor ABC transporter permease -
  RAM80_RS12970 (RAM80_12950) - 2798422..2798889 (-) 468 WP_008371544.1 hypothetical protein -
  RAM80_RS12975 (RAM80_12955) - 2799001..2799630 (+) 630 WP_416426936.1 DUF1780 domain-containing protein -

Sequence

Protein


Download         Length: 566 a.a.        Molecular weight: 62776.79 Da        Isoelectric Point: 5.8565

>NTDB_id=872245 RAM80_RS12940 WP_416426930.1 2792997..2794697(+) (pilB) [Pseudomonas sp. App30]
MNDIALTGLAKHLVQAELLTDKSAQQAYQQAQRNRIPLVHFLVQNKLVKSREIAEIASEQFGVSFLDLTMLDKEGQPKGL
VSEKLVRQHHALPLWRRGNKLFVGVSDPTNHQAITDIQFSTGLTTEAILVEDDKLMDAIDKFFDNGSTGLEEMADVDLDG
LDVQSVNDNDDGPIPGQDADDAPVVRFVNKMLLDAIRGGSSDLHFEPYEKSYRVRLRTDGMLREVAKPPINLAGRIAARL
KVMASLDISERRKPQDGRIKMRISKNKSIDFRVNTLPTLWGEKIVMRILDPTSAQMGIDALGYEPEQKELYLQALRQPQG
MILVTGPTGSGKTVSLYTGLNILNTVDINISTAEDPVEINMEGINQVNVNPKQGLDFAQALRSFLRQDPDVIMVGEIRDL
ETAEIAIKAAQTGHLVLSTLHTNSAAETLTRLQNMGVAGFNIATSVNLIIAQRLARKLCPHCKKESHIPRETQIKEGLPE
HLIGTFKIYEPVGCDLCNGGYKGRQGIYEVVRNTQALQRLIMEEGNSIEISDQARKEGFNDLRTSGLMKVMQGVTSLEEV
NRVTKD

Nucleotide


Download         Length: 1701 bp        

>NTDB_id=872245 RAM80_RS12940 WP_416426930.1 2792997..2794697(+) (pilB) [Pseudomonas sp. App30]
ATGAACGATATCGCCCTCACCGGCCTGGCCAAGCATTTGGTCCAGGCTGAACTGCTTACCGACAAGAGTGCGCAACAGGC
GTATCAGCAAGCTCAACGCAACCGCATTCCCCTCGTACACTTCCTGGTACAAAATAAACTGGTAAAAAGTCGCGAGATCG
CCGAGATCGCTTCAGAACAGTTTGGCGTATCGTTTCTTGACCTGACCATGCTGGACAAGGAAGGGCAACCGAAGGGCCTG
GTCAGTGAAAAACTGGTCCGCCAACACCACGCCTTGCCCCTGTGGCGCCGCGGCAACAAATTATTTGTCGGCGTCTCCGA
CCCTACAAATCATCAAGCCATTACTGACATTCAGTTCAGTACCGGGCTGACCACCGAAGCCATCCTTGTCGAAGATGACA
AGCTGATGGACGCCATCGACAAATTCTTCGACAACGGCAGCACCGGCCTTGAGGAAATGGCCGACGTAGACCTGGACGGC
CTGGACGTACAGAGCGTTAATGATAACGATGACGGCCCCATTCCAGGGCAGGATGCCGACGACGCGCCGGTGGTGCGCTT
CGTTAACAAAATGCTGCTTGATGCAATTCGTGGAGGTTCCTCAGACCTGCACTTCGAACCCTATGAGAAAAGCTATCGGG
TCCGCCTGCGCACAGACGGCATGCTCAGGGAGGTTGCGAAACCACCGATCAACCTGGCTGGCCGCATTGCAGCGCGCTTG
AAGGTCATGGCGAGCCTGGATATTTCCGAGCGCCGCAAGCCTCAAGACGGGCGCATCAAGATGCGCATATCCAAAAACAA
GTCCATCGACTTCCGGGTCAACACGCTGCCCACACTATGGGGCGAAAAGATCGTCATGCGTATTCTTGACCCCACCAGCG
CGCAAATGGGCATTGATGCACTGGGCTACGAGCCCGAGCAAAAGGAATTGTACCTGCAGGCCCTTCGCCAGCCACAGGGC
ATGATTCTGGTCACCGGGCCTACAGGTTCAGGTAAAACGGTTTCGCTTTATACCGGCTTGAATATCCTGAATACCGTCGA
CATCAACATCTCGACGGCAGAAGACCCGGTCGAAATCAACATGGAGGGGATCAACCAGGTCAACGTGAATCCCAAGCAGG
GCCTGGACTTTGCCCAGGCTCTGCGTTCCTTCCTGCGCCAAGACCCGGATGTCATTATGGTCGGGGAGATTCGCGACCTG
GAAACAGCCGAGATCGCCATCAAGGCTGCCCAAACAGGCCACTTGGTGCTGTCTACGCTGCACACCAACAGCGCTGCCGA
AACACTCACCCGCCTGCAGAACATGGGAGTTGCAGGTTTCAATATCGCCACGTCGGTAAACTTGATCATCGCCCAGCGGC
TAGCGCGCAAATTGTGCCCACACTGCAAGAAAGAGTCTCACATCCCCCGAGAGACGCAGATCAAGGAAGGCCTTCCTGAA
CATTTGATCGGTACCTTCAAAATTTACGAGCCTGTGGGCTGCGACCTGTGTAACGGCGGTTACAAGGGGCGCCAGGGTAT
CTATGAAGTGGTGCGTAACACCCAAGCGCTTCAGCGTTTGATCATGGAGGAAGGAAACTCGATCGAGATCAGCGACCAGG
CACGCAAGGAAGGTTTCAACGACCTTCGCACCTCAGGGCTGATGAAGGTAATGCAGGGTGTTACCAGCCTTGAGGAAGTC
AACCGGGTCACCAAGGACTAA

Domains

Predicted by InterproScan.

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

(42-146)

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

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 baylyi ADP1

58.437

99.47

0.581
  pilB Acinetobacter baumannii D1279779

57.496

100

0.576
  pilB Legionella pneumophila strain ERS1305867

55.221

99.823

0.551
  pilB Vibrio parahaemolyticus RIMD 2210633

51.15

99.823

0.511
  pilB Vibrio cholerae strain A1552

51.246

99.293

0.509
  pilF Neisseria gonorrhoeae MS11

50.887

99.647

0.507
  pilB Vibrio campbellii strain DS40M4

50

100

0.5
  pilF Thermus thermophilus HB27

37.814

98.587

0.373