Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   MKD32_RS18845 Genome accession   NZ_CP092630
Coordinates   4298321..4300030 (+) Length   569 a.a.
NCBI ID   WP_172589290.1    Uniprot ID   -
Organism   Shewanella xiamenensis strain CQ-Y1     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4293321..4305030
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  MKD32_RS18820 (MKD32_18820) pdhR 4293379..4294131 (-) 753 WP_011070781.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  MKD32_RS18825 (MKD32_18825) ampE 4294549..4295400 (-) 852 WP_037413617.1 beta-lactamase regulator AmpE -
  MKD32_RS18830 (MKD32_18830) ampD 4295563..4296102 (-) 540 WP_172587754.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  MKD32_RS18835 (MKD32_18835) nadC 4296333..4297214 (+) 882 WP_088586229.1 carboxylating nicotinate-nucleotide diphosphorylase -
  MKD32_RS20700 - 4297819..4298238 (+) 420 WP_275892054.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  MKD32_RS18845 (MKD32_18845) pilB 4298321..4300030 (+) 1710 WP_172589290.1 type IV-A pilus assembly ATPase PilB Machinery gene
  MKD32_RS18850 (MKD32_18850) pilC 4300149..4301420 (+) 1272 WP_240292607.1 type II secretion system F family protein Machinery gene
  MKD32_RS18855 (MKD32_18855) pilD 4301555..4302481 (+) 927 WP_037426360.1 A24 family peptidase Machinery gene
  MKD32_RS18860 (MKD32_18860) coaE 4302622..4303239 (+) 618 WP_240292608.1 dephospho-CoA kinase -
  MKD32_RS18865 (MKD32_18865) zapD 4303232..4303966 (+) 735 WP_037413632.1 cell division protein ZapD -
  MKD32_RS18870 (MKD32_18870) yacG 4304048..4304257 (+) 210 WP_037413634.1 DNA gyrase inhibitor YacG -
  MKD32_RS18875 (MKD32_18875) mutT 4304342..4304737 (+) 396 WP_140907787.1 8-oxo-dGTP diphosphatase MutT -

Sequence

Protein


Download         Length: 569 a.a.        Molecular weight: 62688.04 Da        Isoelectric Point: 6.0579

>NTDB_id=659309 MKD32_RS18845 WP_172589290.1 4298321..4300030(+) (pilB) [Shewanella xiamenensis strain CQ-Y1]
MPTSGLHLGLSTLFIRKGLLNEEQMASAITKSRQNKQTLVTTLVQTKLVSARSIAELCYEEYGTPLLDLAEFDVSAIPEE
FLNKKLIEKHRCLPLFKRGNRLYIATSDPTNIAALEEFQFSAGLHAEAILVEEDKLAKALEKVLEEDITGLDLSGMDEAA
LAGIEVTDTDKRNEDNAGESSDDAPIVIYINKILTDAIRKGASDLHFEPYEKRYRIRFRIDGILHEVSEPPISLAGRLSA
RLKVMSKLDIAERRVPQDGRIKMKLSRTKSIDFRVSTLPTLWGEKIVMRILDSSSAQLGIEKLGYEPDQEKLYLEMLAKP
QGMILVTGPTGSGKTVSLYTGLNILNTAERNISTAEDPVEINLEGVNQVHINLKAGLTFASALRSFLRQDPDVVMVGEIR
DLETAEIAIKAAQTGHLVLSTLHTNSAAETLTRLINMGVPGYNIASSVNLIIAQRLARRLCPECKQPEQIPEHELQRLGF
SDAQIAQGFTTYKPVGCEHCSGGYKGRVGIYEVMKMSDEIARTIMEGGNSLQIAGQAKAQGMRDLRQSGLLKVIQGVTSI
AEVNRVTSF

Nucleotide


Download         Length: 1710 bp        

>NTDB_id=659309 MKD32_RS18845 WP_172589290.1 4298321..4300030(+) (pilB) [Shewanella xiamenensis strain CQ-Y1]
ATGCCAACTTCAGGTCTTCATTTAGGTTTATCCACCCTTTTCATCCGTAAAGGTCTGCTTAATGAAGAGCAGATGGCGAG
TGCCATCACCAAATCCCGCCAAAACAAACAAACCTTAGTCACTACCTTAGTGCAAACTAAGCTCGTGTCTGCTCGCAGTA
TTGCCGAGCTTTGCTATGAGGAATATGGCACTCCGCTGTTGGATTTAGCCGAATTTGATGTTAGCGCCATCCCTGAAGAG
TTTCTGAATAAAAAACTAATTGAAAAACACCGCTGCTTACCGCTATTTAAGCGCGGCAATCGCCTCTATATCGCCACTTC
CGACCCCACAAATATTGCCGCCCTTGAGGAATTCCAATTTAGTGCTGGCCTACATGCCGAAGCGATTTTGGTGGAAGAAG
ATAAGCTCGCTAAGGCCCTTGAAAAGGTACTCGAAGAAGATATTACTGGCCTTGATTTAAGCGGCATGGATGAAGCAGCA
CTTGCTGGTATTGAAGTTACCGATACCGATAAACGCAATGAAGACAATGCTGGTGAATCCAGTGATGATGCCCCTATCGT
CATTTATATCAATAAGATATTAACCGATGCTATTCGTAAGGGCGCTTCAGACTTACATTTTGAGCCCTATGAAAAACGCT
ATCGTATCCGTTTTCGTATCGATGGTATTTTGCATGAAGTCTCCGAGCCGCCAATCAGCCTAGCCGGACGACTCTCAGCG
CGCTTAAAGGTAATGTCAAAACTAGATATTGCCGAGCGCCGCGTCCCCCAAGATGGCCGGATTAAAATGAAGCTATCCCG
CACTAAGTCCATCGACTTTCGGGTAAGTACTCTGCCGACCCTGTGGGGCGAGAAGATTGTAATGCGGATATTGGATTCCT
CATCCGCACAGCTCGGCATCGAAAAACTCGGTTACGAACCCGATCAAGAAAAGCTCTACCTTGAGATGCTAGCCAAACCC
CAAGGCATGATATTAGTGACAGGCCCAACGGGTTCGGGTAAAACCGTTTCGCTCTACACCGGCTTAAATATCCTCAATAC
CGCCGAGCGTAATATCTCCACTGCCGAAGATCCGGTGGAAATTAACCTTGAGGGTGTAAACCAAGTTCATATTAATTTAA
AAGCGGGTTTAACCTTCGCCTCGGCACTACGCTCCTTTTTGCGCCAAGACCCCGATGTGGTGATGGTCGGCGAAATCCGT
GACCTTGAAACCGCCGAAATTGCCATTAAAGCGGCACAAACTGGCCATTTAGTATTATCAACACTGCATACCAACTCGGC
GGCAGAAACACTCACCCGTTTAATTAATATGGGCGTACCCGGCTATAATATTGCCAGCTCAGTTAATTTAATTATTGCTC
AACGACTTGCACGACGGCTTTGCCCTGAATGCAAACAACCCGAACAAATACCTGAACATGAGCTACAACGTTTAGGCTTT
AGTGATGCACAAATCGCCCAAGGGTTTACCACCTATAAACCCGTGGGTTGTGAGCATTGTTCTGGTGGCTATAAAGGACG
GGTCGGCATTTACGAAGTGATGAAGATGTCAGATGAAATTGCCCGTACTATTATGGAAGGGGGTAATTCATTACAAATTG
CAGGCCAAGCTAAAGCACAAGGGATGCGCGATCTGCGTCAATCAGGGCTACTAAAAGTGATCCAAGGTGTCACCAGTATT
GCCGAAGTGAATCGGGTAACCAGTTTTTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(192-459)

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

(43-144)


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

59.893

98.594

0.591
  pilB Acinetobacter baumannii D1279779

57.319

99.649

0.571
  pilB Legionella pneumophila strain ERS1305867

56.762

98.77

0.561
  pilB Vibrio parahaemolyticus RIMD 2210633

52.014

100

0.522
  pilB Vibrio cholerae strain A1552

53.333

97.54

0.52
  pilB Vibrio campbellii strain DS40M4

51.06

99.473

0.508
  pilF Neisseria gonorrhoeae MS11

49.117

99.473

0.489
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.427

98.067

0.387
  pilF Thermus thermophilus HB27

38.214

98.418

0.376
  pilB/pilB1 Synechocystis sp. PCC 6803

41.683

87.698

0.366