Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   IHC88_RS01955 Genome accession   NZ_CP090498
Coordinates   392260..393486 (-) Length   408 a.a.
NCBI ID   WP_237033349.1    Uniprot ID   -
Organism   Photobacterium damselae subsp. damselae strain CSP DAM2     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 387260..398486
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  IHC88_RS01930 (IHC88_01930) mutT 389052..389492 (-) 441 WP_237033346.1 8-oxo-dGTP diphosphatase MutT -
  IHC88_RS01935 (IHC88_01935) yacG 389573..389782 (-) 210 WP_005297592.1 DNA gyrase inhibitor YacG -
  IHC88_RS01940 (IHC88_01940) zapD 389791..390528 (-) 738 WP_005297594.1 cell division protein ZapD -
  IHC88_RS01945 (IHC88_01945) coaE 390596..391198 (-) 603 WP_237033347.1 dephospho-CoA kinase -
  IHC88_RS01950 (IHC88_01950) pilD 391200..392078 (-) 879 WP_237033348.1 prepilin peptidase Machinery gene
  IHC88_RS01955 (IHC88_01955) pilC 392260..393486 (-) 1227 WP_237033349.1 type II secretion system F family protein Machinery gene
  IHC88_RS01960 (IHC88_01960) pilB 393552..395243 (-) 1692 WP_237033350.1 type IV-A pilus assembly ATPase PilB Machinery gene
  IHC88_RS01965 (IHC88_01965) pilA 395244..395630 (-) 387 WP_237033351.1 pilin Machinery gene
  IHC88_RS01970 (IHC88_01970) ampD 396025..396603 (+) 579 WP_069531889.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  IHC88_RS01975 (IHC88_01975) pdhR 396963..397736 (+) 774 WP_005297609.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 408 a.a.        Molecular weight: 45030.18 Da        Isoelectric Point: 10.0330

>NTDB_id=642932 IHC88_RS01955 WP_237033349.1 392260..393486(-) (pilC) [Photobacterium damselae subsp. damselae strain CSP DAM2]
MAQLAANKIRYYRWRGVNQGGKKITGVTLGFQEQEVRAQLTEQMIQVKKIKRTNPSTLDKIRNQMKSSDVTAITRQLATM
IESGVPIVQALKLMASSHHKAEVRAVLTQVNTQVEAGASLSKALKSSSPLFDNFYCDLVATGEETGYLGQVFVRLATYRE
KSEAMRKKVIKAMIYPSMVMLTAISVTILMLVFVIPQFAAIFGSFGAELPWFTRQVLKASDFLINYGGYLAVGLLLALVL
YRYSYKRSYSFRLRMARLSLRLPIIGNVILKATIARFARTLATTFSAGIPLLTGLQSAGKTAGNLHIEEAIMEAHTSAAA
GMPLYLSLRQCNVFPELMLQMTMIGEESGSLDDMLNKMASLYENDVDNIVDNLGQILEPLIIIVLGVLIGGLLVAMYMPI
FTLMSVIG

Nucleotide


Download         Length: 1227 bp        

>NTDB_id=642932 IHC88_RS01955 WP_237033349.1 392260..393486(-) (pilC) [Photobacterium damselae subsp. damselae strain CSP DAM2]
ATGGCACAGTTAGCCGCTAATAAAATCCGTTATTATCGCTGGCGAGGGGTAAACCAAGGCGGCAAGAAAATCACAGGCGT
AACCTTAGGTTTTCAAGAACAAGAAGTGCGAGCGCAACTGACCGAGCAGATGATCCAAGTAAAAAAGATCAAGCGCACCA
ATCCCTCTACGCTCGATAAAATCCGCAATCAGATGAAAAGCAGCGATGTAACGGCTATTACTCGCCAACTTGCGACCATG
ATCGAATCTGGAGTCCCGATTGTGCAAGCTCTGAAGCTAATGGCCAGTAGCCACCATAAAGCAGAAGTGCGTGCGGTATT
AACTCAGGTCAACACCCAAGTAGAAGCCGGAGCCTCACTGTCAAAAGCACTAAAATCAAGTTCGCCGCTGTTTGATAATT
TCTACTGTGACTTAGTCGCGACCGGGGAAGAAACCGGGTATCTCGGTCAGGTATTTGTTCGCTTAGCCACGTATCGAGAA
AAAAGCGAAGCGATGCGAAAAAAAGTGATTAAGGCGATGATTTACCCATCCATGGTGATGCTAACGGCCATCAGTGTCAC
TATCTTAATGCTGGTCTTCGTTATCCCTCAATTTGCCGCTATTTTTGGCAGTTTTGGCGCAGAACTCCCTTGGTTTACTC
GCCAAGTATTAAAAGCCTCGGATTTCCTAATTAACTATGGGGGATACTTAGCTGTAGGTTTGCTGCTTGCACTCGTGCTT
TATCGTTATAGCTATAAACGGTCCTATTCGTTTCGGTTACGTATGGCTCGATTAAGCTTACGCCTGCCCATTATCGGTAA
CGTCATACTCAAAGCAACTATTGCCCGTTTTGCTCGAACCCTTGCGACCACTTTTAGTGCCGGAATTCCACTACTAACAG
GGCTACAGTCGGCTGGTAAAACCGCAGGCAACTTACATATAGAAGAAGCTATTATGGAAGCGCATACCAGTGCAGCAGCG
GGGATGCCACTCTATTTATCTTTGCGCCAATGCAATGTTTTTCCAGAGCTTATGTTGCAGATGACCATGATCGGGGAAGA
GTCTGGCTCTCTTGATGATATGCTCAATAAAATGGCAAGCCTATATGAAAACGATGTCGATAATATCGTTGATAACCTCG
GCCAAATTTTAGAGCCTTTGATCATCATTGTGCTTGGCGTTCTGATCGGTGGTTTACTCGTGGCAATGTATATGCCGATC
TTCACCCTAATGAGCGTGATTGGTTAA

Domains

Predicted by InterproScan.

Type II secretion system (T2SS), protein F (T2SSF)

(277-399)

Type II secretion system (T2SS), protein F (T2SSF)

(74-196)


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
  pilC Vibrio campbellii strain DS40M4

55.087

98.775

0.544
  pilC Vibrio cholerae strain A1552

55.5

98.039

0.544
  pilG Neisseria meningitidis 44/76-A

41.975

99.265

0.417
  pilG Neisseria gonorrhoeae MS11

41.975

99.265

0.417
  pilC Pseudomonas stutzeri DSM 10701

40.295

99.755

0.402
  pilC Acinetobacter baumannii D1279779

39.951

100

0.4
  pilC Acinetobacter baylyi ADP1

39.547

97.304

0.385
  pilC Legionella pneumophila strain ERS1305867

38.191

97.549

0.373