Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   SAMA_RS02005 Genome accession   NC_008700
Coordinates   444884..446143 (-) Length   419 a.a.
NCBI ID   WP_011758489.1    Uniprot ID   -
Organism   Shewanella amazonensis SB2B     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 439884..451143
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  SAMA_RS01980 (Sama_0363) mutT 441876..442271 (-) 396 WP_011758484.1 8-oxo-dGTP diphosphatase MutT -
  SAMA_RS01985 (Sama_0364) yacG 442313..442528 (-) 216 WP_011758485.1 DNA gyrase inhibitor YacG -
  SAMA_RS01990 (Sama_0365) zapD 442590..443324 (-) 735 WP_011758486.1 cell division protein ZapD -
  SAMA_RS01995 (Sama_0366) coaE 443317..443934 (-) 618 WP_011758487.1 dephospho-CoA kinase -
  SAMA_RS02000 (Sama_0367) pilD 443934..444848 (-) 915 WP_011758488.1 A24 family peptidase Machinery gene
  SAMA_RS02005 (Sama_0368) pilC 444884..446143 (-) 1260 WP_011758489.1 type II secretion system F family protein Machinery gene
  SAMA_RS02010 (Sama_0369) pilB 446213..447919 (-) 1707 WP_011758490.1 type IV-A pilus assembly ATPase PilB Machinery gene
  SAMA_RS02015 (Sama_0370) - 447973..448446 (-) 474 WP_011758491.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  SAMA_RS02020 (Sama_0371) nadC 450088..450945 (-) 858 WP_011758492.1 carboxylating nicotinate-nucleotide diphosphorylase -

Sequence

Protein


Download         Length: 419 a.a.        Molecular weight: 45946.11 Da        Isoelectric Point: 9.9863

>NTDB_id=27058 SAMA_RS02005 WP_011758489.1 444884..446143(-) (pilC) [Shewanella amazonensis SB2B]
MATAVANKSKKQTQKLAPKVYNFEWKGLNRDGKKSSGELRGASVAEIKTLLKNQGINPKVVRKKSDGLFGASNKKINAMD
IAMVTRQIATMLMAGVPLVTTIEILGKGHEKPKMRELLGTILNDIQAGIPLSDALRPHRIYFDDLYVDLVAAGEHSGSLD
TVFDRIATYREKAEALKSKIKKAMFYPAAVVVVAIAVTTLLLLFVVPQFEEIFTSFGAELPAFTQLIINISRFLQSSWYF
FLTAIVGSIWLYVRAHRNSQAVRDRQDEFVLKIPVIGEILHKAAMARFARTLATTFAAGVPLIDGLESAAGASGNAVYRK
ALLRIRTEVMAGMQMNVAMRTVNLFPDMLIQMVMIGEESGSLDNMLNKIANIYEMQVDDAVDGLSSLIEPIMMVVIGTLV
GGLIVGMYLPIFQMGNVVG

Nucleotide


Download         Length: 1260 bp        

>NTDB_id=27058 SAMA_RS02005 WP_011758489.1 444884..446143(-) (pilC) [Shewanella amazonensis SB2B]
ATGGCCACAGCCGTCGCAAACAAATCCAAAAAGCAGACACAAAAGCTAGCTCCCAAGGTCTATAACTTTGAATGGAAGGG
CTTAAACCGAGATGGCAAAAAATCCAGCGGTGAGCTCAGGGGCGCGTCTGTTGCCGAAATTAAAACCCTTCTTAAAAATC
AGGGTATAAACCCCAAGGTAGTTCGTAAGAAGTCTGATGGCCTTTTTGGTGCCAGCAATAAAAAGATCAATGCGATGGAC
ATCGCCATGGTCACCCGCCAAATAGCCACCATGCTGATGGCAGGTGTGCCCTTGGTGACCACCATAGAAATCCTCGGTAA
AGGCCATGAAAAGCCCAAGATGAGAGAATTGCTTGGCACCATTCTTAACGACATTCAGGCAGGTATTCCACTCTCTGATG
CACTGCGGCCCCACAGAATTTACTTTGATGACTTATACGTAGACCTGGTGGCCGCCGGTGAGCACTCGGGTTCACTGGAT
ACTGTTTTTGACAGGATTGCAACTTATAGAGAAAAAGCAGAAGCCCTGAAGTCCAAAATCAAAAAGGCCATGTTTTATCC
CGCTGCGGTCGTGGTGGTTGCGATTGCTGTTACCACCTTGCTGCTGCTCTTCGTAGTACCCCAGTTTGAAGAAATTTTTA
CCAGTTTCGGTGCTGAACTTCCTGCATTCACCCAGCTCATTATCAATATCTCACGATTTCTGCAGTCATCTTGGTATTTC
TTCCTCACCGCCATCGTTGGCTCTATCTGGCTCTATGTCCGCGCCCACCGGAATTCTCAAGCAGTACGCGATAGGCAAGA
CGAGTTTGTGCTTAAAATCCCTGTGATTGGAGAAATCTTACACAAGGCTGCCATGGCCCGCTTTGCCCGCACCCTGGCGA
CCACCTTTGCAGCTGGTGTTCCCCTGATTGATGGCCTGGAGTCTGCGGCAGGTGCTTCTGGTAATGCCGTTTACCGTAAA
GCACTTTTGCGAATTCGCACCGAAGTGATGGCCGGTATGCAAATGAACGTGGCCATGCGTACCGTTAACCTCTTCCCGGA
TATGCTCATTCAAATGGTGATGATTGGTGAAGAGTCAGGTTCGCTGGATAATATGCTCAACAAAATTGCCAACATCTATG
AGATGCAGGTGGATGATGCCGTTGATGGCCTCTCGAGCCTGATTGAACCCATTATGATGGTGGTTATCGGTACCCTTGTC
GGCGGCCTGATTGTGGGTATGTATCTGCCTATCTTCCAGATGGGTAATGTGGTTGGCTAA

Domains

Predicted by InterproScan.

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

(85-207)

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

(288-410)


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 Pseudomonas stutzeri DSM 10701

55.808

94.511

0.527
  pilC Acinetobacter baylyi ADP1

51.637

94.749

0.489
  pilC Legionella pneumophila strain ERS1305867

49.752

96.42

0.48
  pilC Acinetobacter baumannii D1279779

50.251

94.988

0.477
  pilC Vibrio cholerae strain A1552

45.61

97.852

0.446
  pilC Vibrio campbellii strain DS40M4

43.584

98.568

0.43
  pilG Neisseria meningitidis 44/76-A

42.643

95.704

0.408
  pilG Neisseria gonorrhoeae MS11

42.643

95.704

0.408

Multiple sequence alignment