Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   CLAM6_RS03835 Genome accession   NZ_AP021868
Coordinates   893738..894598 (-) Length   286 a.a.
NCBI ID   WP_172978616.1    Uniprot ID   A0A5K7Y1W9
Organism   Cobetia sp. AM6     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 888738..899598
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  CLAM6_RS03815 (CLAM6_07400) argJ 890437..891660 (+) 1224 WP_153635186.1 bifunctional glutamate N-acetyltransferase/amino-acid acetyltransferase ArgJ -
  CLAM6_RS03820 (CLAM6_07410) - 891768..892721 (+) 954 WP_043332483.1 Nudix family hydrolase -
  CLAM6_RS03825 (CLAM6_07420) yacG 892853..893098 (-) 246 WP_153635187.1 DNA gyrase inhibitor YacG -
  CLAM6_RS03830 (CLAM6_07430) coaE 893091..893741 (-) 651 WP_153635188.1 dephospho-CoA kinase -
  CLAM6_RS03835 (CLAM6_07440) pilD 893738..894598 (-) 861 WP_172978616.1 A24 family peptidase Machinery gene
  CLAM6_RS03840 (CLAM6_07450) pilC 894680..895918 (-) 1239 WP_153635189.1 type II secretion system F family protein Machinery gene
  CLAM6_RS03845 (CLAM6_07460) pilB 896093..897829 (-) 1737 WP_153635190.1 type IV-A pilus assembly ATPase PilB Machinery gene
  CLAM6_RS03850 (CLAM6_07470) - 898401..898865 (+) 465 WP_153635191.1 pilin -
  CLAM6_RS03855 (CLAM6_07480) - 898923..899225 (-) 303 WP_043332474.1 hypothetical protein -

Sequence

Protein


Download         Length: 286 a.a.        Molecular weight: 31184.49 Da        Isoelectric Point: 8.2191

>NTDB_id=75070 CLAM6_RS03835 WP_172978616.1 893738..894598(-) (pilD) [Cobetia sp. AM6]
MESLAQLSPTLQACLAGIFGLLVGSFLNVVITRLPVMMMRQWRAEAREALELEAEDTPRFNLLVPASRCPGCDMPIKWHD
NLPILGWLKRRGRCASCNTRISAQYPLVELAGGALGASIALIYGLEVQSLWIFGACLTLLVLSVIDFRTQLLPDAITLPL
LWAGLAYQLLFQPLMLPSAVIGAMAGYLVLWSFYWLFKLVTGKEGMGYGDFKLLAALGAWLGWQWLPLLLILSAGLGAVL
GILLQLLVPRLRGAPMPFGPYLAVAGWIALLFGTPLMSLYLSVIGA

Nucleotide


Download         Length: 861 bp        

>NTDB_id=75070 CLAM6_RS03835 WP_172978616.1 893738..894598(-) (pilD) [Cobetia sp. AM6]
GTGGAATCACTCGCCCAACTTTCCCCCACACTGCAAGCCTGCCTAGCCGGTATATTCGGTTTGCTGGTTGGCAGCTTTCT
GAATGTCGTCATCACTCGCCTGCCCGTGATGATGATGCGCCAATGGCGCGCCGAGGCCCGCGAGGCATTGGAGCTGGAAG
CCGAAGACACACCGCGCTTCAATCTGCTGGTGCCCGCATCACGCTGCCCGGGCTGTGACATGCCGATCAAGTGGCACGAT
AACCTCCCCATCCTCGGTTGGCTGAAACGCCGTGGCCGCTGCGCCAGCTGCAATACGCGTATCAGCGCGCAGTACCCGCT
GGTGGAACTGGCCGGTGGCGCGCTCGGCGCGTCCATCGCGTTGATCTACGGCCTGGAGGTACAGAGCCTGTGGATCTTCG
GTGCCTGTCTGACCCTGCTGGTGCTGTCGGTCATCGACTTCCGCACCCAGCTGCTGCCAGATGCCATCACCCTGCCACTG
CTGTGGGCAGGCCTCGCCTATCAGTTGCTGTTCCAGCCTCTGATGCTGCCCAGTGCCGTGATCGGCGCGATGGCGGGCTA
TCTGGTTCTGTGGAGCTTCTACTGGCTATTCAAGCTGGTCACCGGCAAGGAAGGCATGGGCTACGGTGACTTCAAGCTGC
TCGCCGCTCTCGGTGCCTGGCTCGGCTGGCAGTGGTTGCCGCTGTTGCTGATTCTGTCGGCTGGTCTCGGGGCCGTTCTG
GGCATCCTGCTGCAACTGCTGGTACCGCGTCTGCGCGGCGCCCCGATGCCCTTCGGACCTTACCTGGCGGTTGCCGGCTG
GATCGCTCTGCTGTTTGGTACGCCCTTGATGAGCCTCTACCTGAGCGTGATCGGCGCATGA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(18-121)

Type IV leader peptidase family (Peptidase_A24)

(136-242)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB A0A5K7Y1W9

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
  pilD Vibrio cholerae strain A1552

51.916

100

0.521
  pilD Neisseria gonorrhoeae MS11

48.54

95.804

0.465
  pilD Vibrio campbellii strain DS40M4

46.809

98.601

0.462
  pilD Acinetobacter baumannii D1279779

47.744

93.007

0.444
  pilD Acinetobacter nosocomialis M2

47.368

93.007

0.441

Multiple sequence alignment