Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   CTT31_RS03985 Genome accession   NZ_CP024625
Coordinates   947143..948021 (-) Length   292 a.a.
NCBI ID   WP_260492010.1    Uniprot ID   -
Organism   Pseudoalteromonas maricaloris strain SCSIO 43202     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 942143..953021
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  CTT31_RS03960 (CTT31_03960) - 942290..942928 (+) 639 WP_045989837.1 alpha/beta family hydrolase -
  CTT31_RS03965 (CTT31_03965) - 942921..943289 (+) 369 WP_130126782.1 DUF423 domain-containing protein -
  CTT31_RS03970 (CTT31_03970) rlmM 943303..944388 (+) 1086 WP_010607344.1 23S rRNA (cytidine(2498)-2'-O)-methyltransferase RlmM -
  CTT31_RS03975 (CTT31_03975) pilB 944732..946408 (-) 1677 WP_130164712.1 type IV-A pilus assembly ATPase PilB Machinery gene
  CTT31_RS03980 (CTT31_03980) coaE 946504..947133 (-) 630 WP_260492009.1 dephospho-CoA kinase -
  CTT31_RS03985 (CTT31_03985) pilD 947143..948021 (-) 879 WP_260492010.1 prepilin peptidase Machinery gene
  CTT31_RS03990 (CTT31_03990) pilC 948145..949380 (-) 1236 WP_260492011.1 type II secretion system F family protein Machinery gene
  CTT31_RS03995 (CTT31_03995) - 949435..949872 (-) 438 WP_260492012.1 pilin -
  CTT31_RS04000 (CTT31_04005) nadC 950805..951647 (-) 843 WP_260492397.1 carboxylating nicotinate-nucleotide diphosphorylase -

Sequence

Protein


Download         Length: 292 a.a.        Molecular weight: 32552.88 Da        Isoelectric Point: 6.2163

>NTDB_id=254482 CTT31_RS03985 WP_260492010.1 947143..948021(-) (pilD) [Pseudoalteromonas maricaloris strain SCSIO 43202]
MQDIINLMQTQLWYWLLTVGLVSLCIGSFLNVVILRLPKMMKQNWQSECRVLLADELPKQTAEAPVFNLIKPNSHCPSCK
TPIKAWQNIPLISWLLLKGKCNHCDASISVRYPLVELTTALLSTWVAWHFGATLEATLYILITWVLVALTVIDIDEMLLP
DQLTLPTLWLVLVASCFGVGIEPNDAIIGAAIGYLSLWSVYWLFKLLTGKEGMGYGDFKLLAIFGALMGWQAILTIVLLS
SLVGAIIGSIQLSVQGRDKATPIPFGPYLAIAGWITLMYGEQLQLWYVNLIM

Nucleotide


Download         Length: 879 bp        

>NTDB_id=254482 CTT31_RS03985 WP_260492010.1 947143..948021(-) (pilD) [Pseudoalteromonas maricaloris strain SCSIO 43202]
ATGCAAGATATTATCAACTTGATGCAAACCCAGTTATGGTATTGGTTACTCACCGTCGGACTTGTAAGTCTTTGCATCGG
TAGCTTTCTCAATGTGGTTATTCTTCGCTTACCTAAAATGATGAAGCAGAACTGGCAGTCAGAATGTCGCGTGTTGCTCG
CTGACGAGCTCCCAAAACAAACCGCTGAAGCACCCGTATTTAATTTAATTAAACCAAATTCTCATTGCCCGAGCTGCAAA
ACACCGATTAAAGCGTGGCAAAACATTCCACTGATCAGCTGGCTATTATTAAAAGGCAAATGCAACCACTGCGACGCGTC
AATCTCTGTACGCTATCCTTTGGTAGAGCTAACAACCGCCCTACTCTCCACATGGGTTGCGTGGCATTTTGGTGCCACTT
TAGAAGCTACTCTGTACATTTTGATTACTTGGGTGTTAGTCGCACTTACGGTTATCGATATCGACGAAATGTTGCTGCCC
GATCAACTGACACTACCAACCTTATGGTTAGTACTGGTTGCCAGTTGTTTTGGTGTAGGCATCGAGCCCAATGATGCCAT
CATTGGTGCGGCCATAGGTTATTTGAGTTTATGGAGTGTGTATTGGCTCTTTAAATTACTCACAGGTAAAGAAGGTATGG
GCTATGGCGACTTTAAACTGCTAGCCATCTTTGGTGCATTGATGGGCTGGCAAGCAATCTTAACCATAGTGCTACTTTCA
AGCCTGGTCGGCGCAATCATTGGTAGCATCCAATTAAGTGTTCAAGGCAGAGATAAAGCCACCCCAATCCCATTTGGCCC
TTACTTAGCCATTGCAGGCTGGATCACCTTAATGTACGGCGAGCAGCTGCAGCTGTGGTACGTAAACTTAATAATGTAA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(22-130)

Type IV leader peptidase family (Peptidase_A24)

(141-248)


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
  pilD Acinetobacter baumannii D1279779

53.633

98.973

0.531
  pilD Acinetobacter nosocomialis M2

53.633

98.973

0.531
  pilD Vibrio cholerae strain A1552

52.5

95.89

0.503
  pilD Vibrio campbellii strain DS40M4

50.515

99.658

0.503
  pilD Neisseria gonorrhoeae MS11

43.561

90.411

0.394

Multiple sequence alignment