Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   UNDKW_RS04135 Genome accession   NZ_AP018439
Coordinates   917432..918256 (-) Length   274 a.a.
NCBI ID   WP_370529082.1    Uniprot ID   -
Organism   Undibacterium sp. KW1     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 912432..923256
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  UNDKW_RS04110 (UNDKW_0827) - 913491..914054 (+) 564 WP_162057693.1 hypothetical protein -
  UNDKW_RS04115 (UNDKW_0828) - 914098..915654 (+) 1557 WP_162057694.1 sigma-54-dependent transcriptional regulator -
  UNDKW_RS04120 (UNDKW_0829) - 915685..915864 (-) 180 WP_162039882.1 DNA gyrase inhibitor YacG -
  UNDKW_RS04125 (UNDKW_0830) zapD 915867..916622 (-) 756 WP_162039883.1 cell division protein ZapD -
  UNDKW_RS04130 coaE 916797..917423 (-) 627 WP_162057695.1 dephospho-CoA kinase -
  UNDKW_RS04135 (UNDKW_0831) pilD 917432..918256 (-) 825 WP_370529082.1 A24 family peptidase Machinery gene
  UNDKW_RS04140 (UNDKW_0832) pilC 918292..919527 (-) 1236 WP_162057697.1 type II secretion system F family protein Machinery gene
  UNDKW_RS04145 (UNDKW_0833) pilF 919543..921270 (-) 1728 WP_162057698.1 type IV-A pilus assembly ATPase PilB Machinery gene
  UNDKW_RS04150 (UNDKW_0834) ispB 921595..922524 (-) 930 WP_162061753.1 octaprenyl diphosphate synthase -
  UNDKW_RS04155 (UNDKW_0835) rplU 922839..923150 (+) 312 WP_162020347.1 50S ribosomal protein L21 -

Sequence

Protein


Download         Length: 274 a.a.        Molecular weight: 30322.11 Da        Isoelectric Point: 8.1229

>NTDB_id=69602 UNDKW_RS04135 WP_370529082.1 917432..918256(-) (pilD) [Undibacterium sp. KW1]
MSTIAFGLLGLLIGSFLNVVIYRLPKMYLREVDNFVAEQRQEPLPHQDRFDLMLPRSACPHCGHKIRELENIPIISYLVI
GGKCTGCKAKISVRYPLIEALTGLLTAGMIWHFGSGVVGMSAVVFVWFLIAMTFIDIDHKLLLDDLTLSLMWLGLLLNAY
GGFATLKDAVLGAAIGYMSLWSINWIYEKLRGRPGFGYGDLKLLAAFGAWMGWSMLPVTILLSTLVGSVIGIGQIISKKF
GWETEIPFGPYLTGAGLIALIWGRQIVDFYLSTL

Nucleotide


Download         Length: 825 bp        

>NTDB_id=69602 UNDKW_RS04135 WP_370529082.1 917432..918256(-) (pilD) [Undibacterium sp. KW1]
TTGTCCACAATAGCCTTCGGGCTATTGGGGCTACTGATAGGCAGTTTTTTGAACGTGGTGATTTATCGCCTGCCTAAAAT
GTATCTGCGTGAAGTGGATAATTTTGTCGCAGAGCAAAGGCAGGAGCCATTGCCGCACCAGGACAGGTTTGACCTGATGC
TGCCTCGCTCTGCCTGCCCGCATTGCGGGCACAAGATCAGGGAACTGGAAAATATACCCATCATCAGCTACCTCGTCATT
GGTGGCAAATGCACGGGCTGCAAAGCAAAAATTTCCGTACGCTATCCCCTGATAGAAGCCCTGACGGGCCTGCTCACTGC
TGGCATGATCTGGCATTTTGGCAGCGGCGTGGTGGGCATGAGTGCGGTGGTCTTTGTCTGGTTTCTGATCGCCATGACCT
TCATCGACATAGACCATAAGTTGCTGCTGGATGACCTGACCCTGAGTTTGATGTGGCTGGGCCTGCTGCTGAATGCCTAC
GGCGGCTTCGCTACTTTGAAAGACGCAGTACTGGGAGCCGCCATTGGCTACATGTCACTATGGTCAATCAACTGGATTTA
TGAAAAACTGCGTGGCAGACCTGGCTTTGGCTACGGTGATCTCAAGTTACTGGCAGCCTTTGGTGCCTGGATGGGCTGGA
GCATGTTGCCAGTTACTATTTTATTATCGACCCTGGTAGGCTCGGTCATAGGTATAGGACAAATTATCTCCAAGAAATTT
GGCTGGGAAACAGAAATACCCTTTGGCCCCTACCTGACTGGCGCAGGTTTGATAGCACTGATCTGGGGCCGACAAATTGT
CGATTTCTATCTGAGCACCTTGTGA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(8-113)

Type IV leader peptidase family (Peptidase_A24)

(124-232)


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 Vibrio cholerae strain A1552

50.741

98.54

0.5
  pilD Vibrio campbellii strain DS40M4

47.426

99.27

0.471
  pilD Neisseria gonorrhoeae MS11

48.031

92.701

0.445
  pilD Acinetobacter baumannii D1279779

44.074

98.54

0.434
  pilD Acinetobacter nosocomialis M2

43.333

98.54

0.427

Multiple sequence alignment