Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   L0Z67_RS02875 Genome accession   NZ_CP090667
Coordinates   605420..606316 (-) Length   298 a.a.
NCBI ID   WP_276574952.1    Uniprot ID   -
Organism   Pseudoalteromonas sp. PB2-1     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 600420..611316
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  L0Z67_RS02850 - 601213..601902 (-) 690 WP_062570060.1 response regulator transcription factor -
  L0Z67_RS02855 - 602074..602604 (+) 531 WP_062570061.1 Spy/CpxP family protein refolding chaperone -
  L0Z67_RS02860 yacG 602654..602887 (-) 234 WP_062570062.1 DNA gyrase inhibitor YacG -
  L0Z67_RS02865 pilB 602961..604637 (-) 1677 WP_062570063.1 type IV-A pilus assembly ATPase PilB Machinery gene
  L0Z67_RS02870 coaE 604812..605417 (-) 606 WP_237114808.1 dephospho-CoA kinase -
  L0Z67_RS02875 pilD 605420..606316 (-) 897 WP_276574952.1 A24 family peptidase Machinery gene
  L0Z67_RS02880 pilC 606695..607924 (-) 1230 WP_237114809.1 type II secretion system F family protein Machinery gene
  L0Z67_RS02885 - 608154..608573 (-) 420 WP_237114810.1 pilin -
  L0Z67_RS02890 nadC 609067..609915 (-) 849 WP_237114811.1 carboxylating nicotinate-nucleotide diphosphorylase -
  L0Z67_RS02895 ampD 610067..610609 (+) 543 WP_237114812.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -

Sequence

Protein


Download         Length: 298 a.a.        Molecular weight: 33051.34 Da        Isoelectric Point: 5.7433

>NTDB_id=644278 L0Z67_RS02875 WP_276574952.1 605420..606316(-) (pilD) [Pseudoalteromonas sp. PB2-1]
MQNFFLDIATVMQSQPWFYFLTVGLVSLCIGSFLNVVIYRLPLMMKREWQSECRVLLADELPSQNTTEQAPFNLVTPNST
CPKCKSPIKVWQNIPVISWLLLKGRCDSCKTAISVRYPIIEMLTAGLSLVVASLFGATELALLYIFITWVLIALTFIDID
HMLLPDQLTLPLVWLTLIAAVMDITIAPSDAIIGAAVGYLSLWSVYWLFKLATGKEGMGYGDFKLLAVFGGLLGWQSILT
IVLLSSVVGAIIGIAQIILQGKDKTTPIPFGPYLAIAGWVTLLWGEQIQAYYFSYLGH

Nucleotide


Download         Length: 897 bp        

>NTDB_id=644278 L0Z67_RS02875 WP_276574952.1 605420..606316(-) (pilD) [Pseudoalteromonas sp. PB2-1]
ATGCAAAATTTCTTTCTTGATATTGCCACTGTAATGCAAAGCCAACCGTGGTTTTATTTTTTAACTGTTGGGCTGGTTAG
CCTGTGTATTGGCAGTTTTTTAAATGTGGTAATTTATAGGTTACCACTGATGATGAAACGAGAATGGCAATCGGAATGCC
GTGTTTTATTAGCTGATGAATTACCATCTCAAAATACCACAGAGCAGGCACCGTTTAATTTAGTTACACCAAATTCGACC
TGTCCAAAATGCAAATCACCTATTAAGGTGTGGCAGAATATTCCTGTTATTAGTTGGTTATTACTTAAAGGTCGCTGTGA
CAGTTGTAAAACAGCGATTTCTGTACGCTACCCAATCATAGAAATGCTCACTGCAGGGTTAAGCCTTGTGGTGGCATCAC
TCTTTGGTGCGACAGAGCTTGCCTTACTTTATATTTTCATTACTTGGGTACTTATTGCTTTAACATTTATTGATATCGAT
CATATGTTACTCCCCGACCAACTCACTCTTCCACTGGTGTGGCTCACCCTCATTGCAGCAGTCATGGATATCACCATTGC
CCCTTCTGACGCCATTATTGGCGCAGCCGTTGGTTACTTGAGTTTGTGGAGTGTTTATTGGTTATTTAAGCTAGCAACCG
GTAAAGAAGGTATGGGATATGGTGACTTTAAGCTTTTAGCTGTATTTGGTGGCTTACTAGGTTGGCAATCAATCTTAACC
ATTGTATTGCTTTCAAGTGTGGTGGGCGCAATCATTGGTATTGCTCAAATTATTCTGCAAGGTAAAGATAAAACGACCCC
GATTCCATTTGGCCCTTACCTTGCGATTGCTGGCTGGGTTACTTTACTGTGGGGTGAACAAATACAAGCTTACTACTTTA
GCTATTTAGGTCACTAA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(26-133)

Type IV leader peptidase family (Peptidase_A24)

(146-254)


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

54.804

94.295

0.517
  pilD Vibrio campbellii strain DS40M4

53.147

95.973

0.51
  pilD Acinetobacter baumannii D1279779

54.545

92.282

0.503
  pilD Acinetobacter nosocomialis M2

54.182

92.282

0.5
  pilD Neisseria gonorrhoeae MS11

44.922

85.906

0.386