Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   ACMCNJ_RS05145 Genome accession   NZ_AP038788
Coordinates   1100283..1100984 (-) Length   233 a.a.
NCBI ID   WP_226691636.1    Uniprot ID   -
Organism   Rodentibacter sp. THUN1656     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1095283..1105984
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ACMCNJ_RS05115 (THUN1656_09660) galE 1095778..1096794 (-) 1017 WP_226691640.1 UDP-glucose 4-epimerase GalE -
  ACMCNJ_RS05120 (THUN1656_09670) - 1096966..1097496 (-) 531 WP_005695476.1 inorganic diphosphatase -
  ACMCNJ_RS05125 (THUN1656_09680) - 1097771..1099087 (+) 1317 WP_226691639.1 NCS2 family permease -
  ACMCNJ_RS05130 (THUN1656_09690) - 1099186..1099467 (-) 282 WP_226691638.1 GNAT family N-acetyltransferase -
  ACMCNJ_RS05135 (THUN1656_09700) yacG 1099464..1099670 (-) 207 WP_226691637.1 DNA gyrase inhibitor YacG -
  ACMCNJ_RS05140 (THUN1656_09710) coaE 1099663..1100283 (-) 621 WP_226692923.1 dephospho-CoA kinase -
  ACMCNJ_RS05145 (THUN1656_09720) pilD 1100283..1100984 (-) 702 WP_226691636.1 prepilin peptidase Machinery gene
  ACMCNJ_RS05150 (THUN1656_09730) pilC 1100981..1102201 (-) 1221 WP_226691635.1 type II secretion system F family protein Machinery gene
  ACMCNJ_RS05155 (THUN1656_09740) pilB 1102203..1103582 (-) 1380 WP_226691634.1 GspE/PulE family protein Machinery gene
  ACMCNJ_RS05160 (THUN1656_09750) pilA 1103579..1104016 (-) 438 WP_226691633.1 prepilin peptidase-dependent pilin Machinery gene
  ACMCNJ_RS05165 (THUN1656_09760) ampD 1104132..1104695 (+) 564 WP_226691632.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  ACMCNJ_RS05170 (THUN1656_09770) rppH 1105212..1105796 (+) 585 WP_226691631.1 RNA pyrophosphohydrolase -

Sequence

Protein


Download         Length: 233 a.a.        Molecular weight: 26646.85 Da        Isoelectric Point: 8.4283

>NTDB_id=111214 ACMCNJ_RS05145 WP_226691636.1 1100283..1100984(-) (pilD) [Rodentibacter sp. THUN1656]
MILFASFWLGGIFGVALWLYISGFITRLQNDIYNNYIELFPQNLPSFQPHFAEVQQKKSGHILGYFLITGLILTLITAIT
ENPLFALWLGCTIILLWAIAYLDWQYQLISPTPCLWLLALGLFGATQSLSPLTLIQSLQSAVIFFVVFYGIYQLAKWYYQ
KEAFGRGDYWLALGIGSYLPTEHLPLFLLIACALGILFAILFKRKERFLPFAPFLCVSILVVFTINLTMLYKK

Nucleotide


Download         Length: 702 bp        

>NTDB_id=111214 ACMCNJ_RS05145 WP_226691636.1 1100283..1100984(-) (pilD) [Rodentibacter sp. THUN1656]
ATGATCCTATTTGCTTCCTTTTGGTTAGGTGGGATTTTCGGTGTAGCCTTATGGCTTTACATTTCGGGCTTTATCACAAG
ATTACAAAACGATATTTACAATAATTACATCGAACTATTTCCTCAAAATCTTCCCTCATTTCAACCGCACTTTGCGGAAG
TTCAACAAAAAAAGAGCGGTCATATTTTAGGCTATTTTCTTATCACAGGATTAATACTCACCCTAATAACCGCAATAACC
GAAAATCCTCTTTTCGCTTTATGGCTTGGTTGCACCATTATTCTATTGTGGGCGATTGCCTACCTTGATTGGCAGTATCA
ACTCATTTCCCCCACTCCTTGTTTATGGTTACTTGCTCTTGGTTTATTCGGTGCAACACAATCTTTATCTCCTTTAACCC
TAATACAAAGTCTACAAAGTGCGGTCATTTTTTTCGTTGTTTTTTATGGCATTTATCAACTTGCCAAATGGTACTACCAA
AAAGAAGCCTTCGGACGAGGGGATTATTGGTTAGCTCTTGGTATCGGCAGTTACTTACCGACAGAGCATCTTCCTCTATT
TCTTTTGATTGCCTGCGCATTAGGTATTTTATTTGCAATTCTTTTCAAAAGAAAAGAGCGTTTTTTACCCTTCGCACCTT
TTTTGTGTGTCTCGATTCTTGTAGTATTTACAATCAATTTAACAATGCTTTATAAGAAATGA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(93-200)


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 Haemophilus influenzae Rd KW20

57.522

96.996

0.558
  pilD Haemophilus influenzae 86-028NP

56.637

96.996

0.549

Multiple sequence alignment