Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   ACLMBQ_RS09540 Genome accession   NZ_OY829390
Coordinates   2076402..2077277 (+) Length   291 a.a.
NCBI ID   WP_322003701.1    Uniprot ID   -
Organism   MAG: Marinobacter alexandrii isolate 78648b50-2abc-418f-b92f-8dc6f39ea282     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2071402..2082277
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ACLMBQ_RS09525 (U5725_RS09530) - 2072546..2073001 (-) 456 WP_322003698.1 pilin -
  ACLMBQ_RS09530 (U5725_RS09535) pilB 2073396..2075108 (+) 1713 WP_138439338.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ACLMBQ_RS09535 (U5725_RS09540) pilC 2075111..2076334 (+) 1224 WP_322003700.1 type II secretion system F family protein Machinery gene
  ACLMBQ_RS09540 (U5725_RS09545) pilD 2076402..2077277 (+) 876 WP_322003701.1 A24 family peptidase Machinery gene
  ACLMBQ_RS09545 (U5725_RS09550) coaE 2077281..2077880 (+) 600 WP_322003702.1 dephospho-CoA kinase -
  ACLMBQ_RS09550 (U5725_RS09555) - 2077873..2078967 (+) 1095 WP_322003703.1 hypothetical protein -
  ACLMBQ_RS09555 (U5725_RS09560) tsaA 2078970..2079713 (+) 744 WP_138439333.1 tRNA (N6-threonylcarbamoyladenosine(37)-N6)-methyltransferase TrmO -
  ACLMBQ_RS09560 (U5725_RS09565) - 2079758..2082109 (+) 2352 WP_322003705.1 response regulator -

Sequence

Protein


Download         Length: 291 a.a.        Molecular weight: 32162.31 Da        Isoelectric Point: 6.4625

>NTDB_id=1162080 ACLMBQ_RS09540 WP_322003701.1 2076402..2077277(+) (pilD) [MAG: Marinobacter alexandrii isolate 78648b50-2abc-418f-b92f-8dc6f39ea282]
MLTLDTLLATPWLLFLSITLLSLCIGSFLNVVILRLPKMMHQDWRCQCEEFLELPENQKKPEERITLSKPASTCPSCGHT
IRAWENIPVVSYLVLGGKCASCKTGISPRYPIIEAITTLLSIATIALLGPTEATLWSLLLVWSLVALTVIDFDTQLLPDS
ITLPLLWLGLVLNYFGVLTDFTSAFWGAVWGYLSLWSVYWLFKLVTGKEGMGHGDFKLLAALGAWLGWQLLPAVILLSSV
VGAVVGISLMIFKKHGREVPIPFGPYLAAAGLLCLWFGTEIQSFWFGFLGV

Nucleotide


Download         Length: 876 bp        

>NTDB_id=1162080 ACLMBQ_RS09540 WP_322003701.1 2076402..2077277(+) (pilD) [MAG: Marinobacter alexandrii isolate 78648b50-2abc-418f-b92f-8dc6f39ea282]
ATGCTCACACTAGACACACTTTTGGCGACGCCCTGGCTACTATTCCTGTCTATCACCCTGCTATCGCTCTGTATTGGCAG
CTTTCTCAATGTGGTCATCCTCCGCCTGCCGAAGATGATGCATCAGGACTGGCGCTGTCAGTGCGAGGAATTCTTGGAAC
TCCCTGAGAACCAGAAAAAACCGGAAGAACGCATCACCCTGTCCAAACCGGCTTCGACCTGCCCCTCCTGTGGCCACACC
ATTCGGGCCTGGGAGAACATTCCGGTGGTTAGTTATCTGGTCCTCGGCGGCAAGTGCGCCTCCTGCAAGACGGGCATCTC
TCCCCGCTACCCGATCATTGAAGCGATTACCACTCTACTCTCCATTGCCACCATCGCTCTGCTCGGGCCCACCGAAGCCA
CACTGTGGTCGTTGTTGTTGGTGTGGTCCCTGGTGGCATTGACGGTGATCGATTTCGACACCCAGCTGCTGCCGGACAGC
ATTACCCTACCCCTGCTTTGGTTGGGCCTGGTGCTGAATTACTTTGGTGTGCTGACCGACTTCACCAGTGCTTTCTGGGG
CGCTGTGTGGGGCTACCTCTCCCTGTGGTCAGTTTACTGGTTATTCAAACTGGTGACCGGCAAGGAAGGCATGGGCCACG
GTGACTTCAAGCTACTGGCCGCGCTGGGCGCTTGGCTGGGCTGGCAGCTACTGCCGGCAGTGATTCTGCTGTCGTCCGTG
GTCGGCGCGGTGGTGGGCATCAGCCTGATGATTTTCAAGAAACACGGCCGCGAGGTGCCGATTCCTTTCGGGCCATACCT
GGCGGCTGCAGGCCTGCTGTGCCTCTGGTTCGGAACCGAGATTCAGAGTTTCTGGTTTGGCTTTCTGGGTGTCTAA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(138-247)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(20-125)


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

53.65

94.158

0.505
  pilD Vibrio cholerae strain A1552

52.5

96.22

0.505
  pilD Acinetobacter nosocomialis M2

52.92

94.158

0.498
  pilD Vibrio campbellii strain DS40M4

49.474

97.938

0.485
  pilD Neisseria gonorrhoeae MS11

50.593

86.942

0.44

Multiple sequence alignment