Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   M3M30_RS00090 Genome accession   NZ_CP097161
Coordinates   22737..23606 (+) Length   289 a.a.
NCBI ID   WP_218801400.1    Uniprot ID   -
Organism   Methylococcus capsulatus strain MIR     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 17737..28606
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  M3M30_RS00080 (M3M30_00080) pilB 19779..21494 (+) 1716 WP_010961339.1 type IV-A pilus assembly ATPase PilB Machinery gene
  M3M30_RS00085 (M3M30_00085) pilC 21499..22713 (+) 1215 WP_010961338.1 type II secretion system F family protein Machinery gene
  M3M30_RS00090 (M3M30_00090) pilD 22737..23606 (+) 870 WP_218801400.1 A24 family peptidase Machinery gene
  M3M30_RS00095 (M3M30_00095) coaE 23614..24210 (+) 597 WP_218800346.1 dephospho-CoA kinase -
  M3M30_RS00100 (M3M30_00100) zapD 24366..25079 (+) 714 WP_017366377.1 cell division protein ZapD -
  M3M30_RS00105 (M3M30_00105) yacG 25093..25308 (+) 216 WP_017366376.1 DNA gyrase inhibitor YacG -
  M3M30_RS00110 (M3M30_00110) cysG 25321..26745 (-) 1425 WP_010961332.1 siroheme synthase CysG -
  M3M30_RS00115 (M3M30_00115) - 26794..27024 (+) 231 WP_010961331.1 sulfurtransferase TusA family protein -
  M3M30_RS00120 (M3M30_00120) - 27033..27695 (-) 663 WP_010961330.1 HAD family hydrolase -
  M3M30_RS00125 (M3M30_00125) - 27883..28458 (+) 576 WP_010961329.1 RNA pyrophosphohydrolase -

Sequence

Protein


Download         Length: 289 a.a.        Molecular weight: 31141.76 Da        Isoelectric Point: 6.9138

>NTDB_id=687508 M3M30_RS00090 WP_218801400.1 22737..23606(+) (pilD) [Methylococcus capsulatus strain MIR]
MMLLPTGPAGVALCGSFGLIIGSFLNVVIHRLPLMMEQAWRRECGELLEPGTGRPAGEAEYNLWRPGSQCPHCQAPVRFW
QNVPVFSYLWLRGRCAACGTAISWRYPLVETLTGVLFAMVAWHFGASWQALAACALTAGLIALAFIDLDHLVLPDDITLP
LLWLGLLLNAQGLFCSLETALYGAVGGYLLLWTVHRGFLLLTGREGMGFGDFKLLAMLGAWMGWPMLPVIILFSSISGAV
IGSVALAVGGKGRDTPIPFGPFLAAGGWIALLWGNALNDAYWRWAAPGG

Nucleotide


Download         Length: 870 bp        

>NTDB_id=687508 M3M30_RS00090 WP_218801400.1 22737..23606(+) (pilD) [Methylococcus capsulatus strain MIR]
ATGATGTTGTTGCCGACCGGGCCGGCGGGGGTTGCCCTCTGCGGATCGTTCGGACTGATCATCGGGAGTTTTCTCAACGT
GGTCATCCACCGCCTGCCGCTCATGATGGAGCAGGCCTGGCGCAGGGAGTGCGGGGAGTTGCTCGAGCCCGGCACCGGAC
GGCCGGCGGGGGAGGCCGAATACAACCTGTGGAGACCCGGATCGCAGTGTCCGCACTGCCAGGCGCCGGTCCGGTTCTGG
CAGAATGTCCCCGTGTTCAGCTATCTTTGGCTGCGTGGCCGTTGTGCCGCTTGCGGCACGGCGATTTCCTGGCGTTATCC
TTTGGTCGAAACGCTCACGGGGGTGCTGTTCGCAATGGTGGCTTGGCATTTCGGCGCGTCCTGGCAGGCGCTGGCGGCGT
GCGCCCTAACGGCTGGCCTGATCGCCCTGGCTTTCATCGACCTGGATCACTTGGTACTGCCGGACGACATCACGCTTCCC
CTGTTGTGGCTGGGGCTGCTGCTGAACGCCCAAGGCCTCTTCTGCAGTCTGGAGACGGCGCTGTACGGTGCCGTTGGAGG
CTATCTCCTGCTATGGACGGTGCATCGCGGCTTTCTGCTCCTGACCGGCCGGGAGGGCATGGGGTTCGGCGACTTCAAGC
TACTCGCCATGCTCGGTGCCTGGATGGGTTGGCCGATGCTGCCGGTCATCATCCTGTTCTCATCCATCTCGGGTGCGGTG
ATCGGTTCGGTTGCGCTGGCAGTCGGCGGCAAGGGGAGGGACACGCCGATTCCCTTCGGGCCGTTTCTGGCGGCGGGCGG
CTGGATCGCCCTGCTGTGGGGAAATGCGCTCAACGACGCCTATTGGCGCTGGGCCGCTCCTGGAGGCTAG

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(17-124)

Type IV leader peptidase family (Peptidase_A24)

(135-242)


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 Neisseria gonorrhoeae MS11

50

96.194

0.481
  pilD Vibrio cholerae strain A1552

50.735

94.118

0.478
  pilD Vibrio campbellii strain DS40M4

47.985

94.464

0.453
  pilD Acinetobacter baumannii D1279779

49.057

91.696

0.45
  pilD Acinetobacter nosocomialis M2

48.302

91.696

0.443