Detailed information    

experimental Experimentally validated

Overview

Name   cdx   Type   Unclear
Locus tag   VP_RS19160 Genome accession   NC_004605
Coordinates   865637..868801 (+) Length   1054 a.a.
NCBI ID   WP_005479129.1    Uniprot ID   Q87HX4
Organism   Vibrio parahaemolyticus RIMD 2210633     
Function   require for natural transformation   
Unclear

Function

VPA0055 (ChiA2), VP0619 (ChiB), and VPA0832 (Cdx) were essential for the robust growth and high transformation frequency on chitin.


Genomic Context

Location: 860637..873801
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VP_RS19140 (VPA0827) - 860808..862076 (+) 1269 WP_005479108.1 sigma-54 dependent transcriptional regulator -
  VP_RS19145 (VPA0828) - 862168..862824 (-) 657 WP_005479123.1 lysoplasmalogenase -
  VP_RS19150 (VPA0829) - 863125..864273 (-) 1149 WP_005479145.1 iron-containing alcohol dehydrogenase -
  VP_RS19155 (VPA0830) - 864478..865359 (+) 882 WP_005479133.1 AraC family transcriptional regulator -
  VP_RS19160 (VPA0832) cdx 865637..868801 (+) 3165 WP_005479129.1 glycosyl hydrolase family 18 protein Unclear
  VP_RS19165 (VPA0833) glgC 868910..870124 (-) 1215 WP_005454156.1 glucose-1-phosphate adenylyltransferase -
  VP_RS19170 (VPA0834) - 870481..872229 (-) 1749 WP_005479111.1 formate--tetrahydrofolate ligase -
  VP_RS19175 (VPA0835) - 872467..873771 (-) 1305 WP_005454049.1 inosine/guanosine kinase -

Sequence

Protein


Download         Length: 1054 a.a.        Molecular weight: 111857.48 Da        Isoelectric Point: 4.4028

>NTDB_id=1300 VP_RS19160 WP_005479129.1 865637..868801(+) (cdx) [Vibrio parahaemolyticus RIMD 2210633]
MHLKNGKAVKSVFTLSTLTASCLLAFNSYAAVDCAPLEVWDSSKVYNGGDQVQHEGNAYKARYWTQNNNPAQAGQWGEWE
SLGACDGTGPVDPPQNEIPTVTLTAPSASASITAGEVVNLAADAADTDGTISKVEFFVDGALVGQSTSAPFIASWTATEG
VHEFSTKSYDDAGAVSTASSVTLTIASVQPGNEAPTVDVALSATSIELGGTVTLTANAADADGSIAKVDFYVAGALAGTA
TAAPYTLDVTPSKAGALAVYAKATDNAGASTDSAIATLTVNGGAVASNCRPDGLYQTTGVDVPYCSIYDEEGREKMGADH
PRRVIGYFTSWRAGDDPQSTYLVKDIPWEQLTHINYAFVSIGSDGKVNVGDVNDPNNAATGKTWPGVEVDPTLGFKGHFG
ALATYKQKHDVKTLISIGGWAETGGHFDANGDRVADGGFYTMTTNADGSINHAGIEKFAASAVEMMRKYKFDGLDIDYEY
PTSMAGAGNPYDKDFMEPRRQYLWASYQELMKVLREKLDAASAQDGTHYMLTIAAPSSGYLLRGMETFDVTKYLDYVNIM
SYDLHGAWNDHVGHNAALFDTGKDSELAQWNVYGTAAYGGIGYLNTDWAYHYFRGSMPAGRINIGVPYYTRGWQGVTGGD
NGLWGRAALPNQAECQPGTGEGEKNNCGNGAIGIDNMWHDLDPQGREMGAGSNPMWHAKNLEKGIWGSYAQAYGLDPVND
PSDKLVGTYTRNYDSVAVAPWLWNAEKGVFLSTEDKASIEVKADYVIDKEIGGIMFWELAGDYNCYVLDANGNRTAIDAT
EQACAAGNGEYHMGNTMTKAIYDKFKSATPYGNKVATGPTPTEAVDITVSVGGFKVGDQNYPINPKITFTNNTGQAIPGG
TEFQFDIPVSAPDNAKDQSGGGLKVIASGHTRANNIGGLDGVMHRVSFSLPAWKDLPAGGTYELDMVYYLPISGPANYSV
ISGGKEFAFKFEQPDLPIGDLNAGTGGGGTTEPGSCDTAGLVTYPNLPQTDWAGNPSHANQGDKVIHNGVVYQANWWTAS
EPGSDGSWATVCNI

Nucleotide


Download         Length: 3165 bp        

>NTDB_id=1300 VP_RS19160 WP_005479129.1 865637..868801(+) (cdx) [Vibrio parahaemolyticus RIMD 2210633]
ATGCACCTTAAAAACGGGAAAGCAGTGAAAAGTGTCTTTACGCTAAGTACGCTGACTGCATCTTGTCTATTGGCCTTCAA
CAGCTACGCAGCGGTTGATTGTGCCCCTCTAGAAGTTTGGGATTCGTCAAAAGTTTATAATGGCGGCGACCAAGTTCAGC
ACGAAGGTAACGCATACAAAGCGCGTTACTGGACGCAAAACAATAACCCTGCACAAGCTGGCCAGTGGGGCGAGTGGGAA
TCTCTTGGTGCTTGTGATGGAACAGGTCCTGTTGATCCACCACAAAATGAAATCCCGACGGTGACTCTAACCGCTCCTTC
TGCGTCGGCATCTATCACCGCTGGTGAAGTGGTTAACCTAGCCGCAGATGCAGCAGACACTGATGGCACAATTAGCAAAG
TTGAATTCTTTGTTGATGGTGCTTTAGTTGGTCAGTCTACTTCGGCTCCTTTCATTGCATCTTGGACTGCAACTGAAGGC
GTACACGAGTTTTCAACTAAATCTTATGATGACGCTGGCGCGGTAAGTACTGCAAGTTCAGTAACGCTTACGATTGCTTC
AGTTCAACCAGGTAATGAAGCGCCTACAGTGGATGTTGCGCTTTCAGCTACTTCAATCGAGTTAGGCGGTACTGTTACGC
TTACTGCTAACGCAGCAGACGCGGATGGTAGCATTGCTAAAGTTGACTTCTACGTTGCTGGCGCATTAGCTGGCACAGCA
ACAGCAGCCCCTTACACACTAGACGTAACGCCTTCAAAAGCGGGCGCTCTAGCGGTATACGCGAAAGCGACAGATAACGC
AGGTGCAAGCACAGACTCTGCAATTGCTACGTTAACTGTAAATGGTGGTGCTGTGGCATCTAACTGTCGTCCTGACGGTC
TTTACCAAACCACAGGCGTGGACGTACCTTACTGTTCAATCTACGACGAAGAAGGTCGTGAGAAAATGGGGGCGGATCAC
CCACGTCGTGTCATCGGCTACTTCACGAGCTGGCGCGCAGGTGATGACCCACAATCGACTTACCTTGTTAAAGACATTCC
TTGGGAACAGCTAACTCACATCAACTACGCGTTTGTGAGCATTGGTTCTGACGGTAAAGTGAACGTTGGCGATGTTAATG
ACCCGAACAACGCTGCAACTGGCAAAACATGGCCAGGTGTTGAAGTCGATCCTACGCTTGGTTTCAAAGGTCACTTTGGT
GCACTAGCAACTTACAAGCAAAAACACGATGTTAAGACGCTAATCTCGATTGGTGGTTGGGCTGAAACTGGCGGTCACTT
CGATGCAAATGGCGATCGTGTTGCTGATGGTGGCTTCTACACAATGACGACCAATGCTGATGGTTCTATAAACCATGCTG
GCATTGAGAAGTTCGCAGCTTCTGCAGTTGAAATGATGCGTAAGTACAAGTTCGATGGTCTGGATATCGACTACGAATAC
CCAACATCAATGGCTGGTGCTGGTAACCCTTACGATAAAGACTTCATGGAACCACGTCGTCAGTACCTATGGGCTTCTTA
CCAAGAGCTGATGAAAGTACTTCGTGAAAAACTAGATGCAGCTTCTGCTCAAGATGGTACGCATTACATGCTGACTATCG
CAGCGCCATCATCTGGTTACCTGCTACGCGGTATGGAAACCTTCGATGTAACTAAGTACTTAGACTACGTAAACATCATG
TCTTACGACTTGCACGGTGCTTGGAACGATCACGTTGGCCACAACGCGGCATTATTCGATACAGGCAAAGACTCTGAGCT
AGCACAGTGGAACGTATACGGCACAGCAGCTTATGGCGGTATTGGTTACTTGAATACTGACTGGGCTTACCATTACTTCC
GTGGTTCTATGCCAGCAGGCCGTATCAACATCGGTGTTCCTTATTACACCCGTGGTTGGCAAGGCGTAACTGGTGGTGAC
AATGGTCTTTGGGGCCGAGCAGCGCTACCTAACCAAGCTGAGTGTCAACCAGGCACAGGTGAAGGTGAGAAGAACAACTG
TGGTAACGGTGCTATCGGCATCGACAACATGTGGCACGATTTAGATCCACAAGGTCGTGAAATGGGCGCAGGCTCGAACC
CTATGTGGCACGCGAAGAACCTAGAGAAAGGCATTTGGGGTTCTTACGCTCAAGCTTACGGTCTAGATCCAGTGAACGAT
CCTTCTGACAAATTGGTTGGTACGTACACTCGTAATTACGACAGTGTTGCTGTAGCACCTTGGTTGTGGAACGCAGAGAA
GGGCGTATTCCTATCTACAGAAGATAAAGCTTCTATCGAAGTGAAAGCGGACTACGTTATCGATAAAGAAATCGGCGGTA
TTATGTTCTGGGAACTAGCAGGTGACTACAACTGTTACGTACTAGATGCAAATGGCAACCGTACTGCTATCGATGCAACA
GAGCAAGCGTGTGCTGCGGGTAATGGTGAATACCACATGGGTAACACTATGACCAAAGCTATCTACGACAAGTTTAAGTC
TGCAACGCCTTACGGTAACAAAGTAGCGACTGGTCCAACACCAACTGAAGCAGTAGATATTACTGTTAGTGTTGGCGGCT
TCAAAGTTGGCGACCAAAACTACCCAATTAACCCTAAGATCACATTTACGAACAACACAGGTCAAGCGATCCCTGGCGGT
ACTGAATTCCAATTCGATATCCCAGTATCTGCGCCGGACAACGCGAAAGACCAATCTGGTGGCGGTTTGAAAGTGATTGC
TTCTGGACATACTCGTGCAAACAACATCGGTGGTTTGGATGGCGTAATGCACCGCGTGTCGTTCTCTCTACCAGCATGGA
AAGATCTGCCAGCAGGCGGTACTTACGAGCTTGATATGGTTTACTACCTACCAATCTCTGGTCCTGCGAACTACTCAGTG
ATTTCTGGTGGTAAAGAGTTTGCGTTCAAGTTTGAGCAACCAGATCTACCAATCGGTGACCTAAACGCGGGTACTGGCGG
TGGCGGTACAACTGAACCAGGTTCTTGTGACACTGCTGGTTTGGTAACATACCCAAATCTGCCACAAACTGACTGGGCAG
GTAACCCAAGCCACGCAAACCAAGGTGACAAAGTCATCCACAATGGTGTGGTTTACCAAGCAAACTGGTGGACGGCTTCT
GAACCAGGTAGCGACGGTAGCTGGGCTACAGTATGTAACATCTAA

Domains

Predicted by InterproScan.

Glycosyl hydrolases family 18 (Glyco_hydro_18)

(323-782)

Chitinase C (ChiC)

(810-975)

Bacterial Ig domain (Big_7)

(99-162)

Bacterial Ig domain (Big_7)

(204-256)

Cellulose-binding domain (CBM_5_12_2)

(999-1051)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB Q87HX4

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

References

[1] Anusuya Debnath et al. (2022) Chitin degradation and its effect on natural transformation: a systematic genetic study in Vibrio parahaemolyticus. Canadian Journal of Microbiology 68(8):521-530. [PMID: 35623097]