Detailed information    

experimental Experimentally validated

Overview

Name   chiB   Type   Unclear
Locus tag   VP_RS02975 Genome accession   NC_004603
Coordinates   646391..648115 (+) Length   574 a.a.
NCBI ID   WP_005483021.1    Uniprot ID   Q87S05
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: 641391..653115
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VP_RS02965 (VP0617) guaA 642937..644490 (+) 1554 WP_005460250.1 glutamine-hydrolyzing GMP synthase -
  VP_RS02970 (VP0618) - 644656..646176 (+) 1521 WP_005460243.1 Na+/H+ antiporter NhaC family protein -
  VP_RS02975 (VP0619) chiB 646391..648115 (+) 1725 WP_005483021.1 chitinase Unclear
  VP_RS02980 (VP0620) - 648287..648877 (+) 591 WP_005460258.1 GPR1/FUN34/YaaH family transporter -
  VP_RS02985 (VP0621) - 649063..650043 (+) 981 WP_005483085.1 HAD family hydrolase -
  VP_RS02990 (VP0622) - 650148..651695 (-) 1548 WP_005464242.1 alanine/glycine:cation symporter family protein -

Sequence

Protein


Download         Length: 574 a.a.        Molecular weight: 63513.61 Da        Isoelectric Point: 4.3242

>NTDB_id=1299 VP_RS02975 WP_005483021.1 646391..648115(+) (chiB) [Vibrio parahaemolyticus RIMD 2210633]
MFALKHLPIALSCVLAAQANASMNIQPDPQNPNGYVIARGDVQAMEQSKTSDPMYAIWSQALETRPNSVVEAIVPGAATN
PENVKRVERVFPESEWDFLTQMAAPEYTYTRFLRAIGKFPAFCGEYTDGRDSDAICKKSIVTAFAHFAQETGGHISIDNV
SDNPLGLEEWQQALVHVREMGWSEGQEGYTTGCGQNDWQNKRWPCEPGQGYFGRGAKQLSYHFNYGAFSEVMFDGDASVL
LKNPGLVADSWLNLASAIWFFLTPQAPKPAMLHVIDRTWVPSQRELDAGIGYGFGTTINVINGGIECGEQNKDKGQPVNR
IRYWEGLAAHYQIPIEADEKNTCWQQTPYGSLNLNGATDVLYTNWDGNWKYYSDRPGGHSFECELVGFQTAYSALVAGDY
EKCVTNFYQSHAGWPEVRVVDKLDPVDPVDPPVGGVAAWDSGKVYNTGDQVSYQGAVYEAKWWSQGNEPTKGDPWKLVSG
TPTEPPTTEPEPPVTEPEPPVTEPEPPVTEPEPPVTEPVPPVTGSFIQWEPGVTQVANGDKVTYQNKCFVAKNGPGVWES
PTQSNWFWDEISCQ

Nucleotide


Download         Length: 1725 bp        

>NTDB_id=1299 VP_RS02975 WP_005483021.1 646391..648115(+) (chiB) [Vibrio parahaemolyticus RIMD 2210633]
ATGTTTGCACTCAAACATCTTCCTATTGCATTGAGTTGTGTCCTAGCGGCACAAGCGAATGCAAGTATGAATATCCAGCC
TGATCCGCAAAATCCGAATGGTTATGTCATTGCGCGTGGTGACGTTCAAGCTATGGAGCAAAGCAAAACCTCTGACCCTA
TGTATGCCATTTGGTCACAAGCACTAGAGACGCGTCCTAACTCAGTCGTCGAAGCGATTGTTCCTGGAGCGGCAACCAAC
CCAGAAAACGTGAAGCGTGTAGAGCGCGTGTTCCCTGAAAGTGAGTGGGACTTCCTGACTCAAATGGCAGCACCAGAATA
CACTTACACGCGTTTCCTACGTGCGATTGGTAAATTCCCAGCATTCTGTGGTGAGTACACTGATGGCCGTGATTCGGATG
CGATTTGTAAAAAATCGATCGTGACAGCCTTTGCTCACTTTGCGCAGGAAACCGGTGGTCATATTTCGATTGATAACGTA
TCGGATAACCCTCTAGGATTGGAAGAGTGGCAGCAAGCTTTGGTTCACGTACGTGAAATGGGCTGGTCAGAAGGTCAAGA
AGGTTACACGACAGGTTGTGGTCAGAATGACTGGCAAAACAAACGTTGGCCATGTGAACCGGGACAAGGTTACTTTGGAC
GTGGTGCTAAACAGCTTTCTTACCACTTTAACTATGGCGCGTTCTCTGAAGTGATGTTTGATGGTGATGCATCTGTATTG
CTGAAAAATCCAGGTTTGGTTGCGGATTCGTGGCTGAACTTGGCATCGGCTATCTGGTTCTTCCTAACCCCACAAGCACC
TAAACCAGCAATGCTACATGTAATTGACCGGACTTGGGTTCCTTCACAACGTGAACTTGATGCAGGCATTGGTTACGGCT
TCGGTACCACTATCAACGTGATCAATGGTGGTATTGAGTGTGGTGAGCAAAACAAGGATAAAGGTCAGCCTGTTAACCGT
ATCCGTTACTGGGAAGGTTTGGCGGCACACTACCAAATTCCAATTGAAGCTGACGAGAAGAACACTTGTTGGCAGCAAAC
GCCTTACGGCAGCCTAAACCTAAATGGCGCAACTGACGTGCTTTACACTAACTGGGATGGTAACTGGAAATACTACTCAG
ATCGCCCTGGAGGCCATTCGTTTGAATGTGAGCTGGTTGGTTTCCAAACGGCTTACTCTGCGCTAGTTGCGGGTGATTAC
GAGAAGTGTGTAACTAACTTCTACCAATCTCATGCGGGTTGGCCTGAAGTTCGTGTGGTTGACAAGTTAGACCCTGTAGA
TCCGGTCGATCCGCCTGTAGGTGGCGTGGCAGCTTGGGATTCAGGCAAAGTCTACAACACTGGTGATCAAGTTTCTTACC
AAGGTGCTGTTTACGAAGCGAAATGGTGGTCACAAGGTAATGAGCCAACGAAAGGAGACCCTTGGAAGTTGGTTTCAGGT
ACTCCTACGGAGCCGCCAACAACGGAACCTGAACCACCTGTGACTGAACCAGAACCGCCAGTCACAGAACCAGAGCCTCC
GGTCACTGAGCCAGAGCCTCCGGTCACTGAGCCAGTGCCACCAGTAACAGGTAGCTTCATTCAGTGGGAGCCAGGCGTAA
CTCAAGTGGCTAACGGTGATAAAGTGACGTACCAAAACAAATGCTTTGTCGCAAAAAACGGCCCTGGAGTGTGGGAAAGC
CCAACGCAGAGCAACTGGTTCTGGGATGAGATTTCCTGCCAATAA

Domains

Predicted by InterproScan.

Chitinase class I (Glyco_hydro_19)

(106-323)

Carbohydrate binding domain (CBM_5_12)

(453-475)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB Q87S05

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]