Protein

View in Explore
Genbank accession
AVJ48878.1 [GenBank]
Protein name
glycerophosphoryl diester phosphodiesterase
RBP type
TSP
Evidence RBPdetect
Probability 0,90
Protein sequence
MIEPEVKLLMLKGDKGDGLSDDDMHKVESLIDSNVDEAKGSLSKSLSAQLEVARIDDMNQTKSFVTSSVVDAKEEINRTVNARIAGARFIPKVFANAYDLKNAYPKGQDGIFVVADTGHMWLFVNGSWKDCGVYQTPVQKNQTFTFQPSRDGFPNYDTATHKLDFRCITDSAQITTPSGDAYRIPRYTVVDVNWEFTTGVIIFDTNTLSVISQSPYIPINANQYVLASYRRYPAEGDRLTWNGVLAQSLLINGETYMEQNVQFVPSKDGLPYYDSKRKIINFNCLTDQAYVSYQNRNYTLPHNATVALDFSRGVTSFDILIDMKTGKVSANDKYRLLTPNMEKVSLATVRLLNNGKVAIEGIKLLDEVSPKNSTGIIPIAHRGLNSIAPEESLEAYSLAVRSGYNDIECDIYFTEDGIPVLHHDATINSIARNSDGTELTQPVKIGERMLVELNAYDYGIYKSEIFKGLNICTFEDIIKFARRTGARVHAELKQHYTDEQCQVLLDIVSKYRMTGKVGWQAFDHSSLDYIASHDENAQLELLAGGITDDLIADGKKRLNGKRKVVLSVGQGVTQRLVDQVHSEGFDVYVWTVDDIDGAKKLVNMGVDGIMTNGYIDLPNLLSNEYDLQVSNSPAVDLVTNLTWYKNTYIGSDGKIWNLLNNIKDGEEHLSPKGSSGEHFQTIVPLTKTTYTLSFEAKSTVNGDKIASFLYDGGDGSQDCVTHINGVATNDGDGRIETTLTDSYKRYSIQYTINPKNIKMTAIIARTDISTGDVTFKNIRLTEGTDSAWGATNNMLSYLDVKRGETYYARQLDESSWLNAPMVVTNDNLNVVQSSVITDSVNHTFKVIIPSEATKLFLNSNEVLVPTVFKQSSSSGI
Physico‐chemical
properties
protein length:876 AA
molecular weight: 97345,22290 Da
isoelectric point:5,17732
aromaticity:0,08790
hydropathy:-0,31678

Domains

Domains [InterPro]
DC_1932
STR
17–530
DC_1932 DC_1520 G3DSA:2.60.120.260
IPR017946
STR
369–621
IPR017946 DC_1292
PTHR46211
Unmapped
371–614
PTHR46211
IPR030395
ENZ
376–621
IPR030395
IPR017946
STR
378–612
IPR017946
cd08556
ENZ
379–612
cd08556
IPR030395
ENZ
381–612
IPR030395
PS50007
ENZ
385–429
PS50007
AVJ48878.1
1 876
Architecture
STR
STR
RBD
STR 17-668 | STR 677-819 | RBD 820-876
Legend: ATT STR RBD CBM LEC ENZ CHP LNK TAS TTP UNK Unmapped

Tail Spike Domain Segmentation

Tail Spike Domain Segmentation

This protein has been segmented into three structural domains: N-terminal, central domain, and C-terminal.

Domain Layout
N-terminal
Central
C-terminal
AVJ48878.1
1 876
Domain Start End Length (AA) Confidence
N-terminal 1 371 371 0,9684
Central domain 372 632 262 0,6785
C-terminal 633 876 243 0,5033
Legend: N-terminal Central domain C-terminal
3D Structure with Domain Coloring

The structure is colored according to the domain segmentation: N-terminal (blue), Central (green), C-terminal (pink).

Domain Coloring
N-terminal
1-371
Central
372-632
C-terminal
633-876

Taxonomy

  Name Taxonomy ID Lineage
Phage Lactobacillus phage PMBT4
[NCBI] 		2099651 Viruses > Duplodnaviria > Heunggongvirae > Uroviricota > Caudoviricetes
Host Lactobacillus delbrueckii ATCC 11842
[NCBI] 		1585 Bacillota > Bacilli > Lactobacillales > Lactobacillaceae > Lactobacillus > Lactobacillus delbrueckii

Coding sequence (CDS)

Coding sequence (CDS)
Genbank protein accession
AVJ48878.1 [NCBI]
Genbank nucleotide accession
MG913376 [NCBI]
CDS location
range 11830 -> 14460
strand +
CDS
ATGATCGAACCAGAAGTTAAACTTTTAATGTTGAAGGGCGACAAAGGCGATGGCCTTTCAGACGATGACATGCACAAAGTTGAGTCGCTGATTGACTCCAATGTTGACGAGGCGAAAGGAAGCCTCAGCAAATCATTAAGCGCACAGCTTGAAGTTGCGAGAATTGACGACATGAACCAAACCAAGTCGTTTGTCACTTCCAGCGTGGTTGATGCGAAGGAAGAAATTAACAGAACAGTAAATGCGAGAATTGCGGGTGCTAGATTTATCCCGAAAGTATTCGCCAACGCTTACGATCTGAAAAATGCGTATCCTAAAGGCCAAGACGGCATTTTCGTTGTAGCGGATACCGGGCACATGTGGTTATTCGTCAACGGTTCTTGGAAAGATTGTGGAGTATATCAAACCCCAGTTCAGAAAAATCAGACGTTTACGTTCCAACCTTCTAGGGACGGCTTCCCGAATTATGATACGGCAACGCACAAACTTGACTTTAGATGTATTACAGATAGCGCACAGATCACGACACCAAGCGGTGATGCTTATAGAATTCCTCGGTATACGGTAGTAGACGTTAACTGGGAATTTACCACTGGTGTCATTATCTTTGATACGAATACCTTGTCCGTCATTTCACAGTCGCCGTATATTCCCATCAACGCAAATCAGTACGTCTTAGCTAGTTATAGAAGATACCCAGCTGAAGGAGACCGACTTACTTGGAACGGTGTTTTAGCGCAAAGTCTGCTGATTAATGGAGAGACCTACATGGAACAAAACGTTCAGTTCGTTCCATCAAAAGATGGCTTACCATACTACGATAGCAAGCGGAAAATCATTAATTTCAATTGCCTCACCGACCAAGCCTACGTCTCTTACCAAAATCGCAACTACACGTTGCCACATAATGCTACTGTCGCTCTTGACTTCTCCCGTGGTGTAACTTCCTTCGACATCTTAATAGACATGAAGACGGGGAAGGTCAGCGCCAACGACAAGTATCGTTTGTTAACGCCAAACATGGAAAAAGTTTCACTTGCGACCGTTAGACTTTTGAATAATGGCAAAGTTGCGATTGAAGGCATTAAATTGCTAGATGAGGTTAGCCCGAAGAATAGCACCGGGATCATTCCAATCGCACACCGTGGTCTTAATTCGATTGCTCCGGAAGAAAGCTTGGAGGCCTATTCTTTGGCCGTAAGAAGCGGCTACAACGATATTGAGTGCGACATTTACTTTACGGAAGACGGCATTCCTGTTTTGCACCATGATGCCACTATTAACAGTATTGCCCGCAATTCAGATGGTACTGAGTTGACGCAACCGGTAAAAATTGGCGAACGAATGTTAGTAGAATTAAACGCCTATGACTACGGGATTTATAAGTCTGAGATCTTCAAAGGCCTCAATATTTGCACATTTGAAGACATCATCAAGTTCGCTCGCAGAACCGGGGCAAGAGTTCATGCTGAGCTGAAGCAACATTATACCGATGAACAATGCCAAGTGCTTTTAGACATCGTTTCTAAGTATAGAATGACGGGAAAGGTTGGGTGGCAAGCGTTTGATCATTCCAGCTTGGATTATATTGCTAGTCATGACGAAAATGCACAGTTGGAGTTGTTAGCTGGAGGCATTACCGATGATTTAATTGCTGACGGCAAAAAGCGGCTTAATGGCAAGAGAAAAGTCGTTCTTAGCGTAGGGCAAGGCGTAACGCAACGATTAGTTGACCAAGTTCATTCAGAAGGGTTTGATGTTTACGTTTGGACTGTTGATGATATTGATGGAGCTAAAAAGTTGGTAAACATGGGCGTAGACGGGATCATGACCAACGGCTACATTGATCTTCCAAATCTGCTGAGTAACGAATACGACTTGCAAGTTTCTAATTCTCCTGCGGTTGATTTAGTAACTAATTTGACTTGGTATAAGAACACGTACATTGGCAGTGACGGAAAAATTTGGAATCTTCTCAACAATATAAAAGACGGAGAAGAGCACTTATCTCCTAAGGGCAGTTCCGGAGAACATTTCCAGACTATTGTCCCGCTTACTAAGACAACGTATACATTGTCTTTTGAAGCAAAATCCACTGTAAATGGGGACAAAATTGCAAGCTTCTTGTACGATGGAGGAGACGGCAGTCAGGATTGTGTAACTCATATTAACGGGGTTGCTACAAATGATGGCGATGGTCGTATTGAGACTACGCTAACTGACAGCTATAAGCGATACTCTATCCAATATACGATAAACCCTAAAAATATTAAGATGACTGCTATTATAGCAAGAACAGACATTTCGACTGGAGATGTCACCTTTAAGAACATTAGACTTACAGAAGGAACGGATAGCGCTTGGGGCGCAACGAATAATATGCTATCGTATTTAGACGTCAAACGAGGTGAGACGTACTATGCAAGACAACTAGATGAGTCATCATGGTTAAATGCGCCAATGGTAGTTACAAATGATAATCTTAATGTCGTTCAATCAAGCGTAATCACTGACTCCGTAAACCATACGTTTAAGGTTATAATCCCAAGCGAAGCCACTAAGCTTTTCTTGAACTCTAATGAGGTACTTGTTCCAACGGTATTCAAGCAATCTTCCTCTAGCGGCATTTAA

Genome Context

Genome Context

Tertiary structure

PDB ID
d61c1e7bd7382a873a3fd13f8ddd1554dc1e3158897562fead25b8918d14b22d
ColabFold
Source ColabFold
Method ColabFold
Resolution 0,2961
Oligomeric State monomer
Download PDB
Model Confidence
Very high
pLDDT > 90
High
90 > pLDDT > 70
Low
70 > pLDDT > 50
Very low
pLDDT < 50

Literature

Title Authors Date PMID Source
Novel Siphoviridae phage PMBT4 belonging to the group b Lactobacillus delbrueckii subsp. bulgaricus phages Sprotte,S., Fagbemigun,O., Brinks,E., Cho,G.-S., Casey,E., Oguntoyinbo,F.A., Neve,H., Mahony,J., van Sinderen,D. and Franz,C.M. 2022 34808252 GenBank