Protein

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Genbank accession
AGW43697.1 [GenBank]
Protein name
glycerophosphoryl diesterphosphodiesterase
RBP type
TSP
Evidence RBPdetect
Probability 0,90
Protein sequence
MIEPEVKLLMLKGDKGDGLSDDDMHKVESLIDSNVDEAKGSLSKSLSAQLEVARIDDMNQTKSFVTSSVVDAKEDINRTVNARIAGARFIPKVFANADDLKRAYPNGQDGIFVVADTGHMWLFVNGAWKDCGVYQTPVQKNQTFTFQPSKDGFPNYDTTTHVIDFRCITDSAQITLPNGDAYRIPYMAKVEVNWEFTTGVIIFDINTLSLISQSPYIPTNANQYVLASYRRYPAEGNRLTWNGVLAQSLLINGKTYMEQNVQFVPSKDGLPYYDSKRKIINFNCLTDQAYVSYQNRNYTLPKNATVALDFSSVTSLDVMIDMKTSELSAYAKYTVEDLTDKDIDKVSFATARRLNNGKVAIEGIKLLDEVSPKNSTGIIPIAHRGLNSIAPEESLEAYSLAVRSGYNDIECDIYFTEDGIPVLHHDATINNIARNSDGTELTQPVKIGERMLVELNAYDYGIYKSEIFKGLNICTFEDIIKFARRTGARVHAELKQHYTDEQCQVLLDIVSKYRMANKVGWQAFDHSSLDYIASHDENAQLELLAGNITDDLIADGKKRLNGKRKVVLSVGQGITQRLVDQAHSEGFDVYIWTVDDIDGAKKLINMGVDGIMTNGYIDLPNLLSNEYDL
Physico‐chemical
properties
protein length:629 AA
molecular weight: 70320,45170 Da
isoelectric point:5,00879
aromaticity:0,08903
hydropathy:-0,31208

Domains

Domains [InterPro]
DC_1932
STR
16–552
DC_1932
IPR017946
STR
370–623
IPR017946
PTHR46211
Unmapped
373–616
PTHR46211
IPR030395
ENZ
378–623
IPR030395
IPR017946
STR
380–614
IPR017946
cd08556
ENZ
381–614
cd08556
IPR030395
ENZ
383–614
IPR030395
PS50007
ENZ
387–429
PS50007
AGW43697.1
1 629
Architecture
STR
STR 16-623 |
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
AGW43697.1
1 629
Domain Start End Length (AA) Confidence
N-terminal 1 372 372 0,9247
Central domain 373 618 247 0,7051
C-terminal 619 629 10 0,1439
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
1-372
Central
373-618
C-terminal
619-629

Taxonomy

  Name Taxonomy ID Lineage
Phage Lactobacillus phage phiLdb
[NCBI] 		1399942 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
AGW43697.1 [NCBI]
Genbank nucleotide accession
KF188410 [NCBI]
CDS location
range 14368 -> 16257
strand +
CDS
ATGATCGAACCAGAAGTTAAACTTTTGATGTTGAAGGGCGACAAAGGCGATGGCCTTTCAGACGATGACATGCACAAGGTGGAGTCGCTGATTGACTCCAATGTTGACGAGGCAAAAGGAAGCCTTAGCAAATCATTAAGCGCACAGCTTGAAGTTGCGAGAATTGACGACATGAACCAAACAAAGTCGTTTGTCACTTCCAGCGTGGTTGATGCAAAGGAGGACATTAACAGAACAGTAAATGCGAGAATTGCGGGTGCAAGATTTATCCCGAAGGTATTTGCTAATGCTGACGATCTGAAAAGGGCGTACCCTAATGGGCAAGATGGAATTTTCGTTGTAGCGGATACCGGGCACATGTGGTTATTCGTCAACGGTGCTTGGAAAGATTGTGGAGTATATCAAACGCCGGTTCAAAAAAATCAGACGTTTACGTTCCAGCCTTCTAAGGACGGCTTCCCGAATTATGATACGACAACGCACGTGATCGACTTTAGATGTATTACAGACAGCGCACAGATCACGCTTCCAAACGGTGATGCTTACAGAATTCCATATATGGCCAAGGTGGAGGTAAACTGGGAATTTACCACGGGTGTCATTATCTTTGACATCAACACCTTATCCCTCATTTCACAATCGCCGTATATTCCAACCAACGCAAATCAGTACGTCTTGGCCAGCTACAGAAGATACCCCGCTGAAGGAAACCGTCTTACTTGGAACGGCGTTTTAGCGCAAAGTCTGCTGATTAATGGGAAGACCTACATGGAACAGAACGTTCAGTTCGTTCCATCAAAAGACGGTTTACCATACTACGATAGCAAGCGGAAGATCATTAACTTTAATTGCCTTACCGACCAAGCATACGTCTCTTACCAAAATCGCAATTACACGTTACCAAAAAATGCTACAGTTGCTCTTGATTTCTCTAGTGTAACGTCCCTCGATGTGATGATAGACATGAAGACAAGTGAACTGAGTGCTTATGCAAAGTACACTGTCGAAGATCTTACAGATAAAGATATTGACAAGGTTTCATTTGCCACAGCTAGACGTTTGAACAACGGCAAAGTTGCGATCGAAGGCATTAAATTACTAGATGAGGTTAGCCCGAAGAATAGCACCGGGATTATTCCAATCGCACACCGTGGGCTTAATTCAATCGCTCCAGAGGAGAGTTTGGAGGCCTATTCTTTGGCTGTAAGAAGCGGCTACAACGATATTGAGTGCGACATTTACTTTACGGAAGACGGCATTCCCGTTTTGCACCATGACGCTACCATCAACAATATTGCCCGCAATTCAGATGGTACAGAGTTGACGCAACCGGTAAAAATTGGCGAACGAATGTTAGTAGAATTAAACGCCTACGACTACGGGATTTACAAGTCTGAGATCTTCAAAGGCCTTAATATTTGCACATTTGAAGACATCATCAAGTTTGCTCGTAGAACCGGGGCAAGAGTTCATGCTGAGTTGAAGCAACACTATACCGATGAACAATGCCAAGTACTTTTAGACATCGTTTCTAAGTATAGAATGGCTAACAAGGTTGGGTGGCAAGCGTTTGATCATTCCAGCTTGGATTATATTGCTAGTCATGACGAAAATGCACAGTTGGAGTTGTTAGCTGGGAACATTACCGATGACTTAATTGCTGACGGCAAAAAGCGGCTCAATGGCAAGAGAAAAGTCGTTCTTAGCGTAGGGCAAGGCATAACGCAACGATTAGTAGACCAAGCTCATTCAGAAGGGTTTGATGTTTACATTTGGACTGTTGACGACATTGATGGAGCTAAAAAGTTGATAAACATGGGCGTAGACGGGATCATGACCAACGGCTATATTGATCTTCCAAATCTTCTGAGTAACGAATACGACTTGTAA

Genome Context

Genome Context

Tertiary structure

PDB ID
b3ac278609dd9526fbfb964470126cd96b00bc7365e8bf7f46ce568e62de2fd7
ESMFold
Source ESMFold
Method ESMFold
Resolution 0,7894
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
The potential of the endolysin Lysdb from Lactobacillus delbrueckii phage for combating Staphylococcus aureus during cheese manufacture from raw milk Guo,T., Xin,Y., Zhang,C., Ouyang,X. and Kong,J. 2016 26621799 GenBank