Phage RBP Database

Genbank accession

YP_009098726.1 [GenBank]

Protein name

phosphodiesterase

RBP type

TSP

Evidence RBPdetect

Probability 0,90

TSP

Evidence RBPdetect2

Probability 0,46

Protein sequence

MIEPEVKLLMLKGDKGDGLSDDDMQKVKSLIDSNVDEAKGSLSKALSAQLEVARIDDMNQTKSFVTSSVVDAKEDINRTVNARIAGARFIPKVFANANDLKKAYPKGQDGIFVVADTGHMWLFVNGAWKDCGVYQTPVQKNQTFTFQPSKDGFPNYDTSTHVIDFRCITDSAQITLPSGDAYRIPYMAKVEVNWEFTTGVIIFDINTLSLISQSPYVPINANQYVLASYRRYPAEGDRLTWNGVLAQSLLINGETYMEQNVQFVPSKDGLPYYDSKRKIINFNCLTDQAYVSYQNRNYTLPHNATVALDFSRGVTSFDILIDMKTGEVSTXDKYRLLTPNMDKVSFATVRLLNNGKVAIEGIKLLDEVSPKNSTGILPIAHRGLNSIAPEESLEAYSLAVRSGYKDIECDIYFTEDGIPVLHHDATINSIARNSXGTELTQPVKIGERMLVELNAYDYGIYKSEIFKGLNICTFEDIIKFARRTGARVHAELKQHYTDEQCQVLLDIVSKYRMANKVGWQAFDHSSLDYISSHDENAQLELLAGIITDDLIADGKKRLNGKRKVVLSVGQGVTQRLVDQAHSEGFDVYVWTVDDIDGAKKLINMGVDGIMTNGYIDLPNLLSNEYDLPVSNSPAVDLITNLTWYKNTYIVVQSYIYNLLDGMRDGEERTFAPAPGETWFTSFINLKKKTYTLSFDAKSTVNNDNLTTLMRHVEMGDNNFNCVTEVNGTPVAPSSWGDNAFKLSDSYTRYSVRYTANPDDKPFQIGFRTSSSTGTVSIKNIRLTAGTDEKWGATICMLAYLDVNQGETYYARQLEDGAWLNAPMVVTDDNLDPVPATIITDDKNHTFKITIPSGGTKLFLNSNETLVPTVFKQSASSGI

Physico‐chemical properties

protein length:	878 AA
molecular weight:	97629,96120 Da
isoelectric point:	5,14549
aromaticity:	0,09475
hydropathy:	-0,29475

Domain architecture

YP_009098726.1

1 878 aa

STR 368–621 · STR 670–811 ·

ATT Attachment Domain STR Structural Domain RBD Receptor-Binding Domain CBM Carbohydrate-Binding Module LEC Lectin-like Domain ENZ Enzymatic Domain CHP Intramolecular Chaperone LNK Linker/Spacer Domain TAS Tail-Associated Structural TTP Tail Tubular Protein UNK Uncharacterized Domain Unmapped

InterPro domains

IPR017946
STR

IPR017946 G3DSA:2.60.120.260

PTHR46211
Unmapped

PTHR46211 IPR008979

IPR030395
ENZ

IPR030395

IPR017946
STR

IPR017946

cd08556
ENZ

cd08556

IPR030395
ENZ

IPR030395

PS50007
ENZ

PS50007

YP_009098726.1

1878 aa

ATT Attachment Domain STR Structural Domain RBD Receptor-Binding Domain CBM Carbohydrate-Binding Module LEC Lectin-like Domain ENZ Enzymatic Domain CHP Intramolecular Chaperone LNK Linker/Spacer Domain TAS Tail-Associated Structural TTP Tail Tubular Protein UNK Uncharacterized Domain Unmapped

Novel HMM domains (de novo, PhaRBP-HMM)

Experimental de novo families on regions without InterPro annotation. Separate from the InterPro architecture above.

DC_1932
STR

DC_1932 DC_1520 DC_1292

YP_009098726.1

1878 aa

InterPro domain annotations

Domain ID	Category	Cluster	Start	End	Layer	Name	Pref Zone	Confidence	Evidence	Support
IPR017946	STR	IPR017946	368	621	Merged direct domain	PLC-like phosphodiesterase, TIM beta/alpha-barrel domain superfamily	Central	Low	Positional only	31 proteins / 31 hits
PTHR46211	Unmapped	-	371	614	PANTHER	GLYCEROPHOSPHORYL DIESTER PHOSPHODIESTERASE	-	-	-	-
IPR030395	ENZ	DC_0002	376	621	InterPro cluster	Glycerophosphodiester phosphodiesterase domain	Central	High	Text match	63 proteins / 165 hits
IPR017946	STR	IPR017946	377	612	Merged direct domain	PLC-like phosphodiesterase, TIM beta/alpha-barrel domain superfamily	Central	Low	Positional only	31 proteins / 31 hits
cd08556	ENZ	DC_0002	379	612	InterPro cluster	GDPD	Central	High	Text match	63 proteins / 165 hits
IPR030395	ENZ	DC_0002	381	612	InterPro cluster	Glycerophosphodiester phosphodiesterase domain	Central	High	Text match	63 proteins / 165 hits
PS50007	ENZ	DC_0217	385	429	InterPro cluster	Phosphatidylinositol-specific phospholipase X-box domain profile.	Central	High	Text match	10 proteins / 10 hits
G3DSA:2.60.120.260	STR	G3DSA:2.60.120.260	670	811	Merged direct domain	G3DSA:2.60.120.260	Central	Low	Positional only	264 proteins / 264 hits
IPR008979	STR	IPR008979	686	783	Merged direct domain	Galactose-binding-like domain superfamily	Central	Low	Positional only	24 proteins / 24 hits

Proteins with similar domain architecture

Segmented into three structural domains: N-terminal, central, and C-terminal.

Domain layout

YP_009098726.1

1 878 aa

Domain	Start	End	Length (AA)	Confidence
N-terminal	1	371	371	0,9413
Central domain	372	772	402	0,8438
C-terminal	773	878	105	0,0922

Note: Constraints were applied during segmentation.
Fixed 10 C-terminal predictions appearing before Central domain

N-terminal Central domain C-terminal

View these domains on the 3D structure via the Color by → Tail spike option in the Tertiary structure section below.

Phage

Lactobacillus phage Ld3 [NCBI] · taxon 1500735

Viruses Duplodnaviria Heunggongvirae Uroviricota Caudoviricetes

Host

Lactobacillus delbrueckii [NCBI] · taxon 1584

cellular organisms Bacteria Bacillati Bacillota Bacilli Lactobacillales

Genbank protein accession

YP_009098726.1 [NCBI]

Genbank nucleotide accession

NC_025421 [NCBI]

CDS location

range 12062 -> 14698
strand +

CDS

ATGATCGAACCAGAAGTTAAGCTTTTGATGTTGAAGGGCGACAAAGGCGATGGCCTTTCAGACGATGACATGCAAAAGGTAAAGTCGTTAATTGACTCCAATGTTGACGAGGCAAAAGGAAGTCTCAGCAAAGCATTAAGCGCACAGCTTGAAGTTGCGAGAATTGACGACATGAACCAAACCAAGTCGTTTGTCACTTCCAGCGTGGTTGATGCGAAGGAAGACATTAACAGAACAGTAAATGCGAGAATTGCGGGTGCGAGATTTATTCCGAAGGTATTCGCCAATGCTAACGATCTGAAAAAGGCGTACCCTAAAGGACAAGATGGCATTTTCGTTGTAGCAGATACCGGGCACATGTGGTTATTCGTCAACGGTGCTTGGAAAGATTGTGGAGTATATCAAACCCCAGTTCAGAAAAATCAGACGTTTACGTTCCAGCCTTCTAAGGATGGCTTCCCGAATTATGATACGTCAACGCACGTGATCGACTTTAGATGTATTACAGACAGTGCACAGATCACGCTTCCAAGCGGTGATGCTTACAGGATTCCTTATATGGCTAAGGTGGAGGTCAACTGGGAATTTACCACGGGTGTCATTATCTTTGACATCAACACCTTATCCCTCATTTCACAGTCTCCGTATGTTCCCATCAACGCAAATCAGTACGTCTTGGCTAGTTATAGAAGATACCCAGCTGAAGGAGACCGACTTACTTGGAACGGTGTTTTAGCGCAAAGTCTGCTGATTAATGGGGAGACCTATATGGAGCAGAACGTTCAGTTCGTTCCATCAAAAGACGGCTTACCATACTACGATAGCAAGAGGAAGATCATTAACTTCAATTGCCTTACTGACCAAGCCTACGTCTCTTACCAAAATCGCAATTATACGTTGCCACATAATGCTACTGTCGCTCTTGACTTCTCCCGTGGTGTAACTTCCTTCGACATCTTAATTGACATGAAGACGGGGGAGGTCAGCACCMACGACAAGTATCGTTTGTTAACGCCAAATATGGACAAAGTTTCATTTGCGACCGTTAGACTTTTGAATAATGGCAAAGTTGCGATTGAAGGCATTAAATTGCTAGATGAGGTTAGCCCGAAGAATAGCACTGGAATTCTGCCAATCGCACACCGTGGTCTTAATTCAATTGCTCCGGAGGAAAGCTTGGAGGCCTATTCTTTGGCCGTAAGAAGCGGCTACAAAGATATTGAGTGCGACATTTACTTTACGGAAGACGGCATTCCTGTTTTGCACCATGATGCTACTATTAACAGTATTGCCCGCAATTCARAKGGTACAGAGTTGACGCAACCAGTAAAAATTGGCGAACGAATGTTAGTAGAATTAAACGCCTATGACTACGGGATTTATAAGTCTGAGATCTTCAAAGGCCTCAATATTTGCACATTTGAAGACATCATCAAGTTCGCTCGTAGAACCGGGGCAAGAGTTCATGCTGAGCTGAAGCAACATTATACCGATGAACAATGCCAAGTGCTTTTAGACATCGTCTCTAAGTATAGAATGGCGAACAAGGTAGGGTGGCAAGCATTTGATCATTCCAGTTTGGATTATATTTCTAGTCATGACGAAAATGCTCAGTTGGAGTTGCTAGCTGGGATCATTACCGATGATTTAATTGCGGACGGCAAAAAGAGGCTTAATGGCAAGAGAAAAGTTGTTCTTAGTGTAGGGCAAGGCGTCACTCAACGATTAGTTGACCAAGCTCATTCCGAAGGGTTCGATGTTTACGTTTGGACTGTCGATGACATTGATGGGGCTAAGAAGTTGATAAACATGGGCGTAGACGGGATCATGACCAACGGCTACATTGATTTGCCGAATTTGCTGAGTAACGAATATGACTTGCCAGTTTCTAATTCTCCTGCGGTTGATTTAATAACTAATTTAACTTGGTACAAGAACACGTACATTGTCGTTCAGAGCTACATATACAATCTGCTTGATGGTATGAGAGACGGAGAAGAGCGCACATTTGCCCCCGCACCTGGTGAAACTTGGTTTACCTCTTTTATTAATCTTAAAAAGAAAACATACACTCTCTCCTTTGACGCAAAATCAACGGTAAACAATGACAACCTTACCACTCTCATGAGACATGTCGAGATGGGGGACAACAATTTTAATTGCGTAACTGAGGTTAATGGAACTCCAGTCGCTCCTTCAAGTTGGGGGGACAATGCCTTTAAATTATCGGATAGCTACACTCGCTACTCGGTAAGGTATACTGCTAACCCAGATGACAAGCCGTTCCAAATTGGATTTAGAACAAGCTCCTCAACGGGCACAGTAAGTATCAAAAATATTCGGCTTACGGCAGGAACGGATGAAAAGTGGGGAGCAACGATTTGCATGCTGGCATATTTAGACGTTAATCAAGGTGAGACGTACTATGCAAGACAATTAGAAGACGGGGCATGGCTGAATGCACCAATGGTAGTTACAGACGACAATCTTGATCCTGTCCCAGCAACCATAATTACTGACGACAAAAACCATACGTTTAAGATCACAATTCCAAGTGGAGGCACGAAGCTTTTCTTAAACTCCAATGAAACTCTCGTTCCAACTGTATTCAAGCAATCCGCTTCAAGCGGCATTTAA

Protein

Domains

Tail Spike Domain Segmentation

Taxonomy

Coding sequence (CDS)

Genome Context

Tertiary structure

Predicted Aligned Error (PAE)