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MW824391.1__QZI91417.1__PODOV084v1_p0038__00038

Bact-Vir

MW824391.1__QZI91417.1__PODOV084v1_p0038__00038

Identity

Accession:
MW824391 ↗
Kingdom:
phage

Quality

86.9 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Vibrio_phage_340E47.2

TaxID: 2859323

Cluster

View cluster (9 members)

3D Structure

Download PDB Download Scores JSON

Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 medium residues 2-89
PDB
Domain cluster: representative
CATH (25)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
7afrX02 2.30.30.180 Mainly Beta › Roll › SH3 type barrels. › Ribosome maturation factor RimP, C-terminal domain 0.78 50.0 5.82e-01 96.6% 95.0%
3fb9B00 2.30.30.100 Mainly Beta › Roll › SH3 type barrels. › 0.72 54.0 5.56e-01 98.9% 83.3%
2vb6A01 2.30.30.360 Mainly Beta › Roll › SH3 type barrels. › Myosin S1 fragment, N-terminal 0.71 39.0 4.82e-01 85.2% 87.0%
1ib8A02 2.30.30.180 Mainly Beta › Roll › SH3 type barrels. › Ribosome maturation factor RimP, C-terminal domain 0.71 50.0 5.59e-01 98.9% 95.5%
4ii1A02 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.71 44.0 5.33e-01 100.0% 98.2%
1wjrA00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.71 48.0 4.22e-01 96.6% 48.0%
4c5eC02 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.70 44.0 4.34e-01 95.5% 58.3%
2ckkA02 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.69 43.0 5.09e-01 92.0% 96.5%
3feoB02 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.66 42.0 4.36e-01 95.5% 68.7%
1ts9A00 2.30.30.210 Mainly Beta › Roll › SH3 type barrels. › Ribonuclease P/MRP, subunit p29 0.62 41.0 3.96e-01 98.9% 59.2%
2l5pA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.61 53.0 4.26e-01 97.7% 69.7%
2gtlO02 2.40.128.620 Mainly Beta › Beta Barrel › Lipocalin › 0.59 50.0 4.17e-01 95.5% 74.2%
1wczA01 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.58 42.0 3.89e-01 76.1% 72.2%
8aimG01 3.10.450.20 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › Bacteriophage PBS2, uracil-glycosylase inhibitor 0.57 38.0 4.01e-01 70.5% 76.5%
1qftB00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.56 49.0 4.04e-01 100.0% 73.4%
3k67A00 3.10.129.10 Alpha Beta › Roll › Thiol Ester Dehydrase; Chain A › Hotdog Thioesterase 0.54 39.0 3.27e-01 76.1% 82.7%
4boeA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.53 45.0 3.83e-01 96.6% 76.0%
1pbyA02 2.40.128.120 Mainly Beta › Beta Barrel › Lipocalin › Quinohemoprotein amine dehydrogenase alpha subunit, domain 2 0.53 44.0 4.18e-01 94.3% 95.3%
4kh8A01 2.40.128.540 Mainly Beta › Beta Barrel › Lipocalin › Domain of unknown function DUF4822 0.52 45.0 3.70e-01 97.7% 71.1%
7obmA01 2.130.10.120 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › Prolyl oligopeptidase, N-terminal domain 0.52 44.0 3.10e-01 97.7% 92.5%
2gc9B00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.52 44.0 3.66e-01 96.6% 90.7%
3rwxA02 2.40.128.350 Mainly Beta › Beta Barrel › Lipocalin › 0.51 42.0 3.79e-01 95.5% 96.2%
2ec1A00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.51 40.0 3.76e-01 90.9% 83.9%
1iwmA00 2.50.20.10 Mainly Beta › Clam › outer membrane lipoprotein receptor (LolB), chain A › Lipoprotein localisation LolA/LolB/LppX 0.51 43.0 3.49e-01 96.6% 90.4%
3lhnA00 2.40.128.640 Mainly Beta › Beta Barrel › Lipocalin › 0.51 42.0 4.03e-01 96.6% 96.3%
ECOD (63)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3603357 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.79 46.0 5.66e-01 94.3% 92.7%
3217772 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.77 46.0 4.69e-01 93.2% 61.2%
3625264 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.75 44.0 4.28e-01 88.6% 53.7%
3929373 4.1.1.233 ↗ beta barrels › SH3 › SH3 › SH3 › Myosin_VII_N 0.75 49.0 5.74e-01 100.0% 98.3%
4995784 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.74 48.0 5.19e-01 96.6% 78.7%
171891 4.1.1.110 ↗ beta barrels › SH3 › SH3 › SH3 › Tudor_FRX1 0.73 43.0 5.17e-01 90.9% 92.7%
3928136 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.72 47.0 5.56e-01 96.6% 98.3%
3595169 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.71 50.0 5.48e-01 90.9% 91.4%
4283343 4.1.1.97 ↗ beta barrels › SH3 › SH3 › SH3 › DUF150_C 0.71 56.0 5.85e-01 100.0% 92.5%
4015238 219.1.1.28 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › CHAP 0.71 45.0 4.01e-01 100.0% 45.6%
3275615 4.1.1.42 ↗ beta barrels › SH3 › SH3 › SH3 › Agenet 0.71 49.0 4.30e-01 100.0% 48.8%
3932484 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.70 48.0 5.53e-01 97.7% 98.4%
4251101 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.70 55.0 5.60e-01 100.0% 85.9%
3841414 4.1.1.42 ↗ beta barrels › SH3 › SH3 › SH3 › Agenet 0.69 46.0 5.09e-01 100.0% 85.7%
4069560 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.69 52.0 5.57e-01 100.0% 94.7%
3333322 4.1.1.42 ↗ beta barrels › SH3 › SH3 › SH3 › Agenet 0.69 45.0 3.92e-01 98.9% 43.7%
4228570 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.69 55.0 5.76e-01 100.0% 93.8%
3457106 4.1.1.42 ↗ beta barrels › SH3 › SH3 › SH3 › Agenet 0.68 46.0 5.16e-01 98.9% 92.3%
3601070 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.68 48.0 5.41e-01 93.2% 98.5%
4596087 4.1.1.97 ↗ beta barrels › SH3 › SH3 › SH3 › DUF150_C 0.68 53.0 5.67e-01 100.0% 97.3%
4625654 4.1.1.445 ↗ beta barrels › SH3 › SH3 › SH3 › Spore_GerQ 0.67 47.0 5.02e-01 97.7% 85.3%
3600139 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.67 54.0 5.03e-01 96.6% 69.1%
4073433 4.1.1.97 ↗ beta barrels › SH3 › SH3 › SH3 › DUF150_C 0.67 52.0 5.41e-01 100.0% 90.0%
3941170 4.1.1.237 ↗ beta barrels › SH3 › SH3 › SH3 › KOW4_SPT5 0.67 48.0 5.27e-01 98.9% 92.9%
3514556 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.66 45.0 4.94e-01 100.0% 87.1%
4484974 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.66 51.0 5.24e-01 100.0% 85.9%
3884661 4.1.1.382 ↗ beta barrels › SH3 › SH3 › SH3 › PF31078 0.66 52.0 4.80e-01 100.0% 67.3%
3459099 4.1.1.158 ↗ beta barrels › SH3 › SH3 › SH3 › DUF3444 0.65 52.0 4.92e-01 96.6% 71.4%
3319789 4.1.1.51 ↗ beta barrels › SH3 › SH3 › SH3 › SGF29_Tudor 0.65 48.0 4.91e-01 96.6% 81.2%
3240407 4.1.1.237 ↗ beta barrels › SH3 › SH3 › SH3 › KOW4_SPT5 0.65 46.0 5.09e-01 100.0% 94.3%
3924375 4.1.1.237 ↗ beta barrels › SH3 › SH3 › SH3 › KOW4_SPT5 0.65 47.0 4.98e-01 100.0% 88.0%
3807651 4.1.1.158 ↗ beta barrels › SH3 › SH3 › SH3 › DUF3444 0.65 54.0 5.03e-01 96.6% 71.8%
3598285 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.64 44.0 4.90e-01 100.0% 90.0%
4517901 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.64 56.0 5.45e-01 100.0% 87.4%
3703933 4.1.1.237 ↗ beta barrels › SH3 › SH3 › SH3 › KOW4_SPT5 0.63 44.0 5.02e-01 100.0% 98.5%
3357709 4.1.1.42 ↗ beta barrels › SH3 › SH3 › SH3 › Agenet 0.63 47.0 4.85e-01 96.6% 82.4%
3494683 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.62 43.0 4.72e-01 97.7% 90.0%
3719783 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.62 50.0 4.94e-01 94.3% 81.9%
3507003 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.62 46.0 4.92e-01 94.3% 93.3%
3834112 4.1.1.42 ↗ beta barrels › SH3 › SH3 › SH3 › Agenet 0.61 49.0 5.13e-01 92.0% 93.8%
3342814 4.1.1.42 ↗ beta barrels › SH3 › SH3 › SH3 › Agenet 0.61 52.0 5.06e-01 97.7% 84.2%
3268160 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.61 50.0 4.98e-01 100.0% 85.6%
3313139 4.1.1.42 ↗ beta barrels › SH3 › SH3 › SH3 › Agenet 0.60 51.0 4.00e-01 96.6% 45.7%
3601993 1.1.17.0 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 2 0.59 43.0 3.31e-01 76.1% 84.6%
3363448 4.1.1.140 ↗ beta barrels › SH3 › SH3 › SH3 › Pif1_2B_dom 0.59 48.0 4.94e-01 96.6% 90.6%
3266626 9.3.1.0 ↗ beta barrels › Lipocalins/Streptavidin › Quinohemoprotein amine dehydrogenase A chain, domain 3-like › Quinohemoprotein amine dehydrogenase A chain, domain 3-like 0.58 52.0 5.07e-01 100.0% 92.9%
3541772 220.1.1.1 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.58 47.0 4.17e-01 88.6% 72.3%
4937587 219.1.1.0 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases 0.58 49.0 3.97e-01 100.0% 48.5%
3486056 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.58 47.0 3.97e-01 88.6% 61.6%
3201755 219.1.1.93 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › DUF6540 0.56 44.0 3.55e-01 97.7% 43.5%
3300226 4.1.1.140 ↗ beta barrels › SH3 › SH3 › SH3 › Pif1_2B_dom 0.56 46.0 4.81e-01 98.9% 96.2%
None — 0.56 48.0 3.08e-01 100.0% 20.3%
3816455 4.1.1.140 ↗ beta barrels › SH3 › SH3 › SH3 › Pif1_2B_dom 0.56 48.0 4.24e-01 100.0% 64.8%
3691812 220.1.1.32 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › Sec3-PIP2_bind 0.56 44.0 3.56e-01 87.5% 61.7%
3894142 220.1.1.1 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.56 44.0 3.88e-01 87.5% 79.3%
3618840 9.1.1.48 ↗ beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins › Lipocalin_10 0.56 48.0 3.70e-01 97.7% 55.7%
3302391 4.1.1.140 ↗ beta barrels › SH3 › SH3 › SH3 › Pif1_2B_dom 0.56 45.0 3.83e-01 90.9% 54.3%
3425872 4.1.1.140 ↗ beta barrels › SH3 › SH3 › SH3 › Pif1_2B_dom 0.55 48.0 4.83e-01 100.0% 92.2%
3480327 220.1.1.4 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › Ran_BP1 0.54 43.0 3.89e-01 88.6% 82.4%
3269834 220.1.1.95 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › VID27_PH 0.53 43.0 3.84e-01 88.6% 68.0%
4433014 71.1.1.2 ↗ beta meanders › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › LolA 0.50 42.0 3.40e-01 96.6% 79.5%
3170091 243.1.1.116 ↗ a+b two layers › Cystatin-like › NTF2-like › NTF2-like › PF29059 0.50 39.0 3.67e-01 85.2% 91.8%
5063188 1.1.5.33 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Trypsin_2 0.50 43.0 3.18e-01 96.6% 37.7%
D2 medium residues 93-137
PDB
Domain cluster: representative
CATH (11)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1b04A03 1.10.287.610 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.72 50.0 4.48e-01 73.3% 61.3%
4h10A00 4.10.280.10 Few Secondary Structures › Irregular › MYOD Basic-Helix-Loop-Helix Domain, subunit B › Helix-loop-helix DNA-binding domain 0.66 57.0 5.15e-01 97.8% 71.7%
1tf5A04 1.10.3060.10 Mainly Alpha › Orthogonal Bundle › Helical scaffold and wing domains of SecA › Helical scaffold and wing domains of SecA 0.66 52.0 3.47e-01 86.7% 39.6%
1a3qA01 2.60.40.340 Mainly Beta › Sandwich › Immunoglobulin-like › Rel homology domain (RHD), DNA-binding domain 0.65 49.0 3.31e-01 82.2% 24.6%
1is8A01 1.10.286.10 Mainly Alpha › Orthogonal Bundle › GTP Cyclohydrolase I; Chain A, domain 1 › GTP cyclohydrolase I, N-terminal domain 0.65 52.0 4.85e-01 93.3% 78.3%
4ciuA04 1.10.8.60 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.62 50.0 4.09e-01 97.8% 65.6%
1jeqA05 1.10.720.30 Mainly Alpha › Orthogonal Bundle › Transcription Termination Factor Rho, Rna-binding Domain; Chain A, Domain 1 › SAP domain 0.60 43.0 4.17e-01 91.1% 68.6%
3lulA01 3.30.470.10 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › Aminotransferase class 4, branched-chain amino acid transferase, N-terminal domain 0.60 47.0 3.58e-01 88.9% 67.9%
4jccA01 3.40.50.1980 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Nitrogenase molybdenum iron protein domain 0.59 54.0 3.52e-01 100.0% 25.6%
1e7lA02 1.10.720.10 Mainly Alpha › Orthogonal Bundle › Transcription Termination Factor Rho, Rna-binding Domain; Chain A, Domain 1 › 0.59 46.0 4.36e-01 93.3% 70.9%
1v66A00 1.10.720.30 Mainly Alpha › Orthogonal Bundle › Transcription Termination Factor Rho, Rna-binding Domain; Chain A, Domain 1 › SAP domain 0.58 45.0 4.02e-01 84.4% 100.0%
ECOD (9)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3744738 1016.1.1.3 ↗ alpha arrays › Dimerization domain in caprin-1 and PAN3 › Dimerization domain in caprin-1 and PAN3 › Dimerization domain in caprin-1 and PAN3 › PF26434 0.75 67.0 5.29e-01 100.0% 94.4%
3424514 606.1.1.0 ↗ alpha complex topology › Nop N-terminal domain › Nop N-terminal domain › Nop N-terminal domain 0.70 54.0 4.13e-01 100.0% 34.2%
4607154 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.69 54.0 3.86e-01 86.7% 30.4%
2602757 568.1.1.3 ↗ few secondary structure elements › p8-MTCP1-related › p8-MTCP1-related › p8-MTCP1-related › UPF0203 0.68 48.0 4.65e-01 77.8% 66.7%
4886437 6130.1.1.0 ↗ alpha complex topology › Selenocysteine synthase N-terminal domain › Selenocysteine synthase N-terminal domain › Selenocysteine synthase N-terminal domain 0.67 53.0 4.58e-01 86.7% 57.1%
5029782 601.7.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain 0.64 56.0 4.47e-01 100.0% 90.0%
3991948 2007.1.6.3 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Aminoacid dehydrogenase-like, N-terminal domain › ELFV_dehydrog_N 0.64 49.0 3.24e-01 86.7% 47.0%
4422279 6130.1.1.1 ↗ alpha complex topology › Selenocysteine synthase N-terminal domain › Selenocysteine synthase N-terminal domain › Selenocysteine synthase N-terminal domain › Se-cys_synth_N 0.62 52.0 4.41e-01 93.3% 58.7%
5051738 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.62 50.0 4.34e-01 88.9% 58.6%