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KM209248.1__AIM51494.1__HQ82_0237__00001

Bact-Vir

KM209248.1__AIM51494.1__HQ82_0237__00001

Identity

Accession:
KM209248 ↗
Kingdom:
phage

Quality

88.3 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Pantevenvirales› Ackermannviridae› Dickeya_phage_phiDP10.3

TaxID: 1542132

Cluster

Singleton — not in a non-trivial cluster

3D Structure

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Domains

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

D1 high residues 17-63
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF16075.11 best DUF4815 30.2 2.30e-07 100.0% 7.7%
CATH (1)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1pu1A00 3.30.300.100 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › MTH677-like 0.70 54.0 4.30e-01 83.0% 72.5%
ECOD (4)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3971018 4166.1.1.1 ↗ beta sandwiches › Lactophage receptor-binding protein N-terminal domain-like › Lactophage receptor-binding protein N-terminal domain-like › Lactophage receptor-binding protein N-terminal domain-like › T6SS_VasE 0.78 66.0 4.51e-01 97.9% 27.3%
3980438 4166.1.1.1 ↗ beta sandwiches › Lactophage receptor-binding protein N-terminal domain-like › Lactophage receptor-binding protein N-terminal domain-like › Lactophage receptor-binding protein N-terminal domain-like › T6SS_VasE 0.77 64.0 4.24e-01 93.6% 24.2%
3970216 4166.1.1.0 ↗ beta sandwiches › Lactophage receptor-binding protein N-terminal domain-like › Lactophage receptor-binding protein N-terminal domain-like › Lactophage receptor-binding protein N-terminal domain-like 0.76 68.0 4.44e-01 100.0% 100.0%
2390431 4166.1.1.1 ↗ beta sandwiches › Lactophage receptor-binding protein N-terminal domain-like › Lactophage receptor-binding protein N-terminal domain-like › Lactophage receptor-binding protein N-terminal domain-like › T6SS_VasE 0.74 66.0 4.34e-01 100.0% 34.9%
D2 high residues 68-169
PDB
Domain cluster: rep: IMGVR_UViG_3300026087_000110-3300026087-Ga0208113_10042681__D68-171
CATH (25)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4zgnB00 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.70 62.0 6.22e-01 95.1% 96.1%
1wb1A03 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.68 60.0 5.71e-01 95.1% 93.2%
2apoA03 3.30.70.3190 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.64 51.0 5.40e-01 97.1% 95.7%
6h8oA00 3.40.1310.20 Alpha Beta › 3-Layer(aba) Sandwich › Replication Protein E1; Chain: A, › 0.62 41.0 4.21e-01 96.1% 70.5%
3tfiA00 3.30.1360.120 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › Probable tRNA modification gtpase trme; domain 1 0.61 55.0 3.74e-01 99.0% 73.2%
2v9kA04 3.30.70.3190 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.61 53.0 5.24e-01 95.1% 98.2%
2yn3B03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.60 35.0 4.02e-01 87.3% 80.3%
5fiiB00 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.60 44.0 4.86e-01 97.1% 100.0%
2as9A02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.60 42.0 4.37e-01 88.2% 78.7%
4ckbD02 3.20.100.20 Alpha Beta › Alpha-Beta Barrel › mRNA Triphosphatase Cet1; Chain A › 0.60 41.0 3.31e-01 70.6% 54.6%
6hhuA01 2.60.40.1220 Mainly Beta › Sandwich › Immunoglobulin-like › 0.59 41.0 4.54e-01 91.2% 94.9%
2h41A00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.56 40.0 4.16e-01 88.2% 80.0%
3d3lA02 3.10.450.60 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.55 37.0 4.11e-01 87.3% 87.5%
2vbuA01 2.40.30.30 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Riboflavin kinase-like 0.55 41.0 3.88e-01 80.4% 83.1%
1q5yC00 3.30.70.1150 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT-like. Chain A, domain 2 0.54 41.0 4.46e-01 97.1% 98.8%
4fxdA05 3.90.1600.10 Alpha Beta › Alpha-Beta Complex › Palm domain of DNA polymerase › B family DNA polymerase, palm domain 0.54 40.0 3.83e-01 99.0% 67.5%
3k5iA03 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.54 41.0 3.32e-01 80.4% 89.4%
4aefA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.53 37.0 3.84e-01 91.2% 77.9%
4fl4F02 2.60.40.4130 Mainly Beta › Sandwich › Immunoglobulin-like › 0.53 40.0 3.47e-01 94.1% 51.6%
2ra1A04 2.60.40.1220 Mainly Beta › Sandwich › Immunoglobulin-like › 0.53 42.0 4.28e-01 92.2% 89.7%
1shyA02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.53 40.0 4.04e-01 93.1% 81.4%
1mkfA01 2.60.40.1330 Mainly Beta › Sandwich › Immunoglobulin-like › 0.52 41.0 3.29e-01 83.3% 57.8%
4it4E01 2.40.30.320 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › 0.52 39.0 3.84e-01 95.1% 73.7%
2rttA00 2.60.40.290 Mainly Beta › Sandwich › Immunoglobulin-like › 0.51 33.0 3.35e-01 96.1% 63.8%
6kxkB02 2.60.40.150 Mainly Beta › Sandwich › Immunoglobulin-like › C2 domain 0.50 43.0 4.00e-01 98.0% 100.0%
ECOD (50)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3786245 1.1.8.5 ↗ beta barrels › cradle loop barrel › RIFT-related › Aminomethyltransferase beta-barrel domain › tRNA_Me_trans_C 0.81 63.0 6.93e-01 92.2% 100.0%
4668791 1.1.8.4 ↗ beta barrels › cradle loop barrel › RIFT-related › Aminomethyltransferase beta-barrel domain › eIF2_C 0.74 61.0 6.10e-01 94.1% 85.7%
4944212 1.1.8.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Aminomethyltransferase beta-barrel domain 0.72 58.0 6.21e-01 94.1% 100.0%
4988964 1.1.8.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Aminomethyltransferase beta-barrel domain 0.70 55.0 6.00e-01 88.2% 100.0%
5046884 1.1.8.1 ↗ beta barrels › cradle loop barrel › RIFT-related › Aminomethyltransferase beta-barrel domain › GTP_EFTU_D3 0.70 58.0 6.15e-01 93.1% 100.0%
3266016 1.1.8.5 ↗ beta barrels › cradle loop barrel › RIFT-related › Aminomethyltransferase beta-barrel domain › tRNA_Me_trans_C 0.70 57.0 6.02e-01 87.3% 100.0%
5075927 1.1.8.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Aminomethyltransferase beta-barrel domain 0.69 56.0 6.04e-01 92.2% 100.0%
3566270 1.1.8.11 ↗ beta barrels › cradle loop barrel › RIFT-related › Aminomethyltransferase beta-barrel domain › GTP-eEF1A_C 0.69 57.0 6.02e-01 93.1% 98.9%
3689767 1.1.7.9 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › tRNA-synt_2c 0.69 52.0 4.86e-01 79.4% 68.0%
5055336 1.1.8.1 ↗ beta barrels › cradle loop barrel › RIFT-related › Aminomethyltransferase beta-barrel domain › GTP_EFTU_D3 0.68 56.0 5.93e-01 90.2% 97.8%
3219717 1.1.8.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Aminomethyltransferase beta-barrel domain 0.68 57.0 6.02e-01 93.1% 100.0%
5056905 1.1.7.28 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › HAS-barrel 0.68 48.0 5.12e-01 73.5% 88.9%
3210962 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.68 52.0 5.40e-01 82.4% 86.3%
4795088 1.1.7.21 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › RIBIOP_C 0.67 60.0 4.57e-01 98.0% 72.2%
3720023 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.67 48.0 4.89e-01 75.5% 82.0%
4886671 1.1.7.21 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › RIBIOP_C 0.67 60.0 5.28e-01 99.0% 86.7%
3636050 1.1.8.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Aminomethyltransferase beta-barrel domain 0.66 55.0 5.30e-01 91.2% 91.3%
4961202 1.1.8.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Aminomethyltransferase beta-barrel domain 0.65 51.0 5.44e-01 88.2% 95.6%
3742317 1.1.8.2 ↗ beta barrels › cradle loop barrel › RIFT-related › Aminomethyltransferase beta-barrel domain › RIBIOP_C 0.65 59.0 5.17e-01 100.0% 89.3%
5001586 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.65 46.0 4.93e-01 80.4% 84.4%
4952364 1.1.7.28 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › HAS-barrel 0.64 45.0 4.92e-01 73.5% 88.2%
5078309 11.21.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Ig-like domain in tailspike protein › Ig-like domain in tailspike protein 0.64 43.0 4.70e-01 75.5% 87.5%
3407712 1.1.8.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Aminomethyltransferase beta-barrel domain 0.63 54.0 5.57e-01 95.1% 96.9%
4967933 1.1.7.14 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › CTP-dep_RFKase 0.63 46.0 4.30e-01 77.5% 80.0%
3665168 1.1.8.11 ↗ beta barrels › cradle loop barrel › RIFT-related › Aminomethyltransferase beta-barrel domain › GTP-eEF1A_C 0.62 55.0 5.20e-01 96.1% 96.7%
4071075 1.1.8.1 ↗ beta barrels › cradle loop barrel › RIFT-related › Aminomethyltransferase beta-barrel domain › GTP_EFTU_D3 0.62 54.0 5.41e-01 95.1% 93.3%
4026033 1.1.15.1 ↗ beta barrels › cradle loop barrel › RIFT-related › PK beta-barrel domain-like › PK 0.62 49.0 4.77e-01 86.3% 77.3%
3991253 4081.1.1.0 ↗ beta sandwiches › Baculovirus p35 protein-related › Baculovirus p35 protein-related › Baculovirus p35 protein-related 0.60 39.0 3.36e-01 84.3% 40.6%
3256508 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.60 42.0 4.52e-01 94.1% 88.2%
5011536 1.1.5.17 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › DUF447_N 0.59 46.0 4.26e-01 83.3% 84.6%
5033801 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.58 47.0 4.55e-01 93.1% 79.1%
4431701 1.1.7.11 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › RimM 0.58 40.0 4.16e-01 78.4% 77.9%
3384464 304.127.1.0 ↗ a+b two layers › Alpha-beta plaits › Notch heterodimerization domain › Notch heterodimerization domain 0.57 51.0 4.71e-01 97.1% 98.5%
5032717 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.55 45.0 4.32e-01 91.2% 81.7%
4952910 244.1.1.0 ↗ a+b two layers › FAD-linked reductases, C-terminal domain-like › FAD-linked reductases-C › FAD-linked reductases-C 0.55 46.0 4.69e-01 97.1% 94.0%
3253399 11.1.4.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like 0.55 43.0 3.82e-01 83.3% 98.6%
3390626 1.1.8.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Aminomethyltransferase beta-barrel domain 0.55 36.0 4.15e-01 71.6% 100.0%
4929611 304.4.1.0 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel 0.54 42.0 4.51e-01 94.1% 100.0%
4117582 1.1.7.10 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › Flavokinase 0.54 43.0 4.05e-01 97.1% 71.2%
3275858 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.53 41.0 4.30e-01 93.1% 89.5%
5036163 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.53 45.0 4.34e-01 94.1% 85.2%
3690842 12.6.1.0 ↗ beta sandwiches › Glycosyl hydrolase domain-like › Glycoside hydrolase family 127 middle domain-related › Glycoside hydrolase family 127 middle domain-related 0.53 33.0 3.57e-01 70.6% 77.5%
4032883 1.1.13.3 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › Phage_H_T_join 0.52 44.0 4.39e-01 97.1% 88.6%
3368419 11.2.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain 0.52 42.0 3.82e-01 91.2% 86.9%
3287683 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.51 41.0 4.14e-01 87.3% 89.5%
3864051 12.5.1.0 ↗ beta sandwiches › Glycosyl hydrolase domain-like › ZU5/Nup98-C/GAIN-B autoproteolytic domain-related › ZU5/Nup98-C/GAIN-B autoproteolytic domain-related 0.51 38.0 3.25e-01 86.3% 48.5%
3239602 11.2.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain 0.50 44.0 3.98e-01 98.0% 93.1%
3702000 11.2.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain 0.50 42.0 3.61e-01 93.1% 67.6%
3250196 11.1.1.29 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › TIG 0.50 41.0 3.93e-01 92.2% 76.7%
3581700 11.2.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › C2 0.50 43.0 3.89e-01 95.1% 95.7%
D3 medium residues 197-272
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF16075.11 best DUF4815 42.4 4.40e-11 98.7% 11.6%
CATH (6)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1pu4A03 2.70.98.20 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › Copper amine oxidase, catalytic domain 0.56 45.0 2.87e-01 89.5% 33.9%
6mkbA00 2.60.120.40 Mainly Beta › Sandwich › Jelly Rolls › 0.53 43.0 3.44e-01 90.8% 69.4%
1n9eA01 2.70.98.20 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › Copper amine oxidase, catalytic domain 0.52 43.0 2.63e-01 92.1% 33.8%
1w3fA02 2.170.15.10 Mainly Beta › Beta Complex › Proaerolysin; Chain A, domain 3 › Proaerolysin, chain A, domain 3 0.51 36.0 2.90e-01 90.8% 35.2%
1novA00 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.51 42.0 2.88e-01 94.7% 81.6%
1f8vC00 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.50 41.0 2.80e-01 92.1% 81.7%
ECOD (3)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5075135 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.56 38.0 3.15e-01 71.1% 79.3%
3967397 7503.1.1.8 ↗ a/b three-layered sandwiches › TolB, N-terminal domain › TolB, N-terminal domain › TolB, N-terminal domain › DUF4136 0.53 39.0 3.13e-01 77.6% 67.3%
3802808 4.23.1.2 ↗ beta barrels › SH3 › Dom34/Pelota N-terminal domain-like › Dom34/Pelota N-terminal domain-like › PF26356 0.52 42.0 3.55e-01 94.7% 93.8%