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KM514685.1__AIS73928.1__LDL_070__00070

Bact-Vir

KM514685.1__AIS73928.1__LDL_070__00070

Identity

Accession:
KM514685 ↗
Kingdom:
phage

Quality

82.5 mean pLDDT

3D Structure

Domains

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

D1 medium residues 1-144_198-210_228-243
PDB
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF27337.1 best YorF 136.6 1.50e-39 85.5% 48.7%
CATH (25)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
5odnC00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.86 50.0 6.45e-01 73.4% 98.0%
2vw9B00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.83 50.0 6.43e-01 72.3% 100.0%
2cwaA01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.83 47.0 5.88e-01 76.9% 89.0%
4gs3A00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.81 43.0 5.90e-01 72.8% 100.0%
3f2bA01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.80 41.0 5.46e-01 71.7% 89.6%
3ulpD00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.79 52.0 6.32e-01 75.1% 100.0%
6rupA00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.78 50.0 6.17e-01 75.1% 100.0%
3en2A00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.78 42.0 5.73e-01 72.3% 100.0%
1se8A02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.75 48.0 5.95e-01 76.9% 100.0%
3k8aB00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.75 44.0 5.62e-01 76.3% 98.1%
3fhwA00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.75 42.0 5.46e-01 71.7% 96.0%
1v1qA00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.74 45.0 5.57e-01 74.0% 95.5%
2vl6A02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.74 43.0 5.31e-01 71.1% 89.3%
2k5vA00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.73 37.0 4.84e-01 72.3% 85.7%
8aa9A01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.71 41.0 5.02e-01 75.7% 86.8%
3rd4B00 2.40.50.660 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.64 32.0 4.41e-01 72.8% 98.8%
3f6gA02 3.30.160.340 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.62 25.0 4.03e-01 74.0% 100.0%
2f86B00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.60 30.0 3.39e-01 91.9% 61.2%
1pfsA00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.57 28.0 3.86e-01 70.5% 100.0%
3h51A00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.54 29.0 3.14e-01 90.2% 59.2%
3gzrB00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.53 29.0 3.24e-01 89.6% 65.2%
3hx8A00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.53 28.0 3.21e-01 85.0% 67.2%
2vf9A00 3.30.380.10 Alpha Beta › 2-Layer Sandwich › MS2 Viral Coat Protein › MS2 Viral Coat Protein 0.52 27.0 3.07e-01 86.7% 64.1%
2gtlM02 2.40.128.620 Mainly Beta › Beta Barrel › Lipocalin › 0.50 30.0 3.15e-01 80.9% 60.2%
1h2iA01 3.30.390.80 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › DNA repair protein Rad52/59/22 0.50 34.0 3.68e-01 97.7% 80.4%
ECOD (50)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4137219 2.1.1.6 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB 0.87 51.0 6.67e-01 72.8% 100.0%
4680392 2.1.1.6 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB 0.85 51.0 6.36e-01 74.6% 94.5%
4032979 2.1.1.6 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB 0.84 50.0 6.25e-01 72.8% 92.7%
4277262 2.1.1.6 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB 0.84 51.0 6.19e-01 73.4% 89.0%
3839607 2.1.1.6 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB 0.83 51.0 6.18e-01 73.4% 90.7%
4170378 2.1.1.6 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB 0.83 51.0 6.24e-01 74.0% 93.0%
4478491 2.1.1.6 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB 0.82 50.0 6.37e-01 72.3% 100.0%
3375524 2.1.1.229 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › PF30940 0.82 49.0 5.90e-01 74.6% 86.7%
3616890 2.1.1.6 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB 0.82 51.0 6.12e-01 74.0% 93.0%
4044404 2.1.1.6 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB 0.80 49.0 6.16e-01 70.5% 99.0%
2330653 2.1.1.6 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB 0.79 42.0 5.69e-01 73.4% 95.7%
4047115 2.1.1.6 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB 0.78 46.0 5.91e-01 71.7% 100.0%
2035523 2.1.1.6 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB 0.78 50.0 6.15e-01 76.9% 99.1%
2541776 2.1.1.6 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB 0.78 49.0 6.10e-01 76.3% 100.0%
3741507 2.1.1.6 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB 0.77 45.0 5.75e-01 71.7% 99.0%
3716709 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.76 48.0 5.62e-01 73.4% 87.8%
3995685 2.1.1.6 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB 0.76 47.0 5.85e-01 74.0% 98.2%
3690510 2.1.1.6 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB 0.76 48.0 5.82e-01 75.7% 98.2%
4930095 2.1.1.15 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › tRNA_anti-codon 0.75 42.0 5.28e-01 85.0% 87.3%
4238279 2.1.1.6 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB 0.75 48.0 5.76e-01 75.1% 95.7%
381191 2.1.1.122 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB_1 0.75 44.0 5.62e-01 76.3% 98.1%
3215667 2.1.1.6 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB 0.75 48.0 5.75e-01 75.1% 93.3%
3603253 2.1.1.15 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › tRNA_anti-codon 0.75 41.0 5.26e-01 75.7% 89.5%
3448049 2.1.1.229 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › PF30940 0.74 44.0 5.61e-01 74.0% 97.1%
4974920 2.1.1.76 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › REPA_OB_2 0.74 40.0 5.18e-01 71.7% 91.0%
5020456 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.74 43.0 5.30e-01 86.1% 90.0%
4068016 2.1.1.122 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB_1 0.73 45.0 5.55e-01 74.6% 99.0%
4084495 2.1.1.6 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB 0.73 44.0 5.46e-01 73.4% 97.1%
3924081 2.1.1.6 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB 0.73 52.0 5.78e-01 76.9% 90.0%
4122961 2.1.1.122 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB_1 0.73 43.0 5.45e-01 72.8% 100.0%
5036292 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.73 40.0 4.95e-01 72.8% 84.5%
3365669 2.1.1.229 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › PF30940 0.73 46.0 5.68e-01 76.3% 100.0%
5050058 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.72 43.0 4.28e-01 76.3% 57.1%
5066012 2.1.1.123 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › CDC24_OB3 0.72 43.0 5.24e-01 75.7% 91.8%
3703275 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.71 46.0 5.53e-01 71.7% 97.4%
4929019 2.1.1.111 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › Ssb-like_OB 0.70 36.0 4.80e-01 71.1% 90.5%
3491964 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.70 50.0 5.71e-01 73.4% 96.9%
3599731 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.69 46.0 4.52e-01 70.5% 63.0%
3604100 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.69 48.0 4.67e-01 97.7% 64.6%
159268 2.1.1.6 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB 0.66 61.0 5.70e-01 97.1% 99.0%
3588024 2.12.1.1 beta barrels › OB-fold › BC4932-like › BC4932-like › DUF1093 0.64 34.0 4.39e-01 74.6% 93.5%
5004284 2.1.1.111 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › Ssb-like_OB 0.63 43.0 4.51e-01 85.5% 75.0%
3279068 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.63 36.0 4.45e-01 72.3% 88.2%
3808110 2.1.1.130 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › DUF223 0.59 42.0 4.51e-01 90.2% 84.0%
3724001 4099.1.1.0 a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like 0.59 26.0 3.03e-01 85.0% 53.8%
3719166 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.57 37.0 4.28e-01 73.4% 91.2%
2033779 243.1.1.28 a+b two layers › Cystatin-like › NTF2-like › NTF2-like › DUF4440 0.53 28.0 3.25e-01 89.6% 67.7%
3301111 331.3.1.25 a+b two layers › TBP-like › Bet v1-like › Bet v1-like › PaO 0.53 26.0 2.91e-01 84.4% 57.8%
4422543 325.1.7.0 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif 0.52 24.0 3.29e-01 79.2% 84.4%
1758564 69.1.1.2 beta complex topology › Hedgehog/intein › Hedgehog/intein › Hint › Hom_end_hint 0.52 27.0 2.76e-01 85.0% 47.7%
D2 medium residues 145-197_244-269
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF27337.1 best YorF 36.1 6.50e-09 74.7% 16.9%
CATH (15)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1w0pA01 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.60 44.0 3.40e-01 77.2% 57.6%
4oddA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.60 50.0 4.06e-01 91.1% 83.9%
1a31A03 3.90.15.10 Alpha Beta › Alpha-Beta Complex › Topoisomerase I; Chain A, domain 3 › Topoisomerase I; Chain A, domain 3 0.60 41.0 3.34e-01 70.9% 56.0%
1fguB02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.59 46.0 4.04e-01 86.1% 81.5%
3fdwA00 2.60.40.150 Mainly Beta › Sandwich › Immunoglobulin-like › C2 domain 0.58 41.0 3.58e-01 75.9% 93.1%
1eqtA00 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.57 35.0 3.81e-01 75.9% 73.1%
4joiC00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.56 39.0 3.42e-01 72.2% 63.6%
4ntqB00 3.30.2450.20 Alpha Beta › 2-Layer Sandwich › Secreted effector protein pipB2 fold › 0.55 39.0 3.22e-01 74.7% 95.2%
2gaiA03 2.70.20.10 Mainly Beta › Distorted Sandwich › Topoisomerase I; domain 3 › Topoisomerase I, domain 3 0.53 37.0 3.23e-01 72.2% 78.0%
4bg7A00 2.30.31.10 Mainly Beta › Roll › Transcriptional Co-activator pc4; Chain A › Transcriptional Coactivator Pc4; Chain A 0.53 40.0 3.78e-01 100.0% 66.3%
3qldA01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.53 38.0 3.21e-01 78.5% 98.0%
2g7hA01 3.30.160.460 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.52 38.0 3.93e-01 100.0% 82.9%
2ablA02 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.51 36.0 3.45e-01 75.9% 73.2%
3f4lA02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.51 35.0 2.59e-01 70.9% 70.0%
4i8oA01 3.30.310.240 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › Bacterial toxin RNase RnlA/LsoA, N-terminal domain 0.50 32.0 3.14e-01 91.1% 58.4%
ECOD (25)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3701347 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.62 43.0 2.82e-01 72.2% 24.4%
3841771 277.1.1.1 a+b two layers › PX domain › PX domain › PX domain › PX 0.59 41.0 3.37e-01 72.2% 66.0%
2123689 881.1.1.10 a+b three layers › Mog1p/PsbP-like › Mog1p/PsbP-like › Mog1p/PsbP-like › Tli4_N 0.58 41.0 3.44e-01 73.4% 74.6%
3965228 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.57 40.0 3.82e-01 73.4% 91.6%
3678038 2.1.1.76 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › REPA_OB_2 0.56 39.0 4.02e-01 74.7% 77.3%
3170899 7502.1.1.0 a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS 0.56 36.0 3.32e-01 72.2% 48.6%
3874674 214.1.1.7 a+b two layers › SH2 › SH2 › SH2 › SH2_1 0.55 41.0 3.59e-01 79.7% 64.0%
3432830 101.1.1.0 alpha arrays › HTH › HTH › Three-helical HTH 0.54 44.0 2.74e-01 88.6% 94.1%
4463884 214.1.1.1 a+b two layers › SH2 › SH2 › SH2 › SH2 0.54 40.0 3.59e-01 79.7% 54.8%
3509864 277.1.1.1 a+b two layers › PX domain › PX domain › PX domain › PX 0.54 37.0 3.27e-01 72.2% 78.4%
3931076 214.1.1.0 a+b two layers › SH2 › SH2 › SH2 0.54 38.0 3.40e-01 75.9% 72.5%
3226466 214.1.1.1 a+b two layers › SH2 › SH2 › SH2 › SH2 0.54 39.0 3.38e-01 78.5% 50.0%
4958309 2484.1.1.199 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Transposase_mut 0.53 44.0 3.42e-01 97.5% 93.2%
4959188 2484.1.1.199 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Transposase_mut 0.53 44.0 3.44e-01 97.5% 88.0%
4958656 2484.1.1.199 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Transposase_mut 0.53 44.0 3.11e-01 96.2% 72.9%
4643206 2484.1.1.199 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Transposase_mut 0.53 43.0 3.48e-01 97.5% 82.8%
3221045 243.1.1.75 a+b two layers › Cystatin-like › NTF2-like › NTF2-like › PF26530 0.52 36.0 3.04e-01 97.5% 42.2%
3952404 2484.1.1.199 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Transposase_mut 0.51 38.0 3.21e-01 81.0% 64.0%
4530535 2484.1.1.199 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Transposase_mut 0.51 42.0 2.97e-01 96.2% 72.6%
5040972 295.1.1.0 a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain 0.51 39.0 4.06e-01 98.7% 88.0%
4534466 284.1.3.0 a+b two layers › FKBP-like › FKBP-like › WNK1 autoinhibitory domain 0.51 36.0 3.45e-01 74.7% 70.5%
3986557 2484.1.1.199 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Transposase_mut 0.51 36.0 3.27e-01 75.9% 87.0%
None 0.50 38.0 2.53e-01 86.1% 95.1%
3647885 5.1.3.142 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › Beta-prop_AT5G49610-like 0.50 41.0 2.80e-01 92.4% 29.2%
1519176 5.1.3.5 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › HN 0.50 40.0 2.64e-01 92.4% 87.3%