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MT006237.1__QIG78232.1__BIBE0010001c01_00046__00046

Bact-Vir

MT006237.1__QIG78232.1__BIBE0010001c01_00046__00046

Identity

Accession:
MT006237 ↗
Kingdom:
phage

Quality

51.2 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Bifidobacterium_phage_BigBern1

TaxID: 2713246

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 medium residues 234-291
PDB
Domain cluster: representative
CATH (26)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1tj7A03 1.10.40.30 Mainly Alpha › Orthogonal Bundle › Ribonucleotide Reductase Protein R1; domain 1 › Fumarase/aspartase (C-terminal domain) 0.80 53.0 4.92e-01 72.4% 54.9%
3triA02 1.10.3730.10 Mainly Alpha › Orthogonal Bundle › ProC C-terminal domain-like fold › ProC C-terminal domain-like 0.78 58.0 4.82e-01 81.0% 55.3%
2ahrA02 1.10.3730.10 Mainly Alpha › Orthogonal Bundle › ProC C-terminal domain-like fold › ProC C-terminal domain-like 0.73 62.0 5.09e-01 94.8% 61.3%
1dofA03 1.10.40.30 Mainly Alpha › Orthogonal Bundle › Ribonucleotide Reductase Protein R1; domain 1 › Fumarase/aspartase (C-terminal domain) 0.73 42.0 4.30e-01 72.4% 58.9%
3g2bA00 1.10.10.1150 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Coenzyme PQQ synthesis protein D (PqqD) 0.72 50.0 4.28e-01 75.9% 46.7%
1ku9B01 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.70 46.0 4.03e-01 74.1% 44.8%
1yqgA02 1.10.3730.10 Mainly Alpha › Orthogonal Bundle › ProC C-terminal domain-like fold › ProC C-terminal domain-like 0.70 57.0 4.66e-01 93.1% 60.2%
4fzlA01 1.10.150.790 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › 0.70 53.0 4.70e-01 84.5% 55.2%
4p5aC00 3.30.1360.170 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › 0.70 51.0 3.44e-01 86.2% 20.6%
4a25B01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.68 59.0 4.30e-01 98.3% 45.3%
3mbhA00 3.40.1190.20 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Ribokinase 0.68 51.0 3.30e-01 84.5% 77.2%
1rr7A01 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.66 47.0 5.00e-01 79.3% 97.8%
3dfuA02 1.10.1040.40 Mainly Alpha › Orthogonal Bundle › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 › 0.66 53.0 4.55e-01 93.1% 82.8%
3vayA02 1.20.120.1600 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.65 45.0 4.06e-01 75.9% 49.4%
1tfeA02 1.10.286.20 Mainly Alpha › Orthogonal Bundle › GTP Cyclohydrolase I; Chain A, domain 1 › 0.64 44.0 4.71e-01 84.5% 95.6%
3l8rA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.64 47.0 4.02e-01 82.8% 48.0%
1x2nA01 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.63 43.0 4.27e-01 70.7% 68.3%
4jndA01 1.10.1740.220 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › 0.62 44.0 3.53e-01 77.6% 53.1%
2mpnA00 6.10.140.1340 Special › Helix non-globular › Helix Hairpins › 0.62 49.0 4.75e-01 91.4% 80.9%
1lrzA03 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.61 46.0 4.51e-01 81.0% 75.8%
2pjqA01 1.10.472.50 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › HD-domain/PDEase-like 0.61 43.0 3.84e-01 75.9% 55.1%
3um7A03 1.10.287.70 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.59 47.0 4.03e-01 94.8% 78.6%
3juwA00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.58 37.0 2.79e-01 79.3% 23.4%
1c20A00 1.10.150.60 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › ARID DNA-binding domain 0.57 38.0 3.07e-01 74.1% 32.0%
2x43S00 6.10.140.1430 Special › Helix non-globular › Helix Hairpins › 0.56 40.0 3.92e-01 84.5% 68.7%
2wpgA01 1.10.1740.10 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › RNA polymerase sigma factor, region 2, helix turn helix motif 0.56 40.0 3.62e-01 79.3% 60.9%
ECOD (28)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3520048 129.1.1.14 ↗ alpha arrays › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › DUF2520 0.78 62.0 4.95e-01 87.9% 49.6%
3881712 129.1.1.15 ↗ alpha arrays › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › P5CR_dimer 0.76 64.0 4.90e-01 94.8% 48.1%
3909952 129.1.1.0 ↗ alpha arrays › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like 0.76 67.0 4.18e-01 100.0% 36.4%
3286823 129.1.1.15 ↗ alpha arrays › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › P5CR_dimer 0.75 63.0 4.98e-01 93.1% 52.5%
4298932 103.1.1.6 ↗ alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain › RuvA_C 0.75 54.0 5.41e-01 82.8% 75.0%
5075474 164.1.1.1 ↗ alpha bundles › Chorismate mutase II › Chorismate mutase II › Chorismate mutase II › CM_2 0.75 55.0 4.97e-01 84.5% 57.5%
4133648 4953.1.1.4 ↗ beta barrels › L-aspartase C-terminal domain-like › L-aspartase C-terminal domain-like › L-aspartase C-terminal domain-like › ASL_C2 0.74 58.0 5.06e-01 84.5% 58.8%
4990523 129.1.1.15 ↗ alpha arrays › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › P5CR_dimer 0.72 60.0 5.12e-01 93.1% 61.1%
3587414 129.1.1.15 ↗ alpha arrays › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › P5CR_dimer 0.72 60.0 5.00e-01 94.8% 61.0%
5079587 2006.1.4.2 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › PIN 0.72 53.0 3.91e-01 79.3% 30.7%
5066382 164.1.1.1 ↗ alpha bundles › Chorismate mutase II › Chorismate mutase II › Chorismate mutase II › CM_2 0.72 53.0 4.61e-01 82.8% 51.1%
4935458 5054.1.1.6 ↗ alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels › TrkH 0.72 58.0 4.93e-01 89.7% 80.0%
3888953 4953.1.1.4 ↗ beta barrels › L-aspartase C-terminal domain-like › L-aspartase C-terminal domain-like › L-aspartase C-terminal domain-like › ASL_C2 0.72 55.0 4.82e-01 82.8% 57.6%
3255785 129.1.1.15 ↗ alpha arrays › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › P5CR_dimer 0.71 59.0 4.83e-01 94.8% 58.2%
4502561 283.1.1.3 ↗ a+b duplicates or obligate multimers › Creatinase/aminopeptidase-like › Creatinase/aminopeptidase › Creatinase/aminopeptidase › Pantoate_ligase 0.71 51.0 4.28e-01 84.5% 45.0%
4987541 611.8.1.0 ↗ alpha bundles › N-cbl like › C-terminal domain of E3 ubiquitin-protein ligase ARIH1 › C-terminal domain of E3 ubiquitin-protein ligase ARIH1 0.69 59.0 4.80e-01 94.8% 52.7%
1174242 129.1.1.15 ↗ alpha arrays › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › P5CR_dimer 0.69 57.0 5.66e-01 96.6% 91.8%
3643105 6026.1.1.1 ↗ alpha duplicates or obligate multimers › cwf21 domain › cwf21 domain › cwf21 domain › cwf21 0.68 53.0 3.96e-01 87.9% 34.2%
4972595 102.1.1.0 ↗ alpha arrays › HhH/H2TH › SAM/DNA-glycosylase › SAM domain-like 0.68 52.0 4.37e-01 86.2% 47.6%
2833148 1128.1.1.1 ↗ alpha bundles › LYR protein › LYR protein › LYR protein › Complex1_LYR 0.67 53.0 4.29e-01 87.9% 54.8%
5057501 5054.1.1.6 ↗ alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels › TrkH 0.67 55.0 4.77e-01 100.0% 83.0%
3932050 1128.1.1.1 ↗ alpha bundles › LYR protein › LYR protein › LYR protein › Complex1_LYR 0.65 50.0 4.17e-01 87.9% 55.5%
3344802 6158.1.1.0 ↗ alpha bundles › Nucleoporin p58/p45 helical region › Nucleoporin p58/p45 helical region › Nucleoporin p58/p45 helical region 0.63 50.0 4.86e-01 91.4% 86.2%
3967936 142.1.1.3 ↗ alpha complex topology › Sigma2 domain-like › Sigma2 domain of RNA polymerase sigma factors › Sigma2 domain of RNA polymerase sigma factors › Sigma70_r2 0.63 50.0 4.70e-01 91.4% 77.3%
3393634 592.6.1.2 ↗ alpha arrays › PWI domain-like › Pre-mRNA-splicing helicase BRR2 plug domain › Pre-mRNA-splicing helicase BRR2 plug domain › PF26582 0.62 47.0 3.87e-01 82.8% 68.6%
4065157 2005.1.1.25 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › HIGH_NTase1 0.61 43.0 2.59e-01 74.1% 11.2%
3588797 4084.1.1.0 ↗ alpha bundles › ChaB-like › ChaB-like › ChaB-like 0.61 42.0 4.08e-01 72.4% 67.7%
3290367 3470.1.1.0 ↗ extended segments › Glycophorin-A transmembrane domain › Glycophorin-A transmembrane domain › Glycophorin-A transmembrane domain 0.51 39.0 3.85e-01 94.8% 81.5%
D2 medium residues 527-585
PDB
D3 medium residues 586-660_672-766
PDB
D4 medium residues 767-871
PDB