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MT135176.1__QLF80272.1__X__00047

Bact-Vir

MT135176.1__QLF80272.1__X__00047

Identity

Accession:
MT135176 ↗
Kingdom:
phage

Quality

81.5 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Hafyongvirus› Hafnia_phage_yong1

TaxID: 2719181

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 20-90
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF03592.22 best Terminase_2 27.2 7.20e-06 87.3% 39.1%
CATH (25)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2cmpA00 1.10.10.1400 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Terminase, small subunit, N-terminal DNA-binding domain, HTH motif 0.90 68.0 7.61e-01 80.3% 100.0%
4nqwA02 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 0.75 57.0 6.00e-01 87.3% 89.1%
5xsoA02 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 0.75 62.0 6.06e-01 94.4% 82.9%
3vfzB00 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 0.73 55.0 5.79e-01 91.5% 90.5%
1a04A02 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 0.73 58.0 5.56e-01 94.4% 75.0%
3p7nA02 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 0.72 61.0 6.09e-01 94.4% 90.3%
5f64A02 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 0.72 61.0 6.03e-01 95.8% 88.0%
3zh9B03 1.20.272.10 Mainly Alpha › Up-down Bundle › Zinc Finger, Delta Prime; domain 3 › 0.70 44.0 3.63e-01 73.2% 35.7%
1l3lA02 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 0.68 50.0 5.32e-01 83.1% 88.9%
6jqsA00 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 0.68 53.0 5.44e-01 88.7% 88.1%
2q0oA02 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 0.66 51.0 5.22e-01 84.5% 86.6%
3h20A04 1.10.1240.50 Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › 0.66 51.0 4.82e-01 85.9% 73.0%
1p4wA00 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 0.65 54.0 5.04e-01 94.4% 73.6%
6xiuA01 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.65 46.0 4.07e-01 77.5% 52.5%
1zarA01 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 0.63 53.0 4.95e-01 94.4% 85.4%
2v9kA01 1.10.10.2050 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › 0.62 42.0 4.78e-01 70.4% 100.0%
2xubA04 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 0.59 43.0 4.39e-01 95.8% 82.1%
4dhdA00 1.10.600.10 Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase 0.58 43.0 2.90e-01 84.5% 40.9%
3nkhA00 1.10.443.10 Mainly Alpha › Orthogonal Bundle › hpI Integrase; Chain A › Intergrase catalytic core 0.58 49.0 3.58e-01 100.0% 88.2%
7wf8B01 1.10.167.10 Mainly Alpha › Orthogonal Bundle › Regulator of G-protein Signalling 4; domain 2 › Regulator of G-protein Signalling 4, domain 2 0.57 42.0 3.56e-01 80.3% 79.3%
7a8zB01 1.10.520.10 Mainly Alpha › Orthogonal Bundle › Peroxidase; domain 1 › 0.56 42.0 3.95e-01 83.1% 87.9%
2qjoA01 3.40.50.620 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs 0.55 45.0 3.41e-01 95.8% 75.0%
3b1fA02 1.10.3660.10 Mainly Alpha › Orthogonal Bundle › 6-phosphogluconate dehydrogenase C-terminal fold › 6-phosphogluconate dehydrogenase C-terminal like domain 0.53 43.0 3.78e-01 90.1% 71.2%
5c00D00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.53 40.0 3.06e-01 85.9% 88.5%
3icxA01 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.51 37.0 3.73e-01 93.0% 74.7%
ECOD (29)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4321283 101.1.1.378 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Terminase_2 0.88 65.0 7.34e-01 81.7% 100.0%
5082527 101.1.3.2 ↗ alpha arrays › HTH › HTH › tetra-helical, LuxR-like › Terminase_2 0.86 69.0 6.04e-01 84.5% 62.0%
4139052 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.78 59.0 5.78e-01 87.3% 74.7%
4034200 101.1.1.275 ↗ alpha arrays › HTH › HTH › Three-helical HTH › GerE 0.78 59.0 6.12e-01 87.3% 86.2%
2332937 101.1.3.1 ↗ alpha arrays › HTH › HTH › tetra-helical, LuxR-like › GerE 0.75 62.0 6.12e-01 94.4% 85.1%
5039663 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.75 59.0 5.89e-01 100.0% 82.7%
5041148 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.74 60.0 6.07e-01 100.0% 90.0%
5080963 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.74 59.0 5.55e-01 87.3% 87.1%
3283074 101.1.3.1 ↗ alpha arrays › HTH › HTH › tetra-helical, LuxR-like › GerE 0.73 62.0 5.82e-01 94.4% 76.5%
3588264 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.72 54.0 4.94e-01 78.9% 70.0%
5074678 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.69 61.0 5.47e-01 98.6% 76.8%
4965811 101.1.1.559 ↗ alpha arrays › HTH › HTH › Three-helical HTH › DUF7858 0.68 51.0 5.49e-01 80.3% 93.3%
3900411 101.1.1.3 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Myb_DNA-binding 0.67 51.0 4.75e-01 87.3% 66.3%
4942943 101.1.2.70 ↗ alpha arrays › HTH › HTH › winged helix domain › PqqD 0.66 55.0 4.78e-01 93.0% 79.1%
3790320 101.1.1.3 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Myb_DNA-binding 0.64 49.0 5.10e-01 87.3% 90.8%
3979083 101.1.1.58 ↗ alpha arrays › HTH › HTH › Three-helical HTH › HTH_18 0.64 49.0 5.32e-01 85.9% 98.3%
3212897 198.1.1.1 ↗ alpha arrays › Saposin-like › Saposin-like › Saposin-like › SapB_2 0.61 45.0 4.51e-01 80.3% 80.0%
4464384 198.2.1.1 ↗ alpha arrays › Saposin-like › Bacteriocin AS-48-related › Bacteriocin AS-48-related › Bacteriocin_IId 0.61 44.0 4.43e-01 77.5% 90.0%
3969000 5060.2.1.1 ↗ alpha bundles › V-type ATP synthase subunit C › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain › T2SSF 0.60 44.0 3.78e-01 78.9% 74.8%
3163670 2.1.1.129 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › DUF3418 0.59 40.0 3.17e-01 70.4% 34.7%
3256832 3881.1.1.0 ↗ alpha bundles › CNOT9 binding domain CN9BD (DUF3819) › CNOT9 binding domain CN9BD (DUF3819) › CNOT9 binding domain CN9BD (DUF3819) 0.59 46.0 3.43e-01 90.1% 76.1%
3541653 3464.1.1.20 ↗ extended segments › Helical region in V-type proton ATPase subunit E › Helical region in V-type proton ATPase subunit E › Helical region in V-type proton ATPase subunit E › FAM210A-B_dom 0.58 41.0 3.79e-01 76.1% 75.8%
5028503 141.1.1.1 ↗ alpha bundles › Terpenoid synthases › Terpenoid synthases › Terpenoid synthases › polyprenyl_synt 0.55 40.0 2.65e-01 80.3% 45.7%
3959456 5067.1.1.4 ↗ alpha bundles › Multidrug efflux transporter AcrB transmembrane domain › Multidrug efflux transporter AcrB transmembrane domain › Multidrug efflux transporter AcrB transmembrane domain › MMPL 0.54 44.0 2.76e-01 90.1% 18.4%
4931319 2003.1.1.24 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › Shikimate_DH 0.54 36.0 2.55e-01 70.4% 24.4%
3802720 630.1.1.1 ↗ a+b complex topology › RuBisCo LSMT C-terminal, substrate-binding domain › RuBisCo LSMT C-terminal, substrate-binding domain › RuBisCo LSMT C-terminal, substrate-binding domain › Rubis-subs-bind 0.54 41.0 3.12e-01 83.1% 85.3%
4955397 2007.2.3.11 ↗ a/b three-layered sandwiches › Flavodoxin-like › Flavoproteins/Phosphotyrosine protein phosphatases-like › (Phosphotyrosine protein) phosphatases II › PTP-SAK 0.53 47.0 3.69e-01 98.6% 57.2%
3982824 3896.1.1.3 ↗ alpha duplicates or obligate multimers › Intramembrane CDP-DAG synthetase-related › Intramembrane CDP-DAG synthetase-related › Intramembrane CDP-DAG synthetase › CobS 0.52 44.0 3.18e-01 100.0% 58.3%
4441325 3455.1.1.0 ↗ alpha arrays › WY-domain in RXLR effectors › WY-domain in RXLR effectors › WY-domain in RXLR effectors 0.52 40.0 3.89e-01 87.3% 82.5%
D2 high residues 94-178
PDB
Domain cluster: representative
CATH (3)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4noiA01 3.30.1360.10 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › RNA polymerase, RBP11-like subunit 0.55 31.0 2.92e-01 74.1% 42.7%
3aonA00 1.10.287.3240 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.51 44.0 3.47e-01 100.0% 75.0%
2kqrA01 3.30.1910.20 Alpha Beta › 2-Layer Sandwich › so0334 like fold › asparaginyl-tRNA synthetase, N-terminal domain 0.50 28.0 2.94e-01 96.5% 59.5%
ECOD (13)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3558274 4096.1.1.1 ↗ a+b two layers › NAP-like › NAP-like › NAP-like › NAP 0.62 42.0 2.89e-01 70.6% 65.0%
4642235 3745.1.1.1 ↗ alpha bundles › Sodium/Calcium exchanger › Sodium/Calcium exchanger › Sodium/Calcium exchanger › Na_Ca_ex 0.58 40.0 2.65e-01 71.8% 66.6%
3334401 101.1.2.566 ↗ alpha arrays › HTH › HTH › winged helix domain › CDT1, CDT1_C 0.54 40.0 2.83e-01 77.6% 24.5%
3665317 101.1.2.98 ↗ alpha arrays › HTH › HTH › winged helix domain › CDT1 0.54 38.0 3.31e-01 77.6% 46.7%
1837178 2004.1.1.30 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Helicase_C 0.54 38.0 3.03e-01 75.3% 63.4%
3343334 101.1.2.98 ↗ alpha arrays › HTH › HTH › winged helix domain › CDT1 0.53 39.0 3.31e-01 77.6% 45.5%
3215999 5001.1.1.111 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_1, 7TM_GPCR_Srw 0.53 39.0 2.58e-01 88.2% 17.0%
3791945 5054.1.1.2 ↗ alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels › Ion_trans 0.53 44.0 3.38e-01 98.8% 63.1%
4344731 221.2.1.2 ↗ a+b two layers › beta-Grasp › IF3-N › IF3-N › mIF3 0.52 28.0 2.81e-01 76.5% 46.7%
5047069 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.52 43.0 3.32e-01 98.8% 77.8%
5009941 304.51.1.7 ↗ a+b two layers › Alpha-beta plaits › CRISPR transcript (pre-crRNA) processing endoribonuclease-related › CRISPR transcript (pre-crRNA) processing endoribonuclease-related › CRISPR_Cas6 0.51 35.0 2.86e-01 71.8% 44.4%
3593251 7516.1.1.0 ↗ a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases 0.51 42.0 2.81e-01 95.3% 77.5%
None — 0.50 35.0 2.41e-01 72.9% 89.2%