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NC_028764.1__YP_009195824.1__PHICD505_20062__00064

Bact-Vir

NC_028764.1__YP_009195824.1__PHICD505_20062__00064

Identity

Accession:
NC_028764 ↗
Kingdom:
phage

Quality

84.7 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Colneyvirus› Clostridium_phage_phiCD505

TaxID: 1582154

Cluster

Singleton — not in a non-trivial cluster

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 high residues 3-57
PDB
Domain cluster: representative
CATH (37)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4hhvA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.70 50.0 4.09e-01 78.2% 40.8%
1t6sA01 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 0.69 45.0 3.87e-01 85.5% 43.0%
3lmmB05 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 0.69 40.0 3.87e-01 83.6% 52.5%
2vszB02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.68 51.0 4.01e-01 81.8% 49.6%
3mpxA02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.67 46.0 3.88e-01 72.7% 42.3%
4gzuA02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.66 48.0 3.54e-01 78.2% 29.3%
3l09A02 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 43.0 3.74e-01 90.9% 44.0%
2jhjA02 1.10.340.30 Mainly Alpha › Orthogonal Bundle › Endonuclease III; domain 1 › Hypothetical protein; domain 2 0.62 38.0 2.92e-01 83.6% 28.3%
3m8eA00 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 37.0 3.07e-01 90.9% 34.7%
1a7jA00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.57 47.0 3.04e-01 96.4% 53.4%
4ofzA01 1.20.58.1800 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.57 48.0 3.88e-01 100.0% 85.8%
3aeiA00 1.10.287.370 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.57 46.0 3.87e-01 90.9% 55.3%
3a2vD02 3.30.1020.10 Alpha Beta › 2-Layer Sandwich › Antioxidant, Horf6; Chain A, domain 2 › Antioxidant, Horf6; Chain A, domain2 0.56 41.0 3.50e-01 80.0% 46.3%
1zcdA00 1.20.1530.10 Mainly Alpha › Up-down Bundle › Na+/H+ antiporter like fold › Na+/H+ antiporter like domain 0.56 51.0 3.03e-01 100.0% 55.6%
1qviA01 1.20.120.720 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Myosin VI head, motor domain, U50 subdomain 0.56 45.0 3.59e-01 90.9% 76.5%
2wpvE00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.56 50.0 3.16e-01 100.0% 32.9%
1fxkB00 1.10.287.370 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.55 46.0 3.65e-01 90.9% 47.7%
3r4iA02 6.10.140.960 Special › Helix non-globular › Helix Hairpins › 0.55 34.0 3.38e-01 90.9% 58.3%
2zdiB00 1.10.287.370 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.55 45.0 3.64e-01 90.9% 49.1%
8d3mA02 1.20.120.920 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › CRISPR-associated endonuclease Cas1, C-terminal domain 0.55 45.0 3.00e-01 94.5% 50.8%
1dkqA02 3.40.50.1240 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Phosphoglycerate mutase-like 0.55 39.0 2.97e-01 90.9% 33.9%
4ijaA03 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.54 43.0 3.07e-01 83.6% 39.3%
5e1wA00 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 0.54 48.0 3.42e-01 100.0% 86.9%
2innB00 1.10.620.20 Mainly Alpha › Orthogonal Bundle › Ribonucleotide Reductase, subunit A › Ribonucleotide Reductase, subunit A 0.54 48.0 2.76e-01 100.0% 41.6%
3nuhB02 3.30.300.370 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › 0.54 41.0 3.20e-01 81.8% 66.1%
2rdpA00 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 0.54 48.0 3.55e-01 100.0% 39.3%
1go4A00 3.30.900.10 Alpha Beta › 2-Layer Sandwich › Cell Cycle, Spindle Assembly Checkpoint Protein; Chain A › HORMA domain 0.53 45.0 3.10e-01 96.4% 70.4%
3llcA00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.53 40.0 2.59e-01 81.8% 24.5%
1tbxB00 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 0.53 41.0 3.58e-01 90.9% 54.4%
7l9pK01 3.30.900.10 Alpha Beta › 2-Layer Sandwich › Cell Cycle, Spindle Assembly Checkpoint Protein; Chain A › HORMA domain 0.53 43.0 3.43e-01 94.5% 98.3%
4by6D02 1.25.40.800 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.52 48.0 3.12e-01 100.0% 52.4%
3thxB04 1.10.1420.10 Mainly Alpha › Orthogonal Bundle › MutS, DNA mismatch repair protein; Chain A, domain 3 › 0.52 42.0 3.25e-01 90.9% 64.1%
3u1nB01 1.10.3210.10 Mainly Alpha › Orthogonal Bundle › Hypothetical protein af1432 › Hypothetical protein af1432 0.52 44.0 2.77e-01 98.2% 49.4%
3c0wA02 3.10.28.10 Alpha Beta › Roll › Endonuclease I-creI › Homing endonucleases 0.52 38.0 3.21e-01 81.8% 68.9%
2zxiA03 1.10.10.1800 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › tRNA uridine 5-carboxymethylaminomethyl modification enzyme MnmG/GidA 0.52 44.0 3.54e-01 90.9% 58.8%
2jugA01 1.10.10.1830 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Non-ribosomal peptide synthase, adenylation domain 0.50 31.0 3.15e-01 80.0% 61.8%
2v1nA01 1.10.10.2030 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › DNA/RNA-binding protein Kin17, conserved domain 0.50 38.0 3.23e-01 87.3% 83.2%
ECOD (47)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3525928 226.1.1.1 ↗ a+b two layers › POZ domain › POZ domain › POZ domain › BTB 0.83 39.0 2.82e-01 70.9% 18.6%
3290892 101.1.9.17 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › MerR_1 0.74 38.0 3.04e-01 74.5% 26.7%
3244401 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.68 53.0 4.02e-01 81.8% 40.0%
5062257 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.68 40.0 3.25e-01 83.6% 32.3%
3614763 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.66 47.0 3.71e-01 90.9% 35.0%
4224821 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.62 47.0 3.70e-01 90.9% 39.1%
3980132 823.1.1.1 ↗ a+b two layers › Head-to-tail joining protein W, gpW › Head-to-tail joining protein W, gpW › Head-to-tail joining protein W, gpW › gpW 0.61 45.0 4.56e-01 80.0% 87.3%
3224950 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.61 46.0 3.79e-01 83.6% 43.8%
3550136 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.58 43.0 3.48e-01 90.9% 39.1%
4025595 327.11.2.0 ↗ a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) 0.58 41.0 3.91e-01 74.5% 96.9%
3392569 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.58 47.0 3.65e-01 90.9% 40.8%
5062471 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.58 48.0 3.79e-01 90.9% 48.2%
3932590 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.57 48.0 2.81e-01 98.2% 16.2%
5047455 5104.1.1.0 ↗ a+b three layers › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases 0.57 45.0 3.68e-01 94.5% 93.3%
5082317 101.1.2.141 ↗ alpha arrays › HTH › HTH › winged helix domain › HTH_24 0.57 44.0 3.73e-01 83.6% 80.0%
5036014 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.57 47.0 3.91e-01 90.9% 52.6%
3628456 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.56 46.0 3.53e-01 96.4% 39.1%
5029669 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.56 47.0 3.63e-01 90.9% 42.5%
4457710 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.56 46.0 3.57e-01 90.9% 44.2%
4977598 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.56 46.0 3.68e-01 90.9% 47.3%
3168940 109.4.1.64 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › GET4 0.55 50.0 3.09e-01 100.0% 29.7%
3594965 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.55 46.0 3.40e-01 90.9% 37.1%
60305 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.55 46.0 3.68e-01 90.9% 49.1%
3946654 517.2.1.0 ↗ beta barrels › CBF-like › TraF › TraF 0.55 41.0 2.58e-01 83.6% 16.0%
4995244 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.55 45.0 3.60e-01 90.9% 46.4%
4966804 101.1.2.530 ↗ alpha arrays › HTH › HTH › winged helix domain › HVO_A0114 0.55 40.0 3.45e-01 78.2% 78.8%
3406351 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.54 45.0 3.57e-01 90.9% 47.3%
4954786 605.1.1.0 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase 0.54 42.0 3.68e-01 90.9% 55.3%
3394225 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.54 44.0 3.50e-01 90.9% 45.2%
3279731 101.1.2.14 ↗ alpha arrays › HTH › HTH › winged helix domain › HTH_5 0.54 39.0 3.26e-01 76.4% 71.6%
1918436 6051.5.1.1 ↗ alpha duplicates or obligate multimers › Docking domains in modular polyketide synthases › Class 3 N-terminal docking domain › Class 3 N-terminal docking domain › TubC_N 0.54 42.0 4.10e-01 83.6% 96.6%
3228583 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.54 44.0 3.50e-01 90.9% 45.2%
3579472 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.54 44.0 3.37e-01 90.9% 40.0%
3712081 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.53 44.0 3.53e-01 90.9% 47.3%
4817370 159.1.2.0 ↗ alpha bundles › all-alpha NTP pyrophosphatases › all-alpha NTP pyrophosphatases › MazG-related 0.53 48.0 3.43e-01 100.0% 38.7%
4017372 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.53 44.0 3.48e-01 90.9% 45.2%
3929748 109.4.1.1303 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › HAT_PRP39_N, HAT_PRP39_C 0.53 46.0 2.78e-01 98.2% 16.8%
5058358 101.1.2.110 ↗ alpha arrays › HTH › HTH › winged helix domain › HTH_IclR 0.52 40.0 3.48e-01 83.6% 77.6%
4025349 3567.1.1.0 ↗ a+b duplicates or obligate multimers › MPER trimer › MPER trimer › MPER trimer 0.52 43.0 3.26e-01 90.9% 53.1%
3593339 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.52 43.0 3.42e-01 90.9% 45.2%
5071120 101.1.2.14 ↗ alpha arrays › HTH › HTH › winged helix domain › HTH_5 0.52 40.0 3.49e-01 83.6% 77.6%
4019671 109.4.1.64 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › GET4 0.52 45.0 2.85e-01 100.0% 35.7%
5041715 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.51 43.0 3.38e-01 90.9% 55.5%
4968601 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.51 42.0 3.39e-01 89.1% 51.4%
4986386 316.1.1.2 ↗ a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › NTP_transf_2 0.50 42.0 3.18e-01 96.4% 84.1%
3584418 109.4.1.390 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TH1 0.50 39.0 2.54e-01 83.6% 20.8%
3698887 6110.1.1.1 ↗ alpha superhelices › Linker domain of cytoplasmic dynein heavy chain › Linker domain of cytoplasmic dynein heavy chain › Linker domain of cytoplasmic dynein heavy chain › DHC_N2 0.50 45.0 2.60e-01 100.0% 26.8%