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NC_020878.1__YP_007677703.1__PRQG_00039__00035
Bact-VirNC_020878.1__YP_007677703.1__PRQG_00039__00035
Identity
- Accession:
- NC_020878 ↗
- Kingdom:
- phage
Quality
69.5
mean pLDDT
Taxonomy
Heunggongvirae›
Uroviricota›
Caudoviricetes›
Autographivirales›
Lingvirus›
Prochlorococcus_phage_P-GSP1
TaxID: 382262
Cluster
Singleton — not in a non-trivial cluster
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 189-281_308-494
Domain cluster:
representative
CATH (10)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2jx0A00 | 1.20.120.330 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 | 0.66 | 25.0 | 3.57e-01 | 88.6% | 71.0% |
| 3vhlA02 | 1.20.58.740 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › DOCK DHR2 domain, lobe C | 0.63 | 27.0 | 4.06e-01 | 86.8% | 91.7% |
| 5nl6B01 | 1.20.58.60 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.61 | 27.0 | 4.09e-01 | 86.8% | 96.7% |
| 6jpaE00 | 1.20.140.150 | Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › | 0.59 | 28.0 | 3.52e-01 | 87.1% | 72.2% |
| 1t98A02 | 1.20.58.590 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Chromosome partition protein MukF, middle domain | 0.56 | 31.0 | 4.04e-01 | 87.9% | 92.0% |
| 4rm7A03 | 1.20.140.10 | Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 | 0.54 | 25.0 | 3.44e-01 | 85.7% | 84.2% |
| 2gs4A00 | 1.20.1260.10 | Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle | 0.52 | 30.0 | 3.94e-01 | 96.1% | 100.0% |
| 1gcvA00 | 1.10.490.10 | Mainly Alpha › Orthogonal Bundle › Globin-like › Globins | 0.51 | 24.0 | 3.29e-01 | 87.5% | 85.0% |
| 1siqA03 | 1.20.140.10 | Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 | 0.51 | 26.0 | 3.34e-01 | 89.3% | 83.2% |
| 2qqyA00 | 1.20.1260.10 | Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle | 0.50 | 25.0 | 3.68e-01 | 93.9% | 100.0% |
ECOD (23)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3503767 | 633.21.1.0 ↗ | alpha bundles › Bromodomain-like › Uncharacterized protein PA2107 › Uncharacterized protein PA2107 | 0.68 | 28.0 | 3.95e-01 | 84.6% | 75.7% |
| 3357886 | 633.4.1.1 ↗ | alpha bundles › Bromodomain-like › Plant invertase/pectin methylesterase inhibitor › Plant invertase/pectin methylesterase inhibitor › PMEI | 0.65 | 27.0 | 3.32e-01 | 88.2% | 58.3% |
| 3251839 | 601.1.2.4 ↗ | alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › I/LWEQ domain (Pfam 01608) › Talin_R4 | 0.64 | 28.0 | 4.01e-01 | 85.7% | 84.4% |
| 4557092 | 633.23.1.32 ↗ | alpha bundles › Bromodomain-like › Claudin › Claudin › CASP_dom | 0.64 | 30.0 | 4.06e-01 | 86.4% | 83.1% |
| 3420023 | 633.21.1.18 ↗ | alpha bundles › Bromodomain-like › Uncharacterized protein PA2107 › Uncharacterized protein PA2107 › CASP_dom | 0.64 | 29.0 | 3.72e-01 | 86.4% | 71.5% |
| 3536637 | 633.23.1.22 ↗ | alpha bundles › Bromodomain-like › Claudin › Claudin › MARVEL | 0.63 | 28.0 | 3.84e-01 | 86.8% | 79.0% |
| 3692494 | 633.23.1.22 ↗ | alpha bundles › Bromodomain-like › Claudin › Claudin › MARVEL | 0.63 | 30.0 | 4.15e-01 | 89.3% | 87.6% |
| 3931307 | 601.1.2.4 ↗ | alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › I/LWEQ domain (Pfam 01608) › Talin_R4 | 0.61 | 28.0 | 3.86e-01 | 87.1% | 81.4% |
| 3856927 | 633.23.1.34 ↗ | alpha bundles › Bromodomain-like › Claudin › Claudin › CD20 | 0.61 | 29.0 | 3.72e-01 | 72.9% | 73.7% |
| 3472613 | 7015.1.1.1 ↗ | alpha bundles › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain › DHHC | 0.59 | 26.0 | 3.63e-01 | 87.5% | 80.7% |
| 4680153 | 7015.1.1.1 ↗ | alpha bundles › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain › DHHC | 0.58 | 28.0 | 3.88e-01 | 87.5% | 89.3% |
| 3836802 | 633.4.1.1 ↗ | alpha bundles › Bromodomain-like › Plant invertase/pectin methylesterase inhibitor › Plant invertase/pectin methylesterase inhibitor › PMEI | 0.57 | 27.0 | 3.40e-01 | 72.1% | 72.4% |
| 3596103 | 7015.1.1.0 ↗ | alpha bundles › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain | 0.56 | 31.0 | 3.85e-01 | 88.9% | 84.0% |
| 3411834 | 150.1.1.57 ↗ | alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin › NEPRO_N | 0.55 | 30.0 | 3.53e-01 | 86.8% | 73.8% |
| 5016617 | 4121.1.1.1 ↗ | a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like › CorA | 0.55 | 39.0 | 3.99e-01 | 95.4% | 73.5% |
| 3966460 | 4121.1.1.0 ↗ | a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like | 0.54 | 39.0 | 4.09e-01 | 97.9% | 78.8% |
| 3402889 | 109.4.1.0 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat | 0.53 | 35.0 | 4.14e-01 | 96.4% | 94.7% |
| 3969040 | 4121.1.1.1 ↗ | a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like › CorA | 0.53 | 39.0 | 4.07e-01 | 93.6% | 80.4% |
| 2722116 | 150.1.1.0 ↗ | alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin | 0.53 | 29.0 | 3.42e-01 | 86.4% | 74.4% |
| 4946897 | 150.1.1.0 ↗ | alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin | 0.52 | 30.0 | 3.87e-01 | 86.8% | 93.5% |
| 3463576 | 3684.1.1.2 ↗ | alpha complex topology › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like › BPS1 | 0.51 | 29.0 | 3.24e-01 | 71.8% | 68.6% |
| 3651070 | 109.4.1.1762 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PF30995 | 0.51 | 31.0 | 2.94e-01 | 75.0% | 51.6% |
| 3477758 | 601.1.2.2 ↗ | alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › I/LWEQ domain (Pfam 01608) › I_LWEQ | 0.50 | 27.0 | 3.31e-01 | 85.0% | 78.9% |
D2
medium
residues 588-669
Domain cluster:
representative
CATH (6)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3nymA00 | 6.10.290.10 | Special › Helix non-globular › Four Helix Bundle (Hemerythrin (Met), subunit A) › | 0.66 | 46.0 | 3.98e-01 | 72.0% | 84.7% |
| 1nfvA00 | 1.20.1260.10 | Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle | 0.61 | 45.0 | 3.60e-01 | 79.3% | 63.9% |
| 1kf6C00 | 1.20.1300.10 | Mainly Alpha › Up-down Bundle › 3 helical TM bundles of succinate and fumarate reductases › Fumarate reductase/succinate dehydrogenase, transmembrane subunit | 0.56 | 41.0 | 3.62e-01 | 80.5% | 50.0% |
| 3t9jA00 | 1.20.1260.10 | Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle | 0.52 | 45.0 | 3.76e-01 | 96.3% | 78.5% |
| 3gw4A00 | 1.25.40.10 | Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain | 0.52 | 37.0 | 2.97e-01 | 79.3% | 93.8% |
| 3kwoA00 | 1.20.1260.10 | Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle | 0.51 | 44.0 | 3.68e-01 | 100.0% | 77.9% |
ECOD (11)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3985042 | 1075.5.1.1 ↗ | alpha bundles › Type II ABC exporter transmembrane domain fold › Multidrug and toxic compound extrusion (MATE) transporter › Multidrug and toxic compound extrusion (MATE) transporter › MatE | 0.70 | 53.0 | 4.27e-01 | 81.7% | 41.8% |
| 4489484 | 2002.1.1.30 ↗ | a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Glyco_hydro_18 | 0.69 | 55.0 | 3.45e-01 | 85.4% | 98.4% |
| 3965106 | 605.1.1.4 ↗ | alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA_3 | 0.68 | 51.0 | 5.36e-01 | 80.5% | 93.3% |
| 3336677 | 605.1.1.132 ↗ | alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › DUF641 | 0.67 | 49.0 | 5.08e-01 | 82.9% | 84.0% |
| 140767 | 632.8.1.3 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › alpha-2-Macroglobulin receptor associated protein (RAP) domain 1 › alpha-2-Macroglobulin receptor associated protein (RAP) domain 1 › DUF6853 | 0.66 | 46.0 | 3.98e-01 | 72.0% | 84.7% |
| 5031890 | 3755.3.1.0 ↗ | alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin | 0.64 | 44.0 | 3.16e-01 | 70.7% | 24.5% |
| 3451986 | 3291.1.1.79 ↗ | alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › DUF1771 | 0.62 | 45.0 | 4.02e-01 | 75.6% | 56.5% |
| 4477580 | 5086.1.1.118 ↗ | alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › BBS2_hp | 0.61 | 44.0 | 4.42e-01 | 74.4% | 71.8% |
| 4948369 | 3291.1.1.0 ↗ | alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related | 0.61 | 47.0 | 3.97e-01 | 81.7% | 78.3% |
| 3875941 | 3291.1.1.1 ↗ | alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Snf7 | 0.60 | 48.0 | 3.81e-01 | 86.6% | 65.5% |
| 4262159 | 2004.1.1.308 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_21 | 0.54 | 42.0 | 2.91e-01 | 90.2% | 42.3% |
D3
medium
residues 880-905_933-962
Domain cluster:
representative
CATH (10)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1k92A01 | 3.40.50.620 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs | 0.61 | 44.0 | 3.14e-01 | 76.8% | 29.4% |
| 3lfuA02 | 1.10.10.160 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › | 0.58 | 45.0 | 4.20e-01 | 83.9% | 70.0% |
| 5l3qB02 | 3.40.50.300 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases | 0.58 | 40.0 | 2.66e-01 | 73.2% | 24.9% |
| 3gzfD00 | 1.10.150.420 | Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Coronavirus nonstructural protein 4 C-terminus | 0.56 | 47.0 | 4.01e-01 | 92.9% | 80.2% |
| 3igrA00 | 3.40.630.30 | Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) | 0.55 | 38.0 | 2.71e-01 | 71.4% | 94.0% |
| 4ru1A02 | 3.40.50.2300 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator | 0.53 | 38.0 | 2.85e-01 | 76.8% | 31.8% |
| 2copA00 | 1.20.80.10 | Mainly Alpha › Up-down Bundle › Acyl-CoA Binding Protein › | 0.53 | 36.0 | 3.02e-01 | 76.8% | 38.5% |
| 1vrmA01 | 3.10.520.10 | Alpha Beta › Roll › T-fold › ApbE-like domains | 0.51 | 43.0 | 2.96e-01 | 98.2% | 50.0% |
| 3edpA01 | 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 | 0.50 | 38.0 | 3.47e-01 | 82.1% | 84.2% |
| 2pg0A01 | 1.10.540.10 | Mainly Alpha › Orthogonal Bundle › Butyryl-Coa Dehydrogenase, subunit A; domain 1 › Acyl-CoA dehydrogenase/oxidase, N-terminal domain | 0.50 | 41.0 | 3.35e-01 | 96.4% | 58.1% |
ECOD (8)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4271040 | 2005.1.1.8 ↗ | a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › Arginosuc_synth | 0.60 | 43.0 | 3.01e-01 | 76.8% | 26.1% |
| 4392288 | 140.1.1.5 ↗ | alpha bundles › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › Anticodon_1 | 0.57 | 48.0 | 3.29e-01 | 94.6% | 54.6% |
| 3503605 | 4168.1.1.1 ↗ | alpha duplicates or obligate multimers › HAMP domain › HAMP domain › HAMP domain › HAMP | 0.56 | 43.0 | 4.35e-01 | 82.1% | 90.9% |
| 3661129 | 197.1.1.3 ↗ | alpha bundles › Acyl-CoA binding protein-like › Acyl-CoA binding protein-like › Acyl-CoA binding protein-like › ACBP | 0.55 | 44.0 | 3.61e-01 | 89.3% | 49.5% |
| 3786619 | 103.4.1.2 ↗ | alpha arrays › RuvA-C › Elongation factor TFIIS domain 2/ Kix domain of creb binding protein › Elongation factor TFIIS domain 2/ Kix domain of creb binding protein › TFIIS_M | 0.55 | 47.0 | 4.01e-01 | 100.0% | 90.5% |
| 3988413 | 5051.1.1.0 ↗ | alpha complex topology › Sodium:neurotransmitter symporter family (SNF)-like › Sodium:neurotransmitter symporter family (SNF)-like › Sodium:neurotransmitter symporter family (SNF)-like | 0.52 | 44.0 | 2.80e-01 | 100.0% | 80.3% |
| 3305941 | 330.1.1.1 ↗ | a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm | 0.51 | 40.0 | 3.11e-01 | 85.7% | 42.5% |
| 3277051 | 109.4.1.903 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_28 | 0.51 | 45.0 | 2.78e-01 | 98.2% | 45.3% |
D4
medium
residues 1083-1213
Domain cluster:
representative
CATH (7)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4an8A02 | 1.10.132.100 | Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › | 0.58 | 43.0 | 4.43e-01 | 85.5% | 82.0% |
| 4p9fA02 | 1.20.120.530 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › GntR ligand-binding domain-like | 0.55 | 38.0 | 3.71e-01 | 75.6% | 63.9% |
| 2j1oA00 | 1.10.600.10 | Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase | 0.53 | 36.0 | 2.98e-01 | 89.3% | 35.3% |
| 2nq2A00 | 1.10.3470.10 | Mainly Alpha › Orthogonal Bundle › ABC transporter involved in vitamin B12 uptake, BtuC › ABC transporter involved in vitamin B12 uptake, BtuC | 0.52 | 37.0 | 2.91e-01 | 74.0% | 60.7% |
| 3mlgA00 | 1.20.120.1980 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Knotted protein, ribbon-helix-helix DNA-binding domain | 0.52 | 38.0 | 3.57e-01 | 75.6% | 87.0% |
| 3nf2A00 | 1.10.600.10 | Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase | 0.52 | 42.0 | 3.15e-01 | 86.3% | 49.4% |
| 2azjA00 | 1.10.600.10 | Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase | 0.50 | 37.0 | 2.97e-01 | 87.8% | 37.0% |
ECOD (2)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4027989 | 5058.1.1.0 ↗ | alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region | 0.51 | 42.0 | 3.72e-01 | 90.8% | 79.5% |
| 3695642 | 5054.1.1.8 ↗ | alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels › Ion_trans_2 | 0.50 | 37.0 | 4.02e-01 | 77.1% | 97.1% |