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SR-VP_0-2_scaffold_141_316084_prodigal-single.1__X__X__00249
Bact-VirSR-VP_0-2_scaffold_141_316084_prodigal-single.1__X__X__00249
Identity
- Kingdom:
- phage
Quality
81.4
mean pLDDT
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
high
residues 143-236
Domain cluster:
representative
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF04545.23 best | Sigma70_r4 | 27.7 | 2.10e-06 | 37.2% | 60.0% |
CATH (36)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3layF00 | 1.20.120.1490 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › | 0.71 | 54.0 | 5.82e-01 | 80.9% | 100.0% |
| 3dcfA02 | 1.10.357.10 | Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 | 0.67 | 42.0 | 3.63e-01 | 83.0% | 40.8% |
| 3teqB00 | 1.10.287.3550 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › | 0.66 | 44.0 | 4.30e-01 | 88.3% | 63.4% |
| 1yo7A00 | 1.20.120.230 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like | 0.64 | 44.0 | 4.14e-01 | 72.3% | 56.7% |
| 2y39A00 | 1.20.120.1490 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › | 0.64 | 45.0 | 4.34e-01 | 74.5% | 90.9% |
| 4kwaB00 | 1.10.357.10 | Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 | 0.62 | 54.0 | 4.33e-01 | 100.0% | 47.9% |
| 2z16B01 | 1.20.91.10 | Mainly Alpha › Up-down Bundle › Influenza Virus Matrix Protein; Chain A, domain 1 › Influenza matrix M1, N-terminal subdomain 1 | 0.62 | 26.0 | 2.87e-01 | 100.0% | 44.9% |
| 3fxdB00 | 1.20.58.90 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.62 | 37.0 | 4.60e-01 | 84.0% | 98.3% |
| 3gziA00 | 1.10.357.10 | Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 | 0.62 | 54.0 | 4.19e-01 | 100.0% | 44.8% |
| 2oi8A00 | 1.10.357.10 | Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 | 0.61 | 51.0 | 4.02e-01 | 100.0% | 42.9% |
| 2yevA02 | 1.10.287.70 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › | 0.59 | 40.0 | 4.39e-01 | 78.7% | 89.2% |
| 4ke2A00 | 6.10.140.1860 | Special › Helix non-globular › Helix Hairpins › | 0.59 | 45.0 | 3.66e-01 | 88.3% | 40.8% |
| 4v1gA00 | 1.20.20.10 | Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C | 0.58 | 44.0 | 4.63e-01 | 88.3% | 92.9% |
| 4aflA00 | 6.10.140.1740 | Special › Helix non-globular › Helix Hairpins › | 0.58 | 47.0 | 4.60e-01 | 96.8% | 83.3% |
| 1u7lA02 | 1.20.1460.10 | Mainly Alpha › Up-down Bundle › subunit c (vma5p) of the yeast v-atpase, domain 2 › subunit c (vma5p) of the yeast v-atpase, domain 2 | 0.57 | 49.0 | 4.03e-01 | 97.9% | 94.0% |
| 1owaA02 | 1.20.58.60 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.57 | 37.0 | 3.56e-01 | 83.0% | 57.5% |
| 1yg2A02 | 6.10.140.190 | Special › Helix non-globular › Helix Hairpins › | 0.57 | 44.0 | 4.47e-01 | 100.0% | 85.6% |
| 3ni7A00 | 1.10.357.10 | Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 | 0.56 | 50.0 | 4.01e-01 | 100.0% | 51.1% |
| 2efkA01 | 1.20.1270.60 | Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain | 0.56 | 47.0 | 3.50e-01 | 95.7% | 76.0% |
| 4l8iB00 | 1.10.132.20 | Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor | 0.56 | 43.0 | 4.11e-01 | 87.2% | 70.5% |
| 3onjA00 | 1.20.58.400 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › t-snare proteins | 0.56 | 40.0 | 4.03e-01 | 100.0% | 74.2% |
| 6xxvC00 | 1.10.132.20 | Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor | 0.56 | 46.0 | 4.37e-01 | 100.0% | 76.6% |
| 4dylA02 | 1.10.287.160 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat | 0.55 | 42.0 | 4.25e-01 | 90.4% | 83.0% |
| 1ku9A02 | 1.10.287.450 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin | 0.55 | 35.0 | 3.98e-01 | 100.0% | 95.3% |
| 4oydB00 | 1.10.132.20 | Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor | 0.55 | 46.0 | 4.34e-01 | 100.0% | 76.1% |
| 1kmiZ02 | 1.10.287.500 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin | 0.55 | 43.0 | 3.89e-01 | 87.2% | 70.1% |
| 1br0A00 | 1.20.58.70 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.55 | 44.0 | 4.17e-01 | 100.0% | 73.3% |
| 1f45B00 | 1.20.1250.10 | Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › | 0.54 | 49.0 | 4.38e-01 | 100.0% | 77.4% |
| 1lvfB00 | 1.20.58.90 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.53 | 42.0 | 4.06e-01 | 100.0% | 76.9% |
| 4abmD00 | 1.10.287.1060 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like | 0.53 | 40.0 | 4.36e-01 | 81.9% | 97.4% |
| 1t7sA00 | 1.20.58.120 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › BAG domain | 0.53 | 40.0 | 3.73e-01 | 100.0% | 62.0% |
| 4lunU00 | 1.25.40.180 | Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › | 0.53 | 46.0 | 3.28e-01 | 100.0% | 34.7% |
| 1urfA00 | 1.10.287.160 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat | 0.52 | 37.0 | 3.93e-01 | 89.4% | 87.7% |
| 1cxzB00 | 1.10.287.160 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat | 0.52 | 42.0 | 4.37e-01 | 100.0% | 96.5% |
| 6lumD01 | 1.20.1300.10 | Mainly Alpha › Up-down Bundle › 3 helical TM bundles of succinate and fumarate reductases › Fumarate reductase/succinate dehydrogenase, transmembrane subunit | 0.51 | 41.0 | 3.76e-01 | 100.0% | 65.6% |
| 2v0xA01 | 1.10.287.3160 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › | 0.51 | 42.0 | 3.61e-01 | 96.8% | 76.2% |
ECOD (39)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3589236 | 3291.1.1.142 ↗ | alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › DUF7649 | 0.73 | 55.0 | 5.55e-01 | 79.8% | 88.4% |
| 4993210 | 3755.3.1.635 ↗ | alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › PHA_synth_III_E | 0.69 | 53.0 | 4.26e-01 | 81.9% | 53.5% |
| 4378877 | 3711.1.1.20 ↗ | alpha bundles › LTXXQ motif family protein › LTXXQ motif family protein › LTXXQ motif family protein › DUF444 | 0.66 | 47.0 | 5.16e-01 | 85.1% | 92.0% |
| 3977161 | 605.1.1.332 ↗ | alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › FxsA | 0.65 | 48.0 | 4.63e-01 | 93.6% | 68.2% |
| 3385727 | 5086.1.1.0 ↗ | alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins | 0.64 | 48.0 | 3.50e-01 | 79.8% | 41.1% |
| 3404270 | 377.1.1.0 ↗ | few secondary structure elements › Glucocorticoid receptor-like › LIM domain-like › LIM domain-like | 0.62 | 48.0 | 4.36e-01 | 83.0% | 71.5% |
| 3707613 | 3877.1.1.0 ↗ | alpha bundles › Membrane protein insertase YidC-related › Membrane protein insertase YidC-related › Membrane protein insertase YidC | 0.62 | 52.0 | 3.80e-01 | 91.5% | 42.0% |
| 3889578 | 192.15.1.0 ↗ | alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains | 0.61 | 40.0 | 3.65e-01 | 98.9% | 49.6% |
| 3709390 | 4207.1.2.0 ↗ | alpha duplicates or obligate multimers › Mediator hinge subcomplex-like › Mediator hinge subcomplex-like › MED7 hinge region | 0.60 | 45.0 | 4.32e-01 | 93.6% | 67.3% |
| 3268765 | 4177.1.1.8 ↗ | alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like › BAR_3 | 0.60 | 47.0 | 3.55e-01 | 85.1% | 53.8% |
| 3982352 | 4207.1.2.90 ↗ | alpha duplicates or obligate multimers › Mediator hinge subcomplex-like › Mediator hinge subcomplex-like › MED7 hinge region › FxsA | 0.60 | 46.0 | 4.44e-01 | 96.8% | 70.9% |
| 4964513 | 622.4.1.66 ↗ | alpha bundles › YvfG-like › Mite allergen Der p 5-related › Mite allergen Der p 5-related › FxsA | 0.59 | 46.0 | 4.59e-01 | 96.8% | 81.1% |
| 3991595 | 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 | 0.59 | 40.0 | 4.06e-01 | 70.2% | 68.4% |
| 4952853 | 5058.1.1.2 ↗ | alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › MS_channel_1st | 0.59 | 40.0 | 4.08e-01 | 85.1% | 70.5% |
| 3477880 | 4177.1.1.1 ↗ | alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like › FCH | 0.58 | 48.0 | 3.45e-01 | 91.5% | 72.1% |
| 4970333 | 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 | 0.58 | 39.0 | 3.98e-01 | 93.6% | 69.5% |
| 4136871 | 605.4.1.17 ↗ | alpha duplicates or obligate multimers › ROP-like › ROP protein › ROP protein › FxsA | 0.57 | 44.0 | 4.31e-01 | 96.8% | 73.3% |
| 3779360 | 192.5.1.0 ↗ | alpha bundles › Long alpha-hairpin › HR1 repeat › HR1 repeat | 0.57 | 40.0 | 3.38e-01 | 97.9% | 43.1% |
| 3534511 | 11.2.1.0 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain | 0.57 | 41.0 | 3.45e-01 | 98.9% | 43.8% |
| 4933826 | 5058.1.1.16 ↗ | alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › MS_channel_1st_1 | 0.56 | 41.0 | 3.85e-01 | 85.1% | 61.9% |
| 4960548 | 3922.1.1.0 ↗ | alpha bundles › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 | 0.55 | 42.0 | 3.46e-01 | 88.3% | 42.2% |
| 3486312 | 192.7.1.0 ↗ | alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm | 0.55 | 40.0 | 3.76e-01 | 76.6% | 78.2% |
| 3597988 | 604.5.1.0 ↗ | alpha bundles › Spectrin repeat-like › PhoU-like (Pfam 01895) › PhoU-like (Pfam 01895) | 0.55 | 45.0 | 3.83e-01 | 100.0% | 52.5% |
| 3781350 | 5041.1.1.20 ↗ | extended segments › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › PF26669 | 0.55 | 46.0 | 4.29e-01 | 92.6% | 78.3% |
| 3279027 | 150.8.1.1 ↗ | alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › PPE › PPE › PPE | 0.55 | 46.0 | 3.83e-01 | 94.7% | 93.1% |
| 3252533 | 4177.1.1.8 ↗ | alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like › BAR_3 | 0.55 | 44.0 | 3.52e-01 | 92.6% | 74.4% |
| 3594129 | 4177.1.1.0 ↗ | alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like | 0.55 | 45.0 | 3.52e-01 | 92.6% | 72.1% |
| 3283574 | 150.8.1.1 ↗ | alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › PPE › PPE › PPE | 0.54 | 44.0 | 3.48e-01 | 90.4% | 84.3% |
| 3903553 | 3922.1.1.0 ↗ | alpha bundles › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 | 0.54 | 40.0 | 3.79e-01 | 89.4% | 64.3% |
| 3577907 | 4177.1.1.0 ↗ | alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like | 0.53 | 43.0 | 3.27e-01 | 92.6% | 78.4% |
| 3289802 | 284.1.1.0 ↗ | a+b two layers › FKBP-like › FKBP-like › FKBP-like | 0.53 | 41.0 | 2.54e-01 | 81.9% | 54.7% |
| 3660496 | 604.3.1.19 ↗ | alpha bundles › Spectrin repeat-like › BAG domain › BAG domain › DUF3475 | 0.52 | 47.0 | 3.51e-01 | 97.9% | 82.7% |
| 3355246 | 192.1.1.0 ↗ | alpha bundles › Long alpha-hairpin › GreA transcript cleavage protein, N-terminal domain › GreA transcript cleavage protein, N-terminal domain | 0.52 | 39.0 | 4.21e-01 | 97.9% | 95.0% |
| 5048093 | 192.7.1.2 ↗ | alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N | 0.51 | 42.0 | 4.03e-01 | 90.4% | 94.5% |
| 3753969 | 622.4.1.0 ↗ | alpha bundles › YvfG-like › Mite allergen Der p 5-related › Mite allergen Der p 5-related | 0.51 | 40.0 | 3.95e-01 | 100.0% | 79.0% |
| 3449084 | 622.4.1.0 ↗ | alpha bundles › YvfG-like › Mite allergen Der p 5-related › Mite allergen Der p 5-related | 0.51 | 42.0 | 4.08e-01 | 93.6% | 85.7% |
| 3880637 | 3755.3.1.465 ↗ | alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › KIF21A | 0.50 | 40.0 | 3.64e-01 | 90.4% | 61.4% |
| 3676390 | 3559.1.1.0 ↗ | a+b complex topology › Mediator of RNA polymerase II transcription subunit 22 › Mediator of RNA polymerase II transcription subunit 22 › Mediator of RNA polymerase II transcription subunit 22 | 0.50 | 46.0 | 4.24e-01 | 100.0% | 81.7% |
| 3670746 | 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 | 0.50 | 46.0 | 4.23e-01 | 100.0% | 81.7% |
D2
medium
residues 38-142
Domain cluster:
representative
Pfam (2)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF08281.19 best | Sigma70_r4_2 | 31.3 | 1.80e-07 | 49.5% | 87.0% |
| PF04545.23 | Sigma70_r4 | 33.4 | 3.50e-08 | 46.7% | 94.0% |
CATH (4)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 5t3wA00 | 1.20.120.1160 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › | 0.61 | 42.0 | 3.84e-01 | 70.5% | 78.8% |
| 2e18A00 | 3.40.50.620 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs | 0.56 | 41.0 | 3.01e-01 | 74.3% | 60.9% |
| 3g2bA00 | 1.10.10.1150 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Coenzyme PQQ synthesis protein D (PqqD) | 0.52 | 37.0 | 4.03e-01 | 74.3% | 91.1% |
| 2yn7A00 | 1.10.3160.10 | Mainly Alpha › Orthogonal Bundle › Bbcrasp-1 › Bbcrasp-1 | 0.50 | 40.0 | 3.24e-01 | 88.6% | 94.4% |
ECOD (6)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3977260 | 101.1.1.39 ↗ | alpha arrays › HTH › HTH › Three-helical HTH › Phage_antitermQ | 0.81 | 56.0 | 5.38e-01 | 71.4% | 95.8% |
| 3163616 | 101.1.1.42 ↗ | alpha arrays › HTH › HTH › Three-helical HTH › Sigma70_r4_2 | 0.75 | 54.0 | 5.70e-01 | 73.3% | 84.0% |
| 3964397 | 101.1.1.42 ↗ | alpha arrays › HTH › HTH › Three-helical HTH › Sigma70_r4_2 | 0.73 | 53.0 | 5.36e-01 | 74.3% | 77.1% |
| 3973709 | 101.1.1.42 ↗ | alpha arrays › HTH › HTH › Three-helical HTH › Sigma70_r4_2 | 0.70 | 49.0 | 4.98e-01 | 72.4% | 92.4% |
| 2813289 | 101.1.1.71 ↗ | alpha arrays › HTH › HTH › Three-helical HTH › KORA | 0.70 | 51.0 | 5.33e-01 | 81.9% | 83.5% |
| 3959876 | 101.1.1.42 ↗ | alpha arrays › HTH › HTH › Three-helical HTH › Sigma70_r4_2 | 0.69 | 51.0 | 5.29e-01 | 77.1% | 90.0% |