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NC_016163.1__YP_004934468.1__phiR1-37_gp234__00235
Bact-VirNC_016163.1__YP_004934468.1__phiR1-37_gp234__00235
Identity
- Accession:
- NC_016163 ↗
- Kingdom:
- phage
Quality
50.1
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 165-211
D2
high
residues 228-303
D3
medium
residues 104-160
Domain cluster:
representative
CATH (38)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1ciiA02 | 3.30.305.10 | Alpha Beta › 2-Layer Sandwich › Colicin Ia; domain 2 › Colicin Ia; domain 2 | 0.73 | 55.0 | 4.53e-01 | 80.7% | 48.5% |
| 4ev6A03 | 1.20.58.340 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Magnesium transport protein CorA, transmembrane region | 0.72 | 58.0 | 5.84e-01 | 87.7% | 91.4% |
| 3na7A00 | 1.10.287.1490 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › | 0.70 | 48.0 | 3.14e-01 | 75.4% | 17.3% |
| 3a06B03 | 1.10.1740.10 | Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › RNA polymerase sigma factor, region 2, helix turn helix motif | 0.70 | 59.0 | 5.18e-01 | 100.0% | 62.5% |
| 1v4aA01 | 1.10.4050.10 | Mainly Alpha › Orthogonal Bundle › Nucleotidyltransferase substrate binding subunit/domain fold › Glutamine synthase adenylyltransferase GlnE | 0.69 | 49.0 | 4.05e-01 | 82.5% | 40.4% |
| 1hs7A00 | 1.20.58.70 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.69 | 46.0 | 3.94e-01 | 70.2% | 42.3% |
| 2vkzA02 | 3.40.47.10 | Alpha Beta › 3-Layer(aba) Sandwich › Peroxisomal Thiolase; Chain A, domain 1 › Thiolase/Chalcone synthase | 0.68 | 55.0 | 3.54e-01 | 87.7% | 24.4% |
| 2qqyA00 | 1.20.1260.10 | Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle | 0.67 | 52.0 | 3.87e-01 | 82.5% | 68.1% |
| 2jrmA00 | 1.10.10.620 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › ribosome modulation factor like domain | 0.67 | 38.0 | 3.80e-01 | 80.7% | 51.7% |
| 3d36B02 | 1.10.287.130 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Signal transduction histidine kinase, dimerisation/phosphotransfer (DHp) domain | 0.67 | 47.0 | 4.64e-01 | 75.4% | 68.9% |
| 2ktmA00 | 1.10.790.10 | Mainly Alpha › Orthogonal Bundle › Major Prion Protein › Prion/Doppel protein, beta-ribbon domain | 0.67 | 54.0 | 5.24e-01 | 96.5% | 80.9% |
| 1fc6A01 | 3.30.750.44 | Alpha Beta › 2-Layer Sandwich › Transcription Regulator spoIIAA › | 0.65 | 44.0 | 3.76e-01 | 78.9% | 41.8% |
| 4b8cJ01 | 3.80.10.10 | Alpha Beta › Alpha-Beta Horseshoe › Leucine-rich repeat, LRR (right-handed beta-alpha superhelix) › Ribonuclease Inhibitor | 0.65 | 46.0 | 3.22e-01 | 77.2% | 26.6% |
| 2uv8A07 | 6.10.140.1410 | Special › Helix non-globular › Helix Hairpins › | 0.64 | 53.0 | 4.67e-01 | 93.0% | 65.9% |
| 2ic6A00 | 1.20.58.90 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.64 | 47.0 | 4.41e-01 | 78.9% | 91.5% |
| 1yg2A02 | 6.10.140.190 | Special › Helix non-globular › Helix Hairpins › | 0.62 | 44.0 | 3.82e-01 | 75.4% | 71.1% |
| 2e62A01 | 6.10.140.420 | Special › Helix non-globular › Helix Hairpins › | 0.62 | 48.0 | 4.97e-01 | 87.7% | 96.2% |
| 5wp3B00 | 1.10.132.20 | Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor | 0.61 | 48.0 | 3.98e-01 | 93.0% | 48.0% |
| 6xm1A02 | 3.90.830.10 | Alpha Beta › Alpha-Beta Complex › Syntaxin Binding Protein 1; Chain A, domain 2 › Sec1/Munc18 (SM) protein, domain 3a | 0.60 | 45.0 | 3.65e-01 | 82.5% | 98.2% |
| 3gfaA00 | 3.40.109.10 | Alpha Beta › 3-Layer(aba) Sandwich › NADH Oxidase › NADH Oxidase | 0.58 | 49.0 | 3.37e-01 | 93.0% | 67.9% |
| 2x1dA02 | 1.10.10.2120 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › | 0.58 | 47.0 | 4.35e-01 | 91.2% | 79.7% |
| 2yb5F01 | 1.20.1280.250 | Mainly Alpha › Up-down Bundle › Monooxygenase › | 0.58 | 37.0 | 3.29e-01 | 96.5% | 43.0% |
| 3e46A02 | 1.10.8.10 | Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain | 0.58 | 35.0 | 3.82e-01 | 73.7% | 76.7% |
| 4g6dB02 | 6.10.140.1800 | Special › Helix non-globular › Helix Hairpins › | 0.58 | 47.0 | 4.37e-01 | 100.0% | 77.8% |
| 1ulyA02 | 1.10.20.10 | Mainly Alpha › Orthogonal Bundle › Histone, subunit A › Histone, subunit A | 0.58 | 45.0 | 4.02e-01 | 100.0% | 73.3% |
| 1b04A03 | 1.10.287.610 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin | 0.57 | 38.0 | 3.75e-01 | 75.4% | 62.9% |
| 3ragB00 | 3.40.50.410 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › von Willebrand factor, type A domain | 0.56 | 46.0 | 3.21e-01 | 100.0% | 41.2% |
| 1s8nA02 | 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 | 0.56 | 44.0 | 4.40e-01 | 87.7% | 89.7% |
| 2hujA00 | 1.20.120.440 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › YppE-like | 0.55 | 48.0 | 3.71e-01 | 96.5% | 98.4% |
| 3ed5A02 | 1.10.150.240 | Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 | 0.55 | 42.0 | 3.81e-01 | 91.2% | 59.5% |
| 8igrI01 | 2.40.270.10 | Mainly Beta › Beta Barrel › Dna-directed Rna Polymerase Ii 140kd Polypeptide; Chain: B; Domain 6 › DNA-directed RNA polymerase, subunit 2, domain 6 | 0.55 | 44.0 | 3.27e-01 | 96.5% | 33.5% |
| 2a3qA00 | 1.10.287.1080 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › MazG-like | 0.55 | 48.0 | 3.81e-01 | 96.5% | 71.7% |
| 1jb0F00 | 1.10.8.110 | Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Photosystem I, reaction centre, subunit PsaF | 0.54 | 45.0 | 3.51e-01 | 100.0% | 41.8% |
| 2f2gA00 | 1.20.910.10 | Mainly Alpha › Up-down Bundle › Heme Oxygenase; Chain A › Heme oxygenase-like | 0.54 | 45.0 | 3.16e-01 | 100.0% | 84.2% |
| 2kfdA00 | 1.10.10.440 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › FF domain | 0.53 | 39.0 | 3.85e-01 | 87.7% | 72.3% |
| 6wshA02 | 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 | 43.0 | 4.41e-01 | 93.0% | 96.4% |
| 8ctsB01 | 1.10.287.70 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › | 0.53 | 44.0 | 3.94e-01 | 98.2% | 78.2% |
| 2g3qA00 | 1.10.8.10 | Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain | 0.52 | 32.0 | 3.42e-01 | 100.0% | 79.1% |
ECOD (36)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4080125 | 616.1.1.45 ↗ | alpha arrays › S15/NS1 RNA-binding domain › S15/NS1 RNA-binding domain › S15/NS1 RNA-binding domain › MIS13 | 0.78 | 48.0 | 4.29e-01 | 75.4% | 45.0% |
| 4182553 | 5042.1.1.1 ↗ | extended segments › Magnesium transport protein CorA, transmembrane region › Magnesium transport protein CorA, transmembrane region › Magnesium transport protein CorA, transmembrane region › CorA | 0.77 | 59.0 | 5.54e-01 | 82.5% | 74.3% |
| 3966580 | 5042.1.1.0 ↗ | extended segments › Magnesium transport protein CorA, transmembrane region › Magnesium transport protein CorA, transmembrane region › Magnesium transport protein CorA, transmembrane region | 0.75 | 58.0 | 5.70e-01 | 82.5% | 86.7% |
| 3838316 | 3567.1.1.150 ↗ | a+b duplicates or obligate multimers › MPER trimer › MPER trimer › MPER trimer › H-kinase_dim | 0.73 | 51.0 | 4.68e-01 | 73.7% | 65.3% |
| 3282873 | 5042.1.1.1 ↗ | extended segments › Magnesium transport protein CorA, transmembrane region › Magnesium transport protein CorA, transmembrane region › Magnesium transport protein CorA, transmembrane region › CorA | 0.73 | 57.0 | 5.56e-01 | 84.2% | 82.5% |
| 4264204 | 842.1.1.1 ↗ | a+b two layers › Thymidylate synthase-complementing protein Thy1 › Thymidylate synthase-complementing protein Thy1 › Thymidylate synthase-complementing protein Thy1 › Thy1 | 0.72 | 59.0 | 3.79e-01 | 91.2% | 26.2% |
| 4012407 | 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 | 0.72 | 51.0 | 5.01e-01 | 73.7% | 70.0% |
| 3266339 | 5042.1.1.0 ↗ | extended segments › Magnesium transport protein CorA, transmembrane region › Magnesium transport protein CorA, transmembrane region › Magnesium transport protein CorA, transmembrane region | 0.72 | 61.0 | 5.90e-01 | 94.7% | 89.2% |
| 3231463 | 632.8.1.2 ↗ | 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 › Alpha-2-MRAP_C | 0.71 | 52.0 | 4.41e-01 | 84.2% | 47.4% |
| 4375453 | 622.4.1.26 ↗ | alpha bundles › YvfG-like › Mite allergen Der p 5-related › Mite allergen Der p 5-related › HisKA | 0.71 | 50.0 | 4.54e-01 | 73.7% | 74.7% |
| 4312332 | 622.4.1.0 ↗ | alpha bundles › YvfG-like › Mite allergen Der p 5-related › Mite allergen Der p 5-related | 0.71 | 53.0 | 4.65e-01 | 80.7% | 55.3% |
| 5002349 | 605.1.1.1 ↗ | alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA | 0.70 | 48.0 | 4.59e-01 | 75.4% | 63.1% |
| 3696407 | 4121.1.1.7 ↗ | a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like › PF26616 | 0.69 | 49.0 | 3.26e-01 | 75.4% | 19.1% |
| 4946915 | 223.2.1.0 ↗ | a+b three layers › Profilin-like › profilin-like › profilin-like | 0.69 | 60.0 | 4.98e-01 | 100.0% | 80.0% |
| 5069130 | 6026.1.1.0 ↗ | alpha duplicates or obligate multimers › cwf21 domain › cwf21 domain › cwf21 domain | 0.68 | 52.0 | 5.41e-01 | 94.7% | 98.0% |
| 5060491 | 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 | 0.68 | 50.0 | 3.93e-01 | 78.9% | 38.3% |
| 5003923 | 5042.1.1.1 ↗ | extended segments › Magnesium transport protein CorA, transmembrane region › Magnesium transport protein CorA, transmembrane region › Magnesium transport protein CorA, transmembrane region › CorA | 0.68 | 58.0 | 5.39e-01 | 93.0% | 78.6% |
| 5049956 | 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 | 0.68 | 47.0 | 4.70e-01 | 73.7% | 75.0% |
| 4848962 | 3016.1.1.5 ↗ | a+b two layers › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › SHMT | 0.67 | 46.0 | 4.10e-01 | 82.5% | 51.2% |
| 3331529 | 5076.1.1.1 ↗ | alpha complex topology › Mitochondrial ADP/ATP carrier-like › Mitochondrial ADP/ATP carrier › Mitochondrial ADP/ATP carrier › Mito_carr | 0.67 | 56.0 | 3.60e-01 | 98.2% | 48.6% |
| 3691039 | 605.1.1.1 ↗ | alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA | 0.67 | 50.0 | 4.49e-01 | 80.7% | 57.5% |
| 3589789 | 5042.1.1.1 ↗ | extended segments › Magnesium transport protein CorA, transmembrane region › Magnesium transport protein CorA, transmembrane region › Magnesium transport protein CorA, transmembrane region › CorA | 0.66 | 56.0 | 5.56e-01 | 93.0% | 91.7% |
| 3677437 | 192.15.1.0 ↗ | alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains | 0.65 | 55.0 | 4.45e-01 | 96.5% | 64.3% |
| 4419662 | 2007.1.11.4 ↗ | a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › L-fucose isomerase, N-terminal and second domains › AraA_central | 0.63 | 52.0 | 3.81e-01 | 91.2% | 34.2% |
| 3737217 | 103.1.1.9 ↗ | alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain › HBS1_N | 0.62 | 43.0 | 4.04e-01 | 80.7% | 58.6% |
| 4329615 | 605.1.1.1 ↗ | alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA | 0.60 | 46.0 | 4.27e-01 | 80.7% | 68.6% |
| 4666571 | 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 | 0.59 | 44.0 | 4.02e-01 | 82.5% | 67.5% |
| 4631780 | 192.7.1.4 ↗ | alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Val_tRNA-synt_C | 0.59 | 46.0 | 4.52e-01 | 82.5% | 90.0% |
| 5006188 | 605.1.1.1 ↗ | alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA | 0.58 | 46.0 | 4.53e-01 | 84.2% | 81.7% |
| 5051258 | 2007.1.14.7 ↗ | a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Chelatase-like › HGD-D | 0.57 | 52.0 | 3.46e-01 | 100.0% | 87.6% |
| 3186805 | 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 | 46.0 | 4.26e-01 | 89.5% | 90.0% |
| 4524350 | 1025.1.1.1 ↗ | alpha bundles › Stonustoxin helical domain › Stonustoxin helical domain › Stonustoxin helical domain › Stonustoxin_helical | 0.55 | 45.0 | 3.55e-01 | 94.7% | 45.5% |
| 1095885 | 6128.1.1.0 ↗ | 0.54 | 42.0 | 4.16e-01 | 87.7% | 84.1% | |
| 3960709 | 4048.1.1.1 ↗ | alpha bundles › Second alpha-helical domain in heme-dependent catalases › Second alpha-helical domain in heme-dependent catalases › Second alpha-helical domain in heme-dependent catalases › Catalase-rel | 0.52 | 35.0 | 3.16e-01 | 82.5% | 48.8% |
| 3386373 | 605.1.1.2 ↗ | alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › H-kinase_dim | 0.52 | 44.0 | 4.27e-01 | 93.0% | 84.6% |
| 3620978 | 2003.1.2.18 ↗ | a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain | 0.51 | 43.0 | 2.74e-01 | 96.5% | 52.2% |
D4
medium
residues 312-559