←Back to structures
MN096362.1__QDK01948.1__SEA_VIBAKI_68__00068
Bact-VirMN096362.1__QDK01948.1__SEA_VIBAKI_68__00068
Identity
- Accession:
- MN096362 ↗
- Kingdom:
- phage
Quality
79.4
mean pLDDT
Taxonomy
Heunggongvirae›
Uroviricota›
Caudoviricetes›
Berryhillviridae›
Vibakivirus›
Arthrobacter_phage_Vibaki
TaxID: 2593333
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 27-87
Domain cluster:
representative
CATH (29)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4wpeA00 | 1.20.1270.60 | Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain | 0.89 | 79.0 | 5.02e-01 | 100.0% | 21.5% |
| 3pyoY00 | 1.10.287.310 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › | 0.85 | 55.0 | 5.56e-01 | 78.7% | 66.1% |
| 4abmD00 | 1.10.287.1060 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like | 0.84 | 72.0 | 6.60e-01 | 91.8% | 72.7% |
| 4oydB00 | 1.10.132.20 | Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor | 0.84 | 74.0 | 5.80e-01 | 100.0% | 48.7% |
| 1lvfB00 | 1.20.58.90 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.84 | 71.0 | 5.83e-01 | 90.2% | 55.8% |
| 3lssA01 | 1.10.287.40 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain | 0.83 | 77.0 | 6.13e-01 | 100.0% | 56.2% |
| 6r1nA01 | 1.10.287.40 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain | 0.83 | 77.0 | 6.27e-01 | 100.0% | 58.3% |
| 2y39A00 | 1.20.120.1490 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › | 0.82 | 63.0 | 5.04e-01 | 100.0% | 44.5% |
| 3fppA03 | 6.10.140.1990 | Special › Helix non-globular › Helix Hairpins › | 0.81 | 65.0 | 5.74e-01 | 100.0% | 60.2% |
| 2b5dX01 | 3.20.110.10 | Alpha Beta › Alpha-Beta Barrel › 7-stranded beta/alpha barrel › Glycoside hydrolase 38, N terminal domain | 0.81 | 61.0 | 3.64e-01 | 80.3% | 12.1% |
| 3kr9A02 | 1.10.287.1890 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › | 0.80 | 55.0 | 5.52e-01 | 72.1% | 70.5% |
| 7xv3R01 | 1.20.1070.10 | Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins | 0.80 | 71.0 | 4.60e-01 | 100.0% | 22.5% |
| 4kb2A01 | 1.10.132.20 | Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor | 0.78 | 65.0 | 5.35e-01 | 96.7% | 51.4% |
| 2kz6A01 | 6.10.140.1310 | Special › Helix non-globular › Helix Hairpins › | 0.77 | 61.0 | 5.59e-01 | 88.5% | 66.7% |
| 1sg2A00 | 3.30.910.20 | Alpha Beta › 2-Layer Sandwich › Protein Binding, DinI Protein; Chain A › Skp domain | 0.77 | 59.0 | 4.43e-01 | 88.5% | 35.5% |
| 1s35A01 | 1.20.58.60 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.74 | 54.0 | 4.52e-01 | 77.0% | 47.5% |
| 1wleA01 | 1.10.287.40 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain | 0.73 | 67.0 | 5.36e-01 | 100.0% | 53.5% |
| 3pe0A01 | 1.20.58.60 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.73 | 55.0 | 4.67e-01 | 90.2% | 49.5% |
| 3r84A00 | 1.10.287.3490 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › | 0.72 | 57.0 | 5.19e-01 | 86.9% | 65.4% |
| 4h63H01 | 1.20.58.1710 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.71 | 58.0 | 5.50e-01 | 88.5% | 76.4% |
| 1wpaA01 | 6.10.140.340 | Special › Helix non-globular › Helix Hairpins › | 0.70 | 59.0 | 5.09e-01 | 100.0% | 59.6% |
| 1vf7A03 | 1.10.287.470 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin | 0.67 | 47.0 | 4.75e-01 | 75.4% | 81.7% |
| 2e62A01 | 6.10.140.420 | Special › Helix non-globular › Helix Hairpins › | 0.66 | 45.0 | 4.89e-01 | 73.8% | 82.7% |
| 4hz4A02 | 1.20.1050.10 | Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › | 0.64 | 49.0 | 4.01e-01 | 82.0% | 78.6% |
| 2oceA01 | 1.10.10.650 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › RuvA domain 2-like | 0.64 | 52.0 | 4.23e-01 | 95.1% | 47.8% |
| 2h7oA01 | 1.20.120.1330 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Rac1-binding domain, N-terminal GTPase binding subdomain | 0.62 | 44.0 | 3.46e-01 | 73.8% | 49.6% |
| 2bdeA03 | 1.20.58.1160 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.62 | 49.0 | 4.60e-01 | 88.5% | 70.1% |
| 6t0bc01 | 1.10.287.70 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › | 0.58 | 47.0 | 4.42e-01 | 100.0% | 73.1% |
| 2w02B01 | 1.10.150.640 | Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › AcsD, thumb domain, helical bundle | 0.58 | 41.0 | 3.82e-01 | 73.8% | 78.4% |
ECOD (33)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 5055314 | 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 | 0.92 | 72.0 | 6.20e-01 | 83.6% | 55.6% |
| 3516129 | 604.1.1.0 ↗ | alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat | 0.91 | 76.0 | 6.21e-01 | 100.0% | 51.4% |
| 3579766 | 604.1.1.0 ↗ | alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat | 0.91 | 76.0 | 4.76e-01 | 100.0% | 19.3% |
| 3580368 | 4163.1.1.1 ↗ | alpha bundles › GINS helical bundle-like › GINS helical bundle-like › PSF1 N-terminal domain-like › Sld5 | 0.90 | 70.0 | 5.15e-01 | 85.2% | 34.5% |
| 4487944 | 605.1.1.131 ↗ | alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › Val_tRNA-synt_C | 0.90 | 69.0 | 6.74e-01 | 80.3% | 80.0% |
| 4667987 | 192.4.1.0 ↗ | alpha bundles › Long alpha-hairpin › Ribosomal protein L29 (L29p) › Ribosomal protein L29 (L29p) | 0.90 | 56.0 | 5.56e-01 | 75.4% | 61.9% |
| 4052416 | 192.4.1.1 ↗ | alpha bundles › Long alpha-hairpin › Ribosomal protein L29 (L29p) › Ribosomal protein L29 (L29p) › Ribosomal_L29 | 0.88 | 63.0 | 5.65e-01 | 85.2% | 56.2% |
| 4084570 | 192.4.1.1 ↗ | alpha bundles › Long alpha-hairpin › Ribosomal protein L29 (L29p) › Ribosomal protein L29 (L29p) › Ribosomal_L29 | 0.88 | 55.0 | 5.23e-01 | 75.4% | 55.7% |
| 4228184 | 192.4.1.1 ↗ | alpha bundles › Long alpha-hairpin › Ribosomal protein L29 (L29p) › Ribosomal protein L29 (L29p) › Ribosomal_L29 | 0.88 | 55.0 | 4.46e-01 | 75.4% | 37.1% |
| 4009623 | 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 | 0.87 | 60.0 | 5.92e-01 | 83.6% | 67.7% |
| 4680241 | 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 | 0.85 | 64.0 | 6.27e-01 | 80.3% | 75.4% |
| 3608194 | 4177.1.1.0 ↗ | alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like | 0.85 | 73.0 | 4.86e-01 | 100.0% | 26.9% |
| 4106620 | 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 | 0.84 | 71.0 | 6.59e-01 | 91.8% | 74.7% |
| 4254477 | 4006.1.1.1 ↗ | alpha bundles › Release factor (Pfam 00472) N-terminal alpha helical domain › Release factor (Pfam 00472) N-terminal alpha helical domain › Release factor (Pfam 00472) N-terminal alpha helical domain › PCRF | 0.84 | 76.0 | 6.32e-01 | 98.4% | 59.0% |
| 4359331 | 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 | 0.84 | 60.0 | 6.07e-01 | 80.3% | 76.7% |
| 3218641 | 604.1.1.0 ↗ | alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat | 0.83 | 69.0 | 5.45e-01 | 100.0% | 45.8% |
| 149872 | 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 | 0.82 | 71.0 | 6.48e-01 | 96.7% | 73.4% |
| 4373203 | 605.1.1.131 ↗ | alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › Val_tRNA-synt_C | 0.82 | 56.0 | 5.54e-01 | 90.2% | 67.7% |
| 3386594 | 3291.1.1.197 ↗ | alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › MCPsignal | 0.81 | 73.0 | 6.04e-01 | 100.0% | 61.0% |
| 5042955 | 2004.1.1.87 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SMC_N | 0.81 | 74.0 | 4.19e-01 | 100.0% | 10.4% |
| 3500901 | 4177.1.1.2 ↗ | alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like › BAR | 0.81 | 73.0 | 5.08e-01 | 100.0% | 32.6% |
| 3287947 | 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 | 0.80 | 71.0 | 6.24e-01 | 100.0% | 68.9% |
| 3507969 | 3755.3.1.420 ↗ | alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › PTHB1_hp | 0.80 | 71.0 | 5.09e-01 | 100.0% | 34.9% |
| 3430567 | 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 | 0.80 | 55.0 | 5.58e-01 | 75.4% | 73.3% |
| 3588068 | 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 | 0.79 | 73.0 | 6.32e-01 | 100.0% | 92.2% |
| 4032912 | 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 | 0.79 | 66.0 | 6.20e-01 | 93.4% | 76.0% |
| 3184698 | 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 | 0.78 | 70.0 | 6.12e-01 | 100.0% | 71.1% |
| 3494616 | 4106.1.1.1 ↗ | few secondary structure elements › Zinc hairpin stack › Zinc hairpin stack › Zinc hairpin stack › DHHC | 0.75 | 61.0 | 5.43e-01 | 86.9% | 64.7% |
| 4185385 | 605.2.1.6 ↗ | alpha duplicates or obligate multimers › ROP-like › Hypothetical protein D-63 › Hypothetical protein D-63 › Val_tRNA-synt_C | 0.74 | 49.0 | 4.69e-01 | 98.4% | 60.0% |
| 3996706 | 604.1.1.124 ↗ | alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › Spectrin_6 | 0.73 | 62.0 | 4.33e-01 | 100.0% | 53.0% |
| 5048862 | 2004.1.1.5 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ABC_tran | 0.73 | 65.0 | 3.94e-01 | 100.0% | 23.2% |
| 4439346 | 3509.1.1.0 ↗ | a+b complex topology › RapA C-terminal domain › RapA C-terminal domain › RapA C-terminal domain | 0.72 | 64.0 | 3.52e-01 | 100.0% | 10.8% |
| 3930836 | 604.1.1.0 ↗ | alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat | 0.68 | 59.0 | 4.77e-01 | 100.0% | 50.0% |