←Back to structures
NC_006884.2__YP_214683.1__PSSM4_122__00136
Bact-VirNC_006884.2__YP_214683.1__PSSM4_122__00136
Identity
- Accession:
- NC_006884 ↗
- Kingdom:
- phage
Quality
80.0
mean pLDDT
Taxonomy
Heunggongvirae›
Uroviricota›
Caudoviricetes›
Pantevenvirales›
Kyanoviridae›
Ronodorvirus›
Prochlorococcus_phage_P-SSM4
TaxID: 268747
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 1-70
Domain cluster:
rep: IMGVR_UViG_3300005400_000403-3300005400-Ga0066867_100074495__D1-69
D2
medium
residues 71-181_258-287
Domain cluster:
representative
CATH (1)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1v9mA03 | 1.20.1690.10 | Mainly Alpha › Up-down Bundle › V-type ATP synthase subunit C fold › V-type ATP synthase subunit C domain | 0.54 | 33.0 | 3.90e-01 | 74.5% | 88.5% |
ECOD (7)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3228691 | 103.4.1.1 ↗ | 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 › KIX | 0.58 | 30.0 | 3.43e-01 | 94.3% | 64.8% |
| 3914549 | 110.1.1.0 ↗ | alpha arrays › DEATH domain › DEATH domain › DEATH domain | 0.58 | 29.0 | 3.28e-01 | 94.3% | 60.0% |
| 3698982 | 5050.1.1.26 ↗ | alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › UVB_sens_prot | 0.53 | 40.0 | 3.29e-01 | 79.4% | 66.3% |
| 3476133 | 5050.1.1.0 ↗ | alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter | 0.51 | 36.0 | 3.13e-01 | 73.8% | 82.1% |
| 3489266 | 5050.1.1.9 ↗ | alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › MFS_1 | 0.50 | 36.0 | 3.10e-01 | 73.0% | 72.3% |
| 4021266 | 5050.1.1.0 ↗ | alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter | 0.50 | 38.0 | 3.36e-01 | 79.4% | 90.0% |
| 3271799 | 5001.1.1.80 ↗ | alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Dicty_CAR | 0.50 | 36.0 | 2.98e-01 | 75.2% | 82.3% |
D3
medium
residues 305-370
Domain cluster:
representative
CATH (18)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4w4kA00 | 1.10.287.850 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HP0062-like domain | 0.76 | 58.0 | 5.37e-01 | 86.4% | 65.9% |
| 1ydxA02 | 1.10.287.1120 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Bipartite methylase S protein | 0.73 | 55.0 | 5.00e-01 | 81.8% | 67.8% |
| 1gaxA05 | 1.10.287.380 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Valyl-tRNA synthetase, C-terminal domain | 0.71 | 50.0 | 4.84e-01 | 78.8% | 67.1% |
| 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 | 0.70 | 53.0 | 3.84e-01 | 81.8% | 30.6% |
| 4h33A00 | 1.10.287.70 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › | 0.70 | 50.0 | 4.48e-01 | 75.8% | 59.3% |
| 4abmD00 | 1.10.287.1060 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like | 0.69 | 55.0 | 5.23e-01 | 86.4% | 76.6% |
| 3b2eF00 | 1.10.287.660 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin | 0.69 | 51.0 | 5.28e-01 | 80.3% | 90.3% |
| 4nb5B02 | 1.10.287.160 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat | 0.69 | 49.0 | 5.04e-01 | 77.3% | 81.2% |
| 2lw1A00 | 1.10.287.380 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Valyl-tRNA synthetase, C-terminal domain | 0.68 | 52.0 | 4.78e-01 | 81.8% | 67.1% |
| 1urfA00 | 1.10.287.160 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat | 0.66 | 51.0 | 4.84e-01 | 84.8% | 75.3% |
| 4gx0A01 | 1.10.287.70 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › | 0.66 | 54.0 | 4.70e-01 | 92.4% | 91.3% |
| 1o7dC01 | 1.20.1270.50 | Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Glycoside hydrolase family 38, central domain | 0.64 | 44.0 | 4.57e-01 | 72.7% | 85.2% |
| 3spcA02 | 1.10.287.70 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › | 0.63 | 49.0 | 4.00e-01 | 86.4% | 78.0% |
| 3aeiA00 | 1.10.287.370 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › | 0.62 | 45.0 | 4.09e-01 | 80.3% | 78.7% |
| 1s5jA04 | 1.10.287.690 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › B family DNA polymerase, finger domain | 0.61 | 49.0 | 5.04e-01 | 87.9% | 96.7% |
| 4fppB01 | 1.10.287.130 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Signal transduction histidine kinase, dimerisation/phosphotransfer (DHp) domain | 0.61 | 50.0 | 4.90e-01 | 90.9% | 88.7% |
| 2qf9A01 | 1.20.1260.10 | Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle | 0.59 | 49.0 | 3.71e-01 | 90.9% | 45.5% |
| 1q6aA00 | 1.10.1240.30 | Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › KaiA/RbsU domain | 0.58 | 49.0 | 4.27e-01 | 97.0% | 99.1% |
ECOD (28)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4563674 | 192.7.1.4 ↗ | alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Val_tRNA-synt_C | 0.75 | 54.0 | 5.29e-01 | 75.8% | 77.1% |
| 4033238 | 101.1.2.804 ↗ | alpha arrays › HTH › HTH › winged helix domain › PF27113 | 0.74 | 56.0 | 4.11e-01 | 81.8% | 30.9% |
| 4587769 | 192.7.1.4 ↗ | alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Val_tRNA-synt_C | 0.74 | 51.0 | 5.21e-01 | 72.7% | 80.0% |
| 4005523 | 3860.1.1.167 ↗ | alpha bundles › Myosin VI lever arm › Myosin VI lever arm › Myosin VI lever arm › MscS_porin | 0.73 | 59.0 | 4.39e-01 | 86.4% | 40.0% |
| 4978412 | 101.1.2.48 ↗ | alpha arrays › HTH › HTH › winged helix domain › PadR | 0.73 | 54.0 | 3.92e-01 | 78.8% | 31.4% |
| 4045132 | 192.8.1.0 ↗ | alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain | 0.73 | 55.0 | 4.60e-01 | 86.4% | 48.2% |
| 3876167 | 220.1.1.1 ↗ | beta barrels › PH domain-like › PH domain-like › PH domain-like › PH | 0.72 | 55.0 | 4.01e-01 | 81.8% | 95.4% |
| 3935633 | 1203.1.2.1 ↗ | alpha bundles › Shroom domain 2 › Shroom domain 2 › Human SD2 › ASD2 | 0.72 | 58.0 | 4.18e-01 | 87.9% | 97.8% |
| 3973303 | 1049.2.1.3 ↗ | alpha duplicates or obligate multimers › Baseplate wedge protein gp7 helical domain-like › Baseplate wedge protein gp6 helical domain › Baseplate wedge protein gp6 helical domain › PF26776 | 0.72 | 49.0 | 4.09e-01 | 71.2% | 57.4% |
| 4979047 | 101.1.2.0 ↗ | alpha arrays › HTH › HTH › winged helix domain | 0.72 | 53.0 | 4.04e-01 | 81.8% | 36.4% |
| 5050356 | 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 | 0.71 | 54.0 | 5.37e-01 | 81.8% | 78.6% |
| 4299170 | 192.7.1.4 ↗ | alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Val_tRNA-synt_C | 0.71 | 49.0 | 4.89e-01 | 74.2% | 75.7% |
| 3589137 | 192.7.1.4 ↗ | alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Val_tRNA-synt_C | 0.70 | 49.0 | 4.90e-01 | 74.2% | 77.1% |
| 2732157 | 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 | 54.0 | 5.39e-01 | 83.3% | 81.2% |
| 3793286 | 4177.1.1.2 ↗ | alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like › BAR | 0.69 | 59.0 | 4.11e-01 | 92.4% | 80.5% |
| 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 | 0.68 | 48.0 | 4.88e-01 | 75.8% | 84.6% |
| None | — | 0.67 | 50.0 | 3.17e-01 | 81.8% | 21.7% | |
| 3744805 | 375.10.1.1 ↗ | few secondary structure elements › Rubredoxin-like › Zinc finger domain of DNA polymerase-alpha › Zinc finger domain of DNA polymerase-alpha › zf-DNA_Pol | 0.66 | 49.0 | 4.56e-01 | 80.3% | 83.5% |
| 4321934 | 101.1.2.311 ↗ | alpha arrays › HTH › HTH › winged helix domain › RNA12 | 0.66 | 56.0 | 4.25e-01 | 95.5% | 100.0% |
| 3803573 | 7022.1.1.0 ↗ | alpha bundles › central core domain of D-alanyl transfer protein › central core domain of D-alanyl transfer protein › central core domain of D-alanyl transfer protein | 0.65 | 50.0 | 3.50e-01 | 83.3% | 26.5% |
| 4143122 | 7023.1.1.3 ↗ | alpha bundles › helical ridge domain of D-alanyl transfer protein › helical ridge domain of D-alanyl transfer protein › helical ridge domain of D-alanyl transfer protein › MBOAT_2 | 0.65 | 49.0 | 3.44e-01 | 83.3% | 25.9% |
| 4029168 | 4984.1.1.0 ↗ | alpha bundles › Duffy-binding-like domain, C-terminal subdomain › Duffy-binding-like domain, C-terminal subdomain › Duffy-binding-like domain, C-terminal subdomain | 0.61 | 50.0 | 4.06e-01 | 90.9% | 48.5% |
| 3465927 | 622.4.1.0 ↗ | alpha bundles › YvfG-like › Mite allergen Der p 5-related › Mite allergen Der p 5-related | 0.59 | 46.0 | 4.38e-01 | 89.4% | 70.0% |
| 4634395 | 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 | 0.57 | 45.0 | 3.99e-01 | 90.9% | 87.6% |
| 3866327 | 5050.1.1.40 ↗ | alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › PGAP2IP_TM_1nd | 0.57 | 46.0 | 3.43e-01 | 90.9% | 60.0% |
| 4318643 | 140.1.1.4 ↗ | 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 › tRNA-synt_1e,DALR_2 | 0.56 | 44.0 | 3.04e-01 | 87.9% | 23.2% |
| 4422561 | 386.1.1.10 ↗ | few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › MAT1 | 0.56 | 37.0 | 3.59e-01 | 78.8% | 57.5% |
| 4284004 | 4106.1.1.1 ↗ | few secondary structure elements › Zinc hairpin stack › Zinc hairpin stack › Zinc hairpin stack › DHHC | 0.54 | 45.0 | 3.32e-01 | 98.5% | 33.3% |
D4
medium
residues 456-486_511-561
Domain cluster:
representative
ECOD (2)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 184733 | 3640.1.1.1 ↗ | alpha duplicates or obligate multimers › Minor ampullate fibroin 1 C-terminal domain › Minor ampullate fibroin 1 C-terminal domain › Minor ampullate fibroin 1 C-terminal domain › Spidroin_MaSp | 0.54 | 31.0 | 2.63e-01 | 98.8% | 31.4% |
| 3761056 | 633.1.1.0 ↗ | alpha bundles › Bromodomain-like › Bromodomain › Bromodomain | 0.51 | 29.0 | 2.96e-01 | 100.0% | 56.5% |