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MK016662.1__QBP05820.1__X__00025
Bact-VirMK016662.1__QBP05820.1__X__00025
Identity
- Accession:
- MK016662 ↗
- Kingdom:
- phage
Quality
90.8
mean pLDDT
Taxonomy
Heunggongvirae›
Uroviricota›
Caudoviricetes›
Autographivirales›
Qadamvirus›
Synechococcus_phage_S-B28
TaxID: 2545435
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 14-69
Domain cluster:
representative
CATH (8)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3delB01 | 3.40.190.10 | Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II | 0.69 | 46.0 | 3.42e-01 | 100.0% | 28.1% |
| 1w23A02 | 3.90.1150.10 | Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 | 0.61 | 52.0 | 4.37e-01 | 100.0% | 89.3% |
| 1svvB02 | 3.90.1150.10 | Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 | 0.59 | 51.0 | 4.39e-01 | 100.0% | 91.3% |
| 2vsgA02 | 1.10.470.10 | Mainly Alpha › Orthogonal Bundle › Variant Surface Glycoprotein, subunit A; domain 2 › Variant Surface Glycoprotein, subunit A, domain 2 | 0.58 | 40.0 | 3.03e-01 | 76.8% | 84.4% |
| 7vjvA01 | 2.60.120.590 | Mainly Beta › Sandwich › Jelly Rolls › Alpha-ketoglutarate-dependent dioxygenase AlkB-like | 0.58 | 41.0 | 2.85e-01 | 76.8% | 69.1% |
| 2cteA01 | 3.30.1370.10 | Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › K Homology domain, type 1 | 0.53 | 46.0 | 4.17e-01 | 100.0% | 88.6% |
| 2f1rA00 | 3.40.50.300 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases | 0.53 | 45.0 | 3.32e-01 | 96.4% | 92.6% |
| 7x4lC02 | 3.90.1150.160 | Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › | 0.52 | 41.0 | 3.42e-01 | 100.0% | 78.1% |
ECOD (20)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 5083528 | 101.1.11.0 ↗ | alpha arrays › HTH › HTH › Ribbon-helix-helix | 0.71 | 35.0 | 3.00e-01 | 100.0% | 31.8% |
| 3453690 | 4326.1.1.1 ↗ | a+b two layers › ERH-like › ERH-like › ERH-like › ER | 0.69 | 36.0 | 2.97e-01 | 91.1% | 29.5% |
| 3255174 | 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 | 0.63 | 37.0 | 2.73e-01 | 80.4% | 22.8% |
| 4622751 | 3016.1.1.0 ↗ | 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 | 0.63 | 54.0 | 4.48e-01 | 100.0% | 88.6% |
| 2522049 | 3016.1.1.0 ↗ | 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 | 0.63 | 54.0 | 4.36e-01 | 100.0% | 81.6% |
| 3972831 | 3016.1.1.0 ↗ | 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 | 0.60 | 44.0 | 4.01e-01 | 80.4% | 91.3% |
| 3959171 | 4029.1.1.0 ↗ | a+b duplicates or obligate multimers › SSH domain in siroheme synthase middle domains-like › SSH domain in siroheme synthase middle domains-like › SSH domain in siroheme synthase middle domains-like | 0.59 | 35.0 | 4.11e-01 | 96.4% | 85.0% |
| 5042950 | 2003.1.2.10 ↗ | a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › GIDA | 0.58 | 52.0 | 3.16e-01 | 100.0% | 58.8% |
| 3234497 | 5001.1.1.66 ↗ | alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Srg | 0.57 | 46.0 | 3.03e-01 | 92.9% | 75.3% |
| 4230972 | 3016.1.1.0 ↗ | 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 | 0.55 | 45.0 | 3.97e-01 | 92.9% | 91.8% |
| 5070036 | 101.1.2.0 ↗ | alpha arrays › HTH › HTH › winged helix domain | 0.54 | 42.0 | 3.16e-01 | 87.5% | 92.7% |
| 3581763 | 304.8.1.0 ↗ | a+b two layers › Alpha-beta plaits › ACT-like › ACT-like | 0.54 | 48.0 | 4.44e-01 | 100.0% | 85.7% |
| 3710097 | 101.1.2.0 ↗ | alpha arrays › HTH › HTH › winged helix domain | 0.53 | 46.0 | 3.52e-01 | 100.0% | 90.7% |
| 4980445 | 101.1.2.0 ↗ | alpha arrays › HTH › HTH › winged helix domain | 0.53 | 40.0 | 3.18e-01 | 91.1% | 96.6% |
| 4952992 | 101.1.2.135 ↗ | alpha arrays › HTH › HTH › winged helix domain › MarR_2 | 0.51 | 44.0 | 3.25e-01 | 96.4% | 47.3% |
| 3283825 | 101.1.2.135 ↗ | alpha arrays › HTH › HTH › winged helix domain › MarR_2 | 0.51 | 38.0 | 2.85e-01 | 78.6% | 71.1% |
| 4176553 | 3016.1.1.1 ↗ | 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 › Aminotran_1_2 | 0.51 | 45.0 | 4.30e-01 | 100.0% | 96.9% |
| 3227090 | 5069.1.1.0 ↗ | alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Transmembrane di-heme cytochromes | 0.51 | 42.0 | 3.00e-01 | 92.9% | 93.7% |
| 3396525 | 327.11.2.20 ↗ | a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) › BICC1_KH | 0.50 | 42.0 | 3.89e-01 | 96.4% | 96.0% |
| 3425203 | 3016.1.1.0 ↗ | 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 | 0.50 | 44.0 | 4.31e-01 | 100.0% | 100.0% |
D2
medium
residues 82-115
Domain cluster:
representative
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF19846.5 best | DUF6321 | 50.4 | 4.00e-13 | 100.0% | 47.2% |
CATH (4)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2qkdA04 | 2.60.120.1040 | Mainly Beta › Sandwich › Jelly Rolls › ZPR1, A/B domain | 0.65 | 53.0 | 3.66e-01 | 100.0% | 28.3% |
| 1ft8E00 | 3.30.70.330 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain | 0.64 | 37.0 | 3.48e-01 | 88.2% | 40.9% |
| 2lhtA01 | 6.10.80.20 | Special › Helix non-globular › DNA polymerase; domain 1 › | 0.64 | 51.0 | 4.14e-01 | 94.1% | 43.4% |
| 3i4uA01 | 1.20.120.1080 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › | 0.57 | 42.0 | 3.12e-01 | 79.4% | 41.2% |
ECOD (13)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4001867 | 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 | 0.76 | 62.0 | 4.27e-01 | 100.0% | 36.0% |
| 3938247 | 5001.1.1.0 ↗ | alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like | 0.70 | 55.0 | 3.34e-01 | 100.0% | 14.8% |
| 5082442 | 3755.3.1.0 ↗ | alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin | 0.66 | 55.0 | 3.76e-01 | 100.0% | 40.0% |
| 184777 | 3373.1.1.1 ↗ | few secondary structure elements › Cellophane-induced 1 (cin1) repeats › Cellophane-induced 1 (cin1) repeats › Cellophane-induced 1 (cin1) repeats › Cin1_N | 0.64 | 51.0 | 4.25e-01 | 94.1% | 47.8% |
| 3928446 | 5001.1.1.0 ↗ | alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like | 0.64 | 54.0 | 3.18e-01 | 100.0% | 13.2% |
| 3658365 | 3543.1.1.4 ↗ | alpha complex topology › Acid-activated urea channel › Acid-activated urea channel › Acid-activated urea channel › DUF716 | 0.63 | 50.0 | 3.00e-01 | 100.0% | 11.9% |
| 3949890 | 323.1.1.3 ↗ | a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases › AMP-binding | 0.60 | 40.0 | 2.52e-01 | 100.0% | 11.4% |
| 4003147 | 109.4.1.2187 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_14, HAT_PRP39_N, HAT_PRP39_C | 0.58 | 44.0 | 2.52e-01 | 97.1% | 8.7% |
| 3718299 | 109.4.1.0 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat | 0.58 | 42.0 | 2.39e-01 | 100.0% | 6.5% |
| 3700536 | 5041.1.1.1 ↗ | extended segments › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › ATP-synt_C | 0.55 | 44.0 | 2.89e-01 | 100.0% | 40.8% |
| 4943174 | 1.1.1.40 ↗ | beta barrels › cradle loop barrel › RIFT-related › acid protease › tRNA-synt_1 | 0.54 | 37.0 | 2.51e-01 | 97.1% | 17.2% |
| 3370324 | 109.4.1.1303 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › HAT_PRP39_N, HAT_PRP39_C | 0.54 | 41.0 | 2.38e-01 | 100.0% | 8.4% |
| 4441921 | 1.1.1.7 ↗ | beta barrels › cradle loop barrel › RIFT-related › acid protease › tRNA-synt_1_2 | 0.50 | 38.0 | 2.56e-01 | 88.2% | 42.0% |