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NC_062746.1__YP_010356702.1__M1M24_gp13__00013
Bact-VirNC_062746.1__YP_010356702.1__M1M24_gp13__00013
Identity
- Accession:
- NC_062746 ↗
- Kingdom:
- phage
Quality
78.6
mean pLDDT
Taxonomy
TaxID: 2745662
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 406-456
Domain cluster:
representative
CATH (6)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2cobA01 | 1.10.10.60 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like | 0.61 | 44.0 | 4.68e-01 | 100.0% | 88.6% |
| 4rgxB00 | 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 | 0.59 | 41.0 | 3.08e-01 | 74.5% | 45.5% |
| 2id3A01 | 1.10.10.60 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like | 0.55 | 39.0 | 3.98e-01 | 98.0% | 77.6% |
| 3lmmB05 | 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 | 0.55 | 40.0 | 3.79e-01 | 78.4% | 100.0% |
| 1y56A01 | 3.10.20.440 | Alpha Beta › Roll › Ubiquitin-like (UB roll) › 2Fe-2S iron-sulphur cluster binding domain, sarcosine oxidase, alpha subunit, N-terminal domain | 0.54 | 44.0 | 3.71e-01 | 94.1% | 89.4% |
| 4mj7B00 | 3.40.50.1010 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 5'-nuclease | 0.52 | 37.0 | 2.64e-01 | 76.5% | 70.6% |
ECOD (39)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1918690 | 601.3.1.3 ↗ | alpha bundles › Four-helical up-and-down bundle › Histidine-containing phosphotransfer domain, HPT domain › Histidine-containing phosphotransfer domain, HPT domain › RIP_P131-like | 0.79 | 69.0 | 5.22e-01 | 100.0% | 77.2% |
| 3589399 | 4038.1.1.1 ↗ | alpha bundles › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein › Phage_portal | 0.73 | 53.0 | 3.28e-01 | 76.5% | 31.1% |
| 5065596 | 101.1.11.0 ↗ | alpha arrays › HTH › HTH › Ribbon-helix-helix | 0.72 | 52.0 | 4.45e-01 | 100.0% | 48.8% |
| 4938759 | 101.1.8.14 ↗ | alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › UPF0175 | 0.71 | 53.0 | 5.15e-01 | 100.0% | 70.9% |
| 5051836 | 101.1.11.203 ↗ | alpha arrays › HTH › HTH › Ribbon-helix-helix › UPF0175 | 0.71 | 53.0 | 4.23e-01 | 100.0% | 42.1% |
| 3973615 | 101.1.6.0 ↗ | alpha arrays › HTH › HTH › TrpR | 0.71 | 51.0 | 4.69e-01 | 96.1% | 60.0% |
| 5072014 | 101.1.11.0 ↗ | alpha arrays › HTH › HTH › Ribbon-helix-helix | 0.71 | 54.0 | 4.68e-01 | 100.0% | 54.7% |
| 5076135 | 101.1.1.0 ↗ | alpha arrays › HTH › HTH › Three-helical HTH | 0.70 | 55.0 | 5.21e-01 | 84.3% | 83.3% |
| 5074942 | 101.1.11.0 ↗ | alpha arrays › HTH › HTH › Ribbon-helix-helix | 0.69 | 51.0 | 4.49e-01 | 100.0% | 53.3% |
| 5064868 | 101.1.11.203 ↗ | alpha arrays › HTH › HTH › Ribbon-helix-helix › UPF0175 | 0.69 | 56.0 | 4.54e-01 | 86.3% | 54.4% |
| 4950777 | 101.1.1.371 ↗ | alpha arrays › HTH › HTH › Three-helical HTH › UPF0175 | 0.69 | 55.0 | 4.94e-01 | 86.3% | 68.6% |
| 5012367 | 101.1.1.0 ↗ | alpha arrays › HTH › HTH › Three-helical HTH | 0.69 | 54.0 | 5.33e-01 | 100.0% | 78.2% |
| 4992556 | 101.1.11.203 ↗ | alpha arrays › HTH › HTH › Ribbon-helix-helix › UPF0175 | 0.68 | 54.0 | 4.18e-01 | 84.3% | 46.7% |
| 5061082 | 101.1.1.0 ↗ | alpha arrays › HTH › HTH › Three-helical HTH | 0.68 | 48.0 | 5.36e-01 | 98.0% | 95.0% |
| 5014241 | 101.1.1.371 ↗ | alpha arrays › HTH › HTH › Three-helical HTH › UPF0175 | 0.67 | 54.0 | 4.48e-01 | 86.3% | 56.5% |
| 4992527 | 101.1.11.203 ↗ | alpha arrays › HTH › HTH › Ribbon-helix-helix › UPF0175 | 0.67 | 53.0 | 4.50e-01 | 100.0% | 53.8% |
| 4989022 | 101.1.2.881 ↗ | alpha arrays › HTH › HTH › winged helix domain › UPF0175 | 0.67 | 51.0 | 5.38e-01 | 80.4% | 100.0% |
| 4992849 | 101.1.11.0 ↗ | alpha arrays › HTH › HTH › Ribbon-helix-helix | 0.67 | 54.0 | 4.56e-01 | 94.1% | 55.0% |
| 4993165 | 101.1.11.203 ↗ | alpha arrays › HTH › HTH › Ribbon-helix-helix › UPF0175 | 0.67 | 56.0 | 4.46e-01 | 90.2% | 51.6% |
| 4970237 | 101.1.1.371 ↗ | alpha arrays › HTH › HTH › Three-helical HTH › UPF0175 | 0.66 | 54.0 | 5.78e-01 | 96.1% | 100.0% |
| 5045749 | 101.1.11.203 ↗ | alpha arrays › HTH › HTH › Ribbon-helix-helix › UPF0175 | 0.66 | 53.0 | 4.89e-01 | 86.3% | 72.3% |
| 4994233 | 101.1.11.203 ↗ | alpha arrays › HTH › HTH › Ribbon-helix-helix › UPF0175 | 0.65 | 54.0 | 4.54e-01 | 100.0% | 56.2% |
| 4994133 | 101.1.11.0 ↗ | alpha arrays › HTH › HTH › Ribbon-helix-helix | 0.65 | 51.0 | 4.31e-01 | 86.3% | 55.3% |
| 4987329 | 101.1.2.881 ↗ | alpha arrays › HTH › HTH › winged helix domain › UPF0175 | 0.65 | 52.0 | 4.33e-01 | 86.3% | 55.3% |
| 5029686 | 101.1.11.203 ↗ | alpha arrays › HTH › HTH › Ribbon-helix-helix › UPF0175 | 0.65 | 53.0 | 4.61e-01 | 94.1% | 60.0% |
| 5071071 | 101.1.1.0 ↗ | alpha arrays › HTH › HTH › Three-helical HTH | 0.65 | 53.0 | 4.71e-01 | 94.1% | 64.3% |
| 5077693 | 101.1.11.0 ↗ | alpha arrays › HTH › HTH › Ribbon-helix-helix | 0.64 | 54.0 | 4.47e-01 | 100.0% | 54.1% |
| 4937291 | 101.1.1.371 ↗ | alpha arrays › HTH › HTH › Three-helical HTH › UPF0175 | 0.64 | 52.0 | 5.57e-01 | 94.1% | 100.0% |
| 4966880 | 101.1.11.203 ↗ | alpha arrays › HTH › HTH › Ribbon-helix-helix › UPF0175 | 0.64 | 54.0 | 4.35e-01 | 92.2% | 54.7% |
| 4530329 | 101.1.8.14 ↗ | alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › UPF0175 | 0.63 | 52.0 | 4.91e-01 | 94.1% | 75.0% |
| 4958294 | 101.1.1.0 ↗ | alpha arrays › HTH › HTH › Three-helical HTH | 0.63 | 43.0 | 4.09e-01 | 70.6% | 91.7% |
| 4263447 | 3801.1.1.4 ↗ | extended segments › ParE2-associated antitoxin 2 (PaaA2) › ParE2-associated antitoxin 2 (PaaA2) › ParE2-associated antitoxin 2 (PaaA2) › UPF0175 | 0.63 | 52.0 | 5.49e-01 | 94.1% | 100.0% |
| 5050966 | 101.1.11.2 ↗ | alpha arrays › HTH › HTH › Ribbon-helix-helix › RHH_1 | 0.63 | 53.0 | 4.26e-01 | 92.2% | 54.7% |
| 5028174 | 101.1.11.203 ↗ | alpha arrays › HTH › HTH › Ribbon-helix-helix › UPF0175 | 0.62 | 50.0 | 4.87e-01 | 86.3% | 89.1% |
| 4971448 | 101.1.11.0 ↗ | alpha arrays › HTH › HTH › Ribbon-helix-helix | 0.62 | 50.0 | 4.34e-01 | 100.0% | 58.7% |
| 5039995 | 2004.1.1.0 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases | 0.61 | 50.0 | 2.96e-01 | 100.0% | 10.6% |
| 4965520 | 101.1.1.556 ↗ | alpha arrays › HTH › HTH › Three-helical HTH › DUF7317 | 0.58 | 50.0 | 4.96e-01 | 98.0% | 98.2% |
| 3469752 | 101.1.1.35 ↗ | alpha arrays › HTH › HTH › Three-helical HTH › HTH_psq | 0.57 | 46.0 | 4.92e-01 | 100.0% | 100.0% |
| 1159676 | 101.1.1.5 ↗ | alpha arrays › HTH › HTH › Three-helical HTH › TetR_N | 0.50 | 37.0 | 3.27e-01 | 100.0% | 52.5% |
D2
medium
residues 52-81_226-250_314-383
Domain cluster:
representative
CATH (5)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3kdrA01 | 1.20.1270.210 | Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › | 0.76 | 62.0 | 6.64e-01 | 85.6% | 100.0% |
| 1nu7D01 | 1.20.120.750 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Staphylcoagulase, helix bundle domain 1 | 0.57 | 34.0 | 3.40e-01 | 95.2% | 54.8% |
| 3nbxX03 | 1.20.58.1510 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.56 | 32.0 | 3.52e-01 | 89.6% | 69.3% |
| 1orjD00 | 1.20.120.340 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Flagellar protein FliS | 0.54 | 31.0 | 3.14e-01 | 83.2% | 55.2% |
| 2yi9A05 | 1.20.1270.270 | Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › VP1, C-terminal extension domain | 0.54 | 26.0 | 3.12e-01 | 84.0% | 68.8% |
ECOD (9)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4949146 | 632.11.1.0 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like | 0.58 | 34.0 | 4.10e-01 | 72.8% | 86.7% |
| 4211798 | 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 | 0.57 | 29.0 | 2.58e-01 | 84.8% | 32.2% |
| 5035839 | 632.11.1.0 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like | 0.56 | 32.0 | 4.00e-01 | 76.0% | 94.7% |
| 3613594 | 604.12.1.0 ↗ | alpha bundles › Spectrin repeat-like › MIT domain › MIT domain | 0.56 | 41.0 | 4.01e-01 | 76.0% | 100.0% |
| 3207548 | 3755.3.1.0 ↗ | alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin | 0.56 | 38.0 | 3.71e-01 | 76.0% | 62.9% |
| 4942288 | 632.11.1.0 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like | 0.55 | 36.0 | 4.03e-01 | 75.2% | 85.0% |
| 4988301 | 3877.1.1.0 ↗ | alpha bundles › Membrane protein insertase YidC-related › Membrane protein insertase YidC-related › Membrane protein insertase YidC | 0.52 | 36.0 | 3.36e-01 | 70.4% | 70.0% |
| 3539619 | 7015.1.1.1 ↗ | alpha bundles › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain › DHHC | 0.51 | 34.0 | 3.26e-01 | 84.0% | 56.7% |
| 3699468 | 3755.3.1.0 ↗ | alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin | 0.50 | 37.0 | 3.14e-01 | 76.0% | 85.0% |
D3
medium
residues 100-225
Domain cluster:
rep: OR003941.1__WKW35122.1__X__00025__D75-181_236-257
CATH (9)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3kdrA02 | 3.40.140.120 | Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › | 0.74 | 51.0 | 5.13e-01 | 96.0% | 69.3% |
| 2digA00 | 2.30.30.140 | Mainly Beta › Roll › SH3 type barrels. › | 0.63 | 28.0 | 3.71e-01 | 73.0% | 75.0% |
| 2ra2B00 | 2.30.30.100 | Mainly Beta › Roll › SH3 type barrels. › | 0.59 | 28.0 | 3.92e-01 | 74.6% | 96.6% |
| 2gfaB01 | 2.30.30.140 | Mainly Beta › Roll › SH3 type barrels. › | 0.57 | 26.0 | 3.52e-01 | 70.6% | 83.9% |
| 2vknA00 | 2.30.30.40 | Mainly Beta › Roll › SH3 type barrels. › SH3 Domains | 0.55 | 29.0 | 3.82e-01 | 71.4% | 95.5% |
| 3kd4A02 | 3.10.620.30 | Alpha Beta › Roll › C8orf32 fold › | 0.54 | 39.0 | 3.63e-01 | 82.5% | 59.4% |
| 3npfB01 | 2.30.30.40 | Mainly Beta › Roll › SH3 type barrels. › SH3 Domains | 0.52 | 28.0 | 3.67e-01 | 71.4% | 97.0% |
| 5a3lA00 | 2.60.120.1560 | Mainly Beta › Sandwich › Jelly Rolls › | 0.51 | 37.0 | 3.18e-01 | 76.2% | 90.9% |
| 1foeC02 | 2.30.29.30 | Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) | 0.51 | 43.0 | 4.03e-01 | 94.4% | 98.8% |
ECOD (21)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3949049 | 4056.1.1.0 ↗ | beta barrels › Barrel domain in upper collar protein › Barrel domain in upper collar protein › Barrel domain in upper collar protein | 0.84 | 47.0 | 5.77e-01 | 73.0% | 84.3% |
| 3164773 | 4038.1.1.8 ↗ | alpha bundles › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein › Abc1-like | 0.78 | 54.0 | 6.29e-01 | 70.6% | 100.0% |
| 3948451 | 4056.1.1.8 ↗ | beta barrels › Barrel domain in upper collar protein › Barrel domain in upper collar protein › Barrel domain in upper collar protein › Phage_portal_3 | 0.75 | 52.0 | 5.79e-01 | 70.6% | 100.0% |
| 3977478 | 4056.1.1.9 ↗ | beta barrels › Barrel domain in upper collar protein › Barrel domain in upper collar protein › Barrel domain in upper collar protein › Phage_portal_2 | 0.67 | 47.0 | 5.29e-01 | 72.2% | 100.0% |
| 4949848 | 4.1.1.364 ↗ | beta barrels › SH3 › SH3 › SH3 › GatD_N | 0.65 | 28.0 | 4.00e-01 | 73.8% | 89.1% |
| 3989485 | 4.1.1.28 ↗ | beta barrels › SH3 › SH3 › SH3 › BPL_C | 0.61 | 26.0 | 3.71e-01 | 70.6% | 92.0% |
| 3761318 | 4.1.1.253 ↗ | beta barrels › SH3 › SH3 › SH3 › DUF4537 | 0.61 | 30.0 | 3.89e-01 | 70.6% | 82.9% |
| 4147366 | 4.17.1.1 ↗ | beta barrels › SH3 › GatD N-terminal domain-like › GatD N-terminal domain-like › GatD_N | 0.60 | 26.0 | 3.75e-01 | 72.2% | 97.9% |
| 3514867 | 4.1.1.1 ↗ | beta barrels › SH3 › SH3 › SH3 › SH3_1 | 0.59 | 30.0 | 3.71e-01 | 72.2% | 80.0% |
| 3898952 | 4.1.1.1 ↗ | beta barrels › SH3 › SH3 › SH3 › SH3_1 | 0.58 | 31.0 | 3.80e-01 | 73.0% | 82.7% |
| 3794445 | 4.1.1.54 ↗ | beta barrels › SH3 › SH3 › SH3 › SH3_2 | 0.57 | 31.0 | 3.70e-01 | 73.0% | 78.8% |
| 4505316 | 4.1.1.0 ↗ | beta barrels › SH3 › SH3 › SH3 | 0.57 | 27.0 | 3.65e-01 | 73.8% | 88.3% |
| 3918340 | 4.1.1.54 ↗ | beta barrels › SH3 › SH3 › SH3 › SH3_2 | 0.56 | 29.0 | 3.69e-01 | 73.0% | 87.1% |
| 4093354 | 4.1.1.1 ↗ | beta barrels › SH3 › SH3 › SH3 › SH3_1 | 0.56 | 31.0 | 3.87e-01 | 71.4% | 92.9% |
| 3554995 | 4.1.1.1 ↗ | beta barrels › SH3 › SH3 › SH3 › SH3_1 | 0.56 | 29.0 | 3.69e-01 | 73.0% | 87.1% |
| 4208181 | 4.1.1.70 ↗ | beta barrels › SH3 › SH3 › SH3 › Tsr0524-like | 0.56 | 29.0 | 3.77e-01 | 71.4% | 93.8% |
| 4998870 | 4.1.1.483 ↗ | beta barrels › SH3 › SH3 › SH3 › RRXRR | 0.55 | 30.0 | 3.60e-01 | 81.0% | 78.8% |
| 3372822 | 4.1.1.0 ↗ | beta barrels › SH3 › SH3 › SH3 | 0.54 | 29.0 | 3.51e-01 | 72.2% | 82.7% |
| 157818 | 4.1.1.1 ↗ | beta barrels › SH3 › SH3 › SH3 › SH3_1 | 0.54 | 31.0 | 3.51e-01 | 73.0% | 75.8% |
| 1545880 | 4.1.1.278 ↗ | beta barrels › SH3 › SH3 › SH3 › SH3_YKFC_2nd | 0.53 | 30.0 | 3.61e-01 | 73.8% | 86.3% |
| 3556321 | 4.1.1.118 ↗ | beta barrels › SH3 › SH3 › SH3 › SH3_15 | 0.52 | 29.0 | 3.56e-01 | 73.0% | 85.0% |
D4
medium
residues 251-313
Domain cluster:
representative
CATH (2)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1ryp100 | 3.60.20.10 | Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain | 0.53 | 43.0 | 3.06e-01 | 96.8% | 73.4% |
| 6jkvA00 | 3.60.40.10 | Alpha Beta › 4-Layer Sandwich › Phosphatase 2c; domain 1 › PPM-type phosphatase domain | 0.51 | 41.0 | 2.95e-01 | 98.4% | 86.1% |
ECOD (3)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3943006 | 4038.1.1.1 ↗ | alpha bundles › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein › Phage_portal | 0.62 | 48.0 | 3.17e-01 | 100.0% | 19.0% |
| 4410228 | 4038.1.1.1 ↗ | alpha bundles › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein › Phage_portal | 0.62 | 50.0 | 3.33e-01 | 100.0% | 21.1% |
| 3589399 | 4038.1.1.1 ↗ | alpha bundles › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein › Phage_portal | 0.54 | 46.0 | 3.09e-01 | 100.0% | 22.9% |