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LSDeep1_scaffold_41_prodigal-single.1__X__X__00080
Bact-VirLSDeep1_scaffold_41_prodigal-single.1__X__X__00080
Identity
- Kingdom:
- phage
Quality
53.8
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 106-236
D2
high
residues 603-755
Domain cluster:
rep: NC_055840.1__YP_010107121.1__KNU98_gp022__00087__D316-449
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF08291.17 best | Peptidase_M15_3 | 24.5 | 3.50e-05 | 66.0% | 64.8% |
CATH (8)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1vhhA00 | 3.30.1380.10 | Alpha Beta › 2-Layer Sandwich › Muramoyl-pentapeptide Carboxypeptidase; domain 2 › | 0.78 | 54.0 | 5.39e-01 | 84.3% | 68.8% |
| 1lbuA02 | 3.30.1380.10 | Alpha Beta › 2-Layer Sandwich › Muramoyl-pentapeptide Carboxypeptidase; domain 2 › | 0.76 | 61.0 | 6.67e-01 | 98.7% | 100.0% |
| 1wihA00 | 3.30.1360.40 | Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › | 0.68 | 35.0 | 4.61e-01 | 81.7% | 90.5% |
| 1lfwA03 | 3.30.70.360 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.62 | 28.0 | 3.52e-01 | 80.4% | 70.5% |
| 4mphA00 | 3.30.1380.10 | Alpha Beta › 2-Layer Sandwich › Muramoyl-pentapeptide Carboxypeptidase; domain 2 › | 0.61 | 51.0 | 4.78e-01 | 86.9% | 81.8% |
| 1yrxC01 | 3.30.70.100 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.59 | 30.0 | 3.52e-01 | 75.2% | 67.3% |
| 4lr2A02 | 3.30.1360.180 | Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › | 0.53 | 25.0 | 3.04e-01 | 76.5% | 66.7% |
| 1wvfA01 | 3.30.43.10 | Alpha Beta › 2-Layer Sandwich › Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 2 › Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase, domain 2 | 0.50 | 34.0 | 3.98e-01 | 70.6% | 99.1% |
ECOD (18)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4584034 | 307.1.1.1 ↗ | a+b two layers › Hedgehog/DD-peptidase › Hedgehog/DD-peptidase › Hedgehog/DD-peptidase › HH_signal | 0.79 | 54.0 | 5.22e-01 | 83.7% | 63.3% |
| None | — | 0.77 | 54.0 | 5.25e-01 | 84.3% | 65.5% | |
| 5588 | 307.1.1.5 ↗ | a+b two layers › Hedgehog/DD-peptidase › Hedgehog/DD-peptidase › Hedgehog/DD-peptidase › Peptidase_M15_3 | 0.76 | 62.0 | 6.69e-01 | 98.7% | 100.0% |
| 3285027 | 307.1.1.5 ↗ | a+b two layers › Hedgehog/DD-peptidase › Hedgehog/DD-peptidase › Hedgehog/DD-peptidase › Peptidase_M15_3 | 0.70 | 60.0 | 5.84e-01 | 90.2% | 85.3% |
| 5597 | 310.2.1.1 ↗ | a+b two layers › RRF/tRNA synthetase additional domain-like › Ribosome recycling factor, RRF › Ribosome recycling factor, RRF › RRF | 0.68 | 35.0 | 4.61e-01 | 81.7% | 90.5% |
| 3518051 | 310.2.1.1 ↗ | a+b two layers › RRF/tRNA synthetase additional domain-like › Ribosome recycling factor, RRF › Ribosome recycling factor, RRF › RRF | 0.66 | 38.0 | 3.50e-01 | 71.9% | 45.3% |
| 5018092 | 307.1.1.5 ↗ | a+b two layers › Hedgehog/DD-peptidase › Hedgehog/DD-peptidase › Hedgehog/DD-peptidase › Peptidase_M15_3 | 0.65 | 61.0 | 5.71e-01 | 100.0% | 90.8% |
| 3966744 | 307.1.1.7 ↗ | a+b two layers › Hedgehog/DD-peptidase › Hedgehog/DD-peptidase › Hedgehog/DD-peptidase › Extensin-like_C | 0.65 | 53.0 | 4.81e-01 | 85.6% | 80.0% |
| 3785289 | 320.1.1.0 ↗ | a+b two layers › R3H domain-like › R3H domain › R3H domain | 0.63 | 26.0 | 3.94e-01 | 83.0% | 90.8% |
| 431983 | 2006.1.1.11 ↗ | a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like › Hydrolase_3 | 0.60 | 43.0 | 3.56e-01 | 73.2% | 72.4% |
| 3595128 | 320.1.1.0 ↗ | a+b two layers › R3H domain-like › R3H domain › R3H domain | 0.59 | 25.0 | 3.67e-01 | 83.0% | 89.2% |
| 4119293 | 2006.1.1.11 ↗ | a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like › Hydrolase_3 | 0.57 | 42.0 | 3.49e-01 | 74.5% | 73.7% |
| 2122949 | 2006.1.1.3 ↗ | a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like › Trehalose_PPase | 0.57 | 43.0 | 3.69e-01 | 79.1% | 58.6% |
| 4973607 | 2006.1.1.0 ↗ | a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like | 0.54 | 44.0 | 3.75e-01 | 86.9% | 82.0% |
| 3452896 | 2006.1.1.3 ↗ | a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like › Trehalose_PPase | 0.53 | 44.0 | 3.50e-01 | 86.9% | 69.7% |
| 5041410 | 2006.1.1.3 ↗ | a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like › Trehalose_PPase | 0.53 | 44.0 | 3.64e-01 | 86.3% | 75.4% |
| 3302107 | 2006.1.1.3 ↗ | a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like › Trehalose_PPase | 0.53 | 41.0 | 3.89e-01 | 80.4% | 70.0% |
| 4625411 | 2006.1.1.7 ↗ | a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like › S6PP | 0.52 | 38.0 | 3.23e-01 | 75.2% | 67.3% |
D3
high
residues 827-893
Domain cluster:
representative
CATH (16)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3c7jA02 | 1.20.120.530 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › GntR ligand-binding domain-like | 0.68 | 59.0 | 4.66e-01 | 100.0% | 63.7% |
| 1qv9A02 | 6.10.140.120 | Special › Helix non-globular › Helix Hairpins › | 0.66 | 49.0 | 4.32e-01 | 82.1% | 91.3% |
| 6xz3A01 | 1.20.120.230 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like | 0.64 | 47.0 | 3.92e-01 | 79.1% | 91.5% |
| 1sr2A00 | 1.20.120.160 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › HPT domain | 0.60 | 50.0 | 4.15e-01 | 91.0% | 58.6% |
| 3ls1A00 | 1.20.120.290 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Oxygen-evolving enhancer protein 3 (PsbQ), four-helix up-down bundle | 0.59 | 47.0 | 3.72e-01 | 85.1% | 61.7% |
| 4zqeA03 | 1.10.1740.10 | Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › RNA polymerase sigma factor, region 2, helix turn helix motif | 0.58 | 51.0 | 4.61e-01 | 100.0% | 100.0% |
| 1pjqA03 | 1.10.8.210 | Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Sirohaem synthase, dimerisation domain | 0.58 | 49.0 | 4.99e-01 | 91.0% | 95.4% |
| 6dlzA01 | 1.20.140.150 | Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › | 0.58 | 40.0 | 3.01e-01 | 74.6% | 71.8% |
| 3mvcB00 | 1.10.490.10 | Mainly Alpha › Orthogonal Bundle › Globin-like › Globins | 0.55 | 37.0 | 2.97e-01 | 71.6% | 55.8% |
| 3iieB03 | 1.10.1740.10 | Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › RNA polymerase sigma factor, region 2, helix turn helix motif | 0.54 | 46.0 | 4.32e-01 | 97.0% | 89.4% |
| 1gvnA00 | 1.10.8.130 | Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › | 0.54 | 41.0 | 3.77e-01 | 80.6% | 83.9% |
| 1pwuA04 | 3.40.390.10 | Alpha Beta › 3-Layer(aba) Sandwich › Collagenase (Catalytic Domain) › Collagenase (Catalytic Domain) | 0.54 | 46.0 | 3.23e-01 | 95.5% | 57.9% |
| 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 | 0.53 | 44.0 | 4.09e-01 | 95.5% | 86.4% |
| 3dzaA01 | 1.20.120.1940 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › YfdX protein domain | 0.52 | 44.0 | 3.65e-01 | 92.5% | 81.2% |
| 2l81A00 | 1.20.120.830 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Serine-rich domain | 0.52 | 44.0 | 3.33e-01 | 100.0% | 83.5% |
| 1cpqA00 | 1.20.120.10 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Cytochrome c/b562 | 0.50 | 42.0 | 3.52e-01 | 98.5% | 91.5% |
ECOD (25)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4971143 | 632.22.1.0 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats | 0.73 | 53.0 | 4.92e-01 | 77.6% | 87.1% |
| 4076485 | 632.22.1.1 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats › EzrA | 0.72 | 53.0 | 4.90e-01 | 79.1% | 91.8% |
| 4983663 | 632.11.1.0 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like | 0.70 | 52.0 | 4.82e-01 | 79.1% | 92.9% |
| 5060023 | 632.11.1.0 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like | 0.69 | 51.0 | 5.10e-01 | 79.1% | 91.4% |
| 5062158 | 632.22.1.0 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats | 0.69 | 52.0 | 5.03e-01 | 80.6% | 86.7% |
| 3239494 | 109.3.1.216 ↗ | alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat › HSL_N | 0.68 | 56.0 | 4.32e-01 | 94.0% | 83.7% |
| 5070510 | 632.11.1.0 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like | 0.68 | 51.0 | 4.81e-01 | 80.6% | 76.2% |
| 5067835 | 632.11.1.0 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like | 0.68 | 50.0 | 4.99e-01 | 79.1% | 91.4% |
| 5061328 | 632.11.1.0 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like | 0.67 | 51.0 | 5.03e-01 | 80.6% | 88.6% |
| 4927171 | 632.11.1.0 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like | 0.67 | 49.0 | 4.48e-01 | 79.1% | 85.6% |
| 5006371 | 4049.1.1.0 ↗ | alpha superhelices › alpha-helical domain in siroheme synthase middle domains-like › alpha-helical domain in siroheme synthase middle domains-like › alpha-helical domain in siroheme synthase middle domains-like | 0.67 | 49.0 | 5.14e-01 | 77.6% | 98.3% |
| 4999359 | 632.11.1.0 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like | 0.67 | 50.0 | 4.56e-01 | 80.6% | 81.1% |
| 5042769 | 632.11.1.1 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like › DUF357 | 0.66 | 49.0 | 4.46e-01 | 79.1% | 76.7% |
| 4990296 | 4049.1.1.0 ↗ | alpha superhelices › alpha-helical domain in siroheme synthase middle domains-like › alpha-helical domain in siroheme synthase middle domains-like › alpha-helical domain in siroheme synthase middle domains-like | 0.66 | 48.0 | 5.01e-01 | 76.1% | 96.7% |
| 4941191 | 632.22.1.0 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats | 0.66 | 49.0 | 4.12e-01 | 79.1% | 80.9% |
| 5068645 | 601.3.1.0 ↗ | alpha bundles › Four-helical up-and-down bundle › Histidine-containing phosphotransfer domain, HPT domain › Histidine-containing phosphotransfer domain, HPT domain | 0.65 | 52.0 | 4.76e-01 | 85.1% | 68.2% |
| 4682355 | 632.22.1.1 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats › EzrA | 0.64 | 47.0 | 4.39e-01 | 79.1% | 92.9% |
| 4012618 | 601.1.1.90 ↗ | alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin › DUF3433 | 0.61 | 46.0 | 3.47e-01 | 80.6% | 80.6% |
| 3260787 | 143.1.1.1 ↗ | alpha arrays › PABP domain-like › PABC(PABP) domain › PABC(PABP) domain › PABP | 0.59 | 50.0 | 4.91e-01 | 98.5% | 88.0% |
| 3950589 | 601.18.1.5 ↗ | alpha bundles › Four-helical up-and-down bundle › Oxygen-evolving enhancer protein 3 › Oxygen-evolving enhancer protein 3 › DUF4395 | 0.58 | 45.0 | 3.97e-01 | 85.1% | 74.0% |
| 4994061 | 601.7.1.1 ↗ | alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain › HepT-like | 0.55 | 40.0 | 3.26e-01 | 80.6% | 65.7% |
| 3699244 | 601.24.1.1 ↗ | alpha bundles › Four-helical up-and-down bundle › FKBP12-rapamycin-binding domain of FKBP-rapamycin-associated protein (FRAP) › FKBP12-rapamycin-binding domain of FKBP-rapamycin-associated protein (FRAP) › FRB_dom | 0.53 | 47.0 | 4.32e-01 | 97.0% | 94.1% |
| 4959236 | 601.7.1.0 ↗ | alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain | 0.51 | 37.0 | 3.55e-01 | 79.1% | 100.0% |
| 3561117 | 601.1.3.6 ↗ | alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › A middle domain of Talin 1 › Talin_IBS2B | 0.51 | 42.0 | 3.32e-01 | 98.5% | 81.9% |
| 3979252 | 601.46.1.1 ↗ | alpha bundles › Four-helical up-and-down bundle › Regulatory CZB domain of diguanylate cyclase YdeH › Regulatory CZB domain of diguanylate cyclase YdeH › CZB | 0.50 | 44.0 | 3.77e-01 | 97.0% | 78.2% |
D4
medium
residues 535-599