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AGM11655.1
Arc-VirKC292027__AGM11655.1__HCTV5-45__00045
Identity
- Accession:
- KC292027 ↗
- Protein ID:
- AGM11655.1 ↗
- Kingdom:
- archaea
Quality
94.5
mean pLDDT
Taxonomy
Heunggongvirae›
Uroviricota›
Caudoviricetes›
Thumleimavirales›
Druskaviridae›
Tredecimvirus›
Halovirus_HCTV-5
TaxID: 1273748
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 230-304
Domain cluster:
representative
CATH (18)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2or0A03 | 1.20.140.10 | Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 | 0.64 | 55.0 | 4.21e-01 | 100.0% | 86.6% |
| 2vixA03 | 1.20.1280.240 | Mainly Alpha › Up-down Bundle › Monooxygenase › | 0.62 | 48.0 | 4.16e-01 | 85.3% | 54.9% |
| 2w31A00 | 1.10.490.10 | Mainly Alpha › Orthogonal Bundle › Globin-like › Globins | 0.61 | 49.0 | 3.91e-01 | 88.0% | 84.2% |
| 3on3B00 | 3.40.920.10 | Alpha Beta › 3-Layer(aba) Sandwich › Pyruvate-ferredoxin Oxidoreductase; domain 3 › Pyruvate-ferredoxin oxidoreductase, PFOR, domain III | 0.61 | 50.0 | 3.87e-01 | 92.0% | 94.9% |
| 2g3bA00 | 1.10.357.10 | Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 | 0.60 | 43.0 | 3.27e-01 | 76.0% | 55.6% |
| 5wp3B00 | 1.10.132.20 | Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor | 0.59 | 45.0 | 4.10e-01 | 82.7% | 85.3% |
| 1t6jA03 | 1.10.274.20 | Mainly Alpha › Orthogonal Bundle › Enzyme I; Chain A, domain 2 › Phenylalanine ammonia-lyase 1; domain 3 | 0.58 | 51.0 | 4.62e-01 | 100.0% | 88.3% |
| 8ex5A01 | 1.20.1250.20 | Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › MFS general substrate transporter like domains | 0.57 | 45.0 | 3.38e-01 | 86.7% | 74.3% |
| 2l3lA01 | 1.20.58.1250 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Tubulin Binding Cofactor C, N-terminal domain | 0.57 | 43.0 | 3.88e-01 | 82.7% | 63.2% |
| 2hkvA01 | 1.20.120.450 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › dinb family like domain | 0.56 | 49.0 | 4.05e-01 | 100.0% | 72.3% |
| 1sqgA01 | 1.10.940.10 | Mainly Alpha › Orthogonal Bundle › N-utilizing Substance Protein B Homolog; Chain A › NusB-like | 0.56 | 44.0 | 3.60e-01 | 85.3% | 98.6% |
| 1aowA02 | 1.10.220.10 | Mainly Alpha › Orthogonal Bundle › Annexin V; domain 1 › Annexin | 0.54 | 34.0 | 3.43e-01 | 80.0% | 63.5% |
| 1ngkB00 | 1.10.490.10 | Mainly Alpha › Orthogonal Bundle › Globin-like › Globins | 0.53 | 45.0 | 3.90e-01 | 98.7% | 79.5% |
| 1s35A01 | 1.20.58.60 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.53 | 40.0 | 3.67e-01 | 81.3% | 89.1% |
| 1x2lA01 | 1.10.260.40 | Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains | 0.53 | 36.0 | 3.53e-01 | 72.0% | 96.5% |
| 1i6zA00 | 1.20.58.120 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › BAG domain | 0.52 | 39.0 | 3.31e-01 | 82.7% | 65.9% |
| 7r8bB01 | 3.40.50.300 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases | 0.50 | 44.0 | 3.02e-01 | 100.0% | 27.0% |
| 1n00A03 | 1.10.220.10 | Mainly Alpha › Orthogonal Bundle › Annexin V; domain 1 › Annexin | 0.50 | 32.0 | 3.23e-01 | 80.0% | 65.8% |
ECOD (19)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3851383 | 5054.1.1.2 ↗ | alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels › Ion_trans | 0.65 | 55.0 | 3.76e-01 | 100.0% | 25.9% |
| 3217232 | 101.1.1.0 ↗ | alpha arrays › HTH › HTH › Three-helical HTH | 0.62 | 41.0 | 3.93e-01 | 100.0% | 58.8% |
| 4255458 | 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 | 0.62 | 48.0 | 3.49e-01 | 82.7% | 69.3% |
| 4951081 | 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 | 0.60 | 52.0 | 3.89e-01 | 98.7% | 90.8% |
| 3970563 | 5050.1.1.32 ↗ | alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Acatn | 0.60 | 47.0 | 3.55e-01 | 86.7% | 77.4% |
| 3944579 | 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 | 0.59 | 46.0 | 3.37e-01 | 84.0% | 69.5% |
| 3731859 | 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 | 0.58 | 50.0 | 3.80e-01 | 100.0% | 85.6% |
| 3723027 | 601.1.1.0 ↗ | alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin | 0.57 | 50.0 | 3.80e-01 | 100.0% | 40.5% |
| 5019664 | 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 | 0.55 | 47.0 | 3.62e-01 | 98.7% | 93.5% |
| 3743697 | 102.1.1.0 ↗ | alpha arrays › HhH/H2TH › SAM/DNA-glycosylase › SAM domain-like | 0.55 | 46.0 | 4.59e-01 | 96.0% | 87.5% |
| 4482084 | 192.2.1.0 ↗ | alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin | 0.55 | 39.0 | 3.75e-01 | 100.0% | 63.3% |
| 3761203 | 529.1.1.0 ↗ | few secondary structure elements › Anaphylotoxins (complement system) › Anaphylotoxins (complement system) › Anaphylotoxins (complement system) | 0.55 | 49.0 | 4.41e-01 | 100.0% | 79.0% |
| 3929097 | 4163.1.1.0 ↗ | alpha bundles › GINS helical bundle-like › GINS helical bundle-like › PSF1 N-terminal domain-like | 0.54 | 42.0 | 3.48e-01 | 82.7% | 66.2% |
| 4455667 | 192.7.1.3 ↗ | alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Phe_tRNA-synt_N | 0.54 | 43.0 | 4.33e-01 | 85.3% | 92.0% |
| 3398779 | 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 | 0.54 | 43.0 | 3.22e-01 | 90.7% | 63.3% |
| 3736887 | 101.1.1.336 ↗ | alpha arrays › HTH › HTH › Three-helical HTH › Tri-helical | 0.54 | 44.0 | 4.12e-01 | 93.3% | 91.6% |
| 3203026 | 3640.1.1.8 ↗ | 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 › Tri-helical | 0.54 | 44.0 | 4.11e-01 | 93.3% | 91.6% |
| 4140104 | 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 | 0.52 | 43.0 | 3.14e-01 | 97.3% | 92.2% |
| 5041273 | 632.22.1.0 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats | 0.52 | 38.0 | 3.47e-01 | 78.7% | 88.6% |
D2
medium
residues 1-75_359-415
Domain cluster:
rep: MN103543.1__QEM42008.1__X__00279__D1-84_602-629
Pfam (2)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF01139.23 best | RtcB | 29.9 | 5.00e-07 | 43.9% | 17.1% |
| PF01139.23 | RtcB | 31.7 | 1.40e-07 | 42.4% | 12.0% |
CATH (1)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2epgB00 | 3.90.1860.10 | Alpha Beta › Alpha-Beta Complex › tRNA-splicing ligase RtcB › tRNA-splicing ligase RtcB | 0.90 | 86.0 | 5.73e-01 | 100.0% | 88.3% |
ECOD (10)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4029069 | 304.106.1.1 ↗ | a+b two layers › Alpha-beta plaits › Hypothetical protein PH1602 › Hypothetical protein PH1602 › RtcB | 0.93 | 90.0 | 6.04e-01 | 100.0% | 80.7% |
| 3704376 | 304.106.1.1 ↗ | a+b two layers › Alpha-beta plaits › Hypothetical protein PH1602 › Hypothetical protein PH1602 › RtcB | 0.92 | 88.0 | 5.94e-01 | 100.0% | 83.3% |
| 4932359 | 304.106.1.1 ↗ | a+b two layers › Alpha-beta plaits › Hypothetical protein PH1602 › Hypothetical protein PH1602 › RtcB | 0.91 | 85.0 | 5.81e-01 | 96.2% | 81.6% |
| 5026077 | 304.106.1.1 ↗ | a+b two layers › Alpha-beta plaits › Hypothetical protein PH1602 › Hypothetical protein PH1602 › RtcB | 0.91 | 87.0 | 5.72e-01 | 100.0% | 83.0% |
| 4653299 | 304.106.1.1 ↗ | a+b two layers › Alpha-beta plaits › Hypothetical protein PH1602 › Hypothetical protein PH1602 › RtcB | 0.91 | 87.0 | 5.59e-01 | 100.0% | 82.5% |
| 3967248 | 304.106.1.1 ↗ | a+b two layers › Alpha-beta plaits › Hypothetical protein PH1602 › Hypothetical protein PH1602 › RtcB | 0.86 | 81.0 | 5.63e-01 | 98.5% | 78.9% |
| 5050957 | 304.106.1.0 ↗ | a+b two layers › Alpha-beta plaits › Hypothetical protein PH1602 › Hypothetical protein PH1602 | 0.82 | 75.0 | 5.28e-01 | 96.2% | 76.5% |
| 4945038 | 304.106.1.0 ↗ | a+b two layers › Alpha-beta plaits › Hypothetical protein PH1602 › Hypothetical protein PH1602 | 0.81 | 72.0 | 5.07e-01 | 95.5% | 75.6% |
| 3599440 | 304.106.1.0 ↗ | a+b two layers › Alpha-beta plaits › Hypothetical protein PH1602 › Hypothetical protein PH1602 | 0.56 | 43.0 | 3.09e-01 | 78.8% | 40.6% |
| 3283435 | 3535.1.1.0 ↗ | a+b two layers › Sex pheromone staph-cAM373 › Sex pheromone staph-cAM373 › Sex pheromone staph-cAM373 | 0.56 | 40.0 | 3.79e-01 | 74.2% | 69.4% |
D3
medium
residues 76-127_340-358_468-486
Domain cluster:
representative
CATH (1)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1he8A03 | 1.25.40.70 | Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Phosphatidylinositol 3-kinase, accessory domain (PIK) | 0.54 | 32.0 | 3.04e-01 | 88.9% | 47.7% |
D4
medium
residues 128-229_312-339
Domain cluster:
representative
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF01139.23 best | RtcB | 50.3 | 3.20e-13 | 76.1% | 24.9% |
CATH (8)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2rp4A00 | 6.10.280.60 | Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Transcription factor p53, C-terminal domain | 0.65 | 31.0 | 4.06e-01 | 74.6% | 81.7% |
| 1neiA00 | 3.30.160.220 | Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › YoaG | 0.64 | 25.0 | 3.52e-01 | 100.0% | 73.3% |
| 2ltuA00 | 1.10.8.10 | Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain | 0.58 | 25.0 | 3.30e-01 | 90.8% | 75.8% |
| 1mhxA00 | 3.10.20.10 | Alpha Beta › Roll › Ubiquitin-like (UB roll) › | 0.54 | 20.0 | 2.88e-01 | 82.3% | 69.2% |
| 7essA01 | 3.30.420.140 | Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › YqgF/RNase H-like domain | 0.54 | 33.0 | 3.30e-01 | 78.5% | 56.8% |
| 2k89A00 | 3.10.20.870 | Alpha Beta › Roll › Ubiquitin-like (UB roll) › PFU (PLAA family ubiquitin binding), C-terminal domain | 0.52 | 24.0 | 3.01e-01 | 73.1% | 68.8% |
| 2l9bA00 | 1.25.40.630 | Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › | 0.52 | 27.0 | 3.11e-01 | 76.9% | 68.1% |
| 3rauA00 | 1.25.40.280 | Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › alix/aip1 like domains | 0.52 | 35.0 | 2.55e-01 | 70.0% | 28.5% |
ECOD (18)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 5005033 | 304.39.1.0 ↗ | a+b two layers › Alpha-beta plaits › Mechanosensitive channel protein MscS (YggB), C-terminal domain › Mechanosensitive channel protein MscS (YggB), C-terminal domain | 0.62 | 32.0 | 4.01e-01 | 96.9% | 81.2% |
| 4175293 | 101.1.2.0 ↗ | alpha arrays › HTH › HTH › winged helix domain | 0.61 | 24.0 | 2.95e-01 | 96.9% | 51.8% |
| 5023832 | 331.2.1.0 ↗ | a+b two layers › TBP-like › Phosphoglucomutase, C-terminal domain › Phosphoglucomutase, C-terminal domain | 0.60 | 33.0 | 4.21e-01 | 96.9% | 93.3% |
| 3827046 | 284.1.3.1 ↗ | a+b two layers › FKBP-like › FKBP-like › WNK1 autoinhibitory domain › SNF5 | 0.56 | 32.0 | 3.74e-01 | 100.0% | 80.0% |
| 4991990 | 878.1.1.0 ↗ | a+b two layers › Hypothetical protein MTH677 › Hypothetical protein MTH677 › Hypothetical protein MTH677 | 0.55 | 34.0 | 3.84e-01 | 99.2% | 80.0% |
| 4985406 | 878.1.1.1 ↗ | a+b two layers › Hypothetical protein MTH677 › Hypothetical protein MTH677 › Hypothetical protein MTH677 › DUF3194 | 0.55 | 34.0 | 4.11e-01 | 99.2% | 100.0% |
| 3649913 | 5050.1.1.58 ↗ | alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › NFD4_C | 0.54 | 32.0 | 2.93e-01 | 99.2% | 44.1% |
| 3857887 | 5094.1.1.11 ↗ | a+b duplicates or obligate multimers › OmpH-like › OmpH-like › OmpH-like › Fy-3 | 0.53 | 29.0 | 3.76e-01 | 100.0% | 93.3% |
| 3774738 | 7529.1.1.11 ↗ | a/b three-layered sandwiches › Macro domain-like › Macro domain-like › Macro domain-like › DUF2362 | 0.53 | 29.0 | 3.56e-01 | 100.0% | 82.4% |
| 3560901 | 601.19.1.20 ↗ | alpha bundles › Four-helical up-and-down bundle › Apolipoprotein › Apolipoprotein › Fy-3 | 0.53 | 29.0 | 3.76e-01 | 100.0% | 93.3% |
| 3905302 | 284.1.3.8 ↗ | a+b two layers › FKBP-like › FKBP-like › WNK1 autoinhibitory domain › Fy-3 | 0.53 | 29.0 | 3.55e-01 | 100.0% | 82.4% |
| 4571276 | 331.2.1.1 ↗ | a+b two layers › TBP-like › Phosphoglucomutase, C-terminal domain › Phosphoglucomutase, C-terminal domain › PGM_PMM_IV | 0.52 | 30.0 | 3.56e-01 | 98.5% | 87.5% |
| 3925690 | 284.1.3.0 ↗ | a+b two layers › FKBP-like › FKBP-like › WNK1 autoinhibitory domain | 0.52 | 29.0 | 3.68e-01 | 73.1% | 93.3% |
| 4949473 | 5086.1.1.230 ↗ | alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › ATP-synt_D | 0.51 | 37.0 | 3.19e-01 | 96.2% | 45.3% |
| 4189663 | 3926.1.1.1 ↗ | alpha bundles › V-type proton ATPase subunit D › V-type proton ATPase subunit D › V-type proton ATPase subunit D › ATP-synt_D | 0.51 | 37.0 | 3.17e-01 | 96.2% | 45.1% |
| 4033997 | 4070.1.1.3 ↗ | alpha arrays › FtsH protease domain-like › FtsH protease domain-like › FtsH protease domain-like › DUF3267 | 0.51 | 44.0 | 4.20e-01 | 93.8% | 89.0% |
| 3060306 | 225.1.1.3 ↗ | a+b two layers › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase-like › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase › HATPase_c | 0.51 | 27.0 | 2.94e-01 | 99.2% | 59.3% |
| 4961983 | 3755.1.1.32 ↗ | alpha bundles › YscO-like › Putative type III secretion protein YscO-related › Putative type III secretion protein YscO-related › ATP-synt_D | 0.50 | 37.0 | 3.10e-01 | 93.8% | 43.5% |