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GyrB-like_ATPase_domain_protein
Euk-VirNile_crocodilepox_virus
GyrB-like_ATPase_domain_protein__YP_784275__Nile_crocodilepox_virus__1285600
Identity
- Accession:
- YP_784275 ↗
- Protein ID:
- GyrB-like_ATPase_domain_protein
- Kingdom:
- euk
Quality
72.3
mean pLDDT
Taxonomy
Bamfordvirae›
Nucleocytoviricota›
Pokkesviricetes›
Chitovirales›
Poxviridae›
Crocodylidpoxvirus›
Nile_crocodilepox_virus
TaxID: 1285600
Cluster
View cluster (9 members)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 236-351
Domain cluster:
rep: GyrB-like_ATPase_domain_protein__YP_784277__Nile_crocodilepox_virus__1285600__D237-352
CATH (22)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3lnuA02 | 3.30.230.10 | Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S5; domain 2 › | 0.72 | 66.0 | 5.90e-01 | 100.0% | 90.7% |
| 3zkbI02 | 3.30.230.10 | Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S5; domain 2 › | 0.72 | 66.0 | 5.91e-01 | 100.0% | 87.5% |
| 4hy1A02 | 3.30.230.10 | Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S5; domain 2 › | 0.71 | 65.0 | 5.83e-01 | 100.0% | 89.9% |
| 1qzrA02 | 3.30.230.10 | Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S5; domain 2 › | 0.70 | 62.0 | 6.12e-01 | 94.8% | 91.9% |
| 3zpeA00 | 2.60.90.50 | Mainly Beta › Sandwich › Adenovirus Type 5 Fiber Protein (Receptor Binding Domain) › | 0.68 | 39.0 | 3.68e-01 | 96.6% | 46.4% |
| 1z5bB03 | 3.30.230.10 | Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S5; domain 2 › | 0.67 | 61.0 | 5.61e-01 | 100.0% | 87.9% |
| 6j0qA02 | 2.40.30.120 | Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Positive stranded ssRNA viruses | 0.63 | 35.0 | 3.62e-01 | 92.2% | 56.0% |
| 1ylnA01 | 2.30.110.10 | Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A | 0.63 | 36.0 | 3.72e-01 | 91.4% | 57.9% |
| 4p7aA02 | 3.30.230.10 | Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S5; domain 2 › | 0.63 | 49.0 | 5.25e-01 | 96.6% | 100.0% |
| 4qv2A02 | 2.40.30.120 | Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Positive stranded ssRNA viruses | 0.60 | 35.0 | 3.48e-01 | 89.7% | 55.1% |
| 1yloE02 | 2.40.30.40 | Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Peptidase M42, domain 2 | 0.58 | 32.0 | 3.64e-01 | 84.5% | 72.6% |
| 3otpA01 | 2.40.10.120 | Mainly Beta › Beta Barrel › Thrombin, subunit H › | 0.58 | 33.0 | 2.76e-01 | 87.9% | 31.5% |
| 1mrzB02 | 2.40.30.30 | Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Riboflavin kinase-like | 0.57 | 30.0 | 3.12e-01 | 92.2% | 50.0% |
| 3lq6A02 | 2.40.30.120 | Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Positive stranded ssRNA viruses | 0.57 | 34.0 | 3.49e-01 | 92.2% | 59.6% |
| 3q39B02 | 2.40.30.120 | Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Positive stranded ssRNA viruses | 0.56 | 32.0 | 3.30e-01 | 92.2% | 56.4% |
| 3k6yA02 | 2.40.10.10 | Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases | 0.55 | 34.0 | 3.52e-01 | 87.9% | 65.4% |
| 5hmaA02 | 2.40.10.10 | Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases | 0.55 | 32.0 | 3.39e-01 | 87.9% | 63.5% |
| 4eziA01 | 3.40.50.1820 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain | 0.55 | 43.0 | 3.28e-01 | 83.6% | 59.6% |
| 5ib9A01 | 3.40.630.10 | Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Zn peptidases | 0.54 | 41.0 | 3.13e-01 | 81.9% | 71.2% |
| 3f6zB01 | 2.40.128.200 | Mainly Beta › Beta Barrel › Lipocalin › C-type lysozyme inhibitor | 0.53 | 35.0 | 4.15e-01 | 89.7% | 98.7% |
| 4p52A01 | 3.30.230.10 | Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S5; domain 2 › | 0.52 | 45.0 | 3.88e-01 | 94.8% | 63.3% |
| 1hwyA02 | 3.40.50.10860 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Leucine Dehydrogenase, chain A, domain 1 | 0.50 | 37.0 | 3.47e-01 | 78.4% | 81.9% |
ECOD (34)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4339883 | 212.1.1.2 ↗ | a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › DNA_gyraseB | 0.79 | 73.0 | 6.21e-01 | 100.0% | 84.3% |
| 1146571 | 5092.1.1.8 ↗ | beta sandwiches › Domain in virus attachment proteins › Domain in virus attachment proteins › Domain in virus attachment proteins › TAdV_Fibre-like_head | 0.68 | 39.0 | 3.68e-01 | 96.6% | 46.4% |
| 4490100 | 212.1.1.9 ↗ | a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › DNA_mis_repair | 0.67 | 58.0 | 5.73e-01 | 94.0% | 92.0% |
| 3830910 | 212.1.1.9 ↗ | a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › DNA_mis_repair | 0.67 | 59.0 | 5.92e-01 | 95.7% | 100.0% |
| 4655756 | 212.1.1.9 ↗ | a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › DNA_mis_repair | 0.65 | 58.0 | 5.66e-01 | 98.3% | 98.4% |
| 4938668 | 212.1.1.0 ↗ | a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like | 0.65 | 53.0 | 5.53e-01 | 93.1% | 97.1% |
| 4942059 | 212.1.1.18 ↗ | a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Lon_C | 0.63 | 50.0 | 5.27e-01 | 94.0% | 99.0% |
| 4954905 | 212.1.1.0 ↗ | a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like | 0.63 | 52.0 | 5.37e-01 | 94.0% | 95.5% |
| 4993863 | 212.1.1.0 ↗ | a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like | 0.62 | 53.0 | 5.43e-01 | 92.2% | 99.1% |
| 5035416 | 212.1.1.0 ↗ | a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like | 0.62 | 50.0 | 5.24e-01 | 92.2% | 97.1% |
| 5041395 | 212.1.1.0 ↗ | a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like | 0.62 | 53.0 | 5.30e-01 | 96.6% | 91.7% |
| 5031188 | 212.1.1.0 ↗ | a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like | 0.61 | 52.0 | 4.73e-01 | 94.8% | 69.7% |
| 4982907 | 212.1.1.0 ↗ | a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like | 0.61 | 48.0 | 5.12e-01 | 90.5% | 99.0% |
| 4995504 | 212.1.1.0 ↗ | a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like | 0.60 | 53.0 | 5.33e-01 | 97.4% | 97.4% |
| 4986390 | 212.1.1.0 ↗ | a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like | 0.60 | 49.0 | 5.16e-01 | 93.1% | 100.0% |
| 2553941 | 10.2.1.43 ↗ | beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Calici_coat_C | 0.58 | 37.0 | 2.72e-01 | 95.7% | 24.0% |
| 3291174 | 3010.1.1.0 ↗ | a/b three-layered sandwiches › C-terminal subdomain in Lon-related proteases catalytic domains › C-terminal subdomain in Lon-related proteases catalytic domains › C-terminal subdomain in Lon-related proteases catalytic domains | 0.57 | 50.0 | 4.22e-01 | 99.1% | 55.6% |
| 4520424 | 212.1.1.17 ↗ | a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › EFG_IV | 0.57 | 49.0 | 4.68e-01 | 95.7% | 85.9% |
| 3221487 | 212.1.1.0 ↗ | a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like | 0.56 | 46.0 | 4.75e-01 | 91.4% | 99.0% |
| 3225532 | 212.1.1.0 ↗ | a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like | 0.56 | 47.0 | 4.65e-01 | 94.8% | 88.3% |
| 4546300 | 212.1.1.8 ↗ | a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribonuclease_P | 0.54 | 44.0 | 4.46e-01 | 99.1% | 87.8% |
| 5025225 | 876.1.1.10 ↗ | a+b complex topology › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParB/Sulfiredoxin › DUF1015 | 0.54 | 47.0 | 3.67e-01 | 100.0% | 100.0% |
| 3939484 | 7579.1.1.70 ↗ | a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases › DUF1057 | 0.54 | 42.0 | 3.06e-01 | 81.0% | 65.2% |
| 4927937 | 212.1.1.3 ↗ | a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › GHMP_kinases_N | 0.54 | 46.0 | 3.40e-01 | 92.2% | 42.3% |
| 3282536 | 330.4.1.1 ↗ | a+b two layers › dsRBD-like › Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain › Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain › Porphobil_deamC | 0.54 | 27.0 | 3.21e-01 | 71.6% | 68.8% |
| 4380590 | 212.1.1.3 ↗ | a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › GHMP_kinases_N | 0.53 | 45.0 | 4.01e-01 | 92.2% | 75.2% |
| 4362666 | 212.1.1.8 ↗ | a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribonuclease_P | 0.53 | 41.0 | 4.27e-01 | 94.8% | 88.2% |
| 4346634 | 212.1.1.8 ↗ | a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribonuclease_P | 0.53 | 42.0 | 4.21e-01 | 99.1% | 84.2% |
| 4173723 | 212.1.1.8 ↗ | a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribonuclease_P | 0.52 | 43.0 | 4.30e-01 | 100.0% | 86.4% |
| 4970323 | 230.5.1.1 ↗ | a+b two layers › T-fold › Band 7/SPFH domain › Band 7/SPFH domain › Band_7 | 0.52 | 36.0 | 3.55e-01 | 70.7% | 92.8% |
| 4147178 | 212.1.1.8 ↗ | a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribonuclease_P | 0.52 | 39.0 | 4.10e-01 | 97.4% | 88.6% |
| 5058702 | 230.5.1.0 ↗ | a+b two layers › T-fold › Band 7/SPFH domain › Band 7/SPFH domain | 0.51 | 35.0 | 3.40e-01 | 70.7% | 85.9% |
| 4966038 | 210.1.5.1 ↗ | a+b four layers › Ntn/PP2C › Ntn › SPO2555-like › DUF1028 | 0.51 | 38.0 | 3.16e-01 | 80.2% | 84.9% |
| 4079015 | 11.1.5.0 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Common fold of diphtheria toxin/transcription factors/cytochrome f | 0.51 | 35.0 | 2.97e-01 | 70.7% | 88.5% |
D2
medium
residues 39-82_100-118_181-230
Domain cluster:
representative
CATH (9)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 5c3mC01 | 3.40.50.720 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain | 0.66 | 39.0 | 3.42e-01 | 94.7% | 40.1% |
| 4a18P00 | 3.30.720.90 | Alpha Beta › 2-Layer Sandwich › Signal recognition particle alu RNA binding heterodimer, srp9/1 › | 0.61 | 35.0 | 4.25e-01 | 92.0% | 93.9% |
| 1mhxA00 | 3.10.20.10 | Alpha Beta › Roll › Ubiquitin-like (UB roll) › | 0.60 | 27.0 | 3.51e-01 | 95.6% | 72.3% |
| 1zxhA00 | 3.10.20.10 | Alpha Beta › Roll › Ubiquitin-like (UB roll) › | 0.55 | 24.0 | 3.20e-01 | 92.0% | 78.6% |
| 2y27A02 | 3.30.300.30 | Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › ANL, C-terminal domain | 0.54 | 31.0 | 3.24e-01 | 92.9% | 60.2% |
| 3w3aG00 | 1.10.287.3240 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › | 0.54 | 36.0 | 2.91e-01 | 90.3% | 36.2% |
| 1xc3A01 | 3.30.420.40 | Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain | 0.53 | 33.0 | 3.48e-01 | 95.6% | 68.9% |
| 4gczB03 | 3.30.565.10 | Alpha Beta › 2-Layer Sandwich › Heat Shock Protein 90 › Histidine kinase-like ATPase, C-terminal domain | 0.50 | 35.0 | 3.14e-01 | 71.7% | 68.3% |
| 3c19A02 | 3.10.20.300 | Alpha Beta › Roll › Ubiquitin-like (UB roll) › mk0293 like domain | 0.50 | 27.0 | 3.14e-01 | 96.5% | 73.1% |
ECOD (12)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3286344 | 225.1.1.0 ↗ | 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 | 0.64 | 57.0 | 4.58e-01 | 99.1% | 83.6% |
| 3698880 | 2003.1.9.1 ↗ | a/b three-layered sandwiches › Rossmann-like › Rossmann-related › Activating enzymes of the ubiquitin-like proteins › ThiF | 0.61 | 40.0 | 2.82e-01 | 94.7% | 24.6% |
| 4090678 | 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 | 0.58 | 37.0 | 3.00e-01 | 90.3% | 34.0% |
| None | — | 0.58 | 50.0 | 4.78e-01 | 97.3% | 81.5% | |
| 4049733 | 3071.1.1.8 ↗ | a+b complex topology › C-terminal insertion domain in phage tail proteins › C-terminal insertion domain in phage tail proteins › C-terminal insertion domain in phage tail proteins › YQBQ | 0.54 | 27.0 | 3.45e-01 | 89.4% | 81.5% |
| 3387027 | 101.1.1.33 ↗ | alpha arrays › HTH › HTH › Three-helical HTH | 0.54 | 33.0 | 3.24e-01 | 97.3% | 52.3% |
| 4971494 | 101.1.2.0 ↗ | alpha arrays › HTH › HTH › winged helix domain | 0.54 | 30.0 | 3.06e-01 | 95.6% | 53.0% |
| 4184676 | 101.1.1.32 ↗ | alpha arrays › HTH › HTH › Three-helical HTH › Sigma54_DBD | 0.54 | 34.0 | 3.17e-01 | 98.2% | 47.3% |
| 3962463 | 4011.1.1.0 ↗ | beta barrels › beta-barrel domain in acetyl-CoA synthetase-like proteins › beta-barrel domain in acetyl-CoA synthetase-like proteins › beta-barrel domain in acetyl-CoA synthetase-like proteins | 0.53 | 25.0 | 3.31e-01 | 85.8% | 85.5% |
| 4957567 | 3071.1.1.0 ↗ | a+b complex topology › C-terminal insertion domain in phage tail proteins › C-terminal insertion domain in phage tail proteins › C-terminal insertion domain in phage tail proteins | 0.53 | 28.0 | 3.45e-01 | 89.4% | 82.9% |
| 5045681 | 212.1.1.0 ↗ | a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like | 0.52 | 33.0 | 3.07e-01 | 92.9% | 50.7% |
| 5026457 | 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 | 0.52 | 33.0 | 2.73e-01 | 90.3% | 35.6% |
D3
medium
residues 83-99_119-180