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NC_004735.1__NP_835630.1__Rm378p043__00043

Bact-Vir

NC_004735.1__NP_835630.1__Rm378p043__00043

Identity

Accession:
NC_004735 ↗
Kingdom:
phage

Quality

73.6 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Rhodothermus_phage_RM378

TaxID: 148943

Cluster

Singleton — not in a non-trivial cluster

3D Structure

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Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 38-95
PDB
Domain cluster: representative
CATH (39)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
6nvxB02 2.30.120.10 Mainly Beta › Roll › Penicillin G acylase, beta-roll domain › Aminohydrolase, N-terminal nucleophile (Ntn) domain, beta-sheet knob region 0.69 56.0 5.08e-01 89.7% 77.9%
3qldA01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.67 47.0 3.50e-01 74.1% 78.3%
1fm2B03 2.30.120.10 Mainly Beta › Roll › Penicillin G acylase, beta-roll domain › Aminohydrolase, N-terminal nucleophile (Ntn) domain, beta-sheet knob region 0.66 52.0 5.05e-01 86.2% 78.8%
3vhxF00 2.60.40.4330 Mainly Beta › Sandwich › Immunoglobulin-like › Kinesin-like protein Kif23, Arf6-interacting domain 0.65 49.0 4.04e-01 81.0% 85.3%
4wksC02 2.30.120.10 Mainly Beta › Roll › Penicillin G acylase, beta-roll domain › Aminohydrolase, N-terminal nucleophile (Ntn) domain, beta-sheet knob region 0.65 55.0 5.08e-01 94.8% 76.0%
4yfbC02 2.30.120.10 Mainly Beta › Roll › Penicillin G acylase, beta-roll domain › Aminohydrolase, N-terminal nucleophile (Ntn) domain, beta-sheet knob region 0.64 55.0 5.02e-01 96.6% 78.2%
3vfcA01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.63 50.0 3.75e-01 87.9% 54.4%
2pgwA01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.62 48.0 3.61e-01 86.2% 52.7%
1rvkA01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.61 48.0 3.84e-01 86.2% 75.0%
2zadA01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.61 49.0 3.93e-01 89.7% 75.4%
1pfoA02 3.30.1040.20 Alpha Beta › 2-Layer Sandwich › Carboxypeptidase Inhibitor; Chain A › 0.61 37.0 3.88e-01 72.4% 66.0%
1ksiA03 2.70.98.20 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › Copper amine oxidase, catalytic domain 0.60 47.0 2.87e-01 89.7% 40.1%
6jqlA03 3.10.129.10 Alpha Beta › Roll › Thiol Ester Dehydrase; Chain A › Hotdog Thioesterase 0.59 46.0 3.41e-01 91.4% 60.1%
3pgbA01 2.70.98.20 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › Copper amine oxidase, catalytic domain 0.58 46.0 2.74e-01 91.4% 39.9%
8enbA01 2.10.90.10 Mainly Beta › Ribbon › Cystine Knot Cytokines, subunit B › Cystine-knot cytokines 0.58 40.0 3.54e-01 72.4% 65.1%
1fx3B00 3.10.420.10 Alpha Beta › Roll › Bacterial Protein-export protein SecB › SecB-like 0.56 45.0 3.43e-01 91.4% 67.8%
5ib9A01 3.40.630.10 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Zn peptidases 0.56 47.0 3.08e-01 98.3% 38.6%
1dhnA00 3.30.1130.10 Alpha Beta › 2-Layer Sandwich › GTP Cyclohydrolase I, domain 2 › GTP cyclohydrolase I, C-terminal domain/NADPH-dependent 7-cyano-7-deazaguanine reductase, N-terminal domain 0.56 40.0 3.25e-01 77.6% 97.5%
1gesA03 3.30.390.30 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › FAD/NAD-linked reductase, C-terminal dimerisation domain 0.56 43.0 3.59e-01 91.4% 45.1%
5xgbA03 3.20.20.450 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › EAL domain 0.56 44.0 2.98e-01 91.4% 24.5%
1p1hB01 3.30.2360.10 Alpha Beta › 2-Layer Sandwich › Glyceraldehyde-3-phosphate dehydrogenase-like fold › Glyceraldehyde-3-phosphate dehydrogenase-like domain 0.56 40.0 2.90e-01 77.6% 59.1%
2gdqA01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.56 42.0 3.58e-01 86.2% 77.6%
4enzA03 2.60.40.420 Mainly Beta › Sandwich › Immunoglobulin-like › Cupredoxins - blue copper proteins 0.55 40.0 2.88e-01 82.8% 73.5%
3w1eA03 2.40.10.410 Mainly Beta › Beta Barrel › Thrombin, subunit H › FlgT, C-terminal domain 0.54 40.0 3.52e-01 81.0% 74.2%
4xqkB01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.54 36.0 2.51e-01 70.7% 21.1%
3rd4B00 2.40.50.660 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.54 41.0 3.79e-01 87.9% 90.2%
3hhsB03 2.60.40.1520 Mainly Beta › Sandwich › Immunoglobulin-like › Hemocyanin, C-terminal domain 0.53 43.0 2.90e-01 91.4% 65.3%
1f8vC00 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.53 44.0 2.89e-01 100.0% 74.0%
1llaA02 2.60.40.1520 Mainly Beta › Sandwich › Immunoglobulin-like › Hemocyanin, C-terminal domain 0.53 43.0 2.90e-01 91.4% 67.1%
4mt5A02 2.60.40.4300 Mainly Beta › Sandwich › Immunoglobulin-like › 0.53 38.0 3.10e-01 75.9% 52.7%
1l3iA00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.53 38.0 2.74e-01 79.3% 26.5%
4ad8A01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.53 45.0 2.90e-01 100.0% 32.3%
1vwxd00 3.10.440.10 Alpha Beta › Roll › Ribosomal Protein L31e; Chain: W; › Ribosomal protein L31 0.52 37.0 3.08e-01 77.6% 42.1%
7t4dA01 2.70.240.10 Mainly Beta › Distorted Sandwich › Leukocidin-like › Leukocidin/porin MspA 0.51 39.0 2.60e-01 87.9% 82.1%
1ciiA02 3.30.305.10 Alpha Beta › 2-Layer Sandwich › Colicin Ia; domain 2 › Colicin Ia; domain 2 0.50 35.0 3.07e-01 77.6% 92.1%
3wkyB03 2.60.40.1520 Mainly Beta › Sandwich › Immunoglobulin-like › Hemocyanin, C-terminal domain 0.50 38.0 2.64e-01 87.9% 41.2%
5h9fJ00 3.30.70.2660 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.50 40.0 2.90e-01 100.0% 53.9%
2qgyB01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.50 39.0 3.11e-01 91.4% 81.0%
5cflA02 3.40.50.12100 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Stimulator of interferon genes protein 0.50 40.0 3.20e-01 100.0% 80.3%
ECOD (37)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3471125 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.75 54.0 5.82e-01 82.8% 100.0%
3568883 243.3.1.27 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin › Dynactin_p62 0.64 51.0 4.34e-01 100.0% 51.0%
4014216 4121.1.1.0 ↗ a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like 0.62 49.0 3.02e-01 87.9% 28.9%
3718419 330.1.1.22 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › PF26536 0.62 53.0 3.81e-01 100.0% 58.7%
3288634 218.1.1.1 ↗ a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › MR_MLE_N 0.61 46.0 3.91e-01 82.8% 80.0%
3608837 10.2.1.0 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) 0.61 41.0 3.05e-01 70.7% 25.2%
3336357 3794.1.1.4 ↗ a+b two layers › Methylcrotonyl-CoA carboxylase alpha-subunit BT domain-related › Methylcrotonyl-CoA carboxylase alpha-subunit BT domain-related › Barrel domain in methylcrotonyl-CoA carboxylase alpha-subunit › MCCA_BT 0.61 42.0 3.05e-01 72.4% 28.5%
5019455 331.1.1.0 ↗ a+b two layers › TBP-like › TATA-box binding protein-like › TATA-box binding protein-like 0.60 45.0 3.22e-01 84.5% 74.9%
3273636 328.1.1.0 ↗ a+b two layers › IF3-like › AlbA-like › AlbA-like 0.60 45.0 4.34e-01 81.0% 86.2%
3514123 214.1.1.1 ↗ a+b two layers › SH2 › SH2 › SH2 › SH2 0.59 49.0 3.95e-01 98.3% 100.0%
5018703 815.1.1.0 ↗ a+b two layers › Chromosomal protein MC1 › Chromosomal protein MC1 › Chromosomal protein MC1 0.58 42.0 3.68e-01 77.6% 82.2%
3635385 1.1.9.4 ↗ beta barrels › cradle loop barrel › RIFT-related › PUA domain › SAD_SRA 0.58 42.0 2.84e-01 77.6% 66.3%
3684690 328.1.1.0 ↗ a+b two layers › IF3-like › AlbA-like › AlbA-like 0.58 41.0 3.65e-01 77.6% 64.4%
4022277 328.1.1.3 ↗ a+b two layers › IF3-like › AlbA-like › AlbA-like › Rpp20 0.57 42.0 3.44e-01 79.3% 51.3%
3454218 109.4.1.890 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › HAT_Syf1_CNRKL1_C 0.57 43.0 3.03e-01 86.2% 55.8%
3299532 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.57 38.0 3.20e-01 70.7% 40.0%
3675745 328.1.1.1 ↗ a+b two layers › IF3-like › AlbA-like › AlbA-like › Alba 0.56 43.0 4.02e-01 82.8% 78.1%
3559265 277.1.1.1 ↗ a+b two layers › PX domain › PX domain › PX domain › PX 0.56 45.0 3.38e-01 87.9% 86.9%
3827633 319.1.1.1 ↗ beta sandwiches › HSP20-like › HSP20-like chaperones › HSP20-like chaperones › HSP20 0.56 38.0 3.00e-01 70.7% 59.2%
3595890 198.1.1.0 ↗ alpha arrays › Saposin-like › Saposin-like › Saposin-like 0.56 46.0 3.39e-01 98.3% 63.5%
4632586 218.1.1.0 ↗ a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like 0.56 42.0 3.61e-01 84.5% 82.0%
5012144 2003.1.5.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases 0.56 45.0 3.48e-01 91.4% 51.9%
3939681 5001.1.1.41 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7TM_GPCR_Srw 0.55 41.0 2.64e-01 86.2% 39.7%
3974914 7089.1.1.4 ↗ a+b two layers › Methane monooxygenase hydroxylase, MmoD › Methane monooxygenase hydroxylase, MmoD › Methane monooxygenase hydroxylase, MmoD › FlgI 0.55 47.0 3.84e-01 100.0% 96.5%
3493392 70.3.1.13 ↗ beta barrels › beta-clip › SET domain-like › SET domain-like › SET_TTL 0.53 37.0 2.62e-01 79.3% 77.1%
3517405 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.52 35.0 3.38e-01 70.7% 67.1%
3777035 11.1.1.504 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Dynactin_p62 0.52 38.0 3.69e-01 84.5% 71.0%
3852918 4290.1.1.8 ↗ alpha duplicates or obligate multimers › HP0242-like › HP0242-like › HP0242-like › Dynactin_p62 0.52 38.0 3.68e-01 84.5% 71.0%
4649106 273.1.1.1 ↗ a+b three layers › PR-1-like › PR-1-like › PR-1-like › CAP 0.52 38.0 2.84e-01 82.8% 73.1%
4965661 327.7.1.2 ↗ a+b two layers › Alpha-lytic protease prodomain-like › Cation efflux protein cytoplasmic domain-like › Cation efflux protein cytoplasmic domain-like › FKBP26_C 0.52 38.0 3.48e-01 82.8% 83.5%
4494197 4099.1.1.0 ↗ a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like 0.51 37.0 3.06e-01 77.6% 58.2%
3892893 3156.1.1.9 ↗ beta sandwiches › Cupredoxin-like › Cupredoxin-related › Cupredoxin-related › Cu-oxidase_3 0.51 37.0 2.80e-01 82.8% 85.1%
3254982 295.1.1.4 ↗ a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain › COMM_domain 0.51 40.0 3.80e-01 89.7% 97.1%
1700260 5084.1.1.13 ↗ beta barrels › Outer membrane meander beta-barrels › OMPA-like › OMPA-like › HpuA 0.51 37.0 2.49e-01 86.2% 25.8%
3696797 2484.1.1.2 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Actin 0.51 33.0 2.09e-01 70.7% 9.6%
5078344 304.139.1.2 ↗ a+b two layers › Alpha-beta plaits › Cas7-related › CRISPR-associated protein Cas7/Csa2-related › RAMPs 0.51 40.0 2.89e-01 96.6% 49.5%
4991968 504.1.1.0 ↗ a+b two layers › Bacterial protein-export protein SecB › Bacterial protein-export protein SecB › Bacterial protein-export protein SecB 0.50 39.0 3.30e-01 91.4% 82.7%