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NC_028673.1__YP_009189215.1__AU104_gp040__00078

Bact-Vir

NC_028673.1__YP_009189215.1__AU104_gp040__00078

Identity

Accession:
NC_028673 ↗
Kingdom:
phage

Quality

76.2 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Getseptimavirus› Gordonia_phage_GMA7

TaxID: 1647286

Cluster

Singleton — not in a non-trivial cluster

3D Structure

Download PDB Download Scores JSON

Domains

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

D1 high residues 6-59
PDB
Domain cluster: representative
CATH (35)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2v79A00 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 0.63 39.0 2.98e-01 100.0% 29.6%
2zdiC00 1.10.287.370 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.62 54.0 3.97e-01 100.0% 48.6%
3viqA00 6.10.140.1020 Special › Helix non-globular › Helix Hairpins › 0.62 43.0 3.33e-01 72.2% 41.8%
6lbtA01 2.40.50.810 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.62 44.0 3.29e-01 75.9% 63.4%
2bw2A01 3.10.20.420 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Bypass-of-forespore C, N-terminal domain 0.61 42.0 4.22e-01 72.2% 70.9%
5odnC00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.59 44.0 3.65e-01 83.3% 49.0%
1js3A03 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.58 42.0 3.54e-01 77.8% 95.9%
2vpaA00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.58 44.0 3.09e-01 88.9% 71.6%
2anrA02 3.30.1370.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › K Homology domain, type 1 0.57 41.0 3.70e-01 75.9% 90.7%
2asfA00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.56 46.0 3.57e-01 92.6% 92.8%
3tcaA01 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.55 38.0 3.27e-01 74.1% 85.6%
2k3iA01 3.30.70.860 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.55 40.0 3.59e-01 83.3% 91.8%
2khdA00 3.30.70.860 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.54 38.0 3.19e-01 77.8% 69.4%
7trwA01 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.54 40.0 3.38e-01 81.5% 51.5%
4esbA00 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 0.54 34.0 2.83e-01 92.6% 33.0%
3k59A02 3.30.70.2250 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › B family DNA polymerase, N domain, alpha/beta motif 0.54 37.0 3.53e-01 74.1% 91.0%
1unnC00 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.54 38.0 3.17e-01 75.9% 36.9%
4chjA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.53 40.0 3.24e-01 87.0% 91.1%
1c3gA01 2.60.260.20 Mainly Beta › Sandwich › HSP40/DNAj peptide-binding domain › Urease metallochaperone UreE, N-terminal domain 0.53 40.0 3.74e-01 90.7% 89.7%
2w9jA00 3.30.720.10 Alpha Beta › 2-Layer Sandwich › Signal recognition particle alu RNA binding heterodimer, srp9/1 › Signal recognition particle alu RNA binding heterodimer, srp9/1 0.53 36.0 3.43e-01 77.8% 56.3%
4gs5A02 3.30.300.30 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › ANL, C-terminal domain 0.53 36.0 2.88e-01 70.4% 39.0%
3cvgA01 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.53 37.0 2.73e-01 74.1% 93.1%
3uoxB01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.53 43.0 2.78e-01 94.4% 26.1%
3tw8A01 3.30.450.200 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Longin module 0.53 35.0 2.81e-01 75.9% 28.3%
2xzmZ00 3.30.1230.20 Alpha Beta › 2-Layer Sandwich › Hypothetical Cytosolic Protein; Chain: A; › Ribosomal protein S21 0.52 35.0 3.03e-01 72.2% 42.3%
4jdeA01 2.60.40.3820 Mainly Beta › Sandwich › Immunoglobulin-like › 0.52 42.0 3.21e-01 92.6% 90.5%
2l48A00 3.30.70.2030 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.52 40.0 3.54e-01 87.0% 78.8%
4u7cB04 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.51 44.0 3.57e-01 100.0% 66.1%
2ixtA00 3.40.50.200 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Peptidase S8/S53 domain 0.51 44.0 2.77e-01 100.0% 42.1%
1j5yA02 3.30.1340.20 Alpha Beta › 2-Layer Sandwich › Histidine-containing Protein; Chain: A; › 3H domain 0.51 43.0 3.55e-01 100.0% 50.5%
4abyD00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.51 41.0 2.60e-01 90.7% 22.5%
2ogkD00 3.30.1440.10 Alpha Beta › 2-Layer Sandwich › 50s Ribosomal Protein L5; Chain: A, › Ribosomal protein L5 0.51 42.0 3.16e-01 94.4% 52.1%
2z51A02 3.30.300.130 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › Fe-S cluster assembly (FSCA) 0.50 35.0 3.18e-01 72.2% 54.2%
4gs5A01 3.40.50.12780 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › ANL, N-terminal domain 0.50 41.0 2.80e-01 100.0% 38.1%
2atzA00 3.90.920.20 Alpha Beta › Alpha-Beta Complex › DNA primase, PRIM domain › HP0184-like 0.50 39.0 2.89e-01 94.4% 60.2%
ECOD (36)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4212883 7573.1.1.4 ↗ a/b three-layered sandwiches › PRTase-like › PRTase-like › PRTase-like › UPRTase 0.73 34.0 2.27e-01 72.2% 11.2%
3255946 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.69 50.0 4.40e-01 75.9% 51.2%
3268288 5001.1.1.5 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_3 0.64 39.0 2.51e-01 100.0% 11.6%
3356202 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.62 42.0 2.66e-01 72.2% 39.7%
5039314 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.61 54.0 3.90e-01 100.0% 60.6%
4441043 101.1.10.0 ↗ alpha arrays › HTH › HTH › Cyclin-like 0.61 45.0 3.28e-01 81.5% 49.4%
3789268 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.60 54.0 3.83e-01 100.0% 63.7%
4958500 3261.1.1.0 ↗ a+b two layers › amino-terminal domain of OmpATb › amino-terminal domain of OmpATb › amino-terminal domain of OmpATb 0.60 34.0 3.32e-01 100.0% 45.0%
3217417 5001.1.1.121 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › TRAM_LAG1_CLN8 0.60 50.0 3.14e-01 100.0% 33.5%
3587631 186.1.1.0 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N 0.60 42.0 3.16e-01 74.1% 43.6%
3593808 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.59 49.0 4.16e-01 100.0% 82.0%
4027270 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.59 43.0 2.88e-01 81.5% 19.6%
3588288 101.1.9.32 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › ANT 0.58 48.0 3.55e-01 94.4% 64.7%
3573883 302.1.1.1 ↗ a+b two layers › Reverse ferredoxin › Lesion bypass DNA polymerase (Y-family), little finger domain › Lesion bypass DNA polymerase (Y-family), little finger domain › IMS_C 0.58 41.0 3.25e-01 83.3% 33.6%
4233683 171.1.1.1 ↗ alpha arrays › RNase III catalytic domain-like › RNase III catalytic domain-like › RNase III catalytic domain-like › Ribonuclease_3 0.58 41.0 2.81e-01 77.8% 55.5%
4023956 3871.1.1.1 ↗ alpha duplicates or obligate multimers › PHIST › PHIST › PHIST › PRESAN 0.58 48.0 3.58e-01 100.0% 37.7%
5058513 7012.1.1.1 ↗ a+b complex topology › Monotopic phosphoglycosyl transferase (PGT)-like › Monotopic phosphoglycosyl transferase (PGT)-like › Monotopic phosphoglycosyl transferase (PGT)-like › Bac_transf 0.57 39.0 2.81e-01 75.9% 21.0%
3940660 3343.1.1.2 ↗ alpha complex topology › gamma-tubulin complex protein 4 (GCP4) › gamma-tubulin complex protein 4 (GCP4) › gamma-tubulin complex protein 4 (GCP4) › GCP_C_terminal,GCP_N_terminal 0.57 41.0 2.35e-01 75.9% 20.7%
4033072 101.1.9.32 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › ANT 0.56 39.0 3.39e-01 74.1% 100.0%
3983642 220.1.1.73 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › DUF3461 0.56 40.0 3.52e-01 77.8% 71.1%
3251654 2.9.1.1 ↗ beta barrels › OB-fold › RNB domain-like › RNB domain-like › RNB 0.55 42.0 2.62e-01 90.7% 34.2%
3238364 109.4.1.32 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › MIF4G 0.55 38.0 2.40e-01 75.9% 11.7%
3749350 221.1.1.11 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › PI3K_p85B 0.55 45.0 3.75e-01 98.1% 73.3%
3484153 2498.1.1.0 ↗ mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" 0.55 41.0 2.38e-01 92.6% 21.7%
3198306 810.1.1.0 ↗ a+b two layers › BtrG-like (Pfam 03674) › BtrG-like (Pfam 03674) › BtrG-like (Pfam 03674) 0.54 39.0 2.84e-01 79.6% 69.7%
3517620 5001.1.1.1 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_1 0.54 45.0 2.85e-01 96.3% 81.9%
4138932 304.48.1.72 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_N 0.54 41.0 2.65e-01 88.9% 49.0%
4009311 4187.2.1.0 ↗ a+b two layers › NosL/MerB-like › DUF2233 › DUF2233 0.54 39.0 3.81e-01 90.7% 69.2%
3988925 3227.1.1.1 ↗ alpha complex topology › phosphorylation-coupled saccharide transporter ChbC › phosphorylation-coupled saccharide transporter ChbC › phosphorylation-coupled saccharide transporter ChbC › PTS_EIIC 0.53 44.0 2.68e-01 100.0% 32.2%
3189419 267.1.1.0 ↗ a+b complex topology › Metal cation-transporting ATPase, ATP-binding domain › Metal cation-transporting ATPase, ATP-binding domain › Metal cation-transporting ATPase, ATP-binding domain 0.52 40.0 2.65e-01 90.7% 37.5%
3284000 4107.1.1.2 ↗ alpha arrays › Jann2411-like › Jann2411-like › Jann2411-like › zf-CGNR 0.52 42.0 3.10e-01 100.0% 33.7%
5045478 7527.1.1.1 ↗ a/b three-layered sandwiches › SurE-like/CoA-transferase family III (CaiB/BaiF) › SurE-like/CoA-transferase family III (CaiB/BaiF) › SurE-like/CoA-transferase family III (CaiB/BaiF) › SurE 0.51 44.0 2.91e-01 100.0% 63.3%
3523606 5001.1.1.1 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_1 0.51 40.0 2.54e-01 100.0% 89.2%
3483425 3745.1.1.0 ↗ alpha bundles › Sodium/Calcium exchanger › Sodium/Calcium exchanger › Sodium/Calcium exchanger 0.51 43.0 2.58e-01 100.0% 51.4%
3329735 327.11.2.37 ↗ a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) › KH_DEAH11_1st 0.51 36.0 3.33e-01 75.9% 98.6%
3275438 109.4.1.1945 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › HEAT_Maestro, HEAT_Maestro_2, HEAT_MROH2B_1st, HEAT_MROH2B_C 0.50 43.0 2.27e-01 100.0% 99.8%