←Back to structures

MF630921.1__ATI17005.1__X__00046

Bact-Vir

MF630921.1__ATI17005.1__X__00046

Identity

Accession:
MF630921 ↗
Kingdom:
phage

Quality

87.5 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Autographivirales› Autotranscriptaviridae› Kayfunavirus› Escherichia_phage_IMM-002

TaxID: 2041760

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 medium residues 1-26
PDB
Domain cluster: representative
CATH (42)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3d03A01 3.60.21.40 Alpha Beta › 4-Layer Sandwich › Purple Acid Phosphatase; chain A, domain 2 › GpdQ, catalytic alpha/beta sandwich domain 0.81 61.0 3.96e-01 92.3% 18.3%
1y4uB01 3.30.565.10 Alpha Beta › 2-Layer Sandwich › Heat Shock Protein 90 › Histidine kinase-like ATPase, C-terminal domain 0.75 51.0 3.21e-01 96.2% 12.9%
1xexB00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.75 53.0 3.32e-01 100.0% 13.7%
3o27B00 2.10.260.10 Mainly Beta › Ribbon › Pemi-like Protein 1; Chain: D › 0.75 55.0 4.58e-01 96.2% 45.6%
6zzmA01 3.30.559.10 Alpha Beta › 2-Layer Sandwich › Chloramphenicol Acetyltransferase › Chloramphenicol acetyltransferase-like domain 0.74 52.0 3.11e-01 92.3% 11.0%
3p9aF00 1.10.132.80 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › 0.74 53.0 3.55e-01 100.0% 58.2%
2v8qB00 6.20.250.60 Special › Other non-globular › Double Stranded RNA Binding Domain › 0.72 51.0 3.84e-01 80.8% 34.2%
5h7kA01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.71 51.0 2.99e-01 84.6% 9.1%
2hqlA01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.71 54.0 3.94e-01 100.0% 34.1%
2jqjA01 2.60.200.20 Mainly Beta › Sandwich › Tumour Suppressor Smad4 › 0.71 53.0 3.53e-01 96.2% 20.8%
2qzbA00 2.60.460.10 Mainly Beta › Sandwich › protein yfey like fold › protein yfey like domain 0.71 50.0 3.22e-01 80.8% 17.2%
3bt7A02 2.40.50.1070 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.69 52.0 3.34e-01 84.6% 15.2%
3f1yA00 3.90.550.10 Alpha Beta › Alpha-Beta Complex › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A 0.69 51.0 2.94e-01 96.2% 7.9%
4n01A01 3.40.50.1980 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Nitrogenase molybdenum iron protein domain 0.67 47.0 3.22e-01 80.8% 17.9%
4mtlA00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.66 50.0 3.01e-01 84.6% 10.6%
2hv2A01 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.66 46.0 3.36e-01 92.3% 30.5%
4i1sB00 4.10.80.340 Few Secondary Structures › Irregular › Rhinovirus 14, subunit 4 › 0.66 45.0 4.10e-01 100.0% 50.0%
2ecfA01 2.140.10.30 Mainly Beta › 8 Propeller › Methanol Dehydrogenase; Chain A › Dipeptidylpeptidase IV, N-terminal domain 0.64 49.0 2.74e-01 100.0% 6.6%
3o2iA00 3.30.70.2710 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.64 46.0 3.39e-01 96.2% 26.9%
2i9yA00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.63 45.0 2.89e-01 76.9% 12.7%
3q6aB00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.62 43.0 2.94e-01 92.3% 17.9%
2zihC00 1.10.3630.10 Mainly Alpha › Orthogonal Bundle › yeast vps74-n-term truncation variant fold › yeast vps74-n-term truncation variant domain like 0.62 45.0 2.68e-01 100.0% 53.8%
5b55A01 3.40.50.1100 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.61 46.0 2.88e-01 88.5% 12.1%
4ivkA00 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.61 44.0 2.52e-01 100.0% 8.2%
1l3iA00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.61 43.0 2.76e-01 100.0% 14.1%
1vwxT01 2.30.30.70 Mainly Beta › Roll › SH3 type barrels. › Ribosomal protein L21 0.60 45.0 3.20e-01 88.5% 29.9%
2nq2D00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.59 48.0 2.84e-01 96.2% 10.1%
1ti2B01 3.30.70.20 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.58 40.0 2.72e-01 84.6% 16.5%
3ksrA01 6.20.370.100 Special › Other non-globular › Rhinovirus 14, subunit 4 › 0.57 36.0 3.59e-01 100.0% 100.0%
4d10F01 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.57 41.0 2.67e-01 100.0% 15.1%
3qjlA02 3.30.70.1900 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.56 44.0 3.02e-01 80.8% 17.6%
1tgjA00 2.10.90.10 Mainly Beta › Ribbon › Cystine Knot Cytokines, subunit B › Cystine-knot cytokines 0.56 40.0 2.94e-01 92.3% 23.2%
4lgvD02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.56 38.0 2.35e-01 96.2% 9.4%
5cm2Z00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.55 38.0 2.49e-01 96.2% 14.1%
3gkuA03 3.30.1370.50 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › R3H-like domain 0.55 41.0 3.32e-01 92.3% 32.4%
1qw2A00 3.30.1980.10 Alpha Beta › 2-Layer Sandwich › Hypothetical protein Ta1206 fold › Hypothetical protein YunC 0.54 46.0 3.19e-01 76.9% 19.6%
4fidA01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.54 45.0 2.80e-01 80.8% 10.9%
1ckmA01 3.30.470.30 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › DNA ligase/mRNA capping enzyme 0.53 36.0 2.49e-01 92.3% 15.5%
1v1qA00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.52 32.0 2.51e-01 100.0% 38.2%
2fsdA00 2.60.40.2460 Mainly Beta › Sandwich › Immunoglobulin-like › Phage bIL170 RBP, head domain 0.51 35.0 2.60e-01 100.0% 20.0%
2pw9A01 4.10.80.30 Few Secondary Structures › Irregular › Rhinovirus 14, subunit 4 › DNA polymerase; domain 6 0.50 36.0 3.61e-01 96.2% 100.0%
3k8aB00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.50 35.0 2.68e-01 96.2% 39.8%
ECOD (40)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5000798 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 0.85 64.0 3.84e-01 92.3% 13.0%
4187457 4967.1.1.6 ↗ alpha bundles › helical bundle domain in reverse transcriptase-like polymerases › helical bundle domain in reverse transcriptase-like polymerases › helical bundle domain in reverse transcriptase-like polymerases › Intron_maturas2 0.77 60.0 3.95e-01 100.0% 20.0%
5032176 1.1.3.2 ↗ beta barrels › cradle loop barrel › RIFT-related › AbrB › MazE_antitoxin 0.75 53.0 4.30e-01 84.6% 36.7%
5056727 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 0.74 54.0 3.30e-01 96.2% 12.2%
3602563 2007.1.5.14 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › ATC-like › PF27247 0.73 61.0 4.00e-01 100.0% 20.8%
3589192 101.1.1.68 ↗ alpha arrays › HTH › HTH › Three-helical HTH › HTH_38 0.72 58.0 4.31e-01 100.0% 33.8%
3996281 110.3.1.1 ↗ alpha arrays › DEATH domain › SLED domain › SLED domain › SLED 0.70 49.0 3.50e-01 96.2% 22.7%
3220485 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 0.70 50.0 2.90e-01 100.0% 7.5%
2085058 2004.1.1.14 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › GTP_EFTU 0.69 52.0 3.30e-01 84.6% 15.2%
4973203 1.1.3.0 ↗ beta barrels › cradle loop barrel › RIFT-related › AbrB 0.69 50.0 4.32e-01 84.6% 44.0%
3587666 330.1.1.11 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › DUF1071 0.69 50.0 3.36e-01 100.0% 25.2%
3504218 377.1.1.10 ↗ few secondary structure elements › Glucocorticoid receptor-like › LIM domain-like › LIM domain-like › ArfGap 0.69 52.0 2.92e-01 100.0% 26.5%
5035417 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 0.69 49.0 3.64e-01 100.0% 27.4%
3539534 354.1.1.8 ↗ few secondary structure elements › Sea anemone toxin k-like › Sea anemone toxin k-related › Sea anemone toxin k-related › MAGP 0.68 49.0 4.96e-01 100.0% 86.7%
3038102 1.1.3.0 ↗ beta barrels › cradle loop barrel › RIFT-related › AbrB 0.68 46.0 3.99e-01 88.5% 41.1%
3475708 389.1.1.0 ↗ few secondary structure elements › EGF-like › EGF-related › EGF/Laminin 0.67 49.0 4.39e-01 84.6% 50.0%
3349668 208.1.1.5 ↗ beta duplicates or obligate multimers › Single-stranded left-handed beta-helix › Trimeric LpxA-like enzymes › Trimeric LpxA-like enzymes › UDPGP 0.66 47.0 3.01e-01 100.0% 15.6%
5027694 1.1.3.0 ↗ beta barrels › cradle loop barrel › RIFT-related › AbrB 0.65 47.0 3.93e-01 84.6% 42.6%
3969016 7579.1.1.3 ↗ a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases › Peptidase_S9 0.64 39.0 2.46e-01 100.0% 10.4%
3735615 3670.1.1.2 ↗ alpha complex topology › NCD2 domain › NCD2 domain › NCD2 domain › PF26087 0.64 43.0 3.29e-01 100.0% 26.0%
4591311 5084.5.3.1 ↗ beta barrels › Outer membrane meander beta-barrels › Porins › Ligand-gated protein channel › TonB_dep_Rec_b-barrel 0.63 44.0 2.39e-01 100.0% 10.6%
4931277 101.1.2.14 ↗ alpha arrays › HTH › HTH › winged helix domain › HTH_5 0.63 44.0 2.83e-01 80.8% 24.5%
3581800 11.1.1.97 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › I-set 0.62 44.0 3.90e-01 92.3% 46.0%
5077468 2004.1.1.30 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Helicase_C 0.62 47.0 2.85e-01 100.0% 59.5%
3251044 242.1.1.2 ↗ a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › LAGLIDADG_2 0.60 48.0 3.08e-01 88.5% 14.9%
2484454 2003.4.1.1 ↗ a/b three-layered sandwiches › Rossmann-like › Tryptophan synthase beta subunit-like PLP-dependent enzymes › Tryptophan synthase beta subunit-like PLP-dependent enzymes › PALP 0.59 39.0 2.68e-01 92.3% 20.1%
3577065 11.1.1.97 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › I-set 0.58 41.0 3.86e-01 92.3% 53.3%
3001810 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.58 44.0 4.15e-01 80.8% 59.5%
3236725 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.58 39.0 2.39e-01 96.2% 10.0%
4924547 325.1.7.0 ↗ a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif 0.58 44.0 3.59e-01 96.2% 52.3%
3411686 3136.1.1.1 ↗ extended segments › Gle2-binding sequence (GLEBS) of Nup98 › Gle2-binding sequence (GLEBS) of Nup98 › Gle2-binding sequence (GLEBS) of Nup98 › Nup98_GLEBS 0.58 39.0 3.51e-01 100.0% 45.0%
3993949 284.1.1.0 ↗ a+b two layers › FKBP-like › FKBP-like › FKBP-like 0.58 39.0 3.76e-01 96.2% 55.6%
4079740 4056.1.1.0 ↗ beta barrels › Barrel domain in upper collar protein › Barrel domain in upper collar protein › Barrel domain in upper collar protein 0.57 37.0 2.80e-01 88.5% 21.9%
2755266 3709.1.1.1 ↗ a+b two layers › ESX-1 secretion system protein eccB1 linker domains › ESX-1 secretion system protein eccB1 linker domains › ESX-1 secretion system protein eccB1 linker domains › T7SS_ESX1_EccB 0.55 38.0 3.82e-01 92.3% 68.4%
4803436 4300.1.1.15 ↗ beta complex topology › Viral glycoprotein ectodomain-like › Viral glycoprotein ectodomain-like › Viral glycoprotein ectodomain-like › Rhabdo_glycop_CD 0.55 40.0 3.11e-01 96.2% 26.2%
3701882 331.4.1.0 ↗ a+b two layers › TBP-like › Kinase associated domain 1, KA1 › Kinase associated domain 1, KA1 0.53 38.0 2.90e-01 84.6% 23.2%
3326759 284.1.3.1 ↗ a+b two layers › FKBP-like › FKBP-like › WNK1 autoinhibitory domain › SNF5 0.53 38.0 3.05e-01 100.0% 34.7%
3562501 3075.1.1.0 ↗ a+b two layers › ubiquitin-binding domain from PLAA › ubiquitin-binding domain from PLAA › ubiquitin-binding domain from PLAA 0.53 39.0 3.08e-01 88.5% 28.7%
4946616 512.1.1.2 ↗ a+b two layers › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › PmbA_TldD_2nd 0.52 37.0 2.91e-01 92.3% 26.7%
4161112 7573.1.1.4 ↗ a/b three-layered sandwiches › PRTase-like › PRTase-like › PRTase-like › UPRTase 0.51 37.0 2.26e-01 96.2% 8.8%