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AJ972879.2__CCE26128.1__X__00105

Bact-Vir

AJ972879.2__CCE26128.1__X__00105

Identity

Accession:
AJ972879 ↗
Kingdom:
phage

Quality

62.9 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Yersinia_phage_phiR1-37

TaxID: 331278

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 3-55
PDB
Domain cluster: representative
CATH (25)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3l9fA02 6.10.140.1570 Special › Helix non-globular › Helix Hairpins › 0.83 74.0 6.38e-01 100.0% 66.7%
4y9jA01 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.80 70.0 5.05e-01 100.0% 40.9%
2rp4A00 6.10.280.60 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Transcription factor p53, C-terminal domain 0.77 62.0 5.68e-01 94.3% 67.6%
1vq8V00 1.10.287.310 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.77 65.0 6.14e-01 98.1% 78.5%
2hepA00 1.10.287.540 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.76 55.0 5.96e-01 88.7% 100.0%
2nn4A00 1.10.287.760 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › YqgQ-like 0.76 56.0 5.37e-01 79.2% 67.7%
4nb5B02 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.75 64.0 6.10e-01 100.0% 90.6%
1ailA00 1.10.287.10 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › S15/NS1, RNA-binding 0.74 63.0 5.78e-01 98.1% 72.9%
4oydB00 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.74 64.0 4.96e-01 98.1% 76.1%
4im9B00 1.10.860.10 Mainly Alpha › Orthogonal Bundle › DNAb Helicase; Chain A › DNAb Helicase; Chain A 0.73 59.0 4.40e-01 90.6% 35.6%
2ld7B00 1.20.1160.11 Mainly Alpha › Up-down Bundle › Paired amphipathic helix 2 (pah2 repeat) › Paired amphipathic helix 0.70 48.0 4.27e-01 71.7% 50.7%
6dv2G02 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.70 50.0 3.45e-01 83.0% 22.3%
5mmjb02 1.10.287.610 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.69 52.0 5.27e-01 81.1% 88.5%
4gxbA02 1.20.80.60 Mainly Alpha › Up-down Bundle › Acyl-CoA Binding Protein › 0.69 52.0 4.95e-01 83.0% 69.4%
1np7A02 1.25.40.80 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.69 52.0 4.09e-01 86.8% 37.8%
3zdmB00 1.20.5.420 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Immunoglobulin FC, subunit C 0.68 50.0 5.16e-01 94.3% 90.0%
3kd3A02 1.10.150.210 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Phosphoserine phosphatase; domain 2 0.67 47.0 4.56e-01 77.4% 65.0%
2cr7A01 1.20.1160.11 Mainly Alpha › Up-down Bundle › Paired amphipathic helix 2 (pah2 repeat) › Paired amphipathic helix 0.67 47.0 4.50e-01 75.5% 63.5%
2e62A01 6.10.140.420 Special › Helix non-globular › Helix Hairpins › 0.67 52.0 5.33e-01 86.8% 100.0%
2au5A00 1.20.120.590 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › EF2947-like 0.67 57.0 4.29e-01 96.2% 48.8%
2jaeA03 1.20.1440.240 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 0.64 55.0 4.48e-01 98.1% 56.4%
3t69A02 3.30.420.310 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › 2-keto-3-deoxy-galactonokinase, C-terminal domain 0.62 47.0 3.14e-01 84.9% 20.4%
2fe1A00 3.40.50.1010 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 5'-nuclease 0.58 47.0 3.67e-01 98.1% 59.2%
4nphA02 1.20.1270.330 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.56 50.0 4.49e-01 100.0% 95.9%
2v3sA00 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.54 39.0 3.29e-01 79.2% 65.6%
ECOD (19)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3455580 10.12.1.1 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › cNMP_binding 0.82 71.0 4.58e-01 98.1% 21.2%
3873532 150.5.1.98 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › ESAT-6 like › ESAT-6 like › PF30158 0.82 72.0 5.08e-01 100.0% 43.0%
4971062 192.15.1.0 ↗ alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains 0.80 71.0 6.08e-01 100.0% 63.5%
3281802 5022.1.1.0 ↗ extended segments › Subunit XII of photosystem I reaction centre, PsaM › Subunit XII of photosystem I reaction centre, PsaM › Subunit XII of photosystem I reaction centre, PsaM 0.80 69.0 6.47e-01 98.1% 80.0%
3842812 10.12.1.1 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › cNMP_binding 0.80 70.0 4.62e-01 98.1% 24.2%
3486312 192.7.1.0 ↗ alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm 0.80 70.0 5.42e-01 100.0% 45.4%
3988447 5043.1.1.0 ↗ extended segments › Sensor proteins transmembrane domains › Htr2 transmembrane domain-like › Htr2 transmembrane domain-like 0.78 63.0 6.28e-01 88.7% 83.6%
3936611 192.15.1.0 ↗ alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains 0.77 63.0 5.57e-01 100.0% 62.5%
3982740 5086.1.1.190 ↗ alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › OEP 0.76 64.0 4.31e-01 100.0% 25.0%
4009505 7079.1.1.1 ↗ a+b complex topology › Phage tail fiber assembly protein › Phage tail fiber assembly protein › Phage tail fiber assembly protein › Caudo_TAP 0.75 65.0 5.95e-01 96.2% 85.7%
4007897 3809.1.1.2 ↗ alpha bundles › Uncharacterized protein CV0426 › Uncharacterized protein CV0426 › Uncharacterized protein CV0426 › Caudo_TAP 0.75 65.0 5.94e-01 96.2% 85.7%
3944501 5086.1.1.0 ↗ alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins 0.74 63.0 5.63e-01 100.0% 67.5%
3975852 192.8.1.466 ↗ alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain › Caudo_TAP 0.73 61.0 5.79e-01 98.1% 78.5%
4010637 3809.1.1.2 ↗ alpha bundles › Uncharacterized protein CV0426 › Uncharacterized protein CV0426 › Uncharacterized protein CV0426 › Caudo_TAP 0.73 62.0 5.77e-01 100.0% 77.1%
3473827 5086.1.1.0 ↗ alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins 0.73 61.0 5.95e-01 100.0% 95.0%
3979204 605.2.1.8 ↗ alpha duplicates or obligate multimers › ROP-like › Hypothetical protein D-63 › Hypothetical protein D-63 › Caudo_TAP 0.72 61.0 5.55e-01 100.0% 72.0%
5040510 304.48.1.3 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B 0.72 59.0 3.94e-01 100.0% 38.0%
3974625 5086.1.1.84 ↗ alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › HH_MFP_RND 0.69 57.0 5.34e-01 100.0% 77.1%
3791357 5086.1.1.0 ↗ alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins 0.68 55.0 4.09e-01 100.0% 32.7%