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NC_055031.1__YP_010082462.1__KMD20_gp27__00027

Bact-Vir

NC_055031.1__YP_010082462.1__KMD20_gp27__00027

Identity

Accession:
NC_055031 ↗
Kingdom:
phage

Quality

81.8 mean pLDDT

Cluster

Singleton — not in a non-trivial cluster

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 3-57
PDB
Domain cluster: representative
CATH (52)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2gsvA00 6.10.140.40 Special › Helix non-globular › Helix Hairpins › 0.89 78.0 7.24e-01 94.5% 91.0%
2uubT00 1.20.58.110 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Ribosomal protein S20 0.84 75.0 6.11e-01 98.2% 59.6%
3dfzA02 1.10.8.610 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › SirC, precorrin-2 dehydrogenase, C-terminal helical domain-like 0.83 54.0 4.88e-01 76.4% 50.0%
4kb2A01 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.82 72.0 5.78e-01 100.0% 84.4%
6xxvC00 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.79 70.0 5.58e-01 100.0% 81.1%
3fvvA02 1.20.1440.100 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › SG protein - dephosphorylation function 0.79 51.0 4.59e-01 72.7% 49.3%
1iurA01 1.10.287.110 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › DnaJ domain 0.79 67.0 6.49e-01 98.2% 88.9%
3onjA00 1.20.58.400 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › t-snare proteins 0.78 69.0 5.73e-01 100.0% 83.5%
2ynqB00 1.25.40.680 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Type VII secretion system EssB, C-terminal-like domain 0.77 67.0 4.86e-01 100.0% 35.8%
4nv0A02 1.10.150.340 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Pyrimidine 5'-nucleotidase (UMPH-1), N-terminal domain 0.74 55.0 4.95e-01 85.5% 56.1%
3akjA02 1.10.1070.20 Mainly Alpha › Orthogonal Bundle › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, Domain 5 › 0.74 65.0 4.42e-01 100.0% 72.6%
2bduA02 1.10.150.340 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Pyrimidine 5'-nucleotidase (UMPH-1), N-terminal domain 0.74 57.0 5.27e-01 87.3% 64.9%
3n5lA03 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.74 60.0 5.98e-01 89.1% 87.7%
1m62A00 1.20.58.120 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › BAG domain 0.74 64.0 5.55e-01 100.0% 75.9%
3layF00 1.20.120.1490 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.73 58.0 5.15e-01 85.5% 91.0%
2zxqA06 1.20.1270.70 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Designed single chain three-helix bundle 0.73 53.0 5.09e-01 81.8% 66.7%
2au3A04 1.20.50.30 Mainly Alpha › Up-down Bundle › Pheromone ER-1 › 0.73 52.0 5.25e-01 85.5% 76.4%
1b5lA00 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.71 61.0 4.51e-01 100.0% 75.0%
6qumQ00 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.71 53.0 4.83e-01 81.8% 90.5%
2ds2D01 1.10.110.10 Mainly Alpha › Orthogonal Bundle › Hydrophobic Seed Protein › Plant lipid-transfer and hydrophobic proteins 0.70 56.0 5.63e-01 94.5% 89.5%
2efkA01 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.70 55.0 3.48e-01 96.4% 17.9%
3hr0B01 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.70 55.0 5.00e-01 90.9% 70.9%
2e9xD01 1.20.58.1030 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.68 62.0 4.59e-01 100.0% 47.4%
4adnA01 1.20.1280.250 Mainly Alpha › Up-down Bundle › Monooxygenase › 0.68 55.0 4.79e-01 89.1% 58.8%
2q0oC00 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.68 53.0 4.66e-01 98.2% 55.8%
1vf7A03 1.10.287.470 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.67 56.0 5.51e-01 98.2% 85.0%
3a06B03 1.10.1740.10 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › RNA polymerase sigma factor, region 2, helix turn helix motif 0.67 47.0 3.99e-01 74.5% 45.5%
2xokP00 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.67 50.0 4.68e-01 85.5% 66.2%
1z8fA01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.67 55.0 4.30e-01 92.7% 76.0%
1u5pA01 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.67 57.0 4.67e-01 100.0% 77.8%
2gtsA00 1.10.287.850 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HP0062-like domain 0.67 52.0 4.71e-01 85.5% 62.3%
1grjA01 1.10.287.180 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Transcription elongation factor, GreA/GreB, N-terminal domain 0.66 56.0 5.14e-01 96.4% 83.8%
1q2lA04 3.30.830.10 Alpha Beta › 2-Layer Sandwich › Cytochrome Bc1 Complex; Chain A, domain 1 › Metalloenzyme, LuxS/M16 peptidase-like 0.66 54.0 3.54e-01 89.1% 46.5%
2r9iA00 1.10.287.80 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ATP synthase, gamma subunit, helix hairpin domain 0.66 54.0 5.03e-01 92.7% 73.2%
2g47A04 3.30.830.10 Alpha Beta › 2-Layer Sandwich › Cytochrome Bc1 Complex; Chain A, domain 1 › Metalloenzyme, LuxS/M16 peptidase-like 0.65 52.0 3.45e-01 89.1% 53.3%
1s5jA04 1.10.287.690 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › B family DNA polymerase, finger domain 0.64 49.0 4.84e-01 98.2% 78.7%
2wmmA01 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 0.63 44.0 4.66e-01 74.5% 100.0%
4rg8A04 1.10.287.1240 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.63 47.0 4.56e-01 83.6% 82.3%
3rylA01 1.20.120.1210 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.63 55.0 4.15e-01 100.0% 86.9%
7sf7A01 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.62 54.0 3.49e-01 100.0% 72.3%
3axjB02 1.20.58.200 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Translin; domain 2 0.62 53.0 4.70e-01 100.0% 78.8%
6r1nA01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.62 51.0 4.17e-01 92.7% 49.5%
1tfkB00 1.20.120.650 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Colicin D 0.61 51.0 4.50e-01 96.4% 81.4%
7odyC01 1.10.287.1080 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › MazG-like 0.61 52.0 4.45e-01 100.0% 62.0%
1ku9A02 1.10.287.450 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.59 50.0 4.85e-01 98.2% 87.5%
1surA00 3.40.50.620 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs 0.59 46.0 3.17e-01 90.9% 80.0%
5uayA02 3.10.20.310 Alpha Beta › Roll › Ubiquitin-like (UB roll) › membrane protein fhac 0.57 38.0 3.40e-01 74.5% 45.8%
4od8D00 6.10.140.1880 Special › Helix non-globular › Helix Hairpins › 0.56 42.0 4.34e-01 83.6% 88.2%
2lpeA01 6.10.140.1120 Special › Helix non-globular › Helix Hairpins › 0.56 44.0 4.09e-01 94.5% 80.8%
7ml0M01 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.55 40.0 3.55e-01 78.2% 65.9%
2lyyA00 1.10.287.3020 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.53 42.0 3.66e-01 94.5% 85.4%
2b3tB01 6.10.140.1980 Special › Helix non-globular › Helix Hairpins › 0.53 41.0 3.97e-01 98.2% 76.9%
ECOD (54)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5001687 4009.1.1.0 alpha bundles › alpha-helical domain in AF1104-like proteins › alpha-helical domain in AF1104-like proteins › alpha-helical domain in AF1104-like proteins 0.88 70.0 6.65e-01 85.5% 73.0%
3938243 3065.1.1.1 alpha bundles › Fatty acid- and retinoid-binding proteins › Fatty acid- and retinoid-binding proteins › Fatty acid- and retinoid-binding proteins › ANIS5_cation-bd 0.88 71.0 4.53e-01 87.3% 19.6%
3214189 604.1.1.0 alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.87 80.0 6.32e-01 100.0% 84.8%
3748229 3826.1.1.0 alpha bundles › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) 0.86 72.0 5.50e-01 90.9% 42.6%
3623057 2004.1.1.250 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Kinesin,Microtub_bd 0.85 68.0 3.81e-01 87.3% 7.5%
4112673 310.2.1.1 a+b two layers › RRF/tRNA synthetase additional domain-like › Ribosome recycling factor, RRF › Ribosome recycling factor, RRF › RRF 0.84 76.0 5.23e-01 100.0% 92.1%
3986220 605.1.1.0 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase 0.84 67.0 5.22e-01 87.3% 41.7%
4562953 2004.1.1.43 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SRP54 0.83 67.0 4.15e-01 87.3% 16.8%
4354962 3390.1.1.0 extended segments › Photosystem II reaction center protein T, PsbT › Photosystem II reaction center protein T, PsbT › Photosystem II reaction center protein T, PsbT 0.82 66.0 6.89e-01 87.3% 96.0%
3194704 109.6.1.3 alpha superhelices › Repetitive alpha hairpins › Ras GEF › Ras GEF › RasGEF_N 0.82 73.0 5.23e-01 100.0% 71.6%
3679700 601.33.1.0 alpha bundles › Four-helical up-and-down bundle › CHAD domain › CHAD domain 0.81 62.0 4.86e-01 83.6% 40.0%
3660913 3826.1.1.0 alpha bundles › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) 0.81 62.0 5.26e-01 83.6% 51.1%
4235299 310.2.1.1 a+b two layers › RRF/tRNA synthetase additional domain-like › Ribosome recycling factor, RRF › Ribosome recycling factor, RRF › RRF 0.80 70.0 4.88e-01 100.0% 89.7%
4020813 109.6.1.0 alpha superhelices › Repetitive alpha hairpins › Ras GEF › Ras GEF 0.80 71.0 4.16e-01 100.0% 33.4%
4026047 310.2.1.0 a+b two layers › RRF/tRNA synthetase additional domain-like › Ribosome recycling factor, RRF › Ribosome recycling factor, RRF 0.80 63.0 5.41e-01 85.5% 55.3%
4003615 5054.1.1.59 alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels › Ion_trans, Ion_trans_2 0.79 65.0 4.27e-01 90.9% 22.2%
3214672 3826.1.1.0 alpha bundles › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) 0.79 65.0 5.15e-01 90.9% 45.5%
4324180 3755.4.1.0 alpha bundles › YscO-like › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain 0.78 61.0 5.00e-01 85.5% 52.0%
4660205 192.2.1.0 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.77 63.0 4.75e-01 90.9% 37.0%
3921001 109.4.1.1472 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Tho2, Thoc2, THOC2_N 0.77 67.0 3.65e-01 98.2% 23.4%
3774606 109.4.1.2221 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Tho2, Thoc2 0.77 68.0 3.76e-01 98.2% 32.7%
3992791 3843.1.1.0 alpha complex topology › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K 0.77 62.0 5.17e-01 89.1% 53.7%
5004436 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.77 66.0 4.67e-01 98.2% 31.8%
223819 109.28.1.1 alpha superhelices › Repetitive alpha hairpins › EssB extracellular domain › EssB extracellular domain › YukC 0.77 67.0 4.87e-01 100.0% 36.2%
5020110 604.1.1.0 alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.75 65.0 5.41e-01 100.0% 92.0%
3399070 4082.1.1.1 alpha duplicates or obligate multimers › Hairy Orange domain › Hairy Orange domain › Hairy Orange domain › Hairy_orange 0.75 57.0 5.71e-01 83.6% 83.6%
5018387 604.18.1.0 alpha bundles › Spectrin repeat-like › Triple-helical domain in regulatory ATPase variant A (RavA) › Triple-helical domain in regulatory ATPase variant A (RavA) 0.74 65.0 5.30e-01 100.0% 86.7%
3822870 605.1.1.169 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › TMEM120A-B 0.74 59.0 4.79e-01 89.1% 69.5%
4029114 2006.1.3.11 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › Toprim domain › TOP6A-Spo11_Toprim 0.73 62.0 4.29e-01 94.5% 55.0%
3716018 3877.1.1.1 alpha bundles › Membrane protein insertase YidC-related › Membrane protein insertase YidC-related › Membrane protein insertase YidC › 60KD_IMP 0.72 54.0 3.62e-01 83.6% 20.0%
4009690 7523.1.1.25 a/b three-layered sandwiches › Periplasmic binding protein-like II › Periplasmic binding protein-like II › Periplasmic binding protein-like II › Phosphonate-bd 0.72 62.0 4.21e-01 94.5% 57.9%
3592341 3877.1.1.0 alpha bundles › Membrane protein insertase YidC-related › Membrane protein insertase YidC-related › Membrane protein insertase YidC 0.72 55.0 3.63e-01 85.5% 19.6%
3482686 603.1.1.0 alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.71 62.0 5.33e-01 100.0% 83.3%
3226467 174.1.1.0 few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain 0.71 56.0 4.22e-01 96.4% 35.6%
4428645 3826.1.1.80 alpha bundles › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › GrpE 0.70 54.0 5.27e-01 85.5% 78.3%
3582455 3843.1.1.0 alpha complex topology › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K 0.70 63.0 5.66e-01 100.0% 85.3%
3857708 109.3.1.444 alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat › Tmemb_185A 0.70 55.0 3.55e-01 96.4% 18.1%
3717682 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.70 59.0 4.11e-01 100.0% 51.5%
3178532 109.4.1.1764 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PF28917 0.69 62.0 4.00e-01 100.0% 60.4%
4453815 192.12.1.1 alpha bundles › Long alpha-hairpin › Transcriptional repressor TraM › Transcriptional repressor TraM › Prok-TraM 0.69 55.0 4.68e-01 90.9% 60.0%
3742273 109.6.1.2 alpha superhelices › Repetitive alpha hairpins › Ras GEF › Ras GEF › RasGEF,RasGEF_N 0.69 58.0 3.45e-01 100.0% 32.4%
5002355 622.4.1.0 alpha bundles › YvfG-like › Mite allergen Der p 5-related › Mite allergen Der p 5-related 0.68 60.0 4.56e-01 100.0% 72.3%
5034998 198.1.1.0 alpha arrays › Saposin-like › Saposin-like › Saposin-like 0.68 51.0 4.93e-01 89.1% 73.8%
3749999 604.1.1.0 alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.67 58.0 5.01e-01 100.0% 93.3%
4027013 1134.1.1.0 alpha bundles › C-terminal helical domain of alanine-tRNA ligase › C-terminal helical domain of alanine-tRNA ligase › Eukaryotic C-Ala helical domain 0.67 53.0 5.33e-01 98.2% 90.9%
5034422 198.1.1.0 alpha arrays › Saposin-like › Saposin-like › Saposin-like 0.67 53.0 5.35e-01 94.5% 87.3%
4032379 192.8.1.0 alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain 0.66 55.0 4.98e-01 92.7% 76.0%
3181110 5086.1.1.110 alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › HisKA 0.65 55.0 4.63e-01 94.5% 64.2%
3791628 1203.1.2.0 alpha bundles › Shroom domain 2 › Shroom domain 2 › Human SD2 0.65 53.0 3.98e-01 92.7% 35.2%
3695244 3615.1.1.0 alpha bundles › Bacterial dynamin-like protein helical domain › Bacterial dynamin-like protein helical domain › Bacterial dynamin-like protein helical domain 0.63 55.0 3.87e-01 98.2% 50.6%
3996198 174.1.1.1 few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin 0.63 52.0 4.00e-01 100.0% 61.4%
3839497 150.5.1.0 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › ESAT-6 like › ESAT-6 like 0.63 53.0 4.66e-01 98.2% 95.3%
3385727 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 0.62 49.0 3.22e-01 94.5% 18.9%
3890044 3922.1.1.0 alpha bundles › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 0.61 49.0 4.60e-01 94.5% 75.0%