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NC_005083.2__NP_899568.1__KVP40.0321__00320

Bact-Vir

NC_005083.2__NP_899568.1__KVP40.0321__00320

Identity

Accession:
NC_005083 ↗
Kingdom:
phage

Quality

75.7 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 medium residues 27-77
PDB
Domain cluster: representative
CATH (58)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
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 0.98 83.0 8.51e-01 94.1% 91.8%
3qo8A01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.97 92.0 6.93e-01 100.0% 51.9%
1hr5A00 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 0.96 82.0 8.50e-01 90.2% 100.0%
1skvA00 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.95 89.0 8.10e-01 100.0% 90.6%
1x4tA01 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.93 83.0 7.90e-01 96.1% 96.6%
1lrzA03 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.92 85.0 7.90e-01 100.0% 87.1%
3gnlB02 1.10.287.1890 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.91 77.0 6.88e-01 90.2% 67.6%
5mmjo00 1.10.287.10 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › S15/NS1, RNA-binding 0.91 83.0 7.14e-01 98.0% 73.3%
3b2eF00 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.91 84.0 7.81e-01 100.0% 98.4%
1ij5A01 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.91 84.0 7.23e-01 100.0% 72.4%
1a36A04 1.10.132.10 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › 0.90 82.0 5.49e-01 100.0% 38.9%
2lw1A00 1.10.287.380 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Valyl-tRNA synthetase, C-terminal domain 0.90 81.0 6.78e-01 100.0% 71.8%
1tjlA00 1.20.120.910 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › DksA, coiled-coil domain 0.90 82.0 5.75e-01 100.0% 37.2%
3fxdB00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.89 78.0 7.42e-01 94.1% 89.7%
2rp4A00 6.10.280.60 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Transcription factor p53, C-terminal domain 0.88 65.0 5.78e-01 100.0% 56.3%
3l9fA02 6.10.140.1570 Special › Helix non-globular › Helix Hairpins › 0.88 75.0 6.37e-01 100.0% 59.3%
4abxA02 6.10.140.1090 Special › Helix non-globular › Helix Hairpins › 0.87 79.0 6.52e-01 100.0% 63.2%
1qsdA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.87 73.0 5.79e-01 100.0% 47.1%
3k6tB00 1.20.5.4010 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.87 73.0 7.48e-01 98.0% 93.9%
2yevC00 6.10.280.110 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.85 76.0 7.06e-01 98.0% 98.4%
2rf4B01 6.10.250.3390 Special › Helix non-globular › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.85 71.0 6.95e-01 94.1% 83.6%
2hh7A00 1.20.58.1000 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Metal-sensitive repressor, helix protomer 0.85 76.0 6.35e-01 100.0% 72.9%
3icxA01 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.85 75.0 6.61e-01 100.0% 73.3%
3fppA03 6.10.140.1990 Special › Helix non-globular › Helix Hairpins › 0.84 75.0 6.21e-01 100.0% 58.0%
1zhcA00 6.10.280.50 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.83 70.0 6.15e-01 100.0% 63.2%
3hr0B01 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.83 71.0 6.17e-01 96.1% 96.2%
1vf7A03 1.10.287.470 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.83 73.0 6.95e-01 100.0% 85.0%
4l8jA04 1.10.287.470 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.82 71.0 6.82e-01 100.0% 86.4%
2gtsA00 1.10.287.850 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HP0062-like domain 0.81 70.0 6.20e-01 100.0% 67.5%
2dw4A03 1.10.287.80 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ATP synthase, gamma subunit, helix hairpin domain 0.80 71.0 5.65e-01 100.0% 50.5%
1wdzA00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.78 67.0 4.35e-01 100.0% 29.9%
3tklB01 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.77 64.0 6.13e-01 100.0% 83.9%
1qgtB00 1.10.4090.10 Mainly Alpha › Orthogonal Bundle › Hepatitis B viral capsid (hbcag) fold › Viral capsid, core domain supefamily, Hepatitis B virus 0.76 66.0 4.85e-01 100.0% 36.4%
2ycdA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.76 66.0 5.10e-01 100.0% 45.3%
5b1oA00 1.10.287.130 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Signal transduction histidine kinase, dimerisation/phosphotransfer (DHp) domain 0.76 61.0 5.67e-01 90.2% 72.3%
4rg8A04 1.10.287.1240 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.76 58.0 5.47e-01 84.3% 80.6%
3mq1A01 1.20.58.970 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.76 63.0 5.36e-01 100.0% 55.4%
1cxzB00 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.76 64.0 5.52e-01 100.0% 59.3%
3sfvB02 6.10.140.2010 Special › Helix non-globular › Helix Hairpins › 0.75 62.0 4.23e-01 100.0% 25.5%
2yevA02 1.10.287.70 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.74 62.0 5.52e-01 94.1% 74.3%
1lq7A00 1.20.1270.70 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Designed single chain three-helix bundle 0.74 58.0 5.41e-01 94.1% 68.7%
3layF00 1.20.120.1490 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.74 61.0 5.46e-01 100.0% 69.2%
3jcuZ00 1.10.287.740 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Photosystem II PsbZ, reaction centre 0.72 62.0 5.90e-01 100.0% 85.2%
2mpkA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.72 58.0 5.18e-01 100.0% 63.5%
3qf7A02 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.71 60.0 5.66e-01 100.0% 87.3%
3d36B02 1.10.287.130 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Signal transduction histidine kinase, dimerisation/phosphotransfer (DHp) domain 0.70 57.0 5.50e-01 100.0% 88.5%
4okvE00 6.10.140.1890 Special › Helix non-globular › Helix Hairpins › 0.70 58.0 5.34e-01 92.2% 90.8%
3dkqA02 4.10.860.20 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › Rabenosyn, Rab binding domain 0.69 52.0 5.35e-01 86.3% 95.7%
7ymiZ01 1.10.287.740 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Photosystem II PsbZ, reaction centre 0.69 54.0 5.33e-01 100.0% 84.5%
4dyqA01 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.68 54.0 4.35e-01 90.2% 52.4%
6lumD01 1.20.1300.10 Mainly Alpha › Up-down Bundle › 3 helical TM bundles of succinate and fumarate reductases › Fumarate reductase/succinate dehydrogenase, transmembrane subunit 0.68 61.0 4.54e-01 100.0% 43.2%
2cazC00 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.68 52.0 5.02e-01 94.1% 75.0%
5mlc900 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.66 57.0 4.54e-01 100.0% 82.2%
2z16B01 1.20.91.10 Mainly Alpha › Up-down Bundle › Influenza Virus Matrix Protein; Chain A, domain 1 › Influenza matrix M1, N-terminal subdomain 1 0.65 45.0 3.94e-01 78.4% 47.4%
2v6eA01 1.10.287.3180 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.64 53.0 4.68e-01 92.2% 85.3%
2yqyA00 1.20.120.450 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › dinb family like domain 0.63 56.0 4.16e-01 100.0% 41.3%
2db7A01 6.10.250.980 Special › Helix non-globular › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.62 48.0 4.76e-01 88.2% 83.0%
2y0eB03 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.58 45.0 3.13e-01 98.0% 63.9%
ECOD (51)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4304756 605.2.1.3 alpha duplicates or obligate multimers › ROP-like › Hypothetical protein D-63 › Hypothetical protein D-63 › Seryl_tRNA_N 0.98 93.0 6.92e-01 100.0% 65.5%
4057547 192.7.1.2 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.98 93.0 6.90e-01 100.0% 52.7%
4429833 192.7.1.2 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.97 92.0 6.85e-01 100.0% 52.7%
4574972 192.7.1.0 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm 0.97 92.0 8.59e-01 100.0% 85.0%
4034201 192.7.1.1 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › FemAB 0.96 91.0 8.55e-01 100.0% 85.0%
3637046 192.8.1.327 alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain › PigL_N 0.95 89.0 6.71e-01 100.0% 46.4%
4042007 192.7.1.2 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.95 89.0 6.70e-01 100.0% 65.5%
3600361 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 0.95 89.0 7.03e-01 100.0% 53.7%
3497897 3939.1.1.0 alpha duplicates or obligate multimers › XRCC4 C-terminal oligomerization domain › XRCC4 C-terminal oligomerization domain › XRCC4 C-terminal oligomerization domain 0.95 88.0 7.76e-01 98.0% 100.0%
4527465 101.1.4.83 alpha arrays › HTH › HTH › tetra-helical, lambda repressor-like › Med10 0.95 85.0 6.25e-01 100.0% 40.8%
4186957 192.29.1.164 alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) › RRP36 0.95 88.0 6.56e-01 100.0% 45.2%
3470751 3755.3.1.297 alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › KIF9 0.95 88.0 5.97e-01 100.0% 58.1%
3366153 3755.3.1.0 alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.94 88.0 5.86e-01 100.0% 30.0%
3545387 3602.1.1.0 alpha bundles › Kinase suppressor of Ras 1 helical hairpin domain › Kinase suppressor of Ras 1 helical hairpin domain › Kinase suppressor of Ras 1 helical hairpin domain 0.94 88.0 6.62e-01 100.0% 46.4%
3635635 3826.1.1.26 alpha bundles › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › RRP36 0.94 88.0 6.10e-01 100.0% 36.1%
4277985 2004.1.1.481 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SMC_N, AAA_29 0.94 87.0 5.04e-01 100.0% 18.5%
3693465 192.7.1.2 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.94 88.0 6.42e-01 100.0% 52.5%
3917262 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 0.94 87.0 6.16e-01 100.0% 58.5%
3240682 192.2.1.0 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.93 87.0 6.57e-01 100.0% 46.4%
3761108 192.2.1.0 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.93 86.0 7.09e-01 100.0% 60.0%
3880637 3755.3.1.465 alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › KIF21A 0.93 85.0 6.02e-01 100.0% 36.4%
3714244 192.8.1.0 alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain 0.92 74.0 6.99e-01 100.0% 73.3%
3713097 2004.1.1.0 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.92 81.0 4.76e-01 94.1% 37.8%
3543042 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 0.92 85.0 6.98e-01 100.0% 61.2%
3738597 192.7.1.0 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm 0.92 85.0 6.34e-01 100.0% 44.3%
3579981 632.11.1.14 alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like › TMEM107 0.91 84.0 6.55e-01 100.0% 51.0%
3713201 4323.1.1.1 alpha bundles › helical bundle domain in vacuolar ATP synthase subunit C › helical bundle domain in vacuolar ATP synthase subunit C › helical bundle domain in vacuolar ATP synthase subunit C › V_ATPase_I 0.91 86.0 5.96e-01 100.0% 35.2%
3938995 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 0.91 84.0 6.80e-01 100.0% 56.7%
4211148 4207.1.1.6 alpha duplicates or obligate multimers › Mediator hinge subcomplex-like › Mediator hinge subcomplex-like › RNA polymerase II holoenzyme component SRB7 (MED21) › Med10 0.90 82.0 5.91e-01 100.0% 39.3%
3172138 3846.1.1.0 alpha bundles › IcmR › IcmR › IcmR 0.90 78.0 7.17e-01 100.0% 73.8%
3175197 192.29.1.0 alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.89 81.0 5.88e-01 100.0% 39.2%
5057198 1073.1.1.0 alpha arrays › Mitochondrial calcium uniporter (MCU) › Mitochondrial calcium uniporter (MCU) › Mitochondrial calcium uniporter (MCU) 0.89 81.0 5.87e-01 100.0% 39.2%
2055367 650.1.1.3 alpha bundles › Chaperone J-domain › Chaperone J-domain › Chaperone J-domain › HsbA 0.89 80.0 7.18e-01 100.0% 72.9%
4203104 3560.1.1.7 a+b complex topology › Mediator of RNA polymerase II transcription subunit 8 › Mediator of RNA polymerase II transcription subunit 8 › Mediator of RNA polymerase II transcription subunit 8 › Med10 0.88 80.0 5.65e-01 100.0% 35.2%
3410365 2004.1.1.184 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_11 0.88 79.0 4.61e-01 100.0% 13.4%
3594129 4177.1.1.0 alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like 0.88 79.0 5.11e-01 100.0% 23.7%
3445040 3826.1.1.53 alpha bundles › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › Rx_N 0.87 78.0 6.54e-01 100.0% 61.2%
5026453 4323.1.1.0 alpha bundles › helical bundle domain in vacuolar ATP synthase subunit C › helical bundle domain in vacuolar ATP synthase subunit C › helical bundle domain in vacuolar ATP synthase subunit C 0.87 80.0 5.66e-01 100.0% 36.4%
4089826 622.1.1.33 alpha bundles › YvfG-like › HSC20 (HSCB), C-terminal oligomerisation domain › HSC20 (HSCB), C-terminal oligomerisation domain › T3SS_needle_F 0.87 78.0 6.55e-01 100.0% 61.2%
4940229 2004.1.1.87 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SMC_N 0.85 78.0 4.56e-01 100.0% 13.8%
3718969 148.1.3.0 alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.85 72.0 4.90e-01 94.1% 27.4%
4030051 2004.1.1.480 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SMC_N, AAA_21, AAA_29 0.84 75.0 4.39e-01 100.0% 13.1%
3215346 397.7.1.0 few secondary structure elements › Toxic hairpin › Ribosome-inactivating protein luffin P1 › Ribosome-inactivating protein luffin P1 0.84 68.0 6.95e-01 88.2% 90.0%
3199446 601.1.1.0 alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin 0.84 74.0 5.92e-01 100.0% 51.0%
3492613 3846.1.1.0 alpha bundles › IcmR › IcmR › IcmR 0.83 65.0 6.84e-01 86.3% 95.6%
3226467 174.1.1.0 few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain 0.81 73.0 5.29e-01 100.0% 37.8%
4649114 3559.1.1.1 a+b complex topology › Mediator of RNA polymerase II transcription subunit 22 › Mediator of RNA polymerase II transcription subunit 22 › Mediator of RNA polymerase II transcription subunit 22 › Med22 0.81 70.0 5.68e-01 100.0% 71.0%
3281127 150.5.1.0 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › ESAT-6 like › ESAT-6 like 0.80 71.0 5.89e-01 100.0% 58.9%
3972992 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 0.73 63.0 5.89e-01 100.0% 83.1%
3746549 3755.3.1.0 alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.73 62.0 4.74e-01 100.0% 92.0%
3858340 632.22.1.0 alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats 0.65 54.0 4.07e-01 100.0% 36.4%