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NC_071013.1__YP_010676572.1__PQD69_gp106__00106

Bact-Vir

NC_071013.1__YP_010676572.1__PQD69_gp106__00106

Identity

Accession:
NC_071013 ↗
Kingdom:
phage

Quality

72.9 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Carnodivirus› Carnobacterium_phage_cd4

TaxID: 2849246

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 4-56
PDB
Domain cluster: representative
CATH (51)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1yzmA00 4.10.860.20 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › Rabenosyn, Rab binding domain 0.90 65.0 6.93e-01 83.0% 87.0%
1z0jB00 4.10.860.20 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › Rabenosyn, Rab binding domain 0.90 68.0 6.92e-01 100.0% 82.4%
1cxzB00 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.88 72.0 5.97e-01 96.2% 53.5%
2ip6A00 1.20.1440.140 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 0.86 67.0 5.60e-01 86.8% 50.6%
2cazC00 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.86 76.0 7.11e-01 96.2% 92.2%
4u1cA01 4.10.860.10 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › UVR domain 0.86 68.0 6.89e-01 92.5% 86.5%
4b6xA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.86 69.0 6.28e-01 94.3% 66.7%
1nt2B02 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.86 73.0 6.65e-01 98.1% 71.6%
1r0dA00 1.20.1410.10 Mainly Alpha › Up-down Bundle › I/LWEQ domain › I/LWEQ domain 0.86 76.0 5.02e-01 96.2% 26.9%
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 0.85 67.0 6.94e-01 88.7% 91.8%
4gczA03 1.10.287.130 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Signal transduction histidine kinase, dimerisation/phosphotransfer (DHp) domain 0.85 74.0 6.88e-01 98.1% 78.5%
4hkaA01 1.20.58.480 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.85 74.0 4.54e-01 96.2% 24.5%
1skvA00 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.83 67.0 6.27e-01 98.1% 71.9%
2yb5F01 1.20.1280.250 Mainly Alpha › Up-down Bundle › Monooxygenase › 0.83 69.0 5.81e-01 90.6% 59.3%
2qqyA00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.83 76.0 5.46e-01 100.0% 76.1%
4h63H01 1.20.58.1710 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.82 69.0 6.23e-01 92.5% 68.1%
1vx7301 1.10.287.310 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.81 69.0 6.14e-01 100.0% 66.2%
3fppA03 6.10.140.1990 Special › Helix non-globular › Helix Hairpins › 0.81 67.0 5.64e-01 92.5% 56.8%
4cybD00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.80 69.0 4.86e-01 100.0% 68.4%
1z5zA02 1.20.120.850 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › SWI2/SNF2 ATPases, N-terminal domain 0.80 61.0 5.39e-01 83.0% 57.9%
3gnlB02 1.10.287.1890 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.79 70.0 6.48e-01 100.0% 83.8%
1m5iA00 1.10.287.450 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.78 63.0 5.14e-01 92.5% 50.5%
4e6nA02 6.10.140.1010 Special › Helix non-globular › Helix Hairpins › 0.78 63.0 5.95e-01 92.5% 93.9%
1ni3A03 1.10.150.300 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Obg-related GTPase Ych/YyaF, coiled-coil domain 0.78 61.0 5.18e-01 88.7% 68.1%
4gltA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.78 66.0 5.16e-01 96.2% 45.6%
2hjmA01 1.20.120.460 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › protein pf1176 like 0.77 61.0 5.20e-01 86.8% 58.1%
4e4eA01 1.10.287.990 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Fe,Mn superoxide dismutase (SOD) domain 0.77 61.0 5.59e-01 94.3% 66.2%
1st6A03 1.20.120.810 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Vinculin, Vh2 four-helix bundle 0.77 66.0 4.35e-01 100.0% 29.7%
4fvmA06 1.10.287.690 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › B family DNA polymerase, finger domain 0.77 60.0 6.19e-01 88.7% 100.0%
3fxdB00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.76 62.0 6.11e-01 98.1% 86.2%
2b1eA01 1.20.58.1150 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.76 66.0 5.59e-01 100.0% 59.3%
1wrdA00 1.20.58.160 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.76 62.0 5.15e-01 92.5% 54.1%
2l35A00 1.10.287.770 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › YojJ-like 0.76 62.0 5.94e-01 94.3% 84.1%
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 0.74 54.0 5.61e-01 86.8% 89.6%
2mpkA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.74 63.0 5.70e-01 100.0% 73.0%
1lrzA03 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.73 56.0 5.44e-01 92.5% 75.8%
2j5iA02 6.10.250.2850 Special › Helix non-globular › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.73 48.0 5.48e-01 71.7% 97.4%
5wp3B00 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.71 59.0 4.91e-01 100.0% 68.6%
4hb1A00 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 0.70 52.0 5.46e-01 83.0% 100.0%
2wzkA01 1.20.1310.10 Mainly Alpha › Up-down Bundle › 5 helical Cullin repeat like › Cullin Repeats 0.69 60.0 4.60e-01 100.0% 65.4%
1b04A03 1.10.287.610 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.69 52.0 5.05e-01 90.6% 74.2%
2qtfA02 6.10.250.2860 Special › Helix non-globular › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.69 50.0 5.14e-01 81.1% 93.6%
2kxpA01 3.30.1140.60 Alpha Beta › 2-Layer Sandwich › Ribosomal protein S3 C-terminal domain › F-actin capping protein, alpha subunit 0.68 43.0 3.40e-01 96.2% 31.8%
1zhcA00 6.10.280.50 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.67 52.0 4.74e-01 90.6% 61.8%
2o57A01 1.10.287.840 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Mycolic acid cyclopropane synthase domain like 0.67 49.0 4.10e-01 86.8% 42.9%
4iggA01 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.66 54.0 5.11e-01 98.1% 79.1%
2ic6A00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.66 55.0 5.10e-01 98.1% 81.7%
1ydxA02 1.10.287.1120 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Bipartite methylase S protein 0.65 54.0 4.62e-01 98.1% 58.9%
3besR03 6.10.140.1480 Special › Helix non-globular › Helix Hairpins › 0.64 47.0 4.70e-01 81.1% 76.8%
3uj9A00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.64 51.0 3.43e-01 100.0% 37.2%
5mmjb02 1.10.287.610 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.58 44.0 4.42e-01 86.8% 90.4%
ECOD (38)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4024281 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 0.93 82.0 8.16e-01 94.3% 90.9%
3486248 6132.1.1.0 ↗ alpha bundles › Nudix hydrolase N-terminal dimerization domain › Nudix hydrolase N-terminal dimerization domain › Nudix hydrolase N-terminal dimerization domain 0.93 73.0 6.72e-01 83.0% 67.7%
3242499 109.3.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat 0.92 85.0 5.44e-01 100.0% 34.5%
3626992 632.8.1.2 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › alpha-2-Macroglobulin receptor associated protein (RAP) domain 1 › alpha-2-Macroglobulin receptor associated protein (RAP) domain 1 › Alpha-2-MRAP_C 0.92 79.0 6.13e-01 92.5% 46.7%
3482224 192.10.1.0 ↗ alpha bundles › Long alpha-hairpin › DnaK suppressor protein DksA, alpha-hairpin domain › DnaK suppressor protein DksA, alpha-hairpin domain 0.92 72.0 6.64e-01 83.0% 67.7%
3973453 192.8.1.0 ↗ alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain 0.91 81.0 6.88e-01 94.3% 62.5%
3225902 174.1.1.0 ↗ few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain 0.91 85.0 5.81e-01 100.0% 48.1%
3390898 192.1.1.0 ↗ alpha bundles › Long alpha-hairpin › GreA transcript cleavage protein, N-terminal domain › GreA transcript cleavage protein, N-terminal domain 0.89 78.0 6.16e-01 94.3% 50.0%
4945931 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.89 78.0 7.00e-01 94.3% 81.4%
3575794 632.8.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › alpha-2-Macroglobulin receptor associated protein (RAP) domain 1 › alpha-2-Macroglobulin receptor associated protein (RAP) domain 1 0.89 79.0 5.84e-01 96.2% 41.6%
3240235 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 0.89 81.0 6.12e-01 98.1% 45.2%
4171351 1.1.5.44 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › SecDF_P1_head 0.89 75.0 5.18e-01 92.5% 29.7%
3480452 7515.1.1.0 ↗ a/b three-layered sandwiches › Alkaline phosphatase-like › Alkaline phosphatase-like › Alkaline phosphatase-like 0.89 80.0 4.70e-01 98.1% 77.9%
5026881 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.88 77.0 6.75e-01 94.3% 76.0%
5048408 605.1.1.1 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA 0.88 62.0 6.11e-01 94.3% 70.9%
3285270 150.5.1.1 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › ESAT-6 like › ESAT-6 like › WXG100 0.87 76.0 6.44e-01 96.2% 61.2%
5008545 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 0.87 78.0 7.22e-01 98.1% 84.6%
4024277 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.86 78.0 6.83e-01 98.1% 78.7%
154974 150.5.1.1 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › ESAT-6 like › ESAT-6 like › WXG100 0.86 76.0 6.69e-01 98.1% 67.5%
3923922 604.12.1.0 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.85 69.0 6.05e-01 86.8% 68.0%
3609224 3602.1.1.3 ↗ 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 › Enkurin 0.85 78.0 6.62e-01 98.1% 66.3%
3506243 3602.1.1.3 ↗ 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 › Enkurin 0.84 77.0 6.76e-01 98.1% 70.7%
4029042 3939.1.1.0 ↗ alpha duplicates or obligate multimers › XRCC4 C-terminal oligomerization domain › XRCC4 C-terminal oligomerization domain › XRCC4 C-terminal oligomerization domain 0.84 73.0 4.70e-01 94.3% 22.7%
3713877 605.1.1.136 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › Enkurin 0.84 77.0 6.13e-01 98.1% 54.1%
3234964 604.7.1.1 ↗ alpha bundles › Spectrin repeat-like › Tubulin chaperone cofactor A › Tubulin chaperone cofactor A › TBCA 0.84 71.0 5.56e-01 94.3% 45.5%
2464378 192.27.1.1 ↗ alpha bundles › Long alpha-hairpin › Helical hairpin in putative tRNA methyltransferase › Helical hairpin in putative tRNA methyltransferase › TrmK 0.83 75.0 6.83e-01 100.0% 80.0%
3994015 604.32.1.0 ↗ alpha bundles › Spectrin repeat-like › Recombination protein uvsY › Recombination protein uvsY 0.83 71.0 5.36e-01 98.1% 41.7%
3598041 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 0.83 75.0 5.87e-01 98.1% 50.5%
4261674 4246.1.1.2 ↗ a+b complex topology › N-terminal domain in RNA-polymerase beta-prime subunit › N-terminal domain in RNA-polymerase beta-prime subunit › N-terminal domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_1 0.83 74.0 4.50e-01 100.0% 17.3%
3315495 192.8.1.0 ↗ alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain 0.81 69.0 5.88e-01 94.3% 62.4%
3927737 632.8.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › alpha-2-Macroglobulin receptor associated protein (RAP) domain 1 › alpha-2-Macroglobulin receptor associated protein (RAP) domain 1 0.80 67.0 5.53e-01 94.3% 52.6%
1203190 192.3.1.1 ↗ alpha bundles › Long alpha-hairpin › Fe,Mn superoxide dismutase (SOD), N-terminal domain › Fe,Mn superoxide dismutase (SOD), N-terminal domain › Sod_Fe_N 0.77 62.0 5.13e-01 94.3% 50.5%
3390920 103.4.1.0 ↗ alpha arrays › RuvA-C › Elongation factor TFIIS domain 2/ Kix domain of creb binding protein › Elongation factor TFIIS domain 2/ Kix domain of creb binding protein 0.77 62.0 5.02e-01 92.5% 48.4%
3699098 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.76 61.0 5.41e-01 92.5% 80.0%
4978586 604.9.1.0 ↗ alpha bundles › Spectrin repeat-like › Ribosomal protein S20 › Ribosomal protein S20 0.76 63.0 4.99e-01 92.5% 46.4%
4406698 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.76 60.0 5.09e-01 92.5% 82.1%
1556809 604.12.1.1 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › MIT 0.74 63.0 5.83e-01 100.0% 78.3%
3244309 5054.1.1.0 ↗ alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels 0.71 60.0 3.94e-01 98.1% 22.0%