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NC_016562.1__YP_004956953.1__CaPhCPX_gp087__00087

Bact-Vir

NC_016562.1__YP_004956953.1__CaPhCPX_gp087__00087

Identity

Accession:
NC_016562 ↗
Kingdom:
phage

Quality

77.8 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 16-77
PDB
Domain cluster: representative
CATH (57)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4dmvA01 1.20.58.1190 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.89 66.0 5.85e-01 100.0% 56.5%
2q1kA00 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 0.87 64.0 6.96e-01 100.0% 92.3%
1z0jB00 4.10.860.20 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › Rabenosyn, Rab binding domain 0.87 65.0 7.12e-01 96.8% 96.1%
1l8dA00 1.10.287.510 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.84 77.0 6.43e-01 100.0% 64.1%
1y1uA01 1.20.1050.20 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › STAT transcription factor, all-alpha domain 0.84 66.0 4.53e-01 100.0% 26.7%
4lwsA00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.82 71.0 5.93e-01 91.9% 94.0%
1lrzA03 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.82 73.0 7.33e-01 100.0% 95.2%
2rkhA02 1.20.1280.20 Mainly Alpha › Up-down Bundle › Monooxygenase › HscB, C-terminal domain 0.81 72.0 6.61e-01 93.5% 76.3%
4nsmA00 6.10.250.2770 Special › Helix non-globular › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.81 64.0 6.17e-01 100.0% 74.6%
2cazD00 6.10.140.820 Special › Helix non-globular › Helix Hairpins › 0.81 71.0 7.23e-01 100.0% 100.0%
1vq8V00 1.10.287.310 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.80 67.0 6.60e-01 95.2% 84.6%
4iloA00 1.10.287.1490 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.80 74.0 4.84e-01 100.0% 26.3%
4l0rB00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.80 74.0 6.94e-01 100.0% 84.9%
3na7A00 1.10.287.1490 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.79 72.0 4.75e-01 100.0% 26.2%
3rq9A00 1.10.287.2500 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.79 70.0 6.47e-01 98.4% 76.9%
4ke2A00 6.10.140.1860 Special › Helix non-globular › Helix Hairpins › 0.79 64.0 4.46e-01 98.4% 28.1%
1yq1A02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.78 62.0 5.05e-01 100.0% 47.3%
2bdeA03 1.20.58.1160 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.78 66.0 6.17e-01 100.0% 75.3%
4w4kA00 1.10.287.850 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HP0062-like domain 0.77 71.0 6.39e-01 100.0% 91.5%
1fs0G02 1.10.287.80 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ATP synthase, gamma subunit, helix hairpin domain 0.77 70.0 6.14e-01 100.0% 84.3%
1vx7301 1.10.287.310 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.77 63.0 5.90e-01 87.1% 85.1%
6tkvA01 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.77 67.0 6.48e-01 95.2% 97.1%
1ucuA01 6.10.280.190 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.76 66.0 6.47e-01 100.0% 88.2%
1nt2B02 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.76 63.0 6.23e-01 98.4% 86.6%
2bduA02 1.10.150.340 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Pyrimidine 5'-nucleotidase (UMPH-1), N-terminal domain 0.75 57.0 5.36e-01 91.9% 67.6%
1sg2A00 3.30.910.20 Alpha Beta › 2-Layer Sandwich › Protein Binding, DinI Protein; Chain A › Skp domain 0.75 68.0 5.13e-01 100.0% 45.4%
6gy8A01 1.20.1170.10 Mainly Alpha › Up-down Bundle › Hemolysin E; Chain: A; › 0.75 67.0 4.16e-01 100.0% 18.7%
4o6yB00 1.20.120.1770 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.74 64.0 4.39e-01 96.8% 41.7%
1b3qA01 1.10.287.560 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Histidine kinase CheA-like, homodimeric domain 0.73 60.0 6.01e-01 90.3% 88.7%
2oduA02 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.73 66.0 5.52e-01 100.0% 59.0%
1u5eA01 6.10.250.220 Special › Helix non-globular › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.73 58.0 6.16e-01 88.7% 100.0%
2btqB03 1.10.287.600 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.73 57.0 6.04e-01 91.9% 100.0%
4dciA00 6.10.140.1110 Special › Helix non-globular › Helix Hairpins › 0.72 65.0 4.90e-01 100.0% 44.9%
4nv0A02 1.10.150.340 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Pyrimidine 5'-nucleotidase (UMPH-1), N-terminal domain 0.72 52.0 4.83e-01 91.9% 59.8%
4m52A01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.72 52.0 3.48e-01 75.8% 27.0%
3bt5A00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.72 62.0 4.66e-01 96.8% 39.7%
4h63H01 1.20.58.1710 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.71 60.0 5.78e-01 100.0% 83.3%
3nymA00 6.10.290.10 Special › Helix non-globular › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.70 62.0 4.94e-01 100.0% 83.9%
2az0B00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.69 62.0 5.97e-01 100.0% 91.5%
2xubA05 6.10.140.1450 Special › Helix non-globular › Helix Hairpins › 0.69 60.0 5.24e-01 100.0% 96.9%
1b04A03 1.10.287.610 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.68 51.0 5.16e-01 87.1% 82.3%
8fbnB01 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.67 57.0 3.99e-01 100.0% 47.3%
2xzmO02 1.10.287.10 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › S15/NS1, RNA-binding 0.67 51.0 4.97e-01 96.8% 75.7%
2dw4A03 1.10.287.80 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ATP synthase, gamma subunit, helix hairpin domain 0.67 57.0 4.96e-01 100.0% 62.4%
4b6xA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.66 56.0 5.44e-01 98.4% 88.4%
1wleA01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.65 55.0 4.60e-01 98.4% 57.0%
1h7cA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.65 56.0 4.81e-01 100.0% 66.0%
3lphC00 6.10.140.630 Special › Helix non-globular › Helix Hairpins › 0.64 53.0 5.44e-01 91.9% 98.3%
1grjA01 1.10.287.180 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Transcription elongation factor, GreA/GreB, N-terminal domain 0.64 53.0 5.12e-01 98.4% 83.8%
2w02B01 1.10.150.640 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › AcsD, thumb domain, helical bundle 0.64 52.0 4.95e-01 90.3% 90.5%
3txsC01 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.63 54.0 5.12e-01 100.0% 86.7%
4a17U01 1.10.287.310 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.62 51.0 4.86e-01 96.8% 77.9%
8ctsB01 1.10.287.70 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.62 52.0 4.74e-01 98.4% 88.5%
4bf9A02 1.20.225.30 Mainly Alpha › Up-down Bundle › Bacteriocin As-48; Chain A › Dihydrouridine synthase, C-terminal recognition domain 0.57 44.0 4.26e-01 87.1% 100.0%
5cmyA00 1.25.40.90 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.55 48.0 3.71e-01 100.0% 64.8%
2fzlA02 6.10.140.1180 Special › Helix non-globular › Helix Hairpins › 0.53 44.0 4.48e-01 95.2% 98.4%
2j3tD01 3.30.450.70 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.51 40.0 3.20e-01 88.7% 73.9%
ECOD (42)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
1506147 3812.1.1.1 alpha bundles › Type III secretion protein YscE › Type III secretion protein YscE › Type III secretion protein YscE › T3SS_needle_E 0.87 64.0 6.96e-01 100.0% 92.3%
3973453 192.8.1.0 alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain 0.85 70.0 6.38e-01 100.0% 68.8%
4028619 192.10.1.0 alpha bundles › Long alpha-hairpin › DnaK suppressor protein DksA, alpha-hairpin domain › DnaK suppressor protein DksA, alpha-hairpin domain 0.85 75.0 6.36e-01 93.5% 68.4%
3497934 4177.1.1.0 alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like 0.83 78.0 5.01e-01 100.0% 60.8%
3976663 3812.1.1.1 alpha bundles › Type III secretion protein YscE › Type III secretion protein YscE › Type III secretion protein YscE › T3SS_needle_E 0.83 73.0 7.23e-01 93.5% 89.2%
3560750 192.17.1.0 alpha bundles › Long alpha-hairpin › Rabenosyn-5 Rab-binding domain-like › Rabenosyn-5 Rab-binding domain-like 0.83 63.0 6.11e-01 100.0% 72.9%
3220596 3755.3.1.0 alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.83 77.0 6.13e-01 100.0% 80.9%
3483032 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 0.82 76.0 5.98e-01 100.0% 59.2%
3401938 3602.1.1.14 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 › DUF733 0.82 71.0 6.68e-01 100.0% 78.7%
3216709 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 0.82 66.0 5.83e-01 100.0% 61.1%
3397165 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.82 70.0 7.20e-01 91.9% 100.0%
3736924 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 0.81 73.0 5.53e-01 100.0% 91.4%
3635408 3755.3.1.0 alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.81 73.0 5.51e-01 100.0% 44.3%
3404638 603.1.1.3 alpha bundles › STAT-like › t-snare proteins › t-snare proteins › V-SNARE 0.80 74.0 6.21e-01 100.0% 62.0%
5048590 192.7.1.2 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.80 75.0 6.04e-01 100.0% 58.2%
4951492 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 0.80 73.0 7.16e-01 98.4% 92.3%
3566072 386.1.1.0 few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.80 70.0 6.76e-01 95.2% 98.6%
197440 5055.1.1.2 extended segments › Small-conductance potassium channel › Small-conductance potassium channel › Small-conductance potassium channel › DIP0205-like_N 0.79 72.0 6.83e-01 98.4% 84.7%
4965632 192.7.1.85 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › DUF4349 0.79 73.0 7.22e-01 100.0% 95.4%
3550436 192.7.1.0 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm 0.79 72.0 5.95e-01 98.4% 72.1%
3730125 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 0.79 73.0 5.26e-01 100.0% 40.0%
4955780 3939.1.1.387 alpha duplicates or obligate multimers › XRCC4 C-terminal oligomerization domain › XRCC4 C-terminal oligomerization domain › XRCC4 C-terminal oligomerization domain › DUF4349 0.79 72.0 7.15e-01 100.0% 95.4%
2814929 150.1.1.14 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin › EncFtn-like 0.78 70.0 6.77e-01 96.8% 88.2%
3249830 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 0.78 67.0 5.31e-01 100.0% 47.2%
3221921 3939.1.1.0 alpha duplicates or obligate multimers › XRCC4 C-terminal oligomerization domain › XRCC4 C-terminal oligomerization domain › XRCC4 C-terminal oligomerization domain 0.78 69.0 5.92e-01 100.0% 62.0%
3408034 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.78 69.0 4.35e-01 95.2% 21.1%
1506772 3812.1.1.1 alpha bundles › Type III secretion protein YscE › Type III secretion protein YscE › Type III secretion protein YscE › T3SS_needle_E 0.78 67.0 6.42e-01 95.2% 81.4%
3632143 3755.3.1.0 alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.76 69.0 5.06e-01 100.0% 49.0%
3447449 630.1.1.1 a+b complex topology › RuBisCo LSMT C-terminal, substrate-binding domain › RuBisCo LSMT C-terminal, substrate-binding domain › RuBisCo LSMT C-terminal, substrate-binding domain › Rubis-subs-bind 0.75 68.0 4.98e-01 100.0% 41.2%
3197548 3755.2.1.0 alpha bundles › YscO-like › Flagellar FliJ protein › Flagellar FliJ protein 0.74 66.0 4.94e-01 100.0% 42.7%
3992452 150.5.1.74 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › ESAT-6 like › ESAT-6 like › CUX1_N 0.73 63.0 5.87e-01 100.0% 88.7%
4016831 650.1.1.0 alpha bundles › Chaperone J-domain › Chaperone J-domain › Chaperone J-domain 0.72 65.0 5.51e-01 100.0% 78.0%
3621723 5069.1.3.0 alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Fumarate reductase respiratory complex transmembrane subunits 0.71 64.0 4.23e-01 100.0% 26.0%
3450050 7581.1.1.25 a/b three-layered sandwiches › Thiolase-like › Thiolase-like › Thiolase-like › FAE1_CUT1_RppA, ACP_syn_III_C 0.70 61.0 3.64e-01 98.4% 45.2%
4361 605.7.1.1 alpha duplicates or obligate multimers › ROP-like › FHV B2 protein-like › FHV B2 protein-like › B2 0.70 62.0 5.98e-01 100.0% 92.9%
3989094 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 0.70 59.0 5.74e-01 96.8% 88.6%
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 0.68 56.0 5.23e-01 100.0% 73.8%
3569799 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 0.67 55.0 5.11e-01 96.8% 72.5%
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 0.66 55.0 5.26e-01 100.0% 78.7%
4344493 7566.1.1.1 a/b three-layered sandwiches › HflX family GTPase N-terminal domain › HflX family GTPase N-terminal domain › HflX family GTPase N-terminal domain › GTP-bdg_N,GTP-bdg_M 0.65 54.0 4.02e-01 100.0% 38.4%
3408675 3922.1.1.132 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 › Enkurin 0.64 54.0 4.62e-01 98.4% 58.1%
4979784 2006.1.1.0 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like 0.63 56.0 3.80e-01 100.0% 86.1%