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SR-VP_4-6_scaffold_141_2630357_prodigal-single.1__X__X__00488

Bact-Vir

SR-VP_4-6_scaffold_141_2630357_prodigal-single.1__X__X__00488

Identity

Kingdom:
phage

Quality

89.1 mean pLDDT

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 28-99
PDB
Domain cluster: representative
CATH (46)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1z0jB00 4.10.860.20 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › Rabenosyn, Rab binding domain 0.91 61.0 7.28e-01 75.0% 98.0%
3na7A00 1.10.287.1490 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.88 62.0 4.19e-01 73.6% 37.6%
1vmgA00 1.10.287.1080 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › MazG-like 0.87 73.0 6.93e-01 91.7% 78.0%
6bl6B01 1.20.1560.10 Mainly Alpha › Up-down Bundle › ABC transporter transmembrane region fold › ABC transporter type 1, transmembrane domain 0.87 60.0 3.82e-01 72.2% 23.1%
1lrzA03 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.86 61.0 6.57e-01 73.6% 91.9%
4hteA01 1.20.58.1730 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.85 61.0 4.76e-01 75.0% 44.1%
4l0rB00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.84 61.0 6.09e-01 75.0% 84.9%
2ic6A00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.84 59.0 6.03e-01 73.6% 98.6%
3txsC01 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.83 59.0 5.83e-01 73.6% 76.0%
4ijjB00 1.20.120.910 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › DksA, coiled-coil domain 0.83 60.0 4.82e-01 75.0% 44.6%
2cazD00 6.10.140.820 Special › Helix non-globular › Helix Hairpins › 0.83 60.0 6.46e-01 75.0% 96.7%
4nqiD00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.83 58.0 3.99e-01 73.6% 31.0%
3qo8A01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.81 57.0 5.00e-01 73.6% 56.6%
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 0.81 55.0 3.78e-01 73.6% 22.1%
4h63H01 1.20.58.1710 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.81 57.0 5.77e-01 73.6% 73.6%
2cazC00 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.80 52.0 5.55e-01 75.0% 75.0%
2e9xA01 1.20.58.1030 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.80 58.0 4.76e-01 76.4% 59.4%
2gtsA00 1.10.287.850 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HP0062-like domain 0.80 56.0 5.54e-01 73.6% 74.0%
1ydxA02 1.10.287.1120 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Bipartite methylase S protein 0.78 57.0 5.25e-01 76.4% 70.0%
3b2eF00 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.77 53.0 5.66e-01 73.6% 82.3%
1qvrC04 6.10.140.130 Special › Helix non-globular › Helix Hairpins › 0.77 54.0 4.58e-01 73.6% 46.0%
2ch7A00 1.10.287.950 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Methyl-accepting chemotaxis protein 0.77 55.0 3.57e-01 75.0% 71.5%
2e5yA02 1.20.5.440 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › ATP synthase delta/epsilon subunit, C-terminal domain 0.77 47.0 5.63e-01 72.2% 97.8%
1nt2B02 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.77 54.0 5.57e-01 73.6% 86.6%
3zgxA02 6.10.140.1720 Special › Helix non-globular › Helix Hairpins › 0.77 55.0 5.06e-01 75.0% 72.5%
1jkvA01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.76 58.0 4.14e-01 80.6% 78.2%
2js5A00 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.76 62.0 6.28e-01 88.9% 100.0%
2yxhA00 1.10.287.1080 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › MazG-like 0.75 66.0 5.73e-01 100.0% 63.7%
2qywA00 1.20.58.400 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › t-snare proteins 0.75 52.0 4.78e-01 73.6% 57.9%
1k04A02 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.74 53.0 4.72e-01 75.0% 57.7%
1m5iA00 1.10.287.450 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.74 52.0 4.58e-01 73.6% 92.4%
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 52.0 5.23e-01 75.0% 83.8%
3owaB04 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.74 59.0 4.59e-01 87.5% 51.6%
4wzxA01 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.73 52.0 5.15e-01 75.0% 76.0%
4adnA01 1.20.1280.250 Mainly Alpha › Up-down Bundle › Monooxygenase › 0.72 51.0 4.85e-01 86.1% 62.4%
3dytA02 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.72 51.0 3.78e-01 75.0% 28.9%
2r9iA00 1.10.287.80 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ATP synthase, gamma subunit, helix hairpin domain 0.72 51.0 5.19e-01 75.0% 77.5%
1zhcA00 6.10.280.50 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.70 48.0 4.74e-01 70.8% 73.7%
4b6xA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.70 49.0 4.97e-01 73.6% 81.2%
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 0.70 45.0 5.16e-01 72.2% 100.0%
1zoyD00 1.20.1300.10 Mainly Alpha › Up-down Bundle › 3 helical TM bundles of succinate and fumarate reductases › Fumarate reductase/succinate dehydrogenase, transmembrane subunit 0.70 49.0 4.36e-01 73.6% 53.9%
1wrdA00 1.20.58.160 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.70 50.0 4.54e-01 76.4% 70.4%
2xzmO02 1.10.287.10 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › S15/NS1, RNA-binding 0.69 51.0 5.23e-01 77.8% 82.9%
1ni3A03 1.10.150.300 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Obg-related GTPase Ych/YyaF, coiled-coil domain 0.67 47.0 4.38e-01 73.6% 59.3%
2hw5A02 1.10.12.10 Mainly Alpha › Orthogonal Bundle › Lyase 2-enoyl-coa Hydratase; Chain A, domain 2 › Lyase 2-enoyl-coa Hydratase, Chain A, domain 2 0.66 44.0 4.76e-01 76.4% 87.7%
1fp1D02 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.58 50.0 3.53e-01 97.2% 87.2%
ECOD (55)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
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 0.90 66.0 6.73e-01 76.4% 82.9%
4017285 3755.3.1.0 alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.88 63.0 4.46e-01 73.6% 32.1%
5051494 109.4.1.5 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_1 0.88 68.0 4.42e-01 80.6% 33.5%
197440 5055.1.1.2 extended segments › Small-conductance potassium channel › Small-conductance potassium channel › Small-conductance potassium channel › DIP0205-like_N 0.87 61.0 6.18e-01 73.6% 83.3%
3973453 192.8.1.0 alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain 0.86 61.0 5.90e-01 73.6% 83.7%
3469701 3755.1.1.0 alpha bundles › YscO-like › Putative type III secretion protein YscO-related › Putative type III secretion protein YscO-related 0.86 61.0 4.16e-01 73.6% 26.8%
5052538 632.22.1.0 alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats 0.86 60.0 5.77e-01 72.2% 65.0%
3234964 604.7.1.1 alpha bundles › Spectrin repeat-like › Tubulin chaperone cofactor A › Tubulin chaperone cofactor A › TBCA 0.86 61.0 5.16e-01 73.6% 49.1%
4991399 603.1.1.0 alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.86 61.0 5.80e-01 75.0% 76.5%
3739286 4177.1.1.0 alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like 0.86 62.0 4.18e-01 75.0% 23.9%
224058 3630.1.1.1 alpha bundles › Nicking enzyme middle helical domain › Nicking enzyme middle helical domain › Nicking enzyme middle helical domain › NES_C_h 0.85 61.0 5.14e-01 75.0% 55.3%
3619435 192.8.1.36 alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain › M_domain 0.85 60.0 5.40e-01 73.6% 70.5%
3684015 192.29.1.0 alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.85 60.0 5.29e-01 73.6% 80.0%
3894567 603.2.1.0 alpha bundles › STAT-like › STAT › STAT 0.84 59.0 4.25e-01 73.6% 28.4%
4163282 3755.3.1.0 alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.83 60.0 4.33e-01 75.0% 33.5%
4062183 192.2.1.1 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.83 60.0 5.95e-01 75.0% 82.7%
4942548 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.83 59.0 4.53e-01 73.6% 36.7%
3788782 2004.1.1.199 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_23,SbcC_Walker_B 0.83 60.0 3.51e-01 75.0% 12.0%
3712648 3755.4.1.0 alpha bundles › YscO-like › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain 0.82 59.0 4.25e-01 75.0% 32.6%
3520009 192.2.1.0 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.82 59.0 5.71e-01 75.0% 77.5%
4214119 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 58.0 3.79e-01 73.6% 20.0%
4024277 192.2.1.0 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.81 58.0 5.80e-01 75.0% 82.7%
3836427 192.2.1.0 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.81 57.0 5.09e-01 73.6% 61.0%
4939828 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 0.81 56.0 3.55e-01 72.2% 46.6%
3416168 4177.1.1.4 alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like › IMD 0.81 57.0 3.97e-01 73.6% 24.1%
5026881 192.2.1.0 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.81 58.0 5.76e-01 75.0% 82.7%
3737505 192.2.1.0 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.80 58.0 5.72e-01 75.0% 82.7%
4038742 150.5.1.53 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › ESAT-6 like › ESAT-6 like › PPE 0.80 56.0 5.10e-01 73.6% 56.8%
3884327 192.15.1.0 alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains 0.80 57.0 5.28e-01 75.0% 60.0%
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 0.80 57.0 4.98e-01 75.0% 52.4%
4950292 150.5.1.126 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › ESAT-6 like › ESAT-6 like › HisKA 0.79 56.0 5.39e-01 75.0% 67.5%
3414399 5086.1.1.106 alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › DUF725 0.79 55.0 4.10e-01 72.2% 37.1%
5050139 192.2.1.0 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.79 56.0 5.60e-01 75.0% 82.7%
3487203 192.2.1.0 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.78 56.0 5.31e-01 75.0% 72.9%
3271912 5033.1.1.0 extended segments › Photosystem II reaction center protein M, PsbM › Photosystem II reaction center protein M, PsbM › Photosystem II reaction center protein M, PsbM 0.78 56.0 5.07e-01 75.0% 57.9%
3849009 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 65.0 4.37e-01 90.3% 88.8%
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 0.78 56.0 5.86e-01 83.3% 83.1%
3229095 632.22.1.0 alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats 0.77 55.0 4.93e-01 75.0% 59.0%
3672521 603.1.1.0 alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.77 62.0 4.81e-01 87.5% 83.2%
4850609 109.4.1.258 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Tra1_central 0.76 49.0 3.19e-01 75.0% 14.9%
3474600 4207.1.2.48 alpha duplicates or obligate multimers › Mediator hinge subcomplex-like › Mediator hinge subcomplex-like › MED7 hinge region › Med14 0.75 52.0 4.71e-01 73.6% 56.0%
3482224 192.10.1.0 alpha bundles › Long alpha-hairpin › DnaK suppressor protein DksA, alpha-hairpin domain › DnaK suppressor protein DksA, alpha-hairpin domain 0.75 53.0 5.55e-01 83.3% 81.5%
3628140 3826.1.1.43 alpha bundles › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › Med14 0.75 52.0 4.54e-01 73.6% 50.9%
5033256 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 0.75 52.0 3.97e-01 73.6% 97.6%
3820045 603.1.1.118 alpha bundles › STAT-like › t-snare proteins › t-snare proteins › DUF7610 0.74 50.0 4.73e-01 73.6% 58.8%
4487059 601.4.1.0 alpha bundles › Four-helical up-and-down bundle › Histidine kinase associated sensor domains › Histidine kinase associated sensor domains 0.74 53.0 4.37e-01 76.4% 49.2%
4003222 192.8.1.0 alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain 0.72 51.0 4.52e-01 73.6% 54.0%
4956566 192.2.1.0 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.71 50.0 4.76e-01 73.6% 97.6%
3453710 3826.1.1.0 alpha bundles › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) 0.71 63.0 4.94e-01 97.2% 93.8%
3877310 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 0.70 62.0 3.61e-01 94.4% 17.0%
3266671 604.1.1.0 alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.70 54.0 4.79e-01 83.3% 69.5%
4406698 192.2.1.0 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.70 49.0 4.49e-01 73.6% 72.6%
3559003 192.2.1.1 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.69 49.0 4.41e-01 75.0% 97.0%
4171351 1.1.5.44 beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › SecDF_P1_head 0.68 60.0 4.58e-01 97.2% 92.7%
3940087 192.2.1.0 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.66 46.0 4.55e-01 75.0% 70.0%