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DGJ7_scaffold_2_2069_prodigal-single.1__X__X__00439

Bact-Vir

DGJ7_scaffold_2_2069_prodigal-single.1__X__X__00439

Identity

Kingdom:
phage

Quality

92.2 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 medium residues 1-67
PDB
Domain cluster: representative
CATH (27)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2ib0A01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.73 50.0 3.88e-01 77.6% 34.8%
1wp7A00 1.10.287.770 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › YojJ-like 0.72 43.0 4.48e-01 70.1% 64.1%
4m52A01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.71 58.0 4.01e-01 89.6% 31.5%
2chpA00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.71 51.0 3.91e-01 77.6% 34.5%
3b5iA02 1.10.1200.220 Mainly Alpha › Orthogonal Bundle › Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein; Chain A › 0.68 51.0 4.57e-01 92.5% 56.8%
1s3qG00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.68 50.0 3.67e-01 77.6% 31.3%
2nsaA00 1.10.3120.10 Mainly Alpha › Orthogonal Bundle › Trigger factor, domain 2 › Trigger factor, C-terminal domain 0.68 59.0 4.42e-01 97.0% 68.3%
1yuzB01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.67 46.0 3.58e-01 71.6% 34.1%
1lb3A00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.66 49.0 3.60e-01 77.6% 32.3%
3bg2A01 1.10.3210.10 Mainly Alpha › Orthogonal Bundle › Hypothetical protein af1432 › Hypothetical protein af1432 0.64 55.0 4.06e-01 100.0% 77.2%
6oi7A01 1.10.3210.10 Mainly Alpha › Orthogonal Bundle › Hypothetical protein af1432 › Hypothetical protein af1432 0.63 54.0 3.93e-01 98.5% 56.6%
1vmgA00 1.10.287.1080 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › MazG-like 0.61 40.0 3.78e-01 73.1% 56.1%
3t46A00 1.20.1270.10 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.59 40.0 3.92e-01 94.0% 64.0%
3a98A02 1.20.1270.350 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Dedicator of cytokinesis N-terminal subdomain 0.58 43.0 3.95e-01 79.1% 96.6%
5b1aC01 1.10.287.70 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.58 44.0 4.43e-01 82.1% 79.4%
1kfdA02 1.20.1060.10 Mainly Alpha › Up-down Bundle › Taq DNA Polymerase; Chain T, domain 4 › Taq DNA Polymerase; Chain T, domain 4 0.57 42.0 4.14e-01 83.6% 73.2%
2itbB00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.57 48.0 3.45e-01 92.5% 81.8%
4boqA00 3.90.70.80 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › 0.56 47.0 3.57e-01 97.0% 77.7%
4adnA01 1.20.1280.250 Mainly Alpha › Up-down Bundle › Monooxygenase › 0.56 41.0 3.79e-01 77.6% 96.5%
2x1lA03 1.10.730.10 Mainly Alpha › Orthogonal Bundle › Isoleucyl-tRNA Synthetase; Domain 1 › Isoleucyl-tRNA Synthetase; Domain 1 0.56 47.0 3.49e-01 92.5% 61.6%
3kflA03 1.10.730.10 Mainly Alpha › Orthogonal Bundle › Isoleucyl-tRNA Synthetase; Domain 1 › Isoleucyl-tRNA Synthetase; Domain 1 0.56 47.0 3.45e-01 92.5% 57.7%
2ocgA00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.55 44.0 2.97e-01 88.1% 29.5%
4jneA03 3.90.640.10 Alpha Beta › Alpha-Beta Complex › Actin; Chain A, domain 4 › ATPase, substrate binding domain, subdomain 4 0.55 46.0 4.23e-01 94.0% 88.6%
1cnt200 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.53 49.0 3.86e-01 100.0% 70.0%
3gonA02 3.30.70.890 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › GHMP kinase, C-terminal domain 0.52 40.0 3.19e-01 82.1% 98.5%
1f7uA02 1.10.730.10 Mainly Alpha › Orthogonal Bundle › Isoleucyl-tRNA Synthetase; Domain 1 › Isoleucyl-tRNA Synthetase; Domain 1 0.50 43.0 3.54e-01 95.5% 78.4%
3wgtA01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.50 41.0 3.03e-01 94.0% 81.3%
ECOD (28)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3456443 2003.1.5.30 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_7 0.79 62.0 3.94e-01 95.5% 18.4%
3987846 2002.1.1.50 a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › F_bP_aldolase 0.74 61.0 3.97e-01 91.0% 84.0%
3240117 632.22.1.0 alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats 0.72 49.0 4.38e-01 70.1% 83.3%
4944401 150.1.1.1 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin › Ferritin 0.69 51.0 3.84e-01 77.6% 41.9%
4582542 192.11.1.1 alpha bundles › Long alpha-hairpin › C-terminal UvrC-binding domain of UvrB › C-terminal UvrC-binding domain of UvrB › UVR 0.67 42.0 4.35e-01 71.6% 68.3%
3268739 192.2.1.0 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.66 52.0 4.57e-01 85.1% 85.0%
3715687 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.64 48.0 3.22e-01 89.6% 20.0%
4629874 6130.1.1.1 alpha complex topology › Selenocysteine synthase N-terminal domain › Selenocysteine synthase N-terminal domain › Selenocysteine synthase N-terminal domain › Se-cys_synth_N 0.64 51.0 4.84e-01 91.0% 73.8%
5028219 632.11.1.0 alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.64 46.0 4.15e-01 76.1% 93.3%
3410968 192.17.1.0 alpha bundles › Long alpha-hairpin › Rabenosyn-5 Rab-binding domain-like › Rabenosyn-5 Rab-binding domain-like 0.63 48.0 4.81e-01 89.6% 77.1%
3336677 605.1.1.132 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › DUF641 0.63 48.0 4.66e-01 86.6% 72.0%
3988387 604.10.1.1 alpha bundles › Spectrin repeat-like › Enzyme IIa from lactose specific PTS, IIa-lac › Enzyme IIa from lactose specific PTS, IIa-lac › PTS_IIA 0.62 46.0 4.02e-01 79.1% 63.0%
3700079 5082.1.1.1 alpha bundles › Cation efflux protein transmembrane domain-like › Cation efflux protein transmembrane domain-like › Cation efflux protein transmembrane domain-like › Cation_efflux 0.62 51.0 3.55e-01 91.0% 74.2%
3468873 3291.1.1.0 alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related 0.61 45.0 3.58e-01 77.6% 49.2%
4997550 140.1.1.15 alpha bundles › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › tRNA-synt_1g 0.61 46.0 3.13e-01 79.1% 47.4%
3435219 3718.1.1.27 alpha bundles › Flagellar protein fliT › Flagellar protein fliT › Flagellar protein fliT › DUF3755 0.61 42.0 3.95e-01 71.6% 60.0%
4955275 632.11.1.0 alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.60 49.0 4.37e-01 92.5% 64.4%
3362472 605.1.1.132 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › DUF641 0.59 49.0 4.11e-01 89.6% 60.0%
4067599 192.17.1.22 alpha bundles › Long alpha-hairpin › Rabenosyn-5 Rab-binding domain-like › Rabenosyn-5 Rab-binding domain-like › COX3 0.59 45.0 4.22e-01 82.1% 67.5%
3419469 3444.2.1.0 alpha arrays › DP domain › XPC-binding domain and DDI helical domain › XPC-binding domain 0.57 44.0 4.89e-01 98.5% 100.0%
4241645 632.22.1.1 alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats › EzrA 0.56 48.0 4.36e-01 94.0% 72.2%
4618625 101.1.1.0 alpha arrays › HTH › HTH › Three-helical HTH 0.56 47.0 4.03e-01 91.0% 87.6%
3977326 632.16.1.1 alpha bundles › immunoglobulin/albumin-binding domain-like › N-terminal domain of a replication restart primosome factor PriC › N-terminal domain of a replication restart primosome factor PriC › PriC 0.56 48.0 4.16e-01 92.5% 70.0%
5008490 159.1.1.1 alpha bundles › all-alpha NTP pyrophosphatases › all-alpha NTP pyrophosphatases › Hypothetical protein AF_0060 › MazG 0.55 45.0 4.09e-01 89.6% 65.9%
3961063 2004.1.1.0 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.55 43.0 2.79e-01 82.1% 20.0%
4423028 192.17.1.11 alpha bundles › Long alpha-hairpin › Rabenosyn-5 Rab-binding domain-like › Rabenosyn-5 Rab-binding domain-like › UVR 0.54 46.0 4.21e-01 92.5% 78.8%
3938192 633.22.1.0 alpha bundles › Bromodomain-like › Vitamin K epoxide reductase (VKOR) › Vitamin K epoxide reductase (VKOR) 0.53 47.0 3.57e-01 98.5% 81.9%
5074955 632.11.1.0 alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.51 44.0 4.00e-01 95.5% 70.0%
D2 medium residues 82-184
PDB
Domain cluster: representative
CATH (8)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4esjA01 3.40.210.30 Alpha Beta › 3-Layer(aba) Sandwich › PvuII Endonuclease; Chain A › Dam replacing family, catalytic PD-(D/E)XK domain 0.74 64.0 5.58e-01 100.0% 62.8%
4oc8A01 2.30.280.20 Mainly Beta › Roll › PUA domain-like › 0.61 54.0 4.31e-01 100.0% 78.1%
2qwvA00 3.40.1280.10 Alpha Beta › 3-Layer(aba) Sandwich › Alpha/beta knot › SPOUT methyltransferase, trefoil knot domain 0.56 46.0 3.84e-01 91.3% 58.0%
3iuwA00 2.30.130.30 Mainly Beta › Roll › Archaeosine Trna-guanine Transglycosylase; Chain: A, domain 4 › Hypothetical protein. 0.55 40.0 4.34e-01 90.3% 100.0%
7xlqD02 3.40.50.410 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › von Willebrand factor, type A domain 0.55 39.0 3.27e-01 74.8% 89.5%
5dynA01 3.40.50.11970 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.53 35.0 3.55e-01 92.2% 66.0%
4fbcA01 3.40.420.10 Alpha Beta › 3-Layer(aba) Sandwich › Ricin (A subunit); domain 1 › Ricin (A subunit), domain 1 0.52 41.0 3.50e-01 86.4% 98.9%
2kkuA00 2.30.130.30 Mainly Beta › Roll › Archaeosine Trna-guanine Transglycosylase; Chain: A, domain 4 › Hypothetical protein. 0.50 43.0 3.98e-01 98.1% 86.3%
ECOD (35)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
1503110 2008.1.1.21 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › DpnI 0.74 64.0 5.40e-01 100.0% 57.0%
4928779 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.69 63.0 5.46e-01 100.0% 76.1%
3730987 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.68 62.0 5.15e-01 100.0% 70.9%
4939728 2008.1.1.77 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › NOV_C 0.65 55.0 5.04e-01 92.2% 74.8%
3828533 282.1.1.0 a+b duplicates or obligate multimers › CBS-domain › CBS-domain › CBS-domain 0.63 41.0 3.96e-01 99.0% 57.5%
3264083 2006.1.6.41 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like › vWA_SIBA-E 0.58 42.0 3.40e-01 75.7% 86.0%
5031348 1.1.9.3 beta barrels › cradle loop barrel › RIFT-related › PUA domain › EVE 0.58 47.0 4.25e-01 89.3% 68.3%
4928024 1.1.9.0 beta barrels › cradle loop barrel › RIFT-related › PUA domain 0.57 45.0 4.21e-01 89.3% 68.8%
4582116 1.1.9.11 beta barrels › cradle loop barrel › RIFT-related › PUA domain › TruB-C_2 0.57 35.0 4.15e-01 87.4% 96.9%
3972039 1.1.9.0 beta barrels › cradle loop barrel › RIFT-related › PUA domain 0.56 44.0 4.11e-01 89.3% 66.7%
5067380 1.1.9.0 beta barrels › cradle loop barrel › RIFT-related › PUA domain 0.56 49.0 4.45e-01 98.1% 83.6%
None 0.56 38.0 3.11e-01 81.6% 35.1%
373012 1.1.9.14 beta barrels › cradle loop barrel › RIFT-related › PUA domain › DUF3850 0.56 40.0 4.36e-01 89.3% 97.5%
3440234 2006.1.6.1 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like › VWA 0.55 39.0 3.06e-01 74.8% 77.9%
3548144 2485.1.1.69 a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like › DUF4174 0.55 38.0 3.41e-01 99.0% 49.3%
4961857 1.1.9.0 beta barrels › cradle loop barrel › RIFT-related › PUA domain 0.55 47.0 4.21e-01 94.2% 92.4%
4953670 282.1.1.1 a+b duplicates or obligate multimers › CBS-domain › CBS-domain › CBS-domain › CBS 0.54 40.0 3.80e-01 97.1% 63.1%
5023996 1.1.9.9 beta barrels › cradle loop barrel › RIFT-related › PUA domain › ASCH 0.54 43.0 4.23e-01 88.3% 97.3%
3302952 2006.1.6.7 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like › Sec23_trunk 0.54 39.0 2.97e-01 76.7% 98.0%
4180783 1.1.9.14 beta barrels › cradle loop barrel › RIFT-related › PUA domain › DUF3850 0.53 40.0 4.19e-01 89.3% 92.2%
3922583 2006.1.6.13 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like › VWA_3 0.53 38.0 3.15e-01 74.8% 91.9%
3795978 2006.1.6.0 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like 0.53 39.0 3.22e-01 75.7% 87.6%
3368032 2006.1.6.13 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like › VWA_3 0.53 36.0 2.99e-01 80.6% 37.4%
5039945 2006.1.6.1 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like › VWA 0.53 38.0 3.10e-01 74.8% 85.6%
4303964 1.1.9.0 beta barrels › cradle loop barrel › RIFT-related › PUA domain 0.52 34.0 3.84e-01 87.4% 95.7%
4424682 2006.1.6.7 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like › Sec23_trunk 0.52 38.0 2.86e-01 75.7% 96.5%
3964426 1.1.9.0 beta barrels › cradle loop barrel › RIFT-related › PUA domain 0.52 43.0 4.15e-01 90.3% 77.5%
4169267 1.1.9.3 beta barrels › cradle loop barrel › RIFT-related › PUA domain › EVE 0.52 43.0 3.85e-01 90.3% 97.9%
4930742 1.1.9.0 beta barrels › cradle loop barrel › RIFT-related › PUA domain 0.52 43.0 4.02e-01 90.3% 73.6%
5062145 11.1.1.1411 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › VWA_3 0.52 37.0 2.75e-01 74.8% 61.5%
4969295 2006.1.6.0 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like 0.51 36.0 2.97e-01 81.6% 38.9%
4950776 1.1.9.7 beta barrels › cradle loop barrel › RIFT-related › PUA domain › DUF365 0.51 44.0 4.02e-01 98.1% 85.7%
3252646 1.1.9.0 beta barrels › cradle loop barrel › RIFT-related › PUA domain 0.51 42.0 3.81e-01 91.3% 67.1%
4943450 1.1.9.0 beta barrels › cradle loop barrel › RIFT-related › PUA domain 0.50 37.0 4.03e-01 87.4% 95.3%
3859388 11.1.1.99 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › V-set 0.50 36.0 3.72e-01 75.7% 81.8%