Back to structures

NC_049380.1__YP_009876294.1__HYP07_gp069__00069

Bact-Vir

NC_049380.1__YP_009876294.1__HYP07_gp069__00069

Identity

Accession:
NC_049380 ↗
Kingdom:
phage

Quality

92.8 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 1-45
PDB
Domain cluster: representative
CATH (60)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2gs4A00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.99 94.0 6.15e-01 100.0% 28.5%
2yxyA01 1.10.287.880 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Hypothetical protein YfhH domain 0.98 87.0 8.32e-01 95.6% 84.0%
1yzmA00 4.10.860.20 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › Rabenosyn, Rab binding domain 0.98 90.0 8.99e-01 97.8% 95.7%
3c18A02 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.98 92.0 6.48e-01 100.0% 38.1%
1jgcA00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.98 92.0 5.99e-01 100.0% 36.9%
2vxxA00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.98 91.0 5.88e-01 100.0% 26.2%
3nymA00 6.10.290.10 Special › Helix non-globular › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.97 91.0 6.36e-01 100.0% 36.3%
1fpoC02 1.20.1280.20 Mainly Alpha › Up-down Bundle › Monooxygenase › HscB, C-terminal domain 0.97 91.0 6.94e-01 100.0% 49.5%
3t9jA00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.96 90.0 6.03e-01 100.0% 31.2%
1z0jB00 4.10.860.20 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › Rabenosyn, Rab binding domain 0.96 89.0 8.51e-01 100.0% 88.2%
2v6yA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.96 89.0 7.31e-01 100.0% 60.0%
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 0.96 84.0 8.50e-01 100.0% 95.5%
2hsbA00 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.95 88.0 6.15e-01 100.0% 36.5%
1j30A00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.95 88.0 5.95e-01 100.0% 31.9%
2gd5A00 6.10.140.1230 Special › Helix non-globular › Helix Hairpins › 0.95 88.0 5.95e-01 100.0% 31.7%
2hr2A00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.95 84.0 5.57e-01 100.0% 27.6%
2jdiG01 1.10.287.80 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ATP synthase, gamma subunit, helix hairpin domain 0.95 88.0 7.81e-01 100.0% 75.4%
2yxhA00 1.10.287.1080 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › MazG-like 0.95 87.0 6.28e-01 100.0% 39.8%
1j5wA02 1.20.58.180 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Class II aaRS and biotin synthetases; domain 2 0.94 87.0 7.10e-01 100.0% 58.4%
2a26B01 4.10.860.10 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › UVR domain 0.94 80.0 8.10e-01 97.8% 93.2%
3kwoA00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.94 87.0 5.81e-01 100.0% 30.2%
2p06B00 1.10.287.1080 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › MazG-like 0.94 86.0 6.71e-01 100.0% 51.1%
2rklF00 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 0.94 81.0 7.68e-01 93.3% 80.8%
2chpA00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.94 85.0 5.74e-01 100.0% 30.4%
1zpyA00 6.10.140.1960 Special › Helix non-globular › Helix Hairpins › 0.92 84.0 6.52e-01 100.0% 61.5%
1om2A00 1.20.960.10 Mainly Alpha › Up-down Bundle › Mitochondrial Import Receptor Subunit Tom20; Chain A › Mitochondrial outer membrane translocase complex, subunit Tom20 domain 0.91 77.0 5.87e-01 91.1% 43.2%
1vh6A01 6.10.140.1940 Special › Helix non-globular › Helix Hairpins › 0.91 82.0 6.29e-01 100.0% 47.4%
2pmrA00 1.20.1270.90 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › AF1782-like 0.91 82.0 6.79e-01 100.0% 60.5%
2gv9A05 1.10.287.690 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › B family DNA polymerase, finger domain 0.90 75.0 6.81e-01 100.0% 69.5%
1wfdA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.90 78.0 6.04e-01 100.0% 46.2%
4fymF00 3.40.50.2020 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.90 81.0 5.11e-01 100.0% 22.0%
1bgfA00 1.10.532.10 Mainly Alpha › Orthogonal Bundle › Transcription Factor, Stat-4 › STAT transcription factor, N-terminal domain 0.89 80.0 5.69e-01 100.0% 36.3%
1nt2B02 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.89 80.0 6.96e-01 100.0% 67.2%
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 0.89 79.0 6.33e-01 100.0% 52.9%
4iggA01 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.89 79.0 6.88e-01 100.0% 100.0%
2fcwA00 1.20.81.10 Mainly Alpha › Up-down Bundle › Receptor-associated Protein › RAP domain 0.88 78.0 5.86e-01 100.0% 42.5%
2qvaA02 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 78.0 7.43e-01 100.0% 88.7%
3p42A02 6.10.250.2280 Special › Helix non-globular › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.87 69.0 5.92e-01 100.0% 55.7%
2gscC00 1.20.1440.60 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 23S rRNA-intervening sequence 0.86 75.0 5.64e-01 100.0% 49.1%
1e52A00 4.10.860.10 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › UVR domain 0.85 75.0 7.00e-01 100.0% 80.4%
2rbdA01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.84 73.0 4.99e-01 100.0% 29.3%
1wkbA03 1.10.730.10 Mainly Alpha › Orthogonal Bundle › Isoleucyl-tRNA Synthetase; Domain 1 › Isoleucyl-tRNA Synthetase; Domain 1 0.84 73.0 5.25e-01 95.6% 48.8%
1rqgA04 1.10.730.10 Mainly Alpha › Orthogonal Bundle › Isoleucyl-tRNA Synthetase; Domain 1 › Isoleucyl-tRNA Synthetase; Domain 1 0.83 73.0 4.99e-01 97.8% 44.4%
1luwA01 1.10.287.990 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Fe,Mn superoxide dismutase (SOD) domain 0.83 73.0 6.54e-01 100.0% 75.0%
3k59A06 1.10.287.690 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › B family DNA polymerase, finger domain 0.83 72.0 7.11e-01 93.3% 100.0%
6he1B01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.83 67.0 5.99e-01 97.8% 64.1%
1dd3A01 1.20.5.710 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Single helix bin 0.83 64.0 6.00e-01 86.7% 75.4%
6umqA01 1.20.930.60 Mainly Alpha › Up-down Bundle › Transcription Elongation Factor S-II; Chain A › 0.82 73.0 5.34e-01 100.0% 40.0%
1d2mA03 6.10.140.240 Special › Helix non-globular › Helix Hairpins › 0.81 73.0 6.38e-01 100.0% 69.7%
5b1aC01 1.10.287.70 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.78 63.0 5.60e-01 100.0% 61.8%
2yb5F01 1.20.1280.250 Mainly Alpha › Up-down Bundle › Monooxygenase › 0.78 68.0 5.54e-01 100.0% 98.8%
3nbxX03 1.20.58.1510 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.76 61.0 4.80e-01 100.0% 41.6%
1b3qA01 1.10.287.560 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Histidine kinase CheA-like, homodimeric domain 0.76 63.0 5.81e-01 100.0% 72.6%
2e9xA01 1.20.58.1030 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.75 61.0 4.56e-01 100.0% 35.2%
4e4eA01 1.10.287.990 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Fe,Mn superoxide dismutase (SOD) domain 0.74 59.0 5.31e-01 100.0% 63.4%
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 55.0 5.49e-01 100.0% 93.8%
1kfdA02 1.20.1060.10 Mainly Alpha › Up-down Bundle › Taq DNA Polymerase; Chain T, domain 4 › Taq DNA Polymerase; Chain T, domain 4 0.70 54.0 4.96e-01 100.0% 70.4%
1cpyA02 1.10.287.410 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.69 55.0 4.93e-01 100.0% 65.3%
8igrI01 2.40.270.10 Mainly Beta › Beta Barrel › Dna-directed Rna Polymerase Ii 140kd Polypeptide; Chain: B; Domain 6 › DNA-directed RNA polymerase, subunit 2, domain 6 0.68 56.0 3.73e-01 93.3% 23.3%
1orjD00 1.20.120.340 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Flagellar protein FliS 0.65 52.0 3.99e-01 100.0% 94.4%
ECOD (36)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5043625 603.1.1.0 alpha bundles › STAT-like › t-snare proteins › t-snare proteins 1.00 95.0 6.28e-01 100.0% 30.0%
3414301 109.4.1.177 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Cnd3 1.00 95.0 5.02e-01 100.0% 4.6%
3484742 3922.1.1.197 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 › BBS2_hp 1.00 95.0 7.38e-01 100.0% 52.9%
4324075 192.11.1.1 alpha bundles › Long alpha-hairpin › C-terminal UvrC-binding domain of UvrB › C-terminal UvrC-binding domain of UvrB › UVR 0.99 94.0 9.22e-01 100.0% 93.8%
3166880 906.1.1.0 few secondary structure elements › CCCH zinc finger › CCCH zinc finger › CCCH zinc finger 0.99 94.0 7.82e-01 100.0% 64.3%
3623892 150.1.1.109 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin › LUC7 0.99 93.0 6.12e-01 100.0% 29.0%
4269685 192.11.1.1 alpha bundles › Long alpha-hairpin › C-terminal UvrC-binding domain of UvrB › C-terminal UvrC-binding domain of UvrB › UVR 0.99 93.0 8.11e-01 100.0% 71.4%
3748986 3755.3.1.322 alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › LUC7 0.98 93.0 5.94e-01 100.0% 25.7%
4530141 192.11.1.1 alpha bundles › Long alpha-hairpin › C-terminal UvrC-binding domain of UvrB › C-terminal UvrC-binding domain of UvrB › UVR 0.98 93.0 8.89e-01 100.0% 90.0%
3451986 3291.1.1.79 alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › DUF1771 0.98 92.0 6.56e-01 100.0% 39.1%
4674043 632.11.1.12 alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like › UVR 0.98 92.0 7.08e-01 100.0% 50.0%
None 0.98 92.0 5.04e-01 100.0% 8.7%
3409452 632.22.1.0 alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats 0.98 92.0 7.16e-01 100.0% 52.9%
4621613 2004.1.1.0 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.97 91.0 5.43e-01 100.0% 17.0%
140767 632.8.1.3 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 › DUF6853 0.97 91.0 6.36e-01 100.0% 36.3%
4975050 3843.1.1.0 alpha complex topology › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K 0.97 91.0 7.44e-01 100.0% 60.0%
5074955 632.11.1.0 alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.97 91.0 6.99e-01 100.0% 50.0%
3175368 376.1.3.81 few secondary structure elements › RING/U-box-like › RING/U-box-like › FYVE/PHD zinc finger › Rbsn 0.97 90.0 7.38e-01 100.0% 60.0%
3940649 604.12.1.0 alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.96 89.0 7.16e-01 100.0% 56.2%
3990212 109.4.1.2733 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_8, ARM_TT21_4th 0.96 88.0 5.96e-01 100.0% 31.0%
4993041 150.1.1.3 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin › Rubrerythrin 0.95 87.0 7.05e-01 100.0% 56.2%
4642864 192.11.1.1 alpha bundles › Long alpha-hairpin › C-terminal UvrC-binding domain of UvrB › C-terminal UvrC-binding domain of UvrB › UVR 0.95 88.0 8.48e-01 100.0% 90.0%
2800296 150.1.1.3 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin › Rubrerythrin 0.95 87.0 5.87e-01 100.0% 30.8%
4618805 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 0.95 88.0 8.12e-01 100.0% 81.8%
1000511 159.1.1.1 alpha bundles › all-alpha NTP pyrophosphatases › all-alpha NTP pyrophosphatases › Hypothetical protein AF_0060 › MazG 0.95 87.0 6.26e-01 100.0% 39.5%
3707335 192.17.1.0 alpha bundles › Long alpha-hairpin › Rabenosyn-5 Rab-binding domain-like › Rabenosyn-5 Rab-binding domain-like 0.94 87.0 7.14e-01 100.0% 60.0%
3448294 3826.1.1.33 alpha bundles › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › eIF-4B 0.94 87.0 6.84e-01 100.0% 52.9%
4468076 632.22.1.1 alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats › EzrA 0.93 86.0 6.79e-01 100.0% 52.9%
4956241 632.22.1.0 alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats 0.93 86.0 7.08e-01 100.0% 61.3%
5053928 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.93 85.0 5.43e-01 100.0% 23.7%
5038830 375.1.1.26 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Rpr2 0.92 83.0 6.24e-01 97.8% 44.0%
3338686 2002.1.1.17 a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › PEPcase 0.84 75.0 4.22e-01 100.0% 9.4%
4867087 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 0.83 72.0 5.93e-01 100.0% 57.8%
5031927 5057.1.1.0 alpha bundles › Neurotransmitter-gated ion-channel transmembrane pore › Neurotransmitter-gated ion-channel transmembrane pore › Neurotransmitter-gated ion-channel transmembrane pore 0.76 69.0 5.49e-01 100.0% 55.3%
3487203 192.2.1.0 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.76 62.0 5.20e-01 100.0% 74.1%
3968647 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 0.62 51.0 4.67e-01 100.0% 70.8%