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LC644974.1__BCZ75994.1__X__00062

Bact-Vir

LC644974.1__BCZ75994.1__X__00062

Identity

Accession:
LC644974 ↗
Kingdom:
phage

Quality

80.0 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Komagataeibacter_phage_phiKM1

TaxID: 2860317

Cluster

Singleton — not in a non-trivial cluster

3D Structure

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Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 medium residues 49-109
PDB
Domain cluster: representative
CATH (38)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1ma1A01 1.10.287.990 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Fe,Mn superoxide dismutase (SOD) domain 0.85 60.0 5.90e-01 73.8% 71.9%
3rklA00 6.10.140.1640 Special › Helix non-globular › Helix Hairpins › 0.80 58.0 5.32e-01 77.0% 60.0%
4n06A02 1.20.120.920 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › CRISPR-associated endonuclease Cas1, C-terminal domain 0.74 65.0 4.19e-01 96.7% 29.5%
5figA00 1.20.1270.360 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.73 63.0 5.34e-01 96.7% 70.0%
3kavA00 1.20.1270.360 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.72 62.0 5.24e-01 96.7% 68.6%
1yuzB01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.72 64.0 4.90e-01 100.0% 90.6%
1lq7A00 1.20.1270.70 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Designed single chain three-helix bundle 0.71 62.0 6.06e-01 98.4% 94.0%
3l1nA01 6.10.140.790 Special › Helix non-globular › Helix Hairpins › 0.70 48.0 5.17e-01 72.1% 98.0%
2yevA02 1.10.287.70 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.70 51.0 4.76e-01 77.0% 64.9%
2qffA00 1.20.1270.10 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.69 59.0 5.63e-01 98.4% 90.5%
5lbmA00 1.20.58.1000 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Metal-sensitive repressor, helix protomer 0.69 54.0 4.91e-01 86.9% 98.8%
2lmgA00 1.20.1270.10 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.68 58.0 5.51e-01 98.4% 95.9%
2mpnA00 6.10.140.1340 Special › Helix non-globular › Helix Hairpins › 0.68 49.0 4.74e-01 77.0% 77.9%
2bduA02 1.10.150.340 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Pyrimidine 5'-nucleotidase (UMPH-1), N-terminal domain 0.68 47.0 4.46e-01 78.7% 60.8%
1vx7301 1.10.287.310 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.68 47.0 4.45e-01 77.0% 60.8%
1gakA00 1.20.150.10 Mainly Alpha › Up-down Bundle › Lysin › Fertilization protein 0.67 51.0 3.99e-01 83.6% 89.8%
6zhiB02 1.20.1270.10 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.67 56.0 5.13e-01 96.7% 84.3%
3rq9A00 1.10.287.2500 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.65 47.0 4.36e-01 77.0% 76.9%
2om6A02 1.10.150.400 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › 0.64 45.0 4.16e-01 73.8% 77.2%
1tj7A01 1.10.275.10 Mainly Alpha › Orthogonal Bundle › Fumarase C; Chain B, domain 1 › Fumarase/aspartase (N-terminal domain) 0.63 51.0 4.43e-01 96.7% 74.3%
3i2fA02 1.10.3020.10 Mainly Alpha › Orthogonal Bundle › alpha-amino acid ester hydrolase ( Helical cap domain) › alpha-amino acid ester hydrolase ( Helical cap domain) 0.61 51.0 4.49e-01 95.1% 63.2%
1eniA00 1.10.440.10 Mainly Alpha › Orthogonal Bundle › Endonuclease V › T4 endonuclease V 0.60 46.0 3.57e-01 83.6% 78.1%
1wwmA00 1.20.910.10 Mainly Alpha › Up-down Bundle › Heme Oxygenase; Chain A › Heme oxygenase-like 0.60 51.0 3.76e-01 100.0% 67.8%
4kn7D01 1.10.132.30 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › RNA polymerase Rpb1 funnel domain 0.60 53.0 4.13e-01 100.0% 66.2%
1wywA00 3.40.470.10 Alpha Beta › 3-Layer(aba) Sandwich › Uracil-DNA Glycosylase, subunit E › Uracil-DNA glycosylase-like domain 0.60 39.0 2.69e-01 75.4% 19.0%
2ohfA03 1.10.150.300 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Obg-related GTPase Ych/YyaF, coiled-coil domain 0.59 50.0 4.69e-01 95.1% 78.7%
1jalA03 1.10.150.300 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Obg-related GTPase Ych/YyaF, coiled-coil domain 0.59 47.0 4.36e-01 93.4% 75.3%
8agyA01 3.90.1200.10 Alpha Beta › Alpha-Beta Complex › Aminoglycoside 3'-phosphotransferase; Chain: A, domain 2 › Aminoglycoside phosphotransferase (APH), C-terminal lobe 0.58 49.0 3.35e-01 100.0% 77.5%
2kp7A01 1.10.150.110 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › DNA polymerase beta, N-terminal domain-like 0.58 47.0 4.46e-01 91.8% 81.1%
2prrA02 1.20.1290.10 Mainly Alpha › Up-down Bundle › AhpD-like › AhpD-like 0.58 42.0 3.31e-01 77.0% 70.1%
3h4cA01 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.58 50.0 4.29e-01 96.7% 74.0%
2z16B01 1.20.91.10 Mainly Alpha › Up-down Bundle › Influenza Virus Matrix Protein; Chain A, domain 1 › Influenza matrix M1, N-terminal subdomain 1 0.57 47.0 4.30e-01 95.1% 70.5%
3wajA03 1.20.58.1650 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.56 45.0 3.87e-01 90.2% 56.0%
5t1dB00 3.10.390.20 Alpha Beta › Roll › SAND domain › Viral glycoprotein L 0.55 39.0 3.42e-01 77.0% 61.6%
3q9dB01 1.20.58.1050 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.52 37.0 3.30e-01 75.4% 61.8%
3c2qA02 3.40.50.10690 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › putative lor/sdh protein like domains 0.52 43.0 2.95e-01 95.1% 88.7%
1jmoA01 3.30.497.10 Alpha Beta › 2-Layer Sandwich › Antithrombin; Chain I, domain 2 › Antithrombin, subunit I, domain 2 0.52 47.0 3.13e-01 100.0% 96.9%
3sqnA02 1.10.1790.40 Mainly Alpha › Orthogonal Bundle › PTS-regulatory domain, PRD › 0.52 45.0 3.66e-01 100.0% 80.5%
ECOD (60)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3840952 601.19.1.39 ↗ alpha bundles › Four-helical up-and-down bundle › Apolipoprotein › Apolipoprotein › LIN9_C 0.88 65.0 5.99e-01 77.0% 64.0%
3754639 150.5.1.106 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › ESAT-6 like › ESAT-6 like › LIN9_C 0.87 64.0 5.62e-01 77.0% 56.5%
3697800 3559.1.1.0 ↗ a+b complex topology › Mediator of RNA polymerase II transcription subunit 22 › Mediator of RNA polymerase II transcription subunit 22 › Mediator of RNA polymerase II transcription subunit 22 0.85 62.0 4.94e-01 77.0% 44.3%
3428768 632.1.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Families 57/38 glycoside transferase middle domain › Families 57/38 glycoside transferase middle domain 0.85 77.0 6.26e-01 100.0% 78.2%
3204414 1.1.17.0 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 2 0.84 62.0 3.71e-01 77.0% 12.9%
3423731 632.1.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Families 57/38 glycoside transferase middle domain › Families 57/38 glycoside transferase middle domain 0.84 74.0 5.59e-01 95.1% 70.4%
3428029 632.1.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Families 57/38 glycoside transferase middle domain › Families 57/38 glycoside transferase middle domain 0.84 72.0 6.07e-01 93.4% 92.0%
3461715 632.1.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Families 57/38 glycoside transferase middle domain › Families 57/38 glycoside transferase middle domain 0.84 76.0 6.34e-01 98.4% 91.0%
3724216 5001.1.1.1 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_1 0.84 76.0 4.72e-01 100.0% 85.6%
3367069 632.1.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Families 57/38 glycoside transferase middle domain › Families 57/38 glycoside transferase middle domain 0.84 76.0 5.77e-01 100.0% 71.1%
3297061 632.1.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Families 57/38 glycoside transferase middle domain › Families 57/38 glycoside transferase middle domain 0.83 74.0 5.94e-01 98.4% 80.0%
3315624 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.83 70.0 5.69e-01 91.8% 79.1%
3453826 632.1.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Families 57/38 glycoside transferase middle domain › Families 57/38 glycoside transferase middle domain 0.83 74.0 5.98e-01 100.0% 84.3%
3450792 632.1.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Families 57/38 glycoside transferase middle domain › Families 57/38 glycoside transferase middle domain 0.82 70.0 5.48e-01 93.4% 73.6%
3298284 4268.2.1.2 ↗ alpha duplicates or obligate multimers › EspA/CesA-like › EspA chaperone CesA › EspA chaperone CesA › Rx_N 0.82 73.0 5.49e-01 100.0% 69.7%
3587855 192.8.1.0 ↗ alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain 0.82 59.0 6.42e-01 77.0% 96.0%
3351353 632.6.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Plasmid maintenance system epsilon/zeta, antidote epsilon subunit › Plasmid maintenance system epsilon/zeta, antidote epsilon subunit 0.81 73.0 6.25e-01 100.0% 82.1%
3363051 605.4.1.0 ↗ alpha duplicates or obligate multimers › ROP-like › ROP protein › ROP protein 0.81 69.0 6.01e-01 93.4% 90.0%
3295653 4268.2.1.0 ↗ alpha duplicates or obligate multimers › EspA/CesA-like › EspA chaperone CesA › EspA chaperone CesA 0.80 68.0 5.43e-01 95.1% 80.8%
3306934 632.1.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Families 57/38 glycoside transferase middle domain › Families 57/38 glycoside transferase middle domain 0.79 68.0 5.56e-01 95.1% 84.5%
3942444 5058.1.1.4 ↗ alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › COX4_pro 0.78 57.0 5.04e-01 78.7% 61.1%
3967901 192.15.1.91 ↗ alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains › COX4_pro 0.78 58.0 5.11e-01 80.3% 62.2%
4453306 4336.1.1.1 ↗ alpha duplicates or obligate multimers › YheA/YmcA-like › YheA/YmcA-like › YheA/YmcA-like › Com_YlbF 0.78 54.0 4.43e-01 73.8% 39.5%
4189586 192.29.1.264 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) › COX4_pro 0.77 57.0 4.87e-01 78.7% 57.9%
4522608 3812.1.1.15 ↗ alpha bundles › Type III secretion protein YscE › Type III secretion protein YscE › Type III secretion protein YscE › COX4_pro 0.77 56.0 4.95e-01 78.7% 61.1%
4006139 7542.1.2.0 ↗ a/b three-layered sandwiches › Aconitase iron-sulfur domain › Aconitase iron-sulfur domain › Aconitase iron-sulfur domain II 0.76 54.0 3.90e-01 82.0% 28.1%
3406711 632.11.1.2 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like › DOCK_N 0.76 66.0 5.90e-01 96.7% 85.9%
4234968 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 0.76 53.0 4.16e-01 73.8% 34.6%
3179180 632.22.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats 0.76 53.0 3.75e-01 73.8% 24.3%
4870242 4009.1.1.1 ↗ alpha bundles › alpha-helical domain in AF1104-like proteins › alpha-helical domain in AF1104-like proteins › alpha-helical domain in AF1104-like proteins › ARMT1-like_dom 0.76 66.0 5.03e-01 96.7% 79.0%
4459223 605.1.1.162 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › COX4_pro 0.75 55.0 4.80e-01 78.7% 59.1%
5041221 601.1.2.0 ↗ alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › I/LWEQ domain (Pfam 01608) 0.75 65.0 4.71e-01 100.0% 44.4%
3968180 633.13.1.1 ↗ alpha bundles › Bromodomain-like › DsbB-like › DsbB-like › DsbB 0.73 63.0 4.58e-01 96.7% 82.8%
3867093 632.1.1.3 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Families 57/38 glycoside transferase middle domain › Families 57/38 glycoside transferase middle domain › Alpha-mann_mid 0.72 62.0 5.14e-01 100.0% 78.3%
4938609 4952.1.1.1 ↗ alpha arrays › L-aspartase N-terminal domain-like › L-aspartase N-terminal domain-like › L-aspartase N-terminal domain-like › Lyase_1 0.72 62.0 4.62e-01 96.7% 60.0%
5043412 1025.1.1.0 ↗ alpha bundles › Stonustoxin helical domain › Stonustoxin helical domain › Stonustoxin helical domain 0.71 61.0 5.02e-01 98.4% 85.2%
4989968 4952.1.1.1 ↗ alpha arrays › L-aspartase N-terminal domain-like › L-aspartase N-terminal domain-like › L-aspartase N-terminal domain-like › Lyase_1 0.71 60.0 4.99e-01 93.4% 82.9%
3533307 109.4.1.612 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › RIMC1 0.70 62.0 3.96e-01 98.4% 24.1%
3553221 632.22.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats 0.70 61.0 4.88e-01 98.4% 65.8%
3720548 3755.4.1.0 ↗ alpha bundles › YscO-like › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain 0.70 62.0 4.43e-01 100.0% 59.4%
4095048 632.7.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Heat shock protein 70kD (HSP70), C-terminal subdomain › Heat shock protein 70kD (HSP70), C-terminal subdomain 0.70 60.0 4.86e-01 98.4% 65.8%
4352674 632.1.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Families 57/38 glycoside transferase middle domain › Families 57/38 glycoside transferase middle domain 0.70 60.0 5.06e-01 98.4% 75.2%
3382641 611.9.1.4 ↗ alpha bundles › N-cbl like › Resistance protein (Rx) N-terminal domain › Resistance protein (Rx) N-terminal domain › Rx_N 0.69 61.0 5.08e-01 100.0% 78.2%
4002559 5041.1.1.1 ↗ extended segments › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › ATP-synt_C 0.69 60.0 4.11e-01 100.0% 42.2%
4157268 6102.1.1.1 ↗ alpha arrays › N-terminal domain of segregation and condensation protein A, ScpA › N-terminal domain of segregation and condensation protein A, ScpA › N-terminal domain of segregation and condensation protein A, ScpA › SMC_ScpA 0.69 54.0 3.70e-01 88.5% 30.9%
3223694 2008.1.1.94 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › DUF5614 0.69 59.0 4.31e-01 100.0% 45.1%
4145241 6102.1.1.1 ↗ alpha arrays › N-terminal domain of segregation and condensation protein A, ScpA › N-terminal domain of segregation and condensation protein A, ScpA › N-terminal domain of segregation and condensation protein A, ScpA › SMC_ScpA 0.69 54.0 4.04e-01 88.5% 41.2%
4511226 6102.1.1.1 ↗ alpha arrays › N-terminal domain of segregation and condensation protein A, ScpA › N-terminal domain of segregation and condensation protein A, ScpA › N-terminal domain of segregation and condensation protein A, ScpA › SMC_ScpA 0.68 54.0 4.01e-01 86.9% 43.9%
4253745 633.13.1.1 ↗ alpha bundles › Bromodomain-like › DsbB-like › DsbB-like › DsbB 0.67 55.0 4.14e-01 96.7% 80.6%
3762669 4970.1.1.16 ↗ alpha bundles › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I › TMEM218_N 0.67 51.0 4.31e-01 83.6% 66.7%
3614837 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.66 47.0 3.15e-01 77.0% 19.2%
3426723 633.4.1.1 ↗ alpha bundles › Bromodomain-like › Plant invertase/pectin methylesterase inhibitor › Plant invertase/pectin methylesterase inhibitor › PMEI 0.65 46.0 3.50e-01 77.0% 78.8%
3171529 5025.1.1.7 ↗ extended segments › PetL subunit of the cytochrome b6f complex › PetL subunit of the cytochrome b6f complex › PetL subunit of the cytochrome b6f complex › Erv26 0.64 57.0 4.44e-01 96.7% 91.2%
4114241 4952.1.1.0 ↗ alpha arrays › L-aspartase N-terminal domain-like › L-aspartase N-terminal domain-like › L-aspartase N-terminal domain-like 0.64 52.0 4.56e-01 96.7% 77.0%
3700198 633.21.1.0 ↗ alpha bundles › Bromodomain-like › Uncharacterized protein PA2107 › Uncharacterized protein PA2107 0.63 52.0 4.18e-01 96.7% 65.4%
4886685 101.1.2.39 ↗ alpha arrays › HTH › HTH › winged helix domain › SMC_ScpA 0.63 49.0 3.45e-01 88.5% 30.5%
4819006 2004.1.1.5 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ABC_tran 0.61 42.0 2.79e-01 73.8% 26.0%
3260684 377.1.1.0 ↗ few secondary structure elements › Glucocorticoid receptor-like › LIM domain-like › LIM domain-like 0.61 42.0 4.38e-01 73.8% 78.2%
4018032 174.1.1.18 ↗ few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Erv26 0.60 50.0 3.86e-01 100.0% 46.3%
3615716 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.60 49.0 4.04e-01 95.1% 54.2%