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NC_062752.1__YP_010357257.1__M1M30_gp008__00008

Bact-Vir

NC_062752.1__YP_010357257.1__M1M30_gp008__00008

Identity

Accession:
NC_062752 ↗
Kingdom:
phage

Quality

91.2 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Molycolviridae› Mollyvirus› Maribacter_phage_Colly_1

TaxID: 2745691

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 high residues 17-67_120-178
PDB
Domain cluster: rep: SR-VP_0-2_scaffold_141_4556078_prodigal-single.1__X__X__00113__D56-159
CATH (21)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2l6hA00 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.76 56.0 5.01e-01 77.3% 75.3%
5x56B00 1.20.58.810 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Photosystem II Pbs27 0.72 53.0 5.44e-01 77.3% 96.2%
2j9wB00 1.20.120.1130 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Vps28 C-terminal domain 0.71 52.0 5.47e-01 77.3% 100.0%
1m56C02 1.20.120.80 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Cytochrome c oxidase, subunit III, four-helix bundle 0.66 58.0 4.76e-01 95.5% 86.7%
6t0bc02 1.20.120.80 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Cytochrome c oxidase, subunit III, four-helix bundle 0.65 58.0 4.76e-01 95.5% 86.9%
5zjgA02 1.10.246.130 Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › Gamma-glutamyltranspeptidase, large (L) subunit, C-terminal domain 0.65 34.0 3.42e-01 80.9% 49.1%
8hk0A01 1.10.540.10 Mainly Alpha › Orthogonal Bundle › Butyryl-Coa Dehydrogenase, subunit A; domain 1 › Acyl-CoA dehydrogenase/oxidase, N-terminal domain 0.63 44.0 4.28e-01 70.9% 93.3%
2di3B02 1.20.120.530 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › GntR ligand-binding domain-like 0.61 47.0 4.20e-01 80.9% 95.5%
3d19B00 1.20.1260.120 Mainly Alpha › Up-down Bundle › Ferritin › Protein of unknown function DUF2935 0.61 48.0 3.60e-01 82.7% 79.4%
2jswA00 1.20.1410.10 Mainly Alpha › Up-down Bundle › I/LWEQ domain › I/LWEQ domain 0.61 44.0 3.64e-01 73.6% 88.9%
2l6xA00 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.58 52.0 4.10e-01 100.0% 88.1%
3cegA00 3.10.110.10 Alpha Beta › Roll › Ubiquitin Conjugating Enzyme › Ubiquitin Conjugating Enzyme 0.58 43.0 3.23e-01 78.2% 62.3%
3kflA03 1.10.730.10 Mainly Alpha › Orthogonal Bundle › Isoleucyl-tRNA Synthetase; Domain 1 › Isoleucyl-tRNA Synthetase; Domain 1 0.56 39.0 3.40e-01 99.1% 46.3%
2ot4A03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.55 38.0 3.92e-01 100.0% 73.8%
3iieB03 1.10.1740.10 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › RNA polymerase sigma factor, region 2, helix turn helix motif 0.54 30.0 3.37e-01 100.0% 68.2%
3b9qA01 1.20.120.140 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › SRP54, nucleotide-binding domain 0.51 37.0 3.96e-01 88.2% 92.1%
8etcb01 1.20.120.1190 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.51 44.0 3.99e-01 94.5% 95.9%
3k53A02 1.10.287.1770 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.51 29.0 3.05e-01 79.1% 60.2%
4qnsA00 1.20.920.10 Mainly Alpha › Up-down Bundle › Histone Acetyltransferase; Chain A › Bromodomain-like 0.50 36.0 3.72e-01 75.5% 86.8%
3gi7A00 1.20.1270.180 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.50 37.0 3.83e-01 99.1% 82.5%
3dewA02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.50 37.0 3.53e-01 80.0% 90.0%
ECOD (28)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3249523 601.1.2.0 ↗ alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › I/LWEQ domain (Pfam 01608) 0.78 58.0 5.66e-01 77.3% 96.7%
4001485 601.1.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin 0.76 56.0 5.19e-01 77.3% 79.3%
3704187 601.28.1.1 ↗ alpha bundles › Four-helical up-and-down bundle › VPS28 C-terminal domain-like › VPS28 C-terminal domain-like › VPS28 0.76 56.0 5.64e-01 77.3% 85.5%
5074606 601.28.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › VPS28 C-terminal domain-like › VPS28 C-terminal domain-like 0.76 56.0 5.86e-01 77.3% 92.0%
5001327 601.28.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › VPS28 C-terminal domain-like › VPS28 C-terminal domain-like 0.73 57.0 6.21e-01 84.5% 100.0%
3817156 601.14.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › Hemerythrin › Hemerythrin 0.72 53.0 4.45e-01 77.3% 64.9%
3926671 4967.1.1.0 ↗ alpha bundles › helical bundle domain in reverse transcriptase-like polymerases › helical bundle domain in reverse transcriptase-like polymerases › helical bundle domain in reverse transcriptase-like polymerases 0.68 45.0 5.25e-01 84.5% 100.0%
3927690 4967.1.1.0 ↗ alpha bundles › helical bundle domain in reverse transcriptase-like polymerases › helical bundle domain in reverse transcriptase-like polymerases › helical bundle domain in reverse transcriptase-like polymerases 0.68 46.0 5.19e-01 74.5% 96.2%
3715986 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.67 60.0 5.16e-01 99.1% 72.6%
3970562 5050.1.1.0 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter 0.64 48.0 3.95e-01 79.1% 63.4%
5065913 604.5.1.2 ↗ alpha bundles › Spectrin repeat-like › PhoU-like (Pfam 01895) › PhoU-like (Pfam 01895) › PhoU 0.62 42.0 3.43e-01 70.0% 65.6%
3911689 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.62 35.0 3.85e-01 82.7% 68.2%
3186727 196.1.1.1 ↗ alpha bundles › Regulator of G-protein signaling, RGS › Regulator of G-protein signaling, RGS › Regulator of G-protein signaling, RGS › RGS 0.62 52.0 4.48e-01 92.7% 62.3%
4672624 601.25.1.1 ↗ alpha bundles › Four-helical up-and-down bundle › TrmE connector domain › TrmE connector domain › MnmE_helical 0.61 52.0 4.45e-01 91.8% 90.2%
5062284 601.7.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain 0.60 44.0 4.38e-01 77.3% 100.0%
3776630 109.4.1.364 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Nup188_N 0.60 44.0 3.53e-01 77.3% 76.8%
3922458 150.3.1.0 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › 4-helical cytokines › 4-helical cytokine 0.58 43.0 3.99e-01 76.4% 93.3%
5040281 604.5.1.2 ↗ alpha bundles › Spectrin repeat-like › PhoU-like (Pfam 01895) › PhoU-like (Pfam 01895) › PhoU 0.58 43.0 3.55e-01 77.3% 94.1%
3656448 207.1.1.103 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › LRR_R13L1-DRL21 0.58 44.0 2.76e-01 81.8% 17.5%
4019401 5050.1.1.0 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter 0.57 48.0 4.27e-01 89.1% 92.9%
4508763 166.1.1.1 ↗ alpha superhelices › 1-deoxy-D-xylulose-5-phosphate reductoisomerase-C › 1-deoxy-D-xylulose-5-phosphate reductoisomerase-C › 1-deoxy-D-xylulose-5-phosphate reductoisomerase-C › DXPR_C 0.55 32.0 3.51e-01 100.0% 70.0%
3776884 109.4.1.109 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Sel1 0.54 43.0 2.91e-01 88.2% 64.4%
3004231 103.4.1.2 ↗ alpha arrays › RuvA-C › Elongation factor TFIIS domain 2/ Kix domain of creb binding protein › Elongation factor TFIIS domain 2/ Kix domain of creb binding protein › TFIIS_M 0.53 32.0 3.05e-01 100.0% 49.6%
4952623 3281.1.2.10 ↗ alpha complex topology › Sodium/proton antiporter subunits-like › Sodium/proton antiporter subunits-like › NADH-quinone oxidoreductase subunit 8 (Nqo8)-related › NADHdeh_related 0.53 46.0 3.77e-01 99.1% 80.8%
4256309 138.1.1.5 ↗ alpha arrays › DNA polymerase III clamp loader subunits, C-terminal domain › DNA polymerase III clamp loader subunits, C-terminal domain › DNA polymerase III clamp loader subunits, C-terminal domain › DNA_pol3_gamma3 0.52 37.0 3.67e-01 73.6% 100.0%
3994623 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.51 35.0 3.55e-01 98.2% 70.0%
4972025 1075.1.1.0 ↗ alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › ABCG5/ABCG8 transmembrane domain 0.51 41.0 3.35e-01 87.3% 73.2%
3841126 5038.2.1.0 ↗ alpha superhelices › Cytochrome c oxidase subunit I-like › MAPEG domain-like › MAPEG domain-like 0.51 38.0 3.23e-01 97.3% 47.6%
D2 medium residues 68-116
PDB
Domain cluster: rep: BML_08042016_6_5m_scaffold_3_prodigal-single.1__X__X__00291__D6-60
CATH (3)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
5j6bD01 3.40.605.10 Alpha Beta › 3-Layer(aba) Sandwich › Aldehyde Dehydrogenase; Chain A, domain 1 › Aldehyde Dehydrogenase; Chain A, domain 1 0.54 45.0 2.89e-01 100.0% 51.9%
6pnuB01 3.40.605.10 Alpha Beta › 3-Layer(aba) Sandwich › Aldehyde Dehydrogenase; Chain A, domain 1 › Aldehyde Dehydrogenase; Chain A, domain 1 0.54 44.0 2.83e-01 100.0% 52.1%
3rh9A01 3.40.605.10 Alpha Beta › 3-Layer(aba) Sandwich › Aldehyde Dehydrogenase; Chain A, domain 1 › Aldehyde Dehydrogenase; Chain A, domain 1 0.54 45.0 2.85e-01 100.0% 52.9%
ECOD (19)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3253984 361.1.1.0 ↗ few secondary structure elements › DnaJ/Hsp40 cysteine-rich domain › DnaJ/Hsp40 cysteine-rich domain › DnaJ/Hsp40 cysteine-rich domain 0.87 73.0 6.45e-01 95.9% 64.3%
4060106 361.1.1.1 ↗ few secondary structure elements › DnaJ/Hsp40 cysteine-rich domain › DnaJ/Hsp40 cysteine-rich domain › DnaJ/Hsp40 cysteine-rich domain › DnaJ_CXXCXGXG 0.83 62.0 6.77e-01 79.6% 100.0%
3352509 361.1.1.14 ↗ few secondary structure elements › DnaJ/Hsp40 cysteine-rich domain › DnaJ/Hsp40 cysteine-rich domain › DnaJ/Hsp40 cysteine-rich domain › PF30758 0.80 65.0 5.57e-01 87.8% 70.7%
4250770 361.1.1.1 ↗ few secondary structure elements › DnaJ/Hsp40 cysteine-rich domain › DnaJ/Hsp40 cysteine-rich domain › DnaJ/Hsp40 cysteine-rich domain › DnaJ_CXXCXGXG 0.79 62.0 5.50e-01 85.7% 65.7%
3815072 361.1.1.0 ↗ few secondary structure elements › DnaJ/Hsp40 cysteine-rich domain › DnaJ/Hsp40 cysteine-rich domain › DnaJ/Hsp40 cysteine-rich domain 0.77 60.0 5.79e-01 83.7% 87.3%
4231511 67.1.1.1 ↗ beta sandwiches › HSP40/DnaJ peptide-binding domain › HSP40/DnaJ peptide-binding domain › HSP40/DnaJ peptide-binding domain › DnaJ_C 0.77 60.0 4.12e-01 85.7% 27.3%
3324168 361.1.1.0 ↗ few secondary structure elements › DnaJ/Hsp40 cysteine-rich domain › DnaJ/Hsp40 cysteine-rich domain › DnaJ/Hsp40 cysteine-rich domain 0.74 60.0 5.61e-01 87.8% 91.5%
3816662 361.1.1.18 ↗ few secondary structure elements › DnaJ/Hsp40 cysteine-rich domain › DnaJ/Hsp40 cysteine-rich domain › DnaJ/Hsp40 cysteine-rich domain › zf-AtTam37 0.74 60.0 5.75e-01 87.8% 85.5%
3318682 361.1.1.4 ↗ few secondary structure elements › DnaJ/Hsp40 cysteine-rich domain › DnaJ/Hsp40 cysteine-rich domain › DnaJ/Hsp40 cysteine-rich domain › DUF5351 0.72 63.0 5.75e-01 98.0% 95.4%
3314149 361.1.1.15 ↗ few secondary structure elements › DnaJ/Hsp40 cysteine-rich domain › DnaJ/Hsp40 cysteine-rich domain › DnaJ/Hsp40 cysteine-rich domain › PF28694 0.70 57.0 5.99e-01 87.8% 97.8%
4168529 67.1.1.1 ↗ beta sandwiches › HSP40/DnaJ peptide-binding domain › HSP40/DnaJ peptide-binding domain › HSP40/DnaJ peptide-binding domain › DnaJ_C 0.67 59.0 4.46e-01 98.0% 77.4%
4080896 67.1.1.4 ↗ beta sandwiches › HSP40/DnaJ peptide-binding domain › HSP40/DnaJ peptide-binding domain › HSP40/DnaJ peptide-binding domain › DnaJ_CXXCXGXG, DnaJ_C 0.66 55.0 3.81e-01 89.8% 72.9%
4317359 67.1.1.1 ↗ beta sandwiches › HSP40/DnaJ peptide-binding domain › HSP40/DnaJ peptide-binding domain › HSP40/DnaJ peptide-binding domain › DnaJ_C 0.65 55.0 4.15e-01 91.8% 65.2%
4341103 67.1.1.4 ↗ beta sandwiches › HSP40/DnaJ peptide-binding domain › HSP40/DnaJ peptide-binding domain › HSP40/DnaJ peptide-binding domain › DnaJ_CXXCXGXG, DnaJ_C 0.65 59.0 4.51e-01 100.0% 81.8%
3493220 101.1.2.194 ↗ alpha arrays › HTH › HTH › winged helix domain › RIOX1_C_WH 0.57 40.0 2.83e-01 100.0% 23.9%
3484643 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.51 35.0 2.76e-01 98.0% 31.8%
3967397 7503.1.1.8 ↗ a/b three-layered sandwiches › TolB, N-terminal domain › TolB, N-terminal domain › TolB, N-terminal domain › DUF4136 0.51 36.0 2.67e-01 100.0% 25.3%
3848684 2484.1.1.104 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DDE_1 0.51 41.0 2.76e-01 100.0% 84.9%
3630523 7.1.1.1 ↗ beta barrels › PDZ domain › PDZ domain › PDZ domain › PDZ 0.50 35.0 3.04e-01 79.6% 100.0%