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NC_034248.1__YP_009352359.1__B7L88_gp142__00102

Bact-Vir

NC_034248.1__YP_009352359.1__B7L88_gp142__00102

Identity

Accession:
NC_034248 ↗
Kingdom:
phage

Quality

92.7 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Rhizobium_phage_RHEph10

TaxID: 1220717

Cluster

Singleton — not in a non-trivial cluster

3D Structure

Download PDB Download Scores JSON

Domains

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

D1 high residues 67-129
PDB
Domain cluster: representative
CATH (17)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4a0zA01 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.90 61.0 6.32e-01 87.3% 74.6%
5dukB00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.78 54.0 5.34e-01 92.1% 68.7%
1lddA00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.77 64.0 6.07e-01 95.2% 77.0%
1k78I00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.77 63.0 6.55e-01 96.8% 98.3%
4usaA02 1.10.150.120 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › [2Fe-2S]-binding domain 0.70 59.0 4.77e-01 93.7% 76.5%
3go9A02 3.30.830.10 Alpha Beta › 2-Layer Sandwich › Cytochrome Bc1 Complex; Chain A, domain 1 › Metalloenzyme, LuxS/M16 peptidase-like 0.62 49.0 3.46e-01 90.5% 75.6%
2raeA01 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.62 41.0 4.64e-01 77.8% 100.0%
3mabA00 1.10.150.20 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › 5' to 3' exonuclease, C-terminal subdomain 0.62 45.0 4.10e-01 77.8% 60.0%
1g4wR02 3.90.190.10 Alpha Beta › Alpha-Beta Complex › Protein-Tyrosine Phosphatase; Chain A › Protein tyrosine phosphatase superfamily 0.60 48.0 3.32e-01 88.9% 40.7%
3b81A00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.59 48.0 3.54e-01 92.1% 31.7%
5mmjn01 1.10.287.1480 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.59 46.0 4.09e-01 93.7% 59.6%
1c1kA02 1.10.220.50 Mainly Alpha › Orthogonal Bundle › Annexin V; domain 1 › Bacteriophage T4, Gp59, helicase assembly protein, C-terminal domain 0.59 49.0 4.18e-01 100.0% 98.3%
3ddhA02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.57 43.0 4.06e-01 84.1% 80.2%
2fd5A02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.57 48.0 3.90e-01 100.0% 62.9%
2pkeA02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.53 38.0 3.64e-01 79.4% 71.8%
5hxgB00 1.10.4000.10 Mainly Alpha › Orthogonal Bundle › Flagellar transcriptional activator fold › Flagellar transcriptional activator FlhD 0.52 37.0 3.68e-01 100.0% 73.8%
4rflA02 1.20.1090.10 Mainly Alpha › Up-down Bundle › Dehydroquinate synthase-like, alpha domain › Dehydroquinate synthase-like - alpha domain 0.51 42.0 3.01e-01 93.7% 35.2%
ECOD (39)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3909922 101.1.1.12 ↗ alpha arrays › HTH › HTH › Three-helical HTH › HTH_Tnp_Tc3_2 0.88 63.0 6.98e-01 84.1% 94.0%
3203378 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.84 69.0 6.84e-01 98.4% 84.6%
3884711 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.84 68.0 6.75e-01 100.0% 84.6%
3969958 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.83 72.0 7.19e-01 100.0% 92.3%
5067342 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.83 64.0 5.64e-01 90.5% 57.8%
3334149 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.81 58.0 6.10e-01 84.1% 85.5%
3169050 101.1.2.94 ↗ alpha arrays › HTH › HTH › winged helix domain › ANAPC2 0.80 72.0 6.33e-01 100.0% 67.7%
3924709 101.1.1.4 ↗ alpha arrays › HTH › HTH › Three-helical HTH › PAX 0.78 68.0 6.74e-01 98.4% 92.3%
3789626 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.77 67.0 6.63e-01 100.0% 92.3%
3578362 101.1.1.4 ↗ alpha arrays › HTH › HTH › Three-helical HTH › PAX 0.77 66.0 6.27e-01 100.0% 80.0%
3254663 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.77 69.0 6.50e-01 100.0% 82.7%
3366917 101.35.1.0 ↗ alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX 0.75 55.0 5.80e-01 88.9% 89.1%
3628332 101.6.1.1 ↗ alpha arrays › HTH › Protein serine/threonine phosphatase 2C-C › Protein serine/threonine phosphatase 2C-C › PP2C_C 0.75 65.0 6.03e-01 98.4% 85.0%
3927925 101.6.1.0 ↗ alpha arrays › HTH › Protein serine/threonine phosphatase 2C-C › Protein serine/threonine phosphatase 2C-C 0.74 63.0 6.17e-01 98.4% 98.6%
3467989 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.74 57.0 5.81e-01 95.2% 86.7%
3877553 101.1.2.506 ↗ alpha arrays › HTH › HTH › winged helix domain › HTH_NWD1 0.74 58.0 5.02e-01 87.3% 65.0%
3342177 101.33.1.0 ↗ alpha arrays › HTH › Replication foci-targeting sequence C-terminal domain › Replication foci-targeting sequence C-terminal domain 0.73 60.0 5.17e-01 90.5% 67.0%
3226857 101.1.1.4 ↗ alpha arrays › HTH › HTH › Three-helical HTH › PAX 0.73 60.0 5.50e-01 100.0% 69.4%
3464617 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.73 55.0 5.67e-01 95.2% 86.7%
3519665 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.73 65.0 5.76e-01 100.0% 70.0%
3422646 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.72 54.0 5.51e-01 90.5% 85.0%
3959754 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.70 61.0 5.69e-01 98.4% 80.0%
3234731 101.1.1.21 ↗ alpha arrays › HTH › HTH › Three-helical HTH › HTH_Tnp_Tc5 0.70 57.0 5.72e-01 93.7% 89.2%
3315399 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.69 49.0 5.25e-01 88.9% 94.0%
4935180 198.1.1.0 ↗ alpha arrays › Saposin-like › Saposin-like › Saposin-like 0.68 58.0 5.11e-01 100.0% 67.0%
3394383 101.6.1.1 ↗ alpha arrays › HTH › Protein serine/threonine phosphatase 2C-C › Protein serine/threonine phosphatase 2C-C › PP2C_C 0.68 59.0 5.77e-01 100.0% 94.3%
3830176 101.1.17.0 ↗ alpha arrays › HTH › HTH › FF domain 0.67 56.0 5.57e-01 100.0% 95.4%
3644964 101.7.1.0 ↗ alpha arrays › HTH › DEK-C › DEK-C 0.66 53.0 5.46e-01 90.5% 95.0%
3509156 101.1.2.352 ↗ alpha arrays › HTH › HTH › winged helix domain › HTH_Tnp_Tc5 0.64 51.0 5.05e-01 93.7% 97.1%
3431444 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.64 53.0 5.48e-01 100.0% 100.0%
3512341 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.64 52.0 5.07e-01 95.2% 98.6%
3936163 101.1.1.21 ↗ alpha arrays › HTH › HTH › Three-helical HTH › HTH_Tnp_Tc5 0.63 49.0 4.95e-01 92.1% 92.3%
3654939 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.62 52.0 4.22e-01 100.0% 53.3%
3885941 101.1.1.132 ↗ alpha arrays › HTH › HTH › Three-helical HTH › SENP3_5_N 0.61 53.0 5.16e-01 100.0% 90.0%
3722233 103.4.1.0 ↗ 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 0.55 38.0 3.78e-01 73.0% 72.3%
3871703 186.1.1.0 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N 0.54 44.0 3.60e-01 92.1% 60.8%
3628125 632.15.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Staphylococcal complement inhibitor (SCIN) › Staphylococcal complement inhibitor (SCIN) 0.53 39.0 3.76e-01 81.0% 82.7%
2035869 4002.1.1.3 ↗ alpha bundles › alpha-helical domain in dehydroquinate synthase-like enzymes › alpha-helical domain in dehydroquinate synthase-like enzymes › alpha-helical domain in dehydroquinate synthase-like enzymes › Fe-ADH_2 0.53 46.0 2.95e-01 100.0% 52.3%
4175971 604.3.1.43 ↗ alpha bundles › Spectrin repeat-like › BAG domain › BAG domain › FliX 0.52 41.0 3.74e-01 90.5% 72.2%
D2 medium residues 1-66
PDB
Domain cluster: representative
CATH (11)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3dcfA02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.67 48.0 3.79e-01 77.3% 73.9%
1m2vB01 1.20.120.730 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Sec23/Sec24 helical domain 0.61 44.0 3.37e-01 78.8% 74.6%
3lynB00 1.20.150.10 Mainly Alpha › Up-down Bundle › Lysin › Fertilization protein 0.61 43.0 3.56e-01 75.8% 89.5%
2iu1A00 1.25.40.180 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.59 43.0 3.19e-01 78.8% 42.7%
4htpB00 1.10.3260.10 Mainly Alpha › Orthogonal Bundle › DNA ligase i, domain 1 › DNA ligase, ATP-dependent, N-terminal domain 0.59 49.0 3.45e-01 95.5% 52.3%
4akrA01 3.30.1140.60 Alpha Beta › 2-Layer Sandwich › Ribosomal protein S3 C-terminal domain › F-actin capping protein, alpha subunit 0.56 43.0 3.79e-01 86.4% 83.0%
4jvyB00 3.30.1370.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › K Homology domain, type 1 0.53 42.0 3.15e-01 90.9% 77.9%
4dhxB00 1.10.246.140 Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › ENY2/SUS1 0.52 40.0 3.69e-01 100.0% 62.6%
1ni3A03 1.10.150.300 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Obg-related GTPase Ych/YyaF, coiled-coil domain 0.51 37.0 3.36e-01 77.3% 58.2%
1z0jB00 4.10.860.20 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › Rabenosyn, Rab binding domain 0.51 35.0 3.82e-01 74.2% 94.1%
6n6qD00 1.10.630.10 Mainly Alpha › Orthogonal Bundle › Cytochrome p450 › Cytochrome P450 0.50 43.0 2.64e-01 98.5% 64.5%
ECOD (5)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3497467 2498.1.1.56 ↗ mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" › Peptidase_M13_N 0.61 45.0 2.59e-01 78.8% 33.0%
3365642 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.53 44.0 3.18e-01 100.0% 60.9%
3392036 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.52 38.0 2.81e-01 78.8% 97.5%
3406182 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.52 35.0 3.08e-01 72.7% 48.2%
3583793 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 0.51 37.0 3.01e-01 78.8% 55.4%