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HQ683709.1__ADZ31513.1__PaVLD_ORF006R__00006

Bact-Vir

HQ683709.1__ADZ31513.1__PaVLD_ORF006R__00006

Identity

Accession:
HQ683709 ↗
Kingdom:
phage

Quality

76.1 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 3-71
PDB
Domain cluster: representative
CATH (18)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4wz9A02 1.10.390.10 Mainly Alpha › Orthogonal Bundle › Neutral Protease; domain 2 › Neutral Protease Domain 2 0.70 61.0 4.15e-01 97.1% 78.0%
3vwbA00 1.10.10.2830 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › 0.63 50.0 4.34e-01 91.3% 62.9%
2nr9A00 1.20.1540.10 Mainly Alpha › Up-down Bundle › Rhomboid-like fold › Rhomboid-like 0.63 54.0 4.03e-01 100.0% 91.1%
2g8lA02 1.10.285.20 Mainly Alpha › Orthogonal Bundle › Glutamate Dehydrogenase; Chain A, domain 3 › Uncharacterised protein PF01937, DUF89, domain 2 0.57 43.0 4.38e-01 84.1% 86.2%
3h87B00 3.40.50.1010 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 5'-nuclease 0.57 42.0 3.37e-01 100.0% 39.9%
1wgwA00 1.20.120.140 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › SRP54, nucleotide-binding domain 0.56 44.0 3.96e-01 91.3% 60.6%
3kp9A01 1.20.1440.130 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › VKOR domain 0.55 38.0 2.96e-01 72.5% 41.4%
3p0uA00 1.10.565.10 Mainly Alpha › Orthogonal Bundle › Retinoid X Receptor › Retinoid X Receptor 0.55 47.0 3.31e-01 95.7% 71.2%
2cruA01 1.10.8.140 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › PDCD5, DNA-binding domain 0.54 44.0 4.37e-01 98.6% 87.0%
3lynB00 1.20.150.10 Mainly Alpha › Up-down Bundle › Lysin › Fertilization protein 0.54 43.0 3.64e-01 91.3% 67.7%
3djaA01 1.20.920.70 Mainly Alpha › Up-down Bundle › Histone Acetyltransferase; Chain A › 0.53 39.0 3.09e-01 78.3% 47.6%
1qamA02 1.10.8.100 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › rRNA adenine dimethylase, C-terminal domain 0.53 39.0 3.79e-01 78.3% 96.2%
2q00B00 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.53 39.0 3.29e-01 79.7% 80.3%
2p9xA00 1.10.1200.200 Mainly Alpha › Orthogonal Bundle › Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein; Chain A › Protein of unknown function DUF3227 0.52 36.0 3.26e-01 72.5% 57.1%
3solA00 1.20.58.1630 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Chaperone lipoprotein PulS/OutS 0.52 41.0 3.78e-01 87.0% 79.1%
3hx3A01 1.10.8.20 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › N-terminal domain of phosphatidylinositol transfer protein sec14p 0.51 40.0 4.06e-01 91.3% 92.5%
6ifsB02 1.10.8.100 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › rRNA adenine dimethylase, C-terminal domain 0.51 34.0 3.47e-01 88.4% 70.4%
3a06B03 1.10.1740.10 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › RNA polymerase sigma factor, region 2, helix turn helix motif 0.50 41.0 3.90e-01 98.6% 95.5%
ECOD (26)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5039000 2498.1.1.9 mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" › Peptidase_M1 0.69 60.0 4.07e-01 97.1% 78.0%
5028154 3831.1.1.0 alpha bundles › Secreted protein of unknown function DUF1311 › Secreted protein of unknown function DUF1311 › Secreted protein of unknown function DUF1311 0.66 50.0 4.16e-01 82.6% 64.8%
3467052 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 0.66 57.0 4.67e-01 100.0% 75.6%
3445009 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 0.64 53.0 4.07e-01 98.6% 55.3%
4447919 171.1.1.4 alpha arrays › RNase III catalytic domain-like › RNase III catalytic domain-like › RNase III catalytic domain-like › Ribonucleas_3_3 0.63 46.0 3.53e-01 78.3% 72.1%
5003589 181.1.1.0 alpha bundles › Domain of the SRP/SRP receptor G proteins-like › Domain of the SRP/SRP receptor G-proteins › Domain of the SRP/SRP receptor G-proteins 0.62 47.0 4.49e-01 84.1% 81.2%
2323977 1198.1.1.0 alpha bundles › BTA121 › BTA121 › BTA121 0.62 53.0 4.28e-01 97.1% 79.4%
3953437 3317.1.1.0 alpha arrays › KorB C-terminal domain-like › KorB C-terminal domain › KorB C-terminal domain 0.61 52.0 4.48e-01 100.0% 61.7%
3955872 101.1.2.567 alpha arrays › HTH › HTH › winged helix domain › DUF222 0.58 50.0 3.97e-01 98.6% 48.0%
3727351 7579.1.1.47 a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases › BD-FAE 0.58 42.0 2.66e-01 75.4% 41.1%
3287025 620.1.1.5 alpha bundles › YfiT-like putative metal-dependent hydrolases › YfiT-like putative metal-dependent hydrolases › YfiT-like putative metal-dependent hydrolases › MDMPI_N 0.58 45.0 3.67e-01 84.1% 50.8%
4975642 610.3.1.0 alpha arrays › ERP29 C domain-like › GatB/GatE C-terminal domain › GatB/GatE C-terminal domain 0.58 48.0 3.74e-01 100.0% 41.7%
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 0.56 41.0 3.52e-01 78.3% 89.1%
3863706 171.1.1.5 alpha arrays › RNase III catalytic domain-like › RNase III catalytic domain-like › RNase III catalytic domain-like › RM44_endonuclase 0.55 40.0 2.95e-01 78.3% 47.1%
4659977 101.1.1.282 alpha arrays › HTH › HTH › Three-helical HTH › DUF222 0.55 47.0 3.63e-01 100.0% 41.7%
3954906 378.1.1.23 few secondary structure elements › His-Me finger endonucleases › His-Me finger endonucleases › His-Me finger endonucleases › DUF222 0.55 48.0 3.76e-01 100.0% 47.1%
3767057 148.1.3.0 alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.55 46.0 4.57e-01 97.1% 89.3%
5052864 171.1.1.1 alpha arrays › RNase III catalytic domain-like › RNase III catalytic domain-like › RNase III catalytic domain-like › Ribonuclease_3 0.55 44.0 3.55e-01 92.8% 69.7%
3890797 148.1.3.0 alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.55 46.0 4.53e-01 100.0% 94.7%
4962749 327.19.1.1 a+b two layers › Alpha-lytic protease prodomain-like › DNA mismatch repair protein MutL regulatory subdomain › DNA mismatch repair protein MutL regulatory subdomain › MutL_C 0.54 44.0 4.10e-01 92.8% 92.2%
4118498 181.1.1.1 alpha bundles › Domain of the SRP/SRP receptor G proteins-like › Domain of the SRP/SRP receptor G-proteins › Domain of the SRP/SRP receptor G-proteins › SRP54_N 0.54 41.0 3.86e-01 84.1% 67.1%
3963136 3317.1.1.0 alpha arrays › KorB C-terminal domain-like › KorB C-terminal domain › KorB C-terminal domain 0.54 46.0 3.77e-01 100.0% 53.6%
2478 101.1.1.15 alpha arrays › HTH › HTH › Three-helical HTH › HTH_Tnp_Mu_1 0.53 41.0 3.69e-01 87.0% 92.9%
4003682 148.1.3.0 alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.52 44.0 4.35e-01 98.6% 94.7%
3258250 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 0.52 39.0 3.39e-01 79.7% 83.8%
5038871 632.11.1.0 alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.51 35.0 3.10e-01 72.5% 78.1%
D2 medium residues 73-150
PDB
Domain cluster: representative
CATH (21)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2gxaE01 1.10.10.510 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Zinc finger, large T-antigen D1 domain 0.66 41.0 4.20e-01 83.3% 65.8%
5d0yA00 1.10.1760.20 Mainly Alpha › Orthogonal Bundle › Arp2/3 complex 21 kDa subunit ARPC3 › 0.64 50.0 4.07e-01 87.2% 61.3%
6k9pB02 1.20.1300.20 Mainly Alpha › Up-down Bundle › 3 helical TM bundles of succinate and fumarate reductases › Peptidase C65 Otubain, subdomain 2 0.63 50.0 4.08e-01 88.5% 65.8%
6vydA01 1.10.600.10 Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase 0.61 42.0 2.86e-01 71.8% 55.4%
2dodA00 1.10.10.440 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › FF domain 0.61 37.0 3.74e-01 84.6% 57.3%
2khmA01 1.10.10.1350 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Spidroin domain, C-terminal domain 0.61 38.0 3.44e-01 87.2% 44.4%
2icwG02 1.10.10.530 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › mam-mhc complex, Chain D, Domain 2 0.60 42.0 4.07e-01 74.4% 93.3%
2gbbB00 1.20.59.10 Mainly Alpha › Up-down Bundle › Chorismate Mutase Domain, subunit A › Chorismate mutase 0.59 46.0 3.78e-01 87.2% 89.0%
1a7eA00 1.20.120.50 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Hemerythrin-like 0.57 46.0 4.06e-01 89.7% 90.7%
1e1dA02 1.20.1270.20 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.57 41.0 4.07e-01 76.9% 84.5%
4rajA00 1.20.910.10 Mainly Alpha › Up-down Bundle › Heme Oxygenase; Chain A › Heme oxygenase-like 0.56 42.0 3.19e-01 84.6% 81.9%
4m0mA03 1.20.1270.430 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.55 39.0 3.89e-01 74.4% 81.0%
2g38B00 1.20.1260.20 Mainly Alpha › Up-down Bundle › Ferritin › PPE superfamily 0.54 38.0 3.00e-01 74.4% 89.6%
2ewfA02 1.20.1270.310 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.53 39.0 3.88e-01 78.2% 80.2%
2gf4A00 1.20.1270.110 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Uncharacterised protein family UPF0058 0.53 38.0 3.71e-01 76.9% 69.3%
3qowA01 1.10.260.60 Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › 0.53 41.0 3.64e-01 87.2% 68.9%
5figA00 1.20.1270.360 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.53 39.0 3.62e-01 79.5% 84.0%
3t46A00 1.20.1270.10 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.52 38.0 3.93e-01 78.2% 89.3%
4hr1A00 1.20.1270.410 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.52 38.0 3.34e-01 76.9% 78.0%
1f0jA00 1.10.1300.10 Mainly Alpha › Orthogonal Bundle › Catalytic domain of cyclic nucleotide phosphodiesterase 4b2b › 3'5'-cyclic nucleotide phosphodiesterase, catalytic domain 0.51 41.0 2.77e-01 93.6% 27.6%
1bgcA00 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.50 39.0 3.12e-01 84.6% 90.5%
ECOD (25)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4315800 2004.1.1.72 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › IPT 0.65 52.0 3.67e-01 87.2% 37.9%
4948274 164.1.1.1 alpha bundles › Chorismate mutase II › Chorismate mutase II › Chorismate mutase II › CM_2 0.64 35.0 3.65e-01 87.2% 56.0%
5011971 164.1.1.1 alpha bundles › Chorismate mutase II › Chorismate mutase II › Chorismate mutase II › CM_2 0.60 34.0 3.40e-01 84.6% 52.5%
3176652 632.15.1.0 alpha bundles › immunoglobulin/albumin-binding domain-like › Staphylococcal complement inhibitor (SCIN) › Staphylococcal complement inhibitor (SCIN) 0.58 41.0 4.12e-01 74.4% 75.0%
3589395 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 0.56 40.0 4.04e-01 75.6% 87.5%
3974601 601.3.1.0 alpha bundles › Four-helical up-and-down bundle › Histidine-containing phosphotransfer domain, HPT domain › Histidine-containing phosphotransfer domain, HPT domain 0.56 42.0 3.81e-01 82.1% 75.5%
4380113 632.15.1.4 alpha bundles › immunoglobulin/albumin-binding domain-like › Staphylococcal complement inhibitor (SCIN) › Staphylococcal complement inhibitor (SCIN) › HSP70 0.56 40.0 3.58e-01 75.6% 65.5%
4221251 1128.1.1.8 alpha bundles › LYR protein › LYR protein › LYR protein › PF29574 0.55 40.0 3.93e-01 76.9% 78.8%
4136110 632.7.1.1 alpha bundles › immunoglobulin/albumin-binding domain-like › Heat shock protein 70kD (HSP70), C-terminal subdomain › Heat shock protein 70kD (HSP70), C-terminal subdomain › HSP70 0.55 39.0 4.00e-01 75.6% 90.7%
3420431 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 0.55 39.0 3.82e-01 75.6% 78.8%
4959129 632.11.1.0 alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.54 39.0 3.89e-01 75.6% 82.5%
3488934 6157.1.1.1 alpha bundles › GKAP homology domain 1 › GKAP homology domain 1 › GKAP homology domain 1 › GKAP 0.54 39.0 3.38e-01 76.9% 83.8%
4044489 632.7.1.1 alpha bundles › immunoglobulin/albumin-binding domain-like › Heat shock protein 70kD (HSP70), C-terminal subdomain › Heat shock protein 70kD (HSP70), C-terminal subdomain › HSP70 0.54 38.0 3.77e-01 74.4% 78.8%
5046322 632.11.1.0 alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.54 39.0 3.89e-01 76.9% 86.3%
3724378 5050.1.1.9 alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › MFS_1 0.53 42.0 3.15e-01 85.9% 66.0%
4980369 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 0.53 38.0 3.47e-01 74.4% 62.9%
3592 632.12.1.1 alpha bundles › immunoglobulin/albumin-binding domain-like › Vng1086c-like › Vng1086c-like › UPF0058 0.53 38.0 3.71e-01 76.9% 68.5%
5038580 633.21.1.1 alpha bundles › Bromodomain-like › Uncharacterized protein PA2107 › Uncharacterized protein PA2107 › DUF326 0.53 39.0 3.54e-01 78.2% 85.7%
4520066 632.7.1.1 alpha bundles › immunoglobulin/albumin-binding domain-like › Heat shock protein 70kD (HSP70), C-terminal subdomain › Heat shock protein 70kD (HSP70), C-terminal subdomain › HSP70 0.53 36.0 3.27e-01 73.1% 60.0%
3281161 632.22.1.100 alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats › PF28103 0.52 38.0 3.78e-01 78.2% 80.0%
3896767 632.22.1.0 alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats 0.52 39.0 4.00e-01 80.8% 84.0%
2885017 7579.1.1.10 a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases › Thioesterase 0.52 41.0 2.92e-01 87.2% 34.3%
3996406 604.6.1.0 alpha bundles › Spectrin repeat-like › GAT-like domain › GAT-like domain 0.51 38.0 4.06e-01 100.0% 90.0%
3171901 181.1.1.1 alpha bundles › Domain of the SRP/SRP receptor G proteins-like › Domain of the SRP/SRP receptor G-proteins › Domain of the SRP/SRP receptor G-proteins › SRP54_N 0.51 39.0 3.75e-01 88.5% 95.8%
5016299 632.12.1.1 alpha bundles › immunoglobulin/albumin-binding domain-like › Vng1086c-like › Vng1086c-like › UPF0058 0.50 36.0 3.31e-01 75.6% 58.1%