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KM591905.1__AIT13467.1__PBI_RONRAYGUN_54__00054

Bact-Vir

KM591905.1__AIT13467.1__PBI_RONRAYGUN_54__00054

Identity

Accession:
KM591905 ↗
Kingdom:
phage

Quality

78.4 mean pLDDT

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 152-217
PDB
CATH (29)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
6u10A00 3.60.15.10 Alpha Beta › 4-Layer Sandwich › Metallo-beta-lactamase; Chain A › Ribonuclease Z/Hydroxyacylglutathione hydrolase-like 0.68 48.0 3.19e-01 90.9% 18.2%
4qiwB04 3.90.1110.10 Alpha Beta › Alpha-Beta Complex › Dna-directed Rna Polymerase Ii 140kd Polypeptide; Chain: B; domain 3 › RNA polymerase Rpb2, domain 2 0.65 56.0 4.24e-01 98.5% 93.9%
6n36A00 3.60.15.10 Alpha Beta › 4-Layer Sandwich › Metallo-beta-lactamase; Chain A › Ribonuclease Z/Hydroxyacylglutathione hydrolase-like 0.64 49.0 3.33e-01 84.8% 28.7%
2cm4A00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.61 52.0 4.10e-01 97.0% 89.0%
1gpqB00 3.40.1420.10 Alpha Beta › 3-Layer(aba) Sandwich › Inhibitor of vertebrate lysozyme, Ivy › Inhibitor of vertebrate lysozyme 0.60 48.0 4.00e-01 92.4% 88.3%
3f02B02 2.30.39.10 Mainly Beta › Roll › Alpha-1-antitrypsin; domain 1 › Alpha-1-antitrypsin, domain 1 0.60 47.0 4.13e-01 86.4% 60.0%
2rqlA00 3.30.160.100 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Ribosome hibernation promotion factor-like 0.59 40.0 3.55e-01 77.3% 48.4%
3rf9B02 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.59 50.0 3.37e-01 100.0% 29.4%
2qq6A01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.58 51.0 4.25e-01 98.5% 84.5%
3ecrB03 3.30.160.40 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Porphobilinogen deaminase, C-terminal domain 0.58 44.0 3.78e-01 80.3% 62.7%
3sluA02 3.10.450.350 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.56 46.0 3.71e-01 93.9% 92.7%
1vbiA02 3.30.1370.60 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › Malate/L-lactate/L-sulpholactate dehydrogenase, NADPH binding domain 0.55 37.0 2.57e-01 71.2% 86.1%
1fhoA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.54 44.0 3.74e-01 93.9% 95.0%
1vw4M01 2.30.30.790 Mainly Beta › Roll › SH3 type barrels. › 0.54 47.0 3.80e-01 100.0% 64.4%
2d4rA00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.54 47.0 3.69e-01 100.0% 74.7%
4dy0B02 2.30.39.10 Mainly Beta › Roll › Alpha-1-antitrypsin; domain 1 › Alpha-1-antitrypsin, domain 1 0.53 41.0 3.40e-01 86.4% 46.9%
1t6aA02 3.30.310.120 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › Rbstp2229 like protein 0.53 44.0 4.26e-01 100.0% 96.2%
2zwaA02 2.120.10.80 Mainly Beta › 6 Propeller › Neuraminidase › Kelch-type beta propeller 0.53 44.0 2.95e-01 100.0% 53.3%
1d1jB00 3.30.450.30 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Dynein light chain 2a, cytoplasmic 0.53 44.0 3.57e-01 97.0% 100.0%
2oc3A00 3.90.190.10 Alpha Beta › Alpha-Beta Complex › Protein-Tyrosine Phosphatase; Chain A › Protein tyrosine phosphatase superfamily 0.52 41.0 2.83e-01 92.4% 26.2%
1d5aA01 3.30.342.10 Alpha Beta › 2-Layer Sandwich › DNA Polymerase; Chain A, domain 1 › DNA Polymerase, chain B, domain 1 0.52 38.0 3.08e-01 83.3% 42.4%
2lexA00 2.20.25.80 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › WRKY domain 0.51 37.0 3.77e-01 78.8% 85.7%
2lezA00 3.30.2450.10 Alpha Beta › 2-Layer Sandwich › Secreted effector protein pipB2 fold › Secreted effector protein pipB2 0.51 44.0 3.69e-01 100.0% 66.7%
1whqA01 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.51 39.0 3.79e-01 84.8% 74.6%
1mgtA01 3.30.160.70 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Methylated DNA-protein cysteine methyltransferase domain 0.51 34.0 3.12e-01 80.3% 52.3%
3cpxA02 2.40.30.40 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Peptidase M42, domain 2 0.50 32.0 3.28e-01 80.3% 66.1%
3kulA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.50 36.0 3.31e-01 77.3% 94.4%
2cy5A00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.50 39.0 3.19e-01 86.4% 97.7%
1h10A00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.50 43.0 3.63e-01 100.0% 96.6%
ECOD (24)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5042137 244.3.1.6 a+b two layers › FAD-linked reductases, C-terminal domain-like › SufE/NifU › SufE/NifU › TSCPD 0.65 51.0 4.34e-01 90.9% 86.7%
3974984 219.1.1.67 a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › ElaD-SseL-like_C,ElaD_SseL-like_N 0.63 51.0 3.34e-01 92.4% 29.5%
3334359 221.4.1.1 a+b two layers › beta-Grasp › Nudix › Nudix › NUDIX 0.59 51.0 3.81e-01 100.0% 88.3%
4992891 331.16.1.1 a+b two layers › TBP-like › TA0095-like › TA0095-like › DUF5611 0.58 47.0 4.24e-01 97.0% 74.0%
3619264 330.1.1.1 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.56 36.0 3.28e-01 77.3% 47.8%
3514888 2011.2.1.0 a/b three-layered sandwiches › Phosphorylase/hydrolase-like › Peptidyl-tRNA hydrolase-like › Peptidyl-tRNA hydrolase-like 0.56 43.0 3.14e-01 90.9% 27.1%
4993183 2004.1.1.86 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › FeoB_N 0.56 40.0 2.87e-01 74.2% 31.6%
4959998 220.1.1.0 beta barrels › PH domain-like › PH domain-like › PH domain-like 0.56 50.0 4.28e-01 100.0% 91.4%
3712058 2484.1.1.72 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › YqgF 0.56 43.0 3.26e-01 83.3% 88.1%
3785991 241.15.1.3 a+b two layers › Type III secretory system chaperone-like › FP (Fbxo7/PI31) dimerization domain › FP (Fbxo7/PI31) dimerization domain › SPC25 0.55 38.0 3.27e-01 71.2% 48.1%
3350473 331.1.1.0 a+b two layers › TBP-like › TATA-box binding protein-like › TATA-box binding protein-like 0.55 46.0 4.54e-01 100.0% 95.7%
3931594 330.1.1.0 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.54 43.0 3.84e-01 84.8% 63.3%
3938330 206.1.1.20 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › PK_Tyr_Ser-Thr 0.53 45.0 2.99e-01 98.5% 42.0%
3173796 331.1.1.5 a+b two layers › TBP-like › TATA-box binding protein-like › TATA-box binding protein-like › OGG_N 0.53 39.0 3.63e-01 80.3% 65.9%
3718333 2.6.1.1 beta barrels › OB-fold › Staphylococcal nuclease › Staphylococcal nuclease › SNase 0.53 41.0 3.34e-01 87.9% 80.0%
3903627 206.1.1.74 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase, PK_Tyr_Ser-Thr 0.53 45.0 2.96e-01 98.5% 36.8%
4943435 2004.1.1.0 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.52 39.0 2.97e-01 83.3% 32.6%
3492440 330.1.1.1 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.52 39.0 3.13e-01 83.3% 41.6%
4936553 2004.1.1.73 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › MMR_HSR1 0.52 42.0 3.12e-01 97.0% 33.7%
3820157 5.1.4.550 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Kelch_FKB95 0.52 44.0 3.20e-01 95.5% 61.1%
3802643 330.1.1.0 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.52 34.0 3.08e-01 75.8% 47.4%
3670595 330.1.1.0 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.52 34.0 3.06e-01 75.8% 47.4%
4975481 2004.1.1.0 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.52 39.0 2.88e-01 84.8% 28.7%
4026006 330.1.1.0 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.50 38.0 3.56e-01 81.8% 66.3%
D2 medium residues 22-141
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF24260.2 best DUF7461 69.5 2.00e-19 44.2% 86.8%
CATH (21)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3m7gA02 1.10.8.1010 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.79 41.0 4.59e-01 84.2% 64.2%
2wb7A03 1.20.120.870 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › pT26-6p, five-helical bundle domain 0.73 43.0 4.12e-01 85.8% 51.5%
1or7B01 1.10.1740.10 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › RNA polymerase sigma factor, region 2, helix turn helix motif 0.72 35.0 3.99e-01 85.8% 59.6%
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 0.72 39.0 4.47e-01 84.2% 71.3%
2pmrA00 1.20.1270.90 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › AF1782-like 0.67 32.0 3.89e-01 80.0% 69.7%
3na7A00 1.10.287.1490 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.63 46.0 3.65e-01 75.0% 60.3%
4iloA00 1.10.287.1490 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.62 45.0 3.62e-01 75.0% 73.7%
1wleA01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.62 42.0 4.35e-01 70.0% 97.4%
2o7gA00 1.10.1740.10 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › RNA polymerase sigma factor, region 2, helix turn helix motif 0.60 30.0 3.39e-01 79.2% 60.2%
1ni3A03 1.10.150.300 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Obg-related GTPase Ych/YyaF, coiled-coil domain 0.60 37.0 4.30e-01 79.2% 83.5%
1uruA01 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.57 46.0 3.81e-01 85.8% 74.2%
3wmeA01 1.20.1560.10 Mainly Alpha › Up-down Bundle › ABC transporter transmembrane region fold › ABC transporter type 1, transmembrane domain 0.57 42.0 3.05e-01 75.8% 37.0%
3o6xA02 1.20.120.1560 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.57 44.0 4.08e-01 83.3% 65.5%
2gd5A00 6.10.140.1230 Special › Helix non-globular › Helix Hairpins › 0.56 45.0 4.30e-01 86.7% 72.5%
2efkA01 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.55 44.0 3.43e-01 85.8% 76.3%
7zo9A01 1.20.1560.10 Mainly Alpha › Up-down Bundle › ABC transporter transmembrane region fold › ABC transporter type 1, transmembrane domain 0.54 43.0 3.22e-01 85.8% 40.9%
4mrsA01 1.20.1560.10 Mainly Alpha › Up-down Bundle › ABC transporter transmembrane region fold › ABC transporter type 1, transmembrane domain 0.53 42.0 3.07e-01 85.0% 43.3%
4akgA02 1.20.140.100 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Dynein motor heavy chain, linker domain, N-terminal subdomain 0.53 44.0 3.95e-01 90.0% 64.3%
3r6nA02 1.20.58.1060 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.51 41.0 3.79e-01 85.0% 74.2%
1a36A04 1.10.132.10 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › 0.51 41.0 3.58e-01 90.0% 57.7%
2pmsC00 6.10.140.920 Special › Helix non-globular › Helix Hairpins › 0.51 41.0 4.32e-01 90.8% 94.5%
ECOD (27)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3989493 1075.4.1.1 alpha bundles › Type II ABC exporter transmembrane domain fold › Type I ABC exporter transmembrane domain fold › Type I ABC exporter transmembrane domain fold › ABC_membrane 0.70 50.0 3.62e-01 73.3% 95.0%
4945254 1075.4.1.1 alpha bundles › Type II ABC exporter transmembrane domain fold › Type I ABC exporter transmembrane domain fold › Type I ABC exporter transmembrane domain fold › ABC_membrane 0.68 49.0 3.56e-01 74.2% 91.5%
3591771 611.8.1.0 alpha bundles › N-cbl like › C-terminal domain of E3 ubiquitin-protein ligase ARIH1 › C-terminal domain of E3 ubiquitin-protein ligase ARIH1 0.67 48.0 4.40e-01 88.3% 58.0%
3750261 192.8.1.421 alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain › DUF4745 0.66 53.0 5.13e-01 85.0% 74.8%
4963973 1203.1.2.0 alpha bundles › Shroom domain 2 › Shroom domain 2 › Human SD2 0.65 52.0 4.63e-01 84.2% 78.2%
3530722 4177.1.1.150 alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like › DUF4745 0.65 51.0 4.90e-01 84.2% 73.3%
4534734 192.7.1.0 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm 0.64 53.0 5.27e-01 87.5% 91.2%
3255249 3939.1.1.0 alpha duplicates or obligate multimers › XRCC4 C-terminal oligomerization domain › XRCC4 C-terminal oligomerization domain › XRCC4 C-terminal oligomerization domain 0.63 46.0 4.48e-01 75.8% 79.3%
5037413 3755.3.1.0 alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.61 47.0 4.30e-01 82.5% 79.4%
3930842 4177.1.1.10 alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like › GMIP-like_FCH 0.61 49.0 3.67e-01 85.8% 71.5%
3168735 4177.1.1.9 alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like › Snx8_BAR_dom 0.61 50.0 3.81e-01 86.7% 70.2%
4357931 3579.1.1.0 extended segments › NADH-quinone oxidoreductase subunit J › NADH-quinone oxidoreductase subunit J › NADH-quinone oxidoreductase subunit J 0.61 36.0 3.58e-01 71.7% 54.4%
4988623 3922.1.1.0 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 0.60 47.0 3.55e-01 80.8% 57.0%
3613349 5086.1.1.0 alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins 0.60 41.0 3.69e-01 80.8% 50.9%
3586746 603.1.1.133 alpha bundles › STAT-like › t-snare proteins › t-snare proteins › DUF7799 0.60 43.0 4.39e-01 77.5% 75.8%
3235225 4177.1.1.5 alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like › Vps5 0.59 49.0 3.97e-01 87.5% 78.6%
3573035 109.4.1.3370 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PL48 0.58 46.0 4.43e-01 82.5% 90.4%
3845925 604.1.1.0 alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.58 41.0 4.08e-01 79.2% 69.6%
3993997 604.1.1.139 alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › DUF7799 0.58 42.0 4.23e-01 77.5% 75.0%
3221686 5001.1.1.41 alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7TM_GPCR_Srw 0.56 45.0 4.14e-01 92.5% 66.5%
4458487 4177.1.1.2 alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like › BAR 0.56 45.0 3.66e-01 85.8% 66.4%
4570960 605.1.1.137 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › RRP36 0.54 43.0 3.95e-01 97.5% 64.4%
4591574 4006.1.1.1 alpha bundles › Release factor (Pfam 00472) N-terminal alpha helical domain › Release factor (Pfam 00472) N-terminal alpha helical domain › Release factor (Pfam 00472) N-terminal alpha helical domain › PCRF 0.54 41.0 4.20e-01 85.8% 81.7%
4531598 4970.1.1.14 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 › RRP36 0.54 42.0 3.89e-01 98.3% 65.2%
4561607 4006.1.1.1 alpha bundles › Release factor (Pfam 00472) N-terminal alpha helical domain › Release factor (Pfam 00472) N-terminal alpha helical domain › Release factor (Pfam 00472) N-terminal alpha helical domain › PCRF 0.53 40.0 4.08e-01 85.8% 79.2%
3696922 3291.1.1.1 alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Snf7 0.51 45.0 4.16e-01 93.3% 87.3%
3518967 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 0.51 42.0 3.16e-01 92.5% 34.4%