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NC_049429.1__YP_009879856.1__HYP56_gp16__00016

Bact-Vir

NC_049429.1__YP_009879856.1__HYP56_gp16__00016

Identity

Accession:
NC_049429 ↗
Kingdom:
phage

Quality

88.3 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 3-58
PDB
CATH (51)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2fbaA00 1.50.10.10 Mainly Alpha › Alpha/alpha barrel › Glycosyltransferase › 0.81 71.0 4.12e-01 100.0% 15.7%
3aeiA00 1.10.287.370 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.72 64.0 5.37e-01 100.0% 63.8%
1qviA01 1.20.120.720 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Myosin VI head, motor domain, U50 subdomain 0.71 64.0 4.99e-01 100.0% 83.5%
1d0xA04 1.20.120.720 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Myosin VI head, motor domain, U50 subdomain 0.70 63.0 4.71e-01 100.0% 69.3%
3znuA00 3.30.70.1060 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Dimeric alpha+beta barrel 0.68 42.0 3.48e-01 100.0% 37.2%
1tueD00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.66 48.0 3.31e-01 100.0% 21.8%
4ceiA03 6.10.250.2380 Special › Helix non-globular › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.64 57.0 4.55e-01 100.0% 79.5%
2zdiB00 1.10.287.370 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.64 53.0 4.44e-01 100.0% 53.8%
1yf2A02 1.10.287.1120 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Bipartite methylase S protein 0.63 54.0 4.43e-01 100.0% 55.1%
5b7hB01 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.62 37.0 3.03e-01 92.9% 30.6%
3k17A02 3.30.70.890 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › GHMP kinase, C-terminal domain 0.61 48.0 3.66e-01 98.2% 35.7%
3e9lA02 1.20.80.40 Mainly Alpha › Up-down Bundle › Acyl-CoA Binding Protein › Prp8 RNase H domain, fingers region 0.60 47.0 3.94e-01 92.9% 49.5%
7tjbA01 3.40.50.1110 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › SGNH hydrolase 0.60 51.0 3.49e-01 96.4% 52.4%
2o6yA02 1.20.200.10 Mainly Alpha › Up-down Bundle › Fumarase C; Chain A, domain 2 › Fumarase/aspartase (Central domain) 0.60 52.0 3.23e-01 100.0% 17.2%
1fxkC00 1.10.287.370 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.59 53.0 3.99e-01 100.0% 51.9%
1x4dA00 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.59 35.0 2.90e-01 96.4% 30.4%
2ja9A02 3.30.1370.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › K Homology domain, type 1 0.58 47.0 4.02e-01 91.1% 57.1%
6ui4A01 1.20.120.720 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Myosin VI head, motor domain, U50 subdomain 0.58 48.0 4.20e-01 96.4% 98.9%
4g7nA01 3.30.1120.120 Alpha Beta › 2-Layer Sandwich › Arylsulfatase, C-terminal domain › 0.57 47.0 3.83e-01 98.2% 86.0%
1sfxB00 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 0.57 49.0 4.07e-01 98.2% 91.3%
1nu7D02 1.20.120.760 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Staphylcoagulase, helix bundle, domain 2 0.57 45.0 3.53e-01 98.2% 39.8%
4m5bA00 1.10.1760.20 Mainly Alpha › Orthogonal Bundle › Arp2/3 complex 21 kDa subunit ARPC3 › 0.57 47.0 3.20e-01 94.6% 24.8%
4esbA00 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 0.57 48.0 3.96e-01 96.4% 90.3%
1ki1B02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.56 48.0 3.51e-01 100.0% 36.6%
3uoxB01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.56 49.0 3.12e-01 98.2% 72.9%
3gr5A02 3.30.1370.120 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › 0.56 46.0 4.34e-01 91.1% 79.4%
2dqlA00 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 0.55 48.0 3.84e-01 100.0% 87.8%
3terA00 1.10.287.3550 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.55 47.0 3.74e-01 100.0% 47.9%
2jiiA02 1.10.510.10 Mainly Alpha › Orthogonal Bundle › Transferase(Phosphotransferase); domain 1 › Transferase(Phosphotransferase) domain 1 0.55 44.0 3.14e-01 96.4% 91.5%
3g8rA01 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.54 42.0 2.67e-01 82.1% 30.9%
4hqeA00 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 0.54 41.0 3.48e-01 87.5% 76.2%
1s12A00 3.30.70.1490 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Cysteine protease Prp 0.53 45.0 3.87e-01 100.0% 66.0%
6denA03 3.40.50.970 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Thiamin diphosphate (ThDP)-binding fold, Pyr/PP domains 0.53 43.0 2.91e-01 94.6% 40.8%
7xinA03 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.53 44.0 3.45e-01 89.3% 47.7%
2r7rA05 1.10.357.80 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › 0.52 45.0 3.18e-01 98.2% 91.5%
3ungC03 3.30.70.270 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Reverse transcriptase/Diguanylate cyclase domain 0.52 39.0 2.95e-01 80.4% 82.7%
1rqgA01 3.40.50.620 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs 0.52 46.0 3.24e-01 100.0% 33.5%
3axsA02 3.30.56.70 Alpha Beta › 2-Layer Sandwich › Phenylalanyl-tRNA Synthetase; Chain B, domain 1 › N2,N2-dimethylguanosine tRNA methyltransferase, C-terminal domain 0.52 42.0 4.00e-01 87.5% 78.5%
3blvC00 3.40.718.10 Alpha Beta › 3-Layer(aba) Sandwich › Isopropylmalate Dehydrogenase › Isopropylmalate Dehydrogenase 0.52 43.0 2.75e-01 100.0% 84.3%
7e6gA01 3.30.70.270 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Reverse transcriptase/Diguanylate cyclase domain 0.51 45.0 3.32e-01 100.0% 43.0%
7va8A01 3.40.50.2000 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Glycogen Phosphorylase B; 0.51 42.0 2.78e-01 94.6% 35.1%
3es5A02 1.20.272.60 Mainly Alpha › Up-down Bundle › Zinc Finger, Delta Prime; domain 3 › 0.51 43.0 3.45e-01 100.0% 59.0%
1aisA02 3.30.310.10 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › TATA-Binding Protein 0.51 44.0 3.84e-01 98.2% 79.3%
3oh8A01 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.51 40.0 3.24e-01 100.0% 67.1%
1q16A10 1.20.1700.20 Mainly Alpha › Up-down Bundle › AF1104-like › 0.51 41.0 3.63e-01 96.4% 78.7%
5ly3A02 3.30.420.570 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › 0.51 39.0 2.69e-01 87.5% 59.4%
1ydlA00 3.30.70.1220 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › TFB5-like 0.50 30.0 2.90e-01 96.4% 45.1%
1f02T00 4.10.820.10 Few Secondary Structures › Irregular › Translocated Intimin Receptor; Chain T › Translocated intimin receptor, central domain 0.50 42.0 3.98e-01 91.1% 97.0%
2anrA02 3.30.1370.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › K Homology domain, type 1 0.50 42.0 3.83e-01 92.9% 77.3%
4r5zA01 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.50 40.0 3.10e-01 94.6% 38.9%
4ritA01 3.90.1150.170 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › 0.50 40.0 2.66e-01 87.5% 23.6%
ECOD (54)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3218453 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.82 56.0 3.48e-01 100.0% 14.1%
5058130 304.120.1.6 a+b two layers › Alpha-beta plaits › Ferredoxin-like domain in ThiI › Ferredoxin-like domain in ThiI › ThiI_fer 0.81 38.0 3.42e-01 78.6% 36.0%
4463557 192.2.1.2 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.69 61.0 5.13e-01 100.0% 66.3%
4410759 192.2.1.2 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.68 61.0 4.79e-01 100.0% 52.2%
4215083 304.48.1.10 a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › IMS 0.67 42.0 3.19e-01 91.1% 27.7%
3716174 192.2.1.0 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.67 58.0 4.71e-01 100.0% 63.6%
4278105 633.23.1.17 alpha bundles › Bromodomain-like › Claudin › Claudin › DuoxA 0.66 55.0 3.63e-01 100.0% 23.7%
3707907 320.4.1.3 a+b two layers › R3H domain-like › PUB domain › PUB domain › PUB 0.66 60.0 4.66e-01 100.0% 89.6%
3198044 604.6.1.0 alpha bundles › Spectrin repeat-like › GAT-like domain › GAT-like domain 0.66 56.0 4.78e-01 100.0% 74.7%
3807409 109.4.1.1491 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_1, TPR_8, TPR_11, TPR_16 0.64 43.0 2.60e-01 94.6% 10.7%
3799048 633.23.1.0 alpha bundles › Bromodomain-like › Claudin › Claudin 0.64 56.0 3.79e-01 100.0% 27.5%
3985268 5085.1.1.1 a+b duplicates or obligate multimers › Outer membrane efflux proteins (OEP) › Outer membrane efflux proteins (OEP) › Outer membrane efflux proteins (OEP) › OEP 0.64 49.0 3.19e-01 100.0% 18.8%
3381691 601.23.1.4 alpha bundles › Four-helical up-and-down bundle › DNA repair protein MutS, domain III › DNA repair protein MutS, domain III › MutS_IV, MutS_III 0.62 52.0 3.22e-01 92.9% 87.8%
4030338 601.23.1.1 alpha bundles › Four-helical up-and-down bundle › DNA repair protein MutS, domain III › DNA repair protein MutS, domain III › MutS_III 0.61 51.0 3.06e-01 92.9% 85.3%
4025349 3567.1.1.0 a+b duplicates or obligate multimers › MPER trimer › MPER trimer › MPER trimer 0.61 54.0 4.10e-01 100.0% 70.0%
3628972 633.23.1.5 alpha bundles › Bromodomain-like › Claudin › Claudin › Clc-like 0.61 53.0 3.56e-01 100.0% 26.2%
3726808 4163.1.1.1 alpha bundles › GINS helical bundle-like › GINS helical bundle-like › PSF1 N-terminal domain-like › Sld5 0.61 43.0 2.98e-01 75.0% 84.4%
4975506 304.24.1.0 a+b two layers › Alpha-beta plaits › EF-G C-terminal domain-like › EF-G C-terminal domain-like 0.60 37.0 3.41e-01 91.1% 45.3%
3630462 192.2.1.2 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.60 49.0 3.85e-01 100.0% 47.9%
3946654 517.2.1.0 beta barrels › CBF-like › TraF › TraF 0.60 53.0 3.35e-01 100.0% 20.0%
3516510 304.48.1.6 a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_A 0.60 46.0 3.56e-01 91.1% 38.7%
4969054 304.28.1.0 a+b two layers › Alpha-beta plaits › Ferredoxin domains in multidrug efflux transporter › Multidrug efflux transporter AcrB pore domain 0.60 40.0 3.64e-01 94.6% 52.0%
3613028 320.4.1.3 a+b two layers › R3H domain-like › PUB domain › PUB domain › PUB 0.59 48.0 4.02e-01 100.0% 81.7%
3926959 605.6.1.0 alpha duplicates or obligate multimers › ROP-like › HP1531-like › HP1531-like 0.59 51.0 4.50e-01 100.0% 97.6%
4887090 3834.1.1.1 alpha bundles › TcA alpha pore-forming domain › TcA alpha pore-forming domain › TcA alpha pore-forming domain › TcA_TcB_BD 0.59 48.0 2.95e-01 100.0% 14.7%
4115648 3671.1.1.1 alpha duplicates or obligate multimers › Translocated intimin receptor Tir extracellular domain › Translocated intimin receptor Tir extracellular domain › Translocated intimin receptor Tir extracellular domain › Tir_receptor_M 0.58 48.0 4.17e-01 91.1% 65.9%
5039294 4038.1.1.1 alpha bundles › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein › Phage_portal 0.57 51.0 3.20e-01 100.0% 32.5%
2120642 304.48.1.4 a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › Guanylate_cyc 0.57 47.0 3.52e-01 91.1% 42.8%
3271984 7015.1.1.0 alpha bundles › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain 0.56 50.0 3.67e-01 98.2% 40.0%
3508465 601.23.1.4 alpha bundles › Four-helical up-and-down bundle › DNA repair protein MutS, domain III › DNA repair protein MutS, domain III › MutS_IV, MutS_III 0.56 49.0 3.21e-01 100.0% 88.8%
4980947 304.4.1.0 a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel 0.56 46.0 3.91e-01 98.2% 56.7%
3937537 3755.3.1.462 alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › Pinin_SDK_memA 0.55 47.0 3.18e-01 100.0% 24.4%
3640935 3543.1.1.4 alpha complex topology › Acid-activated urea channel › Acid-activated urea channel › Acid-activated urea channel › DUF716 0.55 47.0 3.14e-01 100.0% 26.0%
4673395 621.1.1.0 alpha bundles › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain 0.55 48.0 3.06e-01 100.0% 20.0%
3776345 327.11.2.14 a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) › KH_9 0.55 43.0 3.60e-01 83.9% 69.5%
3943006 4038.1.1.1 alpha bundles › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein › Phage_portal 0.55 48.0 3.05e-01 100.0% 32.1%
4025692 601.23.1.1 alpha bundles › Four-helical up-and-down bundle › DNA repair protein MutS, domain III › DNA repair protein MutS, domain III › MutS_III 0.54 46.0 2.90e-01 100.0% 79.7%
3233305 327.11.2.1 a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) › KH_1 0.54 45.0 4.09e-01 91.1% 85.3%
3948181 304.54.1.0 a+b two layers › Alpha-beta plaits › CcmK-like › CcmK-like 0.54 42.0 3.85e-01 83.9% 100.0%
3595554 2006.1.4.0 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like 0.54 45.0 3.14e-01 100.0% 26.3%
3259742 327.11.2.0 a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) 0.54 46.0 4.12e-01 92.9% 69.3%
4025596 327.11.2.0 a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) 0.53 39.0 3.89e-01 89.3% 75.0%
3164784 4038.1.1.8 alpha bundles › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein › Abc1-like 0.53 43.0 2.73e-01 98.2% 17.0%
4990535 305.2.1.2 a+b two layers › DCoH-like › Pterin-4a-carbinolamine dehydratase (PCD)/dimerization cofactor of HNF1 (DCoH) › Pterin-4a-carbinolamine dehydratase (PCD)/dimerization cofactor of HNF1 (DCoH) › DUF2067 0.53 43.0 4.10e-01 94.6% 75.4%
3777845 633.23.1.17 alpha bundles › Bromodomain-like › Claudin › Claudin › DuoxA 0.53 44.0 2.88e-01 98.2% 20.4%
3782927 304.9.1.176 a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › PF29153 0.53 46.0 3.64e-01 98.2% 57.4%
4973780 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 0.52 40.0 2.48e-01 87.5% 15.3%
4568363 304.1.1.1 a+b two layers › Alpha-beta plaits › GHMP Kinase, C-terminal domain › GHMP Kinase, C-terminal domain › GHMP_kinases_C 0.52 36.0 2.84e-01 75.0% 76.0%
4269197 3016.1.1.0 a+b two layers › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases 0.52 44.0 3.88e-01 92.9% 87.5%
4994261 3501.1.1.0 a+b two layers › protein PCC1 › protein PCC1 › protein PCC1 0.52 43.0 3.76e-01 91.1% 64.3%
4305577 327.11.2.1 a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) › KH_1 0.51 44.0 3.66e-01 96.4% 93.0%
4999908 3501.1.1.0 a+b two layers › protein PCC1 › protein PCC1 › protein PCC1 0.51 45.0 4.28e-01 96.4% 87.7%
4856819 304.48.1.0 a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like 0.51 44.0 2.99e-01 100.0% 27.2%
4166546 304.1.1.1 a+b two layers › Alpha-beta plaits › GHMP Kinase, C-terminal domain › GHMP Kinase, C-terminal domain › GHMP_kinases_C 0.51 40.0 3.02e-01 85.7% 36.1%