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S2_006_000_R2_scaffold_7_prodigal-single.1__X__X__00338

Bact-Vir

S2_006_000_R2_scaffold_7_prodigal-single.1__X__X__00338

Identity

Kingdom:
phage

Quality

66.8 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 14-94
PDB
Domain cluster: representative
CATH (47)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4by2B00 2.60.450.20 Mainly Beta › Sandwich › lipopolysaccharide transport protein A fold › 0.70 35.0 2.77e-01 90.1% 24.5%
3ezjA02 3.30.1370.120 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › 0.68 47.0 5.08e-01 84.0% 86.8%
4v1al00 3.30.780.10 Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor Eif1 › SUI1-like domain 0.65 53.0 4.44e-01 98.8% 52.6%
3jtzA00 3.30.160.390 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Integrase, DNA-binding domain 0.65 37.0 3.87e-01 100.0% 59.7%
3uqcB01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.65 52.0 4.97e-01 86.4% 81.7%
1dd5A02 3.30.1360.40 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › 0.65 41.0 4.21e-01 81.5% 68.0%
3mzkB01 6.20.50.30 Special › Other non-globular › N-terminal domain of TfIIb › 0.64 29.0 3.87e-01 86.4% 86.8%
1vw4700 3.30.780.10 Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor Eif1 › SUI1-like domain 0.64 51.0 4.75e-01 98.8% 68.9%
2pulB01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.63 49.0 4.71e-01 90.1% 72.8%
1k1gA00 3.30.1370.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › K Homology domain, type 1 0.62 48.0 4.22e-01 84.0% 76.2%
1k8kD02 3.30.1460.20 Alpha Beta › 2-Layer Sandwich › Yope Regulator; Chain: A, › 0.62 54.0 4.69e-01 100.0% 66.4%
3l4jA04 3.30.1360.40 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › 0.62 54.0 5.01e-01 97.5% 92.2%
1fg7A02 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.61 48.0 4.18e-01 97.5% 54.3%
6ctzA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.61 49.0 4.69e-01 91.4% 75.3%
5cq2A02 2.20.70.10 Mainly Beta › Single Sheet › Ubiquitin Ligase Nedd4; Chain: W; › 0.61 29.0 3.67e-01 96.3% 79.1%
5iqaA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.61 48.0 4.66e-01 84.0% 76.7%
2kwaA00 3.30.1360.40 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › 0.61 52.0 4.87e-01 96.3% 91.1%
3fcrA01 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.60 53.0 4.11e-01 100.0% 50.3%
4wsqB00 1.10.510.10 Mainly Alpha › Orthogonal Bundle › Transferase(Phosphotransferase); domain 1 › Transferase(Phosphotransferase) domain 1 0.60 54.0 3.59e-01 100.0% 46.8%
6i3gA02 3.90.76.10 Alpha Beta › Alpha-Beta Complex › Dipeptide-binding Protein; domain 1 › Dipeptide-binding Protein; Domain 1 0.59 51.0 4.62e-01 100.0% 80.5%
3rgfA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.59 47.0 4.47e-01 86.4% 71.9%
3havA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.59 44.0 4.30e-01 86.4% 73.0%
5m07A01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.59 46.0 4.49e-01 86.4% 80.2%
3hdoA01 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.58 48.0 4.18e-01 100.0% 57.7%
4dzoA02 3.30.457.60 Alpha Beta › 2-Layer Sandwich › Copper Amine Oxidase; Chain A, domain 1 › 0.58 40.0 4.10e-01 100.0% 75.3%
6fdyU01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.57 46.0 4.64e-01 86.4% 87.5%
1cc8A00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.57 43.0 4.58e-01 84.0% 91.7%
3qszA00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.57 49.0 3.95e-01 100.0% 93.8%
4wbtA01 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.57 50.0 4.14e-01 100.0% 54.9%
3lzhA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.57 44.0 4.25e-01 84.0% 74.7%
3p9vA00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.57 44.0 3.55e-01 84.0% 91.8%
2yztA00 3.30.160.250 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.57 37.0 4.03e-01 96.3% 81.8%
2pt7C01 3.30.450.90 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.56 39.0 3.60e-01 71.6% 83.0%
3kxyJ00 3.30.1460.10 Alpha Beta › 2-Layer Sandwich › Yope Regulator; Chain: A, › 0.55 48.0 4.19e-01 100.0% 72.9%
3le4A00 2.20.70.10 Mainly Beta › Single Sheet › Ubiquitin Ligase Nedd4; Chain: W; › 0.55 27.0 3.15e-01 98.8% 63.6%
6k5gA01 3.40.50.1580 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Nucleoside phosphorylase domain 0.55 47.0 3.38e-01 100.0% 96.2%
2odhA02 3.30.70.3570 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › MvaI/BcnI restriction endonuclease, recognition domain 0.54 32.0 2.93e-01 98.8% 43.6%
2kilA00 3.90.1520.10 Alpha Beta › Alpha-Beta Complex › H-NOX domain › H-NOX domain 0.54 42.0 3.31e-01 85.2% 45.9%
2pn2A00 3.30.300.20 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › K homology (KH) domain 0.52 36.0 3.09e-01 72.8% 48.9%
4g6tA00 3.30.1460.10 Alpha Beta › 2-Layer Sandwich › Yope Regulator; Chain: A, › 0.52 44.0 3.91e-01 100.0% 68.8%
3mcbB00 2.20.70.30 Mainly Beta › Single Sheet › Ubiquitin Ligase Nedd4; Chain: W; › Nascent polypeptide-associated complex domain 0.52 31.0 3.62e-01 91.4% 84.5%
1wihA00 3.30.1360.40 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › 0.52 41.0 4.12e-01 86.4% 91.7%
5ds1A00 2.60.40.790 Mainly Beta › Sandwich › Immunoglobulin-like › 0.51 38.0 3.70e-01 80.2% 100.0%
2b5iC01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 42.0 4.07e-01 95.1% 90.6%
2a5yC03 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 0.50 39.0 3.57e-01 95.1% 62.2%
1xe4A01 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.50 40.0 3.25e-01 88.9% 68.9%
3n89A01 3.30.310.270 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › 0.50 41.0 3.20e-01 95.1% 75.9%
ECOD (58)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3504473 77.3.1.0 ↗ beta meanders › open-sided beta-meander › CPAP G-box domain › CPAP G-box domain 0.76 34.0 2.59e-01 90.1% 20.0%
3568187 64.1.1.0 ↗ beta meanders › WW domain-like › WW domain › WW domain 0.72 32.0 4.58e-01 96.3% 97.1%
4998697 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.72 31.0 3.56e-01 86.4% 53.3%
5042476 1036.1.1.1 ↗ a+b two layers › 60S ribosomal export protein NMD3 a+b domain › 60S ribosomal export protein NMD3 a+b domain › 60S ribosomal export protein NMD3 a+b domain › NMD3 0.70 51.0 4.86e-01 84.0% 65.3%
4965851 4100.1.1.9 ↗ a+b duplicates or obligate multimers › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › DUF7387 0.69 33.0 3.92e-01 93.8% 67.3%
5080834 1036.1.1.1 ↗ a+b two layers › 60S ribosomal export protein NMD3 a+b domain › 60S ribosomal export protein NMD3 a+b domain › 60S ribosomal export protein NMD3 a+b domain › NMD3 0.68 54.0 4.91e-01 84.0% 66.7%
4969157 4955.1.1.0 ↗ a+b two layers › permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit › permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit › permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit 0.67 58.0 5.86e-01 96.3% 97.5%
3394861 310.2.1.1 ↗ a+b two layers › RRF/tRNA synthetase additional domain-like › Ribosome recycling factor, RRF › Ribosome recycling factor, RRF › RRF 0.66 43.0 3.25e-01 84.0% 27.7%
3264579 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.65 52.0 4.60e-01 100.0% 60.0%
4965522 1036.1.1.1 ↗ a+b two layers › 60S ribosomal export protein NMD3 a+b domain › 60S ribosomal export protein NMD3 a+b domain › 60S ribosomal export protein NMD3 a+b domain › NMD3 0.65 51.0 4.59e-01 84.0% 65.5%
4809804 101.1.2.28 ↗ alpha arrays › HTH › HTH › winged helix domain › eIF-5_eIF-2B 0.64 50.0 4.69e-01 96.3% 69.3%
5028523 4100.1.1.3 ↗ a+b duplicates or obligate multimers › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › HicB_lk_antitox 0.63 33.0 3.61e-01 95.1% 60.0%
3596133 310.3.1.0 ↗ a+b two layers › RRF/tRNA synthetase additional domain-like › General secretion pathway protein M (EpsM) periplasmic domain-related › General secretion pathway protein M (EpsM) periplasmic domain-related 0.63 49.0 4.56e-01 82.7% 77.0%
4582122 3016.1.1.1 ↗ 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 › Aminotran_1_2 0.63 52.0 4.84e-01 100.0% 72.8%
5012700 242.1.1.0 ↗ a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases 0.62 45.0 4.47e-01 93.8% 72.9%
3688333 306.6.1.0 ↗ a+b two layers › Glucose permease domain IIB-like › PH0987 N-terminal domain-like › PH0987 N-terminal domain-like 0.62 54.0 5.00e-01 100.0% 90.5%
4948432 3016.1.1.1 ↗ 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 › Aminotran_1_2 0.62 54.0 5.05e-01 100.0% 79.0%
3736057 306.3.1.2 ↗ a+b two layers › Glucose permease domain IIB-like › eIF1-like › eIF1-like › Img2 0.61 53.0 4.59e-01 98.8% 63.1%
4408353 3016.1.1.1 ↗ 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 › Aminotran_1_2 0.61 53.0 5.32e-01 100.0% 95.2%
3719735 4014.1.1.1 ↗ a+b two layers › a+b domain in type II DNA topoisomerase › a+b domain in type II DNA topoisomerase › a+b domain in type II DNA topoisomerase › DNA_topoisoIV 0.60 53.0 4.25e-01 98.8% 55.8%
4995331 304.1.1.0 ↗ a+b two layers › Alpha-beta plaits › GHMP Kinase, C-terminal domain › GHMP Kinase, C-terminal domain 0.60 48.0 4.20e-01 85.2% 88.3%
4997298 3016.1.1.1 ↗ 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 › Aminotran_1_2 0.60 51.0 4.44e-01 100.0% 60.2%
5053407 304.4.1.0 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel 0.60 47.0 4.54e-01 84.0% 90.0%
3907533 64.1.1.0 ↗ beta meanders › WW domain-like › WW domain › WW domain 0.60 29.0 3.97e-01 85.2% 95.0%
4217802 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 0.60 52.0 4.98e-01 98.8% 85.3%
5004577 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 0.59 49.0 4.65e-01 100.0% 76.0%
4277628 304.136.1.1 ↗ a+b two layers › Alpha-beta plaits › Oligo-peptide binding protein (OPPA) insertion domain › Oligo-peptide binding protein (OPPA) insertion domain › SBP_bac_5 0.59 51.0 4.62e-01 100.0% 75.7%
4549996 3016.1.1.1 ↗ 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 › Aminotran_1_2 0.59 52.0 4.30e-01 100.0% 57.0%
4108957 241.1.1.0 ↗ a+b two layers › Type III secretory system chaperone-like › Type III secretory system chaperone › Type III secretory system chaperone 0.59 50.0 4.17e-01 100.0% 67.1%
3280896 206.1.1.11 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › APH 0.58 51.0 3.50e-01 98.8% 61.1%
4999312 306.2.1.0 ↗ a+b two layers › Glucose permease domain IIB-like › arginine repressor C terminal domain-related › C-terminal domain of arginine repressor 0.57 51.0 4.83e-01 96.3% 82.1%
184277 206.1.1.11 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › APH 0.57 51.0 3.44e-01 98.8% 63.9%
4955746 242.1.1.0 ↗ a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases 0.57 44.0 4.40e-01 97.5% 82.4%
3916252 216.1.1.0 ↗ a+b two layers › UBC-like › UBC-like › UBC-like 0.56 40.0 3.69e-01 100.0% 57.1%
3103361 5.1.2.2 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 5-bladed › WD40 0.56 35.0 3.89e-01 97.5% 81.0%
2576229 881.6.1.0 ↗ a+b three layers › Mog1p/PsbP-like › FrpD › FrpD 0.56 44.0 3.16e-01 85.2% 77.0%
4270579 220.1.1.121 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_SLA1 0.55 34.0 3.18e-01 95.1% 47.6%
3954965 873.1.1.7 ↗ a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain › Arabinose_bd 0.55 46.0 3.47e-01 92.6% 53.5%
3895826 327.11.2.46 ↗ a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) › KH_PARP14_4 0.55 41.0 4.40e-01 84.0% 100.0%
3828908 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.55 43.0 3.94e-01 86.4% 78.2%
3286486 2485.1.1.41 ↗ a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like › Thioredoxin_4 0.54 43.0 3.23e-01 85.2% 92.0%
3851567 11.1.1.334 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › TSLPR_D1 0.54 47.0 4.50e-01 97.5% 86.3%
3720283 3012.1.1.8 ↗ a+b two layers › Cof C2 cap domain › Cof C2 cap domain › Cof C2 cap domain › Ned1_M 0.54 40.0 3.73e-01 80.2% 64.0%
None — 0.53 42.0 3.78e-01 87.7% 87.0%
4047043 222.1.1.0 ↗ a+b two layers › Thioesterase/thiol ester dehydrase-isomerase-like › Thioesterase/thiol ester dehydrase-isomerase › Thioesterase/thiol ester dehydrase-isomerase 0.53 42.0 3.47e-01 87.7% 87.7%
5878 324.1.1.1 ↗ a+b two layers › OsmC-like › OsmC-like › OsmC-like › OsmC 0.52 36.0 3.12e-01 72.8% 50.8%
5041054 873.1.1.0 ↗ a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain 0.52 41.0 3.52e-01 85.2% 56.2%
3603159 101.1.2.209 ↗ alpha arrays › HTH › HTH › winged helix domain › MJ1010-like_2nd 0.52 35.0 3.68e-01 95.1% 81.4%
3369724 2486.1.1.1 ↗ a/b three-layered sandwiches › ClpP/crotonase › ClpP/crotonase › ClpP/crotonase › ECH_1 0.52 40.0 2.86e-01 84.0% 78.1%
3485486 64.1.1.1 ↗ beta meanders › WW domain-like › WW domain › WW domain › WW 0.51 33.0 3.88e-01 95.1% 98.2%
3592492 304.109.1.0 ↗ a+b two layers › Alpha-beta plaits › Ribosomal proteins S24e, L23 and L15e › Ribosomal proteins S24e, L23 and L15e 0.51 39.0 3.38e-01 81.5% 58.4%
4143034 5104.1.1.1 ↗ a+b three layers › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › DHHA1 0.51 44.0 3.95e-01 100.0% 87.5%
3294459 319.1.1.1 ↗ beta sandwiches › HSP20-like › HSP20-like chaperones › HSP20-like chaperones › HSP20 0.51 39.0 3.60e-01 81.5% 89.5%
3652333 319.1.1.1 ↗ beta sandwiches › HSP20-like › HSP20-like chaperones › HSP20-like chaperones › HSP20 0.51 40.0 3.67e-01 82.7% 87.4%
3973760 3772.1.1.1 ↗ beta sandwiches › Putative anti-sigma factor BDI_1681 N-terminal domain › Putative anti-sigma factor BDI_1681 N-terminal domain › Putative anti-sigma factor BDI_1681 N-terminal domain › FecR 0.51 37.0 3.29e-01 77.8% 65.8%
4090346 101.1.2.209 ↗ alpha arrays › HTH › HTH › winged helix domain › MJ1010-like_2nd 0.51 33.0 3.64e-01 95.1% 90.0%
3432354 319.1.1.1 ↗ beta sandwiches › HSP20-like › HSP20-like chaperones › HSP20-like chaperones › HSP20 0.50 38.0 3.54e-01 81.5% 85.7%
3521134 11.1.1.1013 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › PF26755 0.50 43.0 4.21e-01 97.5% 94.4%