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KF669662.1__AGY48623.1__Spock_223__00223

Bact-Vir

KF669662.1__AGY48623.1__Spock_223__00223

Identity

Accession:
KF669662 ↗
Kingdom:
phage

Quality

88.4 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Herelleviridae› Bequatrovirus› Bacillus_phage_Spock

TaxID: 1406791

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 2-44
PDB
Domain cluster: rep: MF668286.1__ASZ75016.1__SEA_TRINA_237__00204__D5-46
CATH (55)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4kyzA00 3.30.70.600 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S10 0.81 69.0 4.66e-01 100.0% 46.7%
6s2wA01 3.30.2260.10 Alpha Beta › 2-Layer Sandwich › ERH-like fold › Enhancer of rudimentary 0.77 66.0 5.37e-01 100.0% 68.3%
7ejoB01 3.30.2260.10 Alpha Beta › 2-Layer Sandwich › ERH-like fold › Enhancer of rudimentary 0.75 65.0 5.28e-01 100.0% 72.3%
1yd0A00 3.40.1440.10 Alpha Beta › 3-Layer(aba) Sandwich › GIY-YIG endonuclease › GIY-YIG endonuclease 0.75 60.0 4.76e-01 90.7% 82.0%
2f1fA01 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.74 61.0 5.16e-01 100.0% 94.9%
2jvfA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.73 57.0 4.44e-01 86.0% 48.9%
2qjvA01 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.70 51.0 3.59e-01 100.0% 23.3%
2hpuA02 3.30.70.2050 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.70 56.0 4.99e-01 100.0% 61.9%
2f7vA02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.70 57.0 4.45e-01 100.0% 99.1%
3h20A01 3.30.1490.240 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › RepB DNA-primase, N-terminal domain 0.69 57.0 5.13e-01 100.0% 66.7%
3weeA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.69 52.0 3.41e-01 79.1% 68.9%
1qysA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.69 56.0 4.57e-01 100.0% 55.4%
4llgM00 3.10.20.510 Alpha Beta › Roll › Ubiquitin-like (UB roll) › RNA polymerase inhibitor 0.69 56.0 5.48e-01 100.0% 88.0%
2hn1A01 3.30.460.20 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › CorA soluble domain-like 0.68 52.0 3.74e-01 100.0% 27.5%
2dm4A01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.67 55.0 4.34e-01 100.0% 42.6%
2edyA00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.67 54.0 4.16e-01 100.0% 38.8%
1y6kR01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.65 55.0 4.29e-01 100.0% 45.1%
2q9kA00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.64 54.0 3.79e-01 100.0% 36.1%
3mdnD00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.64 52.0 3.39e-01 100.0% 19.3%
4m0wA03 2.60.120.1680 Mainly Beta › Sandwich › Jelly Rolls › 0.63 53.0 3.81e-01 100.0% 40.1%
2rftA02 3.90.209.20 Alpha Beta › Alpha-Beta Complex › Hemagglutinin (Ha1 Chain); Chain: A; domain 1 › Haemagglutinin, alpha/beta domain, HA1 chain 0.63 52.0 3.32e-01 100.0% 37.2%
1ln0A00 3.40.1440.10 Alpha Beta › 3-Layer(aba) Sandwich › GIY-YIG endonuclease › GIY-YIG endonuclease 0.63 50.0 4.05e-01 90.7% 95.7%
3zq5A03 3.30.450.270 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PHY domain 0.63 47.0 3.30e-01 86.0% 26.1%
5l10B00 3.30.450.80 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Transcription factor LuxR-like, autoinducer-binding domain 0.63 47.0 3.22e-01 86.0% 93.5%
2npnA02 3.30.950.10 Alpha Beta › 2-Layer Sandwich › Methyltransferase, Cobalt-precorrin-4 Transmethylase; Domain 2 › Tetrapyrrole methylase, C-terminal domain 0.62 54.0 4.09e-01 100.0% 41.3%
5of3A00 3.90.920.10 Alpha Beta › Alpha-Beta Complex › DNA primase, PRIM domain › DNA primase, PRIM domain 0.62 52.0 3.17e-01 100.0% 67.7%
4yo1A01 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.62 52.0 4.23e-01 100.0% 48.3%
4lsdF00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.62 51.0 4.08e-01 100.0% 43.9%
6hyfA00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.62 52.0 4.01e-01 100.0% 40.6%
4q0jA03 3.30.450.270 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PHY domain 0.62 46.0 3.32e-01 86.0% 28.2%
2kgfA00 1.10.375.10 Mainly Alpha › Orthogonal Bundle › Human Immunodeficiency Virus Type 1 Capsid Protein › Human Immunodeficiency Virus Type 1 Capsid Protein 0.62 45.0 3.36e-01 88.4% 47.1%
3s98A02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.62 48.0 3.88e-01 100.0% 42.1%
2e4tA01 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.61 48.0 3.62e-01 100.0% 33.9%
3hvnA01 3.90.840.10 Alpha Beta › Alpha-Beta Complex › HIV-1 Reverse Transcriptase; Chain A, domain 3 › Thiol-activated cytolysin superfamily/Thiol-activated cytolysin, alpha-beta domain 0.61 48.0 3.39e-01 100.0% 50.0%
2aehA01 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.61 47.0 3.83e-01 100.0% 41.7%
1xzwA01 2.60.40.380 Mainly Beta › Sandwich › Immunoglobulin-like › Purple acid phosphatase-like, N-terminal 0.60 51.0 3.97e-01 100.0% 54.1%
6grqA05 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.60 51.0 3.99e-01 100.0% 49.5%
2qsdA01 3.10.20.10 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.59 47.0 4.25e-01 100.0% 70.1%
2qsdB02 3.50.100.10 Alpha Beta › 3-Layer(bba) Sandwich › protein il1583 fold › protein il1583 domain 0.58 46.0 3.92e-01 100.0% 51.3%
4r3dA03 2.60.120.1680 Mainly Beta › Sandwich › Jelly Rolls › 0.58 49.0 3.49e-01 100.0% 40.1%
4iajA00 3.30.1490.390 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › Protein of unknown function DUF4649 0.58 45.0 3.98e-01 100.0% 59.2%
2i44B00 3.60.40.10 Alpha Beta › 4-Layer Sandwich › Phosphatase 2c; domain 1 › PPM-type phosphatase domain 0.57 48.0 2.95e-01 100.0% 31.0%
2jxtA01 3.10.20.10 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.57 44.0 3.94e-01 100.0% 69.7%
6cc0A01 3.30.450.80 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Transcription factor LuxR-like, autoinducer-binding domain 0.56 43.0 2.97e-01 86.0% 97.0%
2wadA02 3.90.1310.10 Alpha Beta › Alpha-Beta Complex › Penicillin-binding protein 2a (Domain 2) › Penicillin-binding protein 2a (Domain 2) 0.54 40.0 3.03e-01 97.7% 27.7%
4x83A03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.54 44.0 3.48e-01 100.0% 45.1%
1eu3A01 3.10.20.120 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.54 45.0 3.40e-01 100.0% 81.1%
4e9kA00 2.60.120.1350 Mainly Beta › Sandwich › Jelly Rolls › Protein of unknown function DUF4465 0.54 47.0 2.91e-01 100.0% 20.0%
4qzvB02 2.20.210.30 Mainly Beta › Single Sheet › ubp-family deubiquitinating enzyme fold › 0.53 43.0 3.86e-01 100.0% 88.2%
1uf2C02 2.60.120.170 Mainly Beta › Sandwich › Jelly Rolls › 0.53 42.0 2.88e-01 100.0% 24.2%
3zn4A00 2.60.120.1180 Mainly Beta › Sandwich › Jelly Rolls › 0.52 41.0 3.02e-01 100.0% 46.3%
3ujzA03 2.60.20.40 Mainly Beta › Sandwich › Gamma-B Crystallin; domain 1 › 0.52 38.0 3.15e-01 100.0% 39.0%
3f02B02 2.30.39.10 Mainly Beta › Roll › Alpha-1-antitrypsin; domain 1 › Alpha-1-antitrypsin, domain 1 0.51 37.0 2.87e-01 79.1% 55.0%
4bwsF00 3.30.1490.40 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › GYF domain 0.51 38.0 3.52e-01 100.0% 61.2%
4ca1B02 2.60.210.10 Mainly Beta › Sandwich › Apoptosis, Tumor Necrosis Factor Receptor Associated Protein 2; Chain A › Apoptosis, Tumor Necrosis Factor Receptor Associated Protein 2; Chain A 0.51 35.0 2.66e-01 79.1% 46.2%
ECOD (54)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4554731 862.1.1.1 ↗ a+b complex topology › Prim-pol domain › Prim-pol domain › Prim-pol domain › DNA_primase_S 0.84 61.0 3.71e-01 76.7% 22.2%
4448678 4.1.1.307 ↗ beta barrels › SH3 › SH3 › SH3 › PF26132 0.83 72.0 6.06e-01 100.0% 94.7%
4038221 862.1.1.1 ↗ a+b complex topology › Prim-pol domain › Prim-pol domain › Prim-pol domain › DNA_primase_S 0.82 59.0 3.61e-01 76.7% 21.3%
4231372 4.1.1.307 ↗ beta barrels › SH3 › SH3 › SH3 › PF26132 0.81 70.0 6.02e-01 100.0% 97.1%
4147528 4.1.1.307 ↗ beta barrels › SH3 › SH3 › SH3 › PF26132 0.81 70.0 6.00e-01 100.0% 98.6%
5007155 304.163.1.0 ↗ a+b two layers › Alpha-beta plaits › ATP-binding protein TM_1403 insertion domain › ATP-binding protein TM_1403 insertion domain 0.80 67.0 6.65e-01 100.0% 91.1%
3282305 4187.1.1.0 ↗ a+b two layers › NosL/MerB-like › NosL/MerB-like › NosL/MerB-like 0.79 65.0 5.50e-01 100.0% 55.7%
3672250 207.1.1.116 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › LRR_FBXL15 0.77 64.0 4.22e-01 100.0% 22.1%
3408539 245.1.1.1 ↗ a+b two layers › Ribonuclease PH domain 2-like › Ribonuclease PH domain 2 › Ribonuclease PH domain 2 › RNase_PH_C 0.73 51.0 3.94e-01 100.0% 33.7%
3958897 4187.2.1.0 ↗ a+b two layers › NosL/MerB-like › DUF2233 › DUF2233 0.73 61.0 4.49e-01 100.0% 35.0%
3959440 4.1.1.180 ↗ beta barrels › SH3 › SH3 › SH3 › DUF3107 0.73 63.0 5.55e-01 100.0% 98.5%
4952738 322.1.1.2 ↗ a+b two layers › HPr-like › HPr-like › HPr-like › 3H 0.72 56.0 4.27e-01 88.4% 99.1%
3177995 5050.1.1.32 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Acatn 0.71 54.0 3.02e-01 100.0% 6.8%
5010744 221.1.1.0 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.71 56.0 4.97e-01 90.7% 100.0%
4946939 862.1.1.1 ↗ a+b complex topology › Prim-pol domain › Prim-pol domain › Prim-pol domain › DNA_primase_S 0.70 59.0 3.87e-01 100.0% 21.0%
5022263 322.1.1.2 ↗ a+b two layers › HPr-like › HPr-like › HPr-like › 3H 0.70 58.0 4.44e-01 100.0% 98.2%
4021062 304.7.1.0 ↗ a+b two layers › Alpha-beta plaits › Protease propeptides/inhibitors › Protease propeptides/inhibitors 0.69 58.0 5.30e-01 100.0% 98.3%
3911249 221.1.1.76 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › RA_2 0.68 53.0 4.20e-01 100.0% 40.0%
4028716 252.2.1.0 ↗ a+b two layers › DNA-binding domain › GCC-box binding domain-like › GCC-box binding domain-like 0.67 49.0 3.57e-01 83.7% 31.1%
5080205 3115.1.1.0 ↗ a+b two layers › GP2-like › RplX-like › RplX-like 0.67 58.0 5.55e-01 100.0% 88.0%
3658421 304.28.1.0 ↗ a+b two layers › Alpha-beta plaits › Ferredoxin domains in multidrug efflux transporter › Multidrug efflux transporter AcrB pore domain 0.67 56.0 4.78e-01 100.0% 98.7%
3378740 109.4.1.1291 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, PPR_3, DYW_deaminase, E_motif 0.66 54.0 2.89e-01 90.7% 4.8%
4939739 3115.1.1.1 ↗ a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.66 55.0 5.06e-01 100.0% 91.5%
4013514 3115.1.1.0 ↗ a+b two layers › GP2-like › RplX-like › RplX-like 0.65 55.0 4.25e-01 100.0% 51.4%
3315113 109.4.1.1285 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, DYW_deaminase, Eplus_motif, E_motif 0.65 53.0 3.17e-01 90.7% 14.8%
4930766 2492.1.1.7 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › FdhD-NarQ 0.65 53.0 3.91e-01 100.0% 35.6%
5081134 3986.2.1.0 ↗ a+b two layers › GTP-binding protein lepA C-terminal domain-like › Antitoxin Dmd › Antitoxin Dmd 0.63 53.0 4.86e-01 100.0% 76.7%
4004704 3115.6.1.2 ↗ a+b two layers › GP2-like › Bacterial RNA polymerase subunit epsilon › Bacterial RNA polymerase subunit epsilon › PF28597 0.63 48.0 4.80e-01 100.0% 91.1%
3587556 284.2.1.0 ↗ a+b two layers › FKBP-like › Chitinase insertion domain › Chitinase insertion domain 0.63 51.0 4.57e-01 100.0% 85.7%
3802249 109.4.1.1291 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, PPR_3, DYW_deaminase, E_motif 0.63 54.0 3.04e-01 100.0% 16.0%
3969006 3115.6.1.2 ↗ a+b two layers › GP2-like › Bacterial RNA polymerase subunit epsilon › Bacterial RNA polymerase subunit epsilon › PF28597 0.63 47.0 4.76e-01 100.0% 91.1%
5053437 219.1.1.0 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases 0.63 50.0 3.23e-01 90.7% 53.8%
4959407 304.163.1.3 ↗ a+b two layers › Alpha-beta plaits › ATP-binding protein TM_1403 insertion domain › ATP-binding protein TM_1403 insertion domain › PF31118 0.62 50.0 4.86e-01 100.0% 82.0%
3216210 3115.1.1.0 ↗ a+b two layers › GP2-like › RplX-like › RplX-like 0.62 47.0 4.66e-01 100.0% 92.0%
3434515 109.4.1.2925 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, DYW_deaminase, PPR_long, E_motif 0.62 53.0 2.89e-01 97.7% 9.3%
4458441 2010.1.1.1 ↗ a/b three-layered sandwiches › EDD domain › EDD domain › EDD domain › DegV 0.62 51.0 3.57e-01 100.0% 27.1%
4946228 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.62 46.0 3.39e-01 86.0% 30.8%
3751173 4357.1.1.0 ↗ beta barrels › WWE domain › WWE domain › WWE domain 0.61 49.0 4.30e-01 100.0% 97.3%
5012895 3115.1.1.0 ↗ a+b two layers › GP2-like › RplX-like › RplX-like 0.60 47.0 4.54e-01 100.0% 87.3%
4405873 223.2.1.33 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like › Fuz_longin_3 0.60 46.0 3.38e-01 83.7% 90.4%
4024416 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.59 52.0 3.55e-01 100.0% 28.7%
4999557 247.1.1.1 ↗ a+b four layers › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Lactamase_B 0.58 43.0 2.67e-01 86.0% 90.2%
3850966 3346.1.1.1 ↗ a+b two layers › N-terminal domain in ubiquitin-fold modifier 1 specific protease UfSP2 › N-terminal domain in ubiquitin-fold modifier 1 specific protease UfSP2 › N-terminal domain in ubiquitin-fold modifier 1 specific protease UfSP2 › UfSP2_N 0.58 45.0 2.81e-01 83.7% 75.2%
223777 3115.4.1.1 ↗ a+b two layers › GP2-like › Uncharacterized conserved protein Il1583 › Uncharacterized conserved protein Il1583 › DUF1543 0.58 45.0 3.74e-01 100.0% 49.3%
4928368 247.1.1.1 ↗ a+b four layers › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Lactamase_B 0.58 43.0 2.71e-01 86.0% 93.2%
3731895 221.1.1.0 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.57 48.0 4.15e-01 97.7% 62.3%
4086554 11.10.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › TRAF domain-like › TRAF domain-like › Sina_TRAF 0.56 38.0 2.79e-01 72.1% 48.1%
3816922 4081.1.1.0 ↗ beta sandwiches › Baculovirus p35 protein-related › Baculovirus p35 protein-related › Baculovirus p35 protein-related 0.55 45.0 2.85e-01 100.0% 22.5%
5075402 210.1.3.3 ↗ a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases › GATase_4 0.55 42.0 2.72e-01 100.0% 16.1%
5066749 210.1.3.5 ↗ a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases › GATase_7 0.54 43.0 2.81e-01 100.0% 28.2%
3929515 382.1.1.21 ↗ few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like › PF28966 0.54 46.0 3.56e-01 100.0% 60.0%
3610148 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 0.54 43.0 2.97e-01 97.7% 60.0%
1566283 560.1.1.2 ↗ few secondary structure elements › H-NS histone-like proteins, C-terminal domain › H-NS histone-like proteins, C-terminal domain › H-NS histone-like proteins, C-terminal domain › MvaT_DBD 0.52 43.0 4.25e-01 100.0% 93.6%
4026201 304.51.1.0 ↗ a+b two layers › Alpha-beta plaits › CRISPR transcript (pre-crRNA) processing endoribonuclease-related › CRISPR transcript (pre-crRNA) processing endoribonuclease-related 0.52 37.0 2.86e-01 100.0% 95.5%