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MZ188976.1__QVJ82414.1__JK004_57__00057

Bact-Vir

MZ188976.1__QVJ82414.1__JK004_57__00057

Identity

Accession:
MZ188976 ↗
Kingdom:
phage

Quality

81.9 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Cronobacter_phage_JK004

TaxID: 2835891

Cluster

Singleton — not in a non-trivial cluster

3D Structure

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Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 medium residues 66-120
PDB
Domain cluster: representative
CATH (34)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
5lp7E01 3.40.47.10 Alpha Beta › 3-Layer(aba) Sandwich › Peroxisomal Thiolase; Chain A, domain 1 › Thiolase/Chalcone synthase 0.62 42.0 2.87e-01 70.9% 43.8%
4k15A00 2.60.40.3860 Mainly Beta › Sandwich › Immunoglobulin-like › 0.62 44.0 3.28e-01 74.5% 55.1%
1xttB00 3.40.50.2020 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.60 43.0 2.94e-01 76.4% 49.5%
1vehA01 3.30.300.130 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › Fe-S cluster assembly (FSCA) 0.59 36.0 3.32e-01 80.0% 45.3%
2bf1A00 2.170.40.20 Mainly Beta › Beta Complex › HIV Envelope Protein Gp120; Chain G › Human immunodeficiency virus 1, Gp160, envelope glycoprotein 0.59 43.0 2.75e-01 81.8% 79.3%
1bd3A00 3.40.50.2020 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.56 42.0 2.82e-01 81.8% 75.0%
7bjkA02 3.55.40.20 Alpha Beta › 3-Layer(bab) Sandwich › minor pseudopilin epsh fold › Iron/manganese superoxide dismutase, C-terminal domain 0.56 46.0 3.72e-01 94.5% 80.5%
5oomJ01 3.30.1550.10 Alpha Beta › 2-Layer Sandwich › Ribosomal protein L11, N-terminal domain › Ribosomal protein L11/L12, N-terminal domain 0.55 39.0 3.74e-01 83.6% 63.6%
3pfeA01 3.40.630.10 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Zn peptidases 0.55 44.0 2.87e-01 96.4% 90.3%
4djbA00 3.30.70.2870 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Mastadenovirus E4 ORF3 0.55 41.0 3.30e-01 83.6% 86.4%
1g9mG00 2.170.40.20 Mainly Beta › Beta Complex › HIV Envelope Protein Gp120; Chain G › Human immunodeficiency virus 1, Gp160, envelope glycoprotein 0.54 43.0 2.75e-01 89.1% 22.0%
1ilvA00 3.40.1210.10 Alpha Beta › 3-Layer(aba) Sandwich › Stationary-phase Survival Protein Sure Homolog; Chain: A, › Survival protein SurE-like phosphatase/nucleotidase 0.54 38.0 2.68e-01 83.6% 80.0%
3pjvD01 3.30.110.200 Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor IF3 › 0.54 43.0 3.91e-01 90.9% 71.8%
2v79A00 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 3.25e-01 83.6% 63.5%
2retA00 3.30.1300.30 Alpha Beta › 2-Layer Sandwich › Pantoate--beta-alanine Ligase; Chain: A,domain 2 › GSPII I/J protein-like 0.53 43.0 3.76e-01 92.7% 58.3%
3l9fA01 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 0.53 37.0 3.24e-01 74.5% 62.9%
4gs5A01 3.40.50.12780 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › ANL, N-terminal domain 0.53 46.0 3.08e-01 100.0% 31.6%
5h20A00 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 0.53 44.0 3.67e-01 94.5% 70.9%
4ushA00 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.53 37.0 3.12e-01 76.4% 92.2%
1h8eG02 3.40.1380.10 Alpha Beta › 3-Layer(aba) Sandwich › Pyruvate Kinase; Chain: A, domain 1 › ATP synthase, F1 complex, gamma subunit 0.53 40.0 2.93e-01 89.1% 63.5%
1kyzA01 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 0.52 41.0 3.54e-01 96.4% 86.4%
3iwcB00 3.30.360.110 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › S-adenosylmethionine decarboxylase domain 0.52 37.0 3.58e-01 81.8% 67.2%
1wjwA01 3.30.310.50 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › Alpha-D-phosphohexomutase, C-terminal domain 0.52 39.0 3.44e-01 83.6% 80.0%
4oycB00 3.30.300.30 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › ANL, C-terminal domain 0.52 43.0 3.71e-01 92.7% 95.5%
1unnC00 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.52 39.0 3.31e-01 90.9% 49.5%
2xssA00 3.30.450.40 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › GAF domain 0.51 40.0 3.02e-01 90.9% 76.3%
1ylxA00 3.30.70.1480 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › GK1464-like 0.51 38.0 3.21e-01 81.8% 76.8%
1hbxA01 3.40.1810.10 Alpha Beta › 3-Layer(aba) Sandwich › SRF-like › Transcription factor, MADS-box 0.51 40.0 3.73e-01 94.5% 69.0%
1vtnC00 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 0.51 36.0 3.07e-01 78.2% 68.6%
3mr0A01 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.51 34.0 2.85e-01 72.7% 56.4%
3viqA00 6.10.140.1020 Special › Helix non-globular › Helix Hairpins › 0.50 40.0 3.10e-01 87.3% 74.6%
1ug8A00 3.30.1370.50 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › R3H-like domain 0.50 40.0 3.58e-01 94.5% 88.5%
1fpqA02 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 3.12e-01 90.9% 65.1%
2mh9A00 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 43.0 3.33e-01 98.2% 81.1%
ECOD (48)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4816472 5073.1.1.0 ↗ alpha bundles › Calcium ATPase transmembrane domain-related › Calcium ATPase transmembrane domain-related › Calcium ATPase transmembrane domain M 0.67 38.0 2.91e-01 78.2% 26.3%
3587631 186.1.1.0 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N 0.66 48.0 3.65e-01 80.0% 70.7%
3591940 223.2.1.19 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like › Intu_longin_1 0.65 56.0 3.90e-01 100.0% 53.7%
3794245 5001.1.1.5 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_3 0.64 43.0 2.88e-01 70.9% 93.9%
3598920 7573.1.1.0 ↗ a/b three-layered sandwiches › PRTase-like › PRTase-like › PRTase-like 0.62 44.0 2.94e-01 76.4% 78.7%
5002351 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.62 48.0 2.90e-01 85.5% 71.5%
3841567 7573.1.1.4 ↗ a/b three-layered sandwiches › PRTase-like › PRTase-like › PRTase-like › UPRTase 0.61 44.0 2.96e-01 76.4% 79.1%
4028930 7581.1.1.1 ↗ a/b three-layered sandwiches › Thiolase-like › Thiolase-like › Thiolase-like › Thiolase_N 0.61 43.0 2.74e-01 72.7% 32.4%
3234354 3352.1.1.12 ↗ alpha bundles › STT3/PglB/AglB transmembrane domain › STT3/PglB/AglB transmembrane domain › STT3/PglB/AglB transmembrane domain › Dpy19 0.60 44.0 2.57e-01 80.0% 91.7%
3228509 101.1.4.12 ↗ alpha arrays › HTH › HTH › tetra-helical, lambda repressor-like › MSC 0.60 47.0 3.59e-01 87.3% 63.0%
None — 0.59 44.0 2.95e-01 80.0% 34.4%
3501234 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 0.58 42.0 2.57e-01 78.2% 87.4%
4002132 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 0.57 43.0 2.67e-01 81.8% 89.8%
4250601 186.1.1.0 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N 0.57 43.0 3.01e-01 80.0% 60.0%
3742561 7573.1.1.4 ↗ a/b three-layered sandwiches › PRTase-like › PRTase-like › PRTase-like › UPRTase 0.57 43.0 2.90e-01 81.8% 78.6%
3471111 7573.1.1.4 ↗ a/b three-layered sandwiches › PRTase-like › PRTase-like › PRTase-like › UPRTase 0.57 40.0 2.58e-01 72.7% 26.6%
3217417 5001.1.1.121 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › TRAM_LAG1_CLN8 0.57 42.0 2.67e-01 85.5% 47.1%
4928248 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.57 50.0 3.82e-01 100.0% 65.4%
3924998 5001.1.1.0 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like 0.57 43.0 2.63e-01 81.8% 48.2%
3785586 2002.1.1.102 ↗ a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › PHP 0.56 49.0 3.07e-01 100.0% 28.3%
3972650 304.8.1.0 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.56 43.0 3.41e-01 81.8% 78.2%
3469919 230.2.1.1 ↗ a+b two layers › T-fold › Ribosomal protein S3-C › Ribosomal protein S3-C › Ribosomal_S3_C 0.56 40.0 3.65e-01 76.4% 61.3%
3519143 5001.1.1.0 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like 0.56 43.0 2.68e-01 83.6% 76.4%
3227661 5001.1.1.0 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like 0.56 44.0 2.73e-01 85.5% 78.8%
4934732 192.2.1.2 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.56 45.0 3.56e-01 90.9% 50.8%
3188358 206.1.1.1 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.55 48.0 2.92e-01 98.2% 44.7%
3218266 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 0.55 44.0 2.64e-01 85.5% 83.1%
3169544 3922.1.1.138 ↗ 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 › Utp11 0.54 40.0 2.83e-01 87.3% 26.9%
4029228 192.2.1.2 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.54 43.0 3.03e-01 90.9% 35.3%
4441043 101.1.10.0 ↗ alpha arrays › HTH › HTH › Cyclin-like 0.54 39.0 3.05e-01 89.1% 81.9%
3507846 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.53 46.0 2.66e-01 98.2% 18.6%
185613 3572.1.1.0 ↗ a+b complex topology › Cascade subunit Csa5 › Cascade subunit Csa5 › Cascade subunit Csa5 0.53 44.0 3.31e-01 100.0% 62.0%
4245032 192.11.1.2 ↗ alpha bundles › Long alpha-hairpin › C-terminal UvrC-binding domain of UvrB › C-terminal UvrC-binding domain of UvrB › CysS_C 0.53 42.0 2.90e-01 90.9% 51.0%
4028937 109.4.1.1255 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Adaptin_N, Cnd1 0.53 46.0 2.55e-01 96.4% 11.3%
5077402 2007.15.1.0 ↗ a/b three-layered sandwiches › Flavodoxin-like › N-deoxyribosyltransferase › N-deoxyribosyltransferase 0.53 38.0 2.74e-01 89.1% 23.8%
5053551 3241.1.1.1 ↗ alpha arrays › Golgi phosphoprotein 3 › Golgi phosphoprotein 3 › Golgi phosphoprotein 3 › GPP34 0.52 45.0 3.07e-01 100.0% 37.6%
3197950 256.1.1.0 ↗ a+b two layers › MTH1598-like › MTH1598-like › MTH1598-like 0.52 32.0 3.48e-01 90.9% 75.6%
4995146 138.1.1.0 ↗ alpha arrays › DNA polymerase III clamp loader subunits, C-terminal domain › DNA polymerase III clamp loader subunits, C-terminal domain › DNA polymerase III clamp loader subunits, C-terminal domain 0.52 41.0 3.46e-01 89.1% 52.2%
3938944 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.52 41.0 3.01e-01 92.7% 33.6%
3553058 605.3.1.0 ↗ alpha duplicates or obligate multimers › ROP-like › Nonstructural protein ns2, Nep, M1-binding domain › Nonstructural protein ns2, Nep, M1-binding domain 0.52 43.0 3.26e-01 94.5% 60.7%
3913149 216.1.1.3 ↗ a+b two layers › UBC-like › UBC-like › UBC-like › UEV 0.51 38.0 2.79e-01 80.0% 52.0%
1503829 3512.1.1.2 ↗ beta duplicates or obligate multimers › Trimeric autotransporter adhesin GIN domain › Trimeric autotransporter adhesin GIN domain › Trimeric autotransporter adhesin GIN domain › YadA_stalk 0.51 41.0 2.49e-01 87.3% 14.5%
4014690 7581.1.1.1 ↗ a/b three-layered sandwiches › Thiolase-like › Thiolase-like › Thiolase-like › Thiolase_N 0.51 39.0 2.57e-01 85.5% 96.2%
4595166 5076.2.1.0 ↗ alpha complex topology › Mitochondrial ADP/ATP carrier-like › Putative sulfate permease CysZ › Putative sulfate permease CysZ 0.51 43.0 2.82e-01 90.9% 43.6%
4999286 101.1.2.48 ↗ alpha arrays › HTH › HTH › winged helix domain › PadR 0.51 41.0 2.87e-01 89.1% 33.3%
3829017 263.1.1.1 ↗ a+b three layers › SRF-like › SRF-like › SRF-like › SRF-TF 0.51 44.0 4.00e-01 100.0% 85.3%
3802667 101.1.2.88 ↗ alpha arrays › HTH › HTH › winged helix domain › Dimerisation 0.50 41.0 3.44e-01 96.4% 82.9%
3891434 216.1.1.3 ↗ a+b two layers › UBC-like › UBC-like › UBC-like › UEV 0.50 37.0 2.77e-01 80.0% 55.7%
D2 medium residues 121-195
PDB
Domain cluster: representative
CATH (2)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1k04A02 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.78 57.0 5.02e-01 76.0% 54.8%
1zbtA01 6.10.140.1950 Special › Helix non-globular › Helix Hairpins › 0.61 39.0 3.79e-01 80.0% 59.0%
ECOD (2)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4534445 605.1.1.4 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA_3 0.81 71.0 6.66e-01 94.7% 82.2%
3956423 3291.1.1.0 ↗ alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related 0.72 49.0 4.23e-01 70.7% 46.1%
D3 medium residues 196-253
PDB
Domain cluster: representative
CATH (2)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4b0fA00 1.20.5.3730 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.63 43.0 4.41e-01 72.4% 73.7%
1p9oA00 3.40.50.10300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › CoaB-like 0.51 40.0 2.63e-01 87.9% 66.2%
ECOD (3)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4251053 4106.1.1.1 ↗ few secondary structure elements › Zinc hairpin stack › Zinc hairpin stack › Zinc hairpin stack › DHHC 0.76 53.0 3.45e-01 74.1% 17.6%
3498627 7015.1.1.1 ↗ alpha bundles › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain › DHHC 0.72 50.0 3.28e-01 74.1% 17.6%
3203836 633.23.1.9 ↗ alpha bundles › Bromodomain-like › Claudin › Claudin › SUR7 0.58 46.0 3.15e-01 93.1% 51.7%