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MW239124.1__QQG32110.1__CkP1_0176__00176

Bact-Vir

MW239124.1__QQG32110.1__CkP1_0176__00176

Identity

Accession:
MW239124 ↗
Kingdom:
phage

Quality

85.1 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Pantevenvirales› Straboviridae› Karamvirus› Citrobacter_phage_CkP1

TaxID: 2799684

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 high residues 160-234
PDB
Domain cluster: rep: AY328852.1__AAQ96491.1__X__00024__D88-161
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF07484.18 best Collar 61.1 1.10e-16 74.7% 100.0%
CATH (1)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3qdlA00 3.40.109.10 Alpha Beta › 3-Layer(aba) Sandwich › NADH Oxidase › NADH Oxidase 0.51 37.0 2.94e-01 81.3% 87.6%
ECOD (2)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4784856 877.1.1.2 ↗ a+b duplicates or obligate multimers › gp11/gp12 receptor-binding domain › gp11/gp12 receptor-binding domain › gp11/gp12 receptor-binding domain › Collar 0.90 62.0 6.48e-01 70.7% 79.4%
3981712 877.1.1.2 ↗ a+b duplicates or obligate multimers › gp11/gp12 receptor-binding domain › gp11/gp12 receptor-binding domain › gp11/gp12 receptor-binding domain › Collar 0.88 69.0 5.45e-01 100.0% 42.8%
D2 high residues 239-298
PDB
Domain cluster: rep: OQ632216.1__WGL32639.1__Arash_gp188__00188__D429-486
CATH (32)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3efaA00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.63 44.0 3.35e-01 93.3% 30.1%
1dpbA00 3.30.559.10 Alpha Beta › 2-Layer Sandwich › Chloramphenicol Acetyltransferase › Chloramphenicol acetyltransferase-like domain 0.61 50.0 3.31e-01 90.0% 73.3%
3drxB03 3.30.70.2000 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.61 46.0 4.90e-01 96.7% 98.0%
3owcB00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.61 49.0 3.69e-01 96.7% 33.5%
3w6sC00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.60 48.0 3.40e-01 95.0% 88.8%
4ozjA00 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.59 52.0 4.37e-01 100.0% 94.2%
1g38A01 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.59 48.0 3.33e-01 93.3% 26.5%
3maeA00 3.30.559.10 Alpha Beta › 2-Layer Sandwich › Chloramphenicol Acetyltransferase › Chloramphenicol acetyltransferase-like domain 0.58 47.0 3.18e-01 90.0% 75.6%
4xnhC00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.58 48.0 3.60e-01 98.3% 35.8%
5jtfB00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.58 47.0 3.46e-01 100.0% 32.0%
3gb0A02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.58 44.0 3.69e-01 86.7% 67.9%
4e98C00 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.57 48.0 4.08e-01 96.7% 96.2%
6wubf01 3.30.70.60 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S6/Translation elongation factor EF1B 0.57 44.0 3.91e-01 88.3% 69.1%
3ahpA00 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.57 48.0 4.06e-01 98.3% 95.3%
2vfrA04 3.30.70.2520 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.56 43.0 3.77e-01 86.7% 66.0%
1we8A01 3.30.1370.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › K Homology domain, type 1 0.56 46.0 4.12e-01 91.7% 71.4%
3l60A01 3.30.559.10 Alpha Beta › 2-Layer Sandwich › Chloramphenicol Acetyltransferase › Chloramphenicol acetyltransferase-like domain 0.56 46.0 3.19e-01 95.0% 81.4%
5ajiB03 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.54 42.0 3.73e-01 90.0% 65.3%
3pfeA02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.53 44.0 3.52e-01 95.0% 74.6%
2yq1C00 3.30.70.390 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Epstein Barr virus nuclear antigen-1, DNA-binding domain 0.53 41.0 3.28e-01 86.7% 45.0%
7c51A01 3.30.70.2970 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Protein of unknown function (DUF541), domain 2 0.53 45.0 3.78e-01 100.0% 100.0%
2ypyA00 3.30.70.390 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Epstein Barr virus nuclear antigen-1, DNA-binding domain 0.53 44.0 3.49e-01 96.7% 73.1%
3u6yA00 3.30.110.20 Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor IF3 › Alba-like domain 0.52 40.0 3.54e-01 90.0% 69.7%
3up9A01 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.52 40.0 3.19e-01 88.3% 38.4%
1rtzA00 3.30.70.560 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 7,8-Dihydro-6-hydroxymethylpterin-pyrophosphokinase HPPK 0.52 43.0 3.32e-01 98.3% 63.2%
5h80B03 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.52 42.0 2.81e-01 98.3% 21.9%
4acvA00 3.30.2000.30 Alpha Beta › 2-Layer Sandwich › STM4215-like › 0.51 41.0 3.42e-01 93.3% 60.5%
3a27A00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.51 39.0 2.78e-01 90.0% 28.8%
3kp0A03 3.30.30.60 Alpha Beta › 2-Layer Sandwich › Defensin A-like › D-lysine 5,6-aminomutase beta subunit KamE, N-terminal domain 0.51 40.0 3.94e-01 95.0% 80.6%
2vxaA00 3.30.1660.10 Alpha Beta › 2-Layer Sandwich › Dodecin subunit-like › Flavin-binding protein dodecin 0.51 41.0 4.09e-01 98.3% 97.0%
1ykwA01 3.30.70.150 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RuBisCO large subunit, N-terminal domain 0.50 42.0 3.39e-01 100.0% 84.7%
3lvtA03 2.60.40.2210 Mainly Beta › Sandwich › Immunoglobulin-like › 0.50 40.0 3.26e-01 91.7% 74.4%
ECOD (34)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
1290797 323.1.1.1 ↗ a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases › 2-oxoacid_dh 0.62 50.0 3.31e-01 90.0% 72.9%
3279873 213.1.1.25 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_3 0.60 49.0 3.54e-01 95.0% 31.4%
None — 0.60 48.0 3.26e-01 90.0% 75.6%
4152803 304.12.1.1 ↗ a+b two layers › Alpha-beta plaits › Ribosomal protein S6 › Ribosomal protein S6 › Ribosomal_S6 0.59 45.0 4.04e-01 86.7% 69.7%
4931009 2003.1.5.82 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_31 0.58 48.0 3.27e-01 95.0% 35.7%
4610509 304.45.1.1 ↗ a+b two layers › Alpha-beta plaits › 6-hydroxymethyl-7,8-dihydropterin pyrophosphokinase, HPPK › 6-hydroxymethyl-7,8-dihydropterin pyrophosphokinase, HPPK › HPPK 0.57 45.0 3.38e-01 90.0% 40.6%
4132429 304.102.1.1 ↗ a+b two layers › Alpha-beta plaits › Pseudouridine synthase › Pseudouridine synthase › PseudoU_synth_2 0.56 49.0 3.28e-01 100.0% 52.2%
3615101 304.102.1.1 ↗ a+b two layers › Alpha-beta plaits › Pseudouridine synthase › Pseudouridine synthase › PseudoU_synth_2 0.56 48.0 3.06e-01 100.0% 52.9%
3680355 304.8.1.45 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › bHLH-TF_ACT-like_plant 0.56 42.0 4.55e-01 96.7% 100.0%
4498351 304.25.1.1 ↗ a+b two layers › Alpha-beta plaits › Bacterial exopeptidase dimerisation domain › Bacterial exopeptidase dimerisation domain › M20_dimer 0.56 44.0 3.59e-01 90.0% 73.3%
4871888 226.1.1.4 ↗ a+b two layers › POZ domain › POZ domain › POZ domain › BTB_2 0.55 47.0 4.36e-01 100.0% 75.3%
4974938 2003.1.5.66 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_11 0.55 46.0 3.22e-01 95.0% 40.2%
5002185 2003.1.5.81 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_25 0.55 46.0 3.19e-01 95.0% 38.6%
3957240 11.1.1.130 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Inhibitor_I42 0.55 42.0 3.43e-01 85.0% 50.8%
3280414 304.133.1.1 ↗ a+b two layers › Alpha-beta plaits › 26 kDa periplasmic immunogenic protein › 26 kDa periplasmic immunogenic protein › SIMPL 0.54 45.0 3.81e-01 95.0% 76.2%
3166916 2484.1.1.153 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DUF1744 0.54 42.0 2.74e-01 88.3% 21.5%
3950775 7523.1.1.0 ↗ a/b three-layered sandwiches › Periplasmic binding protein-like II › Periplasmic binding protein-like II › Periplasmic binding protein-like II 0.54 44.0 3.36e-01 98.3% 70.2%
3897613 11.1.1.653 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Ig_Dlec1_1 0.54 46.0 3.92e-01 96.7% 62.0%
3521712 109.6.1.1 ↗ alpha superhelices › Repetitive alpha hairpins › Ras GEF › Ras GEF › RasGEF 0.54 43.0 2.71e-01 95.0% 15.6%
4989288 11.1.1.1401 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › DUF1573 0.53 45.0 3.78e-01 98.3% 84.4%
5052400 2003.1.5.81 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_25 0.53 44.0 3.10e-01 95.0% 42.3%
1122231 304.15.1.4 ↗ a+b two layers › Alpha-beta plaits › Viral DNA-binding domain › Viral DNA-binding domain › LANA1_DNA-bd 0.53 41.0 3.28e-01 86.7% 45.0%
4528832 2003.1.5.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases 0.53 41.0 2.93e-01 93.3% 26.5%
3605491 328.1.1.1 ↗ a+b two layers › IF3-like › AlbA-like › AlbA-like › Alba 0.53 42.0 3.54e-01 96.7% 55.0%
3023894 1.1.5.24 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Phage_T4_gp19 0.53 42.0 3.21e-01 90.0% 57.7%
4954550 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 0.52 41.0 3.42e-01 90.0% 68.7%
5012991 1.1.9.23 ↗ beta barrels › cradle loop barrel › RIFT-related › PUA domain › DUF473 0.52 42.0 3.43e-01 91.7% 65.8%
4933855 872.1.1.1 ↗ a+b two layers › Dodecin subunit-like › Flavin-binding protein dodecin-like › Flavin-binding protein dodecin-like › SHS2_Rpb7-N 0.52 42.0 4.00e-01 95.0% 98.7%
4927228 872.1.1.1 ↗ a+b two layers › Dodecin subunit-like › Flavin-binding protein dodecin-like › Flavin-binding protein dodecin-like › SHS2_Rpb7-N 0.51 39.0 3.74e-01 88.3% 97.3%
5021830 11.1.1.130 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Inhibitor_I42 0.51 42.0 3.62e-01 96.7% 57.1%
3589403 304.124.1.0 ↗ a+b two layers › Alpha-beta plaits › Phage tail protein-like › Phage tail protein-like 0.51 43.0 3.50e-01 98.3% 50.0%
4933378 304.133.1.1 ↗ a+b two layers › Alpha-beta plaits › 26 kDa periplasmic immunogenic protein › 26 kDa periplasmic immunogenic protein › SIMPL 0.51 43.0 3.68e-01 100.0% 99.0%
1396465 12.1.1.43 ↗ beta sandwiches › Glycosyl hydrolase domain-like › Glycosyl hydrolase domain › Glycosyl hydrolase domain › Glyco_hydro_38 0.51 39.0 3.27e-01 90.0% 69.7%
2779092 864.1.1.2 ↗ a+b two layers › DLC › DLC › DLC › Tctex-1 0.50 40.0 3.29e-01 98.3% 47.4%
D3 medium residues 30-115
PDB
Domain cluster: representative
ECOD (2)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4888789 1083.1.1.1 ↗ a+b duplicates or obligate multimers › Phage T4 gp12 N-terminal repeating units › Phage T4 gp12 N-terminal repeating units › Phage T4 gp12 N-terminal repeating units › gp12-short_mid 0.88 82.0 5.53e-01 100.0% 31.6%
2417914 1083.1.1.0 ↗ a+b duplicates or obligate multimers › Phage T4 gp12 N-terminal repeating units › Phage T4 gp12 N-terminal repeating units › Phage T4 gp12 N-terminal repeating units 0.79 74.0 6.01e-01 100.0% 73.3%