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SR-VP_2-4_scaffold_141_1208361_prodigal-single.1__X__X__00579

Bact-Vir

SR-VP_2-4_scaffold_141_1208361_prodigal-single.1__X__X__00579

Identity

Kingdom:
phage

Quality

89.8 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 5-59
PDB
Domain cluster: representative
CATH (41)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
6mzoA01 3.40.50.11970 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.65 55.0 4.34e-01 98.2% 65.9%
6gfaA02 3.30.30.30 Alpha Beta › 2-Layer Sandwich › Defensin A-like › 0.64 40.0 4.06e-01 92.7% 62.5%
4p6zM01 3.30.450.60 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.64 46.0 3.62e-01 78.2% 36.4%
3pieC05 2.170.260.40 Mainly Beta › Beta Complex › paz domain › 0.64 48.0 3.53e-01 85.5% 35.9%
2frnA01 3.30.300.110 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › Met-10+ protein-like domains 0.64 46.0 4.58e-01 90.9% 75.0%
2xa7M01 3.30.450.60 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.63 45.0 3.58e-01 78.2% 35.8%
3cueC00 3.30.450.70 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.63 46.0 3.46e-01 80.0% 37.8%
1kaxA02 3.30.30.30 Alpha Beta › 2-Layer Sandwich › Defensin A-like › 0.63 39.0 3.92e-01 92.7% 61.8%
1nrkA01 3.30.70.1630 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.63 41.0 3.44e-01 74.5% 38.1%
2r41A00 3.10.450.150 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › enterococcus faecalis protein 0.62 43.0 3.59e-01 74.5% 79.6%
3uepA00 2.30.330.10 Mainly Beta › Roll › Surface presentation of antigens (SPOA) › SpoA-like 0.60 43.0 3.82e-01 78.2% 76.5%
2j3tC00 3.30.450.70 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.59 43.0 3.28e-01 80.0% 39.0%
1efpB00 3.40.50.620 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs 0.58 49.0 3.27e-01 98.2% 75.2%
4azpA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.58 40.0 3.11e-01 78.2% 30.6%
4j4hA01 3.40.50.12150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.57 49.0 3.76e-01 100.0% 64.4%
1nijA02 3.30.1220.10 Alpha Beta › 2-Layer Sandwich › Hypothetical Protein Yjia; Chain: A;domain 2 › CobW-like, C-terminal domain 0.57 48.0 3.83e-01 96.4% 72.4%
2ci8A01 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.57 47.0 4.77e-01 100.0% 100.0%
6c1zA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.57 40.0 3.08e-01 80.0% 30.4%
1xezA01 3.30.110.130 Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor IF3 › Hemolytic toxin, N-terminal domain 0.57 44.0 4.08e-01 96.4% 98.8%
1o9yC00 2.30.330.10 Mainly Beta › Roll › Surface presentation of antigens (SPOA) › SpoA-like 0.56 40.0 3.70e-01 76.4% 88.9%
7b1xA01 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.55 45.0 2.97e-01 98.2% 67.8%
1k32A01 2.120.10.60 Mainly Beta › 6 Propeller › Neuraminidase › Tricorn protease N-terminal domain 0.55 41.0 2.62e-01 80.0% 26.1%
3jtzA00 3.30.160.390 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Integrase, DNA-binding domain 0.55 47.0 4.25e-01 100.0% 74.0%
2j3tD01 3.30.450.70 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.55 39.0 3.14e-01 81.8% 41.8%
3ajvC02 3.40.1350.10 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.55 41.0 3.61e-01 85.5% 67.0%
5xrwC00 2.30.330.10 Mainly Beta › Roll › Surface presentation of antigens (SPOA) › SpoA-like 0.55 38.0 3.50e-01 74.5% 82.1%
1t6aA02 3.30.310.120 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › Rbstp2229 like protein 0.54 37.0 3.36e-01 70.9% 62.8%
1o97D01 3.40.50.620 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs 0.54 44.0 3.16e-01 98.2% 83.1%
4hntA04 3.10.600.10 Alpha Beta › Roll › pyruvate carboxylase f1077a mutant fold › pyruvate carboxylase f1077a mutant domain 0.54 37.0 3.19e-01 76.4% 84.2%
3k50A02 2.30.42.10 Mainly Beta › Roll › Pdz3 Domain › PDZ domain 0.53 46.0 3.84e-01 100.0% 86.0%
3gdoA02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.53 42.0 2.96e-01 90.9% 86.4%
2kknA00 3.60.21.10 Alpha Beta › 4-Layer Sandwich › Purple Acid Phosphatase; chain A, domain 2 › Metallo-dependent phosphatases 0.53 44.0 3.31e-01 100.0% 53.5%
3p3lA00 1.10.630.10 Mainly Alpha › Orthogonal Bundle › Cytochrome p450 › Cytochrome P450 0.53 41.0 2.58e-01 94.5% 75.7%
2ix2B00 3.70.10.10 Alpha Beta › Box › Proliferating Cell Nuclear Antigen › 0.52 37.0 2.49e-01 78.2% 45.7%
4hbrA00 3.10.450.360 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.52 36.0 2.81e-01 76.4% 50.7%
4qdiA02 3.40.1190.10 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Mur-like, catalytic domain 0.52 44.0 2.96e-01 100.0% 73.4%
7ecrA01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.52 41.0 3.03e-01 98.2% 49.2%
1mpgA01 3.30.310.20 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › DNA-3-methyladenine glycosylase AlkA, N-terminal domain 0.52 32.0 2.66e-01 94.5% 29.5%
1xmxA02 3.40.1350.10 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.52 45.0 3.33e-01 100.0% 53.0%
3fhlA02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.51 39.0 2.78e-01 87.3% 82.6%
2qmiA02 2.40.128.210 Mainly Beta › Beta Barrel › Lipocalin › Pab87 octamerisation domain 0.50 37.0 3.12e-01 100.0% 45.0%
ECOD (63)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3936327 101.1.1.76 alpha arrays › HTH › HTH › Three-helical HTH › Integrase_H2C2 0.74 43.0 3.44e-01 94.5% 32.0%
5047502 223.2.1.0 a+b three layers › Profilin-like › profilin-like › profilin-like 0.73 53.0 3.94e-01 80.0% 30.7%
3979711 252.2.1.6 a+b two layers › DNA-binding domain › GCC-box binding domain-like › GCC-box binding domain-like › Arm-DNA-bind_2 0.73 44.0 4.18e-01 96.4% 52.3%
3686556 223.2.1.0 a+b three layers › Profilin-like › profilin-like › profilin-like 0.70 48.0 3.77e-01 80.0% 32.0%
3239789 2004.1.1.0 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.70 59.0 4.05e-01 100.0% 37.1%
4003988 391.1.1.7 few secondary structure elements › Fibronectin type I module-like › Fibronectin type I module-like › Fibronectin type I module › Fn1_2 0.70 49.0 4.41e-01 74.5% 54.7%
3743553 323.1.1.0 a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases 0.69 50.0 3.20e-01 78.2% 31.9%
3169378 223.2.1.3 a+b three layers › Profilin-like › profilin-like › profilin-like › Clat_adaptor_s 0.68 49.0 3.72e-01 80.0% 31.1%
3882038 223.2.1.3 a+b three layers › Profilin-like › profilin-like › profilin-like › Clat_adaptor_s 0.68 48.0 3.51e-01 80.0% 27.1%
4027768 223.2.1.0 a+b three layers › Profilin-like › profilin-like › profilin-like 0.67 47.0 3.65e-01 80.0% 31.1%
3695126 207.1.1.0 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats 0.67 58.0 3.44e-01 100.0% 30.4%
3995931 207.1.1.0 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats 0.67 56.0 3.37e-01 98.2% 25.1%
4581150 874.1.1.0 a+b duplicates or obligate multimers › Smc hinge domain › Smc hinge domain › Smc hinge domain 0.66 56.0 3.79e-01 100.0% 32.6%
3704074 223.2.1.19 a+b three layers › Profilin-like › profilin-like › profilin-like › Intu_longin_1 0.66 48.0 3.48e-01 80.0% 32.1%
3789331 207.1.1.0 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats 0.66 53.0 3.33e-01 92.7% 37.6%
3927766 223.2.1.3 a+b three layers › Profilin-like › profilin-like › profilin-like › Clat_adaptor_s 0.65 47.0 3.49e-01 78.2% 29.7%
4978284 223.2.1.0 a+b three layers › Profilin-like › profilin-like › profilin-like 0.65 45.0 3.55e-01 72.7% 40.8%
3493599 223.2.1.3 a+b three layers › Profilin-like › profilin-like › profilin-like › Clat_adaptor_s 0.65 46.0 3.42e-01 78.2% 28.4%
5071762 223.2.1.0 a+b three layers › Profilin-like › profilin-like › profilin-like 0.65 45.0 3.54e-01 74.5% 38.4%
4944878 223.2.1.0 a+b three layers › Profilin-like › profilin-like › profilin-like 0.65 46.0 3.59e-01 78.2% 36.9%
4960195 3567.1.1.0 a+b duplicates or obligate multimers › MPER trimer › MPER trimer › MPER trimer 0.64 46.0 4.18e-01 80.0% 56.0%
3953947 286.1.1.2 a+b complex topology › Diaminopimelate epimerase-like › Diaminopimelate epimerase-like › Diaminopimelate epimerase-like › PhzC-PhzF 0.63 53.0 4.30e-01 100.0% 92.2%
3459002 874.1.1.0 a+b duplicates or obligate multimers › Smc hinge domain › Smc hinge domain › Smc hinge domain 0.63 53.0 3.73e-01 100.0% 37.9%
5051623 223.2.1.20 a+b three layers › Profilin-like › profilin-like › profilin-like › Fuz_longin_1 0.63 46.0 3.56e-01 80.0% 40.0%
5046180 223.2.1.0 a+b three layers › Profilin-like › profilin-like › profilin-like 0.63 45.0 3.54e-01 78.2% 38.4%
4996855 223.2.1.0 a+b three layers › Profilin-like › profilin-like › profilin-like 0.63 46.0 3.59e-01 80.0% 40.8%
4970558 223.2.1.0 a+b three layers › Profilin-like › profilin-like › profilin-like 0.63 44.0 3.44e-01 74.5% 34.4%
3824262 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 0.63 53.0 3.74e-01 100.0% 39.0%
5023847 286.1.1.1 a+b complex topology › Diaminopimelate epimerase-like › Diaminopimelate epimerase-like › Diaminopimelate epimerase-like › DAP_epimerase 0.63 53.0 4.11e-01 100.0% 83.1%
4977721 223.2.1.0 a+b three layers › Profilin-like › profilin-like › profilin-like 0.62 45.0 3.42e-01 76.4% 37.0%
4025378 223.2.1.8 a+b three layers › Profilin-like › profilin-like › profilin-like › Sybindin 0.62 44.0 3.22e-01 80.0% 50.9%
3733542 223.2.1.3 a+b three layers › Profilin-like › profilin-like › profilin-like › Clat_adaptor_s 0.62 44.0 3.26e-01 78.2% 26.1%
4406921 223.1.1.0 a+b three layers › Profilin-like › sensor domains › sensor domains 0.61 42.0 3.77e-01 78.2% 48.2%
3325173 223.2.1.0 a+b three layers › Profilin-like › profilin-like › profilin-like 0.61 45.0 3.27e-01 80.0% 27.5%
3657096 223.2.1.3 a+b three layers › Profilin-like › profilin-like › profilin-like › Clat_adaptor_s 0.61 44.0 3.22e-01 78.2% 38.8%
3289616 2002.1.1.73 a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › TGT 0.61 50.0 3.11e-01 100.0% 58.6%
3790774 223.1.1.0 a+b three layers › Profilin-like › sensor domains › sensor domains 0.60 43.0 3.45e-01 78.2% 40.8%
4007983 252.2.1.5 a+b two layers › DNA-binding domain › GCC-box binding domain-like › GCC-box binding domain-like › Arm-DNA-bind_3 0.60 51.0 4.37e-01 100.0% 65.3%
3972580 331.1.1.3 a+b two layers › TBP-like › TATA-box binding protein-like › TATA-box binding protein-like › AlkA_N 0.60 36.0 3.28e-01 94.5% 41.2%
3527821 223.2.1.19 a+b three layers › Profilin-like › profilin-like › profilin-like › Intu_longin_1 0.59 43.0 3.24e-01 80.0% 33.3%
5053387 223.2.1.0 a+b three layers › Profilin-like › profilin-like › profilin-like 0.59 42.0 3.26e-01 76.4% 30.0%
4999664 223.2.1.0 a+b three layers › Profilin-like › profilin-like › profilin-like 0.58 42.0 3.35e-01 80.0% 38.4%
4996847 223.2.1.0 a+b three layers › Profilin-like › profilin-like › profilin-like 0.58 42.0 3.32e-01 78.2% 36.8%
3399393 7524.1.1.4 a/b three-layered sandwiches › ALDH-like › ALDH-like › ALDH-like › DUF1487 0.58 41.0 2.82e-01 80.0% 18.7%
5052919 223.2.1.0 a+b three layers › Profilin-like › profilin-like › profilin-like 0.58 40.0 3.10e-01 78.2% 30.0%
5076535 223.2.1.0 a+b three layers › Profilin-like › profilin-like › profilin-like 0.58 41.0 3.22e-01 78.2% 36.9%
3063008 6081.1.1.1 a+b two layers › Pro-domain of Hemolysin hlyA › Pro-domain of Hemolysin hlyA › Pro-domain of Hemolysin hlyA › Hemolysin_N 0.57 45.0 3.90e-01 100.0% 86.8%
3624010 391.1.1.0 few secondary structure elements › Fibronectin type I module-like › Fibronectin type I module-like › Fibronectin type I module 0.57 38.0 3.91e-01 80.0% 78.0%
4669027 219.1.1.0 a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases 0.56 41.0 2.67e-01 76.4% 40.0%
5080470 316.1.1.21 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › Aminoglyc_resit 0.56 39.0 2.61e-01 74.5% 86.8%
3472961 223.2.1.0 a+b three layers › Profilin-like › profilin-like › profilin-like 0.56 40.0 3.00e-01 78.2% 33.3%
4983591 2005.1.1.10 a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › ETF 0.55 46.0 3.14e-01 98.2% 78.3%
3987356 3067.1.1.1 few secondary structure elements › N-terminal domain of helicase-loading protein DnaI › N-terminal domain of helicase-loading protein DnaI › N-terminal domain of helicase-loading protein DnaI › DnaI_N 0.55 38.0 3.36e-01 72.7% 84.7%
3415496 7524.1.1.4 a/b three-layered sandwiches › ALDH-like › ALDH-like › ALDH-like › DUF1487 0.55 40.0 2.70e-01 80.0% 19.7%
4944478 69.1.1.0 beta complex topology › Hedgehog/intein › Hedgehog/intein › Hint 0.54 37.0 2.98e-01 72.7% 55.0%
4249934 2484.1.1.37 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Pan_kinase 0.53 43.0 3.42e-01 94.5% 70.8%
2393002 323.1.1.3 a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases › AMP-binding 0.52 43.0 2.99e-01 100.0% 62.8%
4928221 2.1.1.15 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › tRNA_anti-codon 0.52 43.0 3.45e-01 98.2% 83.9%
3928090 223.2.1.8 a+b three layers › Profilin-like › profilin-like › profilin-like › Sybindin 0.52 38.0 3.10e-01 85.5% 37.6%
5045661 331.1.1.0 a+b two layers › TBP-like › TATA-box binding protein-like › TATA-box binding protein-like 0.52 36.0 3.35e-01 100.0% 56.0%
3895434 101.1.1.76 alpha arrays › HTH › HTH › Three-helical HTH › Integrase_H2C2 0.51 39.0 3.13e-01 96.4% 39.2%
4220398 304.48.1.11 a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RNA_pol 0.51 35.0 2.49e-01 100.0% 22.9%
5026178 2005.1.1.10 a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › ETF 0.50 39.0 2.79e-01 92.7% 97.1%