Back to structures

MK448998.1__QBX31359.1__Javan636_0004__00059

Bact-Vir

MK448998.1__QBX31359.1__Javan636_0004__00059

Identity

Accession:
MK448998 ↗
Kingdom:
phage

Quality

87.4 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 5-75
PDB
CATH (12)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2jwkA00 3.30.420.270 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › 0.69 47.0 4.68e-01 83.1% 67.6%
1x9mA01 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.59 52.0 3.63e-01 97.2% 77.4%
3a7rA01 3.30.930.10 Alpha Beta › 2-Layer Sandwich › BirA Bifunctional Protein; domain 2 › Bira Bifunctional Protein; Domain 2 0.59 48.0 3.42e-01 95.8% 92.7%
2ob5A00 3.40.1650.10 Alpha Beta › 3-Layer(aba) Sandwich › RbsD-like fold › RbsD-like domain 0.58 39.0 3.12e-01 100.0% 33.1%
4rayA02 3.30.1490.190 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › Ferric-uptake regulator, C-terminal dimerisarion domain 0.54 31.0 3.68e-01 70.4% 82.0%
2xauA03 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.53 37.0 2.80e-01 74.6% 76.0%
3mwmA02 3.30.1490.190 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › Ferric-uptake regulator, C-terminal dimerisarion domain 0.52 30.0 3.32e-01 73.2% 75.0%
5cygB00 3.40.50.1580 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Nucleoside phosphorylase domain 0.51 44.0 2.99e-01 98.6% 87.1%
2fe3A02 3.30.1490.190 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › Ferric-uptake regulator, C-terminal dimerisarion domain 0.51 30.0 3.29e-01 76.1% 71.9%
2ayaA00 3.30.300.150 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › DNA polymerase III, tau subunit, domain V 0.51 39.0 3.31e-01 100.0% 48.4%
4nnaA01 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.50 44.0 2.85e-01 98.6% 55.4%
7whgG02 3.40.20.10 Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin 0.50 39.0 3.63e-01 87.3% 73.9%
ECOD (13)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
184694 2484.6.1.0 mixed a+b and a/b › Ribonuclease H-like › Periplasmic domain of ExbD/TolR › Periplasmic domain of ExbD/TolR 0.69 47.0 4.68e-01 83.1% 67.6%
3213262 145.1.1.0 alpha arrays › F-box domain › F-box domain › F-box domain 0.63 46.0 4.19e-01 80.3% 57.0%
3720049 2484.1.1.191 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RHSP 0.59 44.0 3.85e-01 80.3% 64.5%
3698456 2004.1.1.0 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.58 41.0 2.98e-01 74.6% 73.3%
3480374 2004.1.1.0 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.57 39.0 2.77e-01 70.4% 80.4%
3239485 2484.1.1.0 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.57 42.0 3.57e-01 83.1% 61.5%
3325419 2004.1.1.30 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Helicase_C 0.55 39.0 2.88e-01 74.6% 76.1%
5048941 2484.1.1.0 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.55 46.0 4.24e-01 100.0% 87.0%
4027557 2002.1.1.96 a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › S-methyl_trans 0.54 44.0 2.84e-01 98.6% 98.8%
4024059 2004.1.1.30 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Helicase_C 0.52 38.0 2.53e-01 77.5% 95.9%
3593319 304.48.1.0 a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like 0.52 37.0 2.85e-01 77.5% 94.1%
5064873 246.1.1.1 a+b four layers › Carbon-nitrogen hydrolase-like › Carbon-nitrogen hydrolase › Carbon-nitrogen hydrolase › CN_hydrolase 0.50 43.0 2.94e-01 100.0% 79.6%
4135088 101.1.2.25 alpha arrays › HTH › HTH › winged helix domain › FUR 0.50 34.0 2.78e-01 71.8% 82.0%
D2 high residues 112-179
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF08239.18 best SH3_3 36.6 5.90e-09 79.4% 90.7%
CATH (39)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1r77A00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.95 90.0 7.73e-01 100.0% 76.8%
2mk5A00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.92 86.0 6.73e-01 100.0% 61.1%
8b2gA01 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.86 71.0 7.67e-01 92.6% 100.0%
3npfA02 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.86 71.0 7.09e-01 100.0% 85.7%
2krsA01 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.85 69.0 7.34e-01 98.5% 98.3%
3npfB01 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.84 69.0 7.01e-01 100.0% 89.4%
6bioA01 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.83 65.0 7.06e-01 95.6% 98.2%
1jegA00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.74 56.0 5.92e-01 100.0% 91.7%
4epcA02 2.30.30.170 Mainly Beta › Roll › SH3 type barrels. › 0.74 64.0 6.37e-01 100.0% 91.5%
6ghmC02 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.71 55.0 5.69e-01 100.0% 87.5%
2vgeA00 1.25.40.20 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Ankyrin repeat-containing domain 0.70 53.0 3.78e-01 100.0% 27.1%
2v1qA00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.69 53.0 5.59e-01 100.0% 93.3%
1x6gA00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.68 52.0 4.97e-01 100.0% 69.1%
2kxcA00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.68 52.0 5.31e-01 100.0% 85.1%
1azpA00 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.65 47.0 4.79e-01 100.0% 80.3%
1vq8Q00 2.30.30.70 Mainly Beta › Roll › SH3 type barrels. › Ribosomal protein L21 0.65 48.0 4.28e-01 100.0% 55.8%
6my0A02 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.65 42.0 4.36e-01 100.0% 70.8%
4hbrA00 3.10.450.360 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.64 41.0 3.26e-01 95.6% 31.4%
4l3rA00 2.40.128.270 Mainly Beta › Beta Barrel › Lipocalin › 0.62 49.0 3.85e-01 85.3% 92.3%
3kxtA00 2.30.30.610 Mainly Beta › Roll › SH3 type barrels. › Chromatin protein Cren7 0.60 44.0 4.71e-01 97.1% 94.6%
1x1fA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.57 47.0 3.81e-01 97.1% 59.1%
2it1A03 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.57 40.0 4.17e-01 86.8% 82.0%
1ou8A00 2.30.30.220 Mainly Beta › Roll › SH3 type barrels. › SspB-like 0.56 46.0 4.07e-01 100.0% 61.3%
1aqcB00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.55 45.0 3.82e-01 94.1% 81.1%
7fisA01 2.115.10.20 Mainly Beta › 5 Propeller › Tachylectin-2; Chain A › Glycosyl hydrolase domain; family 43 0.54 41.0 2.76e-01 83.8% 100.0%
2grgA01 3.40.1840.10 Alpha Beta › 3-Layer(aba) Sandwich › Profilin-like › YNR034W-A-like 0.54 42.0 4.02e-01 86.8% 95.2%
3rn5A02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.53 42.0 3.84e-01 86.8% 89.1%
7ct3A01 3.30.450.30 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Dynein light chain 2a, cytoplasmic 0.53 45.0 3.82e-01 97.1% 84.6%
3v7dD02 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.53 42.0 2.69e-01 88.2% 99.7%
2hx0A01 3.30.1330.80 Alpha Beta › 2-Layer Sandwich › 60s Ribosomal Protein L30; Chain: A; › Hypothetical protein, similar to alpha- acetolactate decarboxylase; domain 2 0.53 41.0 3.39e-01 100.0% 45.5%
6i8xA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.52 41.0 3.19e-01 85.3% 88.6%
4wiwA02 3.10.50.10 Alpha Beta › Roll › Chitinase A; domain 3 › 0.52 39.0 3.98e-01 85.3% 100.0%
3sreA00 2.120.10.30 Mainly Beta › 6 Propeller › Neuraminidase › TolB, C-terminal domain 0.51 43.0 2.80e-01 97.1% 23.7%
1yr2A02 2.130.10.120 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › Prolyl oligopeptidase, N-terminal domain 0.51 39.0 2.51e-01 97.1% 17.2%
5llwA01 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.51 38.0 3.51e-01 82.4% 98.9%
4harA00 3.10.50.50 Alpha Beta › Roll › Chitinase A; domain 3 › Rubella virus capsid protein 0.51 42.0 3.72e-01 89.7% 96.9%
4xpmB00 3.40.1840.10 Alpha Beta › 3-Layer(aba) Sandwich › Profilin-like › YNR034W-A-like 0.51 39.0 3.95e-01 82.4% 100.0%
3prbA02 2.40.10.330 Mainly Beta › Beta Barrel › Thrombin, subunit H › 0.50 32.0 3.78e-01 70.6% 100.0%
2nysA00 2.30.30.220 Mainly Beta › Roll › SH3 type barrels. › SspB-like 0.50 42.0 3.64e-01 100.0% 64.1%
ECOD (48)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4032300 4.1.1.59 beta barrels › SH3 › SH3 › SH3 › SH3_5 0.96 91.0 8.14e-01 100.0% 84.4%
4041535 4.1.1.59 beta barrels › SH3 › SH3 › SH3 › SH3_5 0.96 91.0 8.22e-01 100.0% 86.4%
1293364 4.1.1.59 beta barrels › SH3 › SH3 › SH3 › SH3_5 0.92 86.0 6.73e-01 100.0% 61.1%
3840076 4.1.1.58 beta barrels › SH3 › SH3 › SH3 › SH3_3 0.91 77.0 8.15e-01 100.0% 100.0%
3988893 4.1.1.59 beta barrels › SH3 › SH3 › SH3 › SH3_5 0.91 78.0 7.57e-01 91.2% 84.0%
3579483 4.1.1.58 beta barrels › SH3 › SH3 › SH3 › SH3_3 0.90 83.0 7.59e-01 98.5% 97.6%
3700744 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.89 84.0 7.20e-01 100.0% 94.0%
4009391 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.89 77.0 7.24e-01 98.5% 77.5%
4520767 4.1.1.58 beta barrels › SH3 › SH3 › SH3 › SH3_3 0.89 75.0 7.44e-01 100.0% 85.7%
4031670 4.1.1.58 beta barrels › SH3 › SH3 › SH3 › SH3_3 0.87 72.0 7.68e-01 98.5% 98.3%
4358722 4.1.1.58 beta barrels › SH3 › SH3 › SH3 › SH3_3 0.87 73.0 6.18e-01 100.0% 57.1%
4013287 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.87 73.0 7.76e-01 94.1% 100.0%
4207556 4.1.1.58 beta barrels › SH3 › SH3 › SH3 › SH3_3 0.85 77.0 7.69e-01 100.0% 94.3%
4537356 4.1.1.58 beta barrels › SH3 › SH3 › SH3 › SH3_3 0.85 70.0 7.46e-01 97.1% 98.3%
2410170 4.1.1.58 beta barrels › SH3 › SH3 › SH3 › SH3_3 0.84 69.0 7.16e-01 100.0% 93.7%
3289848 4.1.1.58 beta barrels › SH3 › SH3 › SH3 › SH3_3 0.82 78.0 7.50e-01 100.0% 97.3%
3978088 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.82 66.0 6.75e-01 100.0% 89.2%
3989970 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.81 64.0 6.55e-01 97.1% 87.7%
4091533 4.1.1.58 beta barrels › SH3 › SH3 › SH3 › SH3_3 0.80 69.0 6.90e-01 100.0% 90.0%
4340107 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.79 73.0 7.07e-01 100.0% 93.3%
4084890 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.78 69.0 7.04e-01 98.5% 98.5%
3278325 4.1.1.58 beta barrels › SH3 › SH3 › SH3 › SH3_3 0.78 65.0 6.86e-01 97.1% 100.0%
4291404 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.77 67.0 6.51e-01 100.0% 85.3%
4185893 4.1.1.394 beta barrels › SH3 › SH3 › SH3 › SlpA 0.77 65.0 6.71e-01 98.5% 96.9%
3490689 4.1.1.1 beta barrels › SH3 › SH3 › SH3 › SH3_1 0.74 55.0 5.48e-01 100.0% 77.1%
3594081 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.71 63.0 5.99e-01 100.0% 91.3%
4185547 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.70 61.0 5.69e-01 100.0% 77.6%
4118011 4.1.1.248 beta barrels › SH3 › SH3 › SH3 › CABIT 0.62 49.0 4.56e-01 100.0% 69.4%
165392 4.1.2.1 beta barrels › SH3 › SH3 › Stringent starvation protein B, SspB › SspB 0.59 49.0 4.19e-01 100.0% 55.0%
5037639 5.1.2.7 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 5-bladed › Glyco_hydro_130 0.58 49.0 3.14e-01 95.6% 96.0%
4614716 4.1.1.292 beta barrels › SH3 › SH3 › SH3 › SH3_Rv2311 0.58 51.0 5.09e-01 98.5% 95.7%
4055974 4.1.1.248 beta barrels › SH3 › SH3 › SH3 › CABIT 0.58 45.0 3.84e-01 100.0% 49.6%
4973804 220.1.1.0 beta barrels › PH domain-like › PH domain-like › PH domain-like 0.57 43.0 4.27e-01 100.0% 77.3%
3845022 5.1.11.11 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 9-bladed › WD40 0.56 42.0 2.44e-01 91.2% 9.2%
5014686 809.2.1.0 a+b two layers › BLIP-like › BT0923-like › BT0923-like 0.56 37.0 3.93e-01 97.1% 83.6%
3929135 220.1.1.0 beta barrels › PH domain-like › PH domain-like › PH domain-like 0.56 47.0 4.13e-01 97.1% 84.8%
4478612 2.4.1.0 beta barrels › OB-fold › MOP-like › MOP-like 0.55 42.0 3.51e-01 82.4% 75.0%
4054285 5.1.4.139 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40_2 0.54 41.0 2.48e-01 82.4% 76.4%
4948189 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.53 43.0 3.72e-01 94.1% 89.8%
3501817 391.1.1.7 few secondary structure elements › Fibronectin type I module-like › Fibronectin type I module-like › Fibronectin type I module › Fn1_2 0.53 34.0 3.90e-01 77.9% 100.0%
3783191 223.2.1.9 a+b three layers › Profilin-like › profilin-like › profilin-like › Sedlin_N 0.53 43.0 3.15e-01 92.6% 67.3%
3392308 220.1.1.7 beta barrels › PH domain-like › PH domain-like › PH domain-like › IRS 0.53 41.0 3.72e-01 100.0% 61.1%
5056195 5.1.4.0 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.51 41.0 2.66e-01 89.7% 99.7%
3405538 219.1.1.111 a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › Transglut_core, Rad4 0.51 40.0 2.66e-01 94.1% 19.7%
4944052 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.51 41.0 3.73e-01 91.2% 98.9%
None 0.51 41.0 2.54e-01 89.7% 80.0%
5004623 220.1.1.0 beta barrels › PH domain-like › PH domain-like › PH domain-like 0.50 42.0 3.80e-01 100.0% 67.4%
4964835 223.2.1.63 a+b three layers › Profilin-like › profilin-like › profilin-like › DUF7522 0.50 40.0 3.47e-01 91.2% 86.1%