←Back to structures

gwa1_scaffold_1_prodigal-single.1__X__X__00019

Bact-Vir

gwa1_scaffold_1_prodigal-single.1__X__X__00019

Identity

Kingdom:
phage

Quality

91.8 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 4-56
PDB
Domain cluster: representative
CATH (15)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4r8oA00 2.40.128.720 Mainly Beta › Beta Barrel › Lipocalin › 0.63 52.0 4.23e-01 100.0% 49.0%
4whiA00 2.40.128.600 Mainly Beta › Beta Barrel › Lipocalin › 0.62 43.0 3.50e-01 100.0% 38.2%
2kuqA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.61 38.0 2.81e-01 100.0% 21.6%
3k1lA01 3.30.457.40 Alpha Beta › 2-Layer Sandwich › Copper Amine Oxidase; Chain A, domain 1 › 0.60 43.0 3.74e-01 100.0% 46.7%
3fehA02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.59 40.0 3.07e-01 90.6% 29.8%
1vqqA01 3.10.450.100 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › NTF2-like; domain 1 0.59 48.0 3.74e-01 100.0% 43.1%
4oxwA00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.57 36.0 2.92e-01 100.0% 32.1%
3i3tA00 3.90.70.10 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases 0.57 46.0 2.94e-01 94.3% 86.1%
1n7oA03 2.60.220.10 Mainly Beta › Sandwich › Chondroitinase Ac; Chain A, domain 3 › Polysaccharide lyase family 8-like, C-terminal 0.55 43.0 3.71e-01 86.8% 81.2%
2p97A00 3.60.15.10 Alpha Beta › 4-Layer Sandwich › Metallo-beta-lactamase; Chain A › Ribonuclease Z/Hydroxyacylglutathione hydrolase-like 0.53 45.0 3.11e-01 100.0% 89.6%
2z1aA02 3.90.780.10 Alpha Beta › Alpha-Beta Complex › 5'-nucleotidase; domain 2 › 5'-Nucleotidase, C-terminal domain 0.51 42.0 2.96e-01 98.1% 58.9%
3licA01 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.51 39.0 2.73e-01 88.7% 25.8%
4iq0C02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.51 41.0 2.89e-01 94.3% 64.6%
2dn6A00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.50 33.0 2.70e-01 100.0% 31.3%
4l0mA00 3.40.50.1580 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Nucleoside phosphorylase domain 0.50 37.0 2.57e-01 88.7% 60.2%
ECOD (26)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4188272 71.1.1.3 ↗ beta meanders › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › LolB 0.72 47.0 3.33e-01 100.0% 22.6%
4543988 4099.1.1.26 ↗ a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like › Kre28 0.67 48.0 3.79e-01 100.0% 35.7%
3257853 219.1.1.3 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › UCH 0.66 53.0 3.29e-01 88.7% 50.5%
3392692 391.1.2.1 ↗ few secondary structure elements › Fibronectin type I module-like › Fibronectin type I module-like › VWC domain-related › VWC 0.62 38.0 3.72e-01 86.8% 53.3%
3993319 913.1.1.0 ↗ few secondary structure elements › Hormone receptor domain (HRM, Pfam 02793) › Hormone receptor domain (HRM, Pfam 02793) › Hormone receptor domain (HRM, Pfam 02793) 0.60 39.0 3.82e-01 100.0% 60.0%
3628863 11.1.1.97 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › I-set 0.59 39.0 2.84e-01 100.0% 23.2%
3580415 7525.1.1.2 ↗ a/b three-layered sandwiches › Phosphoglycerate mutase-like › Phosphoglycerate mutase-like › Phosphoglycerate mutase-like › His_Phos_2 0.57 47.0 2.92e-01 92.5% 81.0%
3700132 7026.1.1.0 ↗ beta meanders › N-terminal region of lipid transporter Vps13 › N-terminal region of lipid transporter Vps13 › N-terminal region of lipid transporter Vps13 0.56 46.0 2.93e-01 100.0% 30.9%
3516206 109.35.1.9 ↗ alpha superhelices › Repetitive alpha hairpins › Proteasome/cyclosome (PC) repeat › Proteasome/cyclosome (PC) repeat › RPN1_C 0.54 39.0 2.31e-01 83.0% 88.7%
3881192 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.53 38.0 2.81e-01 100.0% 25.3%
4243735 2484.1.1.36 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_2 0.53 39.0 2.70e-01 94.3% 19.6%
4583494 2003.1.2.24 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › Pyr_redox_2 0.53 43.0 3.33e-01 98.1% 86.7%
4934884 246.1.1.1 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › Carbon-nitrogen hydrolase › Carbon-nitrogen hydrolase › CN_hydrolase 0.53 42.0 2.73e-01 100.0% 17.8%
3512851 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.52 39.0 3.04e-01 100.0% 34.1%
1244069 243.1.1.27 ↗ a+b two layers › Cystatin-like › NTF2-like › NTF2-like › DUF4348 0.52 46.0 3.65e-01 100.0% 91.9%
4862964 3675.1.1.1 ↗ a+b complex topology › DNA gyrase subunit B insertion domain › DNA gyrase subunit B insertion domain › DNA gyrase subunit B insertion domain › GyrB_insert 0.52 40.0 2.81e-01 96.2% 25.1%
3502261 214.1.1.10 ↗ a+b two layers › SH2 › SH2 › SH2 › DUF7145 0.52 38.0 2.88e-01 77.4% 52.6%
2041633 79.1.1.0 ↗ beta duplicates or obligate multimers › Phage tail fiber protein trimerization domain › Phage tail fiber protein trimerization domain › Phage tail fiber protein trimerization domain 0.51 37.0 3.62e-01 100.0% 71.7%
389621 4011.1.1.0 ↗ beta barrels › beta-barrel domain in acetyl-CoA synthetase-like proteins › beta-barrel domain in acetyl-CoA synthetase-like proteins › beta-barrel domain in acetyl-CoA synthetase-like proteins 0.51 39.0 3.50e-01 90.6% 60.0%
3270273 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.51 38.0 2.15e-01 84.9% 30.9%
3324862 11.1.1.122 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › GO-like_E_set 0.51 36.0 3.01e-01 83.0% 40.9%
3002315 220.1.1.1 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.51 32.0 2.98e-01 79.2% 44.3%
1170111 243.1.1.27 ↗ a+b two layers › Cystatin-like › NTF2-like › NTF2-like › DUF4348 0.51 43.0 3.48e-01 100.0% 89.2%
4385298 3421.1.1.1 ↗ a+b complex topology › Yos9 dimerization domain › Yos9 dimerization domain › Yos9 dimerization domain › Yos9_DD 0.50 43.0 3.31e-01 100.0% 41.6%
3995669 5.1.3.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed 0.50 40.0 2.65e-01 92.5% 20.6%
3706274 7026.1.1.0 ↗ beta meanders › N-terminal region of lipid transporter Vps13 › N-terminal region of lipid transporter Vps13 › N-terminal region of lipid transporter Vps13 0.50 42.0 2.98e-01 100.0% 37.9%
D2 high residues 60-100_113-127
PDB
Domain cluster: representative
CATH (29)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2xkoC01 2.30.30.660 Mainly Beta › Roll › SH3 type barrels. › Protein of unknown function (DUF3539) 0.73 46.0 4.93e-01 73.2% 75.0%
1b7tA02 2.30.30.360 Mainly Beta › Roll › SH3 type barrels. › Myosin S1 fragment, N-terminal 0.70 51.0 5.28e-01 78.6% 92.3%
3ic8A01 3.40.30.110 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › 0.69 50.0 3.49e-01 76.8% 30.5%
1y96A00 2.30.30.100 Mainly Beta › Roll › SH3 type barrels. › 0.66 49.0 4.23e-01 78.6% 65.1%
1tg0A00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.66 49.0 4.63e-01 78.6% 93.9%
6gbuD00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.66 48.0 4.59e-01 76.8% 95.3%
2vb6A01 2.30.30.360 Mainly Beta › Roll › SH3 type barrels. › Myosin S1 fragment, N-terminal 0.65 51.0 5.18e-01 87.5% 100.0%
3kztA00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.65 44.0 3.35e-01 71.4% 66.7%
4ii1A02 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.64 46.0 4.60e-01 76.8% 83.9%
1dwnA00 3.30.380.10 Alpha Beta › 2-Layer Sandwich › MS2 Viral Coat Protein › MS2 Viral Coat Protein 0.64 44.0 3.40e-01 73.2% 33.1%
2d42A02 3.10.450.380 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.61 42.0 3.98e-01 71.4% 66.2%
3pnnA00 3.90.550.10 Alpha Beta › Alpha-Beta Complex › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A 0.61 50.0 3.25e-01 100.0% 31.9%
4n4iA02 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.60 49.0 4.35e-01 96.4% 65.6%
7byjA02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.60 45.0 3.82e-01 82.1% 95.8%
1vqwA01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.60 42.0 2.63e-01 75.0% 49.0%
4a53A01 2.30.30.100 Mainly Beta › Roll › SH3 type barrels. › 0.59 42.0 4.11e-01 78.6% 82.3%
1fhoA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.58 42.0 3.35e-01 78.6% 67.2%
2ec1A00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.57 41.0 3.35e-01 78.6% 77.1%
4uv3E01 3.40.50.10610 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › ABC-type transport auxiliary lipoprotein component 0.57 39.0 2.76e-01 73.2% 69.0%
5jk0B01 1.10.443.10 Mainly Alpha › Orthogonal Bundle › hpI Integrase; Chain A › Intergrase catalytic core 0.57 47.0 3.38e-01 94.6% 50.9%
2wweA01 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.57 41.0 3.35e-01 76.8% 84.6%
3j7aF03 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.56 45.0 4.27e-01 94.6% 91.5%
3kf6A00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.55 41.0 3.18e-01 82.1% 61.8%
3m4aA03 3.90.15.10 Alpha Beta › Alpha-Beta Complex › Topoisomerase I; Chain A, domain 3 › Topoisomerase I; Chain A, domain 3 0.55 43.0 3.49e-01 89.3% 85.6%
4dokA01 3.50.70.10 Alpha Beta › 3-Layer(bba) Sandwich › Chalcone isomerase › 0.55 39.0 2.91e-01 76.8% 63.9%
3qijB03 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.55 40.0 3.48e-01 78.6% 74.2%
5yjwA00 3.50.50.100 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › 0.55 45.0 2.67e-01 87.5% 58.8%
4r9iA02 2.30.39.10 Mainly Beta › Roll › Alpha-1-antitrypsin; domain 1 › Alpha-1-antitrypsin, domain 1 0.54 37.0 3.10e-01 71.4% 89.0%
1vchD00 3.40.50.2020 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.53 36.0 2.68e-01 73.2% 98.8%
ECOD (40)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3448975 4.1.1.66 ↗ beta barrels › SH3 › SH3 › SH3 › LBR_tudor 0.82 61.0 5.79e-01 78.6% 90.8%
3301015 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.80 59.0 5.60e-01 78.6% 89.2%
3926118 4.1.1.223 ↗ beta barrels › SH3 › SH3 › SH3 › KIF2A-like_1st 0.76 53.0 5.19e-01 73.2% 73.3%
3928430 4.1.1.223 ↗ beta barrels › SH3 › SH3 › SH3 › KIF2A-like_1st 0.76 54.0 4.99e-01 75.0% 75.7%
3578208 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.73 53.0 5.39e-01 76.8% 90.9%
5000308 4.1.1.3 ↗ beta barrels › SH3 › SH3 › SH3 › KOW 0.72 52.0 5.52e-01 76.8% 98.0%
3989574 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.71 51.0 4.39e-01 75.0% 60.0%
4426276 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.71 50.0 4.61e-01 73.2% 65.7%
3928711 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.71 60.0 5.30e-01 96.4% 71.8%
3576940 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.69 60.0 3.99e-01 98.2% 34.2%
3852545 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.69 52.0 5.10e-01 80.4% 85.0%
4024915 4.1.1.237 ↗ beta barrels › SH3 › SH3 › SH3 › KOW4_SPT5 0.69 51.0 4.86e-01 78.6% 78.5%
3358753 4.1.1.381 ↗ beta barrels › SH3 › SH3 › SH3 › KOW5_SPT5, KOW4_SPT5 0.68 51.0 3.63e-01 80.4% 29.7%
3704305 4.1.1.344 ↗ beta barrels › SH3 › SH3 › SH3 › PF31193 0.68 53.0 4.91e-01 83.9% 82.9%
3786430 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.68 49.0 5.16e-01 76.8% 94.0%
3296865 4.1.1.237 ↗ beta barrels › SH3 › SH3 › SH3 › KOW4_SPT5 0.67 50.0 4.01e-01 78.6% 48.6%
3903213 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.67 59.0 4.17e-01 100.0% 45.1%
3709029 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.67 52.0 5.13e-01 83.9% 91.7%
3784334 4.8.1.0 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like 0.67 48.0 4.77e-01 76.8% 78.3%
3550644 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.66 50.0 5.13e-01 83.9% 94.5%
3302829 4.1.1.237 ↗ beta barrels › SH3 › SH3 › SH3 › KOW4_SPT5 0.66 49.0 4.63e-01 78.6% 78.5%
3736175 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.66 47.0 4.11e-01 76.8% 62.4%
3881484 1.1.5.0 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 0.65 45.0 3.38e-01 73.2% 97.9%
4041376 4.1.1.97 ↗ beta barrels › SH3 › SH3 › SH3 › DUF150_C 0.64 47.0 4.23e-01 78.6% 72.5%
4514731 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.61 48.0 4.15e-01 83.9% 61.2%
3519227 391.1.1.0 ↗ few secondary structure elements › Fibronectin type I module-like › Fibronectin type I module-like › Fibronectin type I module 0.61 33.0 3.80e-01 73.2% 72.5%
3964733 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.61 45.0 4.62e-01 83.9% 100.0%
4932493 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.61 53.0 5.05e-01 98.2% 96.9%
3839627 101.1.8.1 ↗ alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › Phage_integrase 0.59 47.0 3.64e-01 91.1% 63.7%
3839222 101.1.8.1 ↗ alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › Phage_integrase 0.58 44.0 3.33e-01 83.9% 62.1%
4329130 4313.1.1.1 ↗ beta duplicates or obligate multimers › CsrA-like › CsrA-like › CsrA-like › CsrA 0.57 33.0 3.43e-01 73.2% 60.0%
4085772 2.4.1.1 ↗ beta barrels › OB-fold › MOP-like › MOP-like › TOBE 0.56 40.0 3.68e-01 76.8% 78.7%
3673266 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.56 39.0 3.46e-01 75.0% 70.6%
3255946 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.55 37.0 3.37e-01 71.4% 83.7%
3952995 192.4.1.0 ↗ alpha bundles › Long alpha-hairpin › Ribosomal protein L29 (L29p) › Ribosomal protein L29 (L29p) 0.53 37.0 3.32e-01 76.8% 61.2%
5037361 219.1.1.13 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › Transglut_core 0.53 37.0 2.76e-01 76.8% 44.8%
4107506 325.1.7.0 ↗ a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif 0.52 39.0 3.76e-01 80.4% 76.9%
4159666 325.1.7.0 ↗ a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif 0.52 39.0 3.13e-01 80.4% 45.9%
4127839 325.1.7.0 ↗ a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif 0.52 39.0 3.54e-01 80.4% 66.7%
4838956 4246.1.1.4 ↗ a+b complex topology › N-terminal domain in RNA-polymerase beta-prime subunit › N-terminal domain in RNA-polymerase beta-prime subunit › N-terminal domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_2, RNA_pol_Rpb1_1 0.51 35.0 2.43e-01 71.4% 43.1%