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KF977490.1__AHJ10705.1__P106B_22__00022

Bact-Vir

KF977490.1__AHJ10705.1__P106B_22__00022

Identity

Accession:
KF977490 ↗
Kingdom:
phage

Quality

81.3 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Rigallicvirus› Rhizobium_phage_vB_RglS_P106B

TaxID: 1458697

Cluster

View cluster (2 members)

3D Structure

Download PDB Download Scores JSON

Domains

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

D1 high residues 4-53
PDB
Domain cluster: representative
CATH (30)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2i8eA01 3.30.70.240 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.74 65.0 5.72e-01 100.0% 93.2%
4makB00 3.30.70.240 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.73 63.0 5.53e-01 100.0% 73.7%
8hi1E01 3.30.70.240 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.72 61.0 5.20e-01 100.0% 64.4%
1lxnA00 3.30.70.930 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.70 60.0 4.88e-01 100.0% 75.5%
7npaA02 3.30.70.3340 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.68 56.0 4.86e-01 100.0% 74.1%
1h3dA03 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.67 55.0 5.14e-01 100.0% 82.1%
3ezjA03 3.30.1370.120 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › 0.67 54.0 5.28e-01 94.0% 94.5%
7uvpA02 3.30.70.870 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Elongation Factor G (Translational Gtpase), domain 3 0.65 53.0 4.94e-01 100.0% 97.1%
1fxrA00 3.30.70.20 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.64 52.0 4.98e-01 100.0% 87.5%
3aqoA01 3.30.70.3400 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.64 52.0 4.63e-01 100.0% 95.0%
2cjkA02 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.62 49.0 4.43e-01 100.0% 92.6%
4id8A00 3.30.70.20 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.61 50.0 4.70e-01 100.0% 90.8%
4mz0B05 3.30.70.250 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Malonyl-CoA ACP transacylase, ACP-binding 0.61 49.0 4.63e-01 100.0% 83.6%
2xmjA00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.60 49.0 4.65e-01 100.0% 95.2%
1vjwA00 3.30.70.20 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.60 50.0 4.85e-01 100.0% 91.5%
1iqzA00 3.30.70.20 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.60 49.0 4.36e-01 100.0% 79.0%
1on2A01 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 0.59 40.0 3.67e-01 72.0% 79.2%
2k2pA00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.59 46.0 4.46e-01 100.0% 95.3%
4qjvA03 3.30.70.3110 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.58 47.0 4.51e-01 100.0% 90.3%
7k98E03 3.30.56.10 Alpha Beta › 2-Layer Sandwich › Phenylalanyl-tRNA Synthetase; Chain B, domain 1 › 0.57 42.0 4.01e-01 90.0% 89.7%
4fx5A03 1.20.120.1690 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.56 43.0 3.60e-01 92.0% 64.0%
2a61B00 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 0.56 39.0 2.99e-01 78.0% 40.9%
5f47B00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.55 39.0 2.86e-01 78.0% 44.1%
1c0wA01 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 0.55 39.0 3.60e-01 80.0% 80.8%
3axsA02 3.30.56.70 Alpha Beta › 2-Layer Sandwich › Phenylalanyl-tRNA Synthetase; Chain B, domain 1 › N2,N2-dimethylguanosine tRNA methyltransferase, C-terminal domain 0.55 41.0 3.95e-01 90.0% 84.6%
1yqtA02 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.54 44.0 2.85e-01 94.0% 22.4%
2o0yB01 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 38.0 3.59e-01 78.0% 80.0%
3x3bA00 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.54 42.0 2.72e-01 90.0% 83.8%
1dq3A01 2.170.16.10 Mainly Beta › Beta Complex › Endonuclease - Pi-scei; Chain A, domain 1 › Hedgehog/Intein (Hint) domain 0.53 40.0 2.88e-01 88.0% 100.0%
3o2pE00 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 3.13e-01 78.0% 68.6%
ECOD (32)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5056296 327.11.2.0 ↗ a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) 0.75 62.0 5.96e-01 98.0% 96.7%
5006278 304.7.1.2 ↗ a+b two layers › Alpha-beta plaits › Protease propeptides/inhibitors › Protease propeptides/inhibitors › Inhibitor_I9 0.73 63.0 6.15e-01 100.0% 92.7%
5059723 306.3.1.0 ↗ a+b two layers › Glucose permease domain IIB-like › eIF1-like › eIF1-like 0.73 63.0 5.85e-01 100.0% 83.1%
4073616 304.7.1.0 ↗ a+b two layers › Alpha-beta plaits › Protease propeptides/inhibitors › Protease propeptides/inhibitors 0.73 62.0 5.75e-01 100.0% 90.8%
5041848 306.3.1.0 ↗ a+b two layers › Glucose permease domain IIB-like › eIF1-like › eIF1-like 0.72 61.0 5.82e-01 98.0% 100.0%
4107410 304.24.1.0 ↗ a+b two layers › Alpha-beta plaits › EF-G C-terminal domain-like › EF-G C-terminal domain-like 0.72 60.0 5.41e-01 100.0% 88.0%
4927584 304.163.1.0 ↗ a+b two layers › Alpha-beta plaits › ATP-binding protein TM_1403 insertion domain › ATP-binding protein TM_1403 insertion domain 0.71 61.0 5.95e-01 100.0% 92.7%
4994431 306.6.1.0 ↗ a+b two layers › Glucose permease domain IIB-like › PH0987 N-terminal domain-like › PH0987 N-terminal domain-like 0.71 56.0 5.23e-01 92.0% 90.8%
3283204 304.3.1.0 ↗ a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain 0.71 58.0 5.47e-01 100.0% 96.9%
4453821 3253.1.1.0 ↗ a+b two layers › ferredoxin-like domain in flagellar biosynthesis protein flhA › ferredoxin-like domain in flagellar biosynthesis protein flhA › ferredoxin-like domain in flagellar biosynthesis protein flhA 0.70 54.0 5.65e-01 100.0% 97.8%
4162127 320.4.1.8 ↗ a+b two layers › R3H domain-like › PUB domain › PUB domain › PF27588 0.66 46.0 3.23e-01 74.0% 33.1%
5083257 327.11.2.0 ↗ a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) 0.65 52.0 4.38e-01 92.0% 75.6%
3826256 101.1.2.303 ↗ alpha arrays › HTH › HTH › winged helix domain › RPC5 0.63 51.0 4.20e-01 90.0% 76.7%
4821450 242.1.1.7 ↗ a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › LAGLIDADG_3 0.62 45.0 4.38e-01 84.0% 78.0%
3666157 205.1.1.0 ↗ a+b two layers › 4Fe-4S ferredoxin › 4Fe-4S ferredoxin › 4Fe-4S ferredoxin 0.62 51.0 3.61e-01 100.0% 30.6%
3643931 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.62 44.0 3.91e-01 78.0% 78.7%
None — 0.60 49.0 4.78e-01 100.0% 90.0%
4975847 205.1.1.0 ↗ a+b two layers › 4Fe-4S ferredoxin › 4Fe-4S ferredoxin › 4Fe-4S ferredoxin 0.60 49.0 4.71e-01 100.0% 90.0%
4991807 205.1.1.20 ↗ a+b two layers › 4Fe-4S ferredoxin › 4Fe-4S ferredoxin › 4Fe-4S ferredoxin › Fer4_15 0.60 51.0 4.54e-01 100.0% 97.3%
None — 0.60 47.0 4.48e-01 100.0% 89.4%
2387843 101.1.21.0 ↗ alpha arrays › HTH › HTH › HTH in T7 RNA polymerase 0.59 39.0 3.09e-01 70.0% 42.1%
3212403 3877.1.1.1 ↗ alpha bundles › Membrane protein insertase YidC-related › Membrane protein insertase YidC-related › Membrane protein insertase YidC › 60KD_IMP 0.59 47.0 3.10e-01 94.0% 52.9%
5068803 205.1.1.0 ↗ a+b two layers › 4Fe-4S ferredoxin › 4Fe-4S ferredoxin › 4Fe-4S ferredoxin 0.59 46.0 4.52e-01 100.0% 91.7%
3646166 101.1.2.245 ↗ alpha arrays › HTH › HTH › winged helix domain › PORR 0.57 40.0 3.55e-01 78.0% 67.5%
4942278 205.1.1.20 ↗ a+b two layers › 4Fe-4S ferredoxin › 4Fe-4S ferredoxin › 4Fe-4S ferredoxin › Fer4_15 0.57 46.0 4.14e-01 100.0% 87.2%
3280292 205.1.1.19 ↗ a+b two layers › 4Fe-4S ferredoxin › 4Fe-4S ferredoxin › 4Fe-4S ferredoxin › Fer4_13 0.56 44.0 4.23e-01 100.0% 89.2%
3174754 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.56 42.0 2.41e-01 88.0% 22.6%
4940863 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.55 36.0 3.22e-01 70.0% 63.9%
3989153 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.55 40.0 3.65e-01 86.0% 85.3%
151381 604.16.1.2 ↗ alpha bundles › Spectrin repeat-like › Hypothetical membrane protein Ta0354, soluble domain › Hypothetical membrane protein Ta0354, soluble domain › VWA_3_C 0.53 40.0 3.96e-01 86.0% 90.6%
4009064 101.1.2.6 ↗ alpha arrays › HTH › HTH › winged helix domain › GntR 0.53 36.0 3.21e-01 72.0% 63.7%
5055185 4120.1.1.0 ↗ few secondary structure elements › Tim10/DDP › Tim10/DDP › Tim10/DDP 0.52 36.0 3.51e-01 76.0% 65.0%
D2 high residues 96-188_224-374
PDB
Domain cluster: rep: OP751378.1__WAK44671.1__vBAmePPT11V19_00045__00045__D3-92_136-270
Pfam (2)
AccessionNameScoreE-valueQ covHMM cov
PF23822.2 best DUF7192 180.9 4.70e-53 63.9% 55.9%
PF23822.2 DUF7192 74.3 1.40e-20 34.4% 27.8%
CATH (1)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1kaeA02 3.40.50.1980 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Nitrogenase molybdenum iron protein domain 0.52 36.0 4.04e-01 95.5% 89.1%
ECOD (7)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3942593 2006.1.6.20 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like › CobT_C 0.61 53.0 4.92e-01 92.2% 98.0%
3604315 2006.1.6.0 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like 0.60 43.0 4.70e-01 72.1% 97.0%
5004192 2006.1.6.12 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like › VWA_2 0.57 43.0 4.62e-01 77.0% 94.8%
4997796 2006.1.6.45 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like › PF30231 0.57 45.0 4.25e-01 81.6% 91.3%
3586874 2006.1.6.1 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like › VWA 0.54 50.0 4.72e-01 99.2% 96.6%
4031918 2006.1.6.20 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like › CobT_C 0.53 46.0 4.50e-01 91.4% 98.1%
4986567 2006.1.6.45 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like › PF30231 0.52 36.0 3.88e-01 70.1% 97.1%