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U38235.1__AAC54631.1__X__00002

Bact-Vir

U38235.1__AAC54631.1__X__00002

Identity

Accession:
U38235 ↗
Kingdom:
phage

Quality

84.3 mean pLDDT

Taxonomy

Loebvirae› Hofneiviricota› Faserviricetes› Tubulavirales› Inoviridae› Xanthomonas_phage_Lf

TaxID: 28365

Cluster

Singleton — not in a non-trivial cluster

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 1-99
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF23343.3 best REP_ORF2-G2P 82.9 2.40e-23 82.8% 76.8%
CATH (11)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4kw3A00 3.40.1310.20 Alpha Beta › 3-Layer(aba) Sandwich › Replication Protein E1; Chain: A, › 0.71 64.0 4.67e-01 100.0% 62.8%
1m55A00 3.40.1310.20 Alpha Beta › 3-Layer(aba) Sandwich › Replication Protein E1; Chain: A, › 0.67 61.0 4.86e-01 100.0% 56.5%
6usmB01 3.40.1310.20 Alpha Beta › 3-Layer(aba) Sandwich › Replication Protein E1; Chain: A, › 0.61 54.0 4.77e-01 99.0% 69.4%
3h20A01 3.30.1490.240 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › RepB DNA-primase, N-terminal domain 0.59 29.0 3.49e-01 82.8% 69.7%
1pbuA00 3.30.70.1010 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Translation elongation factor EF1B, gamma chain, conserved domain 0.58 51.0 4.35e-01 100.0% 59.3%
5uptA02 3.30.300.30 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › ANL, C-terminal domain 0.54 44.0 4.34e-01 89.9% 87.9%
3l5iA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.53 28.0 2.99e-01 83.8% 55.7%
2wliA02 2.60.40.1400 Mainly Beta › Sandwich › Immunoglobulin-like › G protein-activated inward rectifier potassium channel 1 0.53 36.0 3.12e-01 70.7% 99.4%
6tdxG01 3.40.1380.10 Alpha Beta › 3-Layer(aba) Sandwich › Pyruvate Kinase; Chain: A, domain 1 › ATP synthase, F1 complex, gamma subunit 0.52 40.0 3.17e-01 83.8% 88.8%
6jhpA01 2.70.98.60 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › alpha-galactosidase from lactobacil brevis 0.51 36.0 2.67e-01 73.7% 84.5%
6phxA01 2.70.98.60 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › alpha-galactosidase from lactobacil brevis 0.51 36.0 2.63e-01 73.7% 87.2%
ECOD (16)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4959045 304.8.1.81 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › REP_ORF2-G2P 0.76 69.0 5.96e-01 100.0% 65.3%
3678501 304.55.1.20 ↗ a+b two layers › Alpha-beta plaits › Origin of replication-binding domains › Origin of replication-binding domains › Helitron_like_N, REP_ORF2-G2P 0.69 62.0 4.47e-01 100.0% 45.8%
3315713 304.55.1.20 ↗ a+b two layers › Alpha-beta plaits › Origin of replication-binding domains › Origin of replication-binding domains › Helitron_like_N, REP_ORF2-G2P 0.62 56.0 4.99e-01 100.0% 77.1%
4973378 11.14.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Ig-like domains in STT3 › Ig-like domains in STT3 0.58 33.0 3.51e-01 82.8% 63.5%
3721207 304.6.1.0 ↗ a+b two layers › Alpha-beta plaits › FAD-linked oxidases, C-terminal domain › FAD-linked oxidases, C-terminal domain 0.57 50.0 3.71e-01 100.0% 47.0%
4018050 304.6.1.0 ↗ a+b two layers › Alpha-beta plaits › FAD-linked oxidases, C-terminal domain › FAD-linked oxidases, C-terminal domain 0.55 48.0 3.58e-01 100.0% 49.4%
3735269 304.6.1.0 ↗ a+b two layers › Alpha-beta plaits › FAD-linked oxidases, C-terminal domain › FAD-linked oxidases, C-terminal domain 0.55 48.0 3.60e-01 100.0% 50.0%
4011256 304.6.1.0 ↗ a+b two layers › Alpha-beta plaits › FAD-linked oxidases, C-terminal domain › FAD-linked oxidases, C-terminal domain 0.54 47.0 3.59e-01 100.0% 50.6%
3291378 304.6.1.0 ↗ a+b two layers › Alpha-beta plaits › FAD-linked oxidases, C-terminal domain › FAD-linked oxidases, C-terminal domain 0.54 47.0 3.66e-01 100.0% 49.8%
3203256 4121.1.1.0 ↗ a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like 0.54 44.0 2.99e-01 92.9% 72.5%
4960811 11.14.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Ig-like domains in STT3 › Ig-like domains in STT3 › AglB_L1 0.53 32.0 3.34e-01 82.8% 63.2%
4985246 11.14.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Ig-like domains in STT3 › Ig-like domains in STT3 › AglB_L1 0.53 32.0 3.32e-01 82.8% 63.4%
5047755 2492.1.1.7 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › FdhD-NarQ 0.53 34.0 3.06e-01 100.0% 45.7%
3412618 11.1.4.80 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like › C2_ITFG1 0.53 30.0 2.77e-01 81.8% 41.5%
5031647 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.53 28.0 3.22e-01 98.0% 70.0%
4007508 3115.6.1.2 ↗ a+b two layers › GP2-like › Bacterial RNA polymerase subunit epsilon › Bacterial RNA polymerase subunit epsilon › PF28597 0.50 25.0 3.16e-01 79.8% 88.0%
D2 high residues 115-161
PDB
Domain cluster: representative
CATH (14)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3gmiA02 3.40.50.620 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs 0.67 46.0 2.99e-01 72.3% 18.3%
1go3E01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.64 43.0 3.47e-01 70.2% 45.7%
2b0aA00 3.50.30.50 Alpha Beta › 3-Layer(bba) Sandwich › Glucose Oxidase; domain 1 › Putative cyclase 0.63 35.0 2.34e-01 100.0% 14.0%
3m7nA03 2.20.70.10 Mainly Beta › Single Sheet › Ubiquitin Ligase Nedd4; Chain: W; › 0.62 41.0 4.48e-01 74.5% 94.1%
2aklA01 2.20.25.10 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › 0.62 41.0 4.23e-01 72.3% 74.4%
5l2qB02 1.10.510.10 Mainly Alpha › Orthogonal Bundle › Transferase(Phosphotransferase); domain 1 › Transferase(Phosphotransferase) domain 1 0.62 44.0 2.92e-01 76.6% 47.7%
2k4xA01 6.20.50.180 Special › Other non-globular › N-terminal domain of TfIIb › 0.61 39.0 4.26e-01 85.1% 88.6%
2xzm901 6.20.50.180 Special › Other non-globular › N-terminal domain of TfIIb › 0.60 42.0 3.70e-01 74.5% 54.2%
1l5jA02 3.20.19.10 Alpha Beta › Alpha-Beta Barrel › Aconitase; domain 4 › Aconitase, domain 4 0.58 42.0 2.87e-01 80.9% 30.0%
1hp1A01 3.60.21.10 Alpha Beta › 4-Layer Sandwich › Purple Acid Phosphatase; chain A, domain 2 › Metallo-dependent phosphatases 0.58 40.0 2.47e-01 74.5% 91.2%
2kjkA00 2.30.42.10 Mainly Beta › Roll › Pdz3 Domain › PDZ domain 0.56 38.0 3.09e-01 70.2% 57.0%
1vqqA01 3.10.450.100 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › NTF2-like; domain 1 0.54 44.0 3.52e-01 100.0% 87.2%
3sfvB01 3.30.450.390 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.51 36.0 2.58e-01 76.6% 38.7%
4gs5A01 3.40.50.12780 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › ANL, N-terminal domain 0.50 41.0 2.68e-01 100.0% 28.7%
ECOD (7)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4949318 243.3.1.0 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.66 45.0 3.71e-01 72.3% 86.7%
3274834 12.5.1.0 ↗ beta sandwiches › Glycosyl hydrolase domain-like › ZU5/Nup98-C/GAIN-B autoproteolytic domain-related › ZU5/Nup98-C/GAIN-B autoproteolytic domain-related 0.56 33.0 2.59e-01 100.0% 24.8%
4928885 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.55 38.0 3.90e-01 100.0% 77.8%
5001760 66.1.1.1 ↗ beta sandwiches › ISP domain › ISP domain › ISP domain › Rieske 0.55 44.0 3.66e-01 100.0% 60.0%
5055986 7515.1.1.6 ↗ a/b three-layered sandwiches › Alkaline phosphatase-like › Alkaline phosphatase-like › Alkaline phosphatase-like › Phosphodiest 0.54 45.0 2.74e-01 100.0% 38.6%
4440705 2007.1.2.0 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Periplasmic binding protein-like I 0.54 38.0 2.65e-01 78.7% 21.0%
3228184 708.1.1.0 ↗ beta complex topology › ETN0001 domain-like › ETN0001 domain-like › NAC/WRKY/GCM/WOPR domain 0.51 35.0 2.78e-01 78.7% 92.8%