SUPERFAMILY 1.75 HMM library and genome assignments server

Onion yellows phytoplasma OY-M superfamily assignments

Taxonomy
Taxonomy browser entry

Bacteria; Tenericutes; Mollicutes; Acholeplasmatales; Acholeplasmataceae; Candidatus Phytoplasma; Candidatus Phytoplasma asteris; Onion yellows phytoplasma; Onion yellows phytoplasma OY-M

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Domain assignments


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Assignment statistics

Sequences: 749 total
489 (65 %) with assignment
276 average length
61 % amino acid coverage
Domains: 694 total
250 unique superfamilies
130 unique families
256 average length
2.8 average superfamily size
64 % formed by duplication
Domain combinations: 136 domain pairs
257 unique architectures

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Superfamily assignments

Domains

Proteins

Architectures

Families

SCOP link

Superfamilies

118 112 30 8 SCOP 52540 P-loop containing nucleoside triphosphate hydrolases
31 30 8 1 SCOP 50249 Nucleic acid-binding proteins
19 19 4 0 SCOP 161098 MetI-like
17 17 4 1 SCOP 53850 Periplasmic binding protein-like II
16 16 4 0 SCOP 53098 Ribonuclease H-like
16 16 3 1 SCOP 88946 Sigma2 domain of RNA polymerase sigma factors
15 15 3 2 SCOP 53335 S-adenosyl-L-methionine-dependent methyltransferases
15 15 1 0 SCOP 47729 IHF-like DNA-binding proteins
15 14 4 0 SCOP 57783 Zinc beta-ribbon
14 13 2 0 SCOP 88659 Sigma3 and sigma4 domains of RNA polymerase sigma factors
13 13 2 0 SCOP 52980 Restriction endonuclease-like
12 12 9 2 SCOP 55681 Class II aaRS and biotin synthetases
12 12 5 1 SCOP 140990 FtsH protease domain-like
10 10 3 1 SCOP 56731 DNA primase core
10 10 9 1 SCOP 52374 Nucleotidylyl transferase
9 9 4 1 SCOP 56784 HAD-like
8 7 6 4 SCOP 54211 Ribosomal protein S5 domain 2-like
7 4 3 2 SCOP 53067 Actin-like ATPase domain
6 5 5 2 SCOP 50447 Translation proteins
6 6 5 1 SCOP 47323 Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases
5 5 4 1 SCOP 50104 Translation proteins SH3-like domain
5 5 4 1 SCOP 109604 HD-domain/PDEase-like
5 5 3 0 SCOP 81665 Calcium ATPase, transmembrane domain M
5 5 3 0 SCOP 81653 Calcium ATPase, transduction domain A
4 3 3 0 SCOP 51905 FAD/NAD(P)-binding domain
4 4 2 3 SCOP 55120 Pseudouridine synthase
4 4 3 1 SCOP 55174 Alpha-L RNA-binding motif
4 4 4 2 SCOP 52402 Adenine nucleotide alpha hydrolases-like
4 4 4 1 SCOP 53187 Zn-dependent exopeptidases
4 3 3 0 SCOP 54814 Prokaryotic type KH domain (KH-domain type II)
4 2 2 1 SCOP 54980 EF-G C-terminal domain-like
4 4 4 0 SCOP 55031 Bacterial exopeptidase dimerisation domain
3 3 1 0 SCOP 57829 Zn-binding ribosomal proteins
3 3 3 2 SCOP 51735 NAD(P)-binding Rossmann-fold domains
3 3 3 0 SCOP 57716 Glucocorticoid receptor-like (DNA-binding domain)
3 3 2 0 SCOP 64182 DHH phosphoesterases
3 3 2 0 SCOP 82649 SufE/NifU
3 3 3 2 SCOP 75217 alpha/beta knot
3 3 2 1 SCOP 55486 Metalloproteases ("zincins"), catalytic domain
3 3 2 0 SCOP 52954 Class II aaRS ABD-related
3 3 2 0 SCOP 46589 tRNA-binding arm
3 1 1 0 SCOP 55979 DNA clamp
3 3 1 0 SCOP 81660 Metal cation-transporting ATPase, ATP-binding domain N
3 3 3 1 SCOP 50677 ValRS/IleRS/LeuRS editing domain
2 2 2 1 SCOP 52317 Class I glutamine amidotransferase-like
2 2 1 0 SCOP 52833 Thioredoxin-like
2 2 1 1 SCOP 53137 Translational machinery components
2 2 2 1 SCOP 55920 Creatinase/aminopeptidase
2 2 2 1 SCOP 46946 S13-like H2TH domain
2 2 1 0 SCOP 56300 Metallo-dependent phosphatases
2 2 2 0 SCOP 46785 "Winged helix" DNA-binding domain
2 2 1 0 SCOP 143800 L28p-like
2 2 1 1 SCOP 75620 Release factor
2 2 2 2 SCOP 52518 Thiamin diphosphate-binding fold (THDP-binding)
2 2 1 1 SCOP 82549 DAK1/DegV-like
2 2 1 2 SCOP 53383 PLP-dependent transferases
2 2 2 2 SCOP 64484 beta and beta-prime subunits of DNA dependent RNA-polymerase
2 2 1 1 SCOP 111283 Putative modulator of DNA gyrase, PmbA/TldD
2 2 1 0 SCOP 56281 Metallo-hydrolase/oxidoreductase
2 1 1 0 SCOP 81345 ABC transporter involved in vitamin B12 uptake, BtuC
2 2 2 0 SCOP 55315 L30e-like
2 2 2 0 SCOP 54534 FKBP-like
2 2 2 1 SCOP 81301 Nucleotidyltransferase
2 2 2 0 SCOP 55186 ThrRS/AlaRS common domain
2 2 2 1 SCOP 55424 FAD/NAD-linked reductases, dimerisation (C-terminal) domain
2 2 2 0 SCOP 48019 post-AAA+ oligomerization domain-like
2 2 2 1 SCOP 56719 Type II DNA topoisomerase
2 2 2 1 SCOP 56037 PheT/TilS domain
2 2 2 0 SCOP 54791 Eukaryotic type KH-domain (KH-domain type I)
2 2 2 0 SCOP 47364 Domain of the SRP/SRP receptor G-proteins
2 2 2 0 SCOP 46600 C-terminal UvrC-binding domain of UvrB
2 2 2 0 SCOP 54768 dsRNA-binding domain-like
2 1 1 1 SCOP 56053 Ribosomal protein L6
2 2 2 1 SCOP 81271 TGS-like
2 1 1 0 SCOP 55666 Ribonuclease PH domain 2-like
1 1 1 1 SCOP 51556 Metallo-dependent hydrolases
1 1 1 1 SCOP 51569 Aldolase
1 1 1 0 SCOP 48013 NusB-like
1 1 1 0 SCOP 53927 Cytidine deaminase-like
1 1 1 0 SCOP 53790 Tetrapyrrole methylase
1 1 1 1 SCOP 74982 Small protein B (SmpB)
1 1 1 1 SCOP 53613 Ribokinase-like
1 1 1 1 SCOP 56808 Ribosomal protein L1
1 1 1 1 SCOP 53178 Peptidyl-tRNA hydrolase-like
1 1 1 1 SCOP 47973 Ribosomal protein S7
1 1 1 0 SCOP 46911 Ribosomal protein S18
1 1 1 1 SCOP 52141 Uracil-DNA glycosylase-like
1 1 1 1 SCOP 143597 YojJ-like
1 1 1 1 SCOP 53697 SIS domain
1 1 1 1 SCOP 54197 HIT-like
1 1 1 0 SCOP 82607 YbaB-like
1 1 1 0 SCOP 64376 YlxR-like
1 1 1 0 SCOP 89919 Ribosome-binding factor A, RbfA
1 1 1 1 SCOP 54999 Ribosomal protein S10
1 1 1 1 SCOP 52166 Ribosomal protein L4
1 1 1 0 SCOP 54189 Ribosomal proteins S24e, L23 and L15e
1 1 1 1 SCOP 54570 Ribosomal protein S19
1 1 1 1 SCOP 54843 Ribosomal protein L22
1 1 1 1 SCOP 54686 Ribosomal protein L16p/L10e
1 1 1 1 SCOP 50193 Ribosomal protein L14
1 1 1 1 SCOP 55282 RL5-like
1 1 1 1 SCOP 56047 Ribosomal protein S8
1 1 1 0 SCOP 52080 Ribosomal proteins L15p and L18e
1 1 1 0 SCOP 103491 Preprotein translocase SecY subunit
1 1 1 0 SCOP 57840 Ribosomal protein L36
1 1 1 0 SCOP 64263 Prokaryotic ribosomal protein L17
1 1 1 0 SCOP 143034 L35p-like
1 1 1 1 SCOP 74731 Ribosomal protein L20
1 1 1 0 SCOP 56214 4'-phosphopantetheinyl transferase
1 1 1 0 SCOP 69593 Glycerol-3-phosphate (1)-acyltransferase
1 1 1 1 SCOP 53784 Phosphofructokinase
1 1 1 1 SCOP 55831 Thymidylate synthase/dCMP hydroxymethylase
1 1 1 0 SCOP 53597 Dihydrofolate reductase-like
1 1 1 1 SCOP 47240 Ferritin-like
1 1 1 1 SCOP 141091 L21p-like
1 1 1 0 SCOP 118010 TM1457-like
1 1 1 0 SCOP 110324 Ribosomal L27 protein-like
1 1 1 1 SCOP 51658 Xylose isomerase-like
1 1 1 0 SCOP 47336 ACP-like
1 1 1 1 SCOP 53659 Isocitrate/Isopropylmalate dehydrogenase-like
1 1 1 1 SCOP 53748 Phosphoglycerate kinase
1 1 1 1 SCOP 50324 Inorganic pyrophosphatase
1 1 1 0 SCOP 160369 Ribosomal protein L10-like
1 1 1 0 SCOP 46992 Ribosomal protein S20
1 1 1 0 SCOP 109998 Triger factor/SurA peptide-binding domain-like
1 1 1 0 SCOP 50129 GroES-like
1 1 1 1 SCOP 52161 Ribosomal protein L13
1 1 1 0 SCOP 47060 S15/NS1 RNA-binding domain
1 1 1 0 SCOP 82784 OsmC-like
1 1 1 1 SCOP 51351 Triosephosphate isomerase (TIM)
1 1 1 1 SCOP 53633 Carbamate kinase-like
1 1 1 1 SCOP 55194 Ribosome recycling factor, RRF
1 1 1 0 SCOP 54565 Ribosomal protein S16
1 1 1 0 SCOP 52821 Rhodanese/Cell cycle control phosphatase
1 1 1 0 SCOP 55821 YrdC/RibB
1 1 1 0 SCOP 51283 dUTPase-like
1 1 1 1 SCOP 50715 Ribosomal protein L25-like
1 1 1 1 SCOP 51621 Phosphoenolpyruvate/pyruvate domain
1 1 1 0 SCOP 55811 Nudix
1 1 1 0 SCOP 53756 UDP-Glycosyltransferase/glycogen phosphorylase
1 1 1 1 SCOP 52313 Ribosomal protein S2
1 1 1 0 SCOP 55129 Ribosomal protein L30p/L7e
1 1 1 0 SCOP 46561 Ribosomal protein L29 (L29p)
1 1 1 0 SCOP 54995 Ribosomal protein S6
1 1 1 1 SCOP 56235 N-terminal nucleophile aminohydrolases (Ntn hydrolases)
1 1 1 0 SCOP 49764 HSP20-like chaperones
1 1 1 0 SCOP 55469 FMN-dependent nitroreductase-like
1 1 1 0 SCOP 56672 DNA/RNA polymerases
1 1 1 1 SCOP 88723 PIN domain-like
1 1 1 1 SCOP 53649 Alkaline phosphatase-like
1 1 1 1 SCOP 51445 (Trans)glycosidases
1 1 1 0 SCOP 56317 Carbon-nitrogen hydrolase
1 1 1 0 SCOP 51306 LexA/Signal peptidase
1 1 1 0 SCOP 55781 GAF domain-like
1 1 1 0 SCOP 55257 RBP11-like subunits of RNA polymerase
1 1 1 0 SCOP 63562 RPB6/omega subunit-like
1 1 1 0 SCOP 54631 CBS-domain pair
1 1 1 1 SCOP 51717 Dihydropteroate synthetase-like
1 1 1 1 SCOP 51998 PFL-like glycyl radical enzymes
1 1 1 0 SCOP 46955 Putative DNA-binding domain
1 1 1 0 SCOP 50494 Trypsin-like serine proteases
1 1 1 1 SCOP 55874 ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
1 1 1 0 SCOP 82771 GIY-YIG endonuclease
1 1 1 1 SCOP 53807 "Helical backbone" metal receptor
1 1 1 0 SCOP 51230 Single hybrid motif
1 1 1 1 SCOP 55083 6-hydroxymethyl-7,8-dihydropterin pyrophosphokinase, HPPK
1 1 1 0 SCOP 89550 PHP domain-like
1 1 1 0 SCOP 54913 GlnB-like
1 1 1 0 SCOP 54736 ClpS-like
1 1 1 0 SCOP 50800 PK beta-barrel domain-like
1 1 1 0 SCOP 116734 DNA methylase specificity domain
1 1 1 0 SCOP 69065 RNase III domain-like
1 1 1 0 SCOP 55200 Translation initiation factor IF3, C-terminal domain
1 1 1 0 SCOP 88697 PUA domain-like
1 1 1 0 SCOP 81330 Gated mechanosensitive channel
1 1 1 1 SCOP 160537 SpoVG-like
1 1 1 0 SCOP 48295 TrpR-like
1 1 1 0 SCOP 101473 DhaL-like
1 1 1 0 SCOP 50331 MOP-like
1 1 1 1 SCOP 51604 Enolase C-terminal domain-like
1 1 1 0 SCOP 47781 RuvA domain 2-like
1 1 1 1 SCOP 56091 DNA ligase/mRNA capping enzyme, catalytic domain
1 1 1 0 SCOP 46565 Chaperone J-domain
1 1 1 0 SCOP 143437 THUMP domain-like
1 1 1 1 SCOP 52777 CoA-dependent acyltransferases
1 1 1 0 SCOP 53092 Creatinase/prolidase N-terminal domain
1 1 1 1 SCOP 50465 EF-Tu/eEF-1alpha/eIF2-gamma C-terminal domain
1 1 1 0 SCOP 48179 6-phosphogluconate dehydrogenase C-terminal domain-like
1 1 1 0 SCOP 48024 N-terminal domain of DnaB helicase
1 1 1 0 SCOP 90123 ABC transporter transmembrane region
1 1 1 0 SCOP 53244 MurD-like peptide ligases, peptide-binding domain
1 1 1 0 SCOP 48592 GroEL equatorial domain-like
1 1 1 1 SCOP 56712 Prokaryotic type I DNA topoisomerase
1 1 1 0 SCOP 57938 DnaJ/Hsp40 cysteine-rich domain
1 1 1 0 SCOP 56176 FAD-binding/transporter-associated domain-like
1 1 1 0 SCOP 55608 Homing endonucleases
1 1 1 0 SCOP 46906 Ribosomal protein L11, C-terminal domain
1 1 1 1 SCOP 53223 Aminoacid dehydrogenase-like, N-terminal domain
1 1 1 1 SCOP 54821 Ribosomal protein S3 C-terminal domain
1 1 1 0 SCOP 52922 TK C-terminal domain-like
1 1 1 0 SCOP 52935 PK C-terminal domain-like
1 1 1 0 SCOP 55658 L9 N-domain-like
1 1 1 0 SCOP 82679 N-utilization substance G protein NusG, N-terminal domain
1 1 1 0 SCOP 55190 Arginyl-tRNA synthetase (ArgRS), N-terminal 'additional' domain
1 1 1 0 SCOP 158499 DnaD domain-like
1 1 1 0 SCOP 58014 Coiled-coil domain of nucleotide exchange factor GrpE
1 1 1 1 SCOP 55347 Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain
1 1 1 1 SCOP 54719 Fe,Mn superoxide dismutase (SOD), C-terminal domain
1 1 1 0 SCOP 48163 An anticodon-binding domain of class I aminoacyl-tRNA synthetases
1 1 1 1 SCOP 54826 Enolase N-terminal domain-like
1 1 1 1 SCOP 53623 MurD-like peptide ligases, catalytic domain
1 1 1 1 SCOP 52029 GroEL apical domain-like
1 1 1 0 SCOP 81891 Poly A polymerase C-terminal region-like
1 1 1 0 SCOP 68912 Rho N-terminal domain-like
1 1 1 1 SCOP 101904 GyrA/ParC C-terminal domain-like
1 1 1 0 SCOP 48300 Ribosomal protein L7/12, oligomerisation (N-terminal) domain
1 1 1 1 SCOP 100920 Heat shock protein 70kD (HSP70), peptide-binding domain
1 1 1 0 SCOP 46934 UBA-like
1 1 1 0 SCOP 52113 BRCT domain
1 1 1 0 SCOP 81624 N-terminal domain of MutM-like DNA repair proteins
1 1 1 0 SCOP 54752 RecA protein, C-terminal domain
1 1 1 0 SCOP 100934 Heat shock protein 70kD (HSP70), C-terminal subdomain
1 1 1 0 SCOP 102735 Trigger factor ribosome-binding domain
1 1 1 0 SCOP 46557 GreA transcript cleavage protein, N-terminal domain
1 1 1 0 SCOP 47807 5' to 3' exonuclease, C-terminal subdomain
1 1 1 0 SCOP 47446 Signal peptide-binding domain
1 1 1 0 SCOP 54991 Anticodon-binding domain of PheRS
1 1 1 1 SCOP 82051 Obg GTP-binding protein N-terminal domain
1 1 1 0 SCOP 55261 GAD domain-like
1 1 1 0 SCOP 49493 HSP40/DnaJ peptide-binding domain
1 1 1 0 SCOP 54713 Elongation factor Ts (EF-Ts), dimerisation domain
1 1 1 1 SCOP 64158 2,3-Bisphosphoglycerate-independent phosphoglycerate mutase, substrate-binding domain
1 1 1 0 SCOP 54747 Ribosomal L11/L12e N-terminal domain
1 1 1 1 SCOP 46609 Fe,Mn superoxide dismutase (SOD), N-terminal domain
1 1 1 1 SCOP 48168 R1 subunit of ribonucleotide reductase, N-terminal domain
1 1 1 1 SCOP 81886 Helical scaffold and wing domains of SecA
1 1 1 0 SCOP 54849 GroEL-intermediate domain like
1 1 1 0 SCOP 52156 Initiation factor IF2/eIF5b, domain 3
1 1 1 0 SCOP 64586 C-terminal domain of ProRS
1 1 1 0 SCOP 51064 Head domain of nucleotide exchange factor GrpE
1 1 1 0 SCOP 47005 Peripheral subunit-binding domain of 2-oxo acid dehydrogenase complex
1 1 1 0 SCOP 55653 Ribosomal protein L9 C-domain
1 1 1 1 SCOP 101353 Putative anticodon-binding domain of alanyl-tRNA synthetase (AlaRS)
1 1 1 0 SCOP 56553 Insert subdomain of RNA polymerase alpha subunit
1 1 1 1 SCOP 101821 Aminopeptidase/glucanase lid domain
1 1 1 0 SCOP 54364 Translation initiation factor IF3, N-terminal domain
1 1 1 0 SCOP 69705 Transcription factor NusA, N-terminal domain
1 1 1 1 SCOP 81767 Pre-protein crosslinking domain of SecA
1 1 1 0 SCOP 81799 Putative methyltransferase TM0872, insert domain
1 1 1 0 SCOP 102741 Obg GTP-binding protein C-terminal domain

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