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  Home > Genomes > Superfamily assignments for Core Eukaryotic Genes 458


Core Eukaryotic Genes 458 superfamily assignments

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Fasta format sequences
Domain assignments

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Assignment statistics

Sequences: 2748 total
2459 (89 %) with assignment
403 average length
72 % amino acid coverage
Domains: 3870 total
273 unique superfamilies
246 unique families
322 average length
14.2 average superfamily size
93 % formed by duplication
Domain combinations: 169 domain pairs
467 unique architectures

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Superfamily assignments

Domains

Proteins

Architectures

Families

SCOP link

Superfamilies
410 353 54 7 SCOP 52540 P-loop containing nucleoside triphosphate hydrolases
116 99 19 2 SCOP 50978 WD40 repeat-like
101 72 17 7 SCOP 48371 ARM repeat
79 79 16 4 SCOP 50249 Nucleic acid-binding proteins
78 78 2 2 SCOP 56235 N-terminal nucleophile aminohydrolases (Ntn hydrolases)
67 36 14 1 SCOP 53067 Actin-like ATPase domain
66 29 9 1 SCOP 48452 TPR-like
60 60 3 1 SCOP 50182 Sm-like ribonucleoproteins
54 54 12 5 SCOP 54211 Ribosomal protein S5 domain 2-like
54 54 16 1 SCOP 55681 Class II aaRS and biotin synthetases
49 30 7 6 SCOP 52518 Thiamin diphosphate-binding fold (THDP-binding)
48 48 14 6 SCOP 51735 NAD(P)-binding Rossmann-fold domains
48 42 9 2 SCOP 46785 "Winged helix" DNA-binding domain
48 18 4 1 SCOP 63411 LuxS/MPP-like metallohydrolase
46 40 10 1 SCOP 50447 Translation proteins
43 42 4 3 SCOP 53335 S-adenosyl-L-methionine-dependent methyltransferases
43 42 2 1 SCOP 52029 GroEL apical domain-like
42 42 4 2 SCOP 64356 SNARE-like
42 42 2 0 SCOP 48592 GroEL equatorial domain-like
42 42 2 0 SCOP 54849 GroEL-intermediate domain like
39 12 4 1 SCOP 53738 Phosphoglucomutase, first 3 domains
37 31 8 4 SCOP 51905 FAD/NAD(P)-binding domain
36 18 4 2 SCOP 52833 Thioredoxin-like
36 30 8 1 SCOP 52374 Nucleotidylyl transferase
36 18 6 1 SCOP 54980 EF-G C-terminal domain-like
34 18 3 1 SCOP 53901 Thiolase-like
30 30 4 2 SCOP 54236 Ubiquitin-like
30 30 3 1 SCOP 54495 UBC-like
30 30 4 2 SCOP 55315 L30e-like
25 25 3 0 SCOP 57829 Zn-binding ribosomal proteins
24 24 2 1 SCOP 56300 Metallo-dependent phosphatases
24 24 3 2 SCOP 53383 PLP-dependent transferases
24 24 2 1 SCOP 144122 Tim10-like
24 24 5 0 SCOP 52954 Class II aaRS ABD-related
24 24 8 0 SCOP 75553 Smc hinge domain
19 18 4 1 SCOP 52402 Adenine nucleotide alpha hydrolases-like
19 16 6 0 SCOP 100934 Heat shock protein 70kD (HSP70), C-terminal subdomain
18 18 2 1 SCOP 53613 Ribokinase-like
18 18 2 1 SCOP 56112 Protein kinase-like (PK-like)
18 18 3 1 SCOP 50104 Translation proteins SH3-like domain
18 18 4 1 SCOP 100950 NagB/RpiA/CoA transferase-like
18 12 2 1 SCOP 53098 Ribonuclease H-like
18 18 1 1 SCOP 53659 Isocitrate/Isopropylmalate dehydrogenase-like
18 18 1 0 SCOP 103506 Mitochondrial carrier
18 18 2 1 SCOP 56815 Sec1/munc18-like (SM) proteins
18 18 2 0 SCOP 46579 Prefoldin
18 18 4 2 SCOP 54001 Cysteine proteinases
18 18 3 1 SCOP 48239 Terpenoid cyclases/Protein prenyltransferases
18 18 5 3 SCOP 55874 ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
18 18 6 2 SCOP 52343 Ferredoxin reductase-like, C-terminal NADP-linked domain
18 6 1 1 SCOP 55973 S-adenosylmethionine synthetase
18 18 4 1 SCOP 54791 Eukaryotic type KH-domain (KH-domain type I)
18 18 6 2 SCOP 63380 Riboflavin synthase domain-like
18 18 8 1 SCOP 100920 Heat shock protein 70kD (HSP70), peptide-binding domain
18 18 8 3 SCOP 49348 Clathrin adaptor appendage domain
18 18 2 1 SCOP 81271 TGS-like
17 17 4 0 SCOP 55174 Alpha-L RNA-binding motif
17 17 1 1 SCOP 48019 post-AAA+ oligomerization domain-like
13 12 3 2 SCOP 53271 PRTase-like
13 12 5 1 SCOP 53300 vWA-like
13 12 4 0 SCOP 88697 PUA domain-like
13 8 2 0 SCOP 57667 beta-beta-alpha zinc fingers
12 12 3 1 SCOP 53448 Nucleotide-diphospho-sugar transferases
12 12 2 2 SCOP 53697 SIS domain
12 12 2 1 SCOP 56784 HAD-like
12 12 1 0 SCOP 57716 Glucocorticoid receptor-like (DNA-binding domain)
12 12 3 1 SCOP 53137 Translational machinery components
12 12 4 1 SCOP 55920 Creatinase/aminopeptidase
12 12 5 1 SCOP 52218 Flavoproteins
12 12 2 1 SCOP 50129 GroES-like
12 6 2 0 SCOP 81333 F1F0 ATP synthase subunit C
12 12 1 0 SCOP 53756 UDP-Glycosyltransferase/glycogen phosphorylase
12 12 3 2 SCOP 51419 PLP-binding barrel
12 12 1 0 SCOP 58038 SNARE fusion complex
12 12 3 1 SCOP 88723 PIN domain-like
12 12 2 2 SCOP 46626 Cytochrome c
12 12 1 1 SCOP 69572 Activating enzymes of the ubiquitin-like proteins
12 12 3 1 SCOP 57850 RING/U-box
12 12 2 1 SCOP 55159 eIF1-like
12 6 2 0 SCOP 46955 Putative DNA-binding domain
12 12 2 0 SCOP 57783 Zinc beta-ribbon
12 12 2 2 SCOP 52467 DHS-like NAD/FAD-binding domain
12 12 1 1 SCOP 89124 Nop domain
12 12 2 1 SCOP 55186 ThrRS/AlaRS common domain
12 12 3 1 SCOP 50465 EF-Tu/eEF-1alpha/eIF2-gamma C-terminal domain
12 12 3 1 SCOP 48179 6-phosphogluconate dehydrogenase C-terminal domain-like
12 6 1 1 SCOP 55979 DNA clamp
12 12 3 2 SCOP 52922 TK C-terminal domain-like
12 12 3 1 SCOP 55060 GHMP Kinase, C-terminal domain
12 6 1 1 SCOP 47954 Cyclin-like
12 6 4 1 SCOP 158702 Sec63 N-terminal domain-like
12 12 4 1 SCOP 55957 Phosphoglucomutase, C-terminal domain
12 12 2 1 SCOP 50615 N-terminal domain of alpha and beta subunits of F1 ATP synthase
12 12 2 1 SCOP 49447 Second domain of Mu2 adaptin subunit (ap50) of ap2 adaptor
12 12 2 1 SCOP 47917 C-terminal domain of alpha and beta subunits of F1 ATP synthase
12 12 4 2 SCOP 55711 Subdomain of clathrin and coatomer appendage domain
11 11 5 1 SCOP 81296 E set domains
10 10 2 2 SCOP 54373 FAD-linked reductases, C-terminal domain
9 9 2 0 SCOP 47060 S15/NS1 RNA-binding domain
8 6 4 1 SCOP 49899 Concanavalin A-like lectins/glucanases
8 6 3 1 SCOP 51971 Nucleotide-binding domain
7 7 3 1 SCOP 52317 Class I glutamine amidotransferase-like
7 6 3 1 SCOP 53927 Cytidine deaminase-like
7 7 3 0 SCOP 55729 Acyl-CoA N-acyltransferases (Nat)
7 6 2 1 SCOP 118203 Vacuolar ATP synthase subunit C
7 6 3 1 SCOP 52283 Formate/glycerate dehydrogenase catalytic domain-like
6 6 1 1 SCOP 51569 Aldolase
6 6 2 1 SCOP 47973 Ribosomal protein S7
6 6 1 1 SCOP 75304 Amidase signature (AS) enzymes
6 6 1 1 SCOP 54197 HIT-like
6 6 1 1 SCOP 54189 Ribosomal proteins S24e, L23 and L15e
6 6 1 0 SCOP 54570 Ribosomal protein S19
6 6 1 1 SCOP 54686 Ribosomal protein L16p/L10e
6 6 1 1 SCOP 55282 RL5-like
6 6 1 1 SCOP 56047 Ribosomal protein S8
6 6 1 0 SCOP 52080 Ribosomal proteins L15p and L18e
6 6 1 1 SCOP 103491 Preprotein translocase SecY subunit
6 6 1 0 SCOP 46946 S13-like H2TH domain
6 6 1 1 SCOP 55120 Pseudouridine synthase
6 6 3 1 SCOP 47240 Ferritin-like
6 6 2 0 SCOP 110324 Ribosomal L27 protein-like
6 6 2 1 SCOP 75620 Release factor
6 6 1 1 SCOP 53748 Phosphoglycerate kinase
6 6 2 1 SCOP 82649 SufE/NifU
6 6 2 1 SCOP 50324 Inorganic pyrophosphatase
6 6 1 0 SCOP 160369 Ribosomal protein L10-like
6 6 1 1 SCOP 55486 Metalloproteases ("zincins"), catalytic domain
6 6 2 1 SCOP 52943 ATP synthase (F1-ATPase), gamma subunit
6 6 1 0 SCOP 52161 Ribosomal protein L13
6 6 1 1 SCOP 51351 Triosephosphate isomerase (TIM)
6 6 1 1 SCOP 51316 Mss4-like
6 6 2 1 SCOP 64484 beta and beta-prime subunits of DNA dependent RNA-polymerase
6 6 1 1 SCOP 48557 L-aspartase-like
6 6 3 1 SCOP 53720 ALDH-like
6 6 1 1 SCOP 54862 4Fe-4S ferredoxins
6 6 2 1 SCOP 50715 Ribosomal protein L25-like
6 6 2 0 SCOP 54292 2Fe-2S ferredoxin-like
6 6 2 0 SCOP 55811 Nudix
6 6 1 1 SCOP 56276 S-adenosylmethionine decarboxylase
6 6 1 1 SCOP 56281 Metallo-hydrolase/oxidoreductase
6 6 3 0 SCOP 102114 Radical SAM enzymes
6 6 1 1 SCOP 56655 Carbohydrate phosphatase
6 6 1 0 SCOP 46561 Ribosomal protein L29 (L29p)
6 6 2 0 SCOP 53187 Zn-dependent exopeptidases
6 6 2 1 SCOP 47113 Histone-fold
6 6 1 0 SCOP 52042 Ribosomal protein L32e
6 6 2 1 SCOP 56801 Acetyl-CoA synthetase-like
6 6 1 1 SCOP 56672 DNA/RNA polymerases
6 6 2 1 SCOP 48256 Citrate synthase
6 6 1 0 SCOP 103456 Preprotein translocase SecE subunit
6 6 2 1 SCOP 50891 Cyclophilin-like
6 6 1 1 SCOP 56634 Heme-dependent catalase-like
6 6 1 1 SCOP 54648 DLC
6 6 2 1 SCOP 54534 FKBP-like
6 6 1 1 SCOP 54427 NTF2-like
6 6 1 0 SCOP 159468 AtpF-like
6 6 1 1 SCOP 47027 Acyl-CoA binding protein
6 6 1 1 SCOP 144210 Nop10-like SnoRNP
6 6 1 1 SCOP 90096 Subunits of heterodimeric actin filament capping protein Capz
6 6 1 1 SCOP 56019 The spindle assembly checkpoint protein mad2
6 6 1 0 SCOP 56317 Carbon-nitrogen hydrolase
6 6 1 1 SCOP 54928 RNA-binding domain, RBD
6 6 1 0 SCOP 51306 LexA/Signal peptidase
6 6 1 1 SCOP 51182 RmlC-like cupins
6 6 2 1 SCOP 48439 Protein prenylyltransferase
6 6 1 0 SCOP 48662 Ribosomal protein L39e
6 6 1 1 SCOP 52972 ITPase-like
6 6 1 1 SCOP 49329 Cu,Zn superoxide dismutase-like
6 6 3 1 SCOP 48208 Six-hairpin glycosidases
6 6 1 1 SCOP 54919 Nucleoside diphosphate kinase, NDK
6 6 1 1 SCOP 111126 Ligand-binding domain in the NO signalling and Golgi transport
6 6 1 0 SCOP 103486 V-type ATP synthase subunit C
6 6 2 1 SCOP 55257 RBP11-like subunits of RNA polymerase
6 6 1 1 SCOP 56529 FAH
6 6 1 1 SCOP 55770 Profilin (actin-binding protein)
6 6 1 1 SCOP 46924 RNA polymerase subunit RPB10
6 6 1 1 SCOP 52768 Arginase/deacetylase
6 6 2 1 SCOP 52058 L domain-like
6 6 1 1 SCOP 55909 Pentein
6 6 1 1 SCOP 63562 RPB6/omega subunit-like
6 6 2 0 SCOP 55931 Glutamine synthetase/guanido kinase
6 6 2 1 SCOP 51998 PFL-like glycyl radical enzymes
6 6 2 0 SCOP 102712 JAB1/MPN domain
6 6 2 0 SCOP 51230 Single hybrid motif
6 6 1 0 SCOP 158997 Trm112p-like
6 6 5 0 SCOP 50998 Quinoprotein alcohol dehydrogenase-like
6 6 1 1 SCOP 103025 Folate-binding domain
6 6 2 0 SCOP 56747 Prim-pol domain
6 6 2 1 SCOP 51604 Enolase C-terminal domain-like
6 6 2 1 SCOP 54984 eEF-1beta-like
6 6 2 1 SCOP 46548 alpha-helical ferredoxin
6 6 1 1 SCOP 55287 RPB5-like RNA polymerase subunit
6 6 2 1 SCOP 52490 Tubulin nucleotide-binding domain-like
6 6 1 0 SCOP 160374 RplX-like
6 6 2 1 SCOP 52777 CoA-dependent acyltransferases
6 6 2 0 SCOP 47616 GST C-terminal domain-like
6 6 2 1 SCOP 55424 FAD/NAD-linked reductases, dimerisation (C-terminal) domain
6 6 1 0 SCOP 47323 Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases
6 6 2 1 SCOP 102645 CoaB-like
6 6 2 1 SCOP 81995 beta-sandwich domain of Sec23/24
6 6 4 1 SCOP 51344 Epsilon subunit of F1F0-ATP synthase N-terminal domain
6 6 1 0 SCOP 81665 Calcium ATPase, transmembrane domain M
6 6 1 1 SCOP 52210 Succinyl-CoA synthetase domains
6 6 2 1 SCOP 55307 Tubulin C-terminal domain-like
6 6 2 1 SCOP 140990 FtsH protease domain-like
6 6 2 1 SCOP 50621 Alanine racemase C-terminal domain-like
6 6 3 1 SCOP 55347 Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain
6 6 1 1 SCOP 54719 Fe,Mn superoxide dismutase (SOD), C-terminal domain
6 6 1 0 SCOP 48163 An anticodon-binding domain of class I aminoacyl-tRNA synthetases
6 6 2 1 SCOP 54826 Enolase N-terminal domain-like
6 6 1 0 SCOP 81660 Metal cation-transporting ATPase, ATP-binding domain N
6 6 1 1 SCOP 63737 Leukotriene A4 hydrolase N-terminal domain
6 6 1 1 SCOP 56327 LDH C-terminal domain-like
6 6 1 0 SCOP 75689 Zinc-binding domain of translation initiation factor 2 beta
6 6 1 0 SCOP 100966 Translation initiation factor 2 beta, aIF2beta, N-terminal domain
6 6 1 0 SCOP 52113 BRCT domain
6 6 1 0 SCOP 117892 Band 7/SPFH domain
6 6 1 1 SCOP 50677 ValRS/IleRS/LeuRS editing domain
6 6 1 0 SCOP 101576 Supernatant protein factor (SPF), C-terminal domain
6 6 2 1 SCOP 47807 5' to 3' exonuclease, C-terminal subdomain
6 6 2 1 SCOP 47446 Signal peptide-binding domain
6 6 2 0 SCOP 54991 Anticodon-binding domain of PheRS
6 6 2 1 SCOP 116742 eIF2alpha middle domain-like
6 6 2 0 SCOP 47928 N-terminal domain of the delta subunit of the F1F0-ATP synthase
6 6 1 1 SCOP 47396 Transcription factor IIA (TFIIA), alpha-helical domain
6 6 3 1 SCOP 69012 alpha-ketoacid dehydrogenase kinase, N-terminal domain
6 6 2 1 SCOP 55481 N-terminal domain of eukaryotic peptide chain release factor subunit 1, ERF1
6 6 2 1 SCOP 82754 C-terminal, gelsolin-like domain of Sec23/24
6 6 1 0 SCOP 88798 N-terminal, heterodimerisation domain of RBP7 (RpoE)
6 6 2 0 SCOP 54368 Glutamine synthetase, N-terminal domain
6 6 1 0 SCOP 110942 HSP90 C-terminal domain
6 6 1 0 SCOP 81653 Calcium ATPase, transduction domain A
6 6 1 1 SCOP 46609 Fe,Mn superoxide dismutase (SOD), N-terminal domain
6 6 2 1 SCOP 110993 eIF-2-alpha, C-terminal domain
6 6 1 1 SCOP 55666 Ribonuclease PH domain 2-like
6 6 2 1 SCOP 140111 Endosomal sorting complex assembly domain
6 6 2 0 SCOP 48168 R1 subunit of ribonucleotide reductase, N-terminal domain
6 6 1 0 SCOP 160527 V-type ATPase subunit E-like
6 6 1 1 SCOP 50784 Transcription factor IIA (TFIIA), beta-barrel domain
6 6 1 1 SCOP 53036 Eukaryotic RPB5 N-terminal domain
6 6 2 1 SCOP 50989 Clathrin heavy-chain terminal domain
6 6 2 1 SCOP 140427 VPS28 C-terminal domain-like
6 6 2 0 SCOP 52156 Initiation factor IF2/eIF5b, domain 3
6 6 4 1 SCOP 63887 P-domain of calnexin/calreticulin
6 6 2 1 SCOP 54585 Cdc48 domain 2-like
6 6 1 0 SCOP 101790 Aminomethyltransferase beta-barrel domain
6 6 2 1 SCOP 81811 Helical domain of Sec23/24
6 6 1 1 SCOP 101353 Putative anticodon-binding domain of alanyl-tRNA synthetase (AlaRS)
6 6 1 1 SCOP 81496 Cytochrome c1 subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase), transmembrane anchor
6 6 2 1 SCOP 82919 Zn-finger domain of Sec23/24
5 5 1 1 SCOP 50692 ADC-like
5 5 2 1 SCOP 52335 Methylglyoxal synthase-like
5 5 1 0 SCOP 46934 UBA-like
5 5 2 0 SCOP 47794 Rad51 N-terminal domain-like
5 5 2 0 SCOP 57889 Cysteine-rich domain
4 3 3 0 SCOP 57997 Tropomyosin
4 4 1 0 SCOP 46589 tRNA-binding arm
4 4 1 0 SCOP 56037 PheT/TilS domain
4 4 1 1 SCOP 47364 Domain of the SRP/SRP receptor G-proteins
3 3 3 0 SCOP 50969 YVTN repeat-like/Quinoprotein amine dehydrogenase
3 3 2 0 SCOP 82171 DPP6 N-terminal domain-like
2 2 1 0 SCOP 51004 C-terminal (heme d1) domain of cytochrome cd1-nitrite reductase
2 2 2 0 SCOP 50974 Nitrous oxide reductase, N-terminal domain
2 2 2 0 SCOP 46604 Epsilon subunit of F1F0-ATP synthase C-terminal domain
1 1 1 0 SCOP 103473 MFS general substrate transporter
1 1 1 0 SCOP 63829 Calcium-dependent phosphotriesterase
1 1 1 0 SCOP 56821 Prismane protein-like
1 1 1 0 SCOP 69322 Tricorn protease domain 2
1 1 1 0 SCOP 69304 Tricorn protease N-terminal domain
1 1 1 0 SCOP 117289 Nucleoporin domain
1 1 1 0 SCOP 144232 HIT/MYND zinc finger-like
1 1 1 0 SCOP 55031 Bacterial exopeptidase dimerisation domain
1 1 1 0 SCOP 57756 Retrovirus zinc finger-like domains

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The following superfamilies have one or more weak hits:

SCOP superfamily Myosin rod fragments
SCOP superfamily Troponin coil-coiled subunits
SCOP superfamily AbrB/MazE/MraZ-like
SCOP superfamily Gametocyte protein Pfg27
SCOP superfamily post-HMGL domain-like
SCOP superfamily Sigma3 and sigma4 domains of RNA polymerase sigma factors
SCOP superfamily Tp47 lipoprotein, N-terminal domain
SCOP superfamily HCP-like
SCOP superfamily F1F0 ATP synthase subunit B, membrane domain
SCOP superfamily Chemotaxis phosphatase CheZ
SCOP superfamily MTH1598-like
SCOP superfamily Intermediate filament protein, coiled coil region
SCOP superfamily MurE/MurF N-terminal domain
SCOP superfamily Ribosome recycling factor, RRF
SCOP superfamily Caspase-like
SCOP superfamily Nicotinate/Quinolinate PRTase C-terminal domain-like
SCOP superfamily RCC1/BLIP-II
SCOP superfamily Multiheme cytochromes
SCOP superfamily FinO-like
SCOP superfamily DNA-glycosylase
SCOP superfamily Guanido kinase N-terminal domain
SCOP superfamily FliG
SCOP superfamily C-terminal domain of RNA polymerase alpha subunit
SCOP superfamily t-snare proteins
SCOP superfamily Insect pheromone/odorant-binding proteins
SCOP superfamily Aspartate receptor, ligand-binding domain
SCOP superfamily HSC20 (HSCB), C-terminal oligomerisation domain
SCOP superfamily Chaperone J-domain
SCOP superfamily RILP dimerisation region
SCOP superfamily MgtE membrane domain-like
SCOP superfamily ATP synthase D chain-like
SCOP superfamily BLRF2-like
SCOP superfamily EreA/ChaN-like
SCOP superfamily Sec2 N-terminal region
SCOP superfamily MW0975(SA0943)-like
SCOP superfamily WWE domain
SCOP superfamily Tsx-like channel
SCOP superfamily Mitochondrial ATP synthase coupling factor 6
SCOP superfamily AF1104-like
SCOP superfamily HBS1-like domain
SCOP superfamily Proline/betaine transporter ProP, C-terminal cytoplasmic domain
SCOP superfamily 39 kda initiator binding protein, IBP39, C-terminal domains
SCOP superfamily NinB
SCOP superfamily CheC-like
SCOP superfamily Cell division protein ZapA-like
SCOP superfamily ASF1-like
SCOP superfamily Stathmin
SCOP superfamily Formin homology 2 domain (FH2 domain)
SCOP superfamily Methenyltetrahydrofolate cyclohydrolase-like

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Please cite: Gough, J., Karplus, K., Hughey, R. and Chothia, C. (2001). "Assignment of Homology to Genome Sequences using a Library of Hidden Markov Models that Represent all Proteins of Known Structure." J. Mol. Biol., 313(4), 903-919.

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© Copyright 2013 The SUPERFAMILY authors and Julian Gough.