1X7OA

Crystal structure of the spou methyltransferase avirb from streptomyces viridochromogenes
Knot K +31
Knot core range Knot core length Knot tails range Slipknot tails range Slipknot loops range N-end length C-end length Type
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+31 192-232 41 1-191, 233-267 191 35 knot
Chain Sequence
RNARFQQWQALLGNRNKRTRAGEFLVMGVRPISLAVEHGWPVRTLLYDGQRELSKWARELLRTVRTEQIAMAPDLLMELGEKNEAPPEVVAVVEMPADDLDRIPVREDFLGVLFDRPTSPGNIGSIIRSADALGAHGLIVAGHAADVYDPKSVRSSTGSLFSLPAVRVPSPGEVMDWVEARRAAGTPIVLVGTDEHGDCDVFDFDFTQPTLLLIGNETAGLSNAWRTLCDYTVSIPMAGSASSLNAANAATAILYEAVRQRISGRTA
Whole chain analysis
Subchain analysis 

Knotoid cutoff: 0.5


Knotoid matrix content: 1

Knot core range Knot core length Knot tails range Slipknot tails range Slipknot loops range N-end length C-end length Type
view details
3.1 192-233 42 1-191, 234-267 191 34 knot
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2.1 190-230 41 1-189 236-267 231-235 189 32 slipknot
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3.1 193-236 44 1-191, 256-267 192-192, 237-255 191 12 slipknot
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2.1 193-255 63 1-191, 258-267 192-192, 256-257 191 10 slipknot
view details
2.1 194-238 45 1-192, 255-267 193-193, 239-254 192 13 slipknot
sequence length 267
structure length 267
publication title Structure and function of the antibiotic resistance-mediating methyltransferase AviRb from Streptomyces viridochromogenes
pubmed doi rcsb
molecule tags Transferase
molecule keywords rRNA methyltransferase
source organism Streptomyces viridochromogenes
total genus Genus: 82
ec nomenclature ec 2.1.1.208: 23S rRNA (uridine(2479)-2'-O)-methyltransferase.
pdb deposition date 2004-08-16
KnotProt deposition date 2014-07-31

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF00588 SpoU_methylase SpoU rRNA Methylase family
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.30.1330.30 Alpha Beta 2-Layer Sandwich 60s Ribosomal Protein L30; Chain: A; 60s Ribosomal Protein L30; Chain: A; 1x7oA01
3.40.1280.10 Alpha Beta 3-Layer(aba) Sandwich Alpha/beta knot Alpha/beta knot 1x7oA02
1K3RA 1NXZA 3GYQA 1VHKA 3E5YA 1VH0A 3ONPA 3KNUA 3KTYA 2YY8A 1O6DA 2QMMA 1MXIA 4CNEB 3AXZA 4CNGB 1X7OA 1NS5A 3NK6A 2Z0YA 3ILKA 1TO0A 1ZJRA 4FAKA 4H3YA 2HA8A 3IEFA 1V6ZA 1X7PA 4CNFB 2CX8A 1UAKA 3KY7A 3IC6A 3AI9X 3QUVA 1GZ0A 1V2XA 2I6DA 3DCMX 3L8UA 1UAJA 1VHYA 4IG6A 1UALA 1P9PA 3N4JA 1UAMA 1J85A 2QWVA 4E8BA 2O3AA 3N4KA 4H3ZA 3NK7A 3AIAA
chains in the KnotProt database with same CATH superfamily
1K3RA 1NXZA 3GYQA 1VHKA 3E5YA 1VH0A 3ONPA 3KNUA 3KTYA 2YY8A 1O6DA 2QMMA 1MXIA 4CNEB 3AXZA 4CNGB 1X7OA 1NS5A 3NK6A 2Z0YA 3ILKA 1TO0A 1ZJRA 4FAKA 4H3YA 2HA8A 3IEFA 1V6ZA 1X7PA 4CNFB 2CX8A 1UAKA 3KY7A 3IC6A 3AI9X 3QUVA 1GZ0A 1V2XA 2I6DA 3DCMX 3L8UA 1UAJA 1VHYA 4IG6A 1UALA 1P9PA 3N4JA 1UAMA 1J85A 2QWVA 4E8BA 2O3AA 3N4KA 4H3ZA 3NK7A 3AIAA
chains in the KnotProt database with same CATH topology
1K3RA 1NXZA 3GYQA 1VHKA 3E5YA 1VH0A 3ONPA 3KNUA 3KTYA 2YY8A 1O6DA 2QMMA 1MXIA 4CNEB 3AXZA 4CNGB 1X7OA 1NS5A 3NK6A 2Z0YA 3ILKA 1TO0A 1ZJRA 4FAKA 4H3YA 2HA8A 3IEFA 1V6ZA 1X7PA 4CNFB 2CX8A 1UAKA 3KY7A 3IC6A 3AI9X 3QUVA 1GZ0A 1V2XA 2I6DA 3DCMX 3L8UA 1UAJA 1VHYA 4IG6A 1UALA 1P9PA 3N4JA 1UAMA 1J85A 2QWVA 4E8BA 2O3AA 3N4KA 4H3ZA 3NK7A 3AIAA
chains in the KnotProt database with same CATH homology


 
#chains in the KnotProt database with same CATH superfamily
 1K3R A;  1NXZ A;  3GYQ A;  1VHK A;  3E5Y A;  1VH0 A;  3ONP A;  3KNU A;  3KTY A;  2YY8 A;  1O6D A;  2QMM A;  1MXI A;  4CNE B;  3AXZ A;  4CNG B;  1X7O A;  1NS5 A;  3NK6 A;  2Z0Y A;  3ILK A;  1TO0 A;  1ZJR A;  4FAK A;  4H3Y A;  2HA8 A;  3IEF A;  1V6Z A;  1X7P A;  4CNF B;  2CX8 A;  1UAK A;  3KY7 A;  3IC6 A;  3AI9 X;  3QUV A;  1GZ0 A;  1V2X A;  2I6D A;  3DCM X;  3L8U A;  1UAJ A;  1VHY A;  4IG6 A;  1UAL A;  1P9P A;  3N4J A;  1UAM A;  1J85 A;  2QWV A;  4E8B A;  2O3A A;  3N4K A;  4H3Z A;  3NK7 A;  3AIA A; 
#chains in the KnotProt database with same CATH topology
 1K3R A;  1NXZ A;  3GYQ A;  1VHK A;  3E5Y A;  1VH0 A;  3ONP A;  3KNU A;  3KTY A;  2YY8 A;  1O6D A;  2QMM A;  1MXI A;  4CNE B;  3AXZ A;  4CNG B;  1X7O A;  1NS5 A;  3NK6 A;  2Z0Y A;  3ILK A;  1TO0 A;  1ZJR A;  4FAK A;  4H3Y A;  2HA8 A;  3IEF A;  1V6Z A;  1X7P A;  4CNF B;  2CX8 A;  1UAK A;  3KY7 A;  3IC6 A;  3AI9 X;  3QUV A;  1GZ0 A;  1V2X A;  2I6D A;  3DCM X;  3L8U A;  1UAJ A;  1VHY A;  4IG6 A;  1UAL A;  1P9P A;  3N4J A;  1UAM A;  1J85 A;  2QWV A;  4E8B A;  2O3A A;  3N4K A;  4H3Z A;  3NK7 A;  3AIA A; 
#chains in the KnotProt database with same CATH homology
 1K3R A;  1NXZ A;  3GYQ A;  1VHK A;  3E5Y A;  1VH0 A;  3ONP A;  3KNU A;  3KTY A;  2YY8 A;  1O6D A;  2QMM A;  1MXI A;  4CNE B;  3AXZ A;  4CNG B;  1X7O A;  1NS5 A;  3NK6 A;  2Z0Y A;  3ILK A;  1TO0 A;  1ZJR A;  4FAK A;  4H3Y A;  2HA8 A;  3IEF A;  1V6Z A;  1X7P A;  4CNF B;  2CX8 A;  1UAK A;  3KY7 A;  3IC6 A;  3AI9 X;  3QUV A;  1GZ0 A;  1V2X A;  2I6D A;  3DCM X;  3L8U A;  1UAJ A;  1VHY A;  4IG6 A;  1UAL A;  1P9P A;  3N4J A;  1UAM A;  1J85 A;  2QWV A;  4E8B A;  2O3A A;  3N4K A;  4H3Z A;  3NK7 A;  3AIA A; 
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similar chains in the KnotProt database (?% sequence similarity)
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similar chains in the pdb database (?% sequence similarity)

 
#similar chains in the KnotProt database (?% sequence similarity)
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#similar chains, but unknotted
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