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
3AIAA 3KNUA 1UAKA 3QUVA 1X7PA 1NS5A 3N4JA 3KY7A 3AI9X 1UALA 1NXZA 2O3AA 3KTYA 3NK6A 1VHKA 1TO0A 1X7OA 1V6ZA 1VHYA 3ILKA 4H3YA 1O6DA 1V2XA 2QMMA 3N4KA 4H3ZA 1VH0A 1K3RA 1UAMA 4CNFB 1J85A 3IC6A 3AXZA 1MXIA 2HA8A 3L8UA 3GYQA 1ZJRA 3E5YA 4CNGB 4E8BA 1UAJA 2I6DA 3NK7A 2YY8A 4FAKA 2Z0YA 4IG6A 3DCMX 2QWVA 3IEFA 2CX8A 4CNEB 1P9PA 3ONPA 1GZ0A
chains in the KnotProt database with same CATH superfamily
3AIAA 3KNUA 1UAKA 3QUVA 1X7PA 1NS5A 3N4JA 3KY7A 3AI9X 1UALA 1NXZA 2O3AA 3KTYA 3NK6A 1VHKA 1TO0A 1X7OA 1V6ZA 1VHYA 3ILKA 4H3YA 1O6DA 1V2XA 2QMMA 3N4KA 4H3ZA 1VH0A 1K3RA 1UAMA 4CNFB 1J85A 3IC6A 3AXZA 1MXIA 2HA8A 3L8UA 3GYQA 1ZJRA 3E5YA 4CNGB 4E8BA 1UAJA 2I6DA 3NK7A 2YY8A 4FAKA 2Z0YA 4IG6A 3DCMX 2QWVA 3IEFA 2CX8A 4CNEB 1P9PA 3ONPA 1GZ0A
chains in the KnotProt database with same CATH topology
3AIAA 3KNUA 1UAKA 3QUVA 1X7PA 1NS5A 3N4JA 3KY7A 3AI9X 1UALA 1NXZA 2O3AA 3KTYA 3NK6A 1VHKA 1TO0A 1X7OA 1V6ZA 1VHYA 3ILKA 4H3YA 1O6DA 1V2XA 2QMMA 3N4KA 4H3ZA 1VH0A 1K3RA 1UAMA 4CNFB 1J85A 3IC6A 3AXZA 1MXIA 2HA8A 3L8UA 3GYQA 1ZJRA 3E5YA 4CNGB 4E8BA 1UAJA 2I6DA 3NK7A 2YY8A 4FAKA 2Z0YA 4IG6A 3DCMX 2QWVA 3IEFA 2CX8A 4CNEB 1P9PA 3ONPA 1GZ0A
chains in the KnotProt database with same CATH homology


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