1X7PA

Crystal structure of the spou methyltransferase avirb from streptomyces viridochromogenes in complex with the cofactor adomet
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
view details
+31 192-232 41 1-191, 233-265 191 33 knot
Chain Sequence
RNARFQQWQALLGNRNKRTRAGEFLVMGVRPISLAVEHGWPVRTLLYDGQRELSKWARELLRTVRTEQIAMAPDLLMELGEKNEAPPEVVAVVEMPADDLDRIPVREDFLGVLFDRPTSPGNIGSIIRSADALGAHGLIVAGHAADVYDPKSVRSSTGSLFSLPAVRVPSPGEVMDWVEARRAAGTPIVLVGTDEHGDCDVFDFDFTQPTLLLIGNETAGLSNAWRTLCDYTVSIPMAGSASSLNAANAATAILYEAVRQRISGR
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
3.1 191-233 43 1-190, 234-265 190 32 knot
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2.1 190-230 41 1-189 236-265 231-235 189 30 slipknot
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3.1 192-234 43 235-265 1-190 191-191 190 30 slipknot
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3.1 193-242 50 1-191, 252-265 192-192, 243-251 191 14 slipknot
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3.1 193-236 44 1-191, 242-265 192-192, 237-241 191 24 slipknot
view details
3.1 193-252 60 253-265 1-191 192-192 191 12 slipknot
view details
2.1 194-253 60 1-192, 263-265 193-193, 254-262 192 3 slipknot
sequence length 265
structure length 265
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: 86
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; 1x7pA01
3.40.1280.10 Alpha Beta 3-Layer(aba) Sandwich Alpha/beta knot Alpha/beta knot 1x7pA02
1O6DA 1VHKA 2YY8A 3AXZA 1VH0A 4E8BA 2QWVA 1V2XA 1GZ0A 2HA8A 2CX8A 1VHYA 1X7OA 1UAKA 1NS5A 1UALA 3QUVA 4CNFB 1X7PA 1V6ZA 3GYQA 1K3RA 1UAMA 3ILKA 3KY7A 4H3ZA 3AI9X 1P9PA 3NK6A 3DCMX 2QMMA 3N4JA 1UAJA 1NXZA 1TO0A 3NK7A 3ONPA 3N4KA 2O3AA 4FAKA 4H3YA 1ZJRA 2Z0YA 1MXIA 3IEFA 1J85A 4CNGB 3E5YA 3KNUA 4CNEB 3KTYA 2I6DA 3AIAA 3L8UA 4IG6A 3IC6A
chains in the KnotProt database with same CATH superfamily
1O6DA 1VHKA 2YY8A 3AXZA 1VH0A 4E8BA 2QWVA 1V2XA 1GZ0A 2HA8A 2CX8A 1VHYA 1X7OA 1UAKA 1NS5A 1UALA 3QUVA 4CNFB 1X7PA 1V6ZA 3GYQA 1K3RA 1UAMA 3ILKA 3KY7A 4H3ZA 3AI9X 1P9PA 3NK6A 3DCMX 2QMMA 3N4JA 1UAJA 1NXZA 1TO0A 3NK7A 3ONPA 3N4KA 2O3AA 4FAKA 4H3YA 1ZJRA 2Z0YA 1MXIA 3IEFA 1J85A 4CNGB 3E5YA 3KNUA 4CNEB 3KTYA 2I6DA 3AIAA 3L8UA 4IG6A 3IC6A
chains in the KnotProt database with same CATH topology
1O6DA 1VHKA 2YY8A 3AXZA 1VH0A 4E8BA 2QWVA 1V2XA 1GZ0A 2HA8A 2CX8A 1VHYA 1X7OA 1UAKA 1NS5A 1UALA 3QUVA 4CNFB 1X7PA 1V6ZA 3GYQA 1K3RA 1UAMA 3ILKA 3KY7A 4H3ZA 3AI9X 1P9PA 3NK6A 3DCMX 2QMMA 3N4JA 1UAJA 1NXZA 1TO0A 3NK7A 3ONPA 3N4KA 2O3AA 4FAKA 4H3YA 1ZJRA 2Z0YA 1MXIA 3IEFA 1J85A 4CNGB 3E5YA 3KNUA 4CNEB 3KTYA 2I6DA 3AIAA 3L8UA 4IG6A 3IC6A
chains in the KnotProt database with same CATH homology


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