3IC6A

Crystal structure of putative methylase family protein from neisseria gonorrhoeae
Warning
  • Chain breaks within knot 31 (displayed as a gray area on the plot and as '-' on the sequence). The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.
Genus: 55
Knot K +31

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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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+31 105-159 55 1-104, 160-217 104 58 knot
Chain Sequence
LKPALPDYLGNIRIILTRTSHPANIGSAARAMKTMGLHRLTIVTPNLMATPMTENPPVFNPDDVQSFALPEESFILASGAADVLHNAEIVATLDEALADTTIACALTSRRR--TAPLQTPRDLVPELLQAANRGEKVALVFGNETFGLSIEEVRACNRLMTINGNPDYFSLNLAQAVQVVCYEIFSQTDSPMTHLQQHA--ATHEQIKGMLAHMESV
Whole chain analysis

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Subchain analysis 

Knotoid cutoff: 0.5


Knotoid matrix content: 1


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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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3.1 105-158 54 1-104, 159-213 104 55 knot
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2.1 101-154 54 1-100 160-213 155-159 100 54 slipknot
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2.1 106-166 61 1-104, 177-213 105-105, 167-176 104 37 slipknot
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3.1 107-186 80 1-104, 199-213 105-106, 187-198 104 15 slipknot
sequence length 217
structure length 213
publication title Crystal structure of putative methylase family protein from Neisseria gonorrhoeae
rcsb
molecule tags Structural genomics, unknown function
molecule keywords Putative methylase family protein
source organism Neisseria gonorrhoeae fa 1090
missing residues 112-113, 198-199
total genus Genus: 55
ec nomenclature
pdb deposition date 2009-07-17
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
3.40.1280.10 Alpha Beta 3-Layer(aba) Sandwich Alpha/beta knot Alpha/beta knot 3ic6A01
3GYQA 4CNFB 1X7PA 2O3AA 3N4JA 3ILKA 3KY7A 1VHKA 2YY8A 3IC6A 4CNGB 3E5YA 1TO0A 1V2XA 2I6DA 3IEFA 3NK7A 1ZJRA 3N4KA 3L8UA 3KTYA 1K3RA 3NK6A 2QMMA 3AI9X 1UAMA 4H3YA 4FAKA 1UAKA 2QWVA 1J85A 1MXIA 3DCMX 4H3ZA 1NS5A 1GZ0A 1V6ZA 1UAJA 1VH0A 2CX8A 1P9PA 1UALA 3ONPA 3QUVA 4E8BA 3AXZA 1VHYA 1O6DA 1X7OA 2HA8A 1NXZA 3AIAA 2Z0YA 4IG6A 4CNEB 3KNUA
chains in the KnotProt database with same CATH superfamily
3GYQA 4CNFB 1X7PA 2O3AA 3N4JA 3ILKA 3KY7A 1VHKA 2YY8A 3IC6A 4CNGB 3E5YA 1TO0A 1V2XA 2I6DA 3IEFA 3NK7A 1ZJRA 3N4KA 3L8UA 3KTYA 1K3RA 3NK6A 2QMMA 3AI9X 1UAMA 4H3YA 4FAKA 1UAKA 2QWVA 1J85A 1MXIA 3DCMX 4H3ZA 1NS5A 1GZ0A 1V6ZA 1UAJA 1VH0A 2CX8A 1P9PA 1UALA 3ONPA 3QUVA 4E8BA 3AXZA 1VHYA 1O6DA 1X7OA 2HA8A 1NXZA 3AIAA 2Z0YA 4IG6A 4CNEB 3KNUA
chains in the KnotProt database with same CATH topology
3GYQA 4CNFB 1X7PA 2O3AA 3N4JA 3ILKA 3KY7A 1VHKA 2YY8A 3IC6A 4CNGB 3E5YA 1TO0A 1V2XA 2I6DA 3IEFA 3NK7A 1ZJRA 3N4KA 3L8UA 3KTYA 1K3RA 3NK6A 2QMMA 3AI9X 1UAMA 4H3YA 4FAKA 1UAKA 2QWVA 1J85A 1MXIA 3DCMX 4H3ZA 1NS5A 1GZ0A 1V6ZA 1UAJA 1VH0A 2CX8A 1P9PA 1UALA 3ONPA 3QUVA 4E8BA 3AXZA 1VHYA 1O6DA 1X7OA 2HA8A 1NXZA 3AIAA 2Z0YA 4IG6A 4CNEB 3KNUA
chains in the KnotProt database with same CATH homology

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