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 The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.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 1NXZA 4FAKA 1NS5A 1TO0A 1UAJA 3ONPA 4H3YA 1ZJRA 3KNUA 1VHKA 1O6DA 4H3ZA 3AIAA 2YY8A 1X7PA 3QUVA 4CNEB 1V6ZA 2QMMA 2HA8A 4IG6A 1UAMA 2QWVA 1GZ0A 3N4KA 3ILKA 4CNGB 3N4JA 3IEFA 4CNFB 2I6DA 3IC6A 4E8BA 1K3RA 1X7OA 1J85A 1V2XA 3AI9X 3E5YA 3L8UA 1P9PA 1UAKA 2CX8A 1VHYA 3NK6A 3KTYA 3DCMX 3NK7A 1MXIA 3KY7A 3AXZA 1UALA 2Z0YA 2O3AA 1VH0A
chains in the KnotProt database with same CATH superfamily
3GYQA 1NXZA 4FAKA 1NS5A 1TO0A 1UAJA 3ONPA 4H3YA 1ZJRA 3KNUA 1VHKA 1O6DA 4H3ZA 3AIAA 2YY8A 1X7PA 3QUVA 4CNEB 1V6ZA 2QMMA 2HA8A 4IG6A 1UAMA 2QWVA 1GZ0A 3N4KA 3ILKA 4CNGB 3N4JA 3IEFA 4CNFB 2I6DA 3IC6A 4E8BA 1K3RA 1X7OA 1J85A 1V2XA 3AI9X 3E5YA 3L8UA 1P9PA 1UAKA 2CX8A 1VHYA 3NK6A 3KTYA 3DCMX 3NK7A 1MXIA 3KY7A 3AXZA 1UALA 2Z0YA 2O3AA 1VH0A
chains in the KnotProt database with same CATH topology
3GYQA 1NXZA 4FAKA 1NS5A 1TO0A 1UAJA 3ONPA 4H3YA 1ZJRA 3KNUA 1VHKA 1O6DA 4H3ZA 3AIAA 2YY8A 1X7PA 3QUVA 4CNEB 1V6ZA 2QMMA 2HA8A 4IG6A 1UAMA 2QWVA 1GZ0A 3N4KA 3ILKA 4CNGB 3N4JA 3IEFA 4CNFB 2I6DA 3IC6A 4E8BA 1K3RA 1X7OA 1J85A 1V2XA 3AI9X 3E5YA 3L8UA 1P9PA 1UAKA 2CX8A 1VHYA 3NK6A 3KTYA 3DCMX 3NK7A 1MXIA 3KY7A 3AXZA 1UALA 2Z0YA 2O3AA 1VH0A
chains in the KnotProt database with same CATH homology

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