2QWVA

Crystal structure of unknown function protein vca1059
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 The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.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: 49
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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+31 132-174 43 1-131, 175-202 131 28 knot
Chain Sequence
TMRSFILRARSAPTDSQRLLDEIGGKCHTEILAHCMMNSLFTAQSHREDVVIHLVLESTRDYSRTITVEANEI----GFHEAALIALLVKALDASVGMGKEQTRVVQPGLTVRTISFEALLGELAEHHSLYMMDKKGDSIRDIKIGPNPCFILTDSMKR----------LGVEKISLGPKMLFASQCVTLIHNEIDHQEAGW
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
view details
3.1 127-162 36 1-126, 163-188 126 26 knot
view details
2.1 126-158 33 1-125 164-188 159-163 125 25 slipknot
sequence length 202
structure length 188
publication title Crystal structure of unknown function protein VCA1059.
rcsb
molecule tags Structural genomics, unknown function
molecule keywords UPF0217 protein VC_A1059
source organism Vibrio cholerae o1 biovar eltor str. n16961
missing residues 74-77, 156-165
total genus Genus: 49
ec nomenclature
pdb deposition date 2007-08-10
KnotProt deposition date 2014-07-31

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF04013 Methyltrn_RNA_2 Putative SAM-dependent RNA methyltransferase
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 2qwvA00
1O6DA 2O3AA 3AIAA 3NK6A 1VHYA 4CNEB 3KTYA 1UALA 1UAMA 3QUVA 1V2XA 1VH0A 1NXZA 3AXZA 4E8BA 4IG6A 1J85A 1X7OA 1V6ZA 1GZ0A 1ZJRA 2CX8A 3GYQA 3KNUA 3N4JA 3L8UA 1K3RA 3N4KA 2QWVA 3ILKA 4CNFB 4FAKA 1UAJA 1TO0A 3IC6A 1NS5A 1MXIA 1P9PA 3NK7A 2Z0YA 2HA8A 3DCMX 4CNGB 3E5YA 3KY7A 3ONPA 4H3ZA 2I6DA 2QMMA 1X7PA 4H3YA 1UAKA 1VHKA 3IEFA 2YY8A 3AI9X
chains in the KnotProt database with same CATH superfamily
1O6DA 2O3AA 3AIAA 3NK6A 1VHYA 4CNEB 3KTYA 1UALA 1UAMA 3QUVA 1V2XA 1VH0A 1NXZA 3AXZA 4E8BA 4IG6A 1J85A 1X7OA 1V6ZA 1GZ0A 1ZJRA 2CX8A 3GYQA 3KNUA 3N4JA 3L8UA 1K3RA 3N4KA 2QWVA 3ILKA 4CNFB 4FAKA 1UAJA 1TO0A 3IC6A 1NS5A 1MXIA 1P9PA 3NK7A 2Z0YA 2HA8A 3DCMX 4CNGB 3E5YA 3KY7A 3ONPA 4H3ZA 2I6DA 2QMMA 1X7PA 4H3YA 1UAKA 1VHKA 3IEFA 2YY8A 3AI9X
chains in the KnotProt database with same CATH topology
1O6DA 2O3AA 3AIAA 3NK6A 1VHYA 4CNEB 3KTYA 1UALA 1UAMA 3QUVA 1V2XA 1VH0A 1NXZA 3AXZA 4E8BA 4IG6A 1J85A 1X7OA 1V6ZA 1GZ0A 1ZJRA 2CX8A 3GYQA 3KNUA 3N4JA 3L8UA 1K3RA 3N4KA 2QWVA 3ILKA 4CNFB 4FAKA 1UAJA 1TO0A 3IC6A 1NS5A 1MXIA 1P9PA 3NK7A 2Z0YA 2HA8A 3DCMX 4CNGB 3E5YA 3KY7A 3ONPA 4H3ZA 2I6DA 2QMMA 1X7PA 4H3YA 1UAKA 1VHKA 3IEFA 2YY8A 3AI9X
chains in the KnotProt database with same CATH homology

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