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 The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.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

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