2WCVA

Crystal structure of bacterial fucu
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 The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.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: 40
Slipknot S +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 26-121 96 1-25 132-140 122-131 25 9 slipknot
Chain Sequence
MLKTISPLISPELLKVLAEMGHGDEIIFSDAHFPAHSMGPQVIRADGLLVSDLLQAIIPLFELDSYAPPLVMMAAVEGDTLDPEVERRYRNALSL--PCPDIIRINRFAFYERAQKAFAIVITGERAKYGNILLKKGVTP
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 16-121 106 1-15 130-138 122-129 15 9 slipknot
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2.1 16-129 114 1-15 131-138 130-130 15 8 slipknot
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2.1 7-130 124 1-6 134-138 131-133 6 5 slipknot
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2.1 22-118 97 1-3, 125-138 4-21, 119-124 3 14 slipknot
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2.1 9-130 122 1-6, 134-138 7-8, 131-133 6 5 slipknot
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3.1 13-130 118 1-8, 132-138 9-12, 131-131 8 7 slipknot
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2.1 13-131 119 1-8, 134-138 9-12, 132-133 8 5 slipknot
sequence length 140
structure length 138
publication title Crystal Structures and Enzyme Mechanism of a Dual Fucose Mutarotase/Ribose Pyranase
pubmed doi rcsb
molecule tags Isomerase
molecule keywords L-FUCOSE MUTAROTASE
source organism Escherichia coli
missing residues 96-97
total genus Genus: 40
ec nomenclature ec 5.1.3.29: L-fucose mutarotase.
pdb deposition date 2009-03-17
KnotProt deposition date 2014-07-31

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF05025 RbsD_FucU RbsD / FucU transport protein family
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.40.1650.10 Alpha Beta 3-Layer(aba) Sandwich RbsD-like fold RbsD-like domain 2wcvA01
4A34A 3P12A 2WCUA 3P13A 1OGFA 2WCVA 2OB5A 3MVKA 1OGEA 1OGCA 3E7NA 1OGDA
chains in the KnotProt database with same CATH superfamily
4A34A 3P12A 2WCUA 3P13A 1OGFA 2WCVA 2OB5A 3MVKA 1OGEA 1OGCA 3E7NA 1OGDA
chains in the KnotProt database with same CATH topology
4A34A 3P12A 2WCUA 3P13A 1OGFA 2WCVA 2OB5A 3MVKA 1OGEA 1OGCA 3E7NA 1OGDA
chains in the KnotProt database with same CATH homology

  
#chains in the KnotProt database with same CATH superfamily
 4A34 A;  3P12 A;  2WCU A;  3P13 A;  1OGF A;  2WCV A;  2OB5 A;  3MVK A;  1OGE A;  1OGC A;  3E7N A;  1OGD A; 
#chains in the KnotProt database with same CATH topology
 4A34 A;  3P12 A;  2WCU A;  3P13 A;  1OGF A;  2WCV A;  2OB5 A;  3MVK A;  1OGE A;  1OGC A;  3E7N A;  1OGD A; 
#chains in the KnotProt database with same CATH homology
 4A34 A;  3P12 A;  2WCU A;  3P13 A;  1OGF A;  2WCV A;  2OB5 A;  3MVK A;  1OGE A;  1OGC A;  3E7N A;  1OGD 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