3P13A

Complex structure of d-ribose pyranase sa240 with d-ribose
Slipknot S +31
Knot core range Knot core length Knot tails range Slipknot tails range Slipknot loops range N-end length C-end length Type
view details
+31 20-113 94 1-19 122-130 114-121 19 9 slipknot
Chain Sequence
AVLNEHISKAIATIGHFDLLTINDAGMPIPNDHRRIDLAVTKNLPRFIDVLATVLEEMEIQKIYLAEEIKEHNPTQLQQIKQLISSEIEIIFIPHEEMKSNLAHPLNKGNIRTGETTPYSNIALESNVTF
Whole chain analysis
Subchain analysis 

Knotoid cutoff: 0.5


Knotoid matrix content: 1

Knot core range Knot core length Knot tails range Slipknot tails range Slipknot loops range N-end length C-end length Type
view details
2.1 10-111 102 1-9 116-130 112-115 9 15 slipknot
view details
2.1 7-118 112 1-6 124-130 119-123 6 7 slipknot
view details
3.1 20-113 94 1-3, 121-130 4-19, 114-120 3 10 slipknot
sequence length 130
structure length 130
publication title Crystal structure of Sa240: A ribose pyranase homolog with partial active site from Staphylococcus aureus
pubmed doi rcsb
molecule tags Isomerase
molecule keywords D-ribose pyranase
source organism Staphylococcus aureus
total genus Genus: 42
ec nomenclature ec 5.4.99.62: D-ribose pyranase.
pdb deposition date 2010-09-29
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 3p13A01
2OB5A 1OGFA 1OGDA 4A34A 3P13A 2WCUA 3P12A 2WCVA 1OGEA 3MVKA 1OGCA 3E7NA
chains in the KnotProt database with same CATH superfamily
2OB5A 1OGFA 1OGDA 4A34A 3P13A 2WCUA 3P12A 2WCVA 1OGEA 3MVKA 1OGCA 3E7NA
chains in the KnotProt database with same CATH topology
2OB5A 1OGFA 1OGDA 4A34A 3P13A 2WCUA 3P12A 2WCVA 1OGEA 3MVKA 1OGCA 3E7NA
chains in the KnotProt database with same CATH homology


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