3O97A

Crystal structure of the complex of c-lobe of lactoferrin with indole acetic acid at 2.68 a resolution
Note, that the numbers in the matrix denote the consecutive residues in the loop, not the index of amino acids in the chain!
Knot K 16x +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
+ 31 18-171 154 1-17, 172-238 17 66 slipknot
Fingerprint Knot forming loop Loop type
K +31 Asp395 ... Cys481 <-> Cys675 ... Tyr526 <->
Bridging ionFe690
<-> Asp395		 ion-based
K +31 Asp395 ... Cys481 <-> Cys675 ... Cys587 <-> Cys573 ... Tyr526 <->
Bridging ionFe690
<-> Asp395		 ion-based
K +31 Asp395 ... Cys481 <-> Cys675 ... Cys630 <-> Cys625 ... Tyr526 <->
Bridging ionFe690
<-> Asp395		 ion-based
K +31 Asp395 ... Cys481 <-> Cys675 ... Cys630 <-> Cys625 ... Cys587 <-> Cys573 ... Tyr526 <->
Bridging ionFe690
<-> Asp395		 ion-based
K +31
Chain closureTyr342 <-> Phe686
... Cys684 <-> Cys405 ... Cys481 <-> Cys675 ... Tyr526 <->
Bridging ionFe690
<-> Asp395 ... Tyr342		 probabilistic
K +31
Chain closureTyr342 <-> Phe686
... Cys684 <-> Cys405 ... Cys481 <-> Cys675 ... Cys587 <-> Cys573 ... Tyr526 <->
Bridging ionFe690
<-> Asp395 ... Tyr342		 probabilistic
K +31
Chain closureTyr342 <-> Phe686
... Cys684 <-> Cys405 ... Cys481 <-> Cys675 ... Cys630 <-> Cys625 ... Tyr526 <->
Bridging ionFe690
<-> Asp395 ... Tyr342		 probabilistic
K +31
Chain closureTyr342 <-> Phe686
... Cys684 <-> Cys405 ... Cys481 <-> Cys675 ... Tyr526 <->
Bridging ionFe690
<-> Asp395 ... Cys371 <-> Cys358 ... Tyr342		 probabilistic
K +31
Chain closureTyr342 <-> Phe686
... Cys684 <-> Cys405 ... Cys481 <-> Cys675 ... Tyr526 <->
Bridging ionFe690
<-> Asp395 ... Cys380 <-> Cys348 ... Tyr342		 probabilistic
K +31
Chain closureTyr342 <-> Phe686
... Cys684 <-> Cys405 ... Cys481 <-> Cys675 ... Cys630 <-> Cys625 ... Cys587 <-> Cys573 ... Tyr526 <->
Bridging ionFe690
<-> Asp395 ... Tyr342		 probabilistic
K +31
Chain closureTyr342 <-> Phe686
... Cys684 <-> Cys405 ... Cys481 <-> Cys675 ... Cys587 <-> Cys573 ... Tyr526 <->
Bridging ionFe690
<-> Asp395 ... Cys371 <-> Cys358 ... Tyr342		 probabilistic
K +31
Chain closureTyr342 <-> Phe686
... Cys684 <-> Cys405 ... Cys481 <-> Cys675 ... Cys630 <-> Cys625 ... Tyr526 <->
Bridging ionFe690
<-> Asp395 ... Cys371 <-> Cys358 ... Tyr342		 probabilistic
K +31
Chain closureTyr342 <-> Phe686
... Cys684 <-> Cys405 ... Cys481 <-> Cys675 ... Cys587 <-> Cys573 ... Tyr526 <->
Bridging ionFe690
<-> Asp395 ... Cys380 <-> Cys348 ... Tyr342		 probabilistic
K +31
Chain closureTyr342 <-> Phe686
... Cys684 <-> Cys405 ... Cys481 <-> Cys675 ... Cys630 <-> Cys625 ... Tyr526 <->
Bridging ionFe690
<-> Asp395 ... Cys380 <-> Cys348 ... Tyr342		 probabilistic
K +31
Chain closureTyr342 <-> Phe686
... Cys684 <-> Cys405 ... Cys481 <-> Cys675 ... Cys630 <-> Cys625 ... Cys587 <-> Cys573 ... Tyr526 <->
Bridging ionFe690
<-> Asp395 ... Cys371 <-> Cys358 ... Tyr342		 probabilistic
K +31
Chain closureTyr342 <-> Phe686
... Cys684 <-> Cys405 ... Cys481 <-> Cys675 ... Cys630 <-> Cys625 ... Cys587 <-> Cys573 ... Tyr526 <->
Bridging ionFe690
<-> Asp395 ... Cys380 <-> Cys348 ... Tyr342		 probabilistic
Chain Sequence
YTRVVWCAVGPEEQKKCQQWSQQSGQNVTCATASTTDDCIVLVLKGEADALNLDGGYIYTAGKCGLVPVLAENRKSSKHSSLDCVLRPTEGYLAVAVVKKANEGLTWNSLKDKKSCHTAVDRTAGWNIPMGLIVNQTGSCAFDEFFSQSCAPGADPKSRLCALCAGDDQGLDKCVPNSKEKYYGYTGAFRCLAEDVGDVAFVKNDTVWENTNGESTADWAKNLKREDFRLLCLDGTRKPVTEAQSCHLAVAPNHAVVSRSDRAAHVEQVLLHQQALFGKNGKNCPDKFCLFKSETKNLLFNDNTECLAKLGGRPTYEEYLGTEYVTAIANLKKCS----LEACAF
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
sequence length 345
structure length 341
publication title Crystal Structure of the complex of C-lobe of lactoferrin with indole acetic acid at 2.68 A Resolution
rcsb
molecule tags Hydrolase
molecule keywords Lactotransferrin
missing residues 336-339
total genus Genus: 108
ec nomenclature ec 3.4.21.-:
pdb deposition date 2010-08-04
KnotProt deposition date 2018-10-31

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF00405 Transferrin Transferrin
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.40.190.10 Alpha Beta 3-Layer(aba) Sandwich D-Maltodextrin-Binding Protein; domain 2 Periplasmic binding protein-like II 3o97A01
3.40.190.10 Alpha Beta 3-Layer(aba) Sandwich D-Maltodextrin-Binding Protein; domain 2 Periplasmic binding protein-like II 3o97A02
3.40.190.10 Alpha Beta 3-Layer(aba) Sandwich D-Maltodextrin-Binding Protein; domain 2 Periplasmic binding protein-like II 3o97A01
3.40.190.10 Alpha Beta 3-Layer(aba) Sandwich D-Maltodextrin-Binding Protein; domain 2 Periplasmic binding protein-like II 3o97A02
1D3KA 1B3EA 2O84X 1A8FA 1OQGA 1N7XA 1OQHA 1D4NA 2O7UA 1N7WA 1DTGA 1FQFA 3FGSA 1A8EA 3O97A 1FQEA 1N84A 1JQFA
chains in the KnotProt database with same CATH superfamily
1D3KA 1B3EA 2O84X 1A8FA 1OQGA 1N7XA 1OQHA 1D4NA 2O7UA 1N7WA 1DTGA 1FQFA 3FGSA 1A8EA 3O97A 1FQEA 1N84A 1JQFA
chains in the KnotProt database with same CATH topology
1D3KA 1B3EA 2O84X 1A8FA 1OQGA 1N7XA 1OQHA 1D4NA 2O7UA 1N7WA 1DTGA 1FQFA 3FGSA 1A8EA 3O97A 1FQEA 1N84A 1JQFA
chains in the KnotProt database with same CATH homology

  
#chains in the KnotProt database with same CATH superfamily
 1D3K A;  1B3E A;  2O84 X;  1A8F A;  1OQG A;  1N7X A;  1OQH A;  1D4N A;  2O7U A;  1N7W A;  1DTG A;  1FQF A;  3FGS A;  1A8E A;  3O97 A;  1FQE A;  1N84 A;  1JQF A; 
#chains in the KnotProt database with same CATH topology
 1D3K A;  1B3E A;  2O84 X;  1A8F A;  1OQG A;  1N7X A;  1OQH A;  1D4N A;  2O7U A;  1N7W A;  1DTG A;  1FQF A;  3FGS A;  1A8E A;  3O97 A;  1FQE A;  1N84 A;  1JQF A; 
#chains in the KnotProt database with same CATH homology
 1D3K A;  1B3E A;  2O84 X;  1A8F A;  1OQG A;  1N7X A;  1OQH A;  1D4N A;  2O7U A;  1N7W A;  1DTG A;  1FQF A;  3FGS A;  1A8E A;  3O97 A;  1FQE A;  1N84 A;  1JQF 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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