5CRYA

Structure of iron-saturated c-lobe of bovine lactoferrin at ph 6.8 indicates the softening of iron coordination
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 17-171 155 1-16, 172-238 16 66 slipknot
Fingerprint Knot forming loop Loop type
K +31 Asp395 ... Cys481 <-> Cys675 ... Tyr526 <->
Bridging ionFe704
<-> Asp395		 ion-based
K +31 Asp395 ... Cys481 <-> Cys675 ... Cys587 <-> Cys573 ... Tyr526 <->
Bridging ionFe704
<-> Asp395		 ion-based
K +31 Asp395 ... Cys481 <-> Cys675 ... Cys630 <-> Cys625 ... Tyr526 <->
Bridging ionFe704
<-> Asp395		 ion-based
K +31 Asp395 ... Cys481 <-> Cys675 ... Cys630 <-> Cys625 ... Cys587 <-> Cys573 ... Tyr526 <->
Bridging ionFe704
<-> Asp395		 ion-based
K +31
Chain closureTyr342 <-> Arg689
... Cys684 <-> Cys405 ... Cys481 <-> Cys675 ... Tyr526 <->
Bridging ionFe704
<-> Asp395 ... Tyr342		 probabilistic
K +31
Chain closureTyr342 <-> Arg689
... Cys684 <-> Cys405 ... Cys481 <-> Cys675 ... Cys587 <-> Cys573 ... Tyr526 <->
Bridging ionFe704
<-> Asp395 ... Tyr342		 probabilistic
K +31
Chain closureTyr342 <-> Arg689
... Cys684 <-> Cys405 ... Cys481 <-> Cys675 ... Cys630 <-> Cys625 ... Tyr526 <->
Bridging ionFe704
<-> Asp395 ... Tyr342		 probabilistic
K +31
Chain closureTyr342 <-> Arg689
... Cys684 <-> Cys405 ... Cys481 <-> Cys675 ... Tyr526 <->
Bridging ionFe704
<-> Asp395 ... Cys371 <-> Cys358 ... Tyr342		 probabilistic
K +31
Chain closureTyr342 <-> Arg689
... Cys684 <-> Cys405 ... Cys481 <-> Cys675 ... Tyr526 <->
Bridging ionFe704
<-> Asp395 ... Cys380 <-> Cys348 ... Tyr342		 probabilistic
K +31
Chain closureTyr342 <-> Arg689
... Cys684 <-> Cys405 ... Cys481 <-> Cys675 ... Cys630 <-> Cys625 ... Cys587 <-> Cys573 ... Tyr526 <->
Bridging ionFe704
<-> Asp395 ... Tyr342		 probabilistic
K +31
Chain closureTyr342 <-> Arg689
... Cys684 <-> Cys405 ... Cys481 <-> Cys675 ... Cys587 <-> Cys573 ... Tyr526 <->
Bridging ionFe704
<-> Asp395 ... Cys371 <-> Cys358 ... Tyr342		 probabilistic
K +31
Chain closureTyr342 <-> Arg689
... Cys684 <-> Cys405 ... Cys481 <-> Cys675 ... Cys630 <-> Cys625 ... Tyr526 <->
Bridging ionFe704
<-> Asp395 ... Cys371 <-> Cys358 ... Tyr342		 probabilistic
K +31
Chain closureTyr342 <-> Arg689
... Cys684 <-> Cys405 ... Cys481 <-> Cys675 ... Cys587 <-> Cys573 ... Tyr526 <->
Bridging ionFe704
<-> Asp395 ... Cys380 <-> Cys348 ... Tyr342		 probabilistic
K +31
Chain closureTyr342 <-> Arg689
... Cys684 <-> Cys405 ... Cys481 <-> Cys675 ... Cys630 <-> Cys625 ... Tyr526 <->
Bridging ionFe704
<-> Asp395 ... Cys380 <-> Cys348 ... Tyr342		 probabilistic
K +31
Chain closureTyr342 <-> Arg689
... Cys684 <-> Cys405 ... Cys481 <-> Cys675 ... Cys630 <-> Cys625 ... Cys587 <-> Cys573 ... Tyr526 <->
Bridging ionFe704
<-> Asp395 ... Cys371 <-> Cys358 ... Tyr342		 probabilistic
K +31
Chain closureTyr342 <-> Arg689
... Cys684 <-> Cys405 ... Cys481 <-> Cys675 ... Cys630 <-> Cys625 ... Cys587 <-> Cys573 ... Tyr526 <->
Bridging ionFe704
<-> Asp395 ... Cys380 <-> Cys348 ... Tyr342		 probabilistic
Chain Sequence
YTRVVWCAVGPEEQKKCQQWSQQSGQNVTCATASTTDDCIVLVLKGEADALNLDGGYIYTAGKCGLVPVLAENRKSSKHSSLDCVLRPTEGYLAVAVVKKANEGLTWNSLKDKKSCHTAVDRTAGWNIPMGLIVNQTGSCAFDEFFSQSCAPGADPKSRLCALCAGDDQGLDKCVPNSKEKYYGYTGAFRCLAEDVGDVAFVKNDTVWENTNGESTADWAKNLKREDFRLLCLDGTRKPVTEAQSCHLAVAPNHAVVSRSDRAAHVEQVLLHQQALFGKNGKNCPDKFCLFKSETKNLLFNDNTECLAKLGGRPTYEEYLGTEYVTAIANLKKCSTSPLLEACAFLTR
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 348
structure length 348
publication title Structure of iron-saturated C-lobe of bovine lactoferrin at pH 7.0 indicates the softening of iron coordination
rcsb
molecule tags Hydrolase
molecule keywords Lactotransferrin
total genus Genus: 111
ec nomenclature ec 3.4.21.-:
pdb deposition date 2015-07-23
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)
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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