4KY0A

Crystal structure of a substrate-free glutamate transporter homologue from thermococcus kodakarensis
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 The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.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: 156
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 51-321 271 1-50 343-422 322-342 50 80 slipknot
Chain Sequence
YLDYPVLWKILWGLVLGAVFGLIAGHFGYAGAVKTYIKPFGDLFVRLLKMLVMPIVLASLVVGAASISPARLGRVGVKIVVYYLATSAMAVFFGLIVGRLFNVGANVNLGSGTGKAI------LVQTLLNIVPTNPFASLAKGEVLPVIFFAIILGIAITYLMNRNEERVRKSAETLLRVFDGLAEAMYLIVGGVMQYAPIGVFALIAYVMAEQGVRVVGPLAKVVGAVYTGLFLQIVITYFILLKVFGIDPIKFIRKAKDAMITAFVTRSSSGTLPVTMRVAEEEMGVDKGIFSFTLPLGATINMDGTALYQGVTVLFVANAIGHPLTLGQQLVVVLTAVLASIGTAGVPGAGAIMLAMVLQSVGLDLTPGSPVALAYAMILGIDAILDMGRTMVNVTGDLAGTVIVAKTEKELDESKWIS
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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2.1 41-305 265 1-40 338-416 306-337 40 79 slipknot
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2.1 18-349 332 1-17 362-416 350-361 17 55 slipknot
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2.1 49-329 281 1-40, 338-416 41-48, 330-337 40 79 slipknot
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2.1 60-319 260 1-49, 328-416 50-59, 320-327 49 89 slipknot
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1.1 60-327 268 1-49, 337-416 50-59, 328-336 49 80 slipknot
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1.1 60-305 246 1-50, 319-416 51-59, 306-318 50 98 slipknot
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1.1 60-318 259 1-50, 320-416 51-59, 319-319 50 97 slipknot
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1.1 63-326 264 1-59, 337-416 60-62, 327-336 59 80 slipknot
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1.1 62-312 251 1-59, 321-416 60-61, 313-320 59 96 slipknot
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1.1 62-320 259 1-59, 322-416 60-61, 321-321 59 95 slipknot
sequence length 422
structure length 416
publication title Crystal structure of a substrate-free aspartate transporter.
pubmed doi rcsb
molecule tags Transport protein, membrane protein
molecule keywords Proton/glutamate symporter, SDF family
source organism Thermococcus kodakarensis
missing residues 118-123
total genus Genus: 156
ec nomenclature
pdb deposition date 2013-05-28
KnotProt deposition date 2014-07-31

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF00375 SDF Sodium:dicarboxylate symporter family
Image from the rcsb pdb (www.rcsb.org)
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similar chains in the KnotProt database (?% sequence similarity)
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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