2QJUA

Crystal structure of an nss homolog with bound antidepressant
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 The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.
  • Chain breaks within knot 41 (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 The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.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: 207
Slipknot S +31 41 +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 39-261 223 262-511 1-20 21-38 20 249 slipknot
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41 13-293 281 1-12 348-511 294-347 12 164 slipknot
Chain Sequence
REHWATRLGLILAMAGNAVGLGNFLRFPVQAAENGGGAFMIPYIIAFLLVGIPLMWIEWAMGRYGGAQGHGTTPAIFYLLWRNRFAKILGVFGLWIPLVVAIYYVYIESWTLGFAIKFLVGLVPEPPP--TDPDSILRPFKEFLYSYIGVPKGDEPILKPSLFAYIVFLITMFINVSILIRGISKGIERFAKIAMPTLFILAVFLVIRVFLLETPNGTAADGLNFLWTPDFEKLKDPGVWIAAVGQIFFTLSLGFGAIITYASYVRKDQDIVLSGLTAATLNEKAEVILGGSISIPAAVAFFGVANAVAIAKAGAFNLGFITLPAIFSQTAGGTFLGFLWFFLLFFAGLTSSIAIMQPMIAFLEDELKLSRKHAVLWTAAIVFFSAHLVMFLNKSLDEMDFWAGTIGVVFFGLTELIIFFWIFGADKAWEEINRGGIIKVPRIYYYVMRYITPAFLAVLLVVWAREYIPKIMEETHWTVWITRFYIIGLFLFLTFLVFLAERRRNHESAGT
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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3.2 12-287 276 1-11 301-509 288-300 11 209 slipknot
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3.2 11-300 290 1-10 310-509 301-309 10 200 slipknot
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4.1 10-327 318 1-9 335-509 328-334 9 175 slipknot
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3.2 14-334 321 1-13 348-509 335-347 13 162 slipknot
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2.1 29-253 225 1-15, 268-509 16-28, 254-267 15 242 slipknot
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1.1 24-273 250 1-16, 286-509 17-23, 274-285 16 224 slipknot
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2.1 35-411 377 1-18, 466-509 19-34, 412-465 18 44 slipknot
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3.24 42-407 366 408-509 1-19 20-41 19 101 slipknot
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2.1 42-355 314 1-20, 400-509 21-41, 356-399 20 110 slipknot
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1.1 33-246 214 1-23, 257-509 24-32, 247-256 23 253 slipknot
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2.1 29-279 251 1-23, 291-509 24-28, 280-290 23 219 slipknot
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2.1 32-283 252 1-28, 289-509 29-31, 284-288 28 221 slipknot
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1.1 42-276 235 1-27, 292-509 28-41, 277-291 27 218 slipknot
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2.1 41-291 251 1-27, 294-509 28-40, 292-293 27 216 slipknot
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1.1 40-243 204 1-30, 257-509 31-39, 244-256 30 253 slipknot
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2.1 41-275 235 1-30, 277-509 31-40, 276-276 30 233 slipknot
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2.1 42-261 220 1-34, 273-509 35-41, 262-272 34 237 slipknot
sequence length 511
structure length 509
publication title LeuT-desipramine structure reveals how antidepressants block neurotransmitter reuptake.
pubmed doi rcsb
molecule tags Transport protein
molecule keywords Transporter
source organism Aquifex aeolicus
missing residues 129-130
total genus Genus: 207
ec nomenclature
pdb deposition date 2007-07-09
KnotProt deposition date 2014-07-31

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF00209 SNF Sodium:neurotransmitter 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