4MMDA

Crystal structure of leubat (delta6 mutant) in complex with (s)-duloxetine
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 The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.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 The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.
Slipknot S +31 41 +31
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 36-264 229 265-507 1-20 21-35 20 242 slipknot
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41 13-293 281 1-12 350-507 294-349 12 158 slipknot
Chain Sequence
REHWATRLGLILAMAGYAVDLGNFLRFPVQAAENGGGAFMIPYIIAFLLVGIPLMWIEWAMGRYGGAQGHGTTPAIFYLLWRNRFAKILGVFGLWIPLVVAIYYVYIESWTLGFAIKFLVGLVPEPP---TDPDSILRPFKEFLYSYIGVPKGDEPILKPSLFAYIVFLITMFINVSILIRGISKGIERFAKIAMPTLFILAVFLVIRVFLLETPNGTAADGLNFLWTPDFEKLKDPGVWIAAVGQIFFSLGLGFGAIITFASYVRKDQDIVLSGLTAATLNEKAEVILGGSISIPAAVAFFGVANAVAIAKAGAFNLGFITLPAIFSQTAGGTFLGFLWFFLLFFAGLTSSIAGMQPMIAFLEDELKLSRKHAVLWTAAIVFFSAHLVMFLNKSLDEMDFWAGTIGVVFFGLTELIIFFWIFGADKAWEEINRGGIIKVPRIYYYVMRYITPAFLAVLLVVWAREYIPKIMEETHWTVWITRFYIIGLFLFLTFLVFLAERRRNHE
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
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3.2 11-286 276 1-10 300-504 287-299 10 205 slipknot
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4.1 10-299 290 1-9 311-504 300-310 9 194 slipknot
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3.2 14-314 301 1-13 322-504 315-321 13 183 slipknot
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3.2 14-328 315 1-2, 345-504 3-13, 329-344 2 160 slipknot
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2.1 41-408 368 409-504 1-15 16-40 15 95 slipknot
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2.1 34-260 227 1-19, 275-504 20-33, 261-274 19 230 slipknot
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2.1 31-274 244 1-20, 277-504 21-30, 275-276 20 228 slipknot
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1.1 37-241 205 1-25, 257-504 26-36, 242-256 25 248 slipknot
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1.1 37-256 220 1-25, 258-504 26-36, 257-257 25 247 slipknot
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2.1 40-259 220 1-26, 273-504 27-39, 260-272 26 232 slipknot
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2.1 40-277 238 1-26, 294-504 27-39, 278-293 26 211 slipknot
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1.1 37-272 236 1-28, 278-504 29-36, 273-277 28 227 slipknot
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1.1 40-272 233 1-36, 278-504 37-39, 273-277 36 227 slipknot
missing residues 128-130
publication title Structural basis for action by diverse antidepressants on biogenic amine transporters.
pubmed doi rcsb
structure length 504
molecule tags Transport protein
source organism Aquifex aeolicus
sequence length 507
total genus Genus: 211
molecule keywords Transporter
ec nomenclature
pdb deposition date 2013-09-08
KnotProt deposition date 2014-08-19

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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KnotProt | Interdisciplinary Laboratory of Biological Systems Modelling