4MMAA

Crystal structure of leubat (delta13 mutant) in complex with clomipramine
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 The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.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 The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.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 37-264 228 265-507 1-21 22-36 21 242 slipknot
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41 13-294 282 1-12 349-507 295-348 12 159 slipknot
Chain Sequence
REHWATRLGLILAMAGYAVDLGNFLRFPVQAAENGGGAFMIPYIIAFLLVGIPLMWIEWAMGRYGGAQGHGTTPAIFYLLWRNRFAKILGVFGLWIPLVVASYYVYIESWTLGFAIKFLVGLVPEPP---TDPDSILRPFKEFLYSYIGVPKGDEPILKPSLFAYIVFLITMFINVSILIRGISKGIERFAKIAMPTLFILAVFLVIRVFLLETPNGTAADGLNFLWTPDFEKLKDPGVWIAAVGQIFFSLGLGFGVLITFASYVRKDQDIVLSGLTAATLNEKASVILGGSISIPAAVAFFGVANAVAIAKAGAFNLGFITLPAIFSQTAGGTFLGFLWFFLLFFAGLTSSIAGMQGMIAFLEDELKLSRKHAVLWTAAIVFFSAHLVMFLNKSLDEMDFWATGIGVVFFGLTELIIFFWIFGADKAWEEINRGGIIKVPRIYYYVMRYITPAFLAVLLVVWAREYIPKIMEETHWTVWITRFYIIGLFLFLTFLVFLAERRRNHE
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 12-285 274 1-11 301-504 286-300 11 204 slipknot
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3.2 11-300 290 1-10 308-504 301-307 10 197 slipknot
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3.2 11-310 300 1-10 317-504 311-316 10 188 slipknot
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4.1 6-316 311 1-5 323-504 317-322 5 182 slipknot
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4.1 7-326 320 1-6 333-504 327-332 6 172 slipknot
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3.2 15-331 317 1-14 347-504 332-346 14 158 slipknot
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2.1 41-400 360 401-504 1-14 15-40 14 103 slipknot
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2.1 41-354 314 1-16, 401-504 17-40, 355-400 16 104 slipknot
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1.1 26-276 251 1-20, 283-504 21-25, 277-282 20 222 slipknot
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1.1 37-272 236 1-26, 283-504 27-36, 273-282 26 222 slipknot
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2.1 35-251 217 1-27, 262-504 28-34, 252-261 27 243 slipknot
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1.1 35-261 227 1-27, 269-504 28-34, 262-268 27 236 slipknot
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2.1 40-257 218 1-34, 269-504 35-39, 258-268 34 236 slipknot
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1.1 40-268 229 1-30, 274-504 31-39, 269-273 30 231 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: 194
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