3GI9C

Crystal structure of apct transporter bound to 7f11 monoclonal fab fragment
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 The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.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 The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.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 40-209 170 210-438 1-22 23-39 22 228 slipknot
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41 16-242 227 1-15 287-438 243-286 15 152 slipknot
Chain Sequence
MELKNKKLSLWEAVSMAVGVMIGASIFSIFGVGAKIAGRNLPETFILSGIYALLVAYSYTKLGAKIVSNAGPIAFIHKAIGDNIITGALSILLWMSYVISIALFAKGFAGYFLPLI-APINTFNIAITEIGIVAFFTALNFFGSKAVGRAEFFIVLVKLLILGLFIFAGLITIHPSYVIPDLAPSAVSGMIFASAIFFLSYMGFGVITNASEHIENPKKNVPRAIFISILIVMFVYVGVAISAIGNLPIDELIKASENALAVAAKPFLGNLGFLLISIGALFSISSAMNATIYGGANVAYSLAKDGELPEFFERKVWFKSTEGLYITSALGVLFALLFNMEGVASITSAVFMVIYLFVILSHYILIDEVGGRKEIVIFSFIVVLGVFLLLLYYQWITNRFVFYGIIATFIGVLIFEIIYRKVTKRTFSNNMYVKSLES
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 14-235 222 1-13 249-437 236-248 13 189 slipknot
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4.1 16-247 232 1-15 255-437 248-254 15 183 slipknot
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3.2 8-255 248 1-7 264-437 256-263 7 174 slipknot
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4.1 10-263 254 1-9 275-437 264-274 9 163 slipknot
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4.1 15-268 254 1-14 284-437 269-283 14 154 slipknot
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4.1 16-265 250 1-9, 282-437 10-15, 266-281 9 156 slipknot
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3.2 16-283 268 1-3, 288-437 4-15, 284-287 3 150 slipknot
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3.2 25-260 236 1-8, 280-437 9-24, 261-279 8 158 slipknot
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3.2 25-279 255 1-15, 283-437 16-24, 280-282 15 155 slipknot
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2.1 46-288 243 1-17, 342-437 18-45, 289-341 17 96 slipknot
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2.1 45-350 306 1-18, 434-437 19-44, 351-433 18 4 slipknot
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2.1 36-201 166 1-19, 217-437 20-35, 202-216 19 221 slipknot
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1.1 28-226 199 1-19, 238-437 20-27, 227-237 19 200 slipknot
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2.1 34-217 184 1-23, 229-437 24-33, 218-228 23 209 slipknot
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2.1 45-225 181 1-28, 244-437 29-44, 226-243 28 194 slipknot
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2.1 45-243 199 1-28, 245-437 29-44, 244-244 28 193 slipknot
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2.1 46-225 180 1-44, 244-437 45-45, 226-243 44 194 slipknot
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2.1 46-207 162 1-36, 220-437 37-45, 208-219 36 218 slipknot
missing residues 117
publication title Structure and mechanism of a na+-independent amino Acid transporter.
pubmed doi rcsb
structure length 437
molecule tags Transport protein
source organism Mus musculus
sequence length 438
total genus Genus: 175
molecule keywords 7F11 Anti-ApcT Monoclonal Fab Light Chain
ec nomenclature
pdb deposition date 2009-03-05
KnotProt deposition date 2014-10-08

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
C PF13520 AA_permease_2 Amino acid permease
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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