3NCYA

X-ray crystal structure of an arginine agmatine antiporter (adic) in complex with a 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 The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.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 The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.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 30-203 174 204-432 1-16 17-29 16 228 slipknot
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41 10-240 231 1-9 279-432 241-278 9 154 slipknot
Chain Sequence
VGLIPVTLMVSGNIMGSGVFLLPANLAATGGIAIYGWLVTIIGALALSMVYAKMSSLDPSPGGSYAYARRCFGPFLGYQTNVLYWLACWIGNIAMVVIGVGYLSYFFPILKDPLVLTLTCVAVLWIFVLLNIVGPKMITRVQAVATVLALVPIVGIAVFGWFWFKGE-----WNVSGMNTFGAIQSTLNVTLWSFIGVESASVAAGVVKNPKRNVPIATIGGVLIAAVCYVLSTTAIMGMIPNAALRVSASPFGDAARMALGDTAGAIVSFCAAAGCLGSLGGWTLLAGQTAKAAADDGLFPPIFARTPVAG-----LLIVGVLMTIFQFSSMSPNAAKEFGLVSSVSVIFTLVPYLYTCAALLLLGHGHFGKARPLYLLITFVAFVYCIWAVIGSGAKEVMWSFVTLMVITALYALNYNRIHKNPYPLDAP
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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4.1 3-247 245 1-2 252-422 248-251 2 171 slipknot
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4.1 15-255 241 1-14 272-422 256-271 14 151 slipknot
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1.1 13-228 216 1-8, 238-422 9-12, 229-237 8 185 slipknot
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1.1 24-217 194 1-10, 231-422 11-23, 218-230 10 192 slipknot
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2.1 35-277 243 1-10, 338-422 11-34, 278-337 10 85 slipknot
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2.1 35-342 308 343-422 1-10 11-34 10 79 slipknot
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2.1 35-193 159 1-11, 211-422 12-34, 194-210 11 212 slipknot
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2.1 35-210 176 1-11, 218-422 12-34, 211-217 11 205 slipknot
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2.1 35-217 183 1-22, 235-422 23-34, 218-234 22 188 slipknot
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1.1 36-221 186 1-34, 235-422 35-35, 222-234 34 188 slipknot
missing residues 168-172, 308-312
publication title Structure of a prokaryotic virtual proton pump at 3.2 A resolution.
pubmed doi rcsb
structure length 422
molecule tags Transport protein
source organism Salmonella enterica subsp. enterica serovar typhimurium
sequence length 432
total genus Genus: 121
molecule keywords AdiC
ec nomenclature
pdb deposition date 2010-06-06
KnotProt deposition date 2014-07-31

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A 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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