6AC6A

Ab initio crystal structure of selenomethionine labelled mycobacterium smegmatis mfd
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 The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.
Genus: 305
Knot K +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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+31 495-984 490 1-494, 985-1198 494 214 knot
Chain Sequence
VQTPIAGLVELALSDPSLQDVIRRAADRPADLALVGPASARVLVAAALAQNGPLLVVAATGREADELTAELRGVFGDSVALFPSWETLPHERLSPGVETVGARLMLLRRLARPDDETLGAPLRVVVTTTRSLLQPMAPDLVDIEPVTLSVGAEMEFEDVVARLVDLSYTRVDMVGKRGEFAVRGGILDVFPPTAEHPVRVEFWGDEISEMRAFAIADQRSIPEVPVQTVVAVPCRELLMTDDVRERAAALAAEHP-----VPGTVPDMLAKLAEGIPVDGMEALLPLLHPIEPTTLTRHLPEGAPVLVCDPEKVRTRAADLIKTGREFLEASWSTAAVGIDLEA----LGASGFVTFEEAREAAREGGHPWWTLSQLSDESAVELDIRSAPSARGSQHNLEEIFAMLRAHVATGGYAAVVTPGIGTAHRVVEQLGEADTAATILEPGTAPKAGVVGVLKGPLCSGVVLPGANLVIITETDLTGNRVPLALTAGDL-----------------VVHDQHGIGKFVEMTERVVGGARREYLVLEYAGTDKLYVPMDSLDQLSRYVGGEAPSL------SRLGGSDWANTKTKARRAVREIASELVALYAKRQSAPGHAFGPDTPWQAEMEDAFGFTETIDQLTAIQEVKSDMEKPVPMDRVICGDVGYGKTEIAVRAAFKAVQDGKQVAVLVPTTLLADQHLQTFTNRMAGFPVTVKGLSRFTDPAESRAVIEGLKDGSVDVVIGTHRLLQTGVTWKDLGLIIVDEEQRFGVEHKEHIKSMRTHVDVLTMSATPIPRTLEMSLAGIREMSTILTPPEERYPVLTYVGPHDDKQVAAALRRELLRDGQAFYIHNRVRTIDEAAARVRQLVPEARVVVAHGQMNEETLEKTVEGFWNREYDILVCTTIVETGLDISNANTLIVERADTFGLSQLHQLRGRVGRSRERGYAYFLYPPNKPLTETAYDRLATIAQNAGMAVAMKDLEIRGAGNVLGAEQSGHVAGVGF----DLYVRLVGEAVEAYRAAADGKKDVRIDLPVDAHLPPEYIGSDRLRLEAYRRLAAAAD--------DDAVASVVDELIDRYGPLPEPAQRLVAVARLRLLCREFGITEIGAVSASTVRLSPMVLPDSAQLRLKRMYPGGHYRATTSTVQVPLPRAGEGVGAPRIRDLELVQWVAGLVLVLNGKGQGDVDMSKF
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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3.1 487-1059 573 1-486, 1060-1198 486 139 knot
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3.1 487-1013 527 1-486 1060-1198 1014-1059 486 139 slipknot
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2.1 487-978 492 1-96, 1014-1198 97-486, 979-1013 96 185 slipknot
sequence length 1198
structure length 1154
publication title Structural basis for nucleotide-mediated remodelling mechanism of Mycobacterium Mfd
rcsb
molecule tags Hydrolase
molecule keywords Mycobacterium smegmatis Mfd
source organism Mycobacterium smegmatis mc2 155
missing residues 256-260, 340-343, 487-503, 545-550, 971-974, 1028-1035
total genus Genus: 305
ec nomenclature ec 3.6.4.-: Alcohol dehydrogenase.
pdb deposition date 2018-07-25
KnotProt deposition date 2019-09-16

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF00270 DEAD DEAD/DEAH box helicase
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