4MKKA

Crystal structure of c115a mutant l-methionine gamma-lyase from citrobacter freundii modified by allicine
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 The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.
Note, that the numbers in the matrix denote the consecutive residues in the loop, not the index of amino acids in the chain!
Knot K 2x +31 +31

  Help Knotting data interpretation Full screen
Knot core range Knot core length Knot tails range Slipknot tails range Slipknot loops range N-end length C-end length Type
+ 31 82-231 150 1-81, 232-300 81 69 knot
Fingerprint Knot forming loop Loop type
K +31
Chain closureSer2 <-> Thr397
... Asp342 <->
Bridging ionNa403
<-> Thr209 ... Val338 <->
Bridging ionK409
<-> Tyr113 ... Ser2		 probabilistic
K +31
Chain closureSer2 <-> Thr397
... Ser339 <->
Bridging ionNa403
<-> Thr209 ... Val338 <->
Bridging ionK409
<-> Tyr113 ... Ser2		 probabilistic
Chain Sequence
SD-RTYGFNTQIVHAGQQPDPSTGALSTPIFQTSTFVFDSAEQGAARFY--------TRLGNPTTDALEKKLAVLERGEAGLATASGISAITTTLLTLCQQGDHIVSASAIYGATHAFLSHSMPKFGINVSFVDAAKPEEIRAAMRPETKVVYIETPANPTLSLVDIETVAGIAHQQGALLVVDNTFMSPYCQQPLQLGADIVVHSVTYINGHGDVI-GGIIVGKQEFIDQARFVGLKDITGGMSPFNAWLTL-RGVKTLGIRMERHCENALKIARFLEGHPSITRVYYPGLSSHPQYELGQRQMSLPGGIISFEIAGGLEAGRRMINSVELCLLAVSLGDTETLIQHPASMTHSPVAPEERLKAGITDGLIRLSVGLEDPEDIINDLEHAIRKAT
Whole chain analysis

  Help Knotoid data interpretation Full screen
Subchain analysis 

Knotoid cutoff: 0.5


Knotoid matrix content: 1


  Help Knotoid subchains data interpretation Full screen
Knot core range Knot core length Knot tails range Slipknot tails range Slipknot loops range N-end length C-end length Type
sequence length 396
structure length 385
publication title Alliin is a suicide substrate of Citrobacter freundii methionine gamma-lyase: structural bases of inactivation of the enzyme.
pubmed doi rcsb
molecule tags Lyase
molecule keywords Methionine gamma-lyase
source organism Citrobacter freundii
missing residues 3, 49-56, 209, 244
total genus Genus: 128
ec nomenclature ec 4.4.1.11: Methionine gamma-lyase.
pdb deposition date 2013-09-05
KnotProt deposition date 2018-09-27

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF01053 Cys_Met_Meta_PP Cys/Met metabolism PLP-dependent enzyme
Image from the rcsb pdb (www.rcsb.org)
...loading similar chains, please wait...
similar chains in the KnotProt database (?% sequence similarity)
...loading similar chains, please wait...
similar chains in the pdb database (?% sequence similarity)

  
#similar chains in the KnotProt database (?% sequence similarity)
...loading similar chains, please wait...
#similar chains, but unknotted
...loading similar chains, please wait...
#similar chains in the pdb database (?% sequence similarity)
...loading similar chains, please wait...
How to cite
KnotProt | Interdisciplinary Laboratory of Biological Systems Modelling