3IMLA

Crystal structure of s-adenosylmethionine synthetase from burkholderia pseudomallei
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 The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.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: 128
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 14-269 256 1-13, 270-389 13 120 knot
Chain Sequence
SMANDYLFTSESVSEGHPDKVADQISDAILDAILAQDKYSRVAAETLCNTGLVVLAGEITTTANIDYIQIARDTIKRIGYD---------GCAVLVAYDKQSPNLDQGAGDQ------------GLMFGYACDETPELMPLPIHLSHRLVERQANLRRDGRLPWLRPDAKSQVTVRYVDGKPHSIDTVVLSTQHAPEIDLPALREAVIEEVIKPTLPADLIKGDIKFLVNPTGRFVIGGPQGDCGLTGRKIIVDTYGGAAPHGGGAFSGKDPSKVDRSAAYAGRYVAKNIVAAGLASRALIQVSYAIGVAEPTSVMVNTFGTGRVSDETITKLVREHFDLRPKGIIQMLDLLRPIYEKTAAYGHFGREEPEFSWEAADKALALAEAAGV
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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2.1 11-225 215 1-10 237-368 226-236 10 132 slipknot
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2.1 11-332 322 1-10 348-368 333-347 10 21 slipknot
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2.1 24-259 236 1-7, 322-368 8-23, 260-321 7 47 slipknot
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2.1 24-321 298 1-7, 329-368 8-23, 322-328 7 40 slipknot
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2.1 22-352 331 353-368 1-7 8-21 7 15 slipknot
sequence length 389
structure length 368
publication title Combining functional and structural genomics to sample the essential Burkholderia structome.
pubmed doi rcsb
molecule tags Transferase
molecule keywords S-adenosylmethionine synthetase
source organism Burkholderia pseudomallei
missing residues 82-90, 104-115
total genus Genus: 128
ec nomenclature ec 2.5.1.6: Methionine adenosyltransferase.
pdb deposition date 2009-08-10
KnotProt deposition date 2014-07-31

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF00438 S-AdoMet_synt_N S-adenosylmethionine synthetase, N-terminal domain
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.30.300.10 Alpha Beta 2-Layer Sandwich GMP Synthetase; Chain A, domain 3 GMP Synthetase; Chain A, domain 3 3imlA03
3.30.300.10 Alpha Beta 2-Layer Sandwich GMP Synthetase; Chain A, domain 3 GMP Synthetase; Chain A, domain 3 3imlA01
3.30.300.10 Alpha Beta 2-Layer Sandwich GMP Synthetase; Chain A, domain 3 GMP Synthetase; Chain A, domain 3 3imlA02
1QM4A 1O90A 1O92A 1XRBA 1XRCA 2OBVA 1FUGA 1MXCA 1XRAA 2P02A 1RG9A 1O9TA 3IMLA 1MXBA 1MXAA 1P7LA 1O93A
chains in the KnotProt database with same CATH superfamily
1QM4A 1O90A 1O92A 1XRBA 1XRCA 2OBVA 1FUGA 1MXCA 1XRAA 2P02A 1RG9A 1O9TA 3IMLA 1MXBA 1MXAA 1P7LA 1O93A
chains in the KnotProt database with same CATH topology
1QM4A 1O90A 1O92A 1XRBA 1XRCA 2OBVA 1FUGA 1MXCA 1XRAA 2P02A 1RG9A 1O9TA 3IMLA 1MXBA 1MXAA 1P7LA 1O93A
chains in the KnotProt database with same CATH homology

  
#chains in the KnotProt database with same CATH superfamily
 1QM4 A;  1O90 A;  1O92 A;  1XRB A;  1XRC A;  2OBV A;  1FUG A;  1MXC A;  1XRA A;  2P02 A;  1RG9 A;  1O9T A;  3IML A;  1MXB A;  1MXA A;  1P7L A;  1O93 A; 
#chains in the KnotProt database with same CATH topology
 1QM4 A;  1O90 A;  1O92 A;  1XRB A;  1XRC A;  2OBV A;  1FUG A;  1MXC A;  1XRA A;  2P02 A;  1RG9 A;  1O9T A;  3IML A;  1MXB A;  1MXA A;  1P7L A;  1O93 A; 
#chains in the KnotProt database with same CATH homology
 1QM4 A;  1O90 A;  1O92 A;  1XRB A;  1XRC A;  2OBV A;  1FUG A;  1MXC A;  1XRA A;  2P02 A;  1RG9 A;  1O9T A;  3IML A;  1MXB A;  1MXA A;  1P7L A;  1O93 A;
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similar chains in the KnotProt database (?% sequence similarity)
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similar chains in the pdb database (?% sequence similarity)

  
#similar chains in the KnotProt database (?% sequence similarity)
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#similar chains, but unknotted
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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