2KI5A

Herpes simplex type-1 thymidine kinase in complex with the drug aciclovir at 1.9a resolution
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 The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.
Slipknot S +31
Knot core range Knot core length Knot tails range Slipknot tails range Slipknot loops range N-end length C-end length Type
view details
+31 5-117 113 1-4 306-329 118-305 4 24 slipknot
Chain Sequence
MPTLLRVYIDGPHGMGKTTTTQLL-------DIVYVPEPMTYWRVLGASETIANIYTTQHRLDQGEISAGDAAVVMTSAQITMGMPYAVTDAVLAPHIGGEAPPALTLI------FDRHPIAALLCYPAARYLMGSMTPQAVLAFVALIPPTLPGTNIVLGALPEDRHIDRLAKRQRPGERLDLAMLAAIRRVYGLLANTVRYLQCGGSWREDWGQLSPRPHIGDTLFTLF----------------RAPELLAPNGDLYNVFAWALDVLAKRLRSMHVFILDYDQSPAGCRDALLQLTSGMVQTHVTTPGSIPTICDLARTFAREMGE
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
view details
3.1 7-107 101 1-6 143-300 108-142 6 158 slipknot
view details
3.1 7-144 138 1-6 255-300 145-254 6 46 slipknot
view details
3.1 7-255 249 1-6 276-300 256-275 6 25 slipknot
view details
2.1 8-150 143 1-6, 249-300 7-7, 151-248 6 52 slipknot
view details
2.1 9-255 247 1-6, 271-300 7-8, 256-270 6 30 slipknot
sequence length 329
structure length 300
publication title Structure to 1.9 A resolution of a complex with herpes simplex virus type-1 thymidine kinase of a novel, non-substrate inhibitor: X-ray crystallographic comparison with binding of aciclovir.
pubmed doi rcsb
molecule tags Transferase
molecule keywords PROTEIN (THYMIDINE KINASE)
source organism Human herpesvirus 1
missing residues 25-31, 103-108, 219-234
total genus Genus: 105
ec nomenclature ec 2.7.1.21: Thymidine kinase.
pdb deposition date 1999-02-12
KnotProt deposition date 2014-07-31

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF00693 Herpes_TK Thymidine kinase from herpesvirus
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.40.50.300 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold P-loop containing nucleotide triphosphate hydrolases 2ki5A00
1QHIA 2VTKA 3RDPA 1P7CA 1KI8A 4JBXA 1E2PA 1E2NA 1P75A 4IVQA 1KI7A 1OSNA 1II9A 1E2LA 2KI5A 4JBYA 1KI2A 1KI4A 1KI6A 1KI6B 1OF1A 1E2JA 1KI3A 1P73A 1E2KA 1GKUB 1E2IA 1P6XA 1KIMA 4IVRA 3F0TA 1E2MA 4IVPA 1VTKA 3VTKA 1P72A 1F48A 1E2HA
chains in the KnotProt database with same CATH superfamily
3KZNA 1R4NB 3FR7A 1QHIA 2VTKA 3RDPA 1P7CA 3KZOA 3L06A 1R4MB 1KI8A 1JS1X 4JBXA 3M4JA 1E2PA 1E2NA 3KZKA 3L04A 1DBIA 1P75A 3M5DA 4IVQA 1KI7A 1OSNA 2XTJA 3M4NA 2FG7C 3FR8A 1II9A 3KZCA 1E2LA 3M5CA 2KI5A 3FSGA 4JBYA 1KI2A 1KI4A 2FG6C 1KI6A 3KZMA 2FG7X 1KI6B 2G7MC 1YVEI 1YRLA 1OF1A 1E2JA 1KI3A 1QMGA 1P73A 1E2KA 1GKUB 1E2IA 1LNSA 1P6XA 3L02A 1KIMA 4IVRA 3F0TA 1E2MA 1YH1A 1VTKA 3L05A 4IVPA 3VTKA 1P72A 1F48A 1E2HA
chains in the KnotProt database with same CATH topology
1QHIA 2VTKA 3RDPA 1P7CA 1KI8A 4JBXA 1E2PA 1E2NA 1P75A 4IVQA 1KI7A 1OSNA 1II9A 1E2LA 2KI5A 4JBYA 1KI2A 1KI4A 1KI6A 1KI6B 1OF1A 1E2JA 1KI3A 1P73A 1E2KA 1GKUB 1E2IA 1P6XA 1KIMA 4IVRA 3F0TA 1E2MA 4IVPA 1VTKA 3VTKA 1P72A 1F48A 1E2HA
chains in the KnotProt database with same CATH homology


 
#chains in the KnotProt database with same CATH superfamily
 1QHI A;  2VTK A;  3RDP A;  1P7C A;  1KI8 A;  4JBX A;  1E2P A;  1E2N A;  1P75 A;  4IVQ A;  1KI7 A;  1OSN A;  1II9 A;  1E2L A;  2KI5 A;  4JBY A;  1KI2 A;  1KI4 A;  1KI6 A;  1KI6 B;  1OF1 A;  1E2J A;  1KI3 A;  1P73 A;  1E2K A;  1GKU B;  1E2I A;  1P6X A;  1KIM A;  4IVR A;  3F0T A;  1E2M A;  4IVP A;  1VTK A;  3VTK A;  1P72 A;  1F48 A;  1E2H A; 
#chains in the KnotProt database with same CATH topology
 3KZN A;  1R4N B;  3FR7 A;  1QHI A;  2VTK A;  3RDP A;  1P7C A;  3KZO A;  3L06 A;  1R4M B;  1KI8 A;  1JS1 X;  4JBX A;  3M4J A;  1E2P A;  1E2N A;  3KZK A;  3L04 A;  1DBI A;  1P75 A;  3M5D A;  4IVQ A;  1KI7 A;  1OSN A;  2XTJ A;  3M4N A;  2FG7 C;  3FR8 A;  1II9 A;  3KZC A;  1E2L A;  3M5C A;  2KI5 A;  3FSG A;  4JBY A;  1KI2 A;  1KI4 A;  2FG6 C;  1KI6 A;  3KZM A;  2FG7 X;  1KI6 B;  2G7M C;  1YVE I;  1YRL A;  1OF1 A;  1E2J A;  1KI3 A;  1QMG A;  1P73 A;  1E2K A;  1GKU B;  1E2I A;  1LNS A;  1P6X A;  3L02 A;  1KIM A;  4IVR A;  3F0T A;  1E2M A;  1YH1 A;  1VTK A;  3L05 A;  4IVP A;  3VTK A;  1P72 A;  1F48 A;  1E2H A; 
#chains in the KnotProt database with same CATH homology
 1QHI A;  2VTK A;  3RDP A;  1P7C A;  1KI8 A;  4JBX A;  1E2P A;  1E2N A;  1P75 A;  4IVQ A;  1KI7 A;  1OSN A;  1II9 A;  1E2L A;  2KI5 A;  4JBY A;  1KI2 A;  1KI4 A;  1KI6 A;  1KI6 B;  1OF1 A;  1E2J A;  1KI3 A;  1P73 A;  1E2K A;  1GKU B;  1E2I A;  1P6X A;  1KIM A;  4IVR A;  3F0T A;  1E2M A;  4IVP A;  1VTK A;  3VTK A;  1P72 A;  1F48 A;  1E2H 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)

 
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