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 The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.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
1P6XA 1KI4A 4IVRA 4JBXA 1KI8A 1E2KA 1QHIA 3VTKA 1OF1A 1E2JA 1KIMA 1E2PA 1VTKA 1II9A 1E2HA 1P72A 1E2NA 2KI5A 3F0TA 1KI7A 2VTKA 4IVPA 1KI6B 1E2LA 1OSNA 1P75A 1KI3A 3RDPA 1E2IA 1KI6A 1P73A 1F48A 1GKUB 1P7CA 1E2MA 4IVQA 1KI2A 4JBYA
chains in the KnotProt database with same CATH superfamily
1P6XA 1KI4A 4IVRA 3KZOA 4JBXA 3FSGA 1KI8A 1E2KA 1QHIA 3L05A 3L06A 3M4JA 3L02A 2G7MC 1OF1A 2XTJA 3VTKA 1YVEI 1E2JA 2FG6C 3KZKA 1KIMA 1E2PA 1VTKA 3M5DA 1LNSA 1II9A 1JS1X 1E2HA 1P72A 1R4NB 1E2NA 3M4NA 3M5CA 2KI5A 1YH1A 1KI7A 2VTKA 3F0TA 4IVPA 1KI6B 1E2LA 3KZNA 1OSNA 3KZCA 1P75A 1YRLA 1KI3A 3FR8A 1DBIA 3RDPA 1E2IA 3L04A 1KI6A 1P73A 1R4MB 3FR7A 1QMGA 1F48A 1GKUB 3KZMA 1P7CA 1E2MA 4IVQA 1KI2A 4JBYA
chains in the KnotProt database with same CATH topology
1P6XA 1KI4A 4IVRA 4JBXA 1KI8A 1E2KA 1QHIA 3VTKA 1OF1A 1E2JA 1KIMA 1E2PA 1VTKA 1II9A 1E2HA 1P72A 1E2NA 2KI5A 3F0TA 1KI7A 2VTKA 4IVPA 1KI6B 1E2LA 1OSNA 1P75A 1KI3A 3RDPA 1E2IA 1KI6A 1P73A 1F48A 1GKUB 1P7CA 1E2MA 4IVQA 1KI2A 4JBYA
chains in the KnotProt database with same CATH homology


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