2VTKA

Thymidine kinase from herpes simplex virus type 1 in complex with adp and deoxythymidine
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 The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.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 1-4 304-331 118-303 4 28 slipknot
Chain Sequence
MPTLLRVYIDGPHGMGKTTTTQLLVALGSRDDIVYVPEPMTYWRVLGASETIANIYTTQHRLDQGEISAGDAAVVMTSAQITMGMPYAVTDAVLAPHIGGEAGS---PPPALTLIFDRHPIAALLCYPAARYLMGSMTPQAVLAFVALIPPTLPGTNIVLGALPEDRHIDRLAKRQRPGERLDLAMLAAIRRVYGLLANTVRYLQCGGSWREDWGQLSGPRP---------------HIGDTLFTLFRAPELLAPNGDLYNVFAWALDVLAKRLRSMHVFILDYDQSPAGCRDALLQLTSGMVQTHVTTPGSIPTICDLARTFAREMGEAN
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
2.1 8-115 108 1-7 155-313 116-154 7 159 slipknot
view details
2.1 8-156 149 1-7 185-313 157-184 7 129 slipknot
view details
2.1 8-185 178 1-7 254-313 186-253 7 60 slipknot
view details
3.1 7-254 248 1-6 285-313 255-284 6 29 slipknot
view details
2.1 9-196 188 1-7, 254-313 8-8, 197-253 7 60 slipknot
sequence length 331
structure length 313
publication title The structures of thymidine kinase from herpes simplex virus type 1 in complex with substrates and a substrate analogue.
pubmed rcsb
molecule tags Transferase
molecule keywords THYMIDINE KINASE
source organism Herpes simplex virus (type 1 / strain f)
missing residues 105-107, 220-234
total genus Genus: 114
ec nomenclature ec 2.7.1.21: Thymidine kinase.
pdb deposition date 1997-04-01
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 2vtkA00
2VTKA 1QHIA 1KI7A 1E2LA 1VTKA 1P7CA 3F0TA 1E2IA 4IVQA 1KI2A 1GKUB 4JBXA 4JBYA 1KIMA 1KI6A 1E2PA 1E2JA 1KI8A 1P6XA 1P73A 1E2NA 1E2MA 3RDPA 1P72A 1E2HA 1II9A 1KI3A 2KI5A 1KI4A 1KI6B 4IVPA 1OF1A 1F48A 3VTKA 1P75A 4IVRA 1E2KA 1OSNA
chains in the KnotProt database with same CATH superfamily
3L06A 3M5DA 2VTKA 3KZNA 1QHIA 1YVEI 1KI7A 1E2LA 1VTKA 2G7MC 1YRLA 1P7CA 3L02A 3F0TA 1E2IA 3M4JA 4IVQA 1KI2A 1GKUB 4JBXA 4JBYA 1KIMA 1KI6A 3KZKA 1E2PA 1E2JA 3M4NA 3KZMA 3FR8A 1QMGA 2FG6C 3FSGA 3FR7A 1YH1A 1KI8A 1P6XA 1P73A 1R4MB 1E2NA 1E2MA 3RDPA 1P72A 2XTJA 3L05A 1E2HA 1II9A 1R4NB 1JS1X 1KI3A 2KI5A 3KZCA 1KI4A 3M5CA 4IVPA 1OF1A 1F48A 1LNSA 1P75A 3VTKA 4IVRA 3KZOA 1KI6B 1E2KA 1OSNA 1DBIA 3L04A
chains in the KnotProt database with same CATH topology
2VTKA 1QHIA 1KI7A 1E2LA 1VTKA 1P7CA 3F0TA 1E2IA 4IVQA 1KI2A 1GKUB 4JBXA 4JBYA 1KIMA 1KI6A 1E2PA 1E2JA 1KI8A 1P6XA 1P73A 1E2NA 1E2MA 3RDPA 1P72A 1E2HA 1II9A 1KI3A 2KI5A 1KI4A 1KI6B 4IVPA 1OF1A 1F48A 3VTKA 1P75A 4IVRA 1E2KA 1OSNA
chains in the KnotProt database with same CATH homology


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