1VTKA

Thymidine kinase from herpes simplex virus type 1 in complex with adp and deoxythymidine-monophosphate
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 The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.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 7-116 110 1-6 152-313 117-151 6 162 slipknot
view details
2.1 8-153 146 1-7 183-313 154-182 7 131 slipknot
view details
3.1 7-182 176 1-6 200-313 183-199 6 114 slipknot
view details
2.1 8-189 182 1-7 264-313 190-263 7 50 slipknot
view details
3.1 8-263 256 1-7 274-313 264-273 7 40 slipknot
view details
2.1 9-192 184 1-7, 260-313 8-8, 193-259 7 54 slipknot
view details
2.1 9-265 257 1-7, 274-313 8-8, 266-273 7 40 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: 119
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 1vtkA00
1OF1A 1QHIA 3VTKA 1II9A 1E2LA 3RDPA 1P6XA 1E2JA 1E2IA 1KIMA 4IVQA 1GKUB 4IVPA 1KI7A 1KI2A 1E2NA 2VTKA 4JBXA 1P75A 1KI6A 1E2KA 1E2PA 1OSNA 1F48A 1P7CA 3F0TA 2KI5A 1E2MA 1KI6B 4IVRA 1P72A 4JBYA 1KI3A 1VTKA 1E2HA 1KI8A 1P73A 1KI4A
chains in the KnotProt database with same CATH superfamily
3L06A 1OF1A 3L02A 1QHIA 3M4JA 3FSGA 3FR8A 1JS1X 1YH1A 3VTKA 1II9A 1E2LA 3RDPA 3L04A 1P6XA 1E2JA 1E2IA 2XTJA 1KIMA 4IVQA 3M4NA 1GKUB 1QMGA 4IVPA 1KI7A 1KI2A 3L05A 1YVEI 2FG6C 1E2NA 2VTKA 4JBXA 1P75A 1KI6A 1E2KA 3M5CA 3M5DA 3FR7A 1E2PA 1OSNA 1YRLA 3KZCA 1F48A 1P7CA 1R4MB 1R4NB 1DBIA 3F0TA 3KZMA 2KI5A 3KZKA 1E2MA 1KI6B 4IVRA 1P72A 2G7MC 4JBYA 1KI3A 1LNSA 1VTKA 3KZOA 1E2HA 1KI8A 3KZNA 1P73A 1KI4A
chains in the KnotProt database with same CATH topology
1OF1A 1QHIA 3VTKA 1II9A 1E2LA 3RDPA 1P6XA 1E2JA 1E2IA 1KIMA 4IVQA 1GKUB 4IVPA 1KI7A 1KI2A 1E2NA 2VTKA 4JBXA 1P75A 1KI6A 1E2KA 1E2PA 1OSNA 1F48A 1P7CA 3F0TA 2KI5A 1E2MA 1KI6B 4IVRA 1P72A 4JBYA 1KI3A 1VTKA 1E2HA 1KI8A 1P73A 1KI4A
chains in the KnotProt database with same CATH homology


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