3VTKA

Thymidine kinase from herpes simplex virus type 1 in complex with adp and 5-iodo-deoxyuridine-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 The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.
Genus: 97
Slipknot S +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 5-118 114 1-4 305-331 119-304 4 27 slipknot
Chain Sequence
MPTLLRVYIDGPHGMGKTTTTQLLVALGSRDDIVYVPEPMTYWRVLGASETIANIYTTQHRLDQGEISAGDAAVVMTSAQITMGMPYAVTDAVLAPHIGGEAGS---PPPALTLIFDRHPIAALLCYPAARYLMGSMTPQAVLAFVALIPPTLPGTNIVLGALPEDRHIDRLAKRQRPGERLDLAMLAAIRRVYGLLANTVRYLQCGGSWREDWGQLSGPRP---------------HIGDTLFTLFRAPELLAPNGDLYNVFAWALDVLAKRLRSMHVFILDYDQSPAGCRDALLQLTSGMVQTHVTTPGSIPTICDLARTFAREMGEAN
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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3.1 7-116 110 1-6 152-313 117-151 6 162 slipknot
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3.1 4-157 154 1-3 186-313 158-185 3 128 slipknot
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2.1 8-158 151 1-7 262-313 159-261 7 52 slipknot
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3.1 4-261 258 1-3 271-313 262-270 3 43 slipknot
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3.1 6-262 257 1-5 283-313 263-282 5 31 slipknot
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2.1 9-162 154 1-7, 252-313 8-8, 163-251 7 62 slipknot
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2.1 8-263 256 1-5, 283-313 6-7, 264-282 5 31 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: 97
ec nomenclature ec 2.7.1.21: Thymidine kinase.
pdb deposition date 1997-04-01
KnotProt deposition date 2014-07-31
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 3vtkA00
1E2MA 1F48A 1KI3A 3VTKA 1E2KA 1GKUB 4JBXA 1KI6A 1OSNA 3RDPA 1E2PA 1E2LA 1KIMA 4IVQA 3F0TA 4IVRA 1P73A 2VTKA 1II9A 1VTKA 1P72A 1KI6B 1E2HA 1P7CA 1P6XA 4IVPA 1E2IA 1QHIA 2KI5A 4JBYA 1E2NA 1KI8A 1KI7A 1E2JA 1P75A 1OF1A 1KI2A 1KI4A
chains in the KnotProt database with same CATH superfamily
1E2MA 1F48A 1KI3A 1YH1A 3KZOA 1E2KA 3VTKA 3FR7A 1GKUB 1LNSA 4JBXA 3L04A 1JS1X 3L05A 1KI6A 1OSNA 3RDPA 1E2PA 1R4NB 1E2LA 1KIMA 4IVQA 2FG6C 3F0TA 4IVRA 1P73A 2VTKA 3KZCA 1II9A 1VTKA 3M4JA 1DBIA 2XTJA 1R4MB 1YVEI 1P72A 3M5CA 1QMGA 1KI6B 1E2HA 1P7CA 2G7MC 3KZMA 3L06A 3L02A 1P6XA 4IVPA 1E2IA 1QHIA 2KI5A 3KZNA 1YRLA 1E2NA 3FSGA 3KZKA 4JBYA 1KI8A 3FR8A 3M4NA 1KI7A 3M5DA 1E2JA 1P75A 1OF1A 1KI2A 1KI4A
chains in the KnotProt database with same CATH topology
1E2MA 1F48A 1KI3A 3VTKA 1E2KA 1GKUB 4JBXA 1KI6A 1OSNA 3RDPA 1E2PA 1E2LA 1KIMA 4IVQA 3F0TA 4IVRA 1P73A 2VTKA 1II9A 1VTKA 1P72A 1KI6B 1E2HA 1P7CA 1P6XA 4IVPA 1E2IA 1QHIA 2KI5A 4JBYA 1E2NA 1KI8A 1KI7A 1E2JA 1P75A 1OF1A 1KI2A 1KI4A
chains in the KnotProt database with same CATH homology

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

  
#similar chains in the KnotProt database (?% sequence similarity)
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#similar chains, but unknotted
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How to cite
KnotProt | Interdisciplinary Laboratory of Biological Systems Modelling