1P7CA

Crystal structure of hsv1-tk complexed with tp5a
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 The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.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 6-117 112 1-5 307-327 118-306 5 21 slipknot
Chain Sequence
KMPTLLRVYIDGPHGMGKTTTTQLLVAL----DIVYVPEPRVLG----ASETIANIYTTQHRLDQGEISAGDAAVVMTSAQITMGMPYAVTDAVLAPHIGGEAGPPPALTLI----FDRHPIAALLCYPAARYLMGSMTPQAVLAFVALIPPTLPGTNIVLGALPEDRHIDRLAKRQRPGERLDLAMLAAIRRVYGLLANTVRYLQCGGSWREDWGQLSGGPRPHIGDTLFT--------------LFRAPELLAPNGDLYNVFAWALDVLAKRLRSMHVFILDYDQSPAGCRDALLQLTSGMVQTHVTTPGSIPTICDLARTFARE
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 6-111 106 1-5 143-301 112-142 5 159 slipknot
view details
3.1 8-181 174 1-7 275-301 182-274 7 27 slipknot
view details
3.1 8-145 138 1-2, 181-301 3-7, 146-180 2 121 slipknot
view details
2.1 9-182 174 1-7, 270-301 8-8, 183-269 7 32 slipknot
view details
2.1 9-156 148 1-7, 179-301 8-8, 157-178 7 123 slipknot
view details
2.1 10-194 185 1-8, 268-301 9-9, 195-267 8 34 slipknot
sequence length 327
structure length 301
publication title Structural basis for the dual thymidine and thymidylate kinase activity of herpes thymidine kinases.
pubmed doi rcsb
molecule tags Transferase
molecule keywords Thymidine kinase
source organism Herpes simplex virus (type 1 / strain 17)
missing residues 29-32, 41-44, 105-108, 221-234
total genus Genus: 99
ec nomenclature ec 2.7.1.21: Thymidine kinase.
pdb deposition date 2003-05-01
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 1p7cA00
1KI4A 1KI3A 1E2IA 1E2HA 1P6XA 1KI7A 1E2NA 1E2PA 1E2KA 1P75A 1VTKA 1E2MA 1KI8A 3F0TA 1KI2A 3VTKA 1KI6B 1F48A 1II9A 1QHIA 1E2LA 4IVPA 1P72A 2KI5A 1GKUB 1OF1A 1KI6A 4IVQA 1P7CA 4JBXA 1E2JA 4IVRA 1P73A 2VTKA 1KIMA 4JBYA 3RDPA 1OSNA
chains in the KnotProt database with same CATH superfamily
3FSGA 1LNSA 3M5CA 1KI4A 1KI3A 1R4NB 1E2IA 1E2HA 1P6XA 1YVEI 1KI7A 3KZNA 1E2NA 3L06A 2G7MC 1E2PA 1E2KA 2FG6C 3KZOA 3L05A 3FR8A 3KZCA 3KZMA 1P75A 1VTKA 2XTJA 1E2MA 3FR7A 1JS1X 1KI8A 3F0TA 1DBIA 3M4NA 3KZKA 1KI2A 3VTKA 3L04A 1KI6B 1F48A 1II9A 1QHIA 1E2LA 4IVPA 1R4MB 1QMGA 1P72A 2KI5A 1GKUB 1YRLA 3M4JA 1OF1A 1YH1A 1KI6A 4IVQA 1P7CA 3M5DA 1E2JA 4JBXA 4IVRA 1P73A 2VTKA 1KIMA 4JBYA 3L02A 3RDPA 1OSNA
chains in the KnotProt database with same CATH topology
1KI4A 1KI3A 1E2IA 1E2HA 1P6XA 1KI7A 1E2NA 1E2PA 1E2KA 1P75A 1VTKA 1E2MA 1KI8A 3F0TA 1KI2A 3VTKA 1KI6B 1F48A 1II9A 1QHIA 1E2LA 4IVPA 1P72A 2KI5A 1GKUB 1OF1A 1KI6A 4IVQA 1P7CA 4JBXA 1E2JA 4IVRA 1P73A 2VTKA 1KIMA 4JBYA 3RDPA 1OSNA
chains in the KnotProt database with same CATH homology


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

 
#similar chains in the KnotProt database (?% sequence similarity)
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#similar chains, but unknotted
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