1KI6A

Crystal structure of thymidine kinase from herpes simplex virus type i complexed with a 5-iodouracil anhydrohexitol nucleoside
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 The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.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 1-4 305-329 118-304 4 25 slipknot
Chain Sequence
MPTLLRVYIDGPHGMGKTTTTQLL-------DIVYVPEPMTYWRVLGASETIANIYTTQHRLDQGEISAGDAAVVMTSAQITMGMPYAVTDAVLAPHIGGEAPPALTLI------FDRHPIAALLCYPAARYLMGSMTPQAVLAFVALIPPTLPGTNIVLGALPEDRHIDRLAKRQRPGERLDLAMLAAIRRVYGLLANTVRYLQCGGSWREDWGQLSARPHIGDTLFTLF----------------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
2.1 7-105 99 1-6 175-300 106-174 6 126 slipknot
view details
3.1 5-174 170 1-4 194-300 175-193 4 107 slipknot
view details
2.1 8-175 168 1-7 276-300 176-275 7 25 slipknot
view details
2.1 9-201 193 1-7, 266-300 8-8, 202-265 7 35 slipknot
sequence length 329
structure length 300
publication title Exploring the active site of herpes simplex virus type-1 thymidine kinase by X-ray crystallography of complexes with aciclovir and other ligands.
pubmed doi rcsb
molecule tags Phosphotransferase
molecule keywords THYMIDINE KINASE
source organism Herpes simplex virus (type 1 / strain 17)
missing residues 25-31, 103-108, 219-234
total genus Genus: 108
ec nomenclature ec 2.7.1.21: Thymidine kinase.
pdb deposition date 1998-05-18
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 1ki6A00
1KI2A 1KI4A 1KIMA 1P72A 3F0TA 1KI7A 1KI6A 1OSNA 3VTKA 1KI6B 1P7CA 1E2IA 4IVRA 4JBXA 4IVQA 1P73A 1GKUB 4JBYA 1KI8A 1P6XA 1E2PA 2KI5A 1E2HA 1E2LA 2VTKA 1E2JA 1E2KA 1VTKA 1P75A 1QHIA 1OF1A 1F48A 1E2MA 1E2NA 4IVPA 1KI3A 1II9A 3RDPA
chains in the KnotProt database with same CATH superfamily
1KI2A 1KI4A 1KIMA 1P72A 3F0TA 3L02A 1KI7A 1KI6A 3M5DA 1OSNA 3L05A 3VTKA 1P7CA 1KI6B 3KZCA 1YRLA 1E2IA 3FR7A 3KZNA 3L04A 4IVRA 3KZKA 4JBXA 3M5CA 1P73A 4IVQA 1GKUB 4JBYA 1KI8A 3KZOA 3M4NA 2XTJA 1R4NB 1P6XA 1E2PA 2KI5A 1E2HA 1E2LA 1JS1X 2VTKA 1E2JA 1E2KA 1VTKA 1P75A 1QHIA 1OF1A 1DBIA 1YH1A 1F48A 3KZMA 3L06A 2FG6C 1R4MB 3M4JA 1E2MA 1QMGA 1E2NA 1YVEI 4IVPA 3FSGA 2G7MC 1LNSA 1KI3A 1II9A 3FR8A 3RDPA
chains in the KnotProt database with same CATH topology
1KI2A 1KI4A 1KIMA 1P72A 3F0TA 1KI7A 1KI6A 1OSNA 3VTKA 1KI6B 1P7CA 1E2IA 4IVRA 4JBXA 4IVQA 1P73A 1GKUB 4JBYA 1KI8A 1P6XA 1E2PA 2KI5A 1E2HA 1E2LA 2VTKA 1E2JA 1E2KA 1VTKA 1P75A 1QHIA 1OF1A 1F48A 1E2MA 1E2NA 4IVPA 1KI3A 1II9A 3RDPA
chains in the KnotProt database with same CATH homology


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

 
#similar chains in the KnotProt database (?% sequence similarity)
...loading similar chains, please wait...
#similar chains, but unknotted
...loading similar chains, please wait...
#similar chains in the pdb database (?% sequence similarity)
...loading similar chains, please wait...

KnotProt | Interdisciplinary Laboratory of Biological Systems Modelling