1E2MA

Hpt + hmtt
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 The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.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: 110
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 5-116 112 1-4 305-329 117-304 4 25 slipknot
Chain Sequence
MPTLLRVYIDGPHGMGKTTTTQLL-----RDDIVYVPEPMTYWRVLGASETIANIYTTQHRLDQGEISAGDAAVVMTSAQITMGMPYAVTDAVLAPHIGGEAGSPPALT----LIFDRHPIAALLCYPAARYLMGSMTPQAVLAFVALIPPTLPGTNIVLGALPEDRHIDRLAKRQRPGERLDLAMLAAIRRVYGLLANTVRYLQCGGSWREDWGQLSGPRPHIGDTL---------------FTLFRAPELLAPNGDLYNVFAWALDVLAKRLRSMHVFILDYDQSPAGCRDALLQLTSGMVQTHVTTPGSIPTICDLARTFAREMGE
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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2.1 8-113 106 1-7 144-305 114-143 7 162 slipknot
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2.1 8-148 141 1-7 221-305 149-220 7 85 slipknot
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2.1 8-221 214 1-7 264-305 222-263 7 42 slipknot
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3.1 6-264 259 1-5 279-305 265-278 5 27 slipknot
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2.1 9-221 213 1-7, 263-305 8-8, 222-262 7 43 slipknot
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2.1 8-264 257 1-5, 278-305 6-7, 265-277 5 28 slipknot
sequence length 329
structure length 305
publication title The Effect of Substrate Binding on the Conformation and Structural Stability of Herpes Simplex Virus Type 1 Thymidine Kinase
pubmed doi rcsb
molecule tags Transferase
molecule keywords THYMIDINE KINASE
source organism Herpes simplex virus (type 1 / strain 17)
missing residues 25-29, 105-108, 220-234
total genus Genus: 110
ec nomenclature ec 2.7.1.21: Thymidine kinase.
pdb deposition date 2000-05-23
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 1e2mA00
1II9A 1KI6A 1KI7A 3VTKA 1KI8A 2VTKA 1GKUB 1KI4A 1P73A 1E2NA 1P72A 1KI6B 3RDPA 1E2LA 1E2IA 1OSNA 3F0TA 4IVPA 1E2JA 1E2HA 1KI2A 1KIMA 1E2KA 1OF1A 4IVQA 4JBXA 4JBYA 1QHIA 1P6XA 1KI3A 2KI5A 1P75A 1E2MA 4IVRA 1F48A 1VTKA 1P7CA 1E2PA
chains in the KnotProt database with same CATH superfamily
1II9A 2XTJA 3FR7A 1KI6A 1KI7A 3VTKA 1KI8A 2VTKA 3KZOA 1R4MB 1GKUB 3KZCA 1KI4A 1JS1X 1R4NB 1P73A 1E2NA 3KZMA 3L02A 3M4JA 1P72A 1KI6B 3M5CA 3L06A 3KZKA 1VTKA 1YRLA 3RDPA 3FR8A 1E2LA 1E2IA 1OSNA 3KZNA 3F0TA 3M5DA 4IVPA 1E2JA 1E2HA 1KI2A 1KIMA 1E2KA 1OF1A 3L05A 4IVQA 1DBIA 4JBXA 4JBYA 1QHIA 1P6XA 3L04A 2G7MC 1KI3A 3FSGA 1YH1A 2FG6C 2KI5A 1P75A 3M4NA 1QMGA 1E2MA 1YVEI 4IVRA 1F48A 1LNSA 1P7CA 1E2PA
chains in the KnotProt database with same CATH topology
1II9A 1KI6A 1KI7A 3VTKA 1KI8A 2VTKA 1GKUB 1KI4A 1P73A 1E2NA 1P72A 1KI6B 3RDPA 1E2LA 1E2IA 1OSNA 3F0TA 4IVPA 1E2JA 1E2HA 1KI2A 1KIMA 1E2KA 1OF1A 4IVQA 4JBXA 4JBYA 1QHIA 1P6XA 1KI3A 2KI5A 1P75A 1E2MA 4IVRA 1F48A 1VTKA 1P7CA 1E2PA
chains in the KnotProt database with same CATH homology

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