4OQL | KnotProt

4OQLA

Crystal structure of thymidine kinase from herpes simplex virus type 1 in complex with df-edu

Image from the <span class='capital'>rcsb pdb</span> (www.rcsb.org)

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 The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.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: 113

Slipknot S +3₁

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Help Knotting data interpretation Full screen

					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	304-329	118-303	4	26	slipknot

Chain Sequence

MPTLLRVYIDGPHGMGKTTTTQLLVA---RDDIVYVPEPMTYWRVLGASETIANIYTTQHRLDQGEISAGDAAVVMTSAQITMGMPYAVTDAVLAPHIGGEAPPP-----ALTLIFDRHPIAALLCYPAARYLMGSMTPQAVLAFVALIPPTLPGTNIVLGALPEDRHIDRLAKRQRPGERLDLAMLAAIRRVYGLLANTVRYLQCGGSWREDWGQLSGPRPHIGDT---------------LFTLFRAPELLAPNGDLYNVFAWALDVLAKRLRSMHVFILDYDQSPAGCRDALLQLTSGMVQTHVTTPGSIPTICDLARTFAREMGE

Whole chain analysis

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Subchain analysis

Knotoid cutoff: 0.5

Knotoid matrix content: 1

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Help Knotoid subchains data interpretation Full screen

		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	8-110	103	1-7	147-306	111-146	7	160	slipknot
view details	3.1	4-146	143	1-3	166-306	147-165	3	141	slipknot
view details	2.1	8-147	140	1-7	279-306	148-278	7	28	slipknot
view details	3.1	4-278	275	1-3	282-306	279-281	3	25	slipknot
view details	2.1	9-159	151		1-7, 271-306	8-8, 160-270	7	36	slipknot

sequence length	329
structure length	306
publication title	Crystal structure of thymidine kinase from herpes simplex virus type 1 in complex with dF-EdU rcsb
molecule tags	Transferase
molecule keywords	Thymidine kinase
source organism	Human herpesvirus 1
missing residues	27-29, 103-107, 220-234
total genus	Genus: 113
ec nomenclature	ec 2.7.1.21: Thymidine kinase.
pdb deposition date	2014-02-10
KnotProt deposition date	2014-08-16

Image from the rcsb pdb (www.rcsb.org)

1OF1A 1P7CA 1QHIA 1VTKA 2KI5A 2VTKA 3F0TA 3VTKA 4JBXA
similar chains in the KnotProt database (40% sequence similarity)

None
similar chains in the pdb database (40% sequence similarity)

#similar chains in the KnotProt database (40% sequence similarity)
1OF1 A; 1P7C A; 1QHI A; 1VTK A; 2KI5 A; 2VTK A; 3F0T A; 3VTK A; 4JBX A; 
#similar chains, but unknotted

#similar chains in the pdb database (40% sequence similarity)

How to cite

KnotProt | Interdisciplinary Laboratory of Biological Systems Modelling

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4OQLA

Slipknot S +31

Chain Sequence

Slipknot S +3₁