1E2L | KnotProt

1E2LA

Kinetics and crystal structure of the wild-type and the engineered y101f mutant of herpes simplex virus type 1 thymidine kinase interacting with (north)-methanocarba-thymidine

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 The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.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: 109

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	305-329	118-304	4	25	slipknot

Chain Sequence

MPTLLRVYIDGPHGMGKTTTTQLL-------DIVYVPEPMTYWRVLGASETIANIFTTQHRLDQGEISAGDAAVVMTSAQITMGMPYAVTDAVLAPHIGGEAGSPPPALTL---IFDRHPIAALLCYPAARYLMGSMTPQAVLAFVALIPPTLPGTNIVLGALPEDRHIDRLAKRQRPGERLDLAMLAAIRRVYGLLANTVRYLQCGGSWREDWGQLSGPRPHIGDTLF---------------TLFRAPELLAPNGDLYNVFAWALDVLAKRLRSMHVFILDYDQSPAGCRDALLQLTSGMVQTHVTTPGSIPTICDLARTFAREMGE

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	3.1	7-112	106	1-6	145-304	113-144	6	160	slipknot
view details	3.1	7-150	144	1-6	184-304	151-183	6	121	slipknot
view details	3.1	7-183	177	1-6	279-304	184-278	6	26	slipknot
view details	2.1	6-145	140		1-2, 151-304	3-5, 146-150	2	154	slipknot
view details	2.1	8-156	149		1-6, 182-304	7-7, 157-181	6	123	slipknot
view details	2.1	9-155	147		1-6, 276-304	7-8, 156-275	6	29	slipknot

sequence length	329
structure length	304
publication title	Kinetics and Crystal Structure of the Wild-Type and the Engineered Y101F Mutant of Herpes Simplex Virus Type 1 Thymidine Kinase Interacting with (North)-Methanocarba-Thymidine pubmed doi rcsb
molecule tags	Thymidine kinase
molecule keywords	THYMIDINE KINASE
source organism	Herpes simplex virus (type 1 / strain 17)
missing residues	25-31, 105-107, 220-234
total genus	Genus: 109
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	Class	Architecture	Topology	Homology	Domain
3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	1e2lA00

3F0TA 1E2MA 1KI7A 1OF1A 2KI5A 1E2KA 1P72A 4JBXA 4IVRA 1F48A 1KI8A 1E2NA 1KI6B 1KI4A 2VTKA 1E2IA 1KI2A 1KIMA 1E2PA 1KI6A 1E2JA 4IVPA 4IVQA 1KI3A 1P73A 1E2LA 1E2HA 3RDPA 1VTKA 1P6XA 1OSNA 1P7CA 1P75A 1II9A 3VTKA 4JBYA 1GKUB 1QHIA
chains in the KnotProt database with same CATH superfamily

1YVEI 3F0TA 1E2MA 1KI7A 1OF1A 3M5DA 2KI5A 3M5CA 3M4NA 3KZMA 1E2KA 1JS1X 1P72A 1R4NB 1R4MB 2G7MC 3FSGA 4JBXA 1QMGA 3KZOA 4IVRA 1F48A 1KI8A 1E2NA 1KI6B 1KI4A 3L06A 2VTKA 1E2IA 1KI2A 1KIMA 1E2PA 3KZCA 1KI6A 2FG6C 1E2JA 4IVPA 4IVQA 1KI3A 1LNSA 1P73A 1DBIA 1E2LA 1E2HA 3RDPA 1VTKA 1P6XA 1OSNA 1YH1A 3L05A 3FR8A 1P7CA 3L02A 3M4JA 2XTJA 1P75A 1II9A 3VTKA 3KZNA 3L04A 1YRLA 3KZKA 4JBYA 1GKUB 3FR7A 1QHIA
chains in the KnotProt database with same CATH topology

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

1E2HA 1E2IA 1E2KA 1E2MA 1E2NA 1E2PA 1KI2A 1KI3A 1KI4A
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)
1E2H A; 1E2I A; 1E2K A; 1E2M A; 1E2N A; 1E2P A; 1KI2 A; 1KI3 A; 1KI4 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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1E2LA

Slipknot S +31

Chain Sequence

pfam database annotations

Slipknot S +3₁