1P9P | KnotProt

Genus: 67
Alphaknot: P0A873

Knot K +3₁

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Jmol getValue APPLETREADYCallback Jmol._readyCallback

APPLETREADYCallback = "Jmol._readyCallback"

callback set for APPLETREADYCallback Jmol._readyCallback APPLETREADY

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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	86-130	45	1-85, 131-246			85	116	knot

Chain Sequence

MWIGIISLFPEMFRAITDYGVTGRAVKNGLLSIQSWSPRDFTHDRHRTVDDRPYGGGPGMLMMVQPLRDAIHAAKAAAGEGAKVIYLSPQGRKLDQAGVSELATNQKLILVCGRYEGIDERVIQTEIDEEWSIGDYVLSGGELPAMTLIDSVSRFIPGVLG-----------EGLLDCPHYTRPEVLEGMEVPPVLLSGNHAEIRRWRLKQSLGRTWLRRPELLENLALTEEQARLLAEFKTEHAQ

Whole chain analysis

Help Knotoid data interpretation Full screen

Subchain analysis

Knotoid cutoff: 0.5

Knotoid matrix content: 1

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Jmol Version: 14.29.13 2018-04-17 17:17

java.vendor: Java2Script (HTML5)

java.version: 2018-01-28 23:38:52 (JSmol/j2s)

os.name: Mozilla/5.0 AppleWebKit/537.36 (KHTML, like Gecko; compatible; ClaudeBot/1.0; +claudebot@anthropic.com)

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memory: 0.0/0.0

processors available: 1

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Jmol getValue bgcolor white

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Jmol getValue ANIMFRAMECallback null

Jmol getValue APPLETREADYCallback Jmol._readyCallback

APPLETREADYCallback = "Jmol._readyCallback"

callback set for APPLETREADYCallback Jmol._readyCallback APPLETREADY

Jmol getValue ATOMMOVEDCallback null

Jmol getValue AUDIOCallback null

Jmol getValue CLICKCallback null

Jmol getValue DRAGDROPCallback null

Jmol getValue ECHOCallback null

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Jmol getValue HOVERCallback null

Jmol getValue IMAGECallback null

Jmol getValue LOADSTRUCTCallback null

Jmol getValue MEASURECallback null

Jmol getValue MESSAGECallback null

Jmol getValue MINIMIZATIONCallback null

Jmol getValue SERVICECallback null

Jmol getValue PICKCallback null

Jmol getValue RESIZECallback null

Jmol getValue SCRIPTCallback null

Jmol getValue SYNCCallback null

Jmol getValue STRUCTUREMODIFIEDCallback null

Jmol getValue doTranslate null

language=en_US

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Jmol applet jmolApplet0__914232861590622__ ready

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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	85-133	49	1-84, 134-235			84	102	knot
view details	3.1	84-131	48	1-83	152-235	132-151	83	84	slipknot
view details	3.1	86-140	55		1-84, 148-235	85-85, 141-147	84	88	slipknot

sequence length	246
structure length	235
publication title	Insights into Catalysis by a Knotted TrmD tRNA Methyltransferase. pubmed doi rcsb
molecule tags	Transferase
molecule keywords	tRNA (Guanine-N(1)-)-methyltransferase
source organism	Escherichia coli
missing residues	162-172
total genus	Genus: 67
ec nomenclature	ec 2.1.1.228: tRNA (guanine(37)-N(1))-methyltransferase.
pdb deposition date	2003-05-12
KnotProt deposition date	2014-07-31

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
A	PF01746	tRNA_m1G_MT	tRNA (Guanine-1)-methyltransferase

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

cath code	Class	Architecture	Topology	Homology	Domain
1.10.1270.20	Mainly Alpha	Orthogonal Bundle	Trp Operon Repressor; Chain A	tRNA(m1g37)methyltransferase, domain 2	1p9pA02
3.40.1280.10	Alpha Beta	3-Layer(aba) Sandwich	Alpha/beta knot	Alpha/beta knot	1p9pA01

3NK7A 3KTYA 3AIAA 1VHYA 2I6DA 3DCMX 3N4JA 4IG6A 3ILKA 3ONPA 1X7OA 1UAJA 3N4KA 3AXZA 3L8UA 2QWVA 4E8BA 2CX8A 3E5YA 1NXZA 1ZJRA 4H3YA 1TO0A 1VHKA 1VH0A 1V6ZA 4FAKA 1GZ0A 2Z0YA 4CNGB 3QUVA 1K3RA 3NK6A 1UAKA 1UALA 3AI9X 3GYQA 4H3ZA 3IC6A 2QMMA 4CNFB 1NS5A 1V2XA 2HA8A 2YY8A 3IEFA 3KY7A 1O6DA 1X7PA 2O3AA 3KNUA 1J85A 1P9PA 4CNEB 1UAMA 1MXIA
chains in the KnotProt database with same CATH superfamily

#chains in the KnotProt database with same CATH superfamily
 3NK7 A;  3KTY A;  3AIA A;  1VHY A;  2I6D A;  3DCM X;  3N4J A;  4IG6 A;  3ILK A;  3ONP A;  1X7O A;  1UAJ A;  3N4K A;  3AXZ A;  3L8U A;  2QWV A;  4E8B A;  2CX8 A;  3E5Y A;  1NXZ A;  1ZJR A;  4H3Y A;  1TO0 A;  1VHK A;  1VH0 A;  1V6Z A;  4FAK A;  1GZ0 A;  2Z0Y A;  4CNG B;  3QUV A;  1K3R A;  3NK6 A;  1UAK A;  1UAL A;  3AI9 X;  3GYQ A;  4H3Z A;  3IC6 A;  2QMM A;  4CNF B;  1NS5 A;  1V2X A;  2HA8 A;  2YY8 A;  3IEF A;  3KY7 A;  1O6D A;  1X7P A;  2O3A A;  3KNU A;  1J85 A;  1P9P A;  4CNE B;  1UAM A;  1MXI A; 
#chains in the KnotProt database with same CATH topology
 3NK7 A;  3KTY A;  3AIA A;  1VHY A;  2I6D A;  3DCM X;  3N4J A;  4IG6 A;  3ILK A;  3ONP A;  1X7O A;  1UAJ A;  3N4K A;  3AXZ A;  3L8U A;  2QWV A;  4E8B A;  2CX8 A;  3E5Y A;  1NXZ A;  1ZJR A;  4H3Y A;  1TO0 A;  1VHK A;  1VH0 A;  1V6Z A;  4FAK A;  1GZ0 A;  2Z0Y A;  4CNG B;  3QUV A;  1K3R A;  3NK6 A;  1UAK A;  1UAL A;  3AI9 X;  3GYQ A;  4H3Z A;  3IC6 A;  2QMM A;  4CNF B;  1NS5 A;  1V2X A;  2HA8 A;  2YY8 A;  3IEF A;  3KY7 A;  1O6D A;  1X7P A;  2O3A A;  3KNU A;  1J85 A;  1P9P A;  4CNE B;  1UAM A;  1MXI A; 
#chains in the KnotProt database with same CATH homology
 3NK7 A;  3KTY A;  3AIA A;  1VHY A;  2I6D A;  3DCM X;  3N4J A;  4IG6 A;  3ILK A;  3ONP A;  1X7O A;  1UAJ A;  3N4K A;  3AXZ A;  3L8U A;  2QWV A;  4E8B A;  2CX8 A;  3E5Y A;  1NXZ A;  1ZJR A;  4H3Y A;  1TO0 A;  1VHK A;  1VH0 A;  1V6Z A;  4FAK A;  1GZ0 A;  2Z0Y A;  4CNG B;  3QUV A;  1K3R A;  3NK6 A;  1UAK A;  1UAL A;  3AI9 X;  3GYQ A;  4H3Z A;  3IC6 A;  2QMM A;  4CNF B;  1NS5 A;  1V2X A;  2HA8 A;  2YY8 A;  3IEF A;  3KY7 A;  1O6D A;  1X7P A;  2O3A A;  3KNU A;  1J85 A;  1P9P A;  4CNE B;  1UAM A;  1MXI A;

1UAJA 1UAKA 1UALA 1UAMA 3AXZA 4YQDA 4YVGA 4YVHA 4YVIA
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)
1UAJ A; 1UAK A; 1UAL A; 1UAM A; 3AXZ A; 4YQD A; 4YVG A; 4YVH A; 4YVI A; 
#similar chains, but unknotted

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

1P9PA

Knot K +31

Chain Sequence

pfam database annotations

Knot K +3₁