1NXZ | KnotProt

Genus: 67

Knot K +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	169-214	46	1-168, 215-246			168	32	knot

Chain Sequence

RIPRIYHPISLENQTQCYLSEDAANHVARVLRMTEGEQLELFDGSNHIYPAKIIESNKKSVKVEILGRELADKESHLKIHLGQVISRGERMEFTIQKSVELGVNVITPLWSERCGVKLDAERMDKKIQQWQKIAIAACEQCGRNIVPEIRPLMKLQDWCAENDGALKLNLHPRAHYSIKTLPTIPAGGVRLLIGSEGGLSAQEIAQTEQQGFTEILLGKRVLRTETASLAAISALQICFGDLGEAA

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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Jmol getValue AUDIOCallback null

Jmol getValue CLICKCallback null

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Jmol getValue ECHOCallback null

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Jmol getValue EVALCallback null

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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

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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	167-215	49	1-166, 216-246			166	31	knot
view details	2.1	159-211	53	1-158	218-246	212-217	158	29	slipknot
view details	3.1	168-215	48		1-166, 231-246	167-167, 216-230	166	16	slipknot
view details	3.1	170-217	48		1-166, 236-246	167-169, 218-235	166	11	slipknot
view details	2.1	170-241	72	242-246	1-166	167-169	166	4	slipknot

sequence length	246
structure length	246
publication title	Functional assignment based on structural analysis: crystal structure of the yggJ protein (HI0303) of Haemophilus influenzae reveals an RNA methyltransferase with a deep trefoil knot. pubmed doi rcsb
molecule tags	Structural genomics, unknown function
molecule keywords	Hypothetical protein HI0303
source organism	Haemophilus influenzae
total genus	Genus: 67
ec nomenclature	ec 2.1.1.193: 16S rRNA (uracil(1498)-N(3))-methyltransferase.
pdb deposition date	2003-02-11
KnotProt deposition date	2014-07-31

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
A	PF04452	Methyltrans_RNA	RNA methyltransferase

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

cath code	Class	Architecture	Topology	Homology	Domain
2.40.240.20	Mainly Beta	Beta Barrel	Ribosomal Protein L25; Chain P	Hypothetical PUA domain-like; domain 1	1nxzA01
3.40.1280.10	Alpha Beta	3-Layer(aba) Sandwich	Alpha/beta knot	Alpha/beta knot	1nxzA02

1UAMA 3AIAA 3NK7A 3KNUA 1J85A 2HA8A 4IG6A 3DCMX 1TO0A 1O6DA 2I6DA 1NXZA 3L8UA 1X7OA 1VH0A 1V6ZA 1GZ0A 1MXIA 4FAKA 4H3YA 3E5YA 4CNGB 1K3RA 2O3AA 3ILKA 1ZJRA 2CX8A 1V2XA 3N4KA 1VHYA 1P9PA 4H3ZA 3IEFA 1VHKA 1X7PA 2QMMA 3N4JA 2QWVA 2YY8A 4CNFB 4CNEB 3QUVA 2Z0YA 1NS5A 3KTYA 3KY7A 3GYQA 3AXZA 3AI9X 3NK6A 3KW2A 1UALA 1UAKA 4E8BA 3ONPA 3IC6A 1UAJA
chains in the KnotProt database with same CATH superfamily

#chains in the KnotProt database with same CATH superfamily
 1UAM A;  3AIA A;  3NK7 A;  3KNU A;  1J85 A;  2HA8 A;  4IG6 A;  3DCM X;  1TO0 A;  1O6D A;  2I6D A;  1NXZ A;  3L8U A;  1X7O A;  1VH0 A;  1V6Z A;  1GZ0 A;  1MXI A;  4FAK A;  4H3Y A;  3E5Y A;  4CNG B;  1K3R A;  2O3A A;  3ILK A;  1ZJR A;  2CX8 A;  1V2X A;  3N4K A;  1VHY A;  1P9P A;  4H3Z A;  3IEF A;  1VHK A;  1X7P A;  2QMM A;  3N4J A;  2QWV A;  2YY8 A;  4CNF B;  4CNE B;  3QUV A;  2Z0Y A;  1NS5 A;  3KTY A;  3KY7 A;  3GYQ A;  3AXZ A;  3AI9 X;  3NK6 A;  3KW2 A;  1UAL A;  1UAK A;  4E8B A;  3ONP A;  3IC6 A;  1UAJ A; 
#chains in the KnotProt database with same CATH topology
 1UAM A;  3AIA A;  3NK7 A;  3KNU A;  1J85 A;  2HA8 A;  4IG6 A;  3DCM X;  1TO0 A;  1O6D A;  2I6D A;  1NXZ A;  3L8U A;  1X7O A;  1VH0 A;  1V6Z A;  1GZ0 A;  1MXI A;  4FAK A;  4H3Y A;  3E5Y A;  4CNG B;  1K3R A;  2O3A A;  3ILK A;  1ZJR A;  2CX8 A;  1V2X A;  3N4K A;  1VHY A;  1P9P A;  4H3Z A;  3IEF A;  1VHK A;  1X7P A;  2QMM A;  3N4J A;  2QWV A;  2YY8 A;  4CNF B;  4CNE B;  3QUV A;  2Z0Y A;  1NS5 A;  3KTY A;  3KY7 A;  3GYQ A;  3AXZ A;  3AI9 X;  3NK6 A;  3KW2 A;  1UAL A;  1UAK A;  4E8B A;  3ONP A;  3IC6 A;  1UAJ A; 
#chains in the KnotProt database with same CATH homology
 1UAM A;  3AIA A;  3NK7 A;  3KNU A;  1J85 A;  2HA8 A;  4IG6 A;  3DCM X;  1TO0 A;  1O6D A;  2I6D A;  1NXZ A;  3L8U A;  1X7O A;  1VH0 A;  1V6Z A;  1GZ0 A;  1MXI A;  4FAK A;  4H3Y A;  3E5Y A;  4CNG B;  1K3R A;  2O3A A;  3ILK A;  1ZJR A;  2CX8 A;  1V2X A;  3N4K A;  1VHY A;  1P9P A;  4H3Z A;  3IEF A;  1VHK A;  1X7P A;  2QMM A;  3N4J A;  2QWV A;  2YY8 A;  4CNF B;  4CNE B;  3QUV A;  2Z0Y A;  1NS5 A;  3KTY A;  3KY7 A;  3GYQ A;  3AXZ A;  3AI9 X;  3NK6 A;  3KW2 A;  1UAL A;  1UAK A;  4E8B A;  3ONP A;  3IC6 A;  1UAJ 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)

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#similar chains, but unknotted
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1NXZA

Knot K +31

Chain Sequence

pfam database annotations

Knot K +3₁