2QMM | Genus

Total Genus 71

The genus trace: a function that shows values of genus (vertical axis) for subchains spanned between the first residue, and all other residues (shown on horizontal axis). The number of the latter residue and the genus of a given subchain are shown interactively.

Total Genus	71
Knots found	KnotProt 2.0: K +3₁
sequence length	195
structure length	195
Chain Sequence	AVRGFLIVGNKAFTQPFSLNDLPGAGRMDVLCRCTSQALFISHGIRRDVEVYLLLLGPPSPPKSILIKGDEVRRMSPDERNVAGHIKKALAVECGKSWKKVHSGVYVSRKGLEELIEELSEKYSIIYLKEDGVDISNAQLPPNPLFVIGDHEGLTEEQEKVVERYAALKLSLSPLSLLAEQCVVIAHHHLDRLQF

The genus matrix. At position (x,y) a genus value for a subchain spanned between x’th and y’th residue is shown. Values of the genus are represented by color, according to the scale given on the right.

Structure visualization

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After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.

Genus data interpretation

Chord Diagram

publication title	Crystal structure of APC86534.1 (C-terminal domain of NCBI AAB90184.1; Pfam BIG 123.1). rcsb
molecule keywords	UPF0217 protein AF_1056
molecule tags	Structural genomics, unknown function
source organism	Archaeoglobus fulgidus dsm 4304
total genus	71
structure length	195
sequence length	195
chains with identical sequence	B
other databases	KnotProt 2.0: K +3₁
ec nomenclature	ec 2.1.1.257: tRNA (pseudouridine(54)-N(1))-methyltransferase.
pdb deposition date	2007-07-16

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
A	PF04013	Methyltrn_RNA_2	Putative SAM-dependent RNA methyltransferase

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

cath code	Class	Architecture	Topology	Homology	Domain
3.40.1280.10	Alpha Beta	3-Layer(aba) Sandwich	Alpha/beta knot	Alpha/beta knot	2qmmA00

4YQCA 1UAJA 1J85A 2EGWA 4CNEA 4YQ5A 4E8BA 3E5YA 4FAKA 1VH0A 1X7PA 4YPXA 3DCMX 1V2XA 1O6DA 4YQBA 1NS5A 4YQ8A 4YQRA 3N4KA 4YVJA 2YY8A 4YQ0A 4L69A 4YQJA 2I6DA 1UAMA 4X3MA 4MCBA 3BBHA 4YVKA 4YQ6A 1X7OA 4YQTA 4YQLA 4YPWA 4YQKA 4YQAA 4YQIA 4YQ9A 2Z0YA 5GMBA 1UALA 4X3LA 2O3AA 3NK7A 5FAIA 3KW2A 5GMCA 2V3JA 3AIAA 3AI9X 5D9FA 4YQ1A 4YPZA 1MXIA 3OINA 2HA8A 2EGVA 4YQOA 1V6ZA 1GZ0A 3L8UA 3KY7A 3O7BA 4CNGA 4YQ4A 3GYQA 1TO0A 4RG1A 1ZJRA 4YQQA 4YVHA 4IG6A 4YQPA 4H3YA 3BBDA 4YQGA 1VHYA 4YQ7A 4PZKA 4YVIA 4XBOA 4CNDA 4JAKA 4YQ3A 4J3CA 3ILKA 1IPAA 4H3ZA 3IC6A 1NXZA 4KGNA 5GM8A 3KTYA 3OIIA 4YVGA 3OIJA 3BBEA 1P9PA 1UAKA 3QUVA 3NK6A 2QWVA 4YQSA 4JALA 4MCDA 4YPYA 3KNUA 2V3KA 3AXZA 4YQ2A 1VHKA 3ONPA 4KDZA 4YQDA 4MCCA 2CX8A 5CO4A 3N4JA 4CNFA 1Z85A 4YQNA 1K3RA 3IEFA 1OY5A 2QMMA
chains in the Genus database with same CATH superfamily

4YQCA 1UAJA 1J85A 2EGWA 4CNEA 4YQ5A 4E8BA 3E5YA 4FAKA 1VH0A 1X7PA 4YPXA 3DCMX 1V2XA 1O6DA 4YQBA 1NS5A 4YQ8A 4YQRA 3N4KA 4YVJA 2YY8A 4YQ0A 4L69A 4YQJA 2I6DA 1UAMA 4X3MA 4MCBA 3BBHA 4YVKA 4YQ6A 1X7OA 4YQTA 4YQLA 4YPWA 4YQKA 4YQAA 4YQIA 4YQ9A 2Z0YA 4FMWA 5GMBA 1UALA 4X3LA 2O3AA 3NK7A 5FAIA 3KW2A 4JWJA 4JWGA 5GMCA 2V3JA 3AIAA 3AI9X 5D9FA 4YQ1A 4YPZA 1MXIA 3OINA 2HA8A 2EGVA 4YQOA 1V6ZA 1GZ0A 3L8UA 3KY7A 3O7BA 4CNGA 4YQ4A 3GYQA 4JWFA 1TO0A 4RG1A 1ZJRA 4JWHA 4YQQA 4YVHA 4IG6A 4YQPA 4H3YA 3BBDA 4YQGA 1VHYA 4YQ7A 4PZKA 4YVIA 4XBOA 4CNDA 4JAKA 4YQ3A 4J3CA 3ILKA 1IPAA 4H3ZA 3IC6A 1NXZA 4KGNA 5GM8A 3KTYA 3OIIA 4YVGA 3OIJA 3BBEA 1P9PA 1UAKA 3QUVA 3NK6A 2QWVA 4YQSA 4JALA 4MCDA 4YPYA 3KNUA 2V3KA 3AXZA 4YQ2A 1VHKA 3ONPA 4KDZA 4YQDA 4MCCA 2CX8A 5CO4A 3N4JA 4CNFA 1Z85A 4YQNA 1K3RA 3IEFA 1OY5A 2QMMA
chains in the Genus database with same CATH topology

4YQCA 1UAJA 1J85A 2EGWA 4CNEA 4YQ5A 4E8BA 3E5YA 4FAKA 1VH0A 1X7PA 4YPXA 3DCMX 1V2XA 1O6DA 4YQBA 1NS5A 4YQ8A 4YQRA 3N4KA 4YVJA 2YY8A 4YQ0A 4L69A 4YQJA 2I6DA 1UAMA 4X3MA 4MCBA 3BBHA 4YVKA 4YQ6A 1X7OA 4YQTA 4YQLA 4YPWA 4YQKA 4YQAA 4YQIA 4YQ9A 2Z0YA 4FMWA 5GMBA 1UALA 4X3LA 2O3AA 3NK7A 5FAIA 3KW2A 4JWJA 4JWGA 5GMCA 2V3JA 3AIAA 3AI9X 5D9FA 4YQ1A 4YPZA 1MXIA 3OINA 2HA8A 2EGVA 4YQOA 1V6ZA 1GZ0A 3L8UA 3KY7A 3O7BA 4CNGA 4YQ4A 3GYQA 4JWFA 1TO0A 4RG1A 1ZJRA 4JWHA 4YQQA 4YVHA 4IG6A 4YQPA 4H3YA 3BBDA 4YQGA 1VHYA 4YQ7A 4PZKA 4YVIA 4XBOA 4CNDA 4JAKA 4YQ3A 4J3CA 3ILKA 1IPAA 4H3ZA 3IC6A 1NXZA 4KGNA 5GM8A 3KTYA 3OIIA 4YVGA 3OIJA 3BBEA 1P9PA 1UAKA 3QUVA 3NK6A 2QWVA 4YQSA 4JALA 4MCDA 4YPYA 3KNUA 2V3KA 3AXZA 4YQ2A 1VHKA 3ONPA 4KDZA 4YQDA 4MCCA 2CX8A 5CO4A 3N4JA 4CNFA 1Z85A 4YQNA 1K3RA 3IEFA 1OY5A 2QMMA
chains in the Genus database with same CATH homology

#chains in the Genus database with same CATH superfamily
 4YQC A;  1UAJ A;  1J85 A;  2EGW A;  4CNE A;  4YQ5 A;  4E8B A;  3E5Y A;  4FAK A;  1VH0 A;  1X7P A;  4YPX A;  3DCM X;  1V2X A;  1O6D A;  4YQB A;  1NS5 A;  4YQ8 A;  4YQR A;  3N4K A;  4YVJ A;  2YY8 A;  4YQ0 A;  4L69 A;  4YQJ A;  2I6D A;  1UAM A;  4X3M A;  4MCB A;  3BBH A;  4YVK A;  4YQ6 A;  1X7O A;  4YQT A;  4YQL A;  4YPW A;  4YQK A;  4YQA A;  4YQI A;  4YQ9 A;  2Z0Y A;  5GMB A;  1UAL A;  4X3L A;  2O3A A;  3NK7 A;  5FAI A;  3KW2 A;  5GMC A;  2V3J A;  3AIA A;  3AI9 X;  5D9F A;  4YQ1 A;  4YPZ A;  1MXI A;  3OIN A;  2HA8 A;  2EGV A;  4YQO A;  1V6Z A;  1GZ0 A;  3L8U A;  3KY7 A;  3O7B A;  4CNG A;  4YQ4 A;  3GYQ A;  1TO0 A;  4RG1 A;  1ZJR A;  4YQQ A;  4YVH A;  4IG6 A;  4YQP A;  4H3Y A;  3BBD A;  4YQG A;  1VHY A;  4YQ7 A;  4PZK A;  4YVI A;  4XBO A;  4CND A;  4JAK A;  4YQ3 A;  4J3C A;  3ILK A;  1IPA A;  4H3Z A;  3IC6 A;  1NXZ A;  4KGN A;  5GM8 A;  3KTY A;  3OII A;  4YVG A;  3OIJ A;  3BBE A;  1P9P A;  1UAK A;  3QUV A;  3NK6 A;  2QWV A;  4YQS A;  4JAL A;  4MCD A;  4YPY A;  3KNU A;  2V3K A;  3AXZ A;  4YQ2 A;  1VHK A;  3ONP A;  4KDZ A;  4YQD A;  4MCC A;  2CX8 A;  5CO4 A;  3N4J A;  4CNF A;  1Z85 A;  4YQN A;  1K3R A;  3IEF A;  1OY5 A;  2QMM A; 
#chains in the Genus database with same CATH topology
 4YQC A;  1UAJ A;  1J85 A;  2EGW A;  4CNE A;  4YQ5 A;  4E8B A;  3E5Y A;  4FAK A;  1VH0 A;  1X7P A;  4YPX A;  3DCM X;  1V2X A;  1O6D A;  4YQB A;  1NS5 A;  4YQ8 A;  4YQR A;  3N4K A;  4YVJ A;  2YY8 A;  4YQ0 A;  4L69 A;  4YQJ A;  2I6D A;  1UAM A;  4X3M A;  4MCB A;  3BBH A;  4YVK A;  4YQ6 A;  1X7O A;  4YQT A;  4YQL A;  4YPW A;  4YQK A;  4YQA A;  4YQI A;  4YQ9 A;  2Z0Y A;  4FMW A;  5GMB A;  1UAL A;  4X3L A;  2O3A A;  3NK7 A;  5FAI A;  3KW2 A;  4JWJ A;  4JWG A;  5GMC A;  2V3J A;  3AIA A;  3AI9 X;  5D9F A;  4YQ1 A;  4YPZ A;  1MXI A;  3OIN A;  2HA8 A;  2EGV A;  4YQO A;  1V6Z A;  1GZ0 A;  3L8U A;  3KY7 A;  3O7B A;  4CNG A;  4YQ4 A;  3GYQ A;  4JWF A;  1TO0 A;  4RG1 A;  1ZJR A;  4JWH A;  4YQQ A;  4YVH A;  4IG6 A;  4YQP A;  4H3Y A;  3BBD A;  4YQG A;  1VHY A;  4YQ7 A;  4PZK A;  4YVI A;  4XBO A;  4CND A;  4JAK A;  4YQ3 A;  4J3C A;  3ILK A;  1IPA A;  4H3Z A;  3IC6 A;  1NXZ A;  4KGN A;  5GM8 A;  3KTY A;  3OII A;  4YVG A;  3OIJ A;  3BBE A;  1P9P A;  1UAK A;  3QUV A;  3NK6 A;  2QWV A;  4YQS A;  4JAL A;  4MCD A;  4YPY A;  3KNU A;  2V3K A;  3AXZ A;  4YQ2 A;  1VHK A;  3ONP A;  4KDZ A;  4YQD A;  4MCC A;  2CX8 A;  5CO4 A;  3N4J A;  4CNF A;  1Z85 A;  4YQN A;  1K3R A;  3IEF A;  1OY5 A;  2QMM A; 
#chains in the Genus database with same CATH homology
 4YQC A;  1UAJ A;  1J85 A;  2EGW A;  4CNE A;  4YQ5 A;  4E8B A;  3E5Y A;  4FAK A;  1VH0 A;  1X7P A;  4YPX A;  3DCM X;  1V2X A;  1O6D A;  4YQB A;  1NS5 A;  4YQ8 A;  4YQR A;  3N4K A;  4YVJ A;  2YY8 A;  4YQ0 A;  4L69 A;  4YQJ A;  2I6D A;  1UAM A;  4X3M A;  4MCB A;  3BBH A;  4YVK A;  4YQ6 A;  1X7O A;  4YQT A;  4YQL A;  4YPW A;  4YQK A;  4YQA A;  4YQI A;  4YQ9 A;  2Z0Y A;  4FMW A;  5GMB A;  1UAL A;  4X3L A;  2O3A A;  3NK7 A;  5FAI A;  3KW2 A;  4JWJ A;  4JWG A;  5GMC A;  2V3J A;  3AIA A;  3AI9 X;  5D9F A;  4YQ1 A;  4YPZ A;  1MXI A;  3OIN A;  2HA8 A;  2EGV A;  4YQO A;  1V6Z A;  1GZ0 A;  3L8U A;  3KY7 A;  3O7B A;  4CNG A;  4YQ4 A;  3GYQ A;  4JWF A;  1TO0 A;  4RG1 A;  1ZJR A;  4JWH A;  4YQQ A;  4YVH A;  4IG6 A;  4YQP A;  4H3Y A;  3BBD A;  4YQG A;  1VHY A;  4YQ7 A;  4PZK A;  4YVI A;  4XBO A;  4CND A;  4JAK A;  4YQ3 A;  4J3C A;  3ILK A;  1IPA A;  4H3Z A;  3IC6 A;  1NXZ A;  4KGN A;  5GM8 A;  3KTY A;  3OII A;  4YVG A;  3OIJ A;  3BBE A;  1P9P A;  1UAK A;  3QUV A;  3NK6 A;  2QWV A;  4YQS A;  4JAL A;  4MCD A;  4YPY A;  3KNU A;  2V3K A;  3AXZ A;  4YQ2 A;  1VHK A;  3ONP A;  4KDZ A;  4YQD A;  4MCC A;  2CX8 A;  5CO4 A;  3N4J A;  4CNF A;  1Z85 A;  4YQN A;  1K3R A;  3IEF A;  1OY5 A;  2QMM A;

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similar chains in the Genus database (?% sequence similarity)

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similar chains in the pdb database (?% sequence similarity)

#similar chains in the Genus database (?% sequence similarity)
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#similar chains, but unknotted
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#similar chains in the pdb database (?% sequence similarity)
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2QMMA

Total Genus

Knots found

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations