3IEF | Genus

Total Genus 63

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	63
Knots found	KnotProt 2.0: K +3₁
sequence length	229
structure length	224
Chain Sequence	KFQARVLTLYPEMFPGFLGCSLAGQALKQGIWSLETVQIRDFASVDDTPAGGGAGMVMRADVLAAALDSCPNDSPRLLMSPRGRLLNQAYARSLARSSGVTLVCGRFEGVDERIIEARELEEVSIGDYILSGGETAALVLLDAIVRLLPGVMGNEISAKCESFENGLLEHPQYTRPAVFEGRGIPPVLTSGHHKAIANWRQQQAESLTRQRRPDLYALYNKNRQ

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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reading 224 atoms

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224 atoms created

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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 tRNA guanine-n1-methyltransferase from Bartonella henselae using MPCS. rcsb
molecule keywords	tRNA (guanine-N(1)-)-methyltransferase
molecule tags	Transferase, rna binding protein
source organism	Bartonella henselae
total genus	63
structure length	224
sequence length	229
chains with identical sequence	B
other databases	KnotProt 2.0: K +3₁
ec nomenclature	ec 2.1.1.228: tRNA (guanine(37)-N(1))-methyltransferase.
pdb deposition date	2009-07-22

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	3iefA02
3.40.1280.10	Alpha Beta	3-Layer(aba) Sandwich	Alpha/beta knot	Alpha/beta knot	3iefA01

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

4YQOA 4YQQA 3ONPA 3GYQA 3KORA 4CNDA 3BBHA 2OZ9R 4YVHA 5CO4A 4H3ZA 4MCDA 4CNFA 4MCBA 3KY7A 4YVGA 3OINA 4YQ9A 1J85A 3AI9X 4YVKA 4YQPA 3KNUA 4YVJA 1TO0A 4JWGA 2EGWA 1RCSA 3IEFA 3IC6A 4YQIA 4X3LA 4CNGA 2EGVA 1UALA 4L69A 4JALA 1VHKA 4FMWA 4YQLA 4X3MA 1ZJRA 4YQ8A 1UAMA 1VHYA 1JHGA 1IPAA 2HA8A 1NXZA 1WRSR 4H3YA 3L8UA 4YQ4A 3SSWN 1GZ0A 1MXIA 3NK6A 4KGNA 4JWFA 1CO0A 1X7PA 4YQ3A 5D9FA 4YQSA 3N4JA 1V6ZA 3BBDA 1WRPR 1WRTR 2CX8A 4YQTA 4YPXA 4YQ1A 4CNEA 3ILKA 4YQDA 2V3KA 3OIJA 1VH0A 3NK7A 3AIAA 1O6DA 4JWJA 4XBOA 1OY5A 5FAIA 2Z0YA 4PZKA 4YQBA 1X7OA 3G1CA 4YQKA 1UAKA 4E8BA 2V3JA 4YQJA 5GMBA 3FRWA 4YPZA 4YQ2A 3N4KA 4YVIA 3KW2A 4JWHA 1Z85A 3O7BA 4YQ7A 4MCCA 2XDIA 4YQRA 1TRRA 2YY8A 5GM8A 3WRPA 1UAJA 1K3RA 3QUVA 4YQCA 4YQ6A 4RG1A 3OIIA 4YPWA 3DCMX 1V2XA 1NS5A 2O3AA 5GMCA 4YPYA 3KTYA 1P9PA 3AXZA 4YQ0A 1MI7R 4IG6A 3SSXN 3BBEA 4FAKA 1ZT9A 4J3CA 4KDZA 4YQ5A 4YQNA 2QMMA 2I6DA 2QWVA 3E5YA 4YQAA 1TROA 4JAKA 4YQGA
chains in the Genus database with same CATH topology

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

#chains in the Genus database with same CATH superfamily
 4YQO A;  4YQQ A;  3ONP A;  3GYQ A;  4CND A;  3BBH A;  4YVH A;  5CO4 A;  4H3Z A;  4MCD A;  4CNF A;  4MCB A;  3KY7 A;  4YVG A;  3OIN A;  4YQ9 A;  1J85 A;  3AI9 X;  4YVK A;  4YQP A;  3KNU A;  4YVJ A;  1TO0 A;  2EGW A;  3IEF A;  3IC6 A;  4YQI A;  4X3L A;  4CNG A;  2EGV A;  1UAL A;  4L69 A;  4JAL A;  1VHK A;  4YQL A;  4X3M A;  1ZJR A;  4YQ8 A;  1UAM A;  1VHY A;  1IPA A;  2HA8 A;  1NXZ A;  4H3Y A;  3L8U A;  4YQ4 A;  1GZ0 A;  1MXI A;  3NK6 A;  4KGN A;  1X7P A;  4YQ3 A;  5D9F A;  4YQS A;  3N4J A;  1V6Z A;  3BBD A;  2CX8 A;  4YQT A;  4YPX A;  4YQ1 A;  4CNE A;  3ILK A;  4YQD A;  2V3K A;  3OIJ A;  1VH0 A;  3NK7 A;  3AIA A;  1O6D A;  4XBO A;  1OY5 A;  5FAI A;  2Z0Y A;  4PZK A;  4YQB A;  1X7O A;  4YQK A;  1UAK A;  4E8B A;  2V3J A;  4YQJ A;  5GMB A;  4YQ2 A;  4YPZ A;  3N4K A;  4YVI A;  3KW2 A;  1Z85 A;  3O7B A;  4YQ7 A;  4MCC A;  4YQR A;  2YY8 A;  5GM8 A;  1UAJ A;  1K3R A;  3QUV A;  4YQC A;  4YQ6 A;  4RG1 A;  3OII A;  4YPW A;  3DCM X;  1V2X A;  1NS5 A;  2O3A A;  5GMC A;  4YPY A;  3KTY A;  1P9P A;  3AXZ A;  4YQ0 A;  4IG6 A;  3BBE A;  4FAK A;  4J3C A;  4KDZ A;  4YQ5 A;  4YQN A;  2QMM A;  2I6D A;  2QWV A;  3E5Y A;  4YQA A;  4JAK A;  4YQG A; 
#chains in the Genus database with same CATH topology
 4YQO A;  4YQQ A;  3ONP A;  3GYQ A;  3KOR A;  4CND A;  3BBH A;  2OZ9 R;  4YVH A;  5CO4 A;  4H3Z A;  4MCD A;  4CNF A;  4MCB A;  3KY7 A;  4YVG A;  3OIN A;  4YQ9 A;  1J85 A;  3AI9 X;  4YVK A;  4YQP A;  3KNU A;  4YVJ A;  1TO0 A;  4JWG A;  2EGW A;  1RCS A;  3IEF A;  3IC6 A;  4YQI A;  4X3L A;  4CNG A;  2EGV A;  1UAL A;  4L69 A;  4JAL A;  1VHK A;  4FMW A;  4YQL A;  4X3M A;  1ZJR A;  4YQ8 A;  1UAM A;  1VHY A;  1JHG A;  1IPA A;  2HA8 A;  1NXZ A;  1WRS R;  4H3Y A;  3L8U A;  4YQ4 A;  3SSW N;  1GZ0 A;  1MXI A;  3NK6 A;  4KGN A;  4JWF A;  1CO0 A;  1X7P A;  4YQ3 A;  5D9F A;  4YQS A;  3N4J A;  1V6Z A;  3BBD A;  1WRP R;  1WRT R;  2CX8 A;  4YQT A;  4YPX A;  4YQ1 A;  4CNE A;  3ILK A;  4YQD A;  2V3K A;  3OIJ A;  1VH0 A;  3NK7 A;  3AIA A;  1O6D A;  4JWJ A;  4XBO A;  1OY5 A;  5FAI A;  2Z0Y A;  4PZK A;  4YQB A;  1X7O A;  3G1C A;  4YQK A;  1UAK A;  4E8B A;  2V3J A;  4YQJ A;  5GMB A;  3FRW A;  4YPZ A;  4YQ2 A;  3N4K A;  4YVI A;  3KW2 A;  4JWH A;  1Z85 A;  3O7B A;  4YQ7 A;  4MCC A;  2XDI A;  4YQR A;  1TRR A;  2YY8 A;  5GM8 A;  3WRP A;  1UAJ A;  1K3R A;  3QUV A;  4YQC A;  4YQ6 A;  4RG1 A;  3OII A;  4YPW A;  3DCM X;  1V2X A;  1NS5 A;  2O3A A;  5GMC A;  4YPY A;  3KTY A;  1P9P A;  3AXZ A;  4YQ0 A;  1MI7 R;  4IG6 A;  3SSX N;  3BBE A;  4FAK A;  1ZT9 A;  4J3C A;  4KDZ A;  4YQ5 A;  4YQN A;  2QMM A;  2I6D A;  2QWV A;  3E5Y A;  4YQA A;  1TRO A;  4JAK A;  4YQG A; 
#chains in the Genus database with same CATH homology
 4YQO A;  4YQQ A;  3ONP A;  3GYQ A;  4CND A;  3BBH A;  4YVH A;  5CO4 A;  4H3Z A;  4MCD A;  4CNF A;  4MCB A;  3KY7 A;  4YVG A;  3OIN A;  4YQ9 A;  1J85 A;  3AI9 X;  4YVK A;  4YQP A;  3KNU A;  4YVJ A;  1TO0 A;  4JWG A;  2EGW A;  3IEF A;  3IC6 A;  4YQI A;  4X3L A;  4CNG A;  2EGV A;  1UAL A;  4L69 A;  4JAL A;  1VHK A;  4FMW A;  4YQL A;  4X3M A;  1ZJR A;  4YQ8 A;  1UAM A;  1VHY A;  1IPA A;  2HA8 A;  1NXZ A;  4H3Y A;  3L8U A;  4YQ4 A;  1GZ0 A;  1MXI A;  3NK6 A;  4KGN A;  4JWF A;  1X7P A;  4YQ3 A;  5D9F A;  4YQS A;  3N4J A;  1V6Z A;  3BBD A;  2CX8 A;  4YQT A;  4YPX A;  4YQ1 A;  4CNE A;  3ILK A;  4YQD A;  2V3K A;  3OIJ A;  1VH0 A;  3NK7 A;  3AIA A;  1O6D A;  4JWJ A;  4XBO A;  1OY5 A;  5FAI A;  2Z0Y A;  4PZK A;  4YQB A;  1X7O A;  4YQK A;  1UAK A;  4E8B A;  2V3J A;  4YQJ A;  5GMB A;  4YQ2 A;  4YPZ A;  3N4K A;  4YVI A;  3KW2 A;  4JWH A;  1Z85 A;  3O7B A;  4YQ7 A;  4MCC A;  4YQR A;  2YY8 A;  5GM8 A;  1UAJ A;  1K3R A;  3QUV A;  4YQC A;  4YQ6 A;  4RG1 A;  3OII A;  4YPW A;  3DCM X;  1V2X A;  1NS5 A;  2O3A A;  5GMC A;  4YPY A;  3KTY A;  1P9P A;  3AXZ A;  4YQ0 A;  4IG6 A;  3BBE A;  4FAK A;  4J3C A;  4KDZ A;  4YQ5 A;  4YQN A;  2QMM A;  2I6D A;  2QWV A;  3E5Y A;  4YQA A;  4JAK A;  4YQG 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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3IEFA

Total Genus

Knots found

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations