3KY7A

2.35 angstrom resolution crystal structure of a putative trna (guanine-7-)-methyltransferase (trmd) from staphylococcus aureus subsp. aureus mrsa252
Total Genus 61
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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
61
Knots found
sequence length
243
structure length
228
Chain Sequence
MKIDYLTLFPEMFDGVLNHSIMKRAQENNKLQINTVNFRDYANKHNQVDDYPYGGGQGMVLKPEPVFNAMEDLDVTEQARVILMPQGEPFSHQKAVELSKADHIVFICGHYEGYDERIRTHLVTDEISMGDYVLTGGELPAMTMTDAIVRLIPGSDGLLEFPQYTRPREFKGLTVPDVLLSGNHANIDAWRHEQKLIRTYNKRPDLIEKYPLTNADKQILERYKIGLK
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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

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

Chord Diagram
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molecule tags Transferase
molecule keywords tRNA (guanine-N(1)-)-methyltransferase
publication title 2.35 Angstrom resolution crystal structure of a putative tRNA (guanine-7-)-methyltransferase (trmD) from Staphylococcus aureus subsp. aureus MRSA252
rcsb
source organism Staphylococcus aureus subsp. aureus
total genus 61
structure length 228
sequence length 243
other databases KnotProt 2.0: K +31
ec nomenclature ec 2.1.1.228: tRNA (guanine(37)-N(1))-methyltransferase.
pdb deposition date 2009-12-04

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
ClassArchitectureTopologyHomologyDomain
1.10.1270.20 Mainly Alpha Orthogonal Bundle Trp Operon Repressor; Chain A tRNA(m1g37)methyltransferase, domain 2 3ky7A02
3.40.1280.10 Alpha Beta 3-Layer(aba) Sandwich Alpha/beta knot Alpha/beta knot 3ky7A01
3QUVA 1P9PA 1Z85A 4IG6A 4FAKA 4YPYA 1OY5A 4YVJA 4YQ2A 5D9FA 4JALA 4YQ8A 3AXZA 3BBHA 4CNFA 4YQOA 4YQ5A 1UALA 4YQQA 3ILKA 4YQBA 5FAIA 4RG1A 4X3LA 4MCDA 4YQRA 1NXZA 4YQTA 3BBDA 2YY8A 2I6DA 3O7BA 2QWVA 4YQ7A 1MXIA 2EGVA 1K3RA 2CX8A 2V3JA 3IC6A 1VHYA 1ZJRA 4J3CA 1VHKA 5CO4A 4YQNA 4YPZA 3KW2A 4KGNA 3E5YA 4YVHA 4YVGA 3KY7A 4YPWA 4YQ9A 4X3MA 4JAKA 1UAJA 1V2XA 5GM8A 4YQ0A 3OIJA 4YQKA 4YQCA 4YQLA 4YQSA 4YQJA 2O3AA 5GMBA 4MCBA 1UAMA 1UAKA 4YQIA 3BBEA 3AI9X 2V3KA 1J85A 4YQ4A 4CNDA 1GZ0A 1TO0A 2QMMA 4YQPA 4H3ZA 4CNGA 4L69A 1V6ZA 4YQAA 4YQDA 3OINA 4YQ6A 4XBOA 2HA8A 3ONPA 3AIAA 1O6DA 5GMCA 3GYQA 4YVIA 4H3YA 4PZKA 4CNEA 4YQGA 4YPXA 3NK7A 3KNUA 4KDZA 4E8BA 3NK6A 4MCCA 4YVKA 3L8UA 1NS5A 3N4KA 2Z0YA 3DCMX 1X7OA 1VH0A 1X7PA 4YQ1A 2EGWA 3KTYA 3IEFA 3OIIA 3N4JA 1IPAA 4YQ3A
chains in the Genus database with same CATH superfamily
3QUVA 1P9PA 1Z85A 4IG6A 4FAKA 4YPYA 1OY5A 4YVJA 1WRTR 4YQ2A 4JWFA 5D9FA 4JALA 4YQ8A 3AXZA 3SSXN 3BBHA 4CNFA 4YQOA 4YQ5A 4JWJA 1UALA 4YQQA 3ILKA 4YQBA 5FAIA 4RG1A 4X3LA 4MCDA 4YQRA 1NXZA 4YQTA 3BBDA 2YY8A 2I6DA 3O7BA 2QWVA 4YQ7A 4JWHA 1MXIA 3WRPA 2EGVA 1K3RA 2CX8A 3SSWN 2V3JA 1TROA 3IC6A 1VHYA 1ZJRA 4J3CA 1VHKA 5CO4A 4YQNA 4YPZA 1WRSR 3KW2A 4JWGA 4KGNA 3E5YA 4YVHA 4YVGA 4FMWA 3KY7A 4YPWA 1CO0A 4YQ9A 4X3MA 4JAKA 1UAJA 1V2XA 5GM8A 4YQ0A 3OIJA 4YQKA 4YQCA 4YQLA 1JHGA 4YQSA 4YQJA 1TRRA 2O3AA 2OZ9R 5GMBA 3FRWA 4MCBA 1UAMA 1UAKA 4YQIA 3BBEA 3KORA 3AI9X 2V3KA 1J85A 4YQ4A 4CNDA 1GZ0A 1TO0A 1ZT9A 1MI7R 2QMMA 4YQPA 4H3ZA 1RCSA 4CNGA 4L69A 1V6ZA 4YQAA 4YQDA 3OINA 4YQ6A 4XBOA 2HA8A 3ONPA 3AIAA 1O6DA 5GMCA 3GYQA 4YVIA 4H3YA 4PZKA 4CNEA 4YQGA 4YPXA 3NK7A 3G1CA 3KNUA 4KDZA 4E8BA 3NK6A 4MCCA 4YVKA 3L8UA 1NS5A 3N4KA 1WRPR 2Z0YA 3DCMX 1X7OA 1VH0A 1X7PA 4YQ1A 2EGWA 3KTYA 3IEFA 3OIIA 3N4JA 1IPAA 2XDIA 4YQ3A
chains in the Genus database with same CATH topology
3QUVA 1P9PA 1Z85A 4IG6A 4FAKA 4YPYA 1OY5A 4YVJA 4YQ2A 4JWFA 5D9FA 4JALA 4YQ8A 3AXZA 3BBHA 4CNFA 4YQOA 4YQ5A 4JWJA 1UALA 4YQQA 3ILKA 4YQBA 5FAIA 4RG1A 4X3LA 4MCDA 4YQRA 1NXZA 4YQTA 3BBDA 2YY8A 2I6DA 3O7BA 2QWVA 4YQ7A 4JWHA 1MXIA 2EGVA 1K3RA 2CX8A 2V3JA 3IC6A 1VHYA 1ZJRA 4J3CA 1VHKA 5CO4A 4YQNA 4YPZA 3KW2A 4JWGA 4KGNA 3E5YA 4YVHA 4YVGA 4FMWA 3KY7A 4YPWA 4YQ9A 4X3MA 4JAKA 1UAJA 1V2XA 5GM8A 4YQ0A 3OIJA 4YQKA 4YQCA 4YQLA 4YQSA 4YQJA 2O3AA 5GMBA 4MCBA 1UAMA 1UAKA 4YQIA 3BBEA 3AI9X 2V3KA 1J85A 4YQ4A 4CNDA 1GZ0A 1TO0A 2QMMA 4YQPA 4H3ZA 4CNGA 4L69A 1V6ZA 4YQAA 4YQDA 3OINA 4YQ6A 4XBOA 2HA8A 3ONPA 3AIAA 1O6DA 5GMCA 3GYQA 4YVIA 4H3YA 4PZKA 4CNEA 4YQGA 4YPXA 3NK7A 3KNUA 4KDZA 4E8BA 3NK6A 4MCCA 4YVKA 3L8UA 1NS5A 3N4KA 2Z0YA 3DCMX 1X7OA 1VH0A 1X7PA 4YQ1A 2EGWA 3KTYA 3IEFA 3OIIA 3N4JA 1IPAA 4YQ3A
chains in the Genus database with same CATH homology


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