4YQKA

Crystal structure of trmd, a m1g37 trna methyltransferase with sam-competitive compounds
Total Genus 73
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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
73
sequence length
248
structure length
237
Chain Sequence
GSHMWIGVISLFPEMFKAITEFGVTGRAVKHNLLKVECWNPRDFTFDKHKTVDDRPYGGGPGMLMMVQPLRDAIHTAKAAAGEGAKVIYLSPQGRKLDQGGVTELAQNQKLILVCGRYEGIDERLIQTEIDEEWSIGDYVLTGGELPAMTLIDAVARFIPGVLGDGLLDCPHYTRPEVLEGLTVPPVLMSGHHEEIRKWRLKQSLQRTWLRRPELLEGLALTDEQRKLLKEAQAEHN
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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 keywords tRNA (guanine-N(1)-)-methyltransferase
publication title Crystal structure of TrmD, a M1G37 tRNA Methyltransferase with SAM-competitive compounds
rcsb
source organism Haemophilus influenzae (strain atcc 51907 / dsm 11121 / kw20 / rd)
molecule tags Transferase/transferase inhibitor
total genus 73
structure length 237
sequence length 248
ec nomenclature ec 2.1.1.228: tRNA (guanine(37)-N(1))-methyltransferase.
pdb deposition date 2015-03-13

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 4yqkA02
3.40.1280.10 Alpha Beta 3-Layer(aba) Sandwich Alpha/beta knot Alpha/beta knot 4yqkA01
4YQ5A 4YQ8A 4L69A 1V2XA 4YPXA 4YQ7A 1NS5A 3ONPA 4YQ1A 4YQ2A 1Z85A 3AIAA 5GMCA 4CNEA 1X7PA 3KNUA 3BBEA 5CO4A 4CNDA 1VHKA 4YQTA 1ZJRA 5D9FA 4YPYA 4YQAA 4YQSA 4YVJA 1MXIA 4CNFA 4YQ3A 3BBDA 3GYQA 3OIIA 4RG1A 4YVKA 1NXZA 5FAIA 2EGWA 1OY5A 2HA8A 3AXZA 4JALA 4YPWA 4YQNA 2I6DA 4YPZA 4FAKA 4JAKA 3KTYA 3IC6A 3E5YA 1VHYA 4YQOA 3QUVA 4J3CA 4YQRA 4YQDA 3OINA 4H3YA 3ILKA 1K3RA 4KGNA 1UAJA 3NK6A 4CNGA 4YQKA 4E8BA 5GMBA 4YQJA 3BBHA 4H3ZA 3N4JA 3NK7A 4X3LA 4X3MA 4XBOA 3OIJA 1VH0A 1V6ZA 4YQ6A 2YY8A 1P9PA 4IG6A 3AI9X 2EGVA 4YQ4A 3IEFA 4YQBA 4PZKA 3O7BA 4YQLA 4YQQA 3L8UA 3KY7A 2QMMA 4YQ0A 4YQGA 2V3JA 1UAMA 4MCCA 3N4KA 1TO0A 4YQIA 2Z0YA 1GZ0A 4MCBA 4YVGA 1IPAA 1J85A 4KDZA 4YQ9A 5GM8A 4YQPA 4YVHA 3KW2A 1UALA 2CX8A 4MCDA 1UAKA 2V3KA 4YVIA 4YQCA 2QWVA 2O3AA 1O6DA 1X7OA 3DCMX
chains in the Genus database with same CATH superfamily
4YQ5A 4YQ8A 4L69A 1V2XA 4YPXA 4JWFA 4YQ7A 1NS5A 3ONPA 4YQ1A 4YQ2A 1Z85A 3AIAA 5GMCA 4CNEA 1X7PA 3KNUA 3BBEA 5CO4A 4JWGA 4CNDA 1VHKA 4YQTA 1ZJRA 5D9FA 4YPYA 1WRSR 4YQAA 4YQSA 4YVJA 1MXIA 1WRPR 4CNFA 4YQ3A 3BBDA 3GYQA 3OIIA 4RG1A 4YVKA 1NXZA 5FAIA 2EGWA 1OY5A 1CO0A 1WRTR 2HA8A 2XDIA 3AXZA 4YPWA 4JALA 1ZT9A 4YQNA 2I6DA 4YPZA 4FAKA 4JAKA 3KTYA 3IC6A 3E5YA 1VHYA 4YQOA 3QUVA 4J3CA 1JHGA 1MI7R 4YQRA 4YQDA 3OINA 4H3YA 3ILKA 4JWJA 1K3RA 4KGNA 1UAJA 3NK6A 1TROA 4CNGA 4YQKA 4E8BA 3WRPA 5GMBA 4YQJA 2OZ9R 1TRRA 3BBHA 4H3ZA 3N4JA 3NK7A 3G1CA 4X3LA 4X3MA 4XBOA 3FRWA 1VH0A 3OIJA 1V6ZA 4YQ6A 2YY8A 1P9PA 4IG6A 3AI9X 2EGVA 4YQ4A 3IEFA 4YQBA 4PZKA 3SSXN 3O7BA 4YQLA 4YQQA 3L8UA 3KY7A 3KORA 2QMMA 4YQ0A 1RCSA 4YQGA 2V3JA 1UAMA 4MCCA 4FMWA 3N4KA 1TO0A 4YQIA 2Z0YA 1GZ0A 4MCBA 4YVGA 1IPAA 1J85A 4KDZA 4YQ9A 5GM8A 4YQPA 4YVHA 3KW2A 1UALA 2CX8A 4JWHA 4MCDA 1UAKA 2V3KA 3SSWN 4YVIA 4YQCA 2QWVA 2O3AA 1O6DA 1X7OA 3DCMX
chains in the Genus database with same CATH topology
4YQ5A 4YQ8A 4L69A 1V2XA 4YPXA 4JWFA 4YQ7A 1NS5A 3ONPA 4YQ1A 4YQ2A 1Z85A 3AIAA 5GMCA 4CNEA 1X7PA 3KNUA 3BBEA 5CO4A 4JWGA 4CNDA 1VHKA 4YQTA 1ZJRA 5D9FA 4YPYA 4YQAA 4YQSA 4YVJA 1MXIA 4CNFA 4YQ3A 3BBDA 3GYQA 3OIIA 4RG1A 4YVKA 1NXZA 5FAIA 2EGWA 1OY5A 2HA8A 3AXZA 4JALA 4YPWA 4YQNA 2I6DA 4YPZA 4FAKA 4JAKA 3KTYA 3IC6A 3E5YA 1VHYA 4YQOA 3QUVA 4J3CA 4YQRA 4YQDA 3OINA 4H3YA 3ILKA 4JWJA 1K3RA 4KGNA 1UAJA 3NK6A 4CNGA 4YQKA 4E8BA 5GMBA 4YQJA 3BBHA 4H3ZA 3N4JA 3NK7A 4X3LA 4X3MA 4XBOA 3OIJA 1VH0A 1V6ZA 4YQ6A 2YY8A 1P9PA 4IG6A 3AI9X 2EGVA 4YQ4A 3IEFA 4YQBA 4PZKA 3O7BA 4YQLA 4YQQA 3L8UA 3KY7A 2QMMA 4YQ0A 4YQGA 2V3JA 1UAMA 4MCCA 4FMWA 3N4KA 1TO0A 4YQIA 2Z0YA 1GZ0A 4MCBA 4YVGA 1IPAA 1J85A 4KDZA 4YQ9A 5GM8A 4YQPA 4YVHA 3KW2A 1UALA 2CX8A 4JWHA 4MCDA 1UAKA 2V3KA 4YVIA 4YQCA 2QWVA 2O3AA 1O6DA 1X7OA 3DCMX
chains in the Genus database with same CATH homology


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