5D9FA

Crystal structure of trmd, a m1g37 trna methyltransferase with sam-competitive compounds
Total Genus 69
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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
69
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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publication title Crystal structure of TrmD, a M1G37 tRNA Methyltransferase with SAM-competitive compounds
rcsb
molecule tags Transferase/transferase inhibitor
source organism Haemophilus influenzae
molecule keywords tRNA (guanine-N(1)-)-methyltransferase
total genus 69
structure length 237
sequence length 248
ec nomenclature ec 2.1.1.228: tRNA (guanine(37)-N(1))-methyltransferase.
pdb deposition date 2015-08-18

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 5d9fA02
3.40.1280.10 Alpha Beta 3-Layer(aba) Sandwich Alpha/beta knot Alpha/beta knot 5d9fA01
1NS5A 4E8BA 2O3AA 4CNGA 4MCBA 4YQTA 3ONPA 1VHYA 3NK6A 4YPWA 4YQJA 1UAKA 4YQ8A 5D9FA 2HA8A 2EGWA 2QWVA 2QMMA 4JALA 1UAJA 4MCDA 1VHKA 3KNUA 3OIIA 5GMBA 1O6DA 4RG1A 4YQCA 4YQNA 1P9PA 4L69A 4H3ZA 2YY8A 4YQBA 4YQ4A 3OINA 3N4KA 2V3JA 5GMCA 4FAKA 4YQPA 5FAIA 4YPYA 4YQAA 4YVGA 1IPAA 3NK7A 1UALA 3DCMX 1VH0A 4CNDA 4YPXA 4YQQA 4YVJA 3N4JA 1J85A 4IG6A 3L8UA 4YQ0A 4MCCA 4YVKA 4KDZA 3ILKA 4XBOA 4YVHA 4YQKA 3KY7A 1V2XA 4J3CA 3KW2A 3E5YA 1NXZA 4YQSA 4YQLA 3AIAA 1V6ZA 5GM8A 4X3MA 1X7PA 4PZKA 3GYQA 1GZ0A 1MXIA 4YQ2A 5CO4A 3AI9X 4YQ6A 3BBDA 4YQRA 1TO0A 4KGNA 2I6DA 4YQ3A 3OIJA 1K3RA 1UAMA 2CX8A 1X7OA 4YQOA 4JAKA 4YQ7A 4YQ5A 4YQ1A 3BBEA 4YQ9A 4X3LA 3AXZA 3IEFA 4H3YA 4CNEA 4YQGA 4YPZA 4YQDA 4CNFA 3O7BA 3IC6A 3BBHA 3QUVA 4YVIA 2V3KA 1ZJRA 2EGVA 1OY5A 2Z0YA 1Z85A 3KTYA 4YQIA
chains in the Genus database with same CATH superfamily
1NS5A 4E8BA 2O3AA 4CNGA 4MCBA 4YQTA 3ONPA 1VHYA 3NK6A 4YPWA 4YQJA 4FMWA 1UAKA 4YQ8A 5D9FA 2HA8A 2EGWA 2QWVA 2QMMA 4JALA 1UAJA 4MCDA 4JWJA 1VHKA 3KNUA 3OIIA 5GMBA 3G1CA 1O6DA 4RG1A 4YQCA 4YQNA 1P9PA 1ZT9A 1TRRA 3SSXN 1WRPR 4L69A 1TROA 4H3ZA 2YY8A 4YQBA 4YQ4A 3OINA 3N4KA 2V3JA 5GMCA 4FAKA 4YQPA 5FAIA 4YPYA 4YQAA 4YVGA 2XDIA 1IPAA 3NK7A 1UALA 3DCMX 1VH0A 4CNDA 4JWFA 4YPXA 4YQQA 4YVJA 3N4JA 1J85A 4JWGA 4IG6A 3L8UA 4YQ0A 4MCCA 3KORA 4YVKA 4KDZA 3ILKA 4XBOA 4YVHA 4YQKA 3KY7A 1V2XA 4J3CA 1JHGA 3KW2A 3E5YA 1NXZA 4YQSA 4YQLA 3AIAA 1V6ZA 5GM8A 4X3MA 3SSWN 1X7PA 4PZKA 3GYQA 1GZ0A 1MXIA 1WRSR 4YQ2A 5CO4A 3AI9X 4YQ6A 1WRTR 3BBDA 4YQRA 1TO0A 4KGNA 2I6DA 4YQ3A 3OIJA 1K3RA 1UAMA 2CX8A 1X7OA 2OZ9R 3FRWA 4YQOA 4JAKA 4YQ7A 4JWHA 1CO0A 4YQ5A 1MI7R 4YQ1A 1RCSA 3BBEA 4YQ9A 4X3LA 3AXZA 3IEFA 4H3YA 4CNEA 4YQGA 4YPZA 4YQDA 4CNFA 3WRPA 3O7BA 3IC6A 3BBHA 3QUVA 4YVIA 2V3KA 1ZJRA 2EGVA 1OY5A 2Z0YA 1Z85A 3KTYA 4YQIA
chains in the Genus database with same CATH topology
1NS5A 4E8BA 2O3AA 4CNGA 4MCBA 4YQTA 3ONPA 1VHYA 3NK6A 4YPWA 4YQJA 4FMWA 1UAKA 4YQ8A 5D9FA 2HA8A 2EGWA 2QWVA 2QMMA 4JALA 1UAJA 4MCDA 4JWJA 1VHKA 3KNUA 3OIIA 5GMBA 1O6DA 4RG1A 4YQCA 4YQNA 1P9PA 4L69A 4H3ZA 2YY8A 4YQBA 4YQ4A 3OINA 3N4KA 2V3JA 5GMCA 4FAKA 4YQPA 5FAIA 4YPYA 4YQAA 4YVGA 1IPAA 3NK7A 1UALA 3DCMX 1VH0A 4CNDA 4JWFA 4YPXA 4YQQA 4YVJA 3N4JA 1J85A 4JWGA 4IG6A 3L8UA 4YQ0A 4MCCA 4YVKA 4KDZA 3ILKA 4XBOA 4YVHA 4YQKA 3KY7A 1V2XA 4J3CA 3KW2A 3E5YA 1NXZA 4YQSA 4YQLA 3AIAA 1V6ZA 5GM8A 4X3MA 1X7PA 4PZKA 3GYQA 1GZ0A 1MXIA 4YQ2A 5CO4A 3AI9X 4YQ6A 3BBDA 4YQRA 1TO0A 4KGNA 2I6DA 4YQ3A 3OIJA 1K3RA 1UAMA 2CX8A 1X7OA 4YQOA 4JAKA 4YQ7A 4JWHA 4YQ5A 4YQ1A 3BBEA 4YQ9A 4X3LA 3AXZA 3IEFA 4H3YA 4CNEA 4YQGA 4YPZA 4YQDA 4CNFA 3O7BA 3IC6A 3BBHA 3QUVA 4YVIA 2V3KA 1ZJRA 2EGVA 1OY5A 2Z0YA 1Z85A 3KTYA 4YQIA
chains in the Genus database with same CATH homology


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