4YQGA

Crystal structure of trmd, a m1g37 trna methyltransferase with sam-competitive compounds
Total Genus 71
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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
71
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 tags Transferase/transferase inhibitor
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)
total genus 71
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 4yqgA02
3.40.1280.10 Alpha Beta 3-Layer(aba) Sandwich Alpha/beta knot Alpha/beta knot 4yqgA01
4YPZA 3ILKA 4YQ1A 4YQ7A 2QMMA 4FAKA 1UAKA 4YVHA 2HA8A 4X3MA 3OIJA 4KDZA 3KNUA 4H3ZA 1P9PA 1NS5A 1MXIA 1X7OA 2O3AA 4CNEA 1UALA 4JAKA 1NXZA 5FAIA 1K3RA 1VHYA 3N4KA 4CNFA 4RG1A 4H3YA 4YQNA 3IC6A 1ZJRA 4YVKA 3OIIA 3BBHA 1O6DA 1UAJA 4YQ6A 4YQSA 4YQ8A 4YQJA 4YQQA 2Z0YA 1J85A 4IG6A 4MCBA 4YVIA 1V2XA 4YQDA 1VH0A 4MCCA 4YVJA 3L8UA 4YQCA 4YQ0A 3AXZA 4KGNA 4YQPA 4YQ4A 1VHKA 4YQIA 5GMBA 4PZKA 4YQBA 2YY8A 1UAMA 1IPAA 3OINA 3BBEA 3KTYA 3AI9X 4YQGA 4YQOA 4JALA 5GM8A 4L69A 3NK7A 3ONPA 1OY5A 3BBDA 5GMCA 4YQKA 4YQ5A 4XBOA 4J3CA 5CO4A 4E8BA 4YQ3A 4YPXA 3N4JA 4YQAA 3IEFA 3GYQA 4CNDA 4CNGA 1GZ0A 3KY7A 4YQ9A 2I6DA 1X7PA 3KW2A 2EGWA 4MCDA 4YPWA 2EGVA 1TO0A 1V6ZA 4X3LA 3NK6A 3O7BA 3E5YA 4YQTA 5D9FA 4YVGA 4YQRA 4YPYA 2V3KA 2QWVA 4YQLA 4YQ2A 2V3JA 2CX8A 1Z85A 3DCMX 3AIAA 3QUVA
chains in the Genus database with same CATH superfamily
4YPZA 3ILKA 4YQ1A 4YQ7A 3FRWA 2QMMA 4FAKA 1UAKA 2XDIA 4JWFA 4YVHA 2HA8A 4X3MA 3OIJA 4KDZA 3KNUA 4H3ZA 1P9PA 1NS5A 1MXIA 1X7OA 2O3AA 4CNEA 1UALA 4JAKA 1NXZA 5FAIA 1K3RA 1VHYA 3N4KA 4CNFA 4RG1A 4H3YA 4YQNA 3IC6A 1TROA 1ZJRA 4YVKA 3OIIA 3BBHA 1O6DA 1UAJA 4YQ6A 4YQSA 4YQ8A 3G1CA 4YQJA 4YQQA 2Z0YA 1J85A 4IG6A 4MCBA 4YVIA 1V2XA 4YQDA 1VH0A 4MCCA 4YVJA 3L8UA 4YQCA 4YQ0A 3AXZA 4KGNA 4YQPA 4YQ4A 1VHKA 4YQIA 5GMBA 4PZKA 4YQBA 2YY8A 1UAMA 1IPAA 3OINA 3BBEA 3KTYA 3AI9X 4YQGA 4YQOA 3KORA 4JALA 1MI7R 5GM8A 4L69A 4JWHA 3NK7A 3ONPA 1OY5A 1CO0A 3BBDA 5GMCA 4YQKA 4YQ5A 4XBOA 4J3CA 5CO4A 4E8BA 1ZT9A 4YQ3A 4YPXA 3N4JA 4YQAA 3IEFA 3GYQA 4CNDA 1WRSR 3SSXN 4CNGA 1GZ0A 3KY7A 4YQ9A 2I6DA 1JHGA 1TRRA 1X7PA 1WRTR 3KW2A 4FMWA 2EGWA 4MCDA 4YPWA 3WRPA 2EGVA 1TO0A 2OZ9R 1V6ZA 4JWJA 4X3LA 3NK6A 1WRPR 3O7BA 3E5YA 4YQTA 5D9FA 4YVGA 4YQRA 4YPYA 1RCSA 2V3KA 2QWVA 4YQLA 4YQ2A 2V3JA 4JWGA 2CX8A 1Z85A 3DCMX 3SSWN 3AIAA 3QUVA
chains in the Genus database with same CATH topology
4YPZA 3ILKA 4YQ1A 4YQ7A 2QMMA 4FAKA 1UAKA 4JWFA 4YVHA 2HA8A 4X3MA 3OIJA 4KDZA 3KNUA 4H3ZA 1P9PA 1NS5A 1MXIA 1X7OA 2O3AA 4CNEA 1UALA 4JAKA 1NXZA 5FAIA 1K3RA 1VHYA 3N4KA 4CNFA 4RG1A 4H3YA 4YQNA 3IC6A 1ZJRA 4YVKA 3OIIA 3BBHA 1O6DA 1UAJA 4YQ6A 4YQSA 4YQ8A 4YQJA 4YQQA 2Z0YA 1J85A 4IG6A 4MCBA 4YVIA 1V2XA 4YQDA 1VH0A 4MCCA 4YVJA 3L8UA 4YQCA 4YQ0A 3AXZA 4KGNA 4YQPA 4YQ4A 1VHKA 4YQIA 5GMBA 4PZKA 4YQBA 2YY8A 1UAMA 1IPAA 3OINA 3BBEA 3KTYA 3AI9X 4YQGA 4YQOA 4JALA 5GM8A 4L69A 4JWHA 3NK7A 3ONPA 1OY5A 3BBDA 5GMCA 4YQKA 4YQ5A 4XBOA 4J3CA 5CO4A 4E8BA 4YQ3A 4YPXA 3N4JA 4YQAA 3IEFA 3GYQA 4CNDA 4CNGA 1GZ0A 3KY7A 4YQ9A 2I6DA 1X7PA 3KW2A 4FMWA 2EGWA 4MCDA 4YPWA 2EGVA 1TO0A 1V6ZA 4JWJA 4X3LA 3NK6A 3O7BA 3E5YA 4YQTA 5D9FA 4YVGA 4YQRA 4YPYA 2V3KA 2QWVA 4YQLA 4YQ2A 2V3JA 4JWGA 2CX8A 1Z85A 3DCMX 3AIAA 3QUVA
chains in the Genus database with same CATH homology


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