4YQIA

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
249
structure length
238
Chain Sequence
GSHMWIGVISLFPEMFKAITEFGVTGRAVKHNLLKVECWNPRDFTFDKHKTVDDRPYGGGPGMLMMVQPLRDAIHTAKAAAGEGAKVIYLSPQGRKLDQGGVTELAQNQKLILVCGRYEGIDERLIQTEIDEEWSIGDYVLTGGELPAMTLIDAVARFIPGVLGDGLLDCPHYTRPEVLEGLTVPPVLMSGHHEEIRKWRLKQSLQRTWLRRPELLEGLALTDEQRKLLKEAQAEHNS
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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 238
sequence length 249
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 4yqiA02
3.40.1280.10 Alpha Beta 3-Layer(aba) Sandwich Alpha/beta knot Alpha/beta knot 4yqiA01
2EGWA 3AI9X 4YQ8A 1MXIA 5FAIA 1UAKA 4YQBA 1NXZA 4YQ2A 1J85A 4YPXA 2QMMA 4CNDA 1IPAA 4FAKA 3AXZA 1O6DA 4YPWA 1X7OA 3KW2A 4YQ0A 4YVIA 3L8UA 4X3LA 4L69A 4RG1A 4KDZA 1V6ZA 3ILKA 4YVKA 1TO0A 3O7BA 3ONPA 4YPYA 5CO4A 1VHYA 4YQ1A 3OIJA 4YQ4A 4H3YA 4YQLA 3KY7A 2YY8A 4YQ3A 4YQNA 5GMBA 2CX8A 1UAMA 1GZ0A 4YVJA 4H3ZA 3OIIA 4YQDA 4YQ7A 4YQ5A 1ZJRA 2I6DA 3E5YA 2V3JA 4CNGA 3DCMX 4JAKA 4XBOA 4IG6A 1UALA 4MCDA 4YVHA 4YQ9A 3QUVA 4YQRA 4YPZA 4YQOA 1Z85A 2QWVA 1OY5A 4YQKA 1V2XA 4YQSA 3AIAA 3N4JA 4YQ6A 3OINA 1P9PA 1K3RA 4CNEA 2O3AA 4YQCA 1NS5A 5GMCA 2HA8A 4YQGA 1X7PA 4YQIA 4YQAA 4KGNA 4PZKA 4MCBA 4MCCA 4E8BA 3IC6A 4J3CA 4X3MA 2Z0YA 4YQQA 3BBHA 4YQPA 1VH0A 4JALA 4YQJA 3KTYA 3NK7A 1UAJA 2EGVA 2V3KA 3N4KA 3BBDA 3NK6A 5D9FA 1VHKA 3KNUA 3BBEA 4YQTA 3IEFA 4CNFA 4YVGA 5GM8A 3GYQA
chains in the Genus database with same CATH superfamily
2EGWA 3AI9X 4YQ8A 1MXIA 1CO0A 5FAIA 1UAKA 4YQBA 1NXZA 4YQ2A 1J85A 1WRSR 4YPXA 2QMMA 4CNDA 4JWFA 1IPAA 4FAKA 3AXZA 1O6DA 4YPWA 1X7OA 1ZT9A 1TRRA 4YQ0A 4YVIA 3SSWN 3KW2A 3L8UA 4X3LA 1WRTR 4L69A 4RG1A 4KDZA 3WRPA 2OZ9R 1V6ZA 3ILKA 4YVKA 1TO0A 3O7BA 3ONPA 4YPYA 1MI7R 5CO4A 1VHYA 4YQ1A 3OIJA 4YQ4A 4H3YA 4YQLA 3KY7A 2YY8A 4YQ3A 4YQNA 5GMBA 2CX8A 1UAMA 1GZ0A 4YVJA 4H3ZA 3OIIA 4YQDA 4YQ7A 4YQ5A 1ZJRA 2I6DA 3E5YA 2V3JA 4CNGA 3DCMX 4JAKA 4XBOA 4IG6A 1UALA 4MCDA 4YVHA 3SSXN 4YQ9A 3QUVA 4YQRA 4YPZA 4YQOA 1Z85A 2QWVA 4FMWA 1OY5A 4YQKA 1V2XA 1JHGA 4YQSA 3AIAA 3N4JA 4YQ6A 3OINA 3KORA 1P9PA 1K3RA 4JWGA 4CNEA 1RCSA 2O3AA 4YQCA 1NS5A 2XDIA 5GMCA 2HA8A 4YQGA 1X7PA 4YQIA 1WRPR 4YQAA 4KGNA 4JWJA 4PZKA 4MCBA 4MCCA 4E8BA 3IC6A 4J3CA 4X3MA 2Z0YA 4YQQA 3BBHA 4YQPA 1VH0A 4JALA 4YQJA 3KTYA 4JWHA 1TROA 3NK7A 1UAJA 2EGVA 2V3KA 3N4KA 3BBDA 3NK6A 5D9FA 1VHKA 3FRWA 3KNUA 3BBEA 4YQTA 3IEFA 4CNFA 4YVGA 5GM8A 3G1CA 3GYQA
chains in the Genus database with same CATH topology
2EGWA 3AI9X 4YQ8A 1MXIA 5FAIA 1UAKA 4YQBA 1NXZA 4YQ2A 1J85A 4YPXA 2QMMA 4CNDA 4JWFA 1IPAA 4FAKA 3AXZA 1O6DA 4YPWA 1X7OA 3KW2A 4YQ0A 4YVIA 3L8UA 4X3LA 4L69A 4RG1A 4KDZA 1V6ZA 3ILKA 4YVKA 1TO0A 3O7BA 3ONPA 4YPYA 5CO4A 1VHYA 4YQ1A 3OIJA 4YQ4A 4H3YA 4YQLA 3KY7A 2YY8A 4YQ3A 4YQNA 5GMBA 2CX8A 1UAMA 1GZ0A 4YVJA 4H3ZA 3OIIA 4YQDA 4YQ7A 4YQ5A 1ZJRA 2I6DA 3E5YA 2V3JA 4CNGA 3DCMX 4JAKA 4XBOA 4IG6A 1UALA 4MCDA 4YVHA 4YQ9A 3QUVA 4YQRA 4YPZA 4YQOA 1Z85A 2QWVA 4FMWA 1OY5A 4YQKA 1V2XA 4YQSA 3AIAA 3N4JA 4YQ6A 3OINA 1P9PA 1K3RA 4JWGA 4CNEA 2O3AA 4YQCA 1NS5A 5GMCA 2HA8A 4YQGA 1X7PA 4YQIA 4YQAA 4KGNA 4JWJA 4PZKA 4MCBA 4MCCA 4E8BA 3IC6A 4J3CA 4X3MA 2Z0YA 4YQQA 3BBHA 4YQPA 1VH0A 4JALA 4YQJA 3KTYA 4JWHA 3NK7A 1UAJA 2EGVA 2V3KA 3N4KA 3BBDA 3NK6A 5D9FA 1VHKA 3KNUA 3BBEA 4YQTA 3IEFA 4CNFA 4YVGA 5GM8A 3GYQA
chains in the Genus database with same CATH homology


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