4YQAA

Crystal structure of trmd, a m1g37 trna methyltransferase with sam-competitive compounds
Total Genus 72
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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
72
sequence length
248
structure length
237
Chain Sequence
SHMWIGVISLFPEMFKAITEFGVTGRAVKHNLLKVECWNPRDFTFDKHKTVDDRPYGGGPGMLMMVQPLRDAIHTAKAAAGEGAKVIYLSPQGRKLDQGGVTELAQNQKLILVCGRYEGIDERLIQTEIDEEWSIGDYVLTGGELPAMTLIDAVARFIPGVLGDGLLDCPHYTRPEVLEGLTVPPVLMSGHHEEIRKWRLKQSLQRTWLRRPELLEGLALTDEQRKLLKEAQAEHNS
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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 72
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 4yqaA02
3.40.1280.10 Alpha Beta 3-Layer(aba) Sandwich Alpha/beta knot Alpha/beta knot 4yqaA01
1VHKA 3KW2A 4YQ1A 4YQSA 4X3LA 3DCMX 1V6ZA 4YQ2A 5D9FA 1NS5A 4YQTA 4YVIA 4YVJA 4JAKA 4KDZA 3KNUA 4CNDA 1MXIA 3GYQA 3AIAA 4E8BA 4RG1A 3IC6A 5GMBA 3AI9X 4YQJA 1VH0A 2I6DA 1GZ0A 4YQGA 1TO0A 3OIJA 1ZJRA 2YY8A 1O6DA 4YQNA 4YQOA 4YVGA 4YQ9A 2CX8A 1P9PA 4MCDA 3L8UA 3ILKA 4L69A 4YQ4A 4YPXA 4YQ3A 1VHYA 4YQLA 3N4JA 4H3YA 4YQ5A 1X7OA 5GMCA 4YQIA 1K3RA 1V2XA 2QWVA 4YQAA 4CNFA 4J3CA 4H3ZA 3BBEA 4CNGA 4IG6A 3BBHA 2HA8A 2Z0YA 3OIIA 2QMMA 1Z85A 4YQQA 1UAJA 3KY7A 4MCBA 1UALA 4YQPA 4YPYA 1J85A 2EGVA 4YQRA 1X7PA 4YVKA 4YQ6A 3O7BA 3ONPA 3IEFA 2EGWA 5GM8A 1NXZA 4MCCA 4YPWA 3OINA 3AXZA 3BBDA 4YQDA 3NK6A 3N4KA 1IPAA 4YQ8A 4YVHA 2V3KA 3E5YA 4YQ0A 4KGNA 3NK7A 4PZKA 4FAKA 5FAIA 2V3JA 2O3AA 4YQ7A 5CO4A 4CNEA 1UAKA 1OY5A 1UAMA 4YQCA 3QUVA 4YQKA 4YPZA 4X3MA 4JALA 4XBOA 3KTYA 4YQBA
chains in the Genus database with same CATH superfamily
1VHKA 3KW2A 4YQ1A 4YQSA 4X3LA 3DCMX 1V6ZA 4YQ2A 5D9FA 1NS5A 4YQTA 4YVIA 4YVJA 4JAKA 4KDZA 3KNUA 4CNDA 1MXIA 3GYQA 3KORA 3AIAA 4E8BA 4RG1A 3IC6A 5GMBA 3AI9X 4JWJA 3SSXN 4YQJA 1VH0A 2I6DA 1GZ0A 4YQGA 1TO0A 3OIJA 1ZJRA 2YY8A 1O6DA 1WRTR 1WRPR 4YQNA 4YQOA 4YVGA 4YQ9A 2CX8A 1P9PA 4MCDA 1CO0A 3L8UA 1JHGA 3ILKA 4L69A 4YQ4A 4YPXA 4YQ3A 1VHYA 4YQLA 3N4JA 4H3YA 4YQ5A 1X7OA 5GMCA 4YQIA 1K3RA 1V2XA 2QWVA 4YQAA 4CNFA 4J3CA 4H3ZA 3BBEA 4CNGA 4IG6A 3BBHA 2HA8A 2Z0YA 3OIIA 2OZ9R 2QMMA 3SSWN 1Z85A 4YQQA 1UAJA 3KY7A 4MCBA 1UALA 1WRSR 4YQPA 4JWFA 4YPYA 1J85A 2EGVA 3G1CA 4YQRA 1X7PA 4YVKA 4YQ6A 3O7BA 3ONPA 3IEFA 3WRPA 2EGWA 5GM8A 2XDIA 1NXZA 4MCCA 4YPWA 3OINA 3AXZA 3BBDA 4YQDA 3NK6A 4FMWA 1TROA 3N4KA 1IPAA 4YQ8A 4JWHA 1RCSA 4YVHA 2V3KA 3E5YA 4YQ0A 4KGNA 3NK7A 4PZKA 4FAKA 1TRRA 1ZT9A 5FAIA 2V3JA 2O3AA 4YQ7A 5CO4A 3FRWA 1OY5A 1UAKA 4CNEA 1UAMA 4YQCA 3QUVA 4YQKA 4YPZA 4X3MA 4JALA 4JWGA 4XBOA 3KTYA 1MI7R 4YQBA
chains in the Genus database with same CATH topology
1VHKA 3KW2A 4YQ1A 4YQSA 4X3LA 3DCMX 1V6ZA 4YQ2A 5D9FA 1NS5A 4YQTA 4YVIA 4YVJA 4JAKA 4KDZA 3KNUA 4CNDA 1MXIA 3GYQA 3AIAA 4E8BA 4RG1A 3IC6A 5GMBA 3AI9X 4JWJA 4YQJA 1VH0A 2I6DA 1GZ0A 4YQGA 1TO0A 3OIJA 1ZJRA 2YY8A 1O6DA 4YQNA 4YQOA 4YVGA 4YQ9A 2CX8A 1P9PA 4MCDA 3L8UA 3ILKA 4L69A 4YQ4A 4YPXA 4YQ3A 1VHYA 4YQLA 3N4JA 4H3YA 4YQ5A 1X7OA 5GMCA 4YQIA 1K3RA 1V2XA 2QWVA 4YQAA 4CNFA 4J3CA 4H3ZA 3BBEA 4CNGA 4IG6A 3BBHA 2HA8A 2Z0YA 3OIIA 2QMMA 1Z85A 4YQQA 1UAJA 3KY7A 4MCBA 1UALA 4YQPA 4JWFA 4YPYA 1J85A 2EGVA 4YQRA 1X7PA 4YVKA 4YQ6A 3O7BA 3ONPA 3IEFA 2EGWA 5GM8A 1NXZA 4MCCA 4YPWA 3OINA 3AXZA 3BBDA 4YQDA 3NK6A 4FMWA 3N4KA 1IPAA 4YQ8A 4JWHA 4YVHA 2V3KA 3E5YA 4YQ0A 4KGNA 3NK7A 4PZKA 4FAKA 5FAIA 2V3JA 2O3AA 4YQ7A 5CO4A 4CNEA 1UAKA 1OY5A 1UAMA 4YQCA 3QUVA 4YQKA 4YPZA 4X3MA 4JALA 4JWGA 4XBOA 3KTYA 4YQBA
chains in the Genus database with same CATH homology


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