1P9PA

The crystal structure of a m1g37 trna methyltransferase, trmd
Total Genus 67
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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
67
Knots found
sequence length
246
structure length
235
Chain Sequence
MWIGIISLFPEMFRAITDYGVTGRAVKNGLLSIQSWSPRDFTHDRHRTVDDRPYGGGPGMLMMVQPLRDAIHAAKAAAGEGAKVIYLSPQGRKLDQAGVSELATNQKLILVCGRYEGIDERVIQTEIDEEWSIGDYVLSGGELPAMTLIDSVSRFIPGVLGEGLLDCPHYTRPEVLEGMEVPPVLLSGNHAEIRRWRLKQSLGRTWLRRPELLENLALTEEQARLLAEFKTEHAQ
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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
molecule keywords tRNA (Guanine-N(1)-)-methyltransferase
publication title Insights into Catalysis by a Knotted TrmD tRNA Methyltransferase.
pubmed doi rcsb
source organism Escherichia coli
total genus 67
structure length 235
sequence length 246
other databases KnotProt 2.0: K +31
ec nomenclature ec 2.1.1.228: tRNA (guanine(37)-N(1))-methyltransferase.
pdb deposition date 2003-05-12

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 1p9pA02
3.40.1280.10 Alpha Beta 3-Layer(aba) Sandwich Alpha/beta knot Alpha/beta knot 1p9pA01
3AI9X 1J85A 3NK6A 2HA8A 3E5YA 4CNGA 4YVHA 3GYQA 4YQPA 4YVGA 4YQ5A 4YQ8A 1K3RA 4YQ3A 3OINA 4IG6A 4CNFA 1UAKA 4YQIA 4YVKA 4YPZA 4YQTA 1TO0A 4YVIA 5GMBA 3KNUA 4YQQA 3DCMX 1UAMA 2V3JA 4YQ6A 2Z0YA 5FAIA 4H3ZA 4MCDA 4YQNA 4X3LA 1VH0A 2I6DA 2QMMA 4YQBA 4YQ1A 4MCBA 1MXIA 4CNDA 3OIIA 4YPXA 4KGNA 4L69A 3BBEA 1NS5A 1Z85A 3N4JA 2QWVA 3IEFA 4YPYA 2O3AA 3BBDA 3NK7A 3O7BA 4YQ9A 5GMCA 4YQRA 3BBHA 5CO4A 4CNEA 3ILKA 1OY5A 1V6ZA 1UALA 4YQLA 3KW2A 3OIJA 4YQCA 1VHYA 2CX8A 5GM8A 4YQ2A 2EGWA 4KDZA 3IC6A 2YY8A 4YQGA 2V3KA 4H3YA 4YQAA 4YQKA 4YQ0A 1X7PA 3AXZA 3N4KA 4YQJA 1VHKA 4YQ4A 1ZJRA 2EGVA 4YQSA 5D9FA 1IPAA 4X3MA 3QUVA 4PZKA 1UAJA 4YQDA 4RG1A 4XBOA 4J3CA 4FAKA 4YVJA 1NXZA 1X7OA 4YQOA 1P9PA 4JALA 3KY7A 3ONPA 1GZ0A 4YPWA 4YQ7A 4E8BA 4MCCA 3KTYA 3AIAA 1V2XA 4JAKA 3L8UA 1O6DA
chains in the Genus database with same CATH superfamily
3AI9X 1J85A 3NK6A 2HA8A 3E5YA 3WRPA 4CNGA 4YVHA 3GYQA 4FMWA 4YQPA 4JWHA 4YVGA 4YQ5A 4YQ8A 1K3RA 4YQ3A 1WRTR 3OINA 4IG6A 4CNFA 1UAKA 4YQIA 4YVKA 4YPZA 4YQTA 1TO0A 4YVIA 5GMBA 3KNUA 4YQQA 3DCMX 1ZT9A 1UAMA 2V3JA 4YQ6A 2Z0YA 5FAIA 4H3ZA 4MCDA 3FRWA 1RCSA 4YQNA 1JHGA 2XDIA 4X3LA 1VH0A 2I6DA 2QMMA 4YQBA 4YQ1A 4MCBA 1MXIA 4CNDA 3OIIA 4YPXA 4JWJA 4KGNA 4L69A 3BBEA 1NS5A 1WRSR 1Z85A 3N4JA 3KORA 2QWVA 1MI7R 3IEFA 4YPYA 2O3AA 3BBDA 3NK7A 3O7BA 4YQ9A 5GMCA 4YQRA 3BBHA 5CO4A 4CNEA 3ILKA 1OY5A 1V6ZA 1UALA 4YQLA 3KW2A 1TRRA 3OIJA 4YQCA 1VHYA 2CX8A 5GM8A 4YQ2A 2EGWA 1TROA 4KDZA 3IC6A 2YY8A 4YQGA 2V3KA 4H3YA 3SSXN 4YQAA 4YQKA 4YQ0A 1X7PA 3AXZA 4JWFA 3N4KA 3AIAA 4YQJA 1VHKA 4YQ4A 1ZJRA 2EGVA 1WRPR 4YQSA 5D9FA 1IPAA 4X3MA 3QUVA 4PZKA 1UAJA 4YQDA 4RG1A 4XBOA 4J3CA 3SSWN 4JWGA 4FAKA 4YVJA 1NXZA 1X7OA 4YQOA 3G1CA 1P9PA 1CO0A 4JALA 3KY7A 3ONPA 1GZ0A 4YPWA 4YQ7A 4E8BA 4MCCA 3KTYA 2OZ9R 1V2XA 4JAKA 3L8UA 1O6DA
chains in the Genus database with same CATH topology
3AI9X 1J85A 3NK6A 2HA8A 3E5YA 4CNGA 4YVHA 3GYQA 4FMWA 4YQPA 4JWHA 4YVGA 4YQ5A 4YQ8A 1K3RA 4YQ3A 3OINA 4IG6A 4CNFA 1UAKA 4YQIA 4YVKA 4YPZA 4YQTA 1TO0A 4YVIA 5GMBA 3KNUA 4YQQA 3DCMX 1UAMA 2V3JA 4YQ6A 2Z0YA 5FAIA 4H3ZA 4MCDA 4YQNA 4X3LA 1VH0A 2I6DA 2QMMA 4YQBA 4YQ1A 4MCBA 1MXIA 4CNDA 3OIIA 4YPXA 4JWJA 4KGNA 4L69A 3BBEA 1NS5A 1Z85A 3N4JA 2QWVA 3IEFA 4YPYA 2O3AA 3BBDA 3NK7A 3O7BA 4YQ9A 5GMCA 4YQRA 3BBHA 5CO4A 4CNEA 3ILKA 1OY5A 1V6ZA 1UALA 4YQLA 3KW2A 3OIJA 4YQCA 1VHYA 2CX8A 5GM8A 4YQ2A 2EGWA 4KDZA 3IC6A 2YY8A 4YQGA 2V3KA 4H3YA 4YQAA 4YQKA 4YQ0A 1X7PA 3AXZA 4JWFA 3N4KA 4YQJA 1VHKA 4YQ4A 1ZJRA 2EGVA 4YQSA 5D9FA 1IPAA 4X3MA 3QUVA 4PZKA 1UAJA 4YQDA 4RG1A 4XBOA 4J3CA 4JWGA 4FAKA 4YVJA 1NXZA 1X7OA 4YQOA 1P9PA 4JALA 3KY7A 3ONPA 1GZ0A 4YPWA 4YQ7A 4E8BA 4MCCA 3KTYA 3AIAA 1V2XA 4JAKA 3L8UA 1O6DA
chains in the Genus database with same CATH homology


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