3KW2A

Crystal structure of probable rrna-methyltransferase from porphyromonas gingivalis
Total Genus 70
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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
70
Knots found
sequence length
245
structure length
240
Chain Sequence
LPLFYAPDIEQSDRLPDDEAGHILRVLRMQAGDRLRLTDGRGSFFDAVIETADRKSCYVSVCGQESWQKPWRDRITIAIAPTKQSERMEWMLEKLVEIGVDEVVFIESEHSERRRIKAERLERIAISAMKQSLKASFPVIRVNIPIQTVIADTPKAAVRLIAYVDEAVRGRGYPSDFYHVGQDVLILIGPEGDFSPSEVESALLAGFAPVSLGESRLRTETAGLVACQWIHTLQACYRIG
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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 keywords Probable r-RNA methyltransferase
publication title Crystal structure of probable rRNA-methyltransferase from Porphyromonas gingivalis
rcsb
source organism Porphyromonas gingivalis atcc 33277
molecule tags Transferase
total genus 70
structure length 240
sequence length 245
chains with identical sequence B
other databases KnotProt 2.0: K +31
ec nomenclature
pdb deposition date 2009-11-30

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF04452 Methyltrans_RNA RNA methyltransferase
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
2.40.240.20 Mainly Beta Beta Barrel Ribosomal Protein L25; Chain P Hypothetical PUA domain-like; domain 1 3kw2A01
3.40.1280.10 Alpha Beta 3-Layer(aba) Sandwich Alpha/beta knot Alpha/beta knot 3kw2A02
4RG1A 4H3YA 1X7PA 4XBOA 1J85A 4YVKA 2V3JA 2QMMA 4YPWA 4YQ9A 1IPAA 4IG6A 4YQ4A 4CNGA 4E8BA 4YPZA 2CX8A 3NK7A 3KTYA 1NXZA 4YQ6A 4JALA 3BBDA 2EGVA 5GM8A 2Z0YA 2V3KA 3OIJA 4X3LA 4YVJA 3AXZA 3OINA 3KNUA 3KY7A 1UAMA 4YQGA 2QWVA 4MCDA 4YQDA 1ZJRA 5GMBA 4YQTA 4YQ2A 1NS5A 3N4KA 3IC6A 3AIAA 1Z85A 1O6DA 1OY5A 4YQ1A 4YQLA 4YVHA 4KGNA 5FAIA 4YQKA 4YQ8A 4J3CA 2YY8A 4YQAA 4X3MA 2EGWA 4KDZA 4YQJA 1X7OA 3BBHA 4PZKA 1V6ZA 2NWAA 4YQPA 3ONPA 3BBEA 1VHYA 1UALA 2I6DA 4YPXA 1UAKA 4FAKA 2HA8A 4YQ3A 4MCCA 3OIIA 1VHKA 4YQRA 1GZ0A 4CNFA 1V2XA 4YQOA 1MXIA 4YQ0A 4YQIA 3QUVA 4YQ7A 4L69A 3DCMX 5CO4A 5GMCA 1UAJA 4YQQA 4YVIA 3GYQA 1TO0A 4YQ5A 4YQSA 4MCBA 1P9PA 4YQNA 4YQCA 4CNEA 3E5YA 3N4JA 2O3AA 3KW2A 3AI9X 3NK6A 4YPYA 4H3ZA 1K3RA 5D9FA 1VH0A 3ILKA 4YQBA 4JAKA 3IEFA 3O7BA 4YVGA 3L8UA 4CNDA
chains in the Genus database with same CATH superfamily
4RG1A 4H3YA 1X7PA 1DFUP 4XBOA 1J85A 4YVKA 1QRUA 5GAHW 5GAEW 2V3JA 2QMMA 4YPWA 4YQ9A 1O0BA 1IPAA 4IG6A 4YQ4A 4CNGA 4E8BA 4WFBS 3CF5S 4YPZA 4JXZA 2CX8A 3NK7A 3KTYA 2GAEA 4U67S 1QRSA 1NXZA 2AE0X 4YQ6A 4JALA 2RD2A 3BBDA 2EGVA 5GM8A 2Z0YA 1QTQA 2V3KA 3OIJA 1EUQA 4X3LA 4YVJA 3J7ZV 3AXZA 3OINA 3KNUA 3KY7A 1UAMA 4YQGA 4UY88 4JXXA 2QWVA 4MCDA 1QRTA 4YQDA 1ZJRA 4FMWA 5GMBA 4YQTA 4YQ2A 1GTSA 1NS5A 3PIPS 3N4KA 5DM7S 2PJJA 3IC6A 2RE8A 3AIAA 1FEUA 1Z85A 1O6DA 4P2BA 1OY5A 4JWGA 4YQ1A 2PI8A 4YQLA 4IOAS 4YVHA 4KGNA 5FAIA 4YQKA 4WFAS 3PIOS 4YQ8A 4H4KA 4J3CA 2YY8A 2G5DA 4YQAA 4X3MA 2EGWA 4KDZA 4YQJA 1X7OA 3BBHA 4PZKA 3W2WB 4WFNS 1V6ZA 2NWAA 4YQPA 4WF9S 3AIIA 3ONPA 3BBEA 1GTRA 3X1LB 1VHYA 1UALA 2I6DA 5DM6S 4YPXA 2PNWA 1D6KA 1UAKA 4FAKA 2HZ7A 1EXDA 5BNZA 4IO9S 1B75A 2HA8A 4YQ3A 3CZBA 4MCCA 5IZNA 3OIIA 1VHKA 4YQRA 1GZ0A 1ZJWA 4CNFA 1V2XA 4YQOA 1MXIA 4YQ0A 1NYLA 4YQIA 3W2VB 3QUVA 4YQ7A 4L69A 5JVGS 3DCMX 5CO4A 5GMCA 5GAGW 1UAJA 4JWFA 4YQQA 4YVIA 2ZJQS 3GYQA 1TO0A 2ZJRS 4YQ5A 4YQSA 4MCBA 1P9PA 4JWHA 4YQNA 4YQCA 4CNEA 1O0CA 3E5YA 3L8UA 4JYZA 1UDXA 3N4JA 2O3AA 4WCES 2PICA 5JVHS 4IOCS 3KW2A 2ZJPS 3AI9X 3NK6A 4YPYA 4V194 5HL7S 4H3ZA 1K3RA 5D9FA 1VH0A 3DLLS 3ILKA 4YQBA 4H3SA 4JAKA 3IEFA 3O7BA 5GADW 4JWJA 4YVGA 2G6GA 1EUYA 4CNDA
chains in the Genus database with same CATH topology
4RG1A 4H3YA 1X7PA 4XBOA 1J85A 4YVKA 2V3JA 2QMMA 4YPWA 4YQ9A 1IPAA 4IG6A 4YQ4A 4CNGA 4E8BA 4YPZA 2CX8A 3NK7A 3KTYA 1NXZA 4YQ6A 4JALA 3BBDA 2EGVA 5GM8A 2Z0YA 2V3KA 3OIJA 4X3LA 4YVJA 3AXZA 3OINA 3KNUA 3KY7A 1UAMA 4YQGA 2QWVA 4MCDA 4YQDA 1ZJRA 4FMWA 5GMBA 4YQTA 4YQ2A 1NS5A 3N4KA 3IC6A 3AIAA 1Z85A 1O6DA 1OY5A 4JWGA 4YQ1A 4YQLA 4YVHA 4KGNA 5FAIA 4YQKA 4YQ8A 4J3CA 2YY8A 4YQAA 4X3MA 2EGWA 4KDZA 4YQJA 1X7OA 3BBHA 4PZKA 1V6ZA 2NWAA 4YQPA 3ONPA 3BBEA 1VHYA 1UALA 2I6DA 4YPXA 1UAKA 4FAKA 2HA8A 4YQ3A 4MCCA 3OIIA 1VHKA 4YQRA 1GZ0A 4CNFA 1V2XA 4YQOA 1MXIA 4YQ0A 4YQIA 3QUVA 4YQ7A 4L69A 3DCMX 5CO4A 5GMCA 1UAJA 4JWFA 4YQQA 4YVIA 3GYQA 1TO0A 4YQ5A 4YQSA 4MCBA 1P9PA 4JWHA 4YQNA 4YQCA 4CNEA 3E5YA 3N4JA 2O3AA 3KW2A 3AI9X 3NK6A 4YPYA 4H3ZA 1K3RA 5D9FA 1VH0A 3ILKA 4YQBA 4JAKA 3IEFA 3O7BA 4JWJA 4YVGA 3L8UA 4CNDA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 4RG1 A;  4H3Y A;  1X7P A;  4XBO A;  1J85 A;  4YVK A;  2V3J A;  2QMM A;  4YPW A;  4YQ9 A;  1IPA A;  4IG6 A;  4YQ4 A;  4CNG A;  4E8B A;  4YPZ A;  2CX8 A;  3NK7 A;  3KTY A;  1NXZ A;  4YQ6 A;  4JAL A;  3BBD A;  2EGV A;  5GM8 A;  2Z0Y A;  2V3K A;  3OIJ A;  4X3L A;  4YVJ A;  3AXZ A;  3OIN A;  3KNU A;  3KY7 A;  1UAM A;  4YQG A;  2QWV A;  4MCD A;  4YQD A;  1ZJR A;  5GMB A;  4YQT A;  4YQ2 A;  1NS5 A;  3N4K A;  3IC6 A;  3AIA A;  1Z85 A;  1O6D A;  1OY5 A;  4YQ1 A;  4YQL A;  4YVH A;  4KGN A;  5FAI A;  4YQK A;  4YQ8 A;  4J3C A;  2YY8 A;  4YQA A;  4X3M A;  2EGW A;  4KDZ A;  4YQJ A;  1X7O A;  3BBH A;  4PZK A;  1V6Z A;  2NWA A;  4YQP A;  3ONP A;  3BBE A;  1VHY A;  1UAL A;  2I6D A;  4YPX A;  1UAK A;  4FAK A;  2HA8 A;  4YQ3 A;  4MCC A;  3OII A;  1VHK A;  4YQR A;  1GZ0 A;  4CNF A;  1V2X A;  4YQO A;  1MXI A;  4YQ0 A;  4YQI A;  3QUV A;  4YQ7 A;  4L69 A;  3DCM X;  5CO4 A;  5GMC A;  1UAJ A;  4YQQ A;  4YVI A;  3GYQ A;  1TO0 A;  4YQ5 A;  4YQS A;  4MCB A;  1P9P A;  4YQN A;  4YQC A;  4CNE A;  3E5Y A;  3N4J A;  2O3A A;  3KW2 A;  3AI9 X;  3NK6 A;  4YPY A;  4H3Z A;  1K3R A;  5D9F A;  1VH0 A;  3ILK A;  4YQB A;  4JAK A;  3IEF A;  3O7B A;  4YVG A;  3L8U A;  4CND A; 
#chains in the Genus database with same CATH topology
 4RG1 A;  4H3Y A;  1X7P A;  1DFU P;  4XBO A;  1J85 A;  4YVK A;  1QRU A;  5GAH W;  5GAE W;  2V3J A;  2QMM A;  4YPW A;  4YQ9 A;  1O0B A;  1IPA A;  4IG6 A;  4YQ4 A;  4CNG A;  4E8B A;  4WFB S;  3CF5 S;  4YPZ A;  4JXZ A;  2CX8 A;  3NK7 A;  3KTY A;  2GAE A;  4U67 S;  1QRS A;  1NXZ A;  2AE0 X;  4YQ6 A;  4JAL A;  2RD2 A;  3BBD A;  2EGV A;  5GM8 A;  2Z0Y A;  1QTQ A;  2V3K A;  3OIJ A;  1EUQ A;  4X3L A;  4YVJ A;  3J7Z V;  3AXZ A;  3OIN A;  3KNU A;  3KY7 A;  1UAM A;  4YQG A;  4UY8 8;  4JXX A;  2QWV A;  4MCD A;  1QRT A;  4YQD A;  1ZJR A;  4FMW A;  5GMB A;  4YQT A;  4YQ2 A;  1GTS A;  1NS5 A;  3PIP S;  3N4K A;  5DM7 S;  2PJJ A;  3IC6 A;  2RE8 A;  3AIA A;  1FEU A;  1Z85 A;  1O6D A;  4P2B A;  1OY5 A;  4JWG A;  4YQ1 A;  2PI8 A;  4YQL A;  4IOA S;  4YVH A;  4KGN A;  5FAI A;  4YQK A;  4WFA S;  3PIO S;  4YQ8 A;  4H4K A;  4J3C A;  2YY8 A;  2G5D A;  4YQA A;  4X3M A;  2EGW A;  4KDZ A;  4YQJ A;  1X7O A;  3BBH A;  4PZK A;  3W2W B;  4WFN S;  1V6Z A;  2NWA A;  4YQP A;  4WF9 S;  3AII A;  3ONP A;  3BBE A;  1GTR A;  3X1L B;  1VHY A;  1UAL A;  2I6D A;  5DM6 S;  4YPX A;  2PNW A;  1D6K A;  1UAK A;  4FAK A;  2HZ7 A;  1EXD A;  5BNZ A;  4IO9 S;  1B75 A;  2HA8 A;  4YQ3 A;  3CZB A;  4MCC A;  5IZN A;  3OII A;  1VHK A;  4YQR A;  1GZ0 A;  1ZJW A;  4CNF A;  1V2X A;  4YQO A;  1MXI A;  4YQ0 A;  1NYL A;  4YQI A;  3W2V B;  3QUV A;  4YQ7 A;  4L69 A;  5JVG S;  3DCM X;  5CO4 A;  5GMC A;  5GAG W;  1UAJ A;  4JWF A;  4YQQ A;  4YVI A;  2ZJQ S;  3GYQ A;  1TO0 A;  2ZJR S;  4YQ5 A;  4YQS A;  4MCB A;  1P9P A;  4JWH A;  4YQN A;  4YQC A;  4CNE A;  1O0C A;  3E5Y A;  3L8U A;  4JYZ A;  1UDX A;  3N4J A;  2O3A A;  4WCE S;  2PIC A;  5JVH S;  4IOC S;  3KW2 A;  2ZJP S;  3AI9 X;  3NK6 A;  4YPY A;  4V19 4;  5HL7 S;  4H3Z A;  1K3R A;  5D9F A;  1VH0 A;  3DLL S;  3ILK A;  4YQB A;  4H3S A;  4JAK A;  3IEF A;  3O7B A;  5GAD W;  4JWJ A;  4YVG A;  2G6G A;  1EUY A;  4CND A; 
#chains in the Genus database with same CATH homology
 4RG1 A;  4H3Y A;  1X7P A;  4XBO A;  1J85 A;  4YVK A;  2V3J A;  2QMM A;  4YPW A;  4YQ9 A;  1IPA A;  4IG6 A;  4YQ4 A;  4CNG A;  4E8B A;  4YPZ A;  2CX8 A;  3NK7 A;  3KTY A;  1NXZ A;  4YQ6 A;  4JAL A;  3BBD A;  2EGV A;  5GM8 A;  2Z0Y A;  2V3K A;  3OIJ A;  4X3L A;  4YVJ A;  3AXZ A;  3OIN A;  3KNU A;  3KY7 A;  1UAM A;  4YQG A;  2QWV A;  4MCD A;  4YQD A;  1ZJR A;  4FMW A;  5GMB A;  4YQT A;  4YQ2 A;  1NS5 A;  3N4K A;  3IC6 A;  3AIA A;  1Z85 A;  1O6D A;  1OY5 A;  4JWG A;  4YQ1 A;  4YQL A;  4YVH A;  4KGN A;  5FAI A;  4YQK A;  4YQ8 A;  4J3C A;  2YY8 A;  4YQA A;  4X3M A;  2EGW A;  4KDZ A;  4YQJ A;  1X7O A;  3BBH A;  4PZK A;  1V6Z A;  2NWA A;  4YQP A;  3ONP A;  3BBE A;  1VHY A;  1UAL A;  2I6D A;  4YPX A;  1UAK A;  4FAK A;  2HA8 A;  4YQ3 A;  4MCC A;  3OII A;  1VHK A;  4YQR A;  1GZ0 A;  4CNF A;  1V2X A;  4YQO A;  1MXI A;  4YQ0 A;  4YQI A;  3QUV A;  4YQ7 A;  4L69 A;  3DCM X;  5CO4 A;  5GMC A;  1UAJ A;  4JWF A;  4YQQ A;  4YVI A;  3GYQ A;  1TO0 A;  4YQ5 A;  4YQS A;  4MCB A;  1P9P A;  4JWH A;  4YQN A;  4YQC A;  4CNE A;  3E5Y A;  3N4J A;  2O3A A;  3KW2 A;  3AI9 X;  3NK6 A;  4YPY A;  4H3Z A;  1K3R A;  5D9F A;  1VH0 A;  3ILK A;  4YQB A;  4JAK A;  3IEF A;  3O7B A;  4JWJ A;  4YVG A;  3L8U A;  4CND 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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