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 tags Transferase
molecule keywords Probable r-RNA methyltransferase
publication title Crystal structure of probable rRNA-methyltransferase from Porphyromonas gingivalis
rcsb
source organism Porphyromonas gingivalis atcc 33277
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
4KDZA 3OIIA 4YQAA 3O7BA 4YQPA 2QWVA 3IC6A 4YQRA 4YVIA 3AI9X 3BBHA 3NK7A 4YVJA 3QUVA 4YPYA 4RG1A 1P9PA 3AIAA 5GM8A 1K3RA 1V2XA 4YQOA 1X7PA 4XBOA 3KY7A 2V3KA 3N4KA 1UAJA 3DCMX 1UAMA 3E5YA 4YQJA 4YQ3A 1VH0A 4YVHA 4J3CA 4YQDA 5CO4A 1NS5A 4CNDA 5FAIA 1X7OA 4YPZA 4YQ6A 3N4JA 1TO0A 1V6ZA 4YQ2A 4MCBA 4X3MA 4CNGA 4JALA 4YPWA 3NK6A 2QMMA 4YQGA 4YPXA 2EGVA 4L69A 3KW2A 3KNUA 4YQIA 4YQCA 4YQ4A 2HA8A 4YQSA 2NWAA 1MXIA 4YQ5A 1VHYA 3AXZA 4YQLA 1VHKA 4YQ9A 3KTYA 5GMBA 1NXZA 4IG6A 2CX8A 4H3YA 4X3LA 1J85A 3L8UA 4KGNA 1GZ0A 2V3JA 1UALA 4H3ZA 4YQBA 3OIJA 1OY5A 4MCDA 4YQTA 4FAKA 4JAKA 1UAKA 4YQNA 3GYQA 1O6DA 3ILKA 4E8BA 4PZKA 4YQ1A 1Z85A 3BBDA 2Z0YA 1ZJRA 2O3AA 4CNEA 2YY8A 1IPAA 4YQ0A 2EGWA 3IEFA 4MCCA 3ONPA 4YQ8A 4YQKA 4YQQA 3OINA 4YQ7A 4CNFA 3BBEA 5D9FA 2I6DA 5GMCA 4YVGA 4YVKA
chains in the Genus database with same CATH superfamily
2AE0X 4KDZA 4P2BA 5JVHS 3O7BA 3OIIA 4YQPA 4YQAA 4JXZA 2QWVA 3IC6A 4YQRA 4YVIA 1ZJWA 3AI9X 4WFAS 3BBHA 3NK7A 2PNWA 1QRSA 4YVJA 5GAEW 4WFNS 3J7ZV 3QUVA 4JWHA 4YPYA 2G6GA 5HL7S 4RG1A 1P9PA 1QTQA 3AIAA 4JWJA 5GM8A 1K3RA 1V2XA 4YQOA 1X7PA 4XBOA 3KY7A 1UDXA 2ZJRS 1DFUP 2V3KA 4IOCS 5GAHW 3N4KA 1UAJA 3DCMX 1UAMA 3E5YA 5IZNA 4YQJA 4YQ3A 1VH0A 4YVHA 4J3CA 4YQDA 5CO4A 1GTSA 1NYLA 4UY88 1NS5A 4CNDA 5FAIA 2PI8A 5BNZA 1O0BA 1X7OA 4YQ6A 4YPZA 5GADW 4JYZA 2PJJA 3N4JA 1TO0A 1V6ZA 4YQ2A 4MCBA 4X3MA 2G5DA 2HZ7A 4IO9S 4U67S 3X1LB 1D6KA 1FEUA 4CNGA 4WCES 4JALA 4YPWA 3NK6A 2QMMA 1B75A 4YQGA 4YPXA 2EGVA 4L69A 3KW2A 3KNUA 4YQIA 4YQCA 4YQ4A 2HA8A 4YQSA 2NWAA 2PICA 1MXIA 4YQ5A 1VHYA 2RE8A 3AXZA 4YQLA 1VHKA 4YQ9A 3KTYA 5GMBA 1NXZA 1EUYA 1EXDA 4IG6A 5DM6S 1GTRA 4IOAS 2CX8A 4H3YA 4X3LA 4WFBS 1J85A 4H3SA 3L8UA 3PIPS 4V194 1QRTA 4KGNA 5DM7S 4JWGA 1GZ0A 2ZJPS 3PIOS 5JVGS 2V3JA 1UALA 4JXXA 4WF9S 4H3ZA 4YQBA 3OIJA 2ZJQS 1OY5A 1QRUA 4MCDA 4YQTA 4FAKA 3AIIA 4JAKA 3DLLS 4JWFA 1UAKA 4YQNA 5GAGW 3GYQA 4FMWA 3W2VB 1O6DA 4E8BA 3CZBA 3ILKA 4PZKA 4YQ1A 2GAEA 1Z85A 3BBDA 2Z0YA 1ZJRA 2O3AA 4CNEA 3W2WB 2RD2A 2YY8A 4H4KA 1IPAA 4YQ0A 2EGWA 3IEFA 4MCCA 3ONPA 4YQ8A 4YQKA 4YQQA 3CF5S 3OINA 4YQ7A 1O0CA 4CNFA 3BBEA 5D9FA 1EUQA 2I6DA 5GMCA 4YVGA 4YVKA
chains in the Genus database with same CATH topology
4KDZA 3OIIA 4YQAA 3O7BA 4YQPA 2QWVA 3IC6A 4YQRA 4YVIA 3AI9X 3BBHA 3NK7A 4YVJA 3QUVA 4JWHA 4YPYA 4RG1A 1P9PA 3AIAA 4JWJA 5GM8A 1K3RA 1V2XA 4YQOA 1X7PA 4XBOA 3KY7A 2V3KA 3N4KA 1UAJA 3DCMX 1UAMA 3E5YA 4YQJA 4YQ3A 1VH0A 4YVHA 4J3CA 4YQDA 5CO4A 1NS5A 4CNDA 5FAIA 1X7OA 4YPZA 4YQ6A 3N4JA 1TO0A 1V6ZA 4YQ2A 4MCBA 4X3MA 4CNGA 4JALA 4YPWA 3NK6A 2QMMA 4YQGA 4YPXA 2EGVA 4L69A 3KW2A 3KNUA 4YQIA 4YQCA 4YQ4A 2HA8A 4YQSA 2NWAA 1MXIA 4YQ5A 1VHYA 3AXZA 4YQLA 1VHKA 4YQ9A 3KTYA 5GMBA 1NXZA 4IG6A 2CX8A 4H3YA 4X3LA 1J85A 3L8UA 4KGNA 4JWGA 1GZ0A 2V3JA 1UALA 4H3ZA 4YQBA 3OIJA 1OY5A 4MCDA 4YQTA 4FAKA 4JAKA 4JWFA 1UAKA 4YQNA 3GYQA 4FMWA 1O6DA 3ILKA 4E8BA 4PZKA 4YQ1A 1Z85A 3BBDA 2Z0YA 1ZJRA 2O3AA 4CNEA 2YY8A 1IPAA 4YQ0A 2EGWA 3IEFA 4MCCA 3ONPA 4YQ8A 4YQKA 4YQQA 3OINA 4YQ7A 4CNFA 3BBEA 5D9FA 2I6DA 5GMCA 4YVGA 4YVKA
chains in the Genus database with same CATH homology


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