3CWUA

Crystal structure of an alka host/guest complex 2'-fluoro-2'-deoxy-1,n6-ethenoadenine:thymine base pair
Total Genus 85
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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
85
sequence length
282
structure length
282
Chain Sequence
MYTLNWQPPYDWSWMLGFLAARAVSSVETVADSYYARSLAVGEYRGVVTAIPDIARHTLHINLSAGLEPVAAECLAKMSRLFDLQCNPQIVNGALGRLGAARPGLRLPGCVDAFEQGVRAILGQLVSVAMAAKLTARVAQLYGERLDDFPEYICFPTPQRLAAADPQALKALGMPLKRAEALIHLANAALEGTLPMTIPGDVEQAMKTLQTFPGIGRWTANYFALRGWQAKDVFLPDDYLIKQRFPGMTPAQIRRYAERWKPWRSYALLHIWYTEGWQPDEA
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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 Hydrolase/dna
source organism Escherichia coli
publication title Structure of the E. coli DNA Glycosylase AlkA Bound to the Ends of Duplex DNA: A System for the Structure Determination of Lesion-Containing DNA.
pubmed doi rcsb
molecule keywords DNA-3-methyladenine glycosylase 2
total genus 85
structure length 282
sequence length 282
chains with identical sequence B, C, D
ec nomenclature ec 3.2.2.21: DNA-3-methyladenine glycosylase II.
pdb deposition date 2008-04-22

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF00730 HhH-GPD HhH-GPD superfamily base excision DNA repair protein
A PF06029 AlkA_N AlkA N-terminal domain
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
1.10.340.30 Mainly Alpha Orthogonal Bundle Endonuclease III; domain 1 Hypothetical protein; domain 2 3cwuA02
1.10.1670.10 Mainly Alpha Orthogonal Bundle Endonuclease Iii, domain 2 Helix-hairpin-Helix base-excision DNA repair enzymes (C-terminal) 3cwuA03
3.30.310.20 Alpha Beta 2-Layer Sandwich TATA-Binding Protein DNA-3-methyladenine glycosylase AlkA, N-terminal domain 3cwuA01
2H56A 3FHFA 1MUNA 1YQRA 1KG6A 1YQMA 4B21A 4UOBA 3CWTA 4EW4A 4HSBA 5KN9A 4OFEA 1LWVA 3I0WA 3N5NX 4EW0A 4E9EA 3CVSA 1KG7A 1KG3A 1M3HA 3CWUA 2NOIA 4EVVA 3F0ZA 1N3AA 1P59A 1VRLA 1KEAA 2NOLA 3IHOA 1PU6A 1YQKA 1LMZA 1PU7A 1NKUA 1ORNA 3CVTA 4E9GA 1WEFA 2OFIA 3S6IA 2NOZA 3OH9A 2I5WA 1MPGA 2NOBA 1N39A 3CWSA 4AI5A 5CHZA 1M3QA 4PIIA 2JHNA 2YG8A 4B23A 4E9HA 1N3CA 4B24A 2NOHA 2NOEA 1RRSA 4YPRA 1XG7A 1PU8A 1WEGA 3OGDA 1LWYA 1KG2A 3OH6A 1KG5A 4EA5A 4OFAA 4DK9A 1HU0A 4EJYA 2NOFA 1XQOA 5DPKA 3FSPA 5AN4A 4EJZA 3CW7A 1LWWA 3F10A 1NGNA 1PVSA 2XHIA 1KG4A 3N0UA 2ABKA 3G0QA 4E9FA 3D4VA 5KN8A 2JHJA 4AI4A 1KQJA 4EA4A 4YOQA 1MUDA 3KNTA 1P7MA 1EBMA 2JG6A 2YG9A 3KTUA 1RRQA 4YPHA 3IH7A 1MUYA 1DIZA 4AIAA 4B22A 3FHGA 1FN7A 1WEIA 3I0XA 4UNFA 1KO9A 4OFHA 3CWAA 1XQPA 1YQLA 1ORPA 2OFKA
chains in the Genus database with same CATH superfamily
2H56A 1MUNA 2QREA 1KG6A 4TPSA 1YQMA 3L2VA 4RODB 4EAKA 2NWVA 1KY6A 1K2YX 2IV8A 5KN9A 3OYFA 4OFEA 1LWVA 3I0WA 4EW0A 3RPJA 4BDZA 3OYLA 1C4GA 4ZTFA 2NOIA 4EVVA 3F0ZA 3OYDA 2FKFA 1P59A 3OSEA 1KEAA 5IYDP 1VTLE 1YQKA 1LMZA 1PU7A 1MP9A 4BE2A 1WEFA 2R5XA 3OH9A 3VN5A 1MPGA 2JOIA 1N39A 2OOYA 1Q9UA 4AI5A 1P5GX 2G30A 3L2UA 2YH5A 4E7IA 1N3CA 2Y8QA 3OSTA 1XG7A 2V8QA 1J3MA 2LAEA 1WEGA 3OC3C 1KG2A 1PCMX 1KG5A 1HU0A 1PZDA 1XQOA 3FSPA 5FROA 4BE1A 1TBAB 2FGTA 3OYBA 3ULXA 4D7RA 1PVSA 3L2QA 2XHIA 1C47A 3BKQX 5IYCP 3G0QA 3D4VA 5KL0A 1RM1A 2W03A 5BMPA 1QN4A 2DKAA 1EBMA 1M5Q1 2MZ8A 4HJHA 4YPHA 4WXAA 1VTOA 1MUYA 2DKDA 2V9JA 1FN7A 1UT7A 5HSHA 1WEIA 3I0XA 2HL9A 4UNFA 1KO9A 3OYEA 4E7LA 2D0CA 1NVPA 2OFKA 3C04A 3FHFA 4MRQA 4ROEB 4B21A 4UOBA 3OYNA 3CWTA 4EALA 4IL8A 4E7JA 1P5DX 1VKLA 1KG7A 3NNQA 1KG3A 1YTFA 2JPSA 3IHOA 4I8OA 1YTBA 2Z0FA 2VJ0A 1NKUA 1QN3A 1JDYA 1UL7A 3CVTA 5IYBP 2OFIA 2NOZA 2O3OA 4DULA 2NOBA 3D7QA 3OYKA 5EPCA 3CWSA 3SNSA 3LCNA 3OYGA 1M3QA 2W04A 1LXTA 4B0AA 1VOKA 4B23A 1TBPA 4D7QA 2H5AX 2FUVA 1LWYA 1K35A 4EJYA 2MJ7A 4ZTJA 1T6AA 5DPKA 5AN4A 3OYIA 3OS1A 2Z8UA 3F10A 1AISA 3DPUA 3N0UA 2HKPA 5FRNA 3ASMA 1KYFA 2JHJA 4AI4A 1KQJA 1MUDA 1P7MA 2JG6A 1NGMA 2YG9A 1EUVA 3IH7A 4WX8A 3OYAA 4AIAA 1C9BB 3ENOC 1TGHA 3T4NA 3OYMA 3RSMA 2YA3A 4OFHA 2D0BA 1NH2A 1YQLA 1JFIC 1ORPA 3S3OA 4Q11A 4BJUA 3L2WA 1YQRA 3OSMA 4EW4A 4BDYA 3N5NX 1VOLB 3H1ZA 3UW2A 2FKMX 1XSZA 1M3HA 4IKFA 1QNAA 1N3AA 1VRLA 1CDWA 1WQAA 2HL8A 1ORNA 2HZMA 4E9GA 3I3WA 3EIKA 4CFFA 2NVMA 3OYHA 2I5WA 5CHZA 2YG8A 4E9HA 1B9KA 5JN5A 3OLPA 2NOHA 2NOEA 1W80A 4YPRA 1QTSA 2IV9A 2QRDA 2Y8LA 1QNEA 3HS8A 5F9CA 1QNCA 3OGDA 2V92A 4DK9A 2ZFDB 2NOFA 1QN9A 3CW7A 3R2XC 1KG4A 2D0AA 2ABKA 3PDKA 4E9FA 3OS2A 4C7PA 5KN8A 4EA4A 4YOQA 1WJWA 3KTUA 3OYJA 2PWWA 1DIZA 1KFQA 4NZGA 3N89A 4BACA 3CWAA 1KYDA 2EHBD 2QLVA 5FRMA 3VW4A 4HSBA 4E9EA 1U84A 3CVSA 2DKCA 1TUOA 3OYCA 4EAGA 4PY5A 3CWUA 2H4LX 3OCIA 1KFIA 1D3UA 3S3NA 3ENCA 3KRMA 2NOLA 1PU6A 4QG5A 3S3MA 1KY7A 3OY9A 3DPTA 1QN8A 2JPIA 1KYUA 4EAJA 2F7LA 4PIIA 2JHNA 3TDHA 3L2RA 1UT4A 4B24A 3HS9A 2QR1A 1RRSA 1PU8A 3OS0A 1QTPA 3OH6A 4BE0A 3TE5A 1QN5A 4EA5A 4OFAA 1V5SA 2NLVA 1R4XA 4EJZA 4WZSD 1LWWA 5JMVD 1QNBA 1NGNA 4EAIA 1QN6A 4E7KA 4E7HA 3NA5A 2QRCA 3KNTA 1PCZA 1PCJX 1RRQA 2HZSA 1QN7A 4B22A 4ROCB 3FHGA 5BMNA 3PMGA 3EAYA 2OOXA 1E42A 1XQPA 2V75A 3S6IA
chains in the Genus database with same CATH topology
2H56A 3FHFA 1MUNA 1YQRA 1KG6A 1YQMA 4B21A 4UOBA 3CWTA 4EW4A 4HSBA 5KN9A 4OFEA 1LWVA 3I0WA 3N5NX 4EW0A 4E9EA 3CVSA 1KG7A 1KG3A 1M3HA 3CWUA 2NOIA 4EVVA 3F0ZA 1N3AA 1P59A 1VRLA 1KEAA 2NOLA 3IHOA 1PU6A 1YQKA 1LMZA 1PU7A 1NKUA 1ORNA 3CVTA 4E9GA 1WEFA 2OFIA 3S6IA 2NOZA 3OH9A 2I5WA 1MPGA 2NOBA 1N39A 3CWSA 4AI5A 5CHZA 1M3QA 4PIIA 2JHNA 2YG8A 4B23A 4E9HA 1N3CA 4B24A 2NOHA 2NOEA 1RRSA 4YPRA 1XG7A 1PU8A 1WEGA 3OGDA 1LWYA 1KG2A 3OH6A 1KG5A 4EA5A 4OFAA 4DK9A 1HU0A 4EJYA 2NOFA 1XQOA 5DPKA 3FSPA 5AN4A 4EJZA 3CW7A 1LWWA 3F10A 1NGNA 1PVSA 2XHIA 1KG4A 3N0UA 2ABKA 3G0QA 4E9FA 3D4VA 5KN8A 2JHJA 4AI4A 1KQJA 4EA4A 4YOQA 1MUDA 3KNTA 1P7MA 1EBMA 2JG6A 2YG9A 3KTUA 1RRQA 4YPHA 3IH7A 1MUYA 1DIZA 4AIAA 4B22A 3FHGA 1FN7A 1WEIA 3I0XA 4UNFA 1KO9A 4OFHA 3CWAA 1XQPA 1YQLA 1ORPA 2OFKA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 2H56 A;  3FHF A;  1MUN A;  1YQR A;  1KG6 A;  1YQM A;  4B21 A;  4UOB A;  3CWT A;  4EW4 A;  4HSB A;  5KN9 A;  4OFE A;  1LWV A;  3I0W A;  3N5N X;  4EW0 A;  4E9E A;  3CVS A;  1KG7 A;  1KG3 A;  1M3H A;  3CWU A;  2NOI A;  4EVV A;  3F0Z A;  1N3A A;  1P59 A;  1VRL A;  1KEA A;  2NOL A;  3IHO A;  1PU6 A;  1YQK A;  1LMZ A;  1PU7 A;  1NKU A;  1ORN A;  3CVT A;  4E9G A;  1WEF A;  2OFI A;  3S6I A;  2NOZ A;  3OH9 A;  2I5W A;  1MPG A;  2NOB A;  1N39 A;  3CWS A;  4AI5 A;  5CHZ A;  1M3Q A;  4PII A;  2JHN A;  2YG8 A;  4B23 A;  4E9H A;  1N3C A;  4B24 A;  2NOH A;  2NOE A;  1RRS A;  4YPR A;  1XG7 A;  1PU8 A;  1WEG A;  3OGD A;  1LWY A;  1KG2 A;  3OH6 A;  1KG5 A;  4EA5 A;  4OFA A;  4DK9 A;  1HU0 A;  4EJY A;  2NOF A;  1XQO A;  5DPK A;  3FSP A;  5AN4 A;  4EJZ A;  3CW7 A;  1LWW A;  3F10 A;  1NGN A;  1PVS A;  2XHI A;  1KG4 A;  3N0U A;  2ABK A;  3G0Q A;  4E9F A;  3D4V A;  5KN8 A;  2JHJ A;  4AI4 A;  1KQJ A;  4EA4 A;  4YOQ A;  1MUD A;  3KNT A;  1P7M A;  1EBM A;  2JG6 A;  2YG9 A;  3KTU A;  1RRQ A;  4YPH A;  3IH7 A;  1MUY A;  1DIZ A;  4AIA A;  4B22 A;  3FHG A;  1FN7 A;  1WEI A;  3I0X A;  4UNF A;  1KO9 A;  4OFH A;  3CWA A;  1XQP A;  1YQL A;  1ORP A;  2OFK A; 
#chains in the Genus database with same CATH topology
 2H56 A;  1MUN A;  2QRE A;  1KG6 A;  4TPS A;  1YQM A;  3L2V A;  4ROD B;  4EAK A;  2NWV A;  1KY6 A;  1K2Y X;  2IV8 A;  5KN9 A;  3OYF A;  4OFE A;  1LWV A;  3I0W A;  4EW0 A;  3RPJ A;  4BDZ A;  3OYL A;  1C4G A;  4ZTF A;  2NOI A;  4EVV A;  3F0Z A;  3OYD A;  2FKF A;  1P59 A;  3OSE A;  1KEA A;  5IYD P;  1VTL E;  1YQK A;  1LMZ A;  1PU7 A;  1MP9 A;  4BE2 A;  1WEF A;  2R5X A;  3OH9 A;  3VN5 A;  1MPG A;  2JOI A;  1N39 A;  2OOY A;  1Q9U A;  4AI5 A;  1P5G X;  2G30 A;  3L2U A;  2YH5 A;  4E7I A;  1N3C A;  2Y8Q A;  3OST A;  1XG7 A;  2V8Q A;  1J3M A;  2LAE A;  1WEG A;  3OC3 C;  1KG2 A;  1PCM X;  1KG5 A;  1HU0 A;  1PZD A;  1XQO A;  3FSP A;  5FRO A;  4BE1 A;  1TBA B;  2FGT A;  3OYB A;  3ULX A;  4D7R A;  1PVS A;  3L2Q A;  2XHI A;  1C47 A;  3BKQ X;  5IYC P;  3G0Q A;  3D4V A;  5KL0 A;  1RM1 A;  2W03 A;  5BMP A;  1QN4 A;  2DKA A;  1EBM A;  1M5Q 1;  2MZ8 A;  4HJH A;  4YPH A;  4WXA A;  1VTO A;  1MUY A;  2DKD A;  2V9J A;  1FN7 A;  1UT7 A;  5HSH A;  1WEI A;  3I0X A;  2HL9 A;  4UNF A;  1KO9 A;  3OYE A;  4E7L A;  2D0C A;  1NVP A;  2OFK A;  3C04 A;  3FHF A;  4MRQ A;  4ROE B;  4B21 A;  4UOB A;  3OYN A;  3CWT A;  4EAL A;  4IL8 A;  4E7J A;  1P5D X;  1VKL A;  1KG7 A;  3NNQ A;  1KG3 A;  1YTF A;  2JPS A;  3IHO A;  4I8O A;  1YTB A;  2Z0F A;  2VJ0 A;  1NKU A;  1QN3 A;  1JDY A;  1UL7 A;  3CVT A;  5IYB P;  2OFI A;  2NOZ A;  2O3O A;  4DUL A;  2NOB A;  3D7Q A;  3OYK A;  5EPC A;  3CWS A;  3SNS A;  3LCN A;  3OYG A;  1M3Q A;  2W04 A;  1LXT A;  4B0A A;  1VOK A;  4B23 A;  1TBP A;  4D7Q A;  2H5A X;  2FUV A;  1LWY A;  1K35 A;  4EJY A;  2MJ7 A;  4ZTJ A;  1T6A A;  5DPK A;  5AN4 A;  3OYI A;  3OS1 A;  2Z8U A;  3F10 A;  1AIS A;  3DPU A;  3N0U A;  2HKP A;  5FRN A;  3ASM A;  1KYF A;  2JHJ A;  4AI4 A;  1KQJ A;  1MUD A;  1P7M A;  2JG6 A;  1NGM A;  2YG9 A;  1EUV A;  3IH7 A;  4WX8 A;  3OYA A;  4AIA A;  1C9B B;  3ENO C;  1TGH A;  3T4N A;  3OYM A;  3RSM A;  2YA3 A;  4OFH A;  2D0B A;  1NH2 A;  1YQL A;  1JFI C;  1ORP A;  3S3O A;  4Q11 A;  4BJU A;  3L2W A;  1YQR A;  3OSM A;  4EW4 A;  4BDY A;  3N5N X;  1VOL B;  3H1Z A;  3UW2 A;  2FKM X;  1XSZ A;  1M3H A;  4IKF A;  1QNA A;  1N3A A;  1VRL A;  1CDW A;  1WQA A;  2HL8 A;  1ORN A;  2HZM A;  4E9G A;  3I3W A;  3EIK A;  4CFF A;  2NVM A;  3OYH A;  2I5W A;  5CHZ A;  2YG8 A;  4E9H A;  1B9K A;  5JN5 A;  3OLP A;  2NOH A;  2NOE A;  1W80 A;  4YPR A;  1QTS A;  2IV9 A;  2QRD A;  2Y8L A;  1QNE A;  3HS8 A;  5F9C A;  1QNC A;  3OGD A;  2V92 A;  4DK9 A;  2ZFD B;  2NOF A;  1QN9 A;  3CW7 A;  3R2X C;  1KG4 A;  2D0A A;  2ABK A;  3PDK A;  4E9F A;  3OS2 A;  4C7P A;  5KN8 A;  4EA4 A;  4YOQ A;  1WJW A;  3KTU A;  3OYJ A;  2PWW A;  1DIZ A;  1KFQ A;  4NZG A;  3N89 A;  4BAC A;  3CWA A;  1KYD A;  2EHB D;  2QLV A;  5FRM A;  3VW4 A;  4HSB A;  4E9E A;  1U84 A;  3CVS A;  2DKC A;  1TUO A;  3OYC A;  4EAG A;  4PY5 A;  3CWU A;  2H4L X;  3OCI A;  1KFI A;  1D3U A;  3S3N A;  3ENC A;  3KRM A;  2NOL A;  1PU6 A;  4QG5 A;  3S3M A;  1KY7 A;  3OY9 A;  3DPT A;  1QN8 A;  2JPI A;  1KYU A;  4EAJ A;  2F7L A;  4PII A;  2JHN A;  3TDH A;  3L2R A;  1UT4 A;  4B24 A;  3HS9 A;  2QR1 A;  1RRS A;  1PU8 A;  3OS0 A;  1QTP A;  3OH6 A;  4BE0 A;  3TE5 A;  1QN5 A;  4EA5 A;  4OFA A;  1V5S A;  2NLV A;  1R4X A;  4EJZ A;  4WZS D;  1LWW A;  5JMV D;  1QNB A;  1NGN A;  4EAI A;  1QN6 A;  4E7K A;  4E7H A;  3NA5 A;  2QRC A;  3KNT A;  1PCZ A;  1PCJ X;  1RRQ A;  2HZS A;  1QN7 A;  4B22 A;  4ROC B;  3FHG A;  5BMN A;  3PMG A;  3EAY A;  2OOX A;  1E42 A;  1XQP A;  2V75 A;  3S6I A; 
#chains in the Genus database with same CATH homology
 2H56 A;  3FHF A;  1MUN A;  1YQR A;  1KG6 A;  1YQM A;  4B21 A;  4UOB A;  3CWT A;  4EW4 A;  4HSB A;  5KN9 A;  4OFE A;  1LWV A;  3I0W A;  3N5N X;  4EW0 A;  4E9E A;  3CVS A;  1KG7 A;  1KG3 A;  1M3H A;  3CWU A;  2NOI A;  4EVV A;  3F0Z A;  1N3A A;  1P59 A;  1VRL A;  1KEA A;  2NOL A;  3IHO A;  1PU6 A;  1YQK A;  1LMZ A;  1PU7 A;  1NKU A;  1ORN A;  3CVT A;  4E9G A;  1WEF A;  2OFI A;  3S6I A;  2NOZ A;  3OH9 A;  2I5W A;  1MPG A;  2NOB A;  1N39 A;  3CWS A;  4AI5 A;  5CHZ A;  1M3Q A;  4PII A;  2JHN A;  2YG8 A;  4B23 A;  4E9H A;  1N3C A;  4B24 A;  2NOH A;  2NOE A;  1RRS A;  4YPR A;  1XG7 A;  1PU8 A;  1WEG A;  3OGD A;  1LWY A;  1KG2 A;  3OH6 A;  1KG5 A;  4EA5 A;  4OFA A;  4DK9 A;  1HU0 A;  4EJY A;  2NOF A;  1XQO A;  5DPK A;  3FSP A;  5AN4 A;  4EJZ A;  3CW7 A;  1LWW A;  3F10 A;  1NGN A;  1PVS A;  2XHI A;  1KG4 A;  3N0U A;  2ABK A;  3G0Q A;  4E9F A;  3D4V A;  5KN8 A;  2JHJ A;  4AI4 A;  1KQJ A;  4EA4 A;  4YOQ A;  1MUD A;  3KNT A;  1P7M A;  1EBM A;  2JG6 A;  2YG9 A;  3KTU A;  1RRQ A;  4YPH A;  3IH7 A;  1MUY A;  1DIZ A;  4AIA A;  4B22 A;  3FHG A;  1FN7 A;  1WEI A;  3I0X A;  4UNF A;  1KO9 A;  4OFH A;  3CWA A;  1XQP A;  1YQL A;  1ORP A;  2OFK 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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