3CW7A

Crystal structure of an alka host/guest complex 8oxoguanine:cytosine base pair
Total Genus 88
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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
88
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 88
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 2008-04-21

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 3cw7A02
1.10.1670.10 Mainly Alpha Orthogonal Bundle Endonuclease Iii, domain 2 Helix-hairpin-Helix base-excision DNA repair enzymes (C-terminal) 3cw7A03
3.30.310.20 Alpha Beta 2-Layer Sandwich TATA-Binding Protein DNA-3-methyladenine glycosylase AlkA, N-terminal domain 3cw7A01
3FSPA 5KN9A 4AIAA 4HSBA 2NOFA 4EA4A 3G0QA 1PU6A 1FN7A 1EBMA 2I5WA 3CWAA 1KG3A 4AI4A 1LMZA 4UNFA 3CWTA 3I0XA 2H56A 1N3CA 4B21A 1DIZA 1PVSA 4EW4A 4YPRA 1RRSA 1KG6A 2NOEA 1XG7A 1WEIA 4E9HA 1P7MA 2YG8A 1YQRA 2JHNA 2NOIA 1NGNA 4UOBA 5DPKA 4E9EA 1LWVA 3CVSA 4AI5A 3IH7A 1HU0A 3CVTA 3FHFA 2ABKA 5KN8A 2YG9A 4YPHA 4PIIA 2NOLA 1MUYA 2OFIA 2JG6A 3D4VA 1WEFA 3OGDA 1KG2A 2OFKA 2JHJA 1MUNA 1VRLA 3CWSA 3S6IA 1KO9A 1PU8A 1P59A 3KNTA 2NOBA 3I0WA 1XQOA 1KG5A 1MPGA 2XHIA 1KG4A 4EW0A 1KEAA 4E9FA 1MUDA 1M3QA 2NOZA 1KQJA 1WEGA 1NKUA 4EJYA 4B22A 3KTUA 4EA5A 1ORNA 1YQKA 3CW7A 5AN4A 1N3AA 1LWYA 1M3HA 4OFAA 3OH9A 4EJZA 3OH6A 3N0UA 4OFHA 1N39A 5CHZA 3F0ZA 3IHOA 1YQLA 2NOHA 4EVVA 3N5NX 4B23A 3FHGA 4E9GA 4OFEA 1XQPA 1RRQA 4YOQA 4DK9A 1LWWA 1KG7A 4B24A 3CWUA 1ORPA 1YQMA 1PU7A 3F10A
chains in the Genus database with same CATH superfamily
3FSPA 4AIAA 1M5Q1 2VJ0A 2O3OA 1FN7A 2Y8LA 4D7RA 2FGTA 3VN5A 3CWAA 3CWTA 4BE1A 3L2WA 2IV9A 1N3CA 3HS9A 1DIZA 4EW4A 2OOYA 1TGHA 3OS0A 3OSMA 3OYCA 4EAGA 1QN9A 1TBPA 2LAEA 4E9HA 1VTOA 1YQRA 1KFIA 1UT7A 1NGNA 4UOBA 5DPKA 3ENOC 3OC3C 1MP9A 4E9EA 4EALA 4AI5A 2JPIA 1HU0A 3EAYA 2QREA 4EAJA 2QLVA 3OYIA 1NGMA 1WQAA 1MUYA 2JG6A 2QR1A 2W03A 4E7LA 1NVPA 3EIKA 4NZGA 3ULXA 1P59A 3KNTA 1QN6A 3PDKA 3S3OA 4IL8A 3DPUA 1CDWA 1KG4A 4EW0A 4E9FA 1QN4A 2H4LX 3OS1A 4EJYA 2H5AX 4EA5A 3KTUA 1KFQA 2Y8QA 2HL8A 1M3HA 1VOLB 3OYKA 3OH6A 4IKFA 1J3MA 2HL9A 3OSTA 1N39A 3OYAA 1XSZA 2FKFA 3IHOA 1YQLA 4EVVA 2FUVA 4E9GA 1AISA 1JDYA 1UL7A 1KG7A 1D3UA 1YQMA 1C4GA 3F10A 1PCMX 2NOFA 3I3WA 4EA4A 2HZMA 1PU6A 3UW2A 1EBMA 1LMZA 4UNFA 2G30A 2H56A 3OYFA 1RM1A 3OY9A 3VW4A 1P5GX 1KG6A 2NOEA 4MRQA 2JHNA 2HKPA 5FROA 2V75A 1LWVA 3IH7A 1KYDA 3OYGA 4E7HA 4I8OA 3FHFA 3OLPA 5KN8A 5JMVD 2F7LA 2YG9A 4YPHA 1NH2A 4CFFA 4PIIA 1C47A 2OFIA 3D4VA 1KG2A 4B0AA 4ROEB 1YTFA 1YTBA 1VRLA 1TBAB 1QNBA 3S6IA 1PU8A 3I0WA 1VKLA 1MPGA 2FKMX 2XHIA 4BDZA 4BE0A 3ENCA 2NOZA 1WEGA 1W80A 4B22A 1QN5A 5AN4A 5JN5A 4OFAA 3OH9A 3PMGA 5F9CA 1QNCA 3N5NX 1XQPA 4Q11A 4DK9A 2MZ8A 3CWUA 1TUOA 3SNSA 3OYJA 3OS2A 3NNQA 3LCNA 4HSBA 1U84A 1VOKA 4C7PA 1QN3A 1KG3A 1QNAA 3I0XA 1B9KA 1PCZA 5BMNA 4B21A 2Z8UA 4YPRA 1K35A 3D7QA 2JPSA 3L2QA 2D0BA 4BACA 2YG8A 1T6AA 3RPJA 2JOIA 3OYNA 4DULA 2V9JA 3S3NA 2NLVA 1KY6A 4ROCB 2QRDA 1PZDA 1P5DX 3L2VA 2V92A 3CVTA 2ABKA 3S3MA 4BJUA 3ASMA 3L2RA 2NVMA 2NOLA 2OOXA 1R4XA 1Q9UA 1UT4A 3OGDA 2D0CA 1JFIC 2NOBA 1K2YX 1QNEA 5BMPA 2Z0FA 5FRMA 1C9BB 1QN7A 2HZSA 1M3QA 3OYHA 1NKUA 2DKCA 1ORNA 1YQKA 3CW7A 5IYBP 2D0AA 2YH5A 4EJZA 4BE2A 3L2UA 1QTSA 3N0UA 4OFHA 4TPSA 4PY5A 2R5XA 2NOHA 4RODB 4B23A 4WX8A 1RRQA 3OYBA 4YOQA 3T4NA 3OYLA 2V8QA 4QG5A 5KN9A 2YA3A 1V5SA 3G0QA 1KYFA 3KRMA 2I5WA 4AI4A 2IV8A 1PCJX 4BDYA 1PVSA 2DKAA 2EHBD 3DPTA 4E7IA 1WJWA 1RRSA 2PWWA 4HJHA 1XG7A 1WEIA 5KL0A 4D7QA 4ZTFA 1P7MA 2ZFDB 2NOIA 1VTLE 4ZTJA 2NWVA 3TE5A 3CVSA 4WZSD 5FRNA 3OCIA 5IYCP 4EAIA 3N89A 1KY7A 1LXTA 1EUVA 1QTPA 1WEFA 2OFKA 2JHJA 1MUNA 2MJ7A 3NA5A 3OYDA 3CWSA 1KO9A 1XQOA 3BKQX 1KG5A 3TDHA 4EAKA 1KEAA 1MUDA 1KQJA 4E7JA 3R2XC 2DKDA 1N3AA 1LWYA 4E7KA 3H1ZA 4WXAA 2W04A 5CHZA 3F0ZA 3HS8A 5EPCA 3FHGA 3OYEA 3RSMA 4OFEA 1E42A 3OYMA 3C04A 1QN8A 5HSHA 1LWWA 4B24A 1ORPA 2QRCA 3OSEA 5IYDP 1KYUA 1PU7A
chains in the Genus database with same CATH topology
3FSPA 5KN9A 4AIAA 4HSBA 2NOFA 4EA4A 3G0QA 1PU6A 1FN7A 1EBMA 2I5WA 3CWAA 1KG3A 4AI4A 1LMZA 4UNFA 3CWTA 3I0XA 2H56A 1N3CA 4B21A 1DIZA 1PVSA 4EW4A 4YPRA 1RRSA 1KG6A 2NOEA 1XG7A 1WEIA 4E9HA 1P7MA 2YG8A 1YQRA 2JHNA 2NOIA 1NGNA 4UOBA 5DPKA 4E9EA 1LWVA 3CVSA 4AI5A 3IH7A 1HU0A 3CVTA 3FHFA 2ABKA 5KN8A 2YG9A 4YPHA 4PIIA 2NOLA 1MUYA 2OFIA 2JG6A 3D4VA 1WEFA 3OGDA 1KG2A 2OFKA 2JHJA 1MUNA 1VRLA 3CWSA 3S6IA 1KO9A 1PU8A 1P59A 3KNTA 2NOBA 3I0WA 1XQOA 1KG5A 1MPGA 2XHIA 1KG4A 4EW0A 1KEAA 4E9FA 1MUDA 1M3QA 2NOZA 1KQJA 1WEGA 1NKUA 4EJYA 4B22A 3KTUA 4EA5A 1ORNA 1YQKA 3CW7A 5AN4A 1N3AA 1LWYA 1M3HA 4OFAA 3OH9A 4EJZA 3OH6A 3N0UA 4OFHA 1N39A 5CHZA 3F0ZA 3IHOA 1YQLA 2NOHA 4EVVA 3N5NX 4B23A 3FHGA 4E9GA 4OFEA 1XQPA 1RRQA 4YOQA 4DK9A 1LWWA 1KG7A 4B24A 3CWUA 1ORPA 1YQMA 1PU7A 3F10A
chains in the Genus database with same CATH homology


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