3CVTA

Crystal structure of an alka host/guest complex 8oxoguanine:cytosine 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
molecule keywords DNA-3-methyladenine glycosylase 2
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
source organism Escherichia coli
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 2008-04-19

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 3cvtA02
1.10.1670.10 Mainly Alpha Orthogonal Bundle Endonuclease Iii, domain 2 Helix-hairpin-Helix base-excision DNA repair enzymes (C-terminal) 3cvtA03
3.30.310.20 Alpha Beta 2-Layer Sandwich TATA-Binding Protein DNA-3-methyladenine glycosylase AlkA, N-terminal domain 3cvtA01
3F10A 1YQLA 1KG6A 2NOZA 4B24A 1MUNA 1NGNA 4OFEA 4UNFA 4E9EA 3CWAA 4HSBA 4E9GA 1NKUA 2YG8A 1WEFA 3OGDA 3I0WA 2OFIA 4EJYA 4DK9A 4AI4A 1YQKA 3FSPA 3OH6A 1PU8A 1M3QA 1DIZA 4B23A 1KG5A 3OH9A 2JHJA 5KN9A 3CWSA 1N39A 2JHNA 2H56A 4EW0A 2NOIA 3N5NX 2NOHA 1P7MA 1KG3A 4PIIA 4EA5A 1ORPA 1MUYA 1PVSA 3D4VA 1YQRA 3CVTA 1PU7A 3I0XA 2NOBA 5CHZA 2NOFA 1N3CA 1MUDA 1HU0A 1FN7A 3FHGA 1LWVA 1N3AA 1YQMA 3IH7A 5KN8A 1KG4A 1P59A 5DPKA 1KQJA 3CWUA 1WEIA 4E9HA 2OFKA 1M3HA 1LWWA 3CVSA 4B21A 3F0ZA 3KNTA 4EW4A 4YPHA 4UOBA 1ORNA 1LWYA 1KEAA 1XQPA 4EA4A 3KTUA 1WEGA 3CWTA 4AI5A 2NOEA 3CW7A 3S6IA 2I5WA 1KO9A 4E9FA 3FHFA 4EVVA 1KG2A 5AN4A 1EBMA 1LMZA 1PU6A 4OFAA 4B22A 4EJZA 1XQOA 4AIAA 3G0QA 1KG7A 2NOLA 1MPGA 1RRQA 2JG6A 3N0UA 4OFHA 4YPRA 2YG9A 1XG7A 1RRSA 2ABKA 3IHOA 4YOQA 1VRLA 2XHIA
chains in the Genus database with same CATH superfamily
4EAIA 1YTFA 1KG6A 2JOIA 1NGNA 4OFEA 2Z8UA 2MZ8A 4BDZA 4HSBA 1NKUA 3I0WA 2YH5A 5IYBP 3OYFA 1U84A 4AI4A 1LXTA 3FSPA 4YOQA 1PCZA 1N39A 1K35A 2H56A 2NOIA 2QR1A 3R2XC 2NOHA 2JPSA 1MUYA 3OYMA 4E7IA 3OCIA 3PMGA 3OYCA 1YQRA 3I3WA 3OC3C 3CVTA 4Q11A 4WX8A 3I0XA 2NOFA 1CDWA 1NH2A 3OSEA 3FHGA 3T4NA 3OYHA 4WZSD 1J3MA 1QNCA 1V5SA 3NNQA 1WEIA 1VKLA 5F9CA 3OYBA 1LWWA 3L2WA 5JMVD 4UOBA 1PZDA 5JN5A 3EIKA 1XQPA 4NZGA 4E7JA 3VN5A 3KTUA 3ENCA 1WEGA 3TE5A 4WXAA 4B0AA 4D7QA 1D3UA 5IYCP 2NOEA 1VTLE 3S6IA 5FROA 1RM1A 1UL7A 4DULA 1NVPA 1QTPA 2HL9A 4HJHA 1LMZA 4B22A 4EJZA 1UT4A 4AIAA 1RRQA 1QN9A 2XHIA 3DPUA 1YQLA 1KFQA 1P5GX 1MUNA 1TBPA 2W04A 4E9EA 1TGHA 3S3MA 1QN3A 2FKFA 3EAYA 1NGMA 4DK9A 3OYNA 1KG5A 5IYDP 1KFIA 2OOXA 2JHNA 4BDYA 3OYGA 3N5NX 4BACA 3OY9A 1C4GA 1MP9A 1VOKA 1P7MA 3OSTA 1E42A 4PIIA 2FKMX 4EA5A 3D4VA 2O3OA 3OYKA 2QLVA 5CHZA 1N3CA 1T6AA 2Y8LA 3BKQX 2YA3A 2IV8A 1JFIC 4BE1A 1HU0A 3H1ZA 4D7RA 5BMPA 4BE2A 3IH7A 4QG5A 3L2RA 2NLVA 1KG4A 1WJWA 3CVSA 4B21A 2LAEA 3F0ZA 4EW4A 1KY6A 3RPJA 1ORNA 1LWYA 2DKCA 3L2UA 1KYUA 1JDYA 3L2QA 4AI5A 4CFFA 1QN7A 2JPIA 1KG2A 5AN4A 1PU6A 4OFAA 2H5AX 3OS0A 3L2VA 2NOLA 1MPGA 2JG6A 3F10A 4ZTFA 1AISA 2NOZA 4B24A 4EAGA 1P5DX 5EPCA 3CWAA 4E9GA 4ZTJA 5KL0A 5FRNA 1WEFA 3S3NA 2VJ0A 4EJYA 2QREA 2V92A 4E7HA 3OH6A 1PU8A 1C47A 1TUOA 1QN4A 4IKFA 1QTSA 2D0BA 1KG3A 3OYIA 3D7QA 1ORPA 1PVSA 3OS1A 1QNBA 2D0AA 1PU7A 1UT7A 4ROEB 2MJ7A 1QNEA 1WQAA 2EHBD 1LWVA 1YQMA 1Q9UA 4EAJA 2HKPA 1P59A 3ASMA 5DPKA 1KQJA 4RODB 1VTOA 1M3HA 2V9JA 3KRMA 3SNSA 4ROCB 3KNTA 2QRDA 2NVMA 3VW4A 2G30A 1XSZA 4IL8A 1KY7A 3CW7A 2I5WA 2ZFDB 1KO9A 4E9FA 3FHFA 5HSHA 4TPSA 4EVVA 1YTBA 1C9BB 2HZMA 1QNAA 2FUVA 3OLPA 4MRQA 4E7LA 1QN6A 3OS2A 3C04A 3N0UA 4OFHA 3LCNA 2YG9A 4YPRA 3HS8A 3IHOA 3OYJA 3TDHA 2V8QA 4C7PA 1M5Q1 1QN5A 1KYFA 2FGTA 4UNFA 2YG8A 3OGDA 2NWVA 2OFIA 2QRCA 4PY5A 3NA5A 2W03A 1YQKA 1M3QA 4I8OA 1DIZA 4B23A 3OH9A 1W80A 2JHJA 2R5XA 5KN9A 4EALA 3CWSA 3S3OA 4E7KA 4EW0A 1EUVA 4EAKA 1KYDA 3DPTA 3UW2A 1B9KA 2NOBA 2Z0FA 2DKDA 1TBAB 2DKAA 5BMNA 1MUDA 4BJUA 2IV9A 2PWWA 1FN7A 1PCMX 3OYAA 3OYLA 5FRMA 1N3AA 2HL8A 3N89A 5KN8A 3ENOC 3OSMA 3CWUA 2H4LX 4E9HA 2OFKA 2V75A 1QN8A 4YPHA 2F7LA 3OYDA 1KEAA 1VOLB 3PDKA 4EA4A 3CWTA 2OOYA 2D0CA 1R4XA 2HZSA 3ULXA 3OYEA 1EBMA 4BE0A 1XQOA 3RSMA 3G0QA 3HS9A 1KG7A 1PCJX 1XG7A 1RRSA 2Y8QA 2ABKA 1K2YX 1VRLA
chains in the Genus database with same CATH topology
3F10A 1YQLA 1KG6A 2NOZA 4B24A 1MUNA 1NGNA 4OFEA 4UNFA 4E9EA 3CWAA 4HSBA 4E9GA 1NKUA 2YG8A 1WEFA 3OGDA 3I0WA 2OFIA 4EJYA 4DK9A 4AI4A 1YQKA 3FSPA 3OH6A 1PU8A 1M3QA 1DIZA 4B23A 1KG5A 3OH9A 2JHJA 5KN9A 3CWSA 1N39A 2JHNA 2H56A 4EW0A 2NOIA 3N5NX 2NOHA 1P7MA 1KG3A 4PIIA 4EA5A 1ORPA 1MUYA 1PVSA 3D4VA 1YQRA 3CVTA 1PU7A 3I0XA 2NOBA 5CHZA 2NOFA 1N3CA 1MUDA 1HU0A 1FN7A 3FHGA 1LWVA 1N3AA 1YQMA 3IH7A 5KN8A 1KG4A 1P59A 5DPKA 1KQJA 3CWUA 1WEIA 4E9HA 2OFKA 1M3HA 1LWWA 3CVSA 4B21A 3F0ZA 3KNTA 4EW4A 4YPHA 4UOBA 1ORNA 1LWYA 1KEAA 1XQPA 4EA4A 3KTUA 1WEGA 3CWTA 4AI5A 2NOEA 3CW7A 3S6IA 2I5WA 1KO9A 4E9FA 3FHFA 4EVVA 1KG2A 5AN4A 1EBMA 1LMZA 1PU6A 4OFAA 4B22A 4EJZA 1XQOA 4AIAA 3G0QA 1KG7A 2NOLA 1MPGA 1RRQA 2JG6A 3N0UA 4OFHA 4YPRA 2YG9A 1XG7A 1RRSA 2ABKA 3IHOA 4YOQA 1VRLA 2XHIA
chains in the Genus database with same CATH homology


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