3CWTA

Crystal structure of an alka host/guest complex 2'-fluoro-2'-deoxyinosine:adenine 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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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 tags Hydrolase/dna
source organism Escherichia coli
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 2008-04-22

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 3cwtA02
1.10.1670.10 Mainly Alpha Orthogonal Bundle Endonuclease Iii, domain 2 Helix-hairpin-Helix base-excision DNA repair enzymes (C-terminal) 3cwtA03
3.30.310.20 Alpha Beta 2-Layer Sandwich TATA-Binding Protein DNA-3-methyladenine glycosylase AlkA, N-terminal domain 3cwtA01
1N3CA 1LWYA 5KN8A 3OH9A 4E9EA 1YQKA 4B23A 3CWTA 2NOFA 3CWSA 3F0ZA 5DPKA 1P59A 1YQLA 4HSBA 1KQJA 2OFIA 1ORPA 3OH6A 1RRSA 3FHGA 2H56A 3FHFA 1DIZA 2NOEA 2JG6A 4AI4A 4OFAA 1PU7A 2YG9A 1FN7A 1KG4A 1M3HA 1KG5A 1MUDA 4B21A 2YG8A 1NKUA 4UNFA 2NOHA 5KN9A 4DK9A 1PU8A 2XHIA 2ABKA 4YOQA 1LWWA 3KTUA 4OFHA 1RRQA 2I5WA 1NGNA 1PU6A 1VRLA 4EW0A 3CVSA 3I0WA 1KEAA 1MUYA 4OFEA 3D4VA 1PVSA 1YQRA 4E9GA 4EW4A 1N3AA 4EA4A 1MUNA 4AIAA 1WEIA 2JHJA 2NOZA 1MPGA 3IHOA 1XG7A 3N0UA 3I0XA 4B24A 1N39A 4EJYA 3CW7A 1LWVA 4YPRA 1LMZA 4UOBA 3N5NX 1KO9A 3F10A 1XQOA 3CWUA 3FSPA 2OFKA 4EJZA 1KG2A 1P7MA 1KG6A 1KG7A 5CHZA 1M3QA 5AN4A 3OGDA 4PIIA 3CWAA 4E9HA 1WEGA 4EVVA 2JHNA 1WEFA 1HU0A 3CVTA 3IH7A 3G0QA 4E9FA 4EA5A 1ORNA 1KG3A 3KNTA 2NOBA 3S6IA 4AI5A 1YQMA 1EBMA 2NOIA 4B22A 1XQPA 4YPHA 2NOLA
chains in the Genus database with same CATH superfamily
2HL9A 5KN8A 3BKQX 1YQKA 2QLVA 4WZSD 1TGHA 3L2RA 4B23A 2YA3A 1C4GA 2Z8UA 1RM1A 1YQLA 4EALA 5HSHA 1ORPA 3L2WA 3OC3C 1RRSA 2VJ0A 1YTBA 1DIZA 1QNEA 4OFAA 2D0CA 3PDKA 3S3NA 4IL8A 1M3HA 2O3OA 1TUOA 3OS0A 1TBAB 2HKPA 2I5WA 3ENCA 3ASMA 3CVSA 3I0WA 1MUYA 1QN3A 2HZMA 2DKDA 1PVSA 1LXTA 3OSTA 4EW4A 1QTSA 4EA4A 2JHJA 3OY9A 1KFQA 5FRNA 3SNSA 1XG7A 3HS8A 4HJHA 3OYDA 4UOBA 1XQOA 2HZSA 1JDYA 1KG2A 4E7IA 4BDZA 4E9HA 1WEGA 3H1ZA 3CVTA 4E9FA 2JPSA 2D0BA 2DKCA 4BE0A 3S6IA 1KYFA 2V8QA 5KL0A 1QNCA 3T4NA 5EPCA 4NZGA 1P5GX 4D7RA 4B0AA 4RODB 1LWYA 3OYIA 2NWVA 3L2VA 4BACA 2R5XA 1C9BB 2V92A 3F0ZA 4E7JA 5DPKA 1KQJA 4WXAA 3OH6A 4E7HA 2QRCA 4E7LA 2H56A 2OOYA 3L2UA 1V5SA 5IYBP 4AI4A 4DULA 4I8OA 3DPTA 2YG9A 1KG4A 2EHBD 1QNBA 3S3MA 1KG5A 1M5Q1 2YG8A 2OOXA 3L2QA 1QN9A 1PU8A 2XHIA 2ABKA 3KTUA 4OFHA 4WX8A 1NGNA 1VRLA 4EW0A 3UW2A 1QN4A 4OFEA 3D4VA 3OYCA 4EAGA 1KFIA 1K2YX 4E9GA 4MRQA 5BMNA 1MUNA 4AIAA 1WEIA 1MPGA 3ENOC 1QNAA 3IHOA 1R4XA 1JFIC 3I0XA 4E7KA 4B24A 1N39A 3N5NX 1KO9A 3F10A 1NVPA 2MZ8A 1QN6A 2W03A 5JN5A 1P7MA 5CHZA 3S3OA 2PWWA 5AN4A 3OGDA 4PIIA 2DKAA 2D0AA 4Q11A 3LCNA 1ORNA 2NOBA 4EAIA 4AI5A 1YQMA 1EBMA 3EIKA 1VKLA 4PY5A 1XQPA 1J3MA 2G30A 1VTLE 1VOLB 3OH9A 4E9EA 2H5AX 2NLVA 2W04A 1QN5A 1K35A 2HL8A 4EAKA 1P59A 4HSBA 2FGTA 3OSEA 1XSZA 1QTPA 4IKFA 1VOKA 2MJ7A 4BE2A 4CFFA 5IYCP 3VW4A 3OYKA 2JG6A 3ULXA 3OYMA 1PCZA 1PU7A 1FN7A 4ROCB 3TDHA 1MUDA 4UNFA 3NNQA 4DK9A 1KY6A 4YOQA 1LWWA 1QN7A 5FRMA 5FROA 3N89A 1RRQA 5F9CA 2YH5A 1T6AA 2QR1A 1WJWA 5IYDP 2JOIA 1YQRA 1N3AA 2NOZA 1KY7A 2FUVA 4BJUA 3OCIA 3EAYA 3RSMA 2IV8A 2V9JA 3FSPA 4EJZA 1KG6A 5BMPA 4ZTFA 2QREA 3CWAA 3OSMA 2JHNA 3OYGA 1HU0A 2NVMA 1KYUA 3KRMA 1KG3A 3KNTA 4QG5A 2NOIA 1AISA 1E42A 4EAJA 3OYFA 1TBPA 4BDYA 1N3CA 1D3UA 1C47A 1MP9A 3NA5A 1PCMX 3OYLA 3CWTA 2NOFA 3CWSA 1PZDA 2ZFDB 1B9KA 3C04A 2OFIA 2F7LA 3OS1A 1KYDA 1W80A 3OS2A 3FHGA 3OYBA 3FHFA 2NOEA 2V75A 3RPJA 1VTOA 2JPIA 1U84A 4ZTJA 4B21A 1NKUA 1WQAA 1UT7A 2NOHA 5JMVD 5KN9A 1NGMA 3OYEA 2Y8QA 3VN5A 1YTFA 1UL7A 2FKMX 1UT4A 1PU6A 3D7QA 1Q9UA 2QRDA 1KEAA 3I3WA 4C7PA 3OYHA 3TE5A 3OYJA 3HS9A 3OLPA 2Y8LA 3N0UA 3OYAA 3R2XC 4EJYA 3CW7A 1LWVA 4YPRA 4BE1A 1LMZA 1QN8A 1CDWA 3CWUA 1P5DX 2OFKA 1EUVA 2LAEA 1KG7A 1M3QA 1NH2A 2Z0FA 3OYNA 3DPUA 4EVVA 1PCJX 1WEFA 2IV9A 2H4LX 3IH7A 3G0QA 4EA5A 3PMGA 4B22A 4TPSA 2FKFA 4ROEB 4D7QA 4YPHA 2NOLA
chains in the Genus database with same CATH topology
1N3CA 1LWYA 5KN8A 3OH9A 4E9EA 1YQKA 4B23A 3CWTA 2NOFA 3CWSA 3F0ZA 5DPKA 1P59A 1YQLA 4HSBA 1KQJA 2OFIA 1ORPA 3OH6A 1RRSA 3FHGA 2H56A 3FHFA 1DIZA 2NOEA 2JG6A 4AI4A 4OFAA 1PU7A 2YG9A 1FN7A 1KG4A 1M3HA 1KG5A 1MUDA 4B21A 2YG8A 1NKUA 4UNFA 2NOHA 5KN9A 4DK9A 1PU8A 2XHIA 2ABKA 4YOQA 1LWWA 3KTUA 4OFHA 1RRQA 2I5WA 1NGNA 1PU6A 1VRLA 4EW0A 3CVSA 3I0WA 1KEAA 1MUYA 4OFEA 3D4VA 1PVSA 1YQRA 4E9GA 4EW4A 1N3AA 4EA4A 1MUNA 4AIAA 1WEIA 2JHJA 2NOZA 1MPGA 3IHOA 1XG7A 3N0UA 3I0XA 4B24A 1N39A 4EJYA 3CW7A 1LWVA 4YPRA 1LMZA 4UOBA 3N5NX 1KO9A 3F10A 1XQOA 3CWUA 3FSPA 2OFKA 4EJZA 1KG2A 1P7MA 1KG6A 1KG7A 5CHZA 1M3QA 5AN4A 3OGDA 4PIIA 3CWAA 4E9HA 1WEGA 4EVVA 2JHNA 1WEFA 1HU0A 3CVTA 3IH7A 3G0QA 4E9FA 4EA5A 1ORNA 1KG3A 3KNTA 2NOBA 3S6IA 4AI5A 1YQMA 1EBMA 2NOIA 4B22A 1XQPA 4YPHA 2NOLA
chains in the Genus database with same CATH homology


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