3OH9A

Alka undamaged dna complex: interrogation of a t:a base pair
Total Genus 84
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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
84
sequence length
288
structure length
288
Chain Sequence
MADIGSEFYTLNWQPPYDWSWMLGFLAARAVSSVETVADSYYARSLAVGEYRGVVTAIPDIARHTLHINLSAGLEPVAAECLAKMSRLFDLQCNPQIVNGALGRLGAARPGLRLPGCVDAFEQGVRAILGQLVSVAMAAKLTARVAQLYGERLDDFPEYICFPTPQRLAAADPQALKALGMPLKRAEALIHLANAALEGTLPMTIPGDVEQAMKTLQTFPGIGRWTANYFALRGWQAKDVFLPDDCLIKQRFPGMTPAQIRRYAERWKPWRSYALLHIWYTEGWQPDE
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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 keywords DNA-3-methyladenine glycosylase 2
publication title Structure of Escherichia coli AlkA in Complex with Undamaged DNA.
pubmed doi rcsb
source organism Escherichia coli
molecule tags Hydrolase/dna
total genus 84
structure length 288
sequence length 288
ec nomenclature ec 3.2.2.21: DNA-3-methyladenine glycosylase II.
pdb deposition date 2010-08-17

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF00730 HhH-GPD HhH-GPD superfamily base excision DNA repair protein
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 3oh9A02
1.10.1670.10 Mainly Alpha Orthogonal Bundle Endonuclease Iii, domain 2 Helix-hairpin-Helix base-excision DNA repair enzymes (C-terminal) 3oh9A03
3.30.310.20 Alpha Beta 2-Layer Sandwich TATA-Binding Protein DNA-3-methyladenine glycosylase AlkA, N-terminal domain 3oh9A01
4UOBA 1PU6A 2NOBA 1RRQA 1LMZA 1NKUA 4EA4A 1VRLA 3FHFA 1DIZA 1NGNA 2ABKA 3F10A 1YQMA 1EBMA 1XQOA 1PVSA 1YQLA 1MUDA 2NOZA 3CWTA 5DPKA 4OFHA 4EJYA 1MPGA 3N5NX 3CWSA 3CWAA 1KG5A 1KG6A 1YQRA 1KG2A 1KEAA 2JHJA 2YG9A 3CW7A 4AI5A 3I0WA 3D4VA 3I0XA 2H56A 4DK9A 5CHZA 4YPHA 1KG3A 1LWVA 3OH6A 5KN8A 3S6IA 1ORPA 3IHOA 1KQJA 2NOEA 1HU0A 4B23A 4PIIA 1MUYA 4B22A 1KG4A 2NOFA 2JHNA 4EJZA 1XQPA 2NOHA 2NOLA 4EVVA 1P7MA 1RRSA 1P59A 4YOQA 1WEFA 4E9HA 1PU7A 1XG7A 3KNTA 2OFIA 3OGDA 2OFKA 4AI4A 2YG8A 2XHIA 4B21A 2JG6A 1LWYA 3FSPA 5KN9A 1KG7A 4E9EA 1KO9A 3N0UA 4EW0A 1YQKA 4EW4A 4YPRA 3G0QA 3CWUA 2I5WA 3IH7A 1M3HA 3CVTA 1N39A 4AIAA 4HSBA 4EA5A 1N3AA 3OH9A 4OFAA 1MUNA 1FN7A 5AN4A 1WEGA 1PU8A 1ORNA 3CVSA 1LWWA 4UNFA 4B24A 1WEIA 3KTUA 3F0ZA 1M3QA 4E9GA 1N3CA 4OFEA 3FHGA 2NOIA 4E9FA
chains in the Genus database with same CATH superfamily
4BE0A 3KRMA 2NOBA 5HSHA 2LAEA 1NGNA 1VOLB 1YQMA 1VKLA 5JN5A 4BDZA 1EBMA 2D0CA 1AISA 2PWWA 1VOKA 5DPKA 2FGTA 1QNEA 3N5NX 1JFIC 3TE5A 2V92A 2MZ8A 1J3MA 1KG2A 2JHJA 2YG9A 3OSMA 3D4VA 3I0XA 4ZTFA 2H56A 2H4LX 2QRDA 2OOYA 5CHZA 4I8OA 3H1ZA 1C9BB 5FROA 3S6IA 4EAGA 1MP9A 4PIIA 1MUYA 4B22A 4WX8A 2NOHA 1QNBA 4PY5A 3LCNA 1LXTA 2G30A 1XG7A 1KYUA 4ROEB 4BJUA 4ZTJA 2OFKA 1UT4A 2DKAA 4B21A 2JG6A 5KN9A 4E9EA 2NLVA 4EW0A 1R4XA 1YQKA 2Y8QA 4EW4A 4ROCB 1TGHA 3EAYA 1K35A 2Z0FA 1YTBA 3IH7A 1CDWA 5EPCA 1C47A 4IL8A 4OFAA 3OYAA 4RODB 5FRNA 5KL0A 1WEGA 1ORNA 1LWWA 3NNQA 2FKMX 3HS8A 2V9JA 1NGMA 4E9FA 3OYJA 1PU6A 1RRQA 4IKFA 2JPIA 1LMZA 2QREA 1VRLA 3FHFA 2VJ0A 1UT7A 2IV8A 1PVSA 1MUDA 2Z8UA 4WZSD 2OOXA 4E7HA 3VW4A 5IYCP 5IYDP 3OYMA 2HKPA 1KG5A 3I0WA 1WJWA 1KG3A 1QN4A 4D7QA 3OH6A 5JMVD 2MJ7A 1RM1A 2YA3A 3OYNA 1TBPA 1HU0A 2Y8LA 3RSMA 2JHNA 4EJZA 1KY6A 4EVVA 3RPJA 1RRSA 1P59A 2F7LA 3OSTA 2NVMA 1PU7A 1QTPA 4BE1A 5FRMA 3OGDA 3FSPA 2NOIA 1KFIA 3N0UA 2FKFA 4YPRA 3G0QA 1WQAA 3N89A 5F9CA 1VTLE 3OYFA 2I5WA 1M3HA 1N39A 4AIAA 4EA5A 3OH9A 1U84A 3S3NA 1TUOA 4BACA 5AN4A 2QR1A 1PU8A 3ENOC 3KTUA 4B24A 3L2WA 1QTSA 1V5SA 1N3CA 1W80A 1KFQA 3NA5A 3C04A 1D3UA 3SNSA 1B9KA 1NKUA 4E7IA 1DIZA 2ABKA 3F10A 1XQOA 1YQLA 3OYEA 3CWTA 2O3OA 1PCZA 4E7JA 2HZMA 5BMPA 4EJYA 2IV9A 3BKQX 3CWSA 1E42A 4B0AA 1KG6A 1KEAA 3CW7A 2YH5A 4CFFA 4DK9A 3R2XC 3DPTA 3ULXA 1LWVA 4C7PA 5IYBP 2QLVA 1C4GA 2HL9A 2DKCA 3EIKA 2JPSA 3L2QA 2QRCA 2JOIA 4QG5A 4YOQA 2D0AA 4E9HA 4BDYA 2OFIA 1K2YX 2YG8A 2HZSA 2XHIA 4TPSA 4DULA 2V75A 1KG7A 1UL7A 4EAKA 4EAIA 1QN6A 3L2UA 2EHBD 3CVTA 1EUVA 1N3AA 4NZGA 1QNAA 1FN7A 3CVSA 1QN5A 1QN9A 1WEIA 3F0ZA 1PCJX 2DKDA 3TDHA 4E9GA 4OFEA 1PZDA 3OS2A 4EAJA 1P5GX 2D0BA 4UOBA 2W03A 3I3WA 4EA4A 3ASMA 1QNCA 1T6AA 3UW2A 3OS1A 4BE2A 1NH2A 3OLPA 2NOZA 2HL8A 4OFHA 1KYDA 1KY7A 3OYIA 1KYFA 1MPGA 3PMGA 3CWAA 3OYLA 1YQRA 3OY9A 2R5XA 4AI5A 1PCMX 4E7KA 3S3MA 1XSZA 2V8QA 4YPHA 1Q9UA 4WXAA 1QN3A 3DPUA 1NVPA 5KN8A 1ORPA 3OSEA 3IHOA 4D7RA 1KQJA 2NOEA 4B23A 3L2VA 4EALA 1KG4A 2NOFA 1XQPA 2NOLA 1P7MA 1QN8A 3ENCA 1VTOA 1WEFA 3PDKA 3OYKA 3KNTA 2NWVA 1P5DX 4AI4A 3OYGA 1LWYA 3OS0A 3OC3C 5BMNA 4E7LA 3OYHA 1KO9A 1TBAB 3OYCA 3CWUA 4HJHA 1M5Q1 4MRQA 2H5AX 4HSBA 3T4NA 3D7QA 1MUNA 1YTFA 3L2RA 1QN7A 4UNFA 1JDYA 3HS9A 3OYBA 2FUVA 1M3QA 3S3OA 2W04A 3OYDA 2ZFDB 3FHGA 3VN5A 4Q11A 3OCIA
chains in the Genus database with same CATH topology
4UOBA 1PU6A 2NOBA 1RRQA 1LMZA 1NKUA 4EA4A 1VRLA 3FHFA 1DIZA 1NGNA 2ABKA 3F10A 1YQMA 1EBMA 1XQOA 1PVSA 1YQLA 1MUDA 2NOZA 3CWTA 5DPKA 4OFHA 4EJYA 1MPGA 3N5NX 3CWSA 3CWAA 1KG5A 1KG6A 1YQRA 1KG2A 1KEAA 2JHJA 2YG9A 3CW7A 4AI5A 3I0WA 3D4VA 3I0XA 2H56A 4DK9A 5CHZA 4YPHA 1KG3A 1LWVA 3OH6A 5KN8A 3S6IA 1ORPA 3IHOA 1KQJA 2NOEA 1HU0A 4B23A 4PIIA 1MUYA 4B22A 1KG4A 2NOFA 2JHNA 4EJZA 1XQPA 2NOHA 2NOLA 4EVVA 1P7MA 1RRSA 1P59A 4YOQA 1WEFA 4E9HA 1PU7A 1XG7A 3KNTA 2OFIA 3OGDA 2OFKA 4AI4A 2YG8A 2XHIA 4B21A 2JG6A 1LWYA 3FSPA 5KN9A 1KG7A 4E9EA 1KO9A 3N0UA 4EW0A 1YQKA 4EW4A 4YPRA 3G0QA 3CWUA 2I5WA 3IH7A 1M3HA 3CVTA 1N39A 4AIAA 4HSBA 4EA5A 1N3AA 3OH9A 4OFAA 1MUNA 1FN7A 5AN4A 1WEGA 1PU8A 1ORNA 3CVSA 1LWWA 4UNFA 4B24A 1WEIA 3KTUA 3F0ZA 1M3QA 4E9GA 1N3CA 4OFEA 3FHGA 2NOIA 4E9FA
chains in the Genus database with same CATH homology


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