1VTLE

Co-crystal structure of tbp recognizing the minor groove of a tata element
Total Genus 46
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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
46
sequence length
186
structure length
186
Chain Sequence
DLSKHPSGIVPTLQNIVSTVNLDCKLDLKAIALQARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVCTGAKSEDFSKMAARKYARIVQKLGFPAKFKDFKIQNIVGSCDVKFPIRLEGLAYSHAAFSSYEPELFPGLIYRMKVPKIVLLIFVSGKIVITGAKMRDETYKAFENIYPVLSEFRKI
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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 Transcription/dna
publication title Co-Crystal Structure of TBP Recognizing the Minor Groove of a TATA Element
pubmed doi rcsb
molecule keywords DNA (5'-D(*GP*CP*TP*AP*TP*AP*AP*AP*AP*GP*GP*GP*CP*A)-3')
total genus 46
structure length 186
sequence length 186
chains with identical sequence F
ec nomenclature
pdb deposition date 1993-12-17

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
E PF00352 TBP Transcription factor TFIID (or TATA-binding protein, TBP)
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.30.310.10 Alpha Beta 2-Layer Sandwich TATA-Binding Protein TATA-Binding Protein 1vtlE01
3.30.310.10 Alpha Beta 2-Layer Sandwich TATA-Binding Protein TATA-Binding Protein 1vtlE02
2Z8UA 1VTLE 1B9KA 2G30A 1PCZA 1R4XA 1TBAB 1KY7A 4RODB 1KYDA 2IV9A 1QN8A 1PZDA 2VJ0A 1QTSA 1RM1A 4WZSD 1QN6A 2D0AA 1CDWA 2MJ7A 3ASMA 3EIKA 3OCIA 4ROEB 1C9BB 1QTPA 3HS9A 1D3UA 1QNBA 1QN3A 4B0AA 1W80A 3H1ZA 1E42A 1KYFA 2IV8A 1QNCA 1JFIC 4PY5A 1QN7A 1QNEA 3VN5A 1QN5A 1VOLB 1NVPA 1QNAA 1VTOA 1QN9A 5IYCP 1TGHA 1YTFA 2D0CA 5IYBP 2D0BA 1NH2A 1AISA 1VOKA 1KY6A 3HS8A 5IYDP 1KYUA 4ROCB 1YTBA 1TBPA 3OC3C 1QN4A 1NGMA 1MP9A
chains in the Genus database with same CATH superfamily
2Z8UA 1VTLE 2FUVA 4BJUA 1R4XA 2I5WA 1KY7A 3CVTA 1KYDA 4EJYA 4EAJA 1YQLA 2JHNA 2Z0FA 1QTPA 5JMVD 3D4VA 3CWTA 4DULA 4EJZA 4TPSA 1QNCA 4PY5A 2HKPA 1VKLA 4WX8A 3CWAA 1EUVA 2QR1A 1NVPA 1T6AA 2DKAA 1QN9A 4D7QA 1J3MA 1N39A 1Q9UA 2EHBD 2D0CA 1UT7A 2D0BA 1WQAA 2FKMX 1K35A 4C7PA 2NLVA 1KYUA 1PVSA 3NA5A 4WXAA 1QN4A 1LWYA 2YH5A 1NGMA 1M3QA 3OH9A 1MP9A 1MPGA 2G30A 1PCZA 1TBAB 2LAEA 4Q11A 5EPCA 4RODB 5BMNA 3OH6A 2NOIA 2V9JA 3N89A 2R5XA 3PMGA 4WZSD 3CWUA 3PDKA 1CDWA 2MJ7A 3ASMA 3EIKA 3OCIA 5BMPA 1QN3A 2QRDA 1QNBA 1UT4A 3H1ZA 1E42A 1KYFA 2JOIA 2YA3A 1EBMA 1C47A 2IV8A 3TDHA 3SNSA 1M3HA 1KFQA 1TUOA 1C4GA 3RPJA 2FKFA 3ENOC 3TE5A 1YQKA 3OSTA 2V8QA 5IYBP 2NOHA 2QRCA 4IL8A 2JHJA 2HZMA 1M5Q1 3F0ZA 3HS8A 2H4LX 2NOZA 2NOLA 2H5AX 1LXTA 4EALA 3C04A 2V92A 3BKQX 2JPIA 2QLVA 2Y8QA 3I0XA 1HU0A 1LWWA 2IV9A 2NOBA 1KO9A 1FN7A 4QG5A 1QN6A 3UW2A 1QN5A 1D3UA 4ROEB 3CW7A 3HS9A 2Y8LA 2OOXA 1V5SA 1W80A 2O3OA 4HJHA 1K2YX 4D7RA 1UL7A 3ULXA 1JFIC 2NOEA 1QN7A 1QNEA 3I0WA 1WJWA 2F7LA 5IYCP 1TGHA 2DKDA 1KFIA 2ZFDB 2MZ8A 3F10A 3OGDA 3CWSA 4CFFA 2HL9A 3RSMA 3DPUA 3D7QA 1VOKA 1KY6A 5IYDP 2HZSA 2HL8A 2NVMA 5AN4A 3OC3C 4EAGA 3I3WA 3IH7A 3T4NA 4MRQA 1B9KA 1QN8A 1PZDA 2VJ0A 1QTSA 4EAIA 2OOYA 1RM1A 2D0AA 5F9CA 1C9BB 5KL0A 1N3AA 3KTUA 1N3CA 4B0AA 3DPTA 3OSEA 1XSZA 3KRMA 2QREA 4I8OA 1LWVA 2NOFA 3VN5A 1VOLB 1YQRA 3CVSA 1QNAA 2DKCA 3ENCA 4EAKA 5JN5A 1VTOA 1YTFA 2FGTA 1P5GX 5HSHA 3OLPA 1PCMX 1PCJX 2NWVA 1NH2A 1JDYA 1P5DX 2PWWA 1AISA 1DIZA 3EAYA 4ROCB 1YTBA 1TBPA 2XHIA 3OSMA 1YQMA
chains in the Genus database with same CATH topology
2Z8UA 1VTLE 2I5WA 4EJYA 1R4XA 1KY7A 1KYDA 1YQLA 1QTPA 4DULA 4EJZA 4TPSA 1QNCA 4PY5A 1NVPA 1QN9A 1N39A 2D0CA 1UT7A 2D0BA 1KYUA 1QN4A 1LWYA 2YH5A 1NGMA 1M3QA 1MP9A 2G30A 1PCZA 1TBAB 2LAEA 4Q11A 4RODB 2NOIA 3N89A 4WZSD 1CDWA 2MJ7A 3ASMA 3EIKA 3OCIA 1QN3A 1QNBA 1UT4A 3H1ZA 1E42A 1KYFA 2JOIA 1EBMA 2IV8A 3SNSA 1M3HA 3RPJA 1YQKA 3OSTA 5IYBP 2NOHA 2HZMA 3F0ZA 3HS8A 2NOZA 2NOLA 3I0XA 1HU0A 1LWWA 2NOBA 2IV9A 1KO9A 1FN7A 1QN6A 1QN5A 1D3UA 4ROEB 3HS9A 1W80A 2O3OA 3ULXA 1JFIC 2NOEA 1QN7A 1QNEA 3I0WA 5IYCP 1TGHA 3F10A 2MZ8A 3DPUA 1VOKA 1KY6A 5IYDP 2HZSA 5AN4A 3OC3C 3IH7A 1B9KA 1QN8A 1PZDA 2VJ0A 1QTSA 1RM1A 2D0AA 1C9BB 1N3AA 3KTUA 1N3CA 4B0AA 3DPTA 3KRMA 1LWVA 4I8OA 2NOFA 3VN5A 1VOLB 1YQRA 1QNAA 1VTOA 1YTFA 2FGTA 1NH2A 1AISA 4ROCB 1YTBA 1TBPA 2XHIA 3OSMA 1YQMA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 2Z8U A;  1VTL E;  1B9K A;  2G30 A;  1PCZ A;  1R4X A;  1TBA B;  1KY7 A;  4ROD B;  1KYD A;  2IV9 A;  1QN8 A;  1PZD A;  2VJ0 A;  1QTS A;  1RM1 A;  4WZS D;  1QN6 A;  2D0A A;  1CDW A;  2MJ7 A;  3ASM A;  3EIK A;  3OCI A;  4ROE B;  1C9B B;  1QTP A;  3HS9 A;  1D3U A;  1QNB A;  1QN3 A;  4B0A A;  1W80 A;  3H1Z A;  1E42 A;  1KYF A;  2IV8 A;  1QNC A;  1JFI C;  4PY5 A;  1QN7 A;  1QNE A;  3VN5 A;  1QN5 A;  1VOL B;  1NVP A;  1QNA A;  1VTO A;  1QN9 A;  5IYC P;  1TGH A;  1YTF A;  2D0C A;  5IYB P;  2D0B A;  1NH2 A;  1AIS A;  1VOK A;  1KY6 A;  3HS8 A;  5IYD P;  1KYU A;  4ROC B;  1YTB A;  1TBP A;  3OC3 C;  1QN4 A;  1NGM A;  1MP9 A; 
#chains in the Genus database with same CATH topology
 2Z8U A;  1VTL E;  2FUV A;  4BJU A;  1R4X A;  2I5W A;  1KY7 A;  3CVT A;  1KYD A;  4EJY A;  4EAJ A;  1YQL A;  2JHN A;  2Z0F A;  1QTP A;  5JMV D;  3D4V A;  3CWT A;  4DUL A;  4EJZ A;  4TPS A;  1QNC A;  4PY5 A;  2HKP A;  1VKL A;  4WX8 A;  3CWA A;  1EUV A;  2QR1 A;  1NVP A;  1T6A A;  2DKA A;  1QN9 A;  4D7Q A;  1J3M A;  1N39 A;  1Q9U A;  2EHB D;  2D0C A;  1UT7 A;  2D0B A;  1WQA A;  2FKM X;  1K35 A;  4C7P A;  2NLV A;  1KYU A;  1PVS A;  3NA5 A;  4WXA A;  1QN4 A;  1LWY A;  2YH5 A;  1NGM A;  1M3Q A;  3OH9 A;  1MP9 A;  1MPG A;  2G30 A;  1PCZ A;  1TBA B;  2LAE A;  4Q11 A;  5EPC A;  4ROD B;  5BMN A;  3OH6 A;  2NOI A;  2V9J A;  3N89 A;  2R5X A;  3PMG A;  4WZS D;  3CWU A;  3PDK A;  1CDW A;  2MJ7 A;  3ASM A;  3EIK A;  3OCI A;  5BMP A;  1QN3 A;  2QRD A;  1QNB A;  1UT4 A;  3H1Z A;  1E42 A;  1KYF A;  2JOI A;  2YA3 A;  1EBM A;  1C47 A;  2IV8 A;  3TDH A;  3SNS A;  1M3H A;  1KFQ A;  1TUO A;  1C4G A;  3RPJ A;  2FKF A;  3ENO C;  3TE5 A;  1YQK A;  3OST A;  2V8Q A;  5IYB P;  2NOH A;  2QRC A;  4IL8 A;  2JHJ A;  2HZM A;  1M5Q 1;  3F0Z A;  3HS8 A;  2H4L X;  2NOZ A;  2NOL A;  2H5A X;  1LXT A;  4EAL A;  3C04 A;  2V92 A;  3BKQ X;  2JPI A;  2QLV A;  2Y8Q A;  3I0X A;  1HU0 A;  1LWW A;  2IV9 A;  2NOB A;  1KO9 A;  1FN7 A;  4QG5 A;  1QN6 A;  3UW2 A;  1QN5 A;  1D3U A;  4ROE B;  3CW7 A;  3HS9 A;  2Y8L A;  2OOX A;  1V5S A;  1W80 A;  2O3O A;  4HJH A;  1K2Y X;  4D7R A;  1UL7 A;  3ULX A;  1JFI C;  2NOE A;  1QN7 A;  1QNE A;  3I0W A;  1WJW A;  2F7L A;  5IYC P;  1TGH A;  2DKD A;  1KFI A;  2ZFD B;  2MZ8 A;  3F10 A;  3OGD A;  3CWS A;  4CFF A;  2HL9 A;  3RSM A;  3DPU A;  3D7Q A;  1VOK A;  1KY6 A;  5IYD P;  2HZS A;  2HL8 A;  2NVM A;  5AN4 A;  3OC3 C;  4EAG A;  3I3W A;  3IH7 A;  3T4N A;  4MRQ A;  1B9K A;  1QN8 A;  1PZD A;  2VJ0 A;  1QTS A;  4EAI A;  2OOY A;  1RM1 A;  2D0A A;  5F9C A;  1C9B B;  5KL0 A;  1N3A A;  3KTU A;  1N3C A;  4B0A A;  3DPT A;  3OSE A;  1XSZ A;  3KRM A;  2QRE A;  4I8O A;  1LWV A;  2NOF A;  3VN5 A;  1VOL B;  1YQR A;  3CVS A;  1QNA A;  2DKC A;  3ENC A;  4EAK A;  5JN5 A;  1VTO A;  1YTF A;  2FGT A;  1P5G X;  5HSH A;  3OLP A;  1PCM X;  1PCJ X;  2NWV A;  1NH2 A;  1JDY A;  1P5D X;  2PWW A;  1AIS A;  1DIZ A;  3EAY A;  4ROC B;  1YTB A;  1TBP A;  2XHI A;  3OSM A;  1YQM A; 
#chains in the Genus database with same CATH homology
 2Z8U A;  1VTL E;  2I5W A;  4EJY A;  1R4X A;  1KY7 A;  1KYD A;  1YQL A;  1QTP A;  4DUL A;  4EJZ A;  4TPS A;  1QNC A;  4PY5 A;  1NVP A;  1QN9 A;  1N39 A;  2D0C A;  1UT7 A;  2D0B A;  1KYU A;  1QN4 A;  1LWY A;  2YH5 A;  1NGM A;  1M3Q A;  1MP9 A;  2G30 A;  1PCZ A;  1TBA B;  2LAE A;  4Q11 A;  4ROD B;  2NOI A;  3N89 A;  4WZS D;  1CDW A;  2MJ7 A;  3ASM A;  3EIK A;  3OCI A;  1QN3 A;  1QNB A;  1UT4 A;  3H1Z A;  1E42 A;  1KYF A;  2JOI A;  1EBM A;  2IV8 A;  3SNS A;  1M3H A;  3RPJ A;  1YQK A;  3OST A;  5IYB P;  2NOH A;  2HZM A;  3F0Z A;  3HS8 A;  2NOZ A;  2NOL A;  3I0X A;  1HU0 A;  1LWW A;  2NOB A;  2IV9 A;  1KO9 A;  1FN7 A;  1QN6 A;  1QN5 A;  1D3U A;  4ROE B;  3HS9 A;  1W80 A;  2O3O A;  3ULX A;  1JFI C;  2NOE A;  1QN7 A;  1QNE A;  3I0W A;  5IYC P;  1TGH A;  3F10 A;  2MZ8 A;  3DPU A;  1VOK A;  1KY6 A;  5IYD P;  2HZS A;  5AN4 A;  3OC3 C;  3IH7 A;  1B9K A;  1QN8 A;  1PZD A;  2VJ0 A;  1QTS A;  1RM1 A;  2D0A A;  1C9B B;  1N3A A;  3KTU A;  1N3C A;  4B0A A;  3DPT A;  3KRM A;  1LWV A;  4I8O A;  2NOF A;  3VN5 A;  1VOL B;  1YQR A;  1QNA A;  1VTO A;  1YTF A;  2FGT A;  1NH2 A;  1AIS A;  4ROC B;  1YTB A;  1TBP A;  2XHI A;  3OSM A;  1YQM 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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