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


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