1VTOA

1.9 a resolution refined structure of tbp recognizing the minor groove of tataaaag
Total Genus 45
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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
45
sequence length
187
structure length
187
Chain Sequence
VDLSKHPSGIVPTLQNIVSTVNLDCKLDLKAIALQARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVCTGAKSEDFSKMAARKYARIVQKLGFPAKFKDFKIQNIVGSCDVKFPIRLEGLAYSHAAFSSYEPELFPGLIYRMKVPKIVLLIFVSGKIVITGAKMRDETYKAFENIYPVLSEFRKI
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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 1.9 A Resolution Refined Structure of TBP Recognizing the Minor Groove of TATAAAAG
pubmed rcsb
molecule tags Transcription/dna
total genus 45
structure length 187
sequence length 187
chains with identical sequence B
ec nomenclature
pdb deposition date 1996-09-06

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A 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 1vtoA01
3.30.310.10 Alpha Beta 2-Layer Sandwich TATA-Binding Protein TATA-Binding Protein 1vtoA02
4PY5A 4B0AA 1QN9A 1KYDA 2IV8A 5IYCP 1VTOA 1R4XA 1PCZA 2G30A 1TBPA 1D3UA 2MJ7A 3OCIA 1KYFA 3EIKA 1YTBA 2D0BA 1MP9A 3VN5A 5IYBP 1TBAB 1W80A 4ROCB 1QNCA 4RODB 1KYUA 2VJ0A 1QN3A 2IV9A 4ROEB 1KY6A 1QN4A 1C9BB 1PZDA 1QN8A 1VOLB 2D0AA 1NVPA 1QN7A 1QNAA 2Z8UA 1JFIC 3HS9A 3OC3C 1B9KA 1VTLE 1QTSA 1QN5A 5IYDP 1E42A 2D0CA 3HS8A 1QNEA 1TGHA 3ASMA 1AISA 1QNBA 1YTFA 1NH2A 1QTPA 1VOKA 1KY7A 4WZSD 1CDWA 3H1ZA 1QN6A 1NGMA 1RM1A
chains in the Genus database with same CATH superfamily
2HL9A 3D7QA 2YA3A 1K2YX 3T4NA 4D7RA 1FN7A 1R4XA 2QREA 4EALA 3CVTA 1WJWA 1MP9A 1M3QA 2JHNA 1TBAB 1N3AA 5KL0A 2V92A 4RODB 4EAIA 2VJ0A 4I8OA 3I0WA 4ROEB 1QN4A 1QN3A 1VOLB 1UT7A 2NLVA 2NOIA 1K35A 4WX8A 3OH6A 2NWVA 1V5SA 1VTLE 2DKAA 1PCMX 2QRDA 1TGHA 3CWAA 3OSEA 4WZSD 2HL8A 3BKQX 4B0AA 1RM1A 4EAJA 2JOIA 3DPTA 2IV8A 1N3CA 3UW2A 1P5DX 5BMPA 1D3UA 1YTBA 1TBPA 1YQKA 1EUVA 2MJ7A 1KYFA 3EIKA 2V8QA 4TPSA 4EAKA 2PWWA 1LWWA 3ENCA 3VN5A 1Q9UA 2HKPA 3SNSA 4ROCB 1EBMA 3CVSA 3TE5A 2OOYA 3TDHA 3OH9A 1KFQA 3IH7A 1KO9A 1PZDA 1XSZA 2D0AA 4DULA 3CWTA 1KFIA 3F0ZA 2Z8UA 1JFIC 2NOBA 3OC3C 4EAGA 3F10A 1TUOA 3CW7A 5IYDP 3CWUA 1UL7A 2D0CA 2Y8QA 1LWYA 1AISA 1YQRA 2NOLA 4BJUA 4IL8A 1M5Q1 1NH2A 2NOZA 4C7PA 2HZSA 2OOXA 1J3MA 3H1ZA 1NGMA 1QN6A 2F7LA 1QN9A 1JDYA 2HZMA 2MZ8A 2FGTA 3I3WA 2R5XA 3ULXA 3EAYA 2NOEA 5JN5A 1PCZA 3OCIA 2D0BA 2NOFA 4WXAA 5IYBP 3NA5A 1W80A 1QNCA 2I5WA 2ZFDB 1KYUA 2Y8LA 3CWSA 2IV9A 4QG5A 3KRMA 2JHJA 3D4VA 1C9BB 2O3OA 2DKDA 1QNAA 1YQLA 3HS9A 2QRCA 3OLPA 4MRQA 1QN5A 5AN4A 2NVMA 1E42A 2QR1A 2NOHA 1N39A 2Z0FA 2DKCA 4CFFA 1HU0A 1QTPA 1KY7A 1C47A 2JPIA 1CDWA 1QN7A 3PDKA 3OSTA 3PMGA 1DIZA 4PY5A 1KYDA 1VTOA 5IYCP 1UT4A 1LXTA 2EHBD 1C4GA 2G30A 1PCJX 3OSMA 1T6AA 1LWVA 3ENOC 4Q11A 3C04A 5JMVD 5F9CA 1P5GX 1PVSA 3I0XA 1MPGA 3RSMA 2YH5A 5HSHA 1KY6A 1QN8A 4EJZA 2FKFA 5EPCA 1NVPA 5BMNA 3N89A 2LAEA 2XHIA 2QLVA 4EJYA 1WQAA 1B9KA 3KTUA 4D7QA 1QTSA 4HJHA 1VKLA 2FKMX 2V9JA 2H4LX 3RPJA 1M3HA 3HS8A 1QNEA 3DPUA 3ASMA 2H5AX 3OGDA 1YQMA 1QNBA 1YTFA 1VOKA 2FUVA
chains in the Genus database with same CATH topology
1FN7A 1R4XA 1M3QA 1MP9A 1TBAB 1N3AA 4RODB 3I0WA 2VJ0A 4I8OA 1QN3A 4ROEB 1QN4A 1VOLB 4EJZA 1UT7A 2NOIA 1VTLE 1TGHA 4WZSD 4B0AA 1RM1A 2JOIA 3DPTA 2IV8A 1N3CA 1D3UA 1YTBA 1TBPA 1YQKA 2MJ7A 1KYFA 3EIKA 4TPSA 1LWWA 3VN5A 3SNSA 1EBMA 4ROCB 3IH7A 1PZDA 1KO9A 2D0AA 4DULA 3F0ZA 2Z8UA 1JFIC 2NOBA 3OC3C 3F10A 5IYDP 2D0CA 1LWYA 1AISA 1YQRA 2NOLA 1NH2A 2NOZA 2HZSA 3H1ZA 1QN6A 1NGMA 1QN9A 2HZMA 2MZ8A 2FGTA 3ULXA 2NOEA 1PCZA 3OCIA 2D0BA 2NOFA 5IYBP 2I5WA 1W80A 1QNCA 1KYUA 2IV9A 3KRMA 1C9BB 2O3OA 1QNAA 1YQLA 3HS9A 1QN5A 5AN4A 1E42A 2NOHA 1N39A 1HU0A 1QTPA 1KY7A 1CDWA 1QN7A 3OSTA 4PY5A 1KYDA 1VTOA 5IYCP 1UT4A 2G30A 3OSMA 1LWVA 4Q11A 3I0XA 2YH5A 1KY6A 1QN8A 1NVPA 3N89A 2LAEA 2XHIA 4EJYA 1B9KA 3KTUA 1QTSA 3RPJA 1M3HA 3HS8A 1QNEA 3DPUA 3ASMA 1YQMA 1QNBA 1YTFA 1VOKA
chains in the Genus database with same CATH homology


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