1NGMA

Crystal structure of a yeast brf1-tbp-dna ternary complex
Total Genus 25
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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
25
sequence length
180
structure length
180
Chain Sequence
SGIVPTLQNIVATVTLGCRLDLKTVALHARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVVTGAKSEDDSKLASRKYARIIQKIGFAAKFTDFKIQNIVGSCDVKFPIRLEGLAFSHGTFSSYEPELFPGLIYRMVKPKIVLLIFVSGKIVLTGAKQREEIYQAFEAIYPVLSEFRKM
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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
molecule keywords 5'-D(*CP*TP*AP*TP*AP*AP*AP*AP*AP*AP*AP*TP*GP*TP*TP*TP*TP*TP*
publication title Crystal structure of a transcription factor IIIB core interface ternary complex
pubmed doi rcsb
source organism Saccharomyces cerevisiae
total genus 25
structure length 180
sequence length 180
chains with identical sequence E, I, M
ec nomenclature
pdb deposition date 2002-12-17

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 1ngmA01
3.30.310.10 Alpha Beta 2-Layer Sandwich TATA-Binding Protein TATA-Binding Protein 1ngmA02
1VTLE 2G30A 1QN9A 2D0CA 1QN4A 2MJ7A 1VTOA 4WZSD 4ROCB 1PZDA 1E42A 1QNAA 4PY5A 1NH2A 2D0AA 2Z8UA 3VN5A 1B9KA 1AISA 2IV9A 3H1ZA 1KYDA 1MP9A 3ASMA 1QTSA 1NVPA 1KYFA 1TGHA 1QN7A 1TBAB 2VJ0A 5IYCP 1QN8A 1QN5A 1YTBA 5IYDP 3OC3C 1NGMA 1QN3A 1RM1A 1QNCA 3EIKA 3HS9A 1KY7A 1QN6A 1W80A 1KY6A 1JFIC 2IV8A 1VOLB 4B0AA 1QTPA 1D3UA 1QNBA 1QNEA 1TBPA 1PCZA 1C9BB 1KYUA 1VOKA 1R4XA 2D0BA 3OCIA 3HS8A 4RODB 1CDWA 1YTFA 5IYBP 4ROEB
chains in the Genus database with same CATH superfamily
1QN9A 1WJWA 2D0CA 1QN4A 3CWUA 3PMGA 1VTOA 4ROCB 1N3CA 1E42A 3DPUA 2Z8UA 3OLPA 3N89A 3VN5A 3KTUA 3CVSA 1AISA 3OH9A 2O3OA 1PCMX 3TE5A 2VJ0A 5IYCP 1QN8A 2NVMA 5KL0A 4D7QA 3ENCA 1YQMA 4D7RA 2MZ8A 3HS9A 3OGDA 1K2YX 2HZMA 2DKCA 1QN6A 1UT7A 1KY6A 2H5AX 3PDKA 4B0AA 2FGTA 2HKPA 2NOIA 1TBPA 3CW7A 2F7LA 1KYUA 2I5WA 2FKMX 3OSTA 2V92A 4HJHA 1YTFA 2PWWA 2NOFA 5IYBP 1P5DX 3ULXA 4ROEB 2QR1A 1HU0A 1VTLE 2G30A 1KFIA 5BMPA 3I0WA 1UL7A 1QNAA 2QLVA 1NH2A 1C4GA 3F10A 4EJZA 2QRDA 4C7PA 4EAKA 1KFQA 2IV9A 1MP9A 3ASMA 4EAIA 3I0XA 1M3HA 2LAEA 4WX8A 3D4VA 1M3QA 1M5Q1 1QN7A 1PCJX 1VKLA 4TPSA 5F9CA 2NOZA 1NGMA 1EUVA 3EIKA 4DULA 5EPCA 3DPTA 2EHBD 3ENOC 3F0ZA 3T4NA 2IV8A 1XSZA 2R5XA 2YH5A 4I8OA 1LXTA 4MRQA 1C9BB 3C04A 3OCIA 4RODB 1N39A 1LWYA 2Y8LA 1QNBA 3I3WA 5HSHA 3SNSA 1WQAA 2YA3A 2V8QA 2MJ7A 1DIZA 2HL8A 4WZSD 1PZDA 4PY5A 2D0AA 2HZSA 5JN5A 2NOLA 3CWTA 1LWVA 2ZFDB 1KYDA 2OOXA 3EAYA 5BMNA 1TGHA 1Q9UA 3CVTA 2Y8QA 4Q11A 2DKAA 1MPGA 3CWSA 5AN4A 5IYDP 3OC3C 2DKDA 3RSMA 1QNCA 2V9JA 1YQRA 4BJUA 1C47A 1KY7A 4IL8A 1W80A 4WXAA 3KRMA 2NLVA 1VOLB 3OSMA 1PVSA 1D3UA 1TUOA 1QNEA 2XHIA 1PCZA 2NOEA 2QREA 1LWWA 1R4XA 2D0BA 3HS8A 3CWAA 4EAGA 4EJYA 2Z0FA 2NOHA 3D7QA 1JDYA 2JHJA 2JHNA 1UT4A 1B9KA 2NWVA 1KO9A 1V5SA 2FKFA 3BKQX 3H1ZA 1T6AA 2JOIA 1N3AA 1QTSA 1NVPA 1KYFA 2OOYA 3NA5A 1TBAB 2QRCA 3OSEA 1QN5A 1YTBA 1EBMA 3RPJA 5JMVD 1YQKA 1QN3A 2JPIA 1RM1A 2FUVA 1FN7A 2H4LX 3TDHA 3IH7A 4QG5A 4EALA 1JFIC 3UW2A 2NOBA 1QTPA 1J3MA 1P5GX 1YQLA 4EAJA 1VOKA 3OH6A 1CDWA 1K35A 4CFFA 2HL9A
chains in the Genus database with same CATH topology
1QN9A 2D0CA 1QN4A 1VTOA 4ROCB 1N3CA 1E42A 3DPUA 2Z8UA 3N89A 3VN5A 3KTUA 1AISA 2O3OA 2VJ0A 5IYCP 1QN8A 1YQMA 2MZ8A 3HS9A 2HZMA 1QN6A 1UT7A 1KY6A 4B0AA 2FGTA 2NOIA 1TBPA 1KYUA 2I5WA 3OSTA 2NOFA 1YTFA 5IYBP 4ROEB 3ULXA 1HU0A 1VTLE 2G30A 3I0WA 1QNAA 4EJZA 1NH2A 3F10A 2IV9A 1MP9A 3ASMA 3I0XA 1M3HA 2LAEA 1M3QA 1QN7A 4TPSA 2NOZA 1NGMA 3EIKA 4DULA 3DPTA 3F0ZA 2IV8A 2YH5A 4I8OA 1C9BB 3OCIA 4RODB 1N39A 1LWYA 1QNBA 3SNSA 2MJ7A 4WZSD 1PZDA 4PY5A 2D0AA 2HZSA 2NOLA 1LWVA 1KYDA 1TGHA 4Q11A 5AN4A 5IYDP 3OC3C 1QNCA 1YQRA 1KY7A 1W80A 3KRMA 1VOLB 3OSMA 1D3UA 1QNEA 2XHIA 1PCZA 2NOEA 1LWWA 1R4XA 2D0BA 3HS8A 4EJYA 2NOHA 1UT4A 1B9KA 1KO9A 3H1ZA 2JOIA 1N3AA 1QTSA 1NVPA 1KYFA 1TBAB 1QN5A 1YTBA 1EBMA 3RPJA 1YQKA 1QN3A 1RM1A 1FN7A 3IH7A 1JFIC 2NOBA 1QTPA 1YQLA 1VOKA 1CDWA
chains in the Genus database with same CATH homology


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