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


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