5IYDP

Human core-pic in the initial transcribing state (no iis)
Total Genus 39
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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
39
sequence length
185
structure length
185
Chain Sequence
TPASESSGIVPQLQNIVSTVNLGCKLDLKTIALRARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCTGAKSEEQSRLAARKYARVVQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHQQFSSYEPELFPGLIYRMIKPRIVLLIFVSGKVVLTGAKVRAEIYEAFENIYPILKGFRK
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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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publication title Near-atomic resolution visualization of human transcription promoter opening.
pubmed doi rcsb
molecule tags Transcription, transferase/dna/rna
source organism Homo sapiens
molecule keywords DNA-directed RNA polymerase II subunit RPB1
total genus 39
structure length 185
sequence length 185
ec nomenclature
pdb deposition date 2016-03-24

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
P 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 5iydP01
3.30.310.10 Alpha Beta 2-Layer Sandwich TATA-Binding Protein TATA-Binding Protein 5iydP02
1QN7A 3VN5A 4B0AA 1E42A 1TGHA 1JFIC 1YTBA 1QTSA 5IYDP 1QTPA 1W80A 3ASMA 1PZDA 1KY7A 1QN9A 4ROEB 3OCIA 5IYBP 1NVPA 1TBPA 3OC3C 1QNEA 1QNAA 1KY6A 1TBAB 1CDWA 1VOLB 4WZSD 1C9BB 3HS9A 4RODB 1NH2A 4PY5A 1QNCA 3HS8A 1VTLE 1MP9A 2VJ0A 1D3UA 2IV9A 1QN6A 1RM1A 1QN4A 2IV8A 1QN3A 2D0BA 1KYFA 2D0AA 3H1ZA 1PCZA 1VTOA 2Z8UA 1KYUA 1NGMA 1QN8A 4ROCB 5IYCP 2D0CA 1KYDA 2G30A 1QN5A 1QNBA 3EIKA 1YTFA 1R4XA 2MJ7A 1B9KA 1AISA 1VOKA
chains in the Genus database with same CATH superfamily
1E42A 2HL8A 5HSHA 1YTBA 2NVMA 3OH6A 3CW7A 2Y8LA 1PZDA 2HZMA 1QN9A 5IYBP 2QREA 3ENOC 1VKLA 1KY6A 1TBAB 1M3QA 4WZSD 1KFIA 3DPUA 2V92A 2YA3A 4Q11A 2QRCA 3CWUA 1NH2A 1HU0A 2Y8QA 1VTLE 1J3MA 5BMPA 3ENCA 2QLVA 1P5GX 1LWWA 3NA5A 4EAJA 5JMVD 1UT7A 2IV9A 1RM1A 2OOXA 1N39A 2HZSA 1M3HA 1EBMA 4CFFA 2LAEA 2D0BA 2OOYA 1QN8A 5JN5A 2R5XA 4ROCB 5IYCP 3I0WA 3OLPA 3SNSA 1FN7A 4EAKA 1CDWA 1VOKA 5F9CA 2PWWA 3D7QA 3OSMA 1TGHA 4EAIA 2ZFDB 1QTSA 3BKQX 1QTPA 1Q9UA 1UT4A 1W80A 2O3OA 3EAYA 3OSTA 5KL0A 5BMNA 3CWSA 4ROEB 3OCIA 2NOZA 3OC3C 4DULA 2MZ8A 2XHIA 1LXTA 1C47A 3CVTA 1LWYA 2NOIA 1V5SA 4RODB 2FUVA 1LWVA 3C04A 1YQMA 1DIZA 1M5Q1 2FKFA 1QN4A 5AN4A 2Z0FA 2QRDA 4IL8A 4EAGA 3D4VA 3H1ZA 3ULXA 2NOBA 3OSEA 1TUOA 2NOLA 3F10A 4EJYA 4D7RA 1PVSA 1XSZA 1QNBA 2JHNA 2FGTA 2DKDA 1UL7A 2MJ7A 1WJWA 2F7LA 1PCMX 4B0AA 1N3AA 2H4LX 1YQLA 1JFIC 5IYDP 1KFQA 3ASMA 2JPIA 4QG5A 1WQAA 4TPSA 2YH5A 2DKAA 1KY7A 4WXAA 3T4NA 2NOFA 1NVPA 1QNEA 2QR1A 2NOHA 2JOIA 1VOLB 2V8QA 3RSMA 3F0ZA 4D7QA 3HS9A 4PY5A 4EJZA 1QNCA 3HS8A 1MP9A 4EALA 2VJ0A 1D3UA 2HL9A 3DPTA 5EPCA 3I0XA 1JDYA 3KRMA 2D0AA 1VTOA 1PCZA 1EUVA 2Z8UA 1KYUA 1NGMA 1K2YX 2D0CA 3TDHA 1KYDA 3OGDA 4BJUA 1QN5A 2FKMX 1N3CA 2NLVA 3OH9A 1B9KA 1KYFA 4WX8A 1AISA 1P5DX 3VN5A 3PMGA 4I8OA 1YQRA 1QN7A 4MRQA 1PCJX 3CVSA 2I5WA 3CWAA 1TBPA 1YQKA 1QNAA 1C4GA 1C9BB 2V9JA 3UW2A 3I3WA 1KO9A 3KTUA 2DKCA 3PDKA 2IV8A 4HJHA 3RPJA 1QN3A 2HKPA 4C7PA 2JHJA 3IH7A 3TE5A 2H5AX 2NOEA 2NWVA 3CWTA 1K35A 3EIKA 1YTFA 1R4XA 1T6AA 1MPGA 2EHBD 3N89A 1QN6A 2G30A
chains in the Genus database with same CATH topology
1E42A 1YTBA 1PZDA 2HZMA 1QN9A 5IYBP 1KY6A 1TBAB 1M3QA 4WZSD 3DPUA 4Q11A 1NH2A 1HU0A 1VTLE 1LWWA 1UT7A 2IV9A 1RM1A 1N39A 2HZSA 1M3HA 1EBMA 2LAEA 2D0BA 1QN8A 4ROCB 5IYCP 3I0WA 3SNSA 1FN7A 1CDWA 1VOKA 3OSMA 1TGHA 1QTSA 1QTPA 1UT4A 1W80A 2O3OA 3OSTA 4ROEB 3OCIA 2NOZA 3OC3C 4DULA 2MZ8A 2XHIA 1LWYA 2NOIA 4RODB 1LWVA 1YQMA 1QN4A 5AN4A 3H1ZA 3ULXA 2NOBA 2NOLA 3F10A 4EJYA 1QNBA 2FGTA 1N3AA 2MJ7A 4B0AA 1YQLA 1JFIC 5IYDP 3ASMA 4TPSA 2YH5A 1KY7A 2NOFA 1NVPA 1QNEA 2NOHA 2JOIA 1VOLB 3F0ZA 3HS9A 4PY5A 4EJZA 1QNCA 3HS8A 1MP9A 2VJ0A 1D3UA 3DPTA 3I0XA 3KRMA 2D0AA 1VTOA 1PCZA 2Z8UA 1KYUA 1NGMA 2D0CA 1KYDA 1QN5A 1N3CA 1KYFA 1B9KA 1AISA 1QN7A 3VN5A 1YQRA 4I8OA 2I5WA 1TBPA 1YQKA 1QNAA 1C9BB 1KO9A 3KTUA 2IV8A 3RPJA 1QN3A 3IH7A 2NOEA 3EIKA 1YTFA 1R4XA 3N89A 1QN6A 2G30A
chains in the Genus database with same CATH homology


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