1Y1VF

Refined rna polymerase ii-tfiis complex
Total Genus 19
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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
19
sequence length
84
structure length
84
Chain Sequence
KAIPKDQRATTPYMTKYERARILGTRALQISMNAPVFVDLEGETDPLRIAMKELAEKKIPLVIRRYLPDGSFEDWSVEELIVDL
Loading diagram...

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 Transferase/transcription
source organism Saccharomyces cerevisiae
publication title Complete RNA polymerase II elongation complex structure and its interactions with NTP and TFIIS.
pubmed doi rcsb
molecule keywords DNA-directed RNA polymerase II largest subunit
total genus 19
structure length 84
sequence length 84
ec nomenclature
pdb deposition date 2004-11-19

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
F PF01192 RNA_pol_Rpb6 RNA polymerase Rpb6
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.90.940.10 Alpha Beta Alpha-Beta Complex Eukaryotic RPB6 RNA polymerase subunit Eukaryotic RPB6 RNA polymerase subunit 1y1vF00
3M4OF 4MEXE 4A3GF 5C3EF 4C3IF 4BY1F 1WCMF 4A3IF 5C4XF 5M5YF 5IYDF 2WAQK 1K83F 1I6HF 3HOXF 5M5XF 4YG2E 2NVTF 2YU9F 4BXXF 4LLGE 2R92F 2WB1I 2PPBE 5IYBF 5FLMF 3RZDF 5D4CE 4C3HF 3HOUF 4A3FF 1HQME 3GTMF 4XLPE 2PMZK 4Y7NF 4A93F 1I6VE 4KN7E 3GTLF 3EQLE 3PO3F 4MEYE 4C3JF 4G7ZE 1ZYRE 3S1NF 3S1QF 3S1RF 4BY7F 1TWCF 4Y52F 3S1MF 5E17E 4LK0E 4YFXE 2B63F 1Y1WF 2A6EE 1R9TF 4XSZE 4A3LF 4Q5SE 5BYHE 4G7OE 1QKLA 3M3YF 4YFNE 4XLNE 2VUMF 2R93F 4OIQE 4OIPE 4A3CF 2A69E 3HOVF 2JA7F 3HOZF 2A68E 4A3EF 4Q4ZE 5TMCE 4JK1E 3S16F 4A3BF 3WODE 4GZYE 2R7ZF 4LK1E 3DXJE 1TWAF 1YNJK 2A6HE 4OINE 3GTKF 2BE5E 3GTOF 5D4DE 3K7AF 3HKZK 4KN4E 1I3QF 1Y1VF 4BBRF 5D4EE 4A3DF 3FKIF 3GTPF 4MQ9E 4KMUE 5FJ8F 3H0GF 2E2HF 5IP9F 4OIOE 3GTGF 3CQZF 3PO2F 1SFOF 5M5WF 3HOWF 4LJZE 2NVYF 1YNNK 2NVXF 1TWFF 4AYBK 2JA8F 2Y0SI 4G7HE 1TWHF 1I50F 3I4NF 4A3JF 5IYCF 3S2HF 2NVQF 2JA6F 5C44F 1TWGF 3GTQF 2E2JF 4YFKE 1IW7E 3S17F 4A3MF 4BBSF 4C2MF 5M3MF 5M3FF 5E18E 2CW0E 5C4JF 3H3VG 4ZH4E 3HOYF 5IP7F 1SMYE 3I4MF 2O5JE 2O5IE 3S2DF 4X6AF 3GTJF 5IPLE 3RZOF 5TMFE 4XSXE 4OIRE 3S15F 3S14F 2JA5F 2E2IF 4A3KF
chains in the Genus database with same CATH superfamily
3M4OF 2PMZH 4MEXE 4A3GF 5C3EF 4C3IF 4BY1F 1WCMF 3PO3E 4A3IF 2Y0SH 3S15E 4QIWH 5C4XF 5M5YF 5IYDF 2KRXA 2WAQK 1K83F 2E2IE 4A3KE 2JA5E 1I6HF 3S1NE 3HOXF 5M5XF 3S1RE 4BY7E 4YG2E 4C3IE 2YU9F 2NVTF 4LLGE 2R92F 2WB1I 4A3IE 2PPBE 5IYBF 5FLMF 3RZDF 5D4CE 4C3HF 5IYDE 1Y1WE 4A3FF 1R9TE 3HOUF 1HQME 3GTMF 4XLPE 2PMZK 4Y7NF 2VUME 2YU9E 1I6VE 3M3YE 1DZFA 4A93F 4KN7E 2R92E 5IYBE 2R93E 3RZDE 3GTLF 3EQLE 4C3HE 4MEYE 4QIWK 3PO3F 4A3CE 3HOVE 4C3JF 4G7ZE 2JA7E 3GTME 3HOZE 1ZYRE 4Y7NE 4A3EE 3S1NF 3S1QF 4A93E 4A3BE 3S16E 3S1RF 4BY7F 2R7ZE 3GTLE 1TWCF 4Y52F 3S1MF 5E17E 4LK0E 4YFXE 2B63F 4C3JE 3GTKE 1Y1WF 2A6EE 1R9TF 4XSZE 3GTOE 4Q5SE 5BYHE 3S1QE 4A3LF 4G7OE 3K7AE 1QKLA 3M3YF 1TWCE 3HKZH 1I3QE 4YFNE 4XLNE 2VUMF 3S1ME 4Y52E 2R93F 4BBRE 4OIQE 2B63E 4OIPE 3GTPE 4A3LE 4A3CF 2A69E 3H0GE 2WB1H 3HOVF 5IP9E 2JA7F 3GTGE 3HOZF 2A68E 4A3EF 4Q4ZE 3CQZE 5TMCE 4JK1E 3S16F 4A3BF 5M5WE 3WODE 3HOWE 4GZYE 2R7ZF 4LK1E 3DXJE 1TWAF 1YNJK 1TWFE 2A6HE 4OINE 3GTKF 2BE5E 3GTOF 5D4DE 3K7AF 3HKZK 4AYBH 4KN4E 1TWAE 1I3QF 1Y1VF 4BBRF 5D4EE 4A3DF 3FKIF 3GTPF 4MQ9E 4KMUE 5FJ8F 3H0GF 2E2HF 4A3JE 5IP9F 4OIOE 3GTGF 4BXXF 3CQZF 5IYCE 3PO2F 1SFOF 5M5WF 1Y1VE 2NVQE 3HOWF 2JA6E 4A3DE 3FKIE 1TWGE 4LJZE 2NVYF 3GTQE 1YNNK 5FJ8E 2E2HE 2NVXF 3S17E 4A3ME 1TWFF 4C2ME 5M3FE 3HOYE 4AYBK 2JA8F 5IP7E 3PO2E 3I4ME 1SFOE 2Y0SI 4G7HE 2NVYE 4X6AE 1TWHF 3GTJE 2NVXE 3RZOE 1I50F 3I4NF 2JA8E 4A3JF 3S14E 3HOUE 5IYCF 3M4OE 1TWHE 3S2HF 4A3GE 2NVQF 5C3EE 2JA6F 5C44F 1TWGF 1WCME 4BY1E 3GTQF 2E2JF 4YFKE 1IW7E 1I50E 3I4NE 3S17F 5C4XE 4A3MF 5M5YE 4C2MF 4BBSF 1EIKA 5M3MF 1K83E 5E18E 2CW0E 5M3FF 5C4JF 3H3VG 2WAQH 4ZH4E 3HOYF 5IP7F 1I6HE 1SMYE 3HOXE 3I4MF 5M5XE 2O5IE 3S2HE 2NVTE 5C44E 3S2DF 4BXXE 2O5JE 2E2JE 5FLME 3H3VF 3GTJF 4X6AF 5IPLE 3RZOF 4BBSE 5M3ME 4A3FE 5TMFE 4XSXE 5C4JE 4OIRE 3S15F 3S14F 2JA5F 2E2IF 4A3KF 3S2DE
chains in the Genus database with same CATH topology
3M4OF 4MEXE 4A3GF 5C3EF 4C3IF 4BY1F 1WCMF 4A3IF 5C4XF 5M5YF 5IYDF 2KRXA 2WAQK 1K83F 1I6HF 3HOXF 5M5XF 4YG2E 2NVTF 2YU9F 4BXXF 4LLGE 2R92F 2WB1I 2PPBE 5IYBF 5FLMF 3RZDF 5D4CE 4C3HF 3HOUF 4A3FF 1HQME 3GTMF 4XLPE 2PMZK 4Y7NF 4A93F 1I6VE 4KN7E 3GTLF 3EQLE 3PO3F 4MEYE 4QIWK 4C3JF 4G7ZE 1ZYRE 3S1NF 3S1QF 3S1RF 4BY7F 1TWCF 4Y52F 3S1MF 5E17E 4LK0E 4YFXE 2B63F 1Y1WF 2A6EE 1R9TF 4XSZE 4A3LF 4Q5SE 5BYHE 4G7OE 1QKLA 3M3YF 4YFNE 4XLNE 2VUMF 2R93F 4OIQE 4OIPE 4A3CF 2A69E 3HOVF 2JA7F 3HOZF 2A68E 4A3EF 4Q4ZE 5TMCE 4JK1E 3S16F 4A3BF 3WODE 4GZYE 2R7ZF 4LK1E 3DXJE 1TWAF 1YNJK 2A6HE 4OINE 3GTKF 2BE5E 3GTOF 5D4DE 3K7AF 3HKZK 4KN4E 1I3QF 1Y1VF 4BBRF 5D4EE 4A3DF 3FKIF 3GTPF 4MQ9E 4KMUE 5FJ8F 3H0GF 2E2HF 5IP9F 4OIOE 3GTGF 3CQZF 3PO2F 1SFOF 5M5WF 3HOWF 4LJZE 2NVYF 1YNNK 2NVXF 1TWFF 4AYBK 2JA8F 2Y0SI 4G7HE 1TWHF 1I50F 3I4NF 4A3JF 5IYCF 3S2HF 2NVQF 2JA6F 5C44F 1TWGF 3GTQF 2E2JF 4YFKE 1IW7E 3S17F 4A3MF 4BBSF 4C2MF 5M3MF 5M3FF 5E18E 2CW0E 5C4JF 3H3VG 4ZH4E 3HOYF 5IP7F 1SMYE 3I4MF 2O5JE 2O5IE 3S2DF 4X6AF 3GTJF 5IPLE 3RZOF 5TMFE 4XSXE 4OIRE 3S15F 3S14F 2JA5F 2E2IF 4A3KF
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 3M4O F;  4MEX E;  4A3G F;  5C3E F;  4C3I F;  4BY1 F;  1WCM F;  4A3I F;  5C4X F;  5M5Y F;  5IYD F;  2WAQ K;  1K83 F;  1I6H F;  3HOX F;  5M5X F;  4YG2 E;  2NVT F;  2YU9 F;  4BXX F;  4LLG E;  2R92 F;  2WB1 I;  2PPB E;  5IYB F;  5FLM F;  3RZD F;  5D4C E;  4C3H F;  3HOU F;  4A3F F;  1HQM E;  3GTM F;  4XLP E;  2PMZ K;  4Y7N F;  4A93 F;  1I6V E;  4KN7 E;  3GTL F;  3EQL E;  3PO3 F;  4MEY E;  4C3J F;  4G7Z E;  1ZYR E;  3S1N F;  3S1Q F;  3S1R F;  4BY7 F;  1TWC F;  4Y52 F;  3S1M F;  5E17 E;  4LK0 E;  4YFX E;  2B63 F;  1Y1W F;  2A6E E;  1R9T F;  4XSZ E;  4A3L F;  4Q5S E;  5BYH E;  4G7O E;  1QKL A;  3M3Y F;  4YFN E;  4XLN E;  2VUM F;  2R93 F;  4OIQ E;  4OIP E;  4A3C F;  2A69 E;  3HOV F;  2JA7 F;  3HOZ F;  2A68 E;  4A3E F;  4Q4Z E;  5TMC E;  4JK1 E;  3S16 F;  4A3B F;  3WOD E;  4GZY E;  2R7Z F;  4LK1 E;  3DXJ E;  1TWA F;  1YNJ K;  2A6H E;  4OIN E;  3GTK F;  2BE5 E;  3GTO F;  5D4D E;  3K7A F;  3HKZ K;  4KN4 E;  1I3Q F;  1Y1V F;  4BBR F;  5D4E E;  4A3D F;  3FKI F;  3GTP F;  4MQ9 E;  4KMU E;  5FJ8 F;  3H0G F;  2E2H F;  5IP9 F;  4OIO E;  3GTG F;  3CQZ F;  3PO2 F;  1SFO F;  5M5W F;  3HOW F;  4LJZ E;  2NVY F;  1YNN K;  2NVX F;  1TWF F;  4AYB K;  2JA8 F;  2Y0S I;  4G7H E;  1TWH F;  1I50 F;  3I4N F;  4A3J F;  5IYC F;  3S2H F;  2NVQ F;  2JA6 F;  5C44 F;  1TWG F;  3GTQ F;  2E2J F;  4YFK E;  1IW7 E;  3S17 F;  4A3M F;  4BBS F;  4C2M F;  5M3M F;  5M3F F;  5E18 E;  2CW0 E;  5C4J F;  3H3V G;  4ZH4 E;  3HOY F;  5IP7 F;  1SMY E;  3I4M F;  2O5J E;  2O5I E;  3S2D F;  4X6A F;  3GTJ F;  5IPL E;  3RZO F;  5TMF E;  4XSX E;  4OIR E;  3S15 F;  3S14 F;  2JA5 F;  2E2I F;  4A3K F; 
#chains in the Genus database with same CATH topology
 3M4O F;  2PMZ H;  4MEX E;  4A3G F;  5C3E F;  4C3I F;  4BY1 F;  1WCM F;  3PO3 E;  4A3I F;  2Y0S H;  3S15 E;  4QIW H;  5C4X F;  5M5Y F;  5IYD F;  2KRX A;  2WAQ K;  1K83 F;  2E2I E;  4A3K E;  2JA5 E;  1I6H F;  3S1N E;  3HOX F;  5M5X F;  3S1R E;  4BY7 E;  4YG2 E;  4C3I E;  2YU9 F;  2NVT F;  4LLG E;  2R92 F;  2WB1 I;  4A3I E;  2PPB E;  5IYB F;  5FLM F;  3RZD F;  5D4C E;  4C3H F;  5IYD E;  1Y1W E;  4A3F F;  1R9T E;  3HOU F;  1HQM E;  3GTM F;  4XLP E;  2PMZ K;  4Y7N F;  2VUM E;  2YU9 E;  1I6V E;  3M3Y E;  1DZF A;  4A93 F;  4KN7 E;  2R92 E;  5IYB E;  2R93 E;  3RZD E;  3GTL F;  3EQL E;  4C3H E;  4MEY E;  4QIW K;  3PO3 F;  4A3C E;  3HOV E;  4C3J F;  4G7Z E;  2JA7 E;  3GTM E;  3HOZ E;  1ZYR E;  4Y7N E;  4A3E E;  3S1N F;  3S1Q F;  4A93 E;  4A3B E;  3S16 E;  3S1R F;  4BY7 F;  2R7Z E;  3GTL E;  1TWC F;  4Y52 F;  3S1M F;  5E17 E;  4LK0 E;  4YFX E;  2B63 F;  4C3J E;  3GTK E;  1Y1W F;  2A6E E;  1R9T F;  4XSZ E;  3GTO E;  4Q5S E;  5BYH E;  3S1Q E;  4A3L F;  4G7O E;  3K7A E;  1QKL A;  3M3Y F;  1TWC E;  3HKZ H;  1I3Q E;  4YFN E;  4XLN E;  2VUM F;  3S1M E;  4Y52 E;  2R93 F;  4BBR E;  4OIQ E;  2B63 E;  4OIP E;  3GTP E;  4A3L E;  4A3C F;  2A69 E;  3H0G E;  2WB1 H;  3HOV F;  5IP9 E;  2JA7 F;  3GTG E;  3HOZ F;  2A68 E;  4A3E F;  4Q4Z E;  3CQZ E;  5TMC E;  4JK1 E;  3S16 F;  4A3B F;  5M5W E;  3WOD E;  3HOW E;  4GZY E;  2R7Z F;  4LK1 E;  3DXJ E;  1TWA F;  1YNJ K;  1TWF E;  2A6H E;  4OIN E;  3GTK F;  2BE5 E;  3GTO F;  5D4D E;  3K7A F;  3HKZ K;  4AYB H;  4KN4 E;  1TWA E;  1I3Q F;  1Y1V F;  4BBR F;  5D4E E;  4A3D F;  3FKI F;  3GTP F;  4MQ9 E;  4KMU E;  5FJ8 F;  3H0G F;  2E2H F;  4A3J E;  5IP9 F;  4OIO E;  3GTG F;  4BXX F;  3CQZ F;  5IYC E;  3PO2 F;  1SFO F;  5M5W F;  1Y1V E;  2NVQ E;  3HOW F;  2JA6 E;  4A3D E;  3FKI E;  1TWG E;  4LJZ E;  2NVY F;  3GTQ E;  1YNN K;  5FJ8 E;  2E2H E;  2NVX F;  3S17 E;  4A3M E;  1TWF F;  4C2M E;  5M3F E;  3HOY E;  4AYB K;  2JA8 F;  5IP7 E;  3PO2 E;  3I4M E;  1SFO E;  2Y0S I;  4G7H E;  2NVY E;  4X6A E;  1TWH F;  3GTJ E;  2NVX E;  3RZO E;  1I50 F;  3I4N F;  2JA8 E;  4A3J F;  3S14 E;  3HOU E;  5IYC F;  3M4O E;  1TWH E;  3S2H F;  4A3G E;  2NVQ F;  5C3E E;  2JA6 F;  5C44 F;  1TWG F;  1WCM E;  4BY1 E;  3GTQ F;  2E2J F;  4YFK E;  1IW7 E;  1I50 E;  3I4N E;  3S17 F;  5C4X E;  4A3M F;  5M5Y E;  4C2M F;  4BBS F;  1EIK A;  5M3M F;  1K83 E;  5E18 E;  2CW0 E;  5M3F F;  5C4J F;  3H3V G;  2WAQ H;  4ZH4 E;  3HOY F;  5IP7 F;  1I6H E;  1SMY E;  3HOX E;  3I4M F;  5M5X E;  2O5I E;  3S2H E;  2NVT E;  5C44 E;  3S2D F;  4BXX E;  2O5J E;  2E2J E;  5FLM E;  3H3V F;  3GTJ F;  4X6A F;  5IPL E;  3RZO F;  4BBS E;  5M3M E;  4A3F E;  5TMF E;  4XSX E;  5C4J E;  4OIR E;  3S15 F;  3S14 F;  2JA5 F;  2E2I F;  4A3K F;  3S2D E; 
#chains in the Genus database with same CATH homology
 3M4O F;  4MEX E;  4A3G F;  5C3E F;  4C3I F;  4BY1 F;  1WCM F;  4A3I F;  5C4X F;  5M5Y F;  5IYD F;  2KRX A;  2WAQ K;  1K83 F;  1I6H F;  3HOX F;  5M5X F;  4YG2 E;  2NVT F;  2YU9 F;  4BXX F;  4LLG E;  2R92 F;  2WB1 I;  2PPB E;  5IYB F;  5FLM F;  3RZD F;  5D4C E;  4C3H F;  3HOU F;  4A3F F;  1HQM E;  3GTM F;  4XLP E;  2PMZ K;  4Y7N F;  4A93 F;  1I6V E;  4KN7 E;  3GTL F;  3EQL E;  3PO3 F;  4MEY E;  4QIW K;  4C3J F;  4G7Z E;  1ZYR E;  3S1N F;  3S1Q F;  3S1R F;  4BY7 F;  1TWC F;  4Y52 F;  3S1M F;  5E17 E;  4LK0 E;  4YFX E;  2B63 F;  1Y1W F;  2A6E E;  1R9T F;  4XSZ E;  4A3L F;  4Q5S E;  5BYH E;  4G7O E;  1QKL A;  3M3Y F;  4YFN E;  4XLN E;  2VUM F;  2R93 F;  4OIQ E;  4OIP E;  4A3C F;  2A69 E;  3HOV F;  2JA7 F;  3HOZ F;  2A68 E;  4A3E F;  4Q4Z E;  5TMC E;  4JK1 E;  3S16 F;  4A3B F;  3WOD E;  4GZY E;  2R7Z F;  4LK1 E;  3DXJ E;  1TWA F;  1YNJ K;  2A6H E;  4OIN E;  3GTK F;  2BE5 E;  3GTO F;  5D4D E;  3K7A F;  3HKZ K;  4KN4 E;  1I3Q F;  1Y1V F;  4BBR F;  5D4E E;  4A3D F;  3FKI F;  3GTP F;  4MQ9 E;  4KMU E;  5FJ8 F;  3H0G F;  2E2H F;  5IP9 F;  4OIO E;  3GTG F;  3CQZ F;  3PO2 F;  1SFO F;  5M5W F;  3HOW F;  4LJZ E;  2NVY F;  1YNN K;  2NVX F;  1TWF F;  4AYB K;  2JA8 F;  2Y0S I;  4G7H E;  1TWH F;  1I50 F;  3I4N F;  4A3J F;  5IYC F;  3S2H F;  2NVQ F;  2JA6 F;  5C44 F;  1TWG F;  3GTQ F;  2E2J F;  4YFK E;  1IW7 E;  3S17 F;  4A3M F;  4BBS F;  4C2M F;  5M3M F;  5M3F F;  5E18 E;  2CW0 E;  5C4J F;  3H3V G;  4ZH4 E;  3HOY F;  5IP7 F;  1SMY E;  3I4M F;  2O5J E;  2O5I E;  3S2D F;  4X6A F;  3GTJ F;  5IPL E;  3RZO F;  5TMF E;  4XSX E;  4OIR E;  3S15 F;  3S14 F;  2JA5 F;  2E2I F;  4A3K F; 
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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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#similar chains in the pdb database (?% sequence similarity)
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