1Y1WF

Complete rna polymerase ii elongation complex
Total Genus 21
Loading diagram...

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
21
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
{{ tooltip.sname }} connected with {{ tooltip.tname }} : {{qFormat(tooltip.svalue) }}
molecule tags Transcription,transferase/dna-rna hybrid
molecule keywords 5'-D(P*AP*GP*TP*AP*CP*TP*TP*AP*CP*GP*CP*CP*TP*GP*GP*TP*CP*AP
publication title Complete RNA Polymerase II Elongation Complex Structure and Its Interactions with NTP and TFIIS
pubmed doi rcsb
total genus 21
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 1y1wF00
5FJ8F 5M3FF 3HOXF 3CQZF 1I50F 3GTQF 5M5YF 4MEXE 3S1MF 4OIPE 3S2DF 4C3IF 3RZDF 2JA8F 1K83F 4A3LF 3K7AF 4OIRE 1QKLA 2NVXF 2CW0E 4G7HE 4ZH4E 3GTPF 4A3EF 1Y1WF 4MQ9E 5E17E 4A3MF 4XSZE 1I6HF 4YFNE 3PO3F 5D4EE 3GTGF 3S17F 2A6HE 3I4MF 1SFOF 4A3GF 5M5XF 4XSXE 2PPBE 3GTKF 3S15F 4G7OE 4Q5SE 1YNJK 1TWFF 3S1NF 3HOYF 3GTJF 5IYCF 3PO2F 5C3EF 4OIOE 3M3YF 2O5JE 3HOVF 5FLMF 4A93F 2YU9F 4OINE 4AYBK 2NVQF 5C4XF 2B63F 2WAQK 4MEYE 4A3FF 2NVYF 1HQME 3HOZF 5E18E 4LK0E 3GTMF 4XLPE 4A3IF 3GTLF 4X6AF 3EQLE 5C4JF 3DXJE 5TMFE 3HOUF 5BYHE 1I6VE 1Y1VF 4OIQE 4C3HF 3WODE 1WCMF 3S2HF 3HKZK 4XLNE 2E2JF 5D4CE 2PMZK 4A3BF 4LK1E 3FKIF 3RZOF 4G7ZE 2BE5E 5IP7F 5IYBF 1TWAF 1SMYE 4YG2E 4Y52F 2JA5F 4LJZE 5D4DE 4BY1F 3HOWF 1IW7E 5TMCE 4KN7E 5IYDF 2A6EE 5IP9F 2JA6F 2O5IE 3H3VG 1TWHF 3M4OF 4GZYE 3I4NF 5M3MF 1YNNK 4JK1E 4LLGE 4A3JF 4YFXE 2R93F 4BXXF 2Y0SI 1TWCF 4KMUE 2A68E 2R7ZF 1R9TF 4BBSF 3H0GF 4A3CF 5C44F 1TWGF 5M5WF 2E2IF 2E2HF 5IPLE 4A3KF 3S1RF 4C3JF 3S1QF 2WB1I 4A3DF 1ZYRE 2JA7F 4C2MF 3GTOF 3S14F 4YFKE 3S16F 4Q4ZE 1I3QF 2VUMF 2A69E 4Y7NF 2NVTF 2R92F 4BBRF 4KN4E 4BY7F
chains in the Genus database with same CATH superfamily
4C3HE 5FJ8F 1WCME 2WB1H 3CQZF 3HOXF 5M3FF 3S2HE 1I50F 3GTQF 3S1NE 5M5YF 4MEXE 3S1MF 4OIPE 3S2DF 4C3IF 5C3EE 3HKZH 3RZDF 2JA8F 1K83F 3HOVE 5FLME 4A3LF 4A93E 3K7AF 2YU9E 2PMZH 4OIRE 1QKLA 2NVQE 2NVXF 2CW0E 4AYBH 4G7HE 4ZH4E 2JA5E 2B63E 3GTPF 4A3EF 1Y1WF 4MQ9E 5E17E 4A3MF 4XSZE 1I6HF 2NVYE 5IYDE 5IP9E 4YFNE 3PO3F 4A3GE 3GTME 5D4EE 3GTGF 3S17F 2A6HE 3I4MF 3I4NE 5C4JE 1SFOF 5M3ME 3HOUE 4A3GF 2R92E 5M5XF 1Y1VE 4XSXE 2PPBE 3GTKF 3S15F 4G7OE 4BXXE 4Q5SE 1YNJK 1TWFF 1TWCE 3S1NF 3HOYF 2R7ZE 2E2JE 3GTJF 5IYCF 5C44E 3H3VF 5C3EF 4OIOE 3PO2F 3M3YF 4A3BE 2O5JE 3HOVF 5FLMF 3FKIE 4A93F 3RZOE 5IP7E 3S1RE 2YU9F 3S1QE 4OINE 4AYBK 5IYBE 1TWAE 4A3DE 2JA7E 2NVQF 5C4XF 4Y52E 2B63F 2WAQK 4MEYE 3S16E 4A3FF 1DZFA 1I3QE 4BY1E 3HOWE 4Y7NE 2NVYF 1HQME 2JA6E 3HOZF 5E18E 4LK0E 3M4OE 1TWHE 3GTMF 4QIWK 4XLPE 4A3IF 3GTLF 4X6AF 3EQLE 5C4JF 3DXJE 5TMFE 3HOUF 5M5YE 4A3JE 5BYHE 1I6VE 1Y1VF 4OIQE 3S1ME 2R93E 4C3IE 4C3HF 3WODE 1K83E 1WCMF 3S2HF 3HKZK 4XLNE 3K7AE 2E2JF 1R9TE 4BBSE 3H0GE 4A3CE 1TWGE 5M5WE 2KRXA 2E2IE 2E2HE 5D4CE 2PMZK 4A3BF 4A3KE 4LK1E 3FKIF 3RZOF 4G7ZE 2BE5E 5IP7F 4C3JE 4A3EE 5IYBF 1I6HE 1TWAF 1EIKA 1SMYE 4YG2E 4C2ME 4Y52F 3GTOE 2JA5F 4LJZE 3S14E 5D4DE 3I4ME 4BY1F 2VUME 3HOWF 1IW7E 5TMCE 4KN7E 5IYDF 2A6EE 5IP9F 2JA6F 4BBRE 2NVTE 1TWHF 5M5XE 2O5IE 3H3VG 3GTKE 3M4OF 3S15E 4BY7E 4GZYE 5C4XE 1TWFE 5FJ8E 5M3FE 3HOXE 3CQZE 3I4NF 3HOYE 1I50E 1YNNK 5M3MF 4JK1E 4LLGE 4A3JF 3GTJE 3GTQE 4YFXE 5IYCE 2R93F 3S2DE 3PO2E 4BXXF 3M3YE 2Y0SI 3RZDE 2JA8E 1TWCF 4A3LE 4KMUE 2A68E 2R7ZF 1R9TF 4BBSF 3H0GF 4A3CF 5C44F 1TWGF 5M5WF 2E2IF 2E2HF 5IPLE 4A3KF 2NVXE 3S1RF 4C3JF 3GTPE 3S1QF 1Y1WE 4A3FE 4A3ME 2Y0SH 2WB1I 3HOZE 4A3DF 1ZYRE 2WAQH 2JA7F 3PO3E 4C2MF 3GTGE 3GTOF 3S14F 3S17E 4YFKE 3S16F 4Q4ZE 4A3IE 1I3QF 2VUMF 1SFOE 3GTLE 2A69E 4QIWH 4Y7NF 2NVTF 2R92F 4X6AE 4BBRF 4KN4E 4BY7F
chains in the Genus database with same CATH topology
5FJ8F 5M3FF 3HOXF 3CQZF 1I50F 3GTQF 5M5YF 4MEXE 3S1MF 4OIPE 3S2DF 4C3IF 3RZDF 2JA8F 1K83F 4A3LF 3K7AF 4OIRE 1QKLA 2NVXF 2CW0E 4G7HE 4ZH4E 3GTPF 4A3EF 1Y1WF 4MQ9E 5E17E 4A3MF 4XSZE 1I6HF 4YFNE 3PO3F 5D4EE 3GTGF 3S17F 2A6HE 3I4MF 1SFOF 4A3GF 5M5XF 4XSXE 2PPBE 3GTKF 3S15F 4G7OE 4Q5SE 1YNJK 1TWFF 3S1NF 3HOYF 3GTJF 5IYCF 3PO2F 5C3EF 4OIOE 3M3YF 2O5JE 3HOVF 5FLMF 4A93F 2YU9F 4OINE 4AYBK 2NVQF 5C4XF 2B63F 2WAQK 4MEYE 4A3FF 2NVYF 1HQME 3HOZF 5E18E 4LK0E 3GTMF 4QIWK 4XLPE 4A3IF 3GTLF 4X6AF 3EQLE 5C4JF 3DXJE 5TMFE 3HOUF 5BYHE 1I6VE 1Y1VF 4OIQE 4C3HF 3WODE 1WCMF 3S2HF 3HKZK 4XLNE 2E2JF 2KRXA 5D4CE 2PMZK 4A3BF 4LK1E 3FKIF 3RZOF 4G7ZE 2BE5E 5IP7F 5IYBF 1TWAF 1SMYE 4YG2E 4Y52F 2JA5F 4LJZE 5D4DE 4BY1F 3HOWF 1IW7E 5TMCE 4KN7E 5IYDF 2A6EE 5IP9F 2JA6F 2O5IE 3H3VG 1TWHF 3M4OF 4GZYE 3I4NF 5M3MF 1YNNK 4JK1E 4LLGE 4A3JF 4YFXE 2R93F 4BXXF 2Y0SI 1TWCF 4KMUE 2A68E 2R7ZF 1R9TF 4BBSF 3H0GF 4A3CF 5C44F 1TWGF 5M5WF 2E2IF 2E2HF 5IPLE 4A3KF 3S1RF 4C3JF 3S1QF 2WB1I 4A3DF 1ZYRE 2JA7F 4C2MF 3GTOF 3S14F 4YFKE 3S16F 4Q4ZE 1I3QF 2VUMF 2A69E 4Y7NF 2NVTF 2R92F 4BBRF 4KN4E 4BY7F
chains in the Genus database with same CATH homology


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

 
#similar chains in the Genus database (?% sequence similarity)
...loading similar chains, please wait...
#similar chains, but unknotted
...loading similar chains, please wait...
#similar chains in the pdb database (?% sequence similarity)
...loading similar chains, please wait...