3FKIF

12-subunit rna polymerase ii refined with zn-sad data
Total Genus 23
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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
23
sequence length
87
structure length
87
Chain Sequence
LKEKAIPKDQRATTPYMTKYERARILGTRALQISMNAPVFVDLEGETDPLRIAMKELAEKKIPLVIRRYLPDGSFEDWSVEELIVDL
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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
publication title Structure of the 12-Subunit RNA Polymerase II Refined with the Aid of Anomalous Diffraction Data
pubmed doi rcsb
molecule keywords DNA-directed RNA polymerase II subunit RPB1
total genus 23
structure length 87
sequence length 87
ec nomenclature
pdb deposition date 2008-12-16

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 3fkiF00
3EQLE 3M4OF 4BY7F 4KN7E 5TMFE 4OIPE 4BY1F 1TWHF 4Q5SE 5IYCF 5BYHE 5M5XF 4AYBK 3PO3F 1YNNK 2JA7F 5C44F 5M5WF 2B63F 4C3HF 4JK1E 3S1NF 3RZDF 5IP9F 4YFNE 4YFXE 5C4XF 2R7ZF 5E17E 3S2HF 4A3CF 2BE5E 1IW7E 4A3FF 4OIOE 1TWCF 2E2HF 4G7OE 2VUMF 2WAQK 5FJ8F 3S1RF 3S2DF 3HOVF 3I4NF 4A93F 5E18E 3K7AF 2R92F 5D4CE 4LLGE 2R93F 5M5YF 3M3YF 4G7HE 1SFOF 1I3QF 2CW0E 2O5IE 4A3DF 1Y1VF 3HOYF 2WB1I 4C3IF 3H3VG 4ZH4E 3I4MF 3HOZF 4XSZE 5D4EE 1QKLA 2NVYF 1TWAF 1Y1WF 1I6VE 3HOUF 3H0GF 4A3BF 2Y0SI 3GTMF 3WODE 3GTOF 3S1MF 5C4JF 3GTPF 4XLNE 3HOXF 2A6EE 2JA5F 5C3EF 1R9TF 4Q4ZE 4OIQE 3GTJF 4MEXE 4GZYE 2A68E 2E2IF 4KMUE 4A3LF 3FKIF 5IYBF 5M3MF 4BBSF 2PPBE 4LJZE 3GTGF 4XLPE 2O5JE 4XSXE 4A3JF 4A3MF 2A69E 4Y7NF 2JA8F 4C2MF 4A3GF 1SMYE 2JA6F 3S15F 4A3KF 5FLMF 3GTQF 5IP7F 2NVXF 3CQZF 4A3EF 1TWFF 1YNJK 5IPLE 1TWGF 1K83F 3GTLF 2PMZK 3RZOF 3HOWF 5D4DE 4LK0E 3PO2F 3S14F 4LK1E 4Y52F 5IYDF 3GTKF 3DXJE 4OIRE 2A6HE 5TMCE 4BXXF 4BBRF 4A3IF 1HQME 3S1QF 2NVTF 4YFKE 4MEYE 4C3JF 2NVQF 2E2JF 4MQ9E 4G7ZE 1WCMF 4KN4E 4OINE 4X6AF 3HKZK 1I6HF 5M3FF 1I50F 4YG2E 3S16F 1ZYRE 3S17F 2YU9F
chains in the Genus database with same CATH superfamily
3EQLE 3M4OF 4BY7F 4A3BE 4KN7E 5TMFE 4OIPE 3GTME 2E2HE 3GTOE 4BY1F 3S1ME 1EIKA 2VUME 1TWHF 2WB1H 4Q5SE 5IYCF 5BYHE 5M5XF 4AYBK 5C3EE 3HOXE 3I4NE 4A93E 3K7AE 4AYBH 3GTJE 1YNNK 3PO3F 2E2IE 5M5YE 4A3LE 5IYBE 2JA7F 5C44F 5M3ME 5M5WF 2B63F 4BBSE 4C3HF 4JK1E 4A3DE 3GTGE 3S1NF 3RZDF 5IP9F 4YFNE 2Y0SH 4YFXE 4A3JE 3HOYE 4Y7NE 2JA8E 5C4XF 4C3IE 2JA6E 3S15E 2R7ZF 5E17E 3S2HF 4A3CF 5FLME 2BE5E 1IW7E 5IP7E 4A3FF 2NVXE 4OIOE 1TWCF 1Y1WE 2E2HF 3CQZE 4G7OE 1TWFE 2VUMF 3HOUE 2WAQK 3H0GE 5FJ8F 3S1RF 3S2DF 3HOVF 2WAQH 3I4NF 4A93F 5E18E 5C4JE 3GTPE 3K7AF 2R92F 5D4CE 2JA5E 3GTLE 4LLGE 1R9TE 2R93F 5M5YF 3M3YF 3HOWE 3PO2E 3S14E 4Y52E 4G7HE 1SFOF 3FKIE 4QIWK 1I3QF 2CW0E 2O5IE 4A3DF 2KRXA 1DZFA 3GTKE 4QIWH 1Y1VF 3HOYF 4BXXE 4BBRE 2WB1I 4A3IE 4C3IF 3H3VG 4A3ME 4ZH4E 3I4MF 3HOZF 4C2ME 2E2JE 2NVQE 4A3GE 4A3KE 4XSZE 1WCME 5D4EE 1I6HE 1QKLA 1I50E 2NVYF 1TWAF 3GTQE 3S16E 1Y1WF 3S17E 1I6VE 2YU9E 3HOUF 3H0GF 4A3BF 2Y0SI 3GTMF 3WODE 4A3EE 3GTOF 3S1MF 4BY1E 5C4JF 3GTPF 1TWGE 4XLNE 2A6EE 5IYCE 5C3EF 3HOXF 2JA5F 1R9TF 1K83E 4Q4ZE 4OIQE 3GTJF 4MEXE 3RZOE 4GZYE 2A68E 2E2IF 4KMUE 4A3LF 3FKIF 5IYBF 2JA7E 5M3MF 5C44E 5M5WE 5IYDE 4BBSF 4C3HE 4LJZE 2PPBE 3GTGF 4XLPE 5IP9E 2O5JE 4XSXE 4A3JF 4A3MF 2A69E 4Y7NF 2JA8F 3H3VF 4C2MF 3S1QE 4A3GF 1SMYE 2JA6F 2NVTE 4A3KF 3S15F 5C4XE 4C3JE 5FLMF 3GTQF 4X6AE 5IP7F 5M3FE 2NVXF 4A3FE 1TWCE 3CQZF 4A3EF 1TWFF 1YNJK 3M4OE 5IPLE 1TWGF 4BY7E 5FJ8E 3S1RE 3S2DE 3HOVE 1K83F 3GTLF 1TWHE 2PMZK 3RZOF 2R92E 5M5XE 2PMZH 2R93E 3HOWF 5D4DE 3M3YE 3PO3E 4LK0E 3PO2F 3S14F 4LK1E 4Y52F 5IYDF 1SFOE 1I3QE 3GTKF 3DXJE 4OIRE 2B63E 1Y1VE 2A6HE 5TMCE 4BXXF 4BBRF 3S1NE 4A3IF 1HQME 3RZDE 2NVTF 3S1QF 4YFKE 4MEYE 4C3JF 3I4ME 2NVQF 2E2JF 3HOZE 4MQ9E 4G7ZE 1WCMF 4KN4E 4OINE 2R7ZE 3HKZK 4X6AF 1I6HF 5M3FF 3S2HE 1I50F 4YG2E 4A3CE 3HKZH 2NVYE 1TWAE 3S16F 1ZYRE 3S17F 2YU9F
chains in the Genus database with same CATH topology
3EQLE 3M4OF 4BY7F 4KN7E 5TMFE 4OIPE 4BY1F 1TWHF 4Q5SE 5IYCF 5BYHE 5M5XF 4AYBK 3PO3F 1YNNK 2JA7F 5C44F 5M5WF 2B63F 4C3HF 4JK1E 3S1NF 3RZDF 5IP9F 4YFNE 4YFXE 5C4XF 2R7ZF 5E17E 3S2HF 4A3CF 2BE5E 1IW7E 4A3FF 4OIOE 1TWCF 2E2HF 4G7OE 2VUMF 2WAQK 5FJ8F 3S1RF 3S2DF 3HOVF 3I4NF 4A93F 5E18E 3K7AF 2R92F 5D4CE 4LLGE 2R93F 5M5YF 3M3YF 4G7HE 1SFOF 4QIWK 1I3QF 2CW0E 2O5IE 4A3DF 2KRXA 1Y1VF 3HOYF 2WB1I 4C3IF 3H3VG 4ZH4E 3I4MF 3HOZF 4XSZE 5D4EE 1QKLA 2NVYF 1TWAF 1Y1WF 1I6VE 3HOUF 3H0GF 4A3BF 2Y0SI 3GTMF 3WODE 3GTOF 3S1MF 5C4JF 3GTPF 4XLNE 3HOXF 2A6EE 2JA5F 5C3EF 1R9TF 4Q4ZE 4OIQE 3GTJF 4MEXE 4GZYE 2A68E 2E2IF 4KMUE 4A3LF 3FKIF 5IYBF 5M3MF 4BBSF 2PPBE 4LJZE 3GTGF 4XLPE 2O5JE 4XSXE 4A3JF 4A3MF 2A69E 4Y7NF 2JA8F 4C2MF 4A3GF 1SMYE 2JA6F 3S15F 4A3KF 5FLMF 3GTQF 5IP7F 2NVXF 3CQZF 4A3EF 1TWFF 1YNJK 5IPLE 1TWGF 1K83F 3GTLF 2PMZK 3RZOF 3HOWF 5D4DE 4LK0E 3PO2F 3S14F 4LK1E 4Y52F 5IYDF 3GTKF 3DXJE 4OIRE 2A6HE 5TMCE 4BXXF 4BBRF 4A3IF 1HQME 3S1QF 2NVTF 4YFKE 4MEYE 4C3JF 2NVQF 2E2JF 4MQ9E 4G7ZE 1WCMF 4KN4E 4OINE 4X6AF 3HKZK 1I6HF 5M3FF 1I50F 4YG2E 3S16F 1ZYRE 3S17F 2YU9F
chains in the Genus database with same CATH homology


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