3GTGF

Backtracked rna polymerase ii complex with 12mer rna
Total Genus 15
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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
15
sequence length
85
structure length
85
Chain Sequence
EKAIPKDQRATTPYMTKYERARILGTRALQISMNAPVFVDLEGETDPLRIAMKELAEKKIPLVIRRYLPDGSFEDWSVEELIVDL
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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, transferase/dna/rna hybrid
molecule keywords DNA-directed RNA polymerase II subunit RPB1
publication title Structural basis of transcription: backtracked RNA polymerase II at 3.4 angstrom resolution.
pubmed doi rcsb
total genus 15
structure length 85
sequence length 85
ec nomenclature
pdb deposition date 2009-03-27

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 3gtgF00
4OIRE 1TWCF 2NVYF 4LLGE 3S1MF 3GTOF 5C3EF 4OIPE 2NVQF 1SMYE 4BBSF 2E2IF 1Y1VF 5D4EE 1ZYRE 5C44F 4OIQE 4KN4E 3HOUF 2JA5F 3HOVF 4AYBK 1QKLA 3CQZF 4C3IF 1YNJK 2JA6F 1I3QF 2R7ZF 3S16F 4GZYE 4G7ZE 1R9TF 2PMZK 4A3IF 3FKIF 3GTJF 3K7AF 4JK1E 2Y0SI 2JA8F 2PPBE 5FJ8F 4LK0E 1Y1WF 3HOZF 4OINE 1TWFF 3GTKF 4A3KF 4G7OE 2A6EE 3I4NF 2R92F 2A6HE 2BE5E 4YFKE 4A3DF 4XLPE 4A3GF 5M3MF 5IYDF 3RZOF 3S17F 4X6AF 3DXJE 3GTMF 4A3JF 3S15F 3S2DF 4BXXF 4XSXE 4Y7NF 4C3JF 4OIOE 5BYHE 5D4CE 4A3LF 4BY7F 1TWGF 4MEYE 4BY1F 4YFNE 3H3VG 3S14F 3GTQF 3HKZK 4A3MF 4XLNE 4KN7E 2VUMF 3M3YF 3S1QF 2WB1I 5IYCF 3HOYF 5IPLE 1YNNK 5IP9F 3PO2F 2E2HF 4Q5SE 2O5IE 2JA7F 5M5WF 5E18E 3WODE 1I6HF 5TMFE 1SFOF 1TWHF 3PO3F 1I6VE 4C2MF 5TMCE 2A68E 1K83F 4XSZE 3S1RF 4KMUE 1HQME 2NVTF 4A3BF 2B63F 4BBRF 4G7HE 1IW7E 5M5YF 4LK1E 4MQ9E 5C4JF 4YFXE 5FLMF 1WCMF 5M5XF 3HOXF 3H0GF 4LJZE 2WAQK 4MEXE 2YU9F 4A3CF 2R93F 2E2JF 4Y52F 3RZDF 1TWAF 5IYBF 5M3FF 5E17E 4Q4ZE 4A3EF 5C4XF 4C3HF 3M4OF 2NVXF 2O5JE 2CW0E 4ZH4E 3S2HF 1I50F 3GTGF 3HOWF 2A69E 3GTPF 3S1NF 4A3FF 3EQLE 4YG2E 4A93F 3GTLF 5D4DE 5IP7F 3I4MF
chains in the Genus database with same CATH superfamily
4OIRE 1TWCF 2JA7E 5M5WE 2NVYF 4LLGE 3S1MF 1I6HE 3GTOF 5C3EF 1SFOE 4OIPE 2Y0SH 1TWHE 3PO3E 2NVQF 1SMYE 4C2ME 4BBSF 2E2IF 1Y1VF 1K83E 1ZYRE 5D4EE 3S1RE 5C44F 4OIQE 4KN4E 4BY1E 3HOUF 2NVTE 2JA5F 4A3BE 2B63E 4AYBH 4AYBK 4BBRE 3HOVF 1QKLA 3CQZF 4C3IF 5M5YE 1YNJK 2JA6F 1I3QF 3HKZH 2R7ZF 3S16F 5C4JE 4GZYE 4G7ZE 1R9TF 5FLME 1WCME 2PMZH 2PMZK 3FKIF 5M5XE 3H0GE 3K7AF 4JK1E 2Y0SI 3GTJF 2KRXA 3HOXE 2PPBE 2JA8F 5FJ8F 4LK0E 1Y1WF 2YU9E 3HOZF 2R93E 2E2JE 4OINE 1TWFF 3GTKF 4A3KF 4Y52E 3RZDE 1TWAE 5IYBE 5M3FE 4G7OE 2A6EE 4A3EE 3I4NF 5C4XE 2R92F 2A6HE 2BE5E 4YFKE 4A3DF 4XLPE 2NVXE 5M3MF 5IYDF 4A3GF 3RZOF 3S17F 4X6AF 3DXJE 2WB1H 3GTMF 4A3JF 3S2HE 1I50E 3S15F 3S2DF 3GTGE 3HOWE 4BXXF 3GTPE 4XSXE 3S1NE 4A3FE 4Y7NF 4C3JF 4OIOE 5BYHE 4A93E 5D4CE 4A3LF 3GTLE 4BY7F 1TWGF 4MEYE 4BY1F 4YFNE 3H3VG 5IP7E 3I4ME 3S14F 4QIWK 4QIWH 1TWCE 3HKZK 3GTQF 2NVYE 4A3MF 4XLNE 3S1ME 4KN7E 2VUMF 3M3YF 3S1QF 2WB1I 5C3EE 5IYCF 3HOYF 5IPLE 4A3CE 1YNNK 2NVQE 5IP9F 4BBSE 3PO2F 2E2IE 1Y1VE 2E2HF 4Q5SE 5C44E 4C3HE 3HOUE 2O5IE 3M4OE 2JA5E 2JA7F 3HOVE 5M5WF 5E18E 3CQZE 4C3IE 3WODE 1I6HF 5TMFE 2JA6E 1SFOF 1I3QE 1TWHF 2R7ZE 3PO3F 1I6VE 4C2MF 1R9TE 3H3VF 4A3IE 3FKIE 5TMCE 3GTJE 2A68E 1K83F 2JA8E 4XSZE 3S1RF 4KMUE 1HQME 5FJ8E 1Y1WE 2NVTF 1TWFE 3GTKE 4A3KE 2B63F 4A3BF 4BBRF 3I4NE 4G7HE 1IW7E 5M5YF 4A3DE 4LK1E 2R92E 4MQ9E 4A3GE 5M3ME 5IYDE 3GTOE 3RZOE 3S17E 4X6AE 5C4JF 3GTME 4YFXE 5FLMF 1WCMF 5M5XF 4A3JE 3HOXF 3H0GF 4LJZE 3S15E 2WAQK 2WAQH 4MEXE 3S2DE 4BXXE 2YU9F 4A3CF 2R93F 2E2JF 4Y52F 4Y7NE 4C3JE 3RZDF 1TWAF 5IYBF 5M3FF 5E17E 4Q4ZE 4A3EF 4A3LE 5C4XF 4BY7E 1TWGE 4C3HF 3M4OF 1DZFA 2NVXF 3S14E 2O5JE 2CW0E 3GTQE 4ZH4E 4A3ME 3S16E 3S2HF 1I50F 2VUME 3K7AE 3M3YE 3GTGF 3HOWF 3S1QE 1EIKA 2A69E 5IYCE 3GTPF 4A3FF 3HOYE 3EQLE 3HOZE 3S1NF 5IP9E 4YG2E 4A93F 3PO2E 3GTLF 4A3IF 2E2HE 5D4DE 5IP7F 3I4MF
chains in the Genus database with same CATH topology
4OIRE 1TWCF 2NVYF 4LLGE 3S1MF 3GTOF 5C3EF 4OIPE 2NVQF 1SMYE 4BBSF 2E2IF 1Y1VF 5D4EE 1ZYRE 5C44F 4OIQE 4KN4E 3HOUF 2JA5F 3HOVF 4AYBK 1QKLA 3CQZF 4C3IF 1YNJK 2JA6F 1I3QF 2R7ZF 3S16F 4GZYE 4G7ZE 1R9TF 2PMZK 4A3IF 3FKIF 3GTJF 3K7AF 4JK1E 2Y0SI 2JA8F 2KRXA 2PPBE 5FJ8F 4LK0E 1Y1WF 3HOZF 4OINE 1TWFF 3GTKF 4A3KF 4G7OE 2A6EE 3I4NF 2R92F 2A6HE 2BE5E 4YFKE 4A3DF 4XLPE 4A3GF 5M3MF 5IYDF 3RZOF 3S17F 4X6AF 3DXJE 3GTMF 4A3JF 3S15F 3S2DF 4BXXF 4XSXE 4Y7NF 4C3JF 4OIOE 5BYHE 5D4CE 4A3LF 4BY7F 1TWGF 4MEYE 4BY1F 4YFNE 3H3VG 3S14F 4QIWK 3GTQF 3HKZK 4A3MF 4XLNE 4KN7E 2VUMF 3M3YF 3S1QF 2WB1I 5IYCF 3HOYF 5IPLE 1YNNK 5IP9F 3PO2F 2E2HF 4Q5SE 2O5IE 2JA7F 5M5WF 5E18E 3WODE 1I6HF 5TMFE 1SFOF 1TWHF 3PO3F 1I6VE 4C2MF 5TMCE 2A68E 1K83F 4XSZE 3S1RF 4KMUE 1HQME 2NVTF 4A3BF 2B63F 4BBRF 4G7HE 1IW7E 5M5YF 4LK1E 4MQ9E 5C4JF 4YFXE 5FLMF 1WCMF 5M5XF 3HOXF 3H0GF 4LJZE 2WAQK 4MEXE 2YU9F 4A3CF 2R93F 2E2JF 4Y52F 3RZDF 1TWAF 5IYBF 5M3FF 5E17E 4Q4ZE 4A3EF 5C4XF 4C3HF 3M4OF 2NVXF 2O5JE 2CW0E 4ZH4E 3S2HF 1I50F 3GTGF 3HOWF 2A69E 3GTPF 3S1NF 4A3FF 3EQLE 4YG2E 4A93F 3GTLF 5D4DE 5IP7F 3I4MF
chains in the Genus database with same CATH homology


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