2YU9F

Rna polymerase ii elongation complex in 150 mm mg+2 with utp
Total Genus 20
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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
20
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 5'-R(*AP*UP*CP*GP*AP*GP*AP*GP*GP*A)-3'
publication title Structural Basis of Transcription: Role of the Trigger Loop in Substrate Specificity and Catalysis
pubmed doi rcsb
total genus 20
structure length 85
sequence length 85
ec nomenclature
pdb deposition date 2007-04-06

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 2yu9F00
3H3VG 3PO3F 3GTGF 2A6HE 3S17F 3S1MF 4A3BF 4C3JF 2YU9F 4BY7F 2O5IE 4OINE 3K7AF 5M3FF 2CW0E 2E2HF 3PO2F 4YFXE 5C44F 1I6VE 2E2JF 1I3QF 2NVTF 4LLGE 4G7OE 2VUMF 5FLMF 3RZOF 2R92F 4KN4E 2E2IF 3GTMF 4GZYE 1I50F 3S1RF 2WB1I 1TWAF 2JA7F 3M3YF 4LK0E 2R7ZF 5D4CE 4BY1F 4XLNE 2JA6F 4C2MF 4A3KF 2B63F 1HQME 5BYHE 3WODE 3HOVF 4OIRE 4JK1E 1SFOF 3HOUF 1WCMF 3HOXF 4G7ZE 1Y1WF 5TMCE 4LJZE 4ZH4E 4A93F 2WAQK 4XSXE 5C4JF 1R9TF 4XSZE 3HKZK 3GTQF 3S1QF 3FKIF 4A3DF 4MQ9E 5C4XF 4YG2E 2BE5E 4A3JF 4A3GF 4YFKE 1YNNK 3GTKF 3DXJE 1Y1VF 3GTJF 5IYDF 2Y0SI 3S2HF 4AYBK 3S2DF 2R93F 4XLPE 3HOZF 3S1NF 4A3CF 2JA5F 4Y52F 5IPLE 2NVYF 3EQLE 5C3EF 4MEYE 2NVQF 1ZYRE 3S16F 4KN7E 4X6AF 3S15F 3S14F 3GTOF 5E17E 1TWGF 2O5JE 5TMFE 5IYBF 2A6EE 1TWHF 2PPBE 3HOYF 5M3MF 3CQZF 2PMZK 4BBRF 2NVXF 5D4EE 5FJ8F 4Q4ZE 1IW7E 3GTPF 1I6HF 5E18E 2A69E 4C3IF 4KMUE 4Q5SE 4A3EF 3HOWF 5M5WF 5IP7F 4A3IF 4G7HE 3GTLF 4BBSF 5M5XF 5M5YF 5D4DE 1TWCF 2JA8F 3I4MF 3RZDF 4OIPE 1YNJK 4C3HF 3I4NF 5IYCF 4OIQE 1SMYE 4LK1E 4Y7NF 4OIOE 1K83F 4A3MF 4A3LF 3H0GF 1TWFF 4A3FF 4YFNE 1QKLA 5IP9F 4MEXE 2A68E 3M4OF 4BXXF
chains in the Genus database with same CATH superfamily
3H3VG 2NVYE 1SFOE 3PO3F 3GTGF 2A6HE 3HOXE 3S16E 3S17F 3S1MF 4A3BF 4X6AE 4C3JF 2YU9F 4BY7F 2O5IE 4OINE 3K7AF 3S15E 5M3FF 5C4JE 2CW0E 1TWGE 2KRXA 2E2HF 3GTQE 3PO2F 5IYBE 1TWHE 4YFXE 1I6VE 5C44F 1I3QF 2E2JF 4LLGE 2NVTF 3HOYE 5M3ME 5C4XE 4G7OE 2VUMF 5FLMF 4BBRE 4A3GE 3RZOF 2R92F 3GTKE 4KN4E 2E2IF 3GTMF 4GZYE 1I50F 3S1RF 1Y1VE 2WB1I 3GTJE 1I6HE 1TWAF 2JA7F 3M3YF 2R93E 4LK0E 3HOZE 2R7ZF 5M5WE 5D4CE 3S1NE 4BY1F 4XLNE 2JA6F 4C2MF 4A3IE 4A3KF 2B63F 3GTLE 4Y52E 5C3EE 1HQME 5BYHE 3WODE 3HOVF 4OIRE 2NVQE 4JK1E 5M5XE 5M5YE 1SFOF 3HOUF 1TWCE 1WCMF 2JA8E 3HOXF 4G7ZE 1Y1WF 4C3HE 5TMCE 4LJZE 4ZH4E 4Y7NE 3S14E 1K83E 2WAQK 3GTOE 4A93F 4XSXE 4A3LE 3H0GE 4A3FE 5C4JF 1R9TF 4XSZE 3HKZK 3GTQF 5IP9E 3S1QF 3CQZE 3FKIF 2WAQH 4A3DF 1EIKA 4MQ9E 5C4XF 2NVXE 5FJ8E 4YG2E 2BE5E 4A3JF 3HKZH 4YFKE 3GTPE 4A3GF 1YNNK 3GTKF 3DXJE 4C3IE 1Y1VF 3GTJF 5IYDF 4A3EE 2Y0SI 3HOWE 4AYBK 3S2HF 3S2DF 2R93F 4C3JE 5IP7E 4XLPE 3HOZF 4BY7E 3S1NF 3K7AE 2JA5F 4BBSE 4A3CF 4Y52F 5M3FE 5IPLE 2NVYF 3EQLE 5C3EF 4AYBH 4MEYE 3RZDE 2NVQF 3I4ME 1ZYRE 3S16F 1I3QE 4KN7E 3I4NE 5IYCE 4X6AF 4A3ME 3RZOE 2E2IE 3S15F 3S14F 1I50E 1TWFE 3GTOF 5E17E 1TWGF 2O5JE 2WB1H 5TMFE 3M4OE 5IYBF 2A6EE 1TWHF 2PPBE 2R7ZE 4BXXE 3HOYF 5M3MF 3CQZF 2PMZK 4C2ME 4A3KE 4BBRF 2NVXF 5D4EE 5FJ8F 1IW7E 4Q4ZE 3GTGE 3HOVE 3PO3E 3S17E 3HOUE 3GTPF 1I6HF 1WCME 4QIWK 5E18E 1DZFA 2PMZH 3S1ME 2A69E 4C3IF 4KMUE 1Y1WE 4Q5SE 4A3EF 2YU9E 4A3BE 3HOWF 5M5WF 3H3VF 5IP7F 4A93E 4A3IF 4QIWH 4G7HE 3GTLF 4BBSF 2E2HE 3PO2E 1R9TE 5M5XF 5M5YF 5C44E 2E2JE 5D4DE 2NVTE 3S1QE 1TWCF 2JA8F 3I4MF 3FKIE 3RZDF 2VUME 4A3DE 4OIPE 1YNJK 5FLME 4C3HF 3I4NF 5IYCF 4OIQE 1SMYE 2R92E 4LK1E 3GTME 4Y7NF 4A3JE 3S1RE 1K83F 4OIOE 4A3MF 1TWAE 2JA7E 4A3LF 3M3YE 3H0GF 1TWFF 4A3FF 4YFNE 5IYDE 3S2HE 1QKLA 5IP9F 4MEXE 2A68E 4BY1E 3M4OF 2Y0SH 2JA6E 3S2DE 2B63E 4A3CE 4BXXF 2JA5E
chains in the Genus database with same CATH topology
3H3VG 3PO3F 3GTGF 2A6HE 3S17F 3S1MF 4A3BF 4C3JF 2YU9F 4BY7F 2O5IE 4OINE 3K7AF 5M3FF 2CW0E 2KRXA 2E2HF 3PO2F 4YFXE 5C44F 1I6VE 2E2JF 1I3QF 2NVTF 4LLGE 4G7OE 2VUMF 5FLMF 3RZOF 2R92F 4KN4E 2E2IF 3GTMF 4GZYE 1I50F 3S1RF 2WB1I 1TWAF 2JA7F 3M3YF 4LK0E 2R7ZF 5D4CE 4BY1F 4XLNE 2JA6F 4C2MF 4A3KF 2B63F 1HQME 5BYHE 3WODE 3HOVF 4OIRE 4JK1E 1SFOF 3HOUF 1WCMF 3HOXF 4G7ZE 1Y1WF 5TMCE 4LJZE 4ZH4E 4A93F 2WAQK 4XSXE 5C4JF 1R9TF 4XSZE 3HKZK 3GTQF 3S1QF 3FKIF 4A3DF 4MQ9E 5C4XF 4YG2E 2BE5E 4A3JF 4A3GF 4YFKE 1YNNK 3GTKF 3DXJE 1Y1VF 3GTJF 5IYDF 2Y0SI 3S2HF 4AYBK 3S2DF 2R93F 4XLPE 3HOZF 3S1NF 4A3CF 2JA5F 4Y52F 5IPLE 2NVYF 3EQLE 5C3EF 4MEYE 2NVQF 1ZYRE 3S16F 4KN7E 4X6AF 3S15F 3S14F 3GTOF 5E17E 1TWGF 2O5JE 5TMFE 5IYBF 2A6EE 1TWHF 2PPBE 3HOYF 5M3MF 3CQZF 2PMZK 4BBRF 2NVXF 5D4EE 5FJ8F 4Q4ZE 1IW7E 3GTPF 1I6HF 4QIWK 5E18E 2A69E 4C3IF 4KMUE 4Q5SE 4A3EF 3HOWF 5M5WF 5IP7F 4A3IF 4G7HE 3GTLF 4BBSF 5M5XF 5M5YF 5D4DE 1TWCF 2JA8F 3I4MF 3RZDF 4OIPE 1YNJK 4C3HF 3I4NF 5IYCF 4OIQE 1SMYE 4LK1E 4Y7NF 4OIOE 1K83F 4A3MF 4A3LF 3H0GF 1TWFF 4A3FF 4YFNE 1QKLA 5IP9F 4MEXE 2A68E 3M4OF 4BXXF
chains in the Genus database with same CATH homology


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