2E2JF

Rna polymerase ii elongation complex in 5 mm mg+2 with gmpcpp
Total Genus 16
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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
16
sequence length
86
structure length
86
Chain Sequence
LKEKAIPKDQRATTPYMTKYERARILGTRALQISMNAPVFVDLEGETDPLRIAMKELAEKKIPLVIRRYLPDGSFEDWSVEELIVD
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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(P*AP*UP*CP*GP*AP*GP*AP*GP*G)-3'
publication title Structural basis of transcription: role of the trigger loop in substrate specificity and catalysis
pubmed doi rcsb
total genus 16
structure length 86
sequence length 86
ec nomenclature
pdb deposition date 2006-11-14

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 2e2jF00
1I6VE 3S1NF 4A3EF 4LLGE 2JA7F 5FLMF 1IW7E 4XSZE 3HOVF 4BXXF 2WAQK 1HQME 4A93F 4A3JF 3H3VG 4Y7NF 4G7ZE 4C2MF 4A3MF 4AYBK 4X6AF 5IP9F 4KN4E 1TWHF 2NVXF 3S14F 5TMCE 5E18E 1TWFF 3FKIF 3RZDF 1Y1VF 5IPLE 2A68E 4LK1E 3GTGF 3S1MF 3CQZF 2O5JE 1ZYRE 2R92F 4C3HF 3PO2F 4Q4ZE 4ZH4E 4MEXE 3HOYF 1WCMF 2WB1I 2A6HE 4YG2E 1SMYE 3RZOF 2PMZK 1K83F 3GTKF 3GTJF 4Y52F 3HOWF 3GTMF 2JA8F 5M3FF 4BBRF 5M5YF 5IYBF 1R9TF 4YFNE 4YFKE 3H0GF 1TWCF 4G7HE 1I6HF 1YNNK 4A3IF 4XSXE 4OINE 3GTOF 4MEYE 2E2JF 5C3EF 4A3KF 2NVYF 1YNJK 2JA6F 2R7ZF 5D4EE 3S2HF 2R93F 3I4MF 4Q5SE 2NVQF 1Y1WF 2BE5E 3S17F 4A3BF 3S2DF 3S16F 5M5XF 5M3MF 2Y0SI 2VUMF 4BY1F 2YU9F 3I4NF 4BBSF 4OIRE 1TWAF 2A69E 3PO3F 4KMUE 3HKZK 3M3YF 4JK1E 2O5IE 2NVTF 4A3GF 5M5WF 4A3FF 3GTPF 2PPBE 4C3IF 2E2HF 3DXJE 4G7OE 3S15F 2A6EE 2B63F 2CW0E 4LJZE 1I3QF 3S1QF 3GTLF 5D4CE 4A3DF 5TMFE 3HOZF 5IYCF 4YFXE 4KN7E 4LK0E 3S1RF 4GZYE 4OIPE 5C4JF 4C3JF 5IYDF 5C4XF 1I50F 3EQLE 4XLPE 3GTQF 4MQ9E 5D4DE 1SFOF 3K7AF 1QKLA 4A3LF 4BY7F 3WODE 3M4OF 5IP7F 3HOUF 5E17E 5FJ8F 5C44F 4XLNE 2JA5F 1TWGF 3HOXF 2E2IF 4OIOE 4OIQE 4A3CF 5BYHE
chains in the Genus database with same CATH superfamily
1I6VE 1SFOE 3S1NF 4A3EF 3K7AE 4LLGE 2JA7F 4A3FE 4A3LE 3M4OE 4BY7E 5IP7E 3HOUE 5FJ8E 5FLMF 1IW7E 4XSZE 2WB1H 4QIWK 5C44E 3HOVF 4BXXF 2Y0SH 2WAQK 1HQME 2KRXA 4A93F 2JA5E 1TWGE 4A3JF 4Y7NF 4G7ZE 4C2MF 3H3VG 4A3MF 3S1NE 4AYBK 4X6AF 5IP9F 3HOZE 4KN4E 1TWHF 2NVXF 3S14F 5TMCE 5E18E 5FLME 1TWFF 3HOVE 4BXXE 3S1RE 4A93E 3FKIF 3RZDF 1Y1VF 5IPLE 2A68E 4Y7NE 4C2ME 4A3ME 4LK1E 3GTGF 3S1MF 3CQZF 4X6AE 5IP9E 2O5JE 2NVXE 1TWHE 3GTME 1ZYRE 3S14E 1I50E 4C3HF 1TWFE 2R92F 3PO2F 4Q4ZE 4ZH4E 4MEXE 4QIWH 1WCMF 2WB1I 2A6HE 4YG2E 2WAQH 3HOYF 1SMYE 3FKIE 3RZDE 3RZOF 3GTGE 3S1ME 3CQZE 2PMZK 1K83F 4AYBH 3HOXE 3GTKF 3GTJF 4C3HE 4Y52F 2E2IE 2JA8F 3GTMF 5M3FF 4BBRF 5M5YF 3HOYE 1WCME 5IYBF 1R9TF 4A3EE 4YFNE 2JA7E 3RZOE 4YFKE 3H0GF 1TWCF 4G7HE 1I6HF 1K83E 1YNNK 4A3IF 4XSXE 4OINE 3GTOF 4MEYE 3PO2E 4A3JE 2E2JF 5C3EF 3GTJE 2NVYF 4A3KF 1YNJK 2JA8E 5M3FE 4BBRE 5D4EE 5M5YE 5IYBE 1R9TE 2JA6F 2R7ZF 3S2HF 3I4MF 3HOWF 2R93F 4Q5SE 3H0GE 1TWCE 2NVQF 1Y1WF 2BE5E 3S17F 4A3BF 3S2DF 3S16F 5M5XF 1I6HE 4A3IE 2PMZH 5M3MF 2Y0SI 2VUMF 3GTOE 1Y1VE 2E2JE 4BY1F 2YU9F 3HKZH 4A3KE 2NVYE 3I4NF 4BBSF 2JA6E 2R7ZE 3S2HE 2R93E 4OIRE 3I4ME 1TWAF 2A69E 3PO3F 4A3CE 2NVQE 4KMUE 3HKZK 1Y1WE 3S17E 4A3BE 3M3YF 3S2DE 3S16E 5M5XE 4JK1E 2O5IE 2NVTF 5M3ME 4A3GF 2VUME 5M5WF 4A3FF 4BY1E 1DZFA 2PPBE 4C3IF 2YU9E 3GTPF 3I4NE 4BBSE 2E2HF 3DXJE 4G7OE 1TWAE 3PO3E 3S15F 2A6EE 2B63F 3GTKE 3HOWE 2CW0E 3M3YE 4LJZE 1I3QF 3S1QF 2NVTE 3GTLF 5D4CE 4A3DF 4A3GE 1EIKA 5TMFE 5M5WE 3HOZF 3GTPE 5IYCF 4C3IE 4YFXE 2E2HE 4KN7E 4LK0E 3S1RF 3S15E 4GZYE 4Y52E 2B63E 5C3EE 3S1QE 1I3QE 4OIPE 3GTLE 5C4JF 4A3DE 4C3JF 5IYDF 5IYCE 5C4XF 1I50F 3EQLE 4XLPE 3GTQF 4MQ9E 5D4DE 1SFOF 2R92E 3K7AF 3H3VF 1QKLA 4A3LF 4BY7F 3WODE 3M4OF 5IP7F 3HOUF 5E17E 5FJ8F 5C4JE 5C44F 4XLNE 4C3JE 5IYDE 2JA5F 1TWGF 5C4XE 3HOXF 2E2IF 4OIOE 4OIQE 3GTQE 4A3CF 5BYHE
chains in the Genus database with same CATH topology
1I6VE 3S1NF 4A3EF 4LLGE 2JA7F 5FLMF 1IW7E 4XSZE 3HOVF 4QIWK 4BXXF 2WAQK 1HQME 2KRXA 4A93F 4A3JF 3H3VG 4Y7NF 4G7ZE 4C2MF 4A3MF 4AYBK 4X6AF 5IP9F 4KN4E 1TWHF 2NVXF 3S14F 5TMCE 5E18E 1TWFF 3FKIF 3RZDF 1Y1VF 5IPLE 2A68E 4LK1E 3GTGF 3S1MF 3CQZF 2O5JE 1ZYRE 2R92F 4C3HF 3PO2F 4Q4ZE 4ZH4E 4MEXE 3HOYF 1WCMF 2WB1I 2A6HE 4YG2E 1SMYE 3RZOF 2PMZK 1K83F 3GTKF 3GTJF 4Y52F 3HOWF 3GTMF 2JA8F 5M3FF 4BBRF 5M5YF 5IYBF 1R9TF 4YFNE 4YFKE 3H0GF 1TWCF 4G7HE 1I6HF 1YNNK 4A3IF 4XSXE 4OINE 3GTOF 4MEYE 2E2JF 5C3EF 4A3KF 2NVYF 1YNJK 2JA6F 2R7ZF 5D4EE 3S2HF 2R93F 3I4MF 4Q5SE 2NVQF 1Y1WF 2BE5E 3S17F 4A3BF 3S2DF 3S16F 5M5XF 5M3MF 2Y0SI 2VUMF 4BY1F 2YU9F 3I4NF 4BBSF 4OIRE 1TWAF 2A69E 3PO3F 4KMUE 3HKZK 3M3YF 4JK1E 2O5IE 2NVTF 4A3GF 5M5WF 4A3FF 3GTPF 2PPBE 4C3IF 2E2HF 3DXJE 4G7OE 3S15F 2A6EE 2B63F 2CW0E 4LJZE 1I3QF 3S1QF 3GTLF 5D4CE 4A3DF 5TMFE 3HOZF 5IYCF 4YFXE 4KN7E 4LK0E 3S1RF 4GZYE 4OIPE 5C4JF 4C3JF 5IYDF 5C4XF 1I50F 3EQLE 4XLPE 3GTQF 4MQ9E 5D4DE 1SFOF 3K7AF 1QKLA 4A3LF 4BY7F 3WODE 3M4OF 5IP7F 3HOUF 5E17E 5FJ8F 5C44F 4XLNE 2JA5F 1TWGF 3HOXF 2E2IF 4OIOE 4OIQE 4A3CF 5BYHE
chains in the Genus database with same CATH homology


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