2E2HF

Rna polymerase ii elongation complex at 5 mm mg2+ with gtp
Total Genus 13
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
13
sequence length
83
structure length
83
Chain Sequence
KAIPKDQRATTPYMTKYERARILGTRALQISMNAPVFVDLEGETDPLRIAMKELAEKKIPLVIRRYLPDGSFEDWSVEELIVD
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.

publication title Structural basis of transcription: role of the trigger loop in substrate specificity and catalysis
pubmed doi rcsb
molecule tags Transcription,transferase/dna-rna hybrid
molecule keywords 5'-R(*AP*UP*CP*GP*AP*GP*AP*GP*GP*A)-3'
total genus 13
structure length 83
sequence length 83
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 2e2hF00
1ZYRE 3WODE 5M5WF 5D4DE 2JA8F 5C44F 4BY7F 2JA7F 1R9TF 1I6VE 1HQME 3HOUF 3HOVF 1K83F 4A3BF 5TMCE 3HOWF 5M3FF 4Q4ZE 2JA6F 3I4MF 1TWFF 2PMZK 3S1RF 4MEXE 4LK0E 4X6AF 4BY1F 4A3DF 2NVYF 4G7OE 2R92F 3DXJE 2BE5E 2R93F 1Y1VF 2WAQK 4Q5SE 5C3EF 4JK1E 4C2MF 2E2IF 4AYBK 4YFNE 4OINE 1YNNK 2YU9F 2E2HF 5C4XF 5FLMF 3PO2F 2O5IE 4LK1E 3HKZK 3GTPF 5D4CE 1I6HF 4C3IF 4KMUE 4KN7E 5IYBF 4A3IF 2JA5F 3CQZF 3S2DF 5D4EE 3GTGF 4A3LF 1SFOF 2A6HE 3S2HF 1WCMF 5C4JF 2E2JF 2O5JE 5E17E 5IPLE 4Y52F 5M3MF 3H0GF 4A3GF 3S16F 4YFXE 3GTLF 4BBSF 2NVTF 1YNJK 2A69E 1I50F 3GTOF 1QKLA 3HOXF 1Y1WF 3S14F 4A93F 4YFKE 4A3EF 3RZOF 4OIOE 3EQLE 4MEYE 3M4OF 3HOYF 4YG2E 4XSZE 2CW0E 3H3VG 1IW7E 4A3MF 4Y7NF 4XSXE 2B63F 2WB1I 4A3CF 2A6EE 4OIRE 5IYDF 3S17F 5M5YF 3S1QF 3HOZF 3GTJF 5TMFE 4XLNE 3GTMF 5E18E 5IYCF 1SMYE 5IP7F 2A68E 4KN4E 1TWAF 4A3KF 4C3JF 2PPBE 3GTKF 4LLGE 3FKIF 5M5XF 2NVXF 4MQ9E 4XLPE 1I3QF 3S15F 4C3HF 4BXXF 1TWGF 4A3JF 3M3YF 2Y0SI 5IP9F 5FJ8F 3S1NF 5BYHE 3I4NF 4A3FF 2NVQF 2R7ZF 4BBRF 3GTQF 1TWCF 3S1MF 4ZH4E 3RZDF 4GZYE 3K7AF 4LJZE 2VUMF 4G7ZE 4G7HE 3PO3F 1TWHF 4OIPE 4OIQE
chains in the Genus database with same CATH superfamily
3HOWE 5C4XE 5M3FE 1ZYRE 2JA6E 3I4ME 3GTGE 3WODE 5M5WF 5D4DE 1TWFE 1SFOE 2JA8F 1EIKA 5C44F 3S1RE 4X6AE 4BY7F 4BY1E 4A3DE 2NVYE 2R92E 2JA7F 4QIWK 4Y52E 1R9TF 1I6VE 1HQME 3HOUF 4A3GE 3HOVF 1K83F 4QIWH 3GTLE 4A3BF 5TMCE 3HOWF 5M3FF 4Q4ZE 2JA6F 3I4MF 1TWFF 2E2IE 3HOXE 2PMZK 2YU9E 4A3EE 3S1RF 4MEXE 4LK0E 2E2HE 4BY1F 5FLME 3RZOE 2PMZH 2NVYF 4G7OE 4A3DF 3PO2E 2R92F 3DXJE 2BE5E 2R93F 1Y1VF 1I6HE 2WAQK 4C3IE 4Q5SE 5C3EF 4A3ME 4JK1E 5IYBE 4C2MF 2WAQH 4A3IE 2JA5E 3S2DE 2E2IF 4AYBK 4YFNE 3S17E 4OINE 3S1QE 1YNNK 4A3LE 2YU9F 3HOZE 3S2HE 4AYBH 2E2HF 1WCME 5C4JE 5FLMF 5C4XF 2E2JE 3PO2F 2O5IE 4LK1E 3HKZK 5IYCE 3GTPF 5D4CE 1I6HF 4C3IF 5M3ME 3H0GE 3HKZH 4KMUE 4KN7E 5IYBF 3S16E 4A3IF 2JA5F 3CQZF 4BBSE 3S2DF 2NVTE 5D4EE 2NVXE 3GTGF 4A3LF 1I50E 2A6HE 1SFOF 2KRXA 3GTOE 3S2HF 1Y1WE 1WCMF 5C4JF 3S14E 4A93E 2E2JF 2O5JE 5E17E 5IPLE 1TWGE 4Y52F 5M3MF 3H0GF 3S1NE 3M4OE 3HOYE 4A3GF 3S16F 4YFXE 3GTLF 4BBSF 1DZFA 4Y7NE 2NVTF 1YNJK 2A69E 1I50F 2B63E 3GTOF 4A3CE 3S1ME 1QKLA 3HOXF 5IYDE 1Y1WF 5M5YE 3S14F 4A93F 4YFKE 3GTJE 4A3EF 3RZDE 3RZOF 4OIOE 3GTME 3EQLE 4X6AF 4MEYE 5IP7E 3M4OF 4YG2E 4XSZE 3HOYF 2CW0E 3H3VG 1IW7E 4A3MF 1TWAE 4Y7NF 4C3JE 5M5WE 4A3KE 4A3BE 4XSXE 2B63F 3GTKE 2WB1I 3FKIE 4A3CF 2A6EE 5M5XE 5IYDF 4OIRE 5M5YF 3S17F 3HOZF 3GTJF 3S1QF 4BY7E 1I3QE 5TMFE 4XLNE 3GTMF 5E18E 1R9TE 3S15E 4C3HE 5IYCF 1SMYE 1K83E 5IP7F 4A3JE 3M3YE 4BXXE 5FJ8E 2A68E 5IP9E 4KN4E 1TWAF 2WB1H 4C3JF 4A3FE 4A3KF 2PPBE 3I4NE 3PO3F 2NVQE 3GTKF 4LLGE 3FKIF 5M5XF 4BBRE 2NVXF 2R7ZE 4MQ9E 3GTQE 4XLPE 1TWCE 1I3QF 2R93E 1Y1VE 3S15F 4C3HF 3K7AE 4BXXF 1TWGF 5C3EE 4A3JF 2VUME 2Y0SI 5IP9F 5FJ8F 4C2ME 3M3YF 1TWHE 3PO3E 3S1NF 5BYHE 3I4NF 4A3FF 2NVQF 2JA8E 2R7ZF 4BBRF 3GTQF 5C44E 1TWCF 3S1MF 4ZH4E 3GTPE 3RZDF 2Y0SH 4GZYE 3K7AF 2JA7E 4LJZE 2VUMF 3HOUE 4G7ZE 3H3VF 4G7HE 3HOVE 1TWHF 4OIPE 4OIQE 3CQZE
chains in the Genus database with same CATH topology
1ZYRE 3WODE 5M5WF 5D4DE 2JA8F 5C44F 4BY7F 2JA7F 4QIWK 1R9TF 1I6VE 1HQME 3HOUF 3HOVF 1K83F 4A3BF 5TMCE 3HOWF 5M3FF 4Q4ZE 2JA6F 3I4MF 1TWFF 2PMZK 3S1RF 4MEXE 4LK0E 4X6AF 4BY1F 4A3DF 2NVYF 4G7OE 2R92F 3DXJE 2BE5E 2R93F 1Y1VF 2WAQK 4Q5SE 5C3EF 4JK1E 4C2MF 2E2IF 4AYBK 4YFNE 4OINE 1YNNK 2YU9F 2E2HF 5C4XF 5FLMF 3PO2F 2O5IE 4LK1E 3HKZK 3GTPF 5D4CE 1I6HF 4C3IF 4KMUE 4KN7E 5IYBF 4A3IF 2JA5F 3CQZF 3S2DF 5D4EE 3GTGF 4A3LF 1SFOF 2A6HE 3S2HF 2KRXA 1WCMF 5C4JF 2E2JF 2O5JE 5E17E 5IPLE 4Y52F 5M3MF 3H0GF 4A3GF 3S16F 4YFXE 3GTLF 4BBSF 2NVTF 1YNJK 2A69E 1I50F 3GTOF 1QKLA 3HOXF 1Y1WF 3S14F 4A93F 4YFKE 4A3EF 3RZOF 4OIOE 3EQLE 4MEYE 3M4OF 3HOYF 4YG2E 4XSZE 2CW0E 3H3VG 1IW7E 4A3MF 4Y7NF 4XSXE 2B63F 2WB1I 4A3CF 2A6EE 4OIRE 5IYDF 3S17F 5M5YF 3S1QF 3HOZF 3GTJF 5TMFE 4XLNE 3GTMF 5E18E 5IYCF 1SMYE 5IP7F 2A68E 4KN4E 1TWAF 4A3KF 4C3JF 2PPBE 3GTKF 4LLGE 3FKIF 5M5XF 2NVXF 4MQ9E 4XLPE 1I3QF 3S15F 4C3HF 4BXXF 1TWGF 4A3JF 3M3YF 2Y0SI 5IP9F 5FJ8F 3S1NF 5BYHE 3I4NF 4A3FF 2NVQF 2R7ZF 4BBRF 3GTQF 1TWCF 3S1MF 4ZH4E 3RZDF 4GZYE 3K7AF 4LJZE 2VUMF 4G7ZE 4G7HE 3PO3F 1TWHF 4OIPE 4OIQE
chains in the Genus database with same CATH homology


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