2R93E

Elongation complex of rna polymerase ii with a hepatitis delta virus-derived rna stem loop
Total Genus 45
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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
45
sequence length
214
structure length
214
Chain Sequence
DQENERNISRLWRAFRTVKEMVKDRGYFITQEEVELPLEDFKAKYCDSMGRPQRKMMSFQANPTEESISKFPDMGSLWVEFCDEPSVGVKTMKTFVIHIQEKNFQTGIFVYQNNITPSAMKLVPSIPPATIETFNEAALVVNITHHELVPKHIRLSSDEKRELLKRYRLKESQLPRIQRADPVALYLGLKRGEVVKIIRKSETSGRYASYRICM
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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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publication title Molecular basis of RNA-dependent RNA polymerase II activity.
pubmed doi rcsb
molecule tags Transferase/rna
molecule keywords RNA (5'-R(*UP*GP*AP*UP*UP*CP*UP*CP*UP*AP*UP*CP*GP*GP*AP*AP*U
total genus 45
structure length 214
sequence length 214
ec nomenclature
pdb deposition date 2007-09-12

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
E PF01191 RNA_pol_Rpb5_C RNA polymerase Rpb5, C-terminal domain
E PF03871 RNA_pol_Rpb5_N RNA polymerase Rpb5, N-terminal domain
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.40.1340.10 Alpha Beta 3-Layer(aba) Sandwich Dna-directed Rna Polymerases I, Ii, And Iii 27 Kd Polypeptide; Chain: A; domain 1 RNA polymerase, Rpb5, N-terminal domain 2r93E01
3.90.940.20 Alpha Beta Alpha-Beta Complex Eukaryotic RPB6 RNA polymerase subunit RPB5-like RNA polymerase subunit 2r93E02
1I3QE 2JA8E 3PO2E 5IYDE 5M5XE 4A3IE 4A3ME 3HKZH 3S1QE 3PO3E 4A3KE 2VUME 4C3HE 1TWHE 5M3FE 3I4ME 5C4XE 4C3JE 3RZDE 5IYBE 4QIWH 5C3EE 1TWGE 3S2HE 4X6AE 4A3BE 4A3FE 2R7ZE 3GTJE 3S14E 2R92E 3GTLE 2WB1H 2PMZH 3RZOE 1WCME 4BY1E 5M5YE 3S16E 3S17E 4C3IE 4A93E 3S1RE 5IP7E 2NVXE 1DZFA 4BXXE 3GTPE 2NVQE 3H0GE 2JA5E 3K7AE 4C2ME 3HOVE 3M3YE 3S2DE 3GTQE 1K83E 1R9TE 3GTOE 1SFOE 3HOWE 2R93E 4AYBH 3HOZE 5C44E 4BBSE 5FLME 3HOUE 3HOYE 4A3DE 4A3JE 3S1NE 3I4NE 1Y1WE 2JA7E 5M3ME 4A3GE 2WAQH 1TWAE 3FKIE 4BY7E 2E2HE 3S15E 2Y0SH 3H3VF 3GTME 5IYCE 2E2IE 1I6HE 3S1ME 2B63E 4BBRE 1Y1VE 2NVTE 4A3CE 1TWFE 1I50E 2JA6E 4A3EE 2E2JE 3CQZE 3GTKE 5FJ8E 2YU9E 5IP9E 1EIKA 2NVYE 5C4JE 3GTGE 3HOXE 3M4OE 4Y7NE 4A3LE 1TWCE 5M5WE 4Y52E
chains in the Genus database with same CATH superfamily
1I3QE 2JA8E 1YNNK 4OIPE 4Y52F 5M5XF 3PO2E 5IYDE 3S2DF 5M5XE 4A3FF 4A3JF 4A3IE 4A3ME 3HKZH 3S1QE 3PO3E 2VUMF 2NVYF 2WAQK 1R9TF 4A3KE 2VUME 4C3HE 1TWHE 5M3FE 3I4ME 5C4XE 5IYBF 4C3HF 4C3JE 3RZDF 1TWGF 3RZDE 5IYBE 4QIWH 2CW0E 5C3EE 4LJZE 1TWGE 3S2HE 4X6AE 1Y1WF 3WODE 4A3BE 4LLGE 3S1MF 3PO2F 1TWAF 4A3FE 2R7ZE 3PO3F 1Y1VF 3GTJE 3S14E 2R92E 2KRXA 5E18E 2NVTF 2R7ZF 3GTLE 2R92F 3S14F 2WB1H 3RZOF 4BY7F 2PMZH 3GTLF 2NVQF 3RZOE 3S1NF 3I4NF 5IPLE 1WCME 2E2IF 4BY1E 5M5YE 4OIRE 3S2HF 4X6AF 1SMYE 4XSXE 4A3GF 2B63F 3S16E 3S17E 3K7AF 4C3IE 3HKZK 3S17F 4A93E 4YFXE 3S1RE 3GTJF 2PPBE 5IP7E 2NVXE 4YFNE 4BBRF 2WB1I 2YU9F 2A68E 1DZFA 5IP7F 2NVXF 4BXXE 3GTPE 2NVQE 5D4EE 4MEXE 4BXXF 4GZYE 5IYCF 4YFKE 4XLNE 4KMUE 3H0GE 2JA5E 4A3EF 3K7AE 4Y7NF 4C2ME 3HOVF 3S16F 2BE5E 4XSZE 3HOVE 4QIWK 4A93F 1WCMF 5M5WF 2E2JF 4ZH4E 5D4DE 4A3CF 1I3QF 5IP9F 3M3YE 3S2DE 4MEYE 3GTQE 1K83E 5BYHE 3HOYF 1YNJK 2A6HE 1R9TE 3GTOF 5C4JF 4C2MF 1TWHF 5M3FF 3HOWF 3GTOE 4C3JF 1SFOE 4G7HE 3HOWE 2R93E 3CQZF 3GTKF 3HOZF 4AYBH 1SFOF 5TMFE 3HOZE 5C44E 4BBSE 3M3YF 5FLME 4A3IF 4A3MF 4OINE 2JA8F 2O5IE 3HOUE 3GTQF 4BBSF 5IYDF 3HOYE 4A3DE 3FKIF 4A3JE 3GTGF 4OIQE 3S1QF 1ZYRE 4A3KF 4A3LF 3S1NE 3I4NE 2JA7F 2PMZK 1Y1WE 2JA7E 5M3ME 1I6HF 5C3EF 4A3GE 3DXJE 4LK1E 5M3MF 4A3BF 2WAQH 4JK1E 3HOUF 1TWAE 3FKIE 4A3DF 4BY7E 2E2HE 4LK0E 3S15E 2Y0SH 4KN7E 4AYBK 2E2HF 3GTMF 3H3VF 3GTME 3S15F 5IYCE 2E2IE 4G7ZE 1I6HE 4C3IF 3S1ME 2A69E 1QKLA 5M5YF 4XLPE 4MQ9E 2A6EE 3S1RF 2B63E 1I6VE 5TMCE 1IW7E 4BBRE 3EQLE 1Y1VE 2NVTE 4OIOE 1TWFF 5E17E 4A3CE 1TWFE 2Y0SI 1I50E 4Q4ZE 4Q5SE 2JA6F 1I50F 2JA6E 4BY1F 3HOXF 3H3VG 5D4CE 3M4OF 1HQME 2O5JE 4A3EE 3H0GF 2E2JE 2JA5F 5FJ8F 3CQZE 3GTKE 2R93F 5FJ8E 4YG2E 2YU9E 5C44F 4KN4E 3GTPF 4G7OE 5FLMF 5IP9E 1EIKA 1K83F 2NVYE 5C4JE 3GTGE 3HOXE 3M4OE 4Y7NE 4A3LE 3I4MF 5C4XF 1TWCE 5M5WE 1TWCF 4Y52E
chains in the Genus database with same CATH topology
1I3QE 2JA8E 3PO2E 5IYDE 5M5XE 4A3IE 4A3ME 3HKZH 3S1QE 3PO3E 4A3KE 2VUME 4C3HE 1TWHE 5M3FE 3I4ME 5C4XE 4C3JE 3RZDE 5IYBE 4QIWH 5C3EE 1TWGE 3S2HE 4X6AE 4A3BE 4A3FE 2R7ZE 3GTJE 3S14E 2R92E 3GTLE 2WB1H 2PMZH 3RZOE 1WCME 4BY1E 5M5YE 3S16E 3S17E 4C3IE 4A93E 3S1RE 5IP7E 2NVXE 1DZFA 4BXXE 3GTPE 2NVQE 3H0GE 2JA5E 3K7AE 4C2ME 3HOVE 3M3YE 3S2DE 3GTQE 1K83E 1R9TE 3GTOE 1SFOE 3HOWE 2R93E 4AYBH 3HOZE 5C44E 4BBSE 5FLME 3HOUE 3HOYE 4A3DE 4A3JE 3S1NE 3I4NE 1Y1WE 2JA7E 5M3ME 4A3GE 2WAQH 1TWAE 3FKIE 4BY7E 2E2HE 3S15E 2Y0SH 3H3VF 3GTME 5IYCE 2E2IE 1I6HE 3S1ME 2B63E 4BBRE 1Y1VE 2NVTE 4A3CE 1TWFE 1I50E 2JA6E 4A3EE 2E2JE 3CQZE 3GTKE 5FJ8E 2YU9E 5IP9E 1EIKA 2NVYE 5C4JE 3GTGE 3HOXE 3M4OE 4Y7NE 4A3LE 1TWCE 5M5WE 4Y52E
chains in the Genus database with same CATH homology


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