1I6HE

Rna polymerase ii elongation complex
Total Genus 54
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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
54
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 Structural basis of transcription: an RNA polymerase II elongation complex at 3.3 A resolution.
pubmed doi rcsb
source organism Saccharomyces cerevisiae
molecule tags Transcription/dna-rna hybrid
molecule keywords 5'-D(P*AP*AP*AP*TP*GP*CP*CP*TP*GP*GP*TP*CP*T)-3'
total genus 54
structure length 214
sequence length 214
ec nomenclature
pdb deposition date 2001-03-02

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 1i6hE01
3.90.940.20 Alpha Beta Alpha-Beta Complex Eukaryotic RPB6 RNA polymerase subunit RPB5-like RNA polymerase subunit 1i6hE02
4X6AE 2YU9E 2WB1H 5IP9E 3I4NE 3K7AE 4QIWH 1I6HE 3I4ME 2R92E 4Y52E 3HOZE 3S2HE 2E2IE 1DZFA 1TWAE 5C44E 4BXXE 4C2ME 4BBRE 3GTME 1TWGE 3S17E 4A3IE 3S1RE 2JA5E 4BY1E 3HKZH 2NVYE 5IYCE 1TWCE 4A3EE 3GTOE 1TWFE 4A3CE 3RZDE 3GTLE 5M5WE 4A3BE 2JA7E 2JA8E 3GTPE 1Y1WE 2WAQH 5C4JE 2R7ZE 4A93E 1TWHE 1SFOE 1I50E 4A3JE 5M3ME 3HOYE 3S15E 2JA6E 4Y7NE 3H0GE 4AYBH 4A3ME 3RZOE 3M4OE 3S1NE 4C3HE 3M3YE 1R9TE 5C4XE 2NVXE 4A3DE 3HOWE 1Y1VE 5IYBE 3GTKE 5M5YE 3S14E 4A3KE 3S2DE 3H3VF 3FKIE 5FLME 4A3FE 3HOUE 4C3JE 5M3FE 4C3IE 3S1QE 3GTGE 1I3QE 3PO2E 2R93E 4A3LE 3HOVE 3GTJE 1EIKA 2NVTE 1WCME 2E2HE 5IP7E 3PO3E 3CQZE 4BBSE 2Y0SH 5IYDE 5M5XE 3S16E 4A3GE 3S1ME 3GTQE 2PMZH 2B63E 2E2JE 2VUME 2NVQE 4BY7E 5C3EE 5FJ8E 3HOXE 1K83E
chains in the Genus database with same CATH superfamily
3PO2F 4A3MF 4MQ9E 4X6AE 2YU9E 2WB1H 5IP9E 4A3FF 4XLPE 5C44F 4A3IF 3I4NE 1QKLA 2E2IF 3S15F 3HOYF 3K7AE 4A93F 4QIWH 4KN4E 4KMUE 1I6HE 3I4ME 2R92E 4Y52E 1I50F 4YFNE 1YNJK 3HOZE 5M5WF 2A68E 3S2HE 3PO3F 4OIRE 2E2IE 4KN7E 5TMFE 1DZFA 1TWAE 5C44E 2WAQK 5IYDF 4BXXE 4C2ME 1WCMF 2R92F 4BBRE 4ZH4E 1I6HF 3GTME 1TWGE 3S17E 3M3YF 3GTKF 3S1NF 4A3LF 3M4OF 4A3IE 3S1RE 3DXJE 2JA5E 2NVXF 3GTGF 4BY1E 2E2JF 2VUMF 1TWGF 3S17F 3HKZH 2NVYE 4XSZE 5C3EF 4MEXE 4OIQE 1IW7E 2BE5E 5IYCE 1TWCE 4A3EE 3GTOE 2R7ZF 3S1QF 1TWFE 4A3CE 3RZDE 3GTLE 3GTMF 5M5WE 4A3JF 3S2DF 4YFXE 4A3BE 2JA7E 4C3JF 2JA8F 2JA8E 3GTPE 2JA7F 3GTPF 3HOUF 1Y1WE 1TWAF 2WAQH 5C4JE 3CQZF 2R7ZE 4A93E 3GTOF 1TWHE 3I4NF 1SFOE 4Q5SE 3HOZF 1I50E 2A69E 4Y52F 2Y0SI 4A3JE 3WODE 5M3ME 4C3HF 3HOYE 3S15E 4LLGE 2JA6E 4Y7NE 5IYCF 3H0GE 2E2HF 4A3DF 4AYBH 4XLNE 4A3ME 3RZOE 4QIWK 4YFKE 5D4CE 5IYBF 3M4OE 2NVQF 3S1NE 4C3HE 3M3YE 1R9TE 2CW0E 5D4EE 5C4XE 5FJ8F 4Q4ZE 2NVXE 3S1RF 4A3DE 4BXXF 3HOWE 3H0GF 1TWHF 3S1MF 3FKIF 1Y1VE 5IYBE 3GTKE 5M5YE 1Y1WF 5M3FF 3S14E 5E17E 4A3KE 1SFOF 3GTLF 3S2DE 1TWFF 2PMZK 3H3VF 4LK0E 4A3CF 3FKIE 2A6HE 5M5XF 5FLME 4GZYE 4A3FE 3HOUE 3EQLE 2PPBE 5TMCE 4C3JE 2YU9F 4A3BF 2NVYF 5M3FE 4C3IE 1K83F 3K7AF 3HOVF 3S1QE 1TWCF 3GTGE 4LJZE 1ZYRE 1YNNK 4A3EF 3HOWF 4JK1E 2WB1I 1I3QF 1I3QE 3PO2E 2R93E 4G7ZE 3HKZK 5C4XF 4Y7NF 4A3LE 1R9TF 3GTJF 3HOVE 3GTJE 4C3IF 5M3MF 4G7HE 3GTQF 2NVTE 1EIKA 1HQME 2JA5F 4BBRF 3RZOF 1WCME 2E2HE 5IP7E 4BY7F 5FLMF 4OINE 4A3GF 5D4DE 3PO3E 3CQZE 5C4JF 4G7OE 4BBSE 4MEYE 5E18E 3S14F 2Y0SH 4C2MF 5IYDE 3RZDF 5M5XE 5M5YF 3S16E 3S16F 4A3GE 3S1ME 4XSXE 4OIPE 3S2HF 4A3KF 5BYHE 3I4MF 4BBSF 2O5JE 1I6VE 3GTQE 2PMZH 2O5IE 4LK1E 2B63E 1Y1VF 2A6EE 2E2JE 2VUME 2NVQE 4BY1F 4BY7E 1SMYE 4YG2E 5IP9F 5IP7F 2R93F 4X6AF 5C3EE 4AYBK 5FJ8E 2KRXA 2NVTF 2JA6F 3HOXF 4OIOE 2B63F 3HOXE 1K83E 3H3VG 5IPLE
chains in the Genus database with same CATH topology
4X6AE 2YU9E 2WB1H 5IP9E 3I4NE 3K7AE 4QIWH 1I6HE 3I4ME 2R92E 4Y52E 3HOZE 3S2HE 2E2IE 1DZFA 1TWAE 5C44E 4BXXE 4C2ME 4BBRE 3GTME 1TWGE 3S17E 4A3IE 3S1RE 2JA5E 4BY1E 3HKZH 2NVYE 5IYCE 1TWCE 4A3EE 3GTOE 1TWFE 4A3CE 3RZDE 3GTLE 5M5WE 4A3BE 2JA7E 2JA8E 3GTPE 1Y1WE 2WAQH 5C4JE 2R7ZE 4A93E 1TWHE 1SFOE 1I50E 4A3JE 5M3ME 3HOYE 3S15E 2JA6E 4Y7NE 3H0GE 4AYBH 4A3ME 3RZOE 3M4OE 3S1NE 4C3HE 3M3YE 1R9TE 5C4XE 2NVXE 4A3DE 3HOWE 1Y1VE 5IYBE 3GTKE 5M5YE 3S14E 4A3KE 3S2DE 3H3VF 3FKIE 5FLME 4A3FE 3HOUE 4C3JE 5M3FE 4C3IE 3S1QE 3GTGE 1I3QE 3PO2E 2R93E 4A3LE 3HOVE 3GTJE 1EIKA 2NVTE 1WCME 2E2HE 5IP7E 3PO3E 3CQZE 4BBSE 2Y0SH 5IYDE 5M5XE 3S16E 4A3GE 3S1ME 3GTQE 2PMZH 2B63E 2E2JE 2VUME 2NVQE 4BY7E 5C3EE 5FJ8E 3HOXE 1K83E
chains in the Genus database with same CATH homology


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