2NVYE

Rna polymerase ii form ii in 150 mm mn+2
Total Genus 66
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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
66
sequence length
215
structure length
215
Chain Sequence
MDQENERNISRLWRAFRTVKEMVKDRGYFITQEEVELPLEDFKAKYCDSMGRPQRKMMSFQANPTEESISKFPDMGSLWVEFCDEPSVGVKTMKTFVIHIQEKNFQTGIFVYQNNITPSAMKLVPSIPPATIETFNEAALVVNITHHELVPKHIRLSSDEKRELLKRYRLKESQLPRIQRADPVALYLGLKRGEVVKIIRKSETSGRYASYRICM
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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
molecule keywords DNA-directed RNA polymerase II largest subunit
publication title Structural basis of transcription: role of the trigger loop in substrate specificity and catalysis
pubmed doi rcsb
total genus 66
structure length 215
sequence length 215
ec nomenclature
pdb deposition date 2006-11-13

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 2nvyE01
3.90.940.20 Alpha Beta Alpha-Beta Complex Eukaryotic RPB6 RNA polymerase subunit RPB5-like RNA polymerase subunit 2nvyE02
5C44E 2R93E 4C3IE 1TWFE 4A93E 1I50E 3S1RE 3S1NE 4QIWH 1DZFA 4A3EE 3GTPE 5IYBE 2JA8E 4A3JE 1Y1WE 3GTGE 3H3VF 2R7ZE 5M5XE 5IP9E 3HOUE 5M3ME 2WB1H 4Y7NE 3HKZH 4C3HE 3S2HE 2PMZH 2E2IE 3HOZE 1Y1VE 3I4ME 3GTQE 5M3FE 2VUME 1I6HE 3S1QE 4A3IE 3GTJE 3RZDE 4C2ME 1TWGE 4X6AE 3HOYE 1TWHE 1R9TE 4A3LE 4A3FE 4A3DE 4BXXE 4BBSE 5C3EE 2JA5E 5C4XE 3S2DE 3HOWE 3H0GE 3S17E 1TWAE 3RZOE 2NVYE 3HOVE 5M5YE 4A3GE 3GTOE 3I4NE 1K83E 3M3YE 3S16E 2WAQH 1I3QE 3GTLE 2Y0SH 4A3KE 4Y52E 3HOXE 3CQZE 2YU9E 2NVTE 4A3ME 3K7AE 3PO3E 4BBRE 4AYBH 1SFOE 3S1ME 4BY7E 2R92E 3S14E 4C3JE 3PO2E 2E2HE 3M4OE 4BY1E 2E2JE 5M5WE 5IP7E 1TWCE 5IYCE 3GTME 5C4JE 2NVQE 1WCME 2JA7E 1EIKA 2NVXE 3FKIE 5FJ8E 4A3CE 3S15E 2JA6E 4A3BE 5FLME 3GTKE 2B63E 5IYDE
chains in the Genus database with same CATH superfamily
3S1RF 5C44E 2R93E 4KN7E 3EQLE 5M5WF 3S1NF 4C3IE 1TWFE 4A93E 2A6EE 4XLPE 4LK0E 1I50E 2Y0SI 3S1RE 4G7HE 2WAQK 4A3EF 5IYBF 2CW0E 2JA8F 4A3JF 3S1NE 2NVQF 4QIWH 1DZFA 4MEXE 3GTGF 1QKLA 2A6HE 4A3EE 3GTPE 2R7ZF 5M5XF 5IP9F 5IYBE 4ZH4E 5M3MF 2JA8E 4A3JE 1Y1WE 2A68E 3GTGE 4Q4ZE 3H3VF 4Y7NF 2R7ZE 5M5XE 5IP9E 3HOUE 4C3HF 5M3ME 2WB1H 4OIOE 2E2IF 1IW7E 1Y1VF 4KN4E 3WODE 3I4MF 3GTQF 5M3FF 4Y7NE 3HKZH 4C3HE 3S2HE 2VUMF 2PMZH 1I6HF 2E2IE 3HOZE 4XSXE 1Y1VE 3I4ME 3GTPF 3S1QF 4MEYE 4A3IF 3GTQE 5M3FE 4YFXE 3H3VG 1Y1WF 4YG2E 3GTJF 2A69E 2VUME 1TWGF 5TMFE 4JK1E 4KMUE 1I6HE 3HOYF 1TWHF 4A3LF 4X6AF 4A3FF 4A3DF 4BXXF 3S1QE 4BBSF 3HOUF 2O5IE 4A3IE 1I6VE 5C3EF 2JA5F 3GTJE 3RZDE 4C2ME 4LK1E 1TWGE 4XSZE 4X6AE 3HOYE 5C4XF 3S2DF 1TWHE 1R9TE 4A3LE 1YNNK 4A3FE 3H0GF 4A3DE 3HKZK 4BXXE 4BBSE 3S17F 1TWAF 3S2HF 4G7OE 3HOVF 5C3EE 2JA5E 5M5YF 4A3GF 3HOZF 5C4XE 3DXJE 3S2DE 3I4NF 3HOWE 1K83F 3M3YF 5D4CE 3H0GE 3S16F 3S17E 1TWAE 1I3QF 4QIWK 3GTLF 3RZOE 2NVYE 3HOVE 5M5YE 4A3KF 4A3GE 4Y52F 3HOXF 3CQZF 4LLGE 3GTOE 5IPLE 4LJZE 3I4NE 1K83E 3M3YE 4YFKE 2YU9F 2NVTF 3S16E 2WAQH 1EIKA 3K7AF 1I3QE 3RZDF 4BBRF 3GTLE 4C2MF 2Y0SH 2PPBE 3PO3F 4A3KE 1R9TF 4Y52E 1SFOF 3HOXE 4GZYE 3CQZE 2BE5E 3S1MF 5BYHE 2YU9E 2NVTE 4A3ME 4BY7F 2R92F 1HQME 3K7AE 1YNJK 3PO3E 4BBRE 3S14F 4C3JF 4YFNE 3PO2F 4AYBH 1SFOE 2E2HF 3M4OF 3HOWF 4G7ZE 4BY1F 3S1ME 2E2JF 2PMZK 3RZOF 2NVYF 4BY7E 2R92E 1ZYRE 1TWCF 5IP7F 3S14E 4C3JE 3PO2E 3GTOF 2E2HE 4OIQE 3M4OE 4BY1E 5IYCF 2E2JE 3GTMF 5C4JF 5M5WE 1WCMF 4OIPE 4OINE 2JA7F 5IP7E 1TWCE 2NVXF 3FKIF 5FJ8F 4A3CF 5E18E 2KRXA 4MQ9E 3S15F 2JA6F 4A3BF 1SMYE 5E17E 5D4EE 4A3MF 5IYCE 5TMCE 3GTME 5FLMF 3GTKF 5C4JE 2B63F 2NVQE 1WCME 2JA7E 4AYBK 2O5JE 2WB1I 2NVXE 5IYDF 3FKIE 5FJ8E 4A3CE 5C44F 5D4DE 4Q5SE 2R93F 3S15E 4OIRE 2JA6E 4A3BE 4C3IF 1TWFF 4A93F 5FLME 3GTKE 2B63E 4XLNE 1I50F 5IYDE
chains in the Genus database with same CATH topology
5C44E 2R93E 4C3IE 1TWFE 4A93E 1I50E 3S1RE 3S1NE 4QIWH 1DZFA 4A3EE 3GTPE 5IYBE 2JA8E 4A3JE 1Y1WE 3GTGE 3H3VF 2R7ZE 5M5XE 5IP9E 3HOUE 5M3ME 2WB1H 4Y7NE 3HKZH 4C3HE 3S2HE 2PMZH 2E2IE 3HOZE 1Y1VE 3I4ME 3GTQE 5M3FE 2VUME 1I6HE 3S1QE 4A3IE 3GTJE 3RZDE 4C2ME 1TWGE 4X6AE 3HOYE 1TWHE 1R9TE 4A3LE 4A3FE 4A3DE 4BXXE 4BBSE 5C3EE 2JA5E 5C4XE 3S2DE 3HOWE 3H0GE 3S17E 1TWAE 3RZOE 2NVYE 3HOVE 5M5YE 4A3GE 3GTOE 3I4NE 1K83E 3M3YE 3S16E 2WAQH 1I3QE 3GTLE 2Y0SH 4A3KE 4Y52E 3HOXE 3CQZE 2YU9E 2NVTE 4A3ME 3K7AE 3PO3E 4BBRE 4AYBH 1SFOE 3S1ME 4BY7E 2R92E 3S14E 4C3JE 3PO2E 2E2HE 3M4OE 4BY1E 2E2JE 5M5WE 5IP7E 1TWCE 5IYCE 3GTME 5C4JE 2NVQE 1WCME 2JA7E 1EIKA 2NVXE 3FKIE 5FJ8E 4A3CE 3S15E 2JA6E 4A3BE 5FLME 3GTKE 2B63E 5IYDE
chains in the Genus database with same CATH homology


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