2JA8E

Cpd lesion containing rna polymerase ii elongation complex d
Total Genus 44
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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
44
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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molecule tags Transferase
publication title Cpd Damage Recognition by Transcribing RNA Polymerase II.
pubmed doi rcsb
molecule keywords DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT
total genus 44
structure length 214
sequence length 214
ec nomenclature
pdb deposition date 2006-11-23

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 2ja8E01
3.90.940.20 Alpha Beta Alpha-Beta Complex Eukaryotic RPB6 RNA polymerase subunit RPB5-like RNA polymerase subunit 2ja8E02
1I50E 3S17E 3S1QE 4BXXE 3S1ME 3S2HE 3GTJE 5M5XE 1K83E 3H0GE 3HOYE 1R9TE 1TWAE 3S16E 4A3EE 5M5WE 3GTLE 2WB1H 4BY7E 1Y1WE 1TWHE 5C3EE 3HOUE 2Y0SH 1I6HE 3FKIE 5C4JE 5IP7E 4C2ME 4BBSE 2PMZH 2R7ZE 3PO3E 3RZDE 3GTPE 2VUME 1EIKA 2YU9E 4QIWH 5FLME 4Y7NE 1Y1VE 5IP9E 4A3ME 3CQZE 3GTQE 3PO2E 3M4OE 5FJ8E 1SFOE 2JA7E 4X6AE 4A3LE 4C3IE 3RZOE 3M3YE 5C44E 1I3QE 1TWCE 2JA6E 4AYBH 1TWGE 4A3IE 3HOZE 4A3BE 4C3HE 2NVTE 5C4XE 3I4NE 5M5YE 3S1NE 3HOVE 4A3GE 3GTME 3I4ME 4A3DE 2E2JE 2NVQE 2R92E 4A3JE 3HOWE 5M3ME 4BY1E 4BBRE 5IYCE 2WAQH 4Y52E 2NVYE 2JA5E 2E2HE 2B63E 3K7AE 2NVXE 4C3JE 2R93E 3S14E 3GTGE 3HKZH 5M3FE 1DZFA 3H3VF 2E2IE 3S1RE 3S15E 3HOXE 1WCME 3GTOE 4A3FE 5IYBE 4A93E 3GTKE 3S2DE 1TWFE 2JA8E 5IYDE 4A3KE 4A3CE
chains in the Genus database with same CATH superfamily
4A3JF 2A6EE 4BY1F 2CW0E 4BBRF 5M3MF 1I50E 3S17E 3WODE 4Q4ZE 3PO2F 3S1QE 3M4OF 4OIPE 4BXXE 5FJ8F 3S1ME 1SFOF 2JA7F 2NVYF 3S2HE 4X6AF 4A3LF 4C3IF 2E2HF 3GTJE 3K7AF 4MQ9E 5M5XE 3RZOF 1K83E 3H0GE 3HOYE 5C44F 3M3YF 1I3QF 2PPBE 2R93F 1TWGF 1R9TE 1TWAE 4XLPE 3S16E 4A3EE 4C3HF 4A3IF 4A3BF 4ZH4E 1YNNK 5M3FF 3I4NF 5BYHE 5M5WE 5M5YF 3GTLE 2WB1H 4BY7E 3S1RF 3S1NF 1Y1WE 3HOVF 3DXJE 4A3GF 4OIOE 4G7OE 2WB1I 1TWHE 5C3EE 3GTKF 2E2JF 4Q5SE 4G7ZE 3HOUE 2NVQF 2R92F 3HOWF 3S2DF 2Y0SH 1I6HE 5IYCF 4LK1E 3FKIE 5C4JE 5TMFE 4A3KF 4YFKE 2JA8F 5IP7E 4C2ME 4BBSE 2PMZH 2Y0SI 2R7ZE 3PO3E 2PMZK 3RZDE 3GTPE 2VUME 4OIQE 4A3CF 4Y52F 1EIKA 2YU9E 4QIWH 2JA5F 5IPLE 5TMCE 5FLME 1I50F 4QIWK 5E17E 4Y7NE 1Y1VE 5IP9E 2B63F 4A3ME 2NVXF 3CQZE 4C3JF 3GTQE 3S14F 4BXXF 3GTGF 1YNJK 5D4DE 3H3VG 3S2HF 3GTJF 5M5XF 1K83F 2KRXA 2E2IF 3PO2E 3S15F 2O5JE 3M4OE 4YFXE 5FJ8E 1SFOE 2JA7E 4YFNE 3HOXF 1R9TF 4X6AE 4A3LE 4C3IE 1WCMF 1IW7E 4A3FF 5IYBF 3GTOF 3RZOE 4A93F 3M3YE 5C44E 4YG2E 1I3QE 1TWCE 2JA6E 4AYBH 1TWGE 4A3IE 3HOZE 4A3BE 4C3HE 2NVTE 1TWFF 5C4XE 4AYBK 5IYDF 1SMYE 1ZYRE 4KMUE 3I4NE 1I6VE 5C3EF 5M5YE 4LK0E 3S1NE 3HOUF 4KN7E 3HOVE 4A3GE 3S17F 5C4JF 3GTME 4BBSF 3S1QF 3I4ME 3RZDF 4A3DE 3GTPF 3S1MF 2E2JE 2NVQE 2R92E 4A3JE 3HOWE 4XSXE 5M3ME 4BY1E 4BBRE 4GZYE 5IYCE 4A3MF 2A68E 3H0GF 3HOYF 3GTQF 2WAQH 1TWAF 3S16F 4Y52E 2NVYE 2WAQK 2JA5E 4A3EF 2E2HE 2B63E 3K7AE 4OIRE 2NVXE 5M5WF 4LLGE 4C3JE 3GTLF 4BY7F 2BE5E 2R93E 3S14E 1Y1WF 3GTGE 2A69E 3EQLE 3HKZH 4LJZE 1HQME 3HKZK 1TWHF 5M3FE 5D4CE 4OINE 1DZFA 3H3VF 2E2IE 4XSZE 1TWCF 4MEXE 4XLNE 2JA6F 3S1RE 3S15E 2O5IE 3HOXE 1I6HF 3HOZF 2NVTF 3FKIF 4G7HE 5C4XF 5IP7F 4C2MF 1WCME 3GTOE 4A3FE 5IYBE 4KN4E 4MEYE 4A93E 2VUMF 3GTKE 2R7ZF 1QKLA 3PO3F 3S2DE 2YU9F 2A6HE 5D4EE 5E18E 5FLMF 4JK1E 1TWFE 1Y1VF 5IP9F 4Y7NF 2JA8E 3GTMF 5IYDE 4A3KE 3CQZF 3I4MF 4A3DF 4A3CE
chains in the Genus database with same CATH topology
1I50E 3S17E 3S1QE 4BXXE 3S1ME 3S2HE 3GTJE 5M5XE 1K83E 3H0GE 3HOYE 1R9TE 1TWAE 3S16E 4A3EE 5M5WE 3GTLE 2WB1H 4BY7E 1Y1WE 1TWHE 5C3EE 3HOUE 2Y0SH 1I6HE 3FKIE 5C4JE 5IP7E 4C2ME 4BBSE 2PMZH 2R7ZE 3PO3E 3RZDE 3GTPE 2VUME 1EIKA 2YU9E 4QIWH 5FLME 4Y7NE 1Y1VE 5IP9E 4A3ME 3CQZE 3GTQE 3PO2E 3M4OE 5FJ8E 1SFOE 2JA7E 4X6AE 4A3LE 4C3IE 3RZOE 3M3YE 5C44E 1I3QE 1TWCE 2JA6E 4AYBH 1TWGE 4A3IE 3HOZE 4A3BE 4C3HE 2NVTE 5C4XE 3I4NE 5M5YE 3S1NE 3HOVE 4A3GE 3GTME 3I4ME 4A3DE 2E2JE 2NVQE 2R92E 4A3JE 3HOWE 5M3ME 4BY1E 4BBRE 5IYCE 2WAQH 4Y52E 2NVYE 2JA5E 2E2HE 2B63E 3K7AE 2NVXE 4C3JE 2R93E 3S14E 3GTGE 3HKZH 5M3FE 1DZFA 3H3VF 2E2IE 3S1RE 3S15E 3HOXE 1WCME 3GTOE 4A3FE 5IYBE 4A93E 3GTKE 3S2DE 1TWFE 2JA8E 5IYDE 4A3KE 4A3CE
chains in the Genus database with same CATH homology


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