2JA6E

Cpd lesion containing rna polymerase ii elongation complex b
Total Genus 43
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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
43
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
molecule keywords DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT
publication title CPD damage recognition by transcribing RNA polymerase II.
pubmed doi rcsb
total genus 43
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 2ja6E01
3.90.940.20 Alpha Beta Alpha-Beta Complex Eukaryotic RPB6 RNA polymerase subunit RPB5-like RNA polymerase subunit 2ja6E02
1TWAE 3I4ME 4X6AE 4Y7NE 5FJ8E 5IYCE 3M3YE 2R92E 3CQZE 2WB1H 4BY7E 5C3EE 3GTLE 4A3LE 4BXXE 2B63E 1SFOE 4QIWH 3H0GE 3HOYE 2YU9E 4BBRE 3HOUE 5M3ME 4A3CE 5C44E 3K7AE 3S15E 1WCME 1Y1VE 3GTKE 5IYBE 1R9TE 4C3IE 2JA8E 4AYBH 2JA7E 2NVQE 5IYDE 4Y52E 3S17E 1TWHE 3PO2E 5C4JE 5M5YE 4A93E 4C3HE 3I4NE 4BBSE 3HKZH 2NVTE 1EIKA 5M5XE 5IP7E 4A3KE 4A3BE 2E2IE 1TWGE 3HOVE 2NVYE 3GTOE 4A3FE 3S2HE 3S1QE 3HOXE 2WAQH 5M3FE 4A3DE 3RZOE 4A3JE 1I50E 4A3GE 4A3EE 2JA6E 1K83E 1I3QE 3S1ME 3GTGE 3S1NE 3GTME 3M4OE 5FLME 3GTJE 3GTQE 2Y0SH 3GTPE 3S1RE 4BY1E 5C4XE 3S14E 3PO3E 5M5WE 4C3JE 4A3ME 1TWCE 1DZFA 1TWFE 3HOWE 3H3VF 1Y1WE 2VUME 1I6HE 4A3IE 4C2ME 3S2DE 2R93E 2PMZH 2E2JE 2JA5E 3S16E 3HOZE 2E2HE 5IP9E 3RZDE 3FKIE 2NVXE 2R7ZE
chains in the Genus database with same CATH superfamily
3S1NF 3M4OF 1TWAE 1IW7E 4ZH4E 4C3HF 3I4ME 4X6AE 4XLNE 4Y7NE 3GTJF 5FJ8E 3GTQF 5IYCE 2Y0SI 3M3YE 3S1RF 4BBSF 5C4XF 4KN4E 2R92E 1SMYE 3CQZE 4AYBK 5M5XF 4C3JF 2WB1H 4BY7E 5C3EE 4A3KF 4A3BF 3GTLE 4A3LE 4BXXE 1TWGF 2E2IF 2B63E 3HOWF 2VUMF 1SFOE 3S1QF 4XSZE 3HOXF 4QIWH 4A3DF 4A3JF 5IPLE 1I50F 3HKZK 4LLGE 3H0GE 3PO2F 3HOYE 4A3GF 2YU9E 5D4DE 5E17E 4A3EF 1K83F 4BBRE 3HOUE 5M3ME 3S16F 4A3CE 3HOZF 5C44E 3K7AE 3S15E 3GTMF 1WCME 1ZYRE 2WAQK 5FLMF 4OIPE 5D4EE 3H3VG 3RZDF 1Y1VE 3GTKE 3GTPF 4BY1F 2CW0E 5TMCE 3S14F 5IYBE 1R9TE 4C3IE 2JA8E 3PO3F 1YNJK 2JA7E 2NVQE 5IYDE 4Y52E 3S17E 4AYBH 1TWHE 3PO2E 5M5WF 2R7ZF 5C4JE 5M5YE 4A93E 2A68E 4A3MF 4C3HE 4X6AF 3WODE 1TWCF 1TWFF 5IYCF 3I4NE 4MEYE 3M3YF 4BBSE 2BE5E 1Y1WF 2R92F 4KN7E 1I6HF 3HKZH 2NVTE 4A3IF 1EIKA 5M5XE 5IP7E 4C2MF 4BY7F 2PPBE 3S2DF 5C3EF 1YNNK 4A3KE 4A3BE 2R93F 4BXXF 2E2IE 1TWGE 3HOVE 2NVYE 3GTOE 4YG2E 5TMFE 2E2JF 4Q5SE 2JA5F 4LJZE 2A6EE 4A3FE 5E18E 3S2HE 3S1QE 3HOXE 2WAQH 5M3FE 2E2HF 4A3DE 3RZOE 4A3JE 5IP9F 4OIRE 2O5IE 4Q4ZE 1I50E 4XLPE 4JK1E 1I6VE 3FKIF 3HOYF 4A3GE 2YU9F 2PMZK 4A3EE 2JA6E 1K83E 3DXJE 1I3QE 5M3MF 3S1ME 4MEXE 4YFKE 3GTGE 2A6HE 5C44F 2NVXF 3RZOF 4KMUE 3S1NE 3GTME 3M4OE 1TWAF 3I4MF 5FLME 3GTJE 4Y7NF 3EQLE 3GTQE 5FJ8F 2Y0SH 3GTPE 1Y1VF 3S1RE 4BY1E 5C4XE 3S14E 4G7OE 1R9TF 3CQZF 4OINE 3PO3E 2JA7F 3S17F 5M5WE 1TWHF 4C3JE 2WB1I 5C4JF 4A93F 4G7ZE 3GTLF 4A3LF 4A3ME 4G7HE 2B63F 1TWCE 1DZFA 1TWFE 3HOWE 3H3VF 5BYHE 3I4NF 1Y1WE 2VUME 1SFOF 1I6HE 4OIOE 2A69E 4A3IE 4OIQE 2NVTF 2KRXA 5IP7F 4C2ME 3H0GF 3S2DE 2R93E 1HQME 2PMZH 4MQ9E 3HOVF 2NVYF 3GTOF 4BBRF 3HOUF 2E2JE 2JA5E 3S16E 3HOZE 4A3CF 4A3FF 4GZYE 3K7AF 4YFNE 3S2HF 3S15F 5D4CE 1WCMF 5M3FF 2E2HE 5IP9E 4QIWK 4LK1E 3RZDE 3GTKF 4YFXE 3FKIE 4XSXE 4LK0E 5IYBF 4C3IF 2JA6F 2JA8F 1I3QF 2O5JE 4Y52F 5IYDF 2NVQF 3GTGF 3S1MF 2NVXE 2R7ZE 1QKLA 5M5YF
chains in the Genus database with same CATH topology
1TWAE 3I4ME 4X6AE 4Y7NE 5FJ8E 5IYCE 3M3YE 2R92E 3CQZE 2WB1H 4BY7E 5C3EE 3GTLE 4A3LE 4BXXE 2B63E 1SFOE 4QIWH 3H0GE 3HOYE 2YU9E 4BBRE 3HOUE 5M3ME 4A3CE 5C44E 3K7AE 3S15E 1WCME 1Y1VE 3GTKE 5IYBE 1R9TE 4C3IE 2JA8E 4AYBH 2JA7E 2NVQE 5IYDE 4Y52E 3S17E 1TWHE 3PO2E 5C4JE 5M5YE 4A93E 4C3HE 3I4NE 4BBSE 3HKZH 2NVTE 1EIKA 5M5XE 5IP7E 4A3KE 4A3BE 2E2IE 1TWGE 3HOVE 2NVYE 3GTOE 4A3FE 3S2HE 3S1QE 3HOXE 2WAQH 5M3FE 4A3DE 3RZOE 4A3JE 1I50E 4A3GE 4A3EE 2JA6E 1K83E 1I3QE 3S1ME 3GTGE 3S1NE 3GTME 3M4OE 5FLME 3GTJE 3GTQE 2Y0SH 3GTPE 3S1RE 4BY1E 5C4XE 3S14E 3PO3E 5M5WE 4C3JE 4A3ME 1TWCE 1DZFA 1TWFE 3HOWE 3H3VF 1Y1WE 2VUME 1I6HE 4A3IE 4C2ME 3S2DE 2R93E 2PMZH 2E2JE 2JA5E 3S16E 3HOZE 2E2HE 5IP9E 3RZDE 3FKIE 2NVXE 2R7ZE
chains in the Genus database with same CATH homology


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