3I4ME

8-oxoguanine containing rna polymerase ii elongation complex d
Total Genus 50
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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
50
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 Transcription,transferase/dna-rna hybrid
molecule keywords DNA-directed RNA polymerase II subunit RPB1
publication title Molecular basis of transcriptional mutagenesis at 8-oxoguanine
pubmed doi rcsb
total genus 50
structure length 214
sequence length 214
ec nomenclature
pdb deposition date 2009-07-02

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 3i4mE01
3.90.940.20 Alpha Beta Alpha-Beta Complex Eukaryotic RPB6 RNA polymerase subunit RPB5-like RNA polymerase subunit 3i4mE02
2JA5E 2NVQE 3RZDE 3H0GE 3GTJE 3CQZE 4A3FE 3S2HE 4X6AE 2JA8E 3S14E 3GTGE 3GTME 2PMZH 3GTLE 2NVYE 4A3BE 4A3JE 5IP7E 5C4JE 3HOUE 1K83E 4AYBH 3RZOE 1Y1VE 3S16E 3S2DE 5IYBE 5C3EE 3HKZH 2WB1H 5M3ME 5FJ8E 2E2IE 1TWFE 5FLME 1EIKA 4A3CE 1I3QE 5IYDE 1WCME 5IP9E 4A93E 3S17E 4A3KE 2E2JE 4BBRE 2Y0SH 4C3HE 2E2HE 1Y1WE 4BBSE 3M3YE 1TWHE 1TWGE 5C4XE 5M3FE 3HOZE 3PO2E 3S1QE 1TWCE 5M5YE 4BXXE 2R7ZE 4A3DE 3S15E 3PO3E 3HOVE 5IYCE 3I4ME 2JA7E 3GTOE 4BY1E 3GTPE 4A3GE 4C2ME 4C3JE 1TWAE 2NVTE 1DZFA 3GTQE 4A3ME 2B63E 2R92E 1R9TE 5M5WE 4A3IE 1I50E 2WAQH 2NVXE 3M4OE 1SFOE 3GTKE 3I4NE 4Y7NE 4C3IE 4Y52E 2JA6E 4QIWH 5C44E 2R93E 2VUME 3HOXE 3HOWE 3K7AE 3H3VF 3S1NE 1I6HE 4A3LE 2YU9E 3FKIE 3S1RE 4BY7E 4A3EE 3S1ME 5M5XE 3HOYE
chains in the Genus database with same CATH superfamily
2JA5E 2NVQE 3M3YF 1TWHF 3RZDE 3H0GE 3GTJE 3DXJE 5C3EF 4JK1E 3CQZE 4A3FE 5M3FF 3S2HE 4X6AE 4KN7E 4OIPE 3HOZF 2JA8E 2BE5E 3S1QF 3S14E 1TWCF 5M3MF 2E2IF 5M5YF 3GTGE 3GTME 1TWFF 2PMZH 2O5IE 4BXXF 2R7ZF 4A3DF 3GTLE 2NVYE 4A3BE 1SMYE 3S15F 4A3JE 5IP7E 3I4MF 5C4JE 4QIWK 3HOUE 1K83E 4AYBH 2A6HE 3RZOE 1YNJK 1Y1VE 1WCMF 4LLGE 4LK0E 3S16E 3S2DE 4BY1F 4A3GF 5IYBE 4C2MF 4KMUE 4A93F 1TWAF 3S17F 3GTQF 5C3EE 4BBRF 3HKZH 2WB1H 4BBSF 2R92F 5M3ME 5FJ8E 2E2IE 2WAQK 1TWFE 5E18E 4GZYE 5FLME 1TWGF 5C4XF 1EIKA 4A3CE 2NVXF 3PO2F 4ZH4E 1I3QE 2PMZK 4LK1E 3GTKF 5IYDE 1WCME 3PO3F 5IP9E 3HOVF 5IYCF 4Y52F 1YNNK 2JA6F 5C44F 5D4EE 4A93E 3S17E 4A3KE 2E2JE 4BBRE 2Y0SH 4C3HE 2E2HE 1Y1WE 4BBSE 3K7AF 4YFNE 1I6HF 2A6EE 2JA7F 1IW7E 3GTPF 3S1NF 3M3YE 3FKIF 4OIQE 3S1RF 4C3JF 1TWHE 4Q4ZE 5D4DE 2NVTF 5TMFE 1TWGE 4A3MF 5C4XE 3HKZK 5M5XF 2B63F 5M3FE 3HOYF 3HOZE 3PO2E 3S1QE 4YFXE 1TWCE 2NVQF 5M5YE 1HQME 4BXXE 5M5WF 3EQLE 1R9TF 4A3IF 1I50F 2R7ZE 4A3DE 3H0GF 3S15E 3PO3E 1ZYRE 3HOVE 3CQZF 5IYCE 4XLNE 3I4ME 4XSZE 3H3VG 3M4OF 3S2HF 2JA8F 2WB1I 3S14F 1SFOF 4YFKE 3GTMF 5BYHE 5IPLE 3GTOF 3I4NF 4Y7NF 5D4CE 2JA7E 3GTOE 4A3JF 4C3IF 4BY1E 3GTPE 4A3GE 4OIOE 3HOUF 4AYBK 2VUMF 3HOXF 2R93F 2O5JE 4C2ME 4C3JE 3HOWF 1TWAE 2NVTE 1DZFA 3GTQE 4A3ME 2B63E 1Y1VF 4MQ9E 4XSXE 4XLPE 4A3LF 4OINE 2R92E 4MEYE 2YU9F 4YG2E 1R9TE 4BY7F 5IYBF 5M5WE 4A3EF 5E17E 4A3IE 1I50E 2WAQH 1QKLA 2CW0E 5TMCE 3S1MF 4G7ZE 2NVXE 3M4OE 2Y0SI 2JA5F 1SFOE 5FJ8F 4G7OE 4MEXE 3GTKE 3RZDF 3GTJF 3I4NE 2A68E 4Y7NE 5FLMF 4A3FF 4A3CF 4X6AF 4C3IE 4Y52E 2JA6E 1I6VE 4QIWH 5C44E 2R93E 2VUME 3HOXE 1I3QF 2A69E 3GTGF 3HOWE 2KRXA 4Q5SE 4OIRE 3GTLF 2NVYF 4KN4E 5IYDF 3K7AE 3H3VF 5IP9F 3S1NE 1I6HE 4A3BF 4A3LE 5IP7F 2PPBE 5C4JF 1K83F 2YU9E 3FKIE 3S1RE 4BY7E 4A3EE 3RZOF 4A3KF 2E2JF 3S1ME 5M5XE 3HOYE 4LJZE 3WODE 4C3HF 4G7HE 1Y1WF 2E2HF 3S16F 3S2DF
chains in the Genus database with same CATH topology
2JA5E 2NVQE 3RZDE 3H0GE 3GTJE 3CQZE 4A3FE 3S2HE 4X6AE 2JA8E 3S14E 3GTGE 3GTME 2PMZH 3GTLE 2NVYE 4A3BE 4A3JE 5IP7E 5C4JE 3HOUE 1K83E 4AYBH 3RZOE 1Y1VE 3S16E 3S2DE 5IYBE 5C3EE 3HKZH 2WB1H 5M3ME 5FJ8E 2E2IE 1TWFE 5FLME 1EIKA 4A3CE 1I3QE 5IYDE 1WCME 5IP9E 4A93E 3S17E 4A3KE 2E2JE 4BBRE 2Y0SH 4C3HE 2E2HE 1Y1WE 4BBSE 3M3YE 1TWHE 1TWGE 5C4XE 5M3FE 3HOZE 3PO2E 3S1QE 1TWCE 5M5YE 4BXXE 2R7ZE 4A3DE 3S15E 3PO3E 3HOVE 5IYCE 3I4ME 2JA7E 3GTOE 4BY1E 3GTPE 4A3GE 4C2ME 4C3JE 1TWAE 2NVTE 1DZFA 3GTQE 4A3ME 2B63E 2R92E 1R9TE 5M5WE 4A3IE 1I50E 2WAQH 2NVXE 3M4OE 1SFOE 3GTKE 3I4NE 4Y7NE 4C3IE 4Y52E 2JA6E 4QIWH 5C44E 2R93E 2VUME 3HOXE 3HOWE 3K7AE 3H3VF 3S1NE 1I6HE 4A3LE 2YU9E 3FKIE 3S1RE 4BY7E 4A3EE 3S1ME 5M5XE 3HOYE
chains in the Genus database with same CATH homology


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