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
|
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.
After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.
| publication title |
Structural basis of transcription: role of the trigger loop in substrate specificity and catalysis
pubmed doi rcsb |
| molecule keywords |
DNA-directed RNA polymerase II largest subunit
|
| molecule tags |
Transcription
|
| total genus |
66
|
| structure length |
215
|
| sequence length |
215
|
| ec nomenclature | |
| pdb deposition date | 2006-11-13 |
| 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
| Class | Architecture | Topology | Homology | Domain |
|---|---|---|---|---|---|
| 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 | ||
| Alpha Beta | Alpha-Beta Complex | Eukaryotic RPB6 RNA polymerase subunit | RPB5-like RNA polymerase subunit |
#chains in the Genus database with same CATH superfamily 3S2D E; 2JA7 E; 3S17 E; 5IYB E; 5M5X E; 3HOY E; 4C3I E; 2E2J E; 2E2H E; 4BBS E; 4A3C E; 5M5W E; 3GTQ E; 3I4N E; 5FJ8 E; 1TWH E; 1I6H E; 4Y52 E; 4A3E E; 1TWC E; 4A3G E; 2NVQ E; 3S1N E; 5C3E E; 2E2I E; 4A3D E; 3GTL E; 1SFO E; 3HOV E; 2R93 E; 1I50 E; 2NVT E; 1Y1W E; 3M3Y E; 3S16 E; 5IYD E; 3PO3 E; 2Y0S H; 5C44 E; 3HKZ H; 3GTM E; 4C2M E; 3M4O E; 2NVX E; 4A3B E; 2JA8 E; 4X6A E; 4A3L E; 1Y1V E; 2JA5 E; 3GTO E; 3S1Q E; 3PO2 E; 3S1R E; 2VUM E; 3HOZ E; 4BY7 E; 4A3I E; 3FKI E; 2B63 E; 1TWG E; 1TWA E; 3S2H E; 3I4M E; 3HOX E; 5M5Y E; 5M3M E; 4AYB H; 4A3M E; 5C4J E; 3H3V F; 1EIK A; 4A3K E; 4A93 E; 1K83 E; 3HOU E; 2WAQ H; 5IP9 E; 5IYC E; 3S15 E; 1I3Q E; 4Y7N E; 3RZD E; 2R92 E; 4BXX E; 5C4X E; 3S14 E; 2PMZ H; 3HOW E; 3RZO E; 3GTP E; 3GTJ E; 3S1M E; 4QIW H; 2YU9 E; 1TWF E; 4C3H E; 2R7Z E; 4A3F E; 1WCM E; 3K7A E; 3H0G E; 3CQZ E; 4C3J E; 1DZF A; 2WB1 H; 5IP7 E; 3GTK E; 2NVY E; 5FLM E; 3GTG E; 4BBR E; 5M3F E; 4BY1 E; 2JA6 E; 1R9T E; 4A3J E; #chains in the Genus database with same CATH topology 1R9T F; 3S2D E; 4OIQ E; 3H3V G; 1TWH F; 4A3J F; 3S2D F; 2O5J E; 3GTJ F; 5E17 E; 1YNJ K; 4YG2 E; 1TWF F; 2A6H E; 2JA7 E; 3S17 E; 5IYB E; 2R7Z F; 5M5X E; 2O5I E; 3HOY E; 4C3I E; 4A3F F; 4OIR E; 2JA7 F; 5M5X F; 2E2J E; 1WCM F; 3HOY F; 2E2H E; 4BBS E; 4A3C E; 5M5W E; 3GTQ E; 3I4N E; 5FJ8 E; 1TWH E; 4Q5S E; 4YFN E; 3CQZ F; 4AYB K; 4A3C F; 5M5W F; 5TMC E; 1I6H E; 3I4N F; 4Y52 E; 4A3E E; 3GTK F; 1TWC E; 1YNN K; 5D4D E; 4A3G E; 2WAQ K; 2NVQ E; 3S1N E; 5C3E E; 2E2I E; 1TWC F; 4XSX E; 3WOD E; 4A3E F; 4A3D E; 1ZYR E; 5FLM F; 2NVQ F; 5C3E F; 2E2I F; 3S1N F; 3GTG F; 4A3D F; 2JA6 F; 3GTL E; 1SFO E; 3HOV E; 2R93 E; 2CW0 E; 5TMF E; 2PMZ K; 4XSZ E; 3GTL F; 3HOV F; 1I50 E; 2NVT E; 1Y1W E; 3M3Y E; 3S16 E; 4KN7 E; 5IYD E; 4QIW K; 4KN4 E; 3PO3 E; 2Y0S H; 5C44 E; 1Y1W F; 3S16 F; 3HKZ H; 3PO3 F; 3GTM E; 3S17 F; 5IYB F; 3S14 F; 2WB1 I; 4C2M E; 3M4O E; 2NVX E; 4C3I F; 4A3B E; 2JA8 E; 4KMU E; 4X6A E; 3M4O F; 2E2J F; 4A3L E; 5IPL E; 4YFK E; 2E2H F; 4BBS F; 3GTQ F; 5FJ8 F; 1Y1V E; 2JA5 E; 3GTO E; 4Q4Z E; 3S1Q E; 3PO2 E; 1I6H F; 3S1R E; 1Y1V F; 4Y52 F; 2A69 E; 4OIN E; 2VUM E; 3HOZ E; 4BY7 E; 4BBR F; 1IW7 E; 4A3I E; 3FKI E; 4A3G F; 2B63 E; 4A3I F; 4LJZ E; 4YFX E; 5D4C E; 5C4X F; 4ZH4 E; 1TWG E; 1SFO F; 4G7Z E; 2R93 F; 1TWA E; 3S2H E; 1I50 F; 3I4M E; 1TWA F; 3HOX E; 5M5Y E; 5M3M E; 4AYB H; 2PPB E; 2NVT F; 4A3M E; 5IYD F; 5C4J E; 3M3Y F; 3H3V F; 5M5Y F; 4A3K E; 5C44 F; 4A93 E; 1K83 E; 4A3M F; 3DXJ E; 2BE5 E; 4MQ9 E; 1EIK A; 3GTM F; 3HOU E; 2WAQ H; 4A93 F; 1K83 F; 4LK0 E; 5IP9 E; 4C2M F; 2NVX F; 4A3B F; 5IYC E; 3S15 E; 1I3Q E; 4Y7N E; 3RZD E; 5IP9 F; 4G7H E; 2JA8 F; 4X6A F; 2R92 E; 4A3L F; 1QKL A; 1HQM E; 5IYC F; 3S15 F; 4BXX E; 5C4X E; 3S14 E; 2PMZ H; 2JA5 F; 3GTO F; 3HOW E; 5E18 E; 4LK1 E; 3S1Q F; 3PO2 F; 4MEY E; 3RZO E; 3S1R F; 3GTP E; 3GTJ E; 3S1M E; 1I6V E; 2YU9 E; 4JK1 E; 4LLG E; 4QIW H; 4MEX E; 4BY7 F; 2VUM F; 3HOZ F; 1TWF E; 4C3H E; 3GTP F; 3FKI F; 2YU9 F; 3S1M F; 2B63 F; 3RZO F; 2R7Z E; 2Y0S I; 4C3H F; 4A3F E; 2A6E E; 1TWG F; 4BXX F; 1WCM E; 3K7A E; 5BYH E; 4XLP E; 5D4E E; 3S2H F; 3K7A F; 2A68 E; 3H0G E; 3CQZ E; 3I4M F; 3HOX F; 4C3J E; 5M3M F; 1DZF A; 3H0G F; 2KRX A; 5C4J F; 2WB1 H; 4C3J F; 3HKZ K; 5IP7 E; 3GTK E; 4OIP E; 4A3K F; 4G7O E; 4OIO E; 2NVY E; 5M3F F; 3HOU F; 5IP7 F; 3EQL E; 3HOW F; 2NVY F; 5FLM E; 3GTG E; 4BBR E; 5M3F E; 4BY1 E; 2JA6 E; 1I3Q F; 1SMY E; 4Y7N F; 3RZD F; 4GZY E; 1R9T E; 2R92 F; 4BY1 F; 4XLN E; 4A3J E; #chains in the Genus database with same CATH homology 3S2D E; 2JA7 E; 3S17 E; 5IYB E; 5M5X E; 3HOY E; 4C3I E; 2E2J E; 2E2H E; 4BBS E; 4A3C E; 5M5W E; 3GTQ E; 3I4N E; 5FJ8 E; 1TWH E; 1I6H E; 4Y52 E; 4A3E E; 1TWC E; 4A3G E; 2NVQ E; 3S1N E; 5C3E E; 2E2I E; 4A3D E; 3GTL E; 1SFO E; 3HOV E; 2R93 E; 1I50 E; 2NVT E; 1Y1W E; 3M3Y E; 3S16 E; 5IYD E; 3PO3 E; 2Y0S H; 5C44 E; 3HKZ H; 3GTM E; 4C2M E; 3M4O E; 2NVX E; 4A3B E; 2JA8 E; 4X6A E; 4A3L E; 1Y1V E; 2JA5 E; 3GTO E; 3S1Q E; 3PO2 E; 3S1R E; 2VUM E; 3HOZ E; 4BY7 E; 4A3I E; 3FKI E; 2B63 E; 1TWG E; 1TWA E; 3S2H E; 3I4M E; 3HOX E; 5M5Y E; 5M3M E; 4AYB H; 4A3M E; 5C4J E; 3H3V F; 1EIK A; 4A3K E; 4A93 E; 1K83 E; 3HOU E; 2WAQ H; 5IP9 E; 5IYC E; 3S15 E; 1I3Q E; 4Y7N E; 3RZD E; 2R92 E; 4BXX E; 5C4X E; 3S14 E; 2PMZ H; 3HOW E; 3RZO E; 3GTP E; 3GTJ E; 3S1M E; 4QIW H; 2YU9 E; 1TWF E; 4C3H E; 2R7Z E; 4A3F E; 1WCM E; 3K7A E; 3H0G E; 3CQZ E; 4C3J E; 1DZF A; 2WB1 H; 5IP7 E; 3GTK E; 2NVY E; 5FLM E; 3GTG E; 4BBR E; 5M3F E; 4BY1 E; 2JA6 E; 1R9T E; 4A3J E;
#similar chains in the Genus database (?% sequence similarity) ...loading similar chains, please wait... #similar chains, but unknotted ...loading similar chains, please wait... #similar chains in the pdb database (?% sequence similarity) ...loading similar chains, please wait...
