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 |
219
|
structure length |
178
|
Chain Sequence |
VSTSTFQTRRRRLKKVEEEENAATLQLGQEFQLKQINHQGEEEELIALNLSEARLVIKEALVERRRAFKRSQKKTREKELESIDVLLEQTTGGNNKDLKNTMQYLTNFSRFRDQETVGAVIQLLKSTGLHPFEVAQLGSLACDTADEAKTLIPSLNNKISDDELERILKELSNLETLY
|
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: mismatch-specific fidelity mechanisms and paused RNA polymerase II with frayed RNA.
pubmed doi rcsb |
| molecule keywords |
DNA-directed RNA polymerase II subunit RPB1
|
| molecule tags |
Transcription,transferase/dna/rna hybrid
|
| total genus |
50
|
| structure length |
178
|
| sequence length |
219
|
| chains with identical sequence |
P
|
| ec nomenclature | |
| pdb deposition date | 2009-06-03 |
| chain | Pfam Accession Code | Pfam Family Identifier | Pfam Description |
|---|---|---|---|
| D | PF03874 | RNA_pol_Rpb4 | RNA polymerase Rpb4 |
Image from the rcsb pdb (www.rcsb.org)
cath code
| Class | Architecture | Topology | Homology | Domain |
|---|---|---|---|---|---|
| Mainly Alpha | Up-down Bundle | Growth Hormone; Chain: A; | Growth Hormone; Chain: A; |
#chains in the Genus database with same CATH superfamily 1Y14 A; 3PO3 D; 1Y1W D; 2VUM D; 4A3B D; 4A3M D; 4A3L D; 4A3K D; 3AYH A; 3HOV D; 4A93 D; 4BBS D; 4A3J D; 2JA5 D; 5C44 D; 2R93 D; 5FLM D; 3HOY D; 3FKI D; 5IYD D; 3PO2 D; 4BY7 D; 4A3D D; 3HOU D; 5C4X D; 3I4M D; 1WCM D; 2JA7 D; 2JA8 D; 2C35 A; 5IYC D; 4BY1 D; 4A3I D; 4A3E D; 3H3V E; 3HOW D; 3HOZ D; 4BXX D; 4A3F D; 5IP7 D; 4A3C D; 3HOX D; 1Y1V D; 2R7Z D; 5C3E D; 5IP9 D; 2JA6 D; 4A3G D; 5IYB D; 4BBR D; 2B63 D; 3I4N D; 2R92 D; 3H0G D; #chains in the Genus database with same CATH topology 3DI3 A; 4IU8 A; 5A2O A; 4A93 D; 4QIQ A; 1LKI A; 1JLI A; 2INT A; 4TPG A; 1SCF A; 4JRE A; 1WU3 I; 3HOU D; 1HGU A; 1ITF A; 4NI9 A; 5D71 A; 3QB7 A; 2D9Q A; 1QVN A; 4DKF A; 4OAA A; 3AYH A; 2JA5 D; 4D2D A; 3UX9 A; 4CNI C; 4NEJ A; 3HMX B; 4PS4 A; 3NPZ A; 4LRL A; 5IYD D; 4J05 A; 1IK0 A; 2C35 A; 1CSG A; 4XNI A; 1PW6 A; 4YBQ A; 1ITI A; 3O7Q A; 1IAR A; 4DKC A; 4A3G D; 1HZI A; 2Q98 A; 1FYH A; 3NCB A; 4NN6 A; 4U4T A; 4X51 A; 3D48 P; 1YKB A; 4DKE A; 3NCC A; 1HIJ A; 4IU9 A; 4EXN A; 2LMS A; 2LAG A; 3DLQ I; 5D58 A; 3INK C; 2R7Z D; 1Z92 A; 3EJJ A; 1BGD A; 1EXZ A; 3SE4 B; 4LDS A; 3BPN A; 5EQG A; 1RW5 A; 5FUC A; 4LEP A; 5EQI A; 4UVM A; 4APS A; 4GS7 A; 4FA8 E; 1INR A; 4ZWB A; 1M48 A; 3LB6 B; 5D22 A; 4EXP A; 1AX8 A; 2XUT A; 1HWH A; 1BP3 A; 3QB1 A; 1M4B A; 3PIW A; 1BGE A; 1V7N V; 3QWR B; 3L5X A; 4ZS7 A; 2R93 D; 3FKI D; 3EW3 A; 1Y6N L; 1ILK A; 5IP7 D; 1IL6 A; 3HOX D; 3OQ3 A; 3VA2 A; 2CYK A; 4XNJ A; 2E9W C; 1BUY A; 1FG9 A; 4IKY A; 5GXB A; 3UF5 A; 4A3K D; 5EQH A; 1EVS A; 4YUE C; 5D72 A; 1IJZ A; 3G6D A; 3WCY I; 1J7V L; 3WDO A; 1LK3 A; 3UEZ E; 4TPJ A; 2L3Y A; 3BPL A; 3N0P A; 4GBY A; 1Y1W D; 2VUM D; 1NBP A; 1ITL A; 1D9G A; 4A3L D; 4NEM A; 1KF9 A; 5FHX A; 1ITM A; 3LB6 A; 1PY2 A; 2B8Y A; 1WCM D; 2JA7 D; 4IKX A; 5KNH I; 1A7M A; 3QAZ A; 4NN7 A; 1Z7C A; 4IKV A; 1EER A; 4DOH A; 5C3E D; 2XQB A; 1AXI A; 3HHR A; 2ILK A; 3BES L; 1PVH B; 4NN5 A; 1CYL A; 3PO3 D; 1Y6K L; 2Y5Y A; 1CN4 C; 4Q65 A; 1HUW A; 1F6F A; 2O27 A; 3PIV A; 3PO2 D; 4A3D D; 4JA3 A; 4A3I D; 4A3F D; 3MZG A; 1BBN A; 1ETE A; 1GA3 A; 1HUL A; 5IYB D; 3B5K A; 3DUH C; 3IRH A; 4JR9 A; 4YDY I; 4BY7 D; 2OQP A; 3DGC L; 4IKZ A; 3D87 A; 2Q7N B; 1RHG A; 1ALU A; 2H24 A; 2L3O A; 2JA6 D; 2V8N A; 4ZW9 A; 1BCN A; 2R92 D; 3BPO A; 3H0G D; 5D70 A; 2O6I A; 2Q14 A; 4GRW A; 1M49 A; 4D2C A; 1AU1 A; 4A3J D; 1A22 A; 1EMR A; 1D9C A; 3D85 C; 2B8U A; 2Z3Q A; 1M4C A; 1CD9 A; 4PYP A; 3NCE A; 4O6K A; 1P9M B; 1LQS L; 4RS1 A; 4YPG C; 5FLM D; 5C4X D; 2JA8 D; 4A3C D; 5D59 A; 5TS9 A; 4D2B A; 4J4L C; 1RCB A; 5LQB A; 2ERJ D; 4A3M D; 1F45 B; 1CNT 1; 3DI2 A; 2HYM B; 3SE3 B; 3I4M D; 1EKU A; 1PW4 A; 3OG6 A; 4ZWC A; 2CFQ A; 2IL6 A; 4U4V A; 4GC0 A; 1HWG A; 3TGX B; 3HHC A; 4OH3 A; 2B63 D; 1IRL A; 5L6Y C; 1I1R B; 1M4R A; 3UF2 A; 1GNC A; 3HOY D; 2O26 A; 3Q1S I; 2Z3R A; 4BXX D; 1BGC A; 4TPH A; 3OG4 A; 3NCF A; 3G9V B; 1PGR A; 4W6V A; 3I4N D; 4A3B D; 3O7P A; 4I77 Z; 2B8X A; 2GMF A; 5C7X A; 4U4W A; 4YB9 D; 2KZ1 A; 4YQX A; 1PV6 A; 2B5I A; 1B5L A; 5D28 B; 1M47 A; 5IYC D; 1RFB A; 4BY1 D; 3HOW D; 3HOZ D; 1Y1V D; 4DKD A; 5A2N A; 1Y6M L; 4BBR D; 3L5W I; 2B91 A; 1M4A A; 5E4E A; 3HOV D; 5C44 D; 4Z5R D; 4O9H A; 2PSM A; 4WRL B; 1PV7 A; 4IKW A; 2D48 A; 1HIK A; 1VLK A; 5D6K A; 1Y14 A; 5C65 A; 4ZF7 A; 3N06 A; 2CFP A; 4BBS D; 4NKQ C; 1V7M V; 2B8Z A; 1N1F A; 4A3E D; 3H3V E; 3QT2 C; 2B90 A; 5IP9 D; 4MHL A; 4ZYR A; 4NI7 A; 3S9D A; 4GBZ A; #chains in the Genus database with same CATH homology 1I1R B; 3B5K A; 3QB1 A; 1M4R A; 1M4B A; 3DI3 A; 3PIW A; 3UF2 A; 1BGE A; 1V7N V; 3DUH C; 3QWR B; 3L5X A; 4A93 D; 3IRH A; 1LKI A; 1JLI A; 2INT A; 1GNC A; 4ZS7 A; 2R93 D; 1SCF A; 3HOY D; 2O26 A; 3FKI D; 3Q1S I; 4YDY I; 4BY7 D; 1WU3 I; 2Z3R A; 3EW3 A; 3HOU D; 1Y6N L; 2OQP A; 4BXX D; 1ILK A; 1BGC A; 3DGC L; 1HGU A; 3D87 A; 5IP7 D; 1IL6 A; 2Q7N B; 3HOX D; 3OG4 A; 3OQ3 A; 1ITF A; 1RHG A; 3NCF A; 1ALU A; 2H24 A; 3G9V B; 2L3O A; 3VA2 A; 4NI9 A; 2JA6 D; 1PGR A; 5D71 A; 2CYK A; 2E9W C; 3I4N D; 3QB7 A; 1BCN A; 2R92 D; 1BUY A; 3BPO A; 1FG9 A; 3H0G D; 5D70 A; 2D9Q A; 4A3B D; 2O6I A; 1QVN A; 2Q14 A; 4DKF A; 4I77 Z; 3UF5 A; 4A3K D; 2B8X A; 4GRW A; 2GMF A; 5C7X A; 3AYH A; 1M49 A; 1AU1 A; 4A3J D; 1EVS A; 2JA5 D; 1A22 A; 4YUE C; 5D72 A; 3UX9 A; 4NEJ A; 3HMX B; 4CNI C; 2KZ1 A; 4PS4 A; 1EMR A; 3NPZ A; 4LRL A; 4YQX A; 5IYD D; 1IJZ A; 1D9C A; 3D85 C; 3G6D A; 2B5I A; 3WCY I; 1B5L A; 1IK0 A; 5D28 B; 1J7V L; 1M47 A; 2C35 A; 1RFB A; 5IYC D; 1LK3 A; 4BY1 D; 3HOW D; 3HOZ D; 1CSG A; 3UEZ E; 1PW6 A; 1ITI A; 1Y1V D; 2L3Y A; 4DKD A; 3BPL A; 3N0P A; 1Y6M L; 1IAR A; 4DKC A; 4A3G D; 1HZI A; 2Q98 A; 4BBR D; 2B8U A; 3L5W I; 1FYH A; 2Z3Q A; 3NCB A; 1M4C A; 4NN6 A; 1Y1W D; 2VUM D; 2B91 A; 4X51 A; 1CD9 A; 3D48 P; 1NBP A; 1ITL A; 3NCE A; 1D9G A; 1YKB A; 1M4A A; 4O6K A; 4A3L D; 1P9M B; 4NEM A; 5E4E A; 3HOV D; 4DKE A; 1KF9 A; 1LQS L; 5FHX A; 1ITM A; 3LB6 A; 4RS1 A; 3NCC A; 5C44 D; 1HIJ A; 4YPG C; 4Z5R D; 5FLM D; 5C4X D; 1PY2 A; 2B8Y A; 4O9H A; 2PSM A; 1WCM D; 2LMS A; 2LAG A; 3DLQ I; 4WRL B; 4EXN A; 2JA7 D; 2JA8 D; 5KNH I; 1A7M A; 4A3C D; 2D48 A; 3INK C; 3QAZ A; 4NN7 A; 2R7Z D; 1Z7C A; 5TS9 A; 3S9D A; 4DOH A; 1EER A; 5C3E D; 2XQB A; 1Z92 A; 3EJJ A; 1AXI A; 4J4L C; 1BGD A; 1HIK A; 1RCB A; 1VLK A; 2ILK A; 1PVH B; 3BES L; 3HHR A; 4NN5 A; 5LQB A; 1CYL A; 2ERJ D; 1Y14 A; 3PO3 D; 1Y6K L; 4ZF7 A; 4A3M D; 1F45 B; 1EXZ A; 3N06 A; 1CN4 C; 3SE4 B; 4BBS D; 1HUW A; 1CNT 1; 3BPN A; 1RW5 A; 1F6F A; 2O27 A; 5FUC A; 3PIV A; 3DI2 A; 2HYM B; 3SE3 B; 3PO2 D; 4NKQ C; 1V7M V; 2B8Z A; 4A3D D; 1N1F A; 3I4M D; 1EKU A; 4A3I D; 4A3E D; 3H3V E; 3OG6 A; 3MZG A; 4A3F D; 1BBN A; 2IL6 A; 3QT2 C; 1ETE A; 2B90 A; 4GS7 A; 1GA3 A; 5IP9 D; 1HWG A; 1HUL A; 1INR A; 3TGX B; 4FA8 E; 4MHL A; 1M48 A; 3HHC A; 3LB6 B; 5D22 A; 1AX8 A; 4EXP A; 5IYB D; 2B63 D; 4NI7 A; 1HWH A; 1IRL A; 5L6Y C; 1BP3 A;
#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...
