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Composition of PDB entry and biounits
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File: | Protein chains: | DNA chains: | RNA chains: | No. of models: | Action: |
PDB entry: | |||||
pdb2ja7.pdb | ABCDEFGHIJKLMNOPQRSTUVWX | 1245 | 36 | 0 |
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Biounits: | |||||
2ja7.pdb1.pdb | ABCDEFGHIJKL | 12 | 3 | 1 |
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2ja7.pdb2.pdb | MNOPQRSTUVWX | 45 | 6 | 1 |
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Pfam domains
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Name: | Type: | Domain: | E-value: | Significance: | Clan: | Prot. chain: | Start res.: | End res.: | Nuc. chains: | Int. mode: | Action: |
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Domain | P04050_11-340 | 2.7e-115 | 1 | No_clan | A | 11 | 340 | 3 |
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Domain | P04050_807-1397 | 1.6e-93 | 1 | No_clan | A | 807 | 1397 | 2 | L-Mn |
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Domain | P04050_342-507 | 1.7e-77 | 1 | No_clan | A | 342 | 507 | 3 |
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Domain | P04050_873-1056 | 2.4e-63 | 1 | No_clan | A | 873 | 1056 |
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Domain | P04050_510-669 | 7.9e-47 | 1 | No_clan | A | 510 | 669 |
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Domain | P04050_1141-1274 | 3e-38 | 1 | No_clan | A | 1141 | 1274 |
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Domain | P04050_693-800 | 5.3e-35 | 1 | No_clan | A | 693 | 800 |
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Domain | P08518_752-1124 | 1.5e-122 | 1 |
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B | 752 | 1124 | 23 |
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Domain | P08518_219-407 | 2.3e-51 | 1 | No_clan | B | 219 | 407 |
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Domain | P08518_1126-1219 | 1.7e-33 | 1 | No_clan | B | 1126 | 1219 |
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Domain | P08518_580-641 | 1.5e-25 | 1 | No_clan | B | 580 | 641 |
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Domain | P08518_481-545 | 9.4e-20 | 1 | No_clan | B | 481 | 545 |
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Domain | P08518_681-745 | 1.4e-19 | 1 | No_clan | B | 681 | 745 |
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Domain | P16370_49-171 | 7.3e-32 | 1 | No_clan | C | 49 | 171 |
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Domain | P16370_19-255 | 6.7e-19 | 1 |
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C | 19 | 255 |
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Domain | P20434_142-214 | 1.6e-31 | 1 | No_clan | E | 142 | 214 |
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Domain | P20434_6-100 | 1.1e-29 | 1 |
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E | 6 | 100 |
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Domain | P34087_80-161 | 6.2e-18 | 1 |
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G | 80 | 161 |
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Domain | P34087_8-66 | 2.6e-16 | 1 |
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G | 8 | 79 |
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Domain | P27999_4-41 | 1.2e-17 | 1 |
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I | 4 | 41 |
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Domain | P27999_73-111 | 1.3e-14 | 1 |
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I | 73 | 111 |
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Domain | P22139_1-60 | 5.4e-30 | 1 | No_clan | J | 1 | 60 |
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Domain | P38902_30-104 | 1.6e-24 | 1 |
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K | 30 | 104 |
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Domain | P40422_29-60 | 1.9e-16 | 1 |
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L | 29 | 60 |
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Domain | P04050_11-340 | 2.7e-115 | 1 | No_clan | M | 11 | 340 | 56 |
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Domain | P04050_807-1397 | 1.6e-93 | 1 | No_clan | M | 807 | 1397 | 5 | L-Mn |
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Domain | P04050_342-507 | 1.7e-77 | 1 | No_clan | M | 342 | 507 | 6 |
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Domain | P04050_873-1056 | 2.4e-63 | 1 | No_clan | M | 873 | 1056 |
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Domain | P04050_510-669 | 7.9e-47 | 1 | No_clan | M | 510 | 669 |
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Domain | P04050_1141-1274 | 3e-38 | 1 | No_clan | M | 1141 | 1274 |
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Domain | P04050_693-800 | 5.3e-35 | 1 | No_clan | M | 693 | 800 |
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Domain | P08518_752-1124 | 1.5e-122 | 1 |
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N | 752 | 1124 | 56 |
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Domain | P08518_219-407 | 2.3e-51 | 1 | No_clan | N | 219 | 407 |
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Domain | P08518_1126-1219 | 1.7e-33 | 1 | No_clan | N | 1126 | 1219 |
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Domain | P08518_580-641 | 1.5e-25 | 1 | No_clan | N | 580 | 641 |
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Domain | P08518_481-545 | 9.4e-20 | 1 | No_clan | N | 481 | 545 |
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Domain | P08518_681-745 | 1.4e-19 | 1 | No_clan | N | 681 | 745 |
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Domain | P16370_49-171 | 7.3e-32 | 1 | No_clan | O | 49 | 171 |
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Domain | P16370_19-255 | 6.7e-19 | 1 |
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O | 19 | 255 |
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Domain | P20434_142-214 | 1.6e-31 | 1 | No_clan | Q | 142 | 214 |
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Domain | P20434_6-100 | 1.1e-29 | 1 |
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Q | 6 | 100 |
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Domain | P34087_80-161 | 6.2e-18 | 1 |
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S | 80 | 161 |
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Domain | P34087_8-66 | 2.6e-16 | 1 |
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S | 8 | 79 |
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Domain | P27999_4-41 | 1.2e-17 | 1 |
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U | 4 | 41 |
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Domain | P27999_73-111 | 1.3e-14 | 1 |
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U | 73 | 111 |
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Domain | P22139_1-60 | 5.4e-30 | 1 | No_clan | V | 1 | 60 |
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Domain | P38902_30-104 | 1.6e-24 | 1 |
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W | 30 | 104 |
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Domain | P40422_29-60 | 1.9e-16 | 1 |
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X | 29 | 60 |
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Family | P08518_42-455 | 8.6e-54 | 1 | No_clan | B | 42 | 455 | 2 |
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Family | P20433_49-218 | 8.5e-39 | 1 |
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D | 49 | 218 |
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Family | P20435_79-132 | 8e-18 | 1 | No_clan | F | 79 | 132 |
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Family | P20436_7-146 | 3e-43 | 1 |
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H | 7 | 146 |
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Family | P08518_42-455 | 8.6e-54 | 1 | No_clan | N | 42 | 455 | 5 |
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Family | P20433_49-218 | 8.5e-39 | 1 |
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P | 49 | 218 |
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Family | P20435_79-132 | 8e-18 | 1 | No_clan | R | 79 | 132 |
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Family | P20436_7-146 | 3e-43 | 1 |
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T | 7 | 146 |
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SCOP domains
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Classification: | Protein: | Prot. chain: | Start res.: | End res.: | Nuc. chains: | Int. mode: | Action: |
RBP1 | A | 2 | 1450 | 23 | - |
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RBP2 | B | 20 | 1224 | 23 | - |
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RPB3 | C | 3 | 37 | - |
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RPB3 | C | 173 | 268 | - |
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RPB3 | C | 3 | 37 | - |
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RPB3 | C | 173 | 268 | - |
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RPB3 | C | 42 | 172 | - |
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Complete 12-subunit RNA polymerase II complex | D | 15 | 75 | - |
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Eukaryotic RPB5 N-terminal domain | E | 2 | 143 | - |
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Eukaryotic RPB5 C-terminal domain | E | 144 | 215 | - |
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RPB6 | F | 72 | 155 | - |
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C-terminal domain of RNA polymerase II subunit RBP7 (RpoE) | G | 81 | 171 | - |
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N-terminal, heterodimerisation domain of RBP7 (RpoE) | G | 1 | 80 | - |
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RNA polymerase subunit RBP8 | H | 2 | 146 | - |
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RBP9 subunit of RNA polymerase II | I | 2 | 49 | - |
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RBP9 subunit of RNA polymerase II | I | 50 | 117 | - |
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RNA polymerase subunit RPB10 | J | 1 | 65 | - |
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RPB11 | K | 1 | 114 | - |
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RBP12 subunit of RNA polymerase II | L | 25 | 70 | - |
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RBP1 | M | 2 | 1450 | 56 | - |
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RBP2 | N | 20 | 1224 | 56 | - |
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RPB3 | O | 3 | 37 | - |
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RPB3 | O | 173 | 268 | - |
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RPB3 | O | 3 | 37 | - |
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RPB3 | O | 173 | 268 | - |
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RPB3 | O | 42 | 172 | - |
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Complete 12-subunit RNA polymerase II complex | P | 15 | 75 | - |
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Eukaryotic RPB5 N-terminal domain | Q | 2 | 143 | - |
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Eukaryotic RPB5 C-terminal domain | Q | 144 | 215 | - |
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RPB6 | R | 72 | 155 | - |
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C-terminal domain of RNA polymerase II subunit RBP7 (RpoE) | S | 81 | 171 | - |
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N-terminal, heterodimerisation domain of RBP7 (RpoE) | S | 1 | 80 | - |
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RNA polymerase subunit RBP8 | T | 2 | 146 | - |
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RBP9 subunit of RNA polymerase II | U | 2 | 49 | - |
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RBP9 subunit of RNA polymerase II | U | 50 | 117 | - |
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RNA polymerase subunit RPB10 | V | 1 | 65 | - |
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RPB11 | W | 1 | 114 | - |
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RBP12 subunit of RNA polymerase II | X | 25 | 70 | - |
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GO terms | ||
Protein chains: | GO type: | GO description: |
A/M=1-1733 | C | cytoplasmic stress granule |
A/M=1-1733 | C | mitochondrion |
A/M=1-1733 | C | nucleus |
A/M=1-1733 | C | RNA polymerase II, core complex |
A/M=1-1733 | F | DNA binding |
A/M=1-1733 | F | DNA-directed 5'-3' RNA polymerase activity |
A/M=1-1733 | F | metal ion binding |
A/M=1-1733 | P | transcription by RNA polymerase II |
A/M=1-1733 | P | transcription, RNA-templated |
A/M=1-1733 | P | translesion synthesis |
B/N=1-1224 | C | cytoplasmic stress granule |
B/N=1-1224 | C | mitochondrion |
B/N=1-1224 | C | nucleus |
B/N=1-1224 | C | RNA polymerase II, core complex |
B/N=1-1224 | F | DNA binding |
B/N=1-1224 | F | DNA-directed 5'-3' RNA polymerase activity |
B/N=1-1224 | F | metal ion binding |
B/N=1-1224 | F | mRNA binding |
B/N=1-1224 | F | ribonucleoside binding |
B/N=1-1224 | P | transcription by RNA polymerase II |
B/N=1-1224 | P | transcription, RNA-templated |
C/O=1-318 | C | nucleoplasm |
C/O=1-318 | C | RNA polymerase II, core complex |
C/O=1-318 | F | DNA binding |
C/O=1-318 | F | DNA-directed 5'-3' RNA polymerase activity |
C/O=1-318 | F | metal ion binding |
C/O=1-318 | F | protein dimerization activity |
C/O=1-318 | P | termination of RNA polymerase II transcription |
C/O=1-318 | P | transcription by RNA polymerase II |
C/O=1-318 | P | transcription, RNA-templated |
D/P=1-221 | C | cytoplasm |
D/P=1-221 | C | nucleus |
D/P=1-221 | C | P-body |
D/P=1-221 | C | RNA polymerase II, core complex |
D/P=1-221 | F | DNA-directed 5'-3' RNA polymerase activity |
D/P=1-221 | F | nucleotide binding |
D/P=1-221 | F | translation initiation factor binding |
D/P=1-221 | P | mRNA export from nucleus in response to heat stress |
D/P=1-221 | P | nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay |
D/P=1-221 | P | positive regulation of translational initiation |
D/P=1-221 | P | recruitment of 3'-end processing factors to RNA polymerase II holoenzyme complex |
D/P=1-221 | P | transcription by RNA polymerase II |
D/P=1-221 | P | transcription initiation from RNA polymerase II promoter |
D/P=1-221 | P | transcription, RNA-templated |
E/Q=1-215 | C | host cell nucleus |
E/Q=1-215 | C | nucleoplasm |
E/Q=1-215 | C | RNA polymerase I complex |
E/Q=1-215 | C | RNA polymerase II, core complex |
E/Q=1-215 | C | RNA polymerase III complex |
E/Q=1-215 | F | DNA binding |
E/Q=1-215 | F | RNA polymerase I activity |
E/Q=1-215 | P | ribosome biogenesis |
E/Q=1-215 | P | termination of RNA polymerase III transcription |
E/Q=1-215 | P | transcription by RNA polymerase I |
E/Q=1-215 | P | transcription by RNA polymerase II |
E/Q=1-215 | P | transcription by RNA polymerase III |
E/Q=1-215 | P | transcription, RNA-templated |
E/Q=1-215 | P | tRNA transcription by RNA polymerase III |
F/R=1-155 | C | cytoplasm |
F/R=1-155 | C | nucleoplasm |
F/R=1-155 | C | RNA polymerase I complex |
F/R=1-155 | C | RNA polymerase II, core complex |
F/R=1-155 | C | RNA polymerase III complex |
F/R=1-155 | F | DNA binding |
F/R=1-155 | F | RNA polymerase I activity |
F/R=1-155 | P | ribosome biogenesis |
F/R=1-155 | P | termination of RNA polymerase III transcription |
F/R=1-155 | P | transcription by RNA polymerase I |
F/R=1-155 | P | transcription by RNA polymerase II |
F/R=1-155 | P | transcription by RNA polymerase III |
F/R=1-155 | P | transcription, RNA-templated |
F/R=1-155 | P | tRNA transcription by RNA polymerase III |
G/S=1-171 | C | cytoplasm |
G/S=1-171 | C | nucleus |
G/S=1-171 | C | P-body |
G/S=1-171 | C | RNA polymerase II, core complex |
G/S=1-171 | F | DNA-directed 5'-3' RNA polymerase activity |
G/S=1-171 | F | single-stranded DNA binding |
G/S=1-171 | F | single-stranded RNA binding |
G/S=1-171 | F | translation initiation factor binding |
G/S=1-171 | P | nuclear-transcribed mRNA catabolic process, exonucleolytic |
G/S=1-171 | P | positive regulation of nuclear-transcribed mRNA poly(A) tail shortening |
G/S=1-171 | P | positive regulation of translational initiation |
G/S=1-171 | P | transcription by RNA polymerase II |
G/S=1-171 | P | transcription initiation from RNA polymerase II promoter |
G/S=1-171 | P | transcription, RNA-templated |
H/T=1-146 | C | nucleoplasm |
H/T=1-146 | C | RNA polymerase I complex |
H/T=1-146 | C | RNA polymerase II, core complex |
H/T=1-146 | C | RNA polymerase III complex |
H/T=1-146 | F | DNA binding |
H/T=1-146 | F | RNA polymerase I activity |
H/T=1-146 | P | ribosome biogenesis |
H/T=1-146 | P | termination of RNA polymerase III transcription |
H/T=1-146 | P | transcription by RNA polymerase I |
H/T=1-146 | P | transcription by RNA polymerase II |
H/T=1-146 | P | transcription by RNA polymerase III |
H/T=1-146 | P | transcription, RNA-templated |
H/T=1-146 | P | tRNA transcription by RNA polymerase III |
I/U=1-122 | C | nucleolus |
I/U=1-122 | C | RNA polymerase II, core complex |
I/U=1-122 | F | DNA-directed 5'-3' RNA polymerase activity |
I/U=1-122 | F | nucleic acid binding |
I/U=1-122 | F | zinc ion binding |
I/U=1-122 | P | maintenance of transcriptional fidelity during DNA-templated transcription elongation from RNA polymerase II promoter |
I/U=1-122 | P | mRNA cleavage |
I/U=1-122 | P | transcription by RNA polymerase II |
I/U=1-122 | P | transcription initiation from RNA polymerase II promoter |
I/U=1-122 | P | transcription, RNA-templated |
I/U=1-122 | P | transcription-coupled nucleotide-excision repair |
J/V=1-70 | C | nucleoplasm |
J/V=1-70 | C | RNA polymerase I complex |
J/V=1-70 | C | RNA polymerase II, core complex |
J/V=1-70 | C | RNA polymerase III complex |
J/V=1-70 | F | DNA binding |
J/V=1-70 | F | RNA polymerase I activity |
J/V=1-70 | F | zinc ion binding |
J/V=1-70 | P | ribosome biogenesis |
J/V=1-70 | P | termination of RNA polymerase III transcription |
J/V=1-70 | P | transcription by RNA polymerase I |
J/V=1-70 | P | transcription by RNA polymerase II |
J/V=1-70 | P | transcription by RNA polymerase III |
J/V=1-70 | P | transcription, RNA-templated |
J/V=1-70 | P | tRNA transcription by RNA polymerase III |
K/W=1-120 | C | RNA polymerase II, core complex |
K/W=1-120 | F | DNA binding |
K/W=1-120 | F | protein dimerization activity |
K/W=1-120 | F | RNA polymerase II activity |
K/W=1-120 | P | termination of RNA polymerase II transcription |
K/W=1-120 | P | transcription by RNA polymerase II |
K/W=1-120 | P | transcription, RNA-templated |
L/X=1-70 | C | cytoplasm |
L/X=1-70 | C | nucleolus |
L/X=1-70 | C | nucleoplasm |
L/X=1-70 | C | nucleus |
L/X=1-70 | C | RNA polymerase I complex |
L/X=1-70 | C | RNA polymerase II, core complex |
L/X=1-70 | C | RNA polymerase III complex |
L/X=1-70 | F | DNA binding |
L/X=1-70 | F | RNA polymerase I activity |
L/X=1-70 | F | zinc ion binding |
L/X=1-70 | P | ribosome biogenesis |
L/X=1-70 | P | termination of RNA polymerase III transcription |
L/X=1-70 | P | transcription by RNA polymerase I |
L/X=1-70 | P | transcription by RNA polymerase II |
L/X=1-70 | P | transcription by RNA polymerase III |
L/X=1-70 | P | transcription, RNA-templated |
L/X=1-70 | P | tRNA transcription by RNA polymerase III |
Sequences
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2ja7.pdb1.pdb:
[
download sequences in FASTA format
]
|
1 (dna):
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2 (dna):
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A (protein):
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B (protein):
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C (protein):
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D (protein):
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E (protein):
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F (protein):
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G (protein):
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H (protein):
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I (protein):
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J (protein):
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K (protein):
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L (protein):
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3 (rna):
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2ja7.pdb2.pdb:
[
download sequences in FASTA format
]
|
4 (dna):
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5 (dna):
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M (protein):
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N (protein):
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O (protein):
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P (protein):
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Q (protein):
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R (protein):
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S (protein):
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T (protein):
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U (protein):
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V (protein):
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W (protein):
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X (protein):
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6 (rna):
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