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 |
9
|
sequence length |
119
|
structure length |
119
|
Chain Sequence |
TTFRFCRDCNNMLYPREDKENNRLLFECRTCSYVEEAGSPLVYRHELITNIGETAGVVQDIGSDPTLPRSDRECPKCHSRENVFFQSQQRRKDTSMVLFFVCLSCSHIFTSDQKNKRTQ
|
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: backtracked RNA polymerase II at 3.4 angstrom resolution.
pubmed doi rcsb |
| molecule tags |
Transcription, transferase/dna-rna hybrid
|
| molecule keywords |
DNA-directed RNA polymerase II subunit RPB1
|
| total genus |
9
|
| structure length |
119
|
| sequence length |
119
|
| ec nomenclature | |
| pdb deposition date | 2009-03-27 |
| chain | Pfam Accession Code | Pfam Family Identifier | Pfam Description |
|---|---|---|---|
| I | PF01096 | TFIIS_C | Transcription factor S-II (TFIIS) |
| I | PF02150 | RNA_POL_M_15KD | RNA polymerases M/15 Kd subunit |
Image from the rcsb pdb (www.rcsb.org)
cath code
| Class | Architecture | Topology | Homology | Domain |
|---|---|---|---|---|---|
| Mainly Beta | Single Sheet | N-terminal domain of TfIIb | N-terminal domain of TfIIb | ||
| Mainly Beta | Single Sheet | N-terminal domain of TfIIb | N-terminal domain of TfIIb |
#chains in the Genus database with same CATH superfamily 2JS4 A; 2NVX I; 1LQL A; 2HF1 A; 1QYP A; 2E2I I; 3S1Q I; 5IP9 I; 4A93 I; 3H0G I; 3GTM I; 3PO3 S; 1VLA A; 3GTP I; 3M4O I; 2BJO A; 4NBD A; 1TWF I; 1TWG I; 2E2J I; 4A3M I; 3EER A; 4A3J I; 3D6W A; 3LUS A; 1ZB8 A; 1TWA I; 3GKQ A; 4NOZ A; 4NB9 A; 1WW9 A; 4NBF A; 3S1R I; 4BBR I; 3HOU I; 3GTL I; 2P3Y A; 4NBA A; 3S14 I; 1TWC I; 2JR6 A; 2DE6 A; 1K83 I; 4A3E I; 4A3C I; 2R7Z I; 1Y1W I; 3U50 C; 4BBS I; 4A3B I; 1WCM I; 3ESW A; 1L1O C; 1TWH I; 4A3G I; 4MH4 A; 4Y7N I; 1RO4 A; 4NBH A; 4QTT A; 2J6A A; 4NBE A; 5C4J I; 1NUI A; 3S2D I; 3PO3 I; 2R93 I; 2E2H I; 2AKL A; 4QTU A; 5C4X I; 1DL6 A; 3VMG A; 4NBC A; 3S16 I; 1SFO I; 2JNY A; 1RLY A; 3RZD I; 5C3E I; 3GTO I; 3I4N I; 1ML8 A; 3GTJ I; 2F4O A; 1ZB9 A; 5CM2 M; 1I6H I; 3HOW I; 5FLM I; 2VUM I; 1YUA A; 4NB8 A; 3RZO I; 4BXX I; 2JA5 I; 3VB9 A; 4NBG A; 1USP A; 5IP7 I; 2DE5 A; 4XX2 A; 1Y1V S; 2JA7 I; 2B63 I; 3HOY I; 3I4M I; 4A3D I; 3CQZ I; 1USP B; 1TFI A; 3FKI I; 4NBB A; 2F4M A; 4A3K I; 2NVY I; 1I3Q I; 4X6A I; 2PK7 A; 2YU9 I; 3H3V J; 1I50 I; 3GTM S; 1X3W A; 2R92 I; 3GCF A; 4A3I I; 3S1M I; 3Q87 A; 2K5R A; 3K7A I; 3VMH A; 5C44 I; 3VMI A; 1PFT A; 2NVT I; 4BY1 I; 3GTG I; 3PO2 I; 4A3F I; 3M3Y I; 3GTQ I; 3S15 I; 2NVQ I; 4A3L I; 3HOZ I; 3S1N I; 4BY7 I; 2JA8 I; 1Y1V I; 3HOV I; 2KPI A; 3GTK I; 3S2H I; 4Y52 I; 3I07 A; 2DE7 A; 3S17 I; 3HOX I; 2RBL A; 2JA6 I; 1X3Z A; 1N2F A; 1R9T I; #chains in the Genus database with same CATH topology 1LQL A; 1K9M 2; 2H85 A; 1QYP A; 2PM9 A; 3PO3 S; 3M4O I; 2BJO A; 1N8R 2; 2O53 A; 3P5J B; 4AYB A; 2QA4 Z; 4A3M I; 2JIM A; 1KC8 2; 4E2W A; 4E33 A; 4NOZ A; 1FDI A; 2IV2 X; 2V3V A; 1WW9 A; 2VPX A; 2LIY A; 4BBR I; 3GTL I; 2P3Y A; 3IX0 A; 1TWC I; 2DE6 A; 4A3E I; 4MD9 A; 1YJN Z; 4MXU A; 2R7Z I; 3U50 C; 1VQK 1; 3CMA Z; 2QA4 1; 1K73 1; 1M90 2; 1Q81 2; 4Y7N I; 5LL6 f; 3CCQ Z; 5T6B A; 4NBE A; 5C4J I; 1QXF A; 3J7A 4; 1YJN 1; 2PMZ A; 3JAM f; 3RZD I; 2M6N A; 3CMA 1; 1K9M 1; 1I6H I; 3CCQ 1; 5FLM I; 1YUA A; 2OOX B; 1USP A; 3CXC Z; 1N8R 1; 4XX2 A; 3G71 Z; 1Y1V S; 3CD6 Z; 1Z03 A; 1KC8 1; 2V8J A; 4A3D I; 2V8K A; 5D1P A; 3D2L A; 1Q86 2; 2Y0S A; 4NBB A; 2F4M A; 1QF8 A; 4EWC A; 2VF1 A; 1I3Q I; 1VQP Z; 1Q16 A; 3G71 1; 4A3I I; 1YJ9 1; 3CD6 1; 2VPY A; 3Q87 A; 1QVG Y; 5A2Q f; 2K5R A; 3BG1 B; 1M90 1; 3K7A I; 3VMH A; 3VTN A; 1Q81 1; 1JJ2 Y; 1Z01 A; 2OOY B; 1FDO A; 3CC7 Z; 4BY7 I; 2GU2 A; 1VQP 1; 2KPI A; 4Y52 I; 3I07 A; 3OW2 Z; 1QVF Y; 4NFR A; 2GTI A; 4E31 A; 3NFZ A; 2JA6 I; 2QLV B; 3JAM b; 5D1O A; 1R9T I; 2JS4 A; 1S7M A; 2NAP A; 2E2I I; 3G4S Z; 2Q4Z A; 5IP9 I; 1Z02 A; 3CC7 1; 1P9N A; 1TWF I; 1TWG I; 1YHQ Z; 2E2J I; 3F3P C; 4DGL A; 3D6W A; 1WJ2 A; 1ZB8 A; 4E2Z A; 2E9H A; 1Q86 1; 2WB1 A; 1TWA I; 3GKQ A; 3G4S 1; 3CCV Z; 3S1R I; 1YJW Z; 3F3F C; 3KIF A; 5IT9 f; 1JWH C; 4A3C I; 3NH8 A; 1Y1W I; 3CCS Z; 1YHQ 1; 1WCM I; 3ESW A; 1VQ5 Z; 5A2Q b; 4MH4 A; 4RVF A; 4NBH A; 2J6A A; 2JUB A; 5T64 A; 1W2B Z; 3S2D I; 3CCV 1; 1VQK Z; 1YJW 1; 2E2H I; 1X0T A; 5C4X I; 2QRE B; 2RT9 A; 2JIQ A; 3MON A; 1M1K 2; 3S16 I; 2JNY A; 3CCS 1; 2I3C A; 1VQ5 1; 2QRC B; 1KD1 2; 1S72 Z; 3CCL Z; 3FQQ A; 4MD7 A; 2VUM I; 4NB8 A; 4BXX I; 3VB9 A; 2GTH A; 2DE5 A; 2V8I A; 2JA7 I; 3HOY I; 1NP6 A; 1RQF A; 1WII A; 1NJI 2; 3CPW Y; 1S72 1; 1WZN A; 3CCL 1; 4CL1 A; 4E2X A; 2K3R A; 4A3K I; 1VQ8 Z; 4E32 A; 2PK7 A; 2YAD A; 4HGY A; 5IT9 b; 1X3W A; 2R92 I; 3GCF A; 1VQ7 Z; 1SIW A; 5C44 I; 1VQ4 1; 4BY1 I; 1VQN Z; 3M3Y I; 4A3L I; 1YJ9 Z; 1VQ8 1; 2JA8 I; 1YIT Z; 1M1K 1; 3GTK I; 1RO0 A; 1KQS Y; 2RBL A; 1VQ7 1; 1KD1 1; 1N2F A; 2NVX I; 2HF1 A; 4RV9 A; 5FLX b; 1VQN 1; 3I56 1; 3CCU Z; 1VLA A; 1YIT 1; 2LEX A; 3GTP I; 4TNU A; 3J81 b; 4RVH A; 2G2K A; 1NJI 1; 3NH5 A; 1VQL Z; 4NBF A; 4DQY B; 3HOU I; 3CCU 1; 2VPW A; 3T4N B; 3MZK B; 4NH1 C; 4A3B I; 3CCJ Z; 2E7Z A; 1YUK A; 1RO4 A; 2AYD A; 1VQL 1; 2Q51 A; 1NUI A; 2M48 A; 2QRD B; 1YI2 Z; 3HKZ A; 1DL6 A; 4NBC A; 4E2Y A; 2OTL Z; 1SFO I; 1KRL A; 1VQO Z; 1RLY A; 3GTO I; 5C3E I; 3CCJ 1; 1QVG Z; 2F4O A; 4DK1 A; 1ZB9 A; 5CM2 M; 1JJ2 Z; 3HOW I; 3G6E Z; 2WAQ A; 1YI2 1; 3RZO I; 3TDH B; 2JA5 I; 4MD8 A; 5IP7 I; 1VQ9 Z; 2B63 I; 2OTL 1; 1QVF Z; 2ZAE B; 1VQO 1; 3NDJ A; 3CQZ I; 2VUG A; 3CCE Z; 1VQ6 Z; 1USP B; 1TFI A; 3FKI I; 1RNI A; 2V45 A; 3G6E 1; 2NVY I; 3EED A; 3J80 b; 1K8A 2; 3H3V J; 3TE5 B; 4RVD A; 2R6M A; 2KI7 B; 1VQ9 1; 5FLX f; 2P28 A; 3CC2 Z; 5T67 A; 2QKD A; 3CCE 1; 1VQ6 1; 2RPR A; 2NVT I; 3GTG I; 3PO2 I; 4A3F I; 2JIO A; 2VPZ A; 3GTQ I; 3J81 f; 3IF8 A; 3CXC Y; 3HOV I; 4HGZ A; 1VQ4 Z; 2DE7 A; 2OZK A; 2JIP A; 3S17 I; 4E30 A; 5AN9 F; 3I55 Z; 3CC2 1; 3NH4 A; 3S1Q I; 3CME Z; 4A93 I; 3H0G I; 3GTM I; 2IZ4 A; 5D1O B; 3QWU A; 4NBD A; 3EER A; 4HH4 A; 3I56 Z; 4A3J I; 3I55 1; 3LUS A; 2QR1 B; 3IFU A; 4RS4 A; 2JIR A; 4NB9 A; 2RIQ A; 1K8A 1; 1YIJ Z; 3CME 1; 4NBA A; 1Q82 2; 3S14 I; 3OW2 Y; 2JR6 A; 1K83 I; 4BBS I; 2RHB A; 1L1O C; 1TWH I; 4A3G I; 1VQM Z; 2LFU A; 4QTT A; 2EGT A; 3KIH A; 3CPW Z; 3MZL B; 3CCM Z; 3PO3 I; 2R93 I; 2QEX Z; 1YIJ 1; 2AKL A; 4QTU A; 2O4H A; 1Q7Y 2; 3VMG A; 1AA6 A; 4S1T A; 2HU9 A; 3I4N I; 3J80 f; 1ML8 A; 3GTJ I; 3CCR Z; 2JMO A; 1ZH1 A; 1VQM 1; 2OTJ Z; 3CCM 1; 2QEX 1; 4NBG A; 3D9X A; 1KQS Z; 3I4M I; 3CCR 1; 1RO2 A; 2W03 A; 3CC4 Z; 1W2B Y; 3IR7 A; 2OTJ 1; 4RVG A; 2W04 A; 1Q82 1; 4X6A I; 2YU9 I; 1I50 I; 1Y8C A; 3GTM S; 2IZ3 A; 3S1M I; 4MON A; 3FQM A; 3BG0 B; 3VMI A; 1PFT A; 1K73 2; 3CC4 1; 3S15 I; 2NVQ I; 1Q7Y 1; 3HOZ I; 3S1N I; 1Y1V I; 4MRI A; 3S2H I; 3NDI A; 3HOX I; 1X3Z A; #chains in the Genus database with same CATH homology 1LQL A; 1K9M 2; 2H85 A; 1QYP A; 2PM9 A; 3PO3 S; 3M4O I; 2BJO A; 1N8R 2; 2O53 A; 3P5J B; 4AYB A; 2QA4 Z; 4A3M I; 1KC8 2; 4E2W A; 4E33 A; 4NOZ A; 1WW9 A; 2LIY A; 4BBR I; 3GTL I; 2P3Y A; 3IX0 A; 1TWC I; 2DE6 A; 4A3E I; 4MD9 A; 1YJN Z; 4MXU A; 2R7Z I; 3U50 C; 1VQK 1; 3CMA Z; 2QA4 1; 1K73 1; 1M90 2; 1Q81 2; 4Y7N I; 5LL6 f; 3CCQ Z; 5T6B A; 4NBE A; 5C4J I; 3J7A 4; 1YJN 1; 2PMZ A; 3JAM f; 3RZD I; 2M6N A; 3CMA 1; 1K9M 1; 1I6H I; 3CCQ 1; 5FLM I; 1YUA A; 2OOX B; 1USP A; 3CXC Z; 1N8R 1; 4XX2 A; 3G71 Z; 1Y1V S; 3CD6 Z; 1Z03 A; 1KC8 1; 2V8J A; 4A3D I; 2V8K A; 5D1P A; 1Q86 2; 2Y0S A; 4NBB A; 2F4M A; 1QF8 A; 4EWC A; 2VF1 A; 1I3Q I; 1VQP Z; 3G71 1; 4A3I I; 1YJ9 1; 3CD6 1; 3Q87 A; 1QVG Y; 5A2Q f; 2K5R A; 3BG1 B; 1M90 1; 3K7A I; 3VMH A; 3VTN A; 1Q81 1; 1JJ2 Y; 1Z01 A; 2OOY B; 3CC7 Z; 4BY7 I; 2GU2 A; 1VQP 1; 2KPI A; 4Y52 I; 3I07 A; 3OW2 Z; 1QVF Y; 4NFR A; 2GTI A; 4E31 A; 3NFZ A; 2JA6 I; 2QLV B; 3JAM b; 5D1O A; 1R9T I; 2JS4 A; 1S7M A; 2E2I I; 3G4S Z; 2Q4Z A; 5IP9 I; 1Z02 A; 3CC7 1; 1P9N A; 1TWF I; 1TWG I; 1YHQ Z; 2E2J I; 3F3P C; 4DGL A; 3D6W A; 1ZB8 A; 4E2Z A; 2E9H A; 1Q86 1; 2WB1 A; 1TWA I; 3GKQ A; 3G4S 1; 3CCV Z; 3S1R I; 1YJW Z; 3F3F C; 3KIF A; 5IT9 f; 1JWH C; 4A3C I; 3NH8 A; 1Y1W I; 3CCS Z; 1YHQ 1; 1WCM I; 3ESW A; 1VQ5 Z; 5A2Q b; 4MH4 A; 4RVF A; 4NBH A; 2J6A A; 2JUB A; 5T64 A; 1W2B Z; 3S2D I; 3CCV 1; 1VQK Z; 1YJW 1; 2E2H I; 1X0T A; 5C4X I; 2QRE B; 2RT9 A; 3MON A; 1M1K 2; 3S16 I; 2JNY A; 3CCS 1; 2I3C A; 1VQ5 1; 2QRC B; 1KD1 2; 1S72 Z; 3CCL Z; 3FQQ A; 4MD7 A; 2VUM I; 4NB8 A; 4BXX I; 3VB9 A; 2GTH A; 2DE5 A; 2V8I A; 2JA7 I; 3HOY I; 1NP6 A; 1RQF A; 1WII A; 1NJI 2; 3CPW Y; 1S72 1; 3CCL 1; 4CL1 A; 4E2X A; 2K3R A; 4A3K I; 1VQ8 Z; 4E32 A; 2PK7 A; 2YAD A; 4HGY A; 5IT9 b; 1X3W A; 2R92 I; 3GCF A; 1VQ7 Z; 5C44 I; 1VQ4 1; 4BY1 I; 1VQN Z; 3M3Y I; 4A3L I; 1YJ9 Z; 1VQ8 1; 2JA8 I; 1YIT Z; 1M1K 1; 3GTK I; 1RO0 A; 1KQS Y; 2RBL A; 1VQ7 1; 1KD1 1; 1N2F A; 2NVX I; 2HF1 A; 4RV9 A; 5FLX b; 1VQN 1; 3I56 1; 3CCU Z; 1VLA A; 1YIT 1; 3GTP I; 4TNU A; 3J81 b; 4RVH A; 2G2K A; 1NJI 1; 3NH5 A; 1VQL Z; 4NBF A; 4DQY B; 3HOU I; 3CCU 1; 3T4N B; 3MZK B; 4NH1 C; 4A3B I; 3CCJ Z; 1YUK A; 1RO4 A; 1VQL 1; 2Q51 A; 1NUI A; 2M48 A; 2QRD B; 1YI2 Z; 3HKZ A; 1DL6 A; 4NBC A; 4E2Y A; 2OTL Z; 1SFO I; 1KRL A; 1VQO Z; 1RLY A; 3GTO I; 5C3E I; 3CCJ 1; 1QVG Z; 2F4O A; 4DK1 A; 1ZB9 A; 5CM2 M; 1JJ2 Z; 3HOW I; 3G6E Z; 2WAQ A; 1YI2 1; 3RZO I; 3TDH B; 2JA5 I; 4MD8 A; 5IP7 I; 1VQ9 Z; 2B63 I; 2OTL 1; 1QVF Z; 2ZAE B; 1VQO 1; 3NDJ A; 3CQZ I; 2VUG A; 3CCE Z; 1VQ6 Z; 1USP B; 1TFI A; 3FKI I; 1RNI A; 3G6E 1; 2NVY I; 3EED A; 3J80 b; 1K8A 2; 3H3V J; 3TE5 B; 4RVD A; 2R6M A; 2KI7 B; 1VQ9 1; 5FLX f; 2P28 A; 3CC2 Z; 5T67 A; 2QKD A; 3CCE 1; 1VQ6 1; 2RPR A; 2NVT I; 3GTG I; 3PO2 I; 4A3F I; 3GTQ I; 3J81 f; 3IF8 A; 3CXC Y; 3HOV I; 4HGZ A; 1VQ4 Z; 2DE7 A; 2OZK A; 3S17 I; 4E30 A; 5AN9 F; 3I55 Z; 3CC2 1; 3NH4 A; 3S1Q I; 3CME Z; 4A93 I; 3H0G I; 3GTM I; 2IZ4 A; 5D1O B; 3QWU A; 4NBD A; 3EER A; 4HH4 A; 3I56 Z; 4A3J I; 3I55 1; 3LUS A; 2QR1 B; 3IFU A; 4RS4 A; 4NB9 A; 2RIQ A; 1K8A 1; 1YIJ Z; 3CME 1; 4NBA A; 1Q82 2; 3S14 I; 3OW2 Y; 2JR6 A; 1K83 I; 4BBS I; 2RHB A; 1L1O C; 1TWH I; 4A3G I; 1VQM Z; 2LFU A; 4QTT A; 2EGT A; 3KIH A; 3CPW Z; 3MZL B; 3CCM Z; 3PO3 I; 2R93 I; 2QEX Z; 1YIJ 1; 2AKL A; 4QTU A; 2O4H A; 1Q7Y 2; 3VMG A; 4S1T A; 2HU9 A; 3I4N I; 3J80 f; 1ML8 A; 3GTJ I; 3CCR Z; 2JMO A; 1ZH1 A; 1VQM 1; 2OTJ Z; 3CCM 1; 2QEX 1; 4NBG A; 3D9X A; 1KQS Z; 3I4M I; 3CCR 1; 1RO2 A; 2W03 A; 3CC4 Z; 1W2B Y; 2OTJ 1; 4RVG A; 2W04 A; 1Q82 1; 4X6A I; 2YU9 I; 1I50 I; 3GTM S; 2IZ3 A; 3S1M I; 4MON A; 3FQM A; 3BG0 B; 3VMI A; 1PFT A; 1K73 2; 3CC4 1; 3S15 I; 2NVQ I; 1Q7Y 1; 3HOZ I; 3S1N I; 1Y1V I; 4MRI A; 3S2H I; 3NDI A; 3HOX I; 1X3Z 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...
