3H3VE

Yeast rnap ii containing poly(a)-signal sequence in the active site
Total Genus 43
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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
43
sequence length
218
structure length
177
Chain Sequence
b'STSTFQTRRRRLKKVEEEENAATLQLGQEFQLKQINHQGEEEELIALNLSEARLVIKEALVERRRAFKRSQKKTREKELESIDVLLEQTTGGNNKDLKNTMQYLTNFSRFRDQETVGAVIQLLKSTGLHPFEVAQLGSLACDTADEAKTLIPSLNNKISDDELERILKELSNLETLY'
Loading diagram...

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 keywords DNA-directed RNA polymerase II subunit RPB1
publication title Torpedo Nuclease Rat1 Is Insufficient to Terminate RNA Polymerase II in Vitro
pubmed doi rcsb
molecule tags Transferase/dna/rna
total genus 43
structure length 177
sequence length 218
ec nomenclature
pdb deposition date 2009-04-17

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
E PF03874 RNA_pol_Rpb4 RNA polymerase Rpb4
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
1.20.1250.40 Mainly Alpha Up-down Bundle Growth Hormone; Chain: A; Growth Hormone; Chain: A; 3h3vE02
2R92D 3HOYD 3I4MD 1Y1VD 5IYCD 1WCMD 2B63D 5IP9D 2JA6D 4BBSD 4A3ID 4A3MD 2R93D 4BBRD 1Y14A 5FLMD 2R7ZD 4BXXD 2JA8D 3PO2D 4A3LD 4A3FD 3FKID 5IP7D 5C4XD 2JA5D 3H3VE 1Y1WD 3HOVD 3HOWD 3I4ND 4BY7D 4A3BD 5IYDD 4A3KD 4BY1D 3HOZD 2C35A 4A3CD 2VUMD 3HOXD 4A3JD 3AYHA 3PO3D 4A3DD 4A93D 4A3ED 4A3GD 5C3ED 3H0GD 5IYBD 5C44D 2JA7D 3HOUD
chains in the Genus database with same CATH superfamily
5D72A 4JA3A 1HULA 2OQPA 3PO2D 4A3FD 5C4XD 1ITLA 1BBNA 1CD9A 5EQIA 3OG4A 5EQGA 3G9VB 3L5XA 1D9CA 5KNHI 1BGCA 4OH3A 4EXPA 1I1RB 4GRWA 4NKQC 4D2BA 4W6VA 4UVMA 1D9GA 2Q14A 1V7NV 1ILKA 1F45B 1AX8A 4YQXA 4Q65A 2LAGA 1AU1A 4YB9D 1ITMA 5IP7D 1M49A 1EERA 3QT2C 4BY1D 1PY2A 1BCNA 2IL6A 4IKYA 3QAZA 2VUMD 2CYKA 1BGEA 4IKZA 2Z3QA 1HZIA 1PGRA 4A3MD 3O7PA 2CFQA 4ZW9A 2HYMB 4A3KD 2KZ1A 4GBZA 3HOZD 1PV6A 1HUWA 4JR9A 3B5KA 3QB1A 3N0PA 2GMFA 4NN6A 4XNJA 1Y1VD 4A3ID 1EVSA 1Y14A 1CYLA 4D2DA 1KF9A 2D48A 3DI2A 4OAAA 1M48A 4A3BD 3EJJA 1IARA 5L6YC 2Z3RA 4PYPA 1P9MB 1RHGA 4NEJA 4LDSA 1HWGA 5D28B 3HHRA 3NCEA 2R92D 3I4MD 4FA8E 3NCFA 2JA6D 1M4AA 2Q7NB 2JA8D 4IU9A 3O7QA 2B8UA 5D58A 3BPOA 1ALUA 5E4EA 4QIQA 1INRA 2C35A 4PS4A 4NN7A 1LK3A 3AYHA 2B8YA 1RW5A 3BPNA 3DUHC 1IK0A 3HOYD 4GC0A 1M47A 1PW6A 2B8XA 3Q1SI 3D48P 4NI7A 4D2CA 4MHLA 4DOHA 3TGXB 1CN4C 1EXZA 3UF2A 4A3ED 1M4CA 4NN5A 1FG9A 1JLIA 4BBRD 1EMRA 4BXXD 3IRHA 1B5LA 1CSGA 4O9HA 1QVNA 2E9WC 3HOVD 4BY7D 4DKCA 1HIKA 4EXNA 4GS7A 1Y6ML 1PV7A 1EKUA 3NCCA 5D22A 4ZS7A 2O27A 3OQ3A 1YKBA 3PIVA 1ETEA 5IYBD 1Z92A 5C65A 2L3OA 1RCBA 4ZF7A 3D85C 1Y6NL 1M4BA 4WRLB 1SCFA 2Q98A 4NI9A 4JREA 4IKWA 3LB6B 4J4LC 4XNIA 2B63D 3OG6A 5FLMD 4TPHA 3FKID 3QWRB 1ITFA 1HIJA 4I77Z 4LEPA 1AXIA 5A2OA 3HMXB 2JA5D 5IYDD 2Y5YA 1HWHA 4YUEC 1NBPA 4A3JD 1Y6KL 3QB7A 3EW3A 2L3YA 3H0GD 3L5WI 3BESL 3N06A 4RS1A 2B91A 4BBSD 4X51A 1CNT1 1J7VL 5A2NA 3VA2A 2V8NA 5D70A 1A7MA 3D87A 1WU3I 1IL6A 4O6KA 3UF5A 4TPGA 1N1FA 2H24A 3INKC 5GXBA 4A3GD 5C3ED 5C44D 3DLQI 2D9QA 1WCMD 2R93D 4IU8A 4NEMA 1BP3A 3WCYI 5FUCA 5D6KA 1BGDA 3SE4B 3UEZE 4U4TA 2B5IA 3UX9A 3MZGA 1M4RA 1VLKA 1A22A 5LQBA 3LB6A 2XQBA 4ZWCA 2O26A 3DI3A 2R7ZD 4A3LD 5D59A 4DKEA 1ITIA 3HOWD 4YPGC 3SE3B 4ZYRA 4A93D 2ILKA 4IKVA 4J05A 4TPJA 5IP9D 4GBYA 1GNCA 1FYHA 3G6DA 4U4VA 5C7XA 1IRLA 2LMSA 4A3CD 3BPLA 1IJZA 4A3DD 1V7MV 2PSMA 4CNIC 1HGUA 2O6IA 3HOUD 1LQSL 1Z7CA 5D71A 4YBQA 4Z5RD 1RFBA 3NCBA 4IKXA 2B90A 5TS9A 3I4ND 3S9DA 2ERJD 1Y1WD 1GA3A 1BUYA 4APSA 3HHCA 2CFPA 3HOXD 3DGCL 3PO3D 4LRLA 4DKFA 2INTA 1PVHB 4DKDA 4U4WA 3NPZA 2B8ZA 5IYCD 5EQHA 5FHXA 3H3VE 1F6FA 4ZWBA 4YDYI 3WDOA 1LKIA 3PIWA 2XUTA 2JA7D 1PW4A
chains in the Genus database with same CATH topology
5D72A 1Y1VD 3DI3A 1Z92A 1HULA 1EVSA 4A3ID 1Y14A 2OQPA 2R7ZD 1CYLA 2L3OA 1RCBA 4ZF7A 4A3FD 3PO2D 4A3LD 1KF9A 3D85C 2D48A 5C4XD 1ITLA 3DI2A 4DKEA 1BBNA 1CD9A 1ITIA 3HOWD 1M48A 4YPGC 3SE3B 4A3BD 1Y6NL 3EJJA 3OG4A 1IARA 1M4BA 5L6YC 2Z3RA 4WRLB 1P9MB 1RHGA 4NEJA 3G9VB 3L5XA 1D9CA 1HWGA 1SCFA 5D28B 4A93D 2Q98A 3HHRA 5KNHI 1BGCA 4NI9A 4EXPA 3NCEA 3LB6B 4J4LC 1I1RB 2ILKA 2R92D 4GRWA 3I4MD 4FA8E 3NCFA 2B63D 5IP9D 3OG6A 2JA6D 4NKQC 1M4AA 1GNCA 2Q7NB 5FLMD 2JA8D 3FKID 1FYHA 3QWRB 3G6DA 1ITFA 1HIJA 2B8UA 4I77Z 1AXIA 2JA5D 3HMXB 5C7XA 3BPOA 1IRLA 1ALUA 5IYDD 5E4EA 1D9GA 2Q14A 1V7NV 2LMSA 1ILKA 1INRA 1HWHA 2C35A 3BPLA 4PS4A 4YUEC 1NBPA 1LK3A 4NN7A 4A3JD 4A3CD 3AYHA 1F45B 2B8YA 1IJZA 1AX8A 1Y6KL 3QB7A 1V7MV 4A3DD 2PSMA 3EW3A 4CNIC 4YQXA 1HGUA 1RW5A 2L3YA 2O6IA 3H0GD 3L5WI 3BESL 3HOUD 2LAGA 3BPNA 3DUHC 3N06A 1IK0A 3HOYD 4RS1A 1AU1A 1LQSL 1Z7CA 2B91A 5D71A 4BBSD 1M47A 1PW6A 4X51A 1ITMA 1CNT1 1J7VL 1RFBA 4Z5RD 2B8XA 3VA2A 3NCBA 5IP7D 1M49A 1EERA 3Q1SI 2B90A 5TS9A 3D48P 3I4ND 3S9DA 2ERJD 1Y1WD 3QT2C 4NI7A 5D70A 1GA3A 1A7MA 4MHLA 3D87A 4BY1D 1BUYA 1WU3I 1IL6A 3TGXB 4DOHA 1PY2A 4O6KA 3UF5A 3HHCA 1BCNA 2IL6A 3QAZA 1CN4C 2VUMD 3HOXD 3DGCL 2CYKA 1N1FA 1BGEA 1EXZA 4LRLA 3UF2A 3PO3D 2H24A 3INKC 4A3ED 4DKFA 2INTA 4A3GD 1PVHB 5C44D 3DLQI 5C3ED 4DKDA 1M4CA 2Z3QA 4NN5A 2D9QA 1HZIA 3NPZA 2B8ZA 5IYCD 1WCMD 1PGRA 1FG9A 2R93D 1JLIA 4A3MD 4BBRD 1EMRA 4BXXD 4NEMA 1BP3A 3IRHA 2HYMB 3WCYI 1B5LA 5FUCA 1CSGA 4O9HA 5FHXA 1BGDA 1QVNA 2E9WC 3SE4B 3H3VE 3HOVD 3UEZE 4BY7D 4DKCA 1F6FA 1HIKA 2B5IA 2KZ1A 4GS7A 3UX9A 3MZGA 4EXNA 4A3KD 1Y6ML 1M4RA 1VLKA 3HOZD 1A22A 1EKUA 3NCCA 5D22A 4YDYI 1HUWA 1LKIA 4ZS7A 5LQBA 3PIWA 2O27A 3B5KA 3LB6A 1YKBA 2XQBA 3OQ3A 3QB1A 2O26A 3N0PA 1ETEA 3PIVA 2GMFA 5IYBD 2JA7D 4NN6A
chains in the Genus database with same CATH homology


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