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


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