3PO2D

Arrested rna polymerase ii elongation complex
Total Genus 61
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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
61
sequence length
221
structure length
180
Chain Sequence
MNVSTSTFQTRRRRLKKVEEEENAATLQLGQEFQLKQINHQGEEEELIALNLSEARLVIKEALVERRRAFKRSQKKTREKELESIDVLLEQTTGGNNKDLKNTMQYLTNFSRFRDQETVGAVIQLLKSTGLHPFEVAQLGSLACDTADEAKTLIPSLNNKISDDELERILKELSNLETLY
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 Structural basis of RNA polymerase II backtracking, arrest and reactivation.
pubmed doi rcsb
total genus 61
structure length 180
sequence length 221
ec nomenclature
pdb deposition date 2010-11-21

pfam database annotations

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
ClassArchitectureTopologyHomologyDomain
1.20.1250.40 Mainly Alpha Up-down Bundle Growth Hormone; Chain: A; Growth Hormone; Chain: A; 3po2D02
3H0GD 2VUMD 4A3ED 4A3LD 4A93D 1Y14A 3HOXD 2R92D 2R93D 5IYDD 5IYCD 4A3JD 1Y1WD 2JA5D 4A3KD 2JA6D 4BBSD 1WCMD 3I4MD 3HOZD 3AYHA 4BXXD 4A3MD 2JA8D 3FKID 1Y1VD 3H3VE 5IP9D 5C44D 5IYBD 4A3CD 2R7ZD 5C4XD 4A3DD 5FLMD 2B63D 2C35A 4A3BD 3HOWD 4BY7D 3HOYD 4BY1D 2JA7D 4BBRD 3HOVD 4A3ID 3PO2D 4A3GD 3HOUD 3I4ND 5C3ED 3PO3D 5IP7D 4A3FD
chains in the Genus database with same CATH superfamily
4EXPA 2B8YA 1PW4A 4UVMA 3DGCL 2PSMA 2Q98A 4W6VA 1QVNA 4U4TA 3NPZA 5EQIA 4O6KA 3UEZE 4JA3A 3HOXD 5C7XA 4MHLA 1PGRA 1IARA 1Y1VD 1F45B 5C44D 2Z3QA 2R7ZD 1HGUA 4I77Z 4A3BD 1WU3I 5D59A 1CSGA 3WCYI 2D9QA 4TPHA 3EW3A 4LRLA 1HWGA 2JA5D 3HHCA 1HZIA 2O26A 5KNHI 2B8UA 4NKQC 3VA2A 3NCCA 3UX9A 4QIQA 2B63D 2CFQA 1M48A 3PIVA 5D58A 4NEJA 4ZS7A 4Z5RD 4IKVA 1P9MB 1ALUA 3TGXB 3D85C 3QAZA 5D71A 4TPGA 2LMSA 3H3VE 2Q7NB 3EJJA 4XNIA 2KZ1A 2D48A 3PO3D 4NN7A 4YBQA 2B5IA 4YQXA 4A3ED 1RCBA 1Y14A 4IKXA 1RFBA 3MZGA 4A3JD 1IK0A 4PS4A 1PVHB 2Y5YA 4U4WA 4DOHA 4A3MD 4O9HA 4D2BA 3L5WI 4IU8A 1ITIA 3O7PA 1NBPA 2V8NA 1RW5A 4XNJA 1EERA 1LQSL 1INRA 1WCMD 2GMFA 2XQBA 5D6KA 2Z3RA 1RHGA 3LB6A 1HWHA 1EMRA 5D70A 4ZW9A 4FA8E 2H24A 4BY1D 2JA7D 2L3YA 5FHXA 1N1FA 3H0GD 1JLIA 3O7QA 1A7MA 4YB9D 1LK3A 1M47A 2ILKA 5E4EA 3UF2A 1AXIA 1Z92A 3IRHA 3QB1A 4YPGC 4LEPA 4ZF7A 1M4RA 1Y6NL 4RS1A 5LQBA 2O27A 1BP3A 5GXBA 1HUWA 3G9VB 2CFPA 3DUHC 4ZWBA 3OQ3A 1BCNA 1GNCA 4JREA 4IKYA 3AYHA 3BESL 2JA8D 1PV7A 4A3DD 5FLMD 5A2NA 3WDOA 1M49A 4A3ID 1CN4C 4LDSA 1EXZA 4Q65A 3OG6A 4A93D 3BPOA 2XUTA 5IYDD 4NN6A 1CNT1 1AX8A 2ERJD 1IL6A 1IRLA 4CNIC 3B5KA 3FKID 3HHRA 3NCBA 4A3CD 1ITLA 1LKIA 3HOWD 1PY2A 3N0PA 3LB6B 3HOVD 4BBRD 1AU1A 4A3KD 3QB7A 4NI7A 1Y1WD 1I1RB 1D9CA 1VLKA 4YUEC 1BBNA 5C65A 4IU9A 3DI2A 4D2CA 1EKUA 4YDYI 3NCFA 3DI3A 1J7VL 2HYMB 4BY7D 1D9GA 1Y6KL 4A3GD 4OAAA 5C3ED 4BXXD 1IJZA 3N06A 1V7MV 2E9WC 3G6DA 2L3OA 5D72A 1BGEA 4DKEA 4NN5A 3UF5A 1BUYA 1M4BA 3QWRB 3BPLA 2VUMD 1CD9A 2R93D 1A22A 1V7NV 5D28B 1M4CA 4JR9A 4WRLB 3NCEA 2OQPA 3PIWA 4PYPA 3Q1SI 2B8XA 5IP9D 3OG4A 3SE4B 3L5XA 3INKC 4NI9A 1YKBA 2B91A 3HOYD 5D22A 1M4AA 3D48P 4D2DA 4GRWA 1ITFA 5IP7D 4A3FD 2O6IA 4TPJA 4IKWA 2R92D 1PV6A 4NEMA 1FYHA 1HULA 2INTA 4ZWCA 2IL6A 5TS9A 1B5LA 4U4VA 4X51A 1F6FA 5C4XD 4IKZA 2C35A 4GBZA 3PO2D 4EXNA 1Z7CA 2LAGA 4DKCA 1ETEA 4GBYA 3I4MD 4GS7A 3HMXB 4OH3A 3HOZD 1CYLA 2CYKA 4J4LC 4DKDA 1HIJA 2B8ZA 1ITMA 1EVSA 1KF9A 5EQGA 2Q14A 1BGCA 3DLQI 1ILKA 1PW6A 5EQHA 1BGDA 5FUCA 3BPNA 2B90A 1SCFA 4A3LD 5IYCD 2JA6D 4BBSD 3QT2C 1GA3A 3S9DA 5A2OA 4APSA 1Y6ML 3D87A 5L6YC 5IYBD 4ZYRA 4GC0A 3SE3B 4DKFA 1FG9A 1HIKA 3HOUD 3I4ND 4J05A
chains in the Genus database with same CATH topology
1EXZA 4YQXA 4A3ED 1RCBA 2O6IA 3OG6A 4EXPA 4A93D 1Y14A 2R92D 1RFBA 3BPOA 3MZGA 4NN6A 5IYDD 4A3JD 1IK0A 1CNT1 1AX8A 1PVHB 1IL6A 2ERJD 4PS4A 4NEMA 1IRLA 2B8YA 4CNIC 1FYHA 4DOHA 3B5KA 1HULA 2INTA 4A3MD 2IL6A 3DGCL 3FKID 5TS9A 1B5LA 3HHRA 3NCBA 2PSMA 4O9HA 4A3CD 4X51A 1F6FA 2Q98A 3L5WI 5C4XD 1ITLA 1LKIA 2C35A 1ITIA 3HOWD 1PY2A 1QVNA 3N0PA 1NBPA 3LB6B 3HOVD 4BBRD 1AU1A 3PO2D 3NPZA 4EXNA 1Z7CA 4O6KA 4A3KD 3UEZE 2LAGA 3QB7A 1RW5A 4DKCA 4NI7A 3HOXD 5C7XA 1EERA 1ETEA 1LQSL 1Y1WD 1INRA 4MHLA 1I1RB 1D9CA 1VLKA 1WCMD 2GMFA 2XQBA 4YUEC 3I4MD 4GS7A 3HMXB 1PGRA 1BBNA 2Z3RA 3HOZD 1IARA 3DI2A 1CYLA 1RHGA 1EKUA 1Y1VD 3LB6A 4YDYI 1F45B 5C44D 2Z3QA 1HWHA 1EMRA 3NCFA 2CYKA 3DI3A 5D70A 2R7ZD 1J7VL 1HGUA 2HYMB 4FA8E 2H24A 4I77Z 4J4LC 4A3BD 4BY7D 4DKDA 1HIJA 1WU3I 1D9GA 4BY1D 2JA7D 1Y6KL 2B8ZA 1ITMA 1CSGA 2L3YA 4A3GD 1EVSA 5C3ED 5FHXA 4BXXD 3WCYI 1KF9A 1N1FA 3H0GD 2D9QA 2Q14A 1BGCA 1IJZA 3DLQI 1ILKA 3EW3A 4LRLA 1JLIA 3N06A 1HWGA 1PW6A 1A7MA 2JA5D 3HHCA 1V7MV 2E9WC 1HZIA 3G6DA 2L3OA 5D72A 2O26A 1BGDA 1LK3A 1M47A 5KNHI 2ILKA 1BGEA 5E4EA 4DKEA 4NN5A 3UF5A 2B8UA 4NKQC 3VA2A 3NCCA 3UF2A 3UX9A 1AXIA 1BUYA 1Z92A 3IRHA 3QB1A 5FUCA 4YPGC 4ZF7A 1M4RA 2B63D 1M4BA 3QWRB 1Y6NL 4RS1A 3BPNA 5LQBA 1M48A 2O27A 3PIVA 3BPLA 2B90A 1BP3A 1SCFA 2VUMD 4A3LD 1HUWA 3G9VB 4NEJA 1CD9A 4Z5RD 4ZS7A 1A22A 3DUHC 5IYCD 2R93D 1V7NV 1P9MB 5D28B 1ALUA 3OQ3A 1M4CA 3D85C 3QAZA 3QT2C 3TGXB 2JA6D 4BBSD 1GA3A 3S9DA 1BCNA 4WRLB 3NCEA 1GNCA 2OQPA 3PIWA 5D71A 3AYHA 1Y6ML 3BESL 3D87A 3Q1SI 2B8XA 5L6YC 2LMSA 2JA8D 3H3VE 5IP9D 5IYBD 3OG4A 5IP7D 3SE4B 3L5XA 4A3DD 2Q7NB 5FLMD 3INKC 3SE3B 1YKBA 2B91A 3EJJA 4DKFA 4NI9A 3HOYD 5D22A 1M4AA 1FG9A 1HIKA 2KZ1A 3D48P 1M49A 4A3ID 4GRWA 1ITFA 3HOUD 2D48A 1CN4C 3I4ND 3PO3D 4NN7A 2B5IA 4A3FD
chains in the Genus database with same CATH homology


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