3PO3E

Arrested rna polymerase ii reactivation intermediate
Total Genus 73

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
73
sequence length
214
structure length
214
Chain Sequence
DQENERNISRLWRAFRTVKEMVKDRGYFITQEEVELPLEDFKAKYCDSMGRPQRKMMSFQANPTEESISKFPDMGSLWVEFCDEPSVGVKTMKTFVIHIQEKNFQTGIFVYQNNITPSAMKLVPSIPPATIETFNEAALVVNITHHELVPKHIRLSSDEKRELLKRYRLKESQLPRIQRADPVALYLGLKRGEVVKIIRKSETSGRYASYRICM

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
AH1 (3-26)TVIII2 (140-143)S1 (28-29)S7 (131-136)S8 (152-155)S2 (60-64)AH5 (66-71)AH3 (39-46)TI1 (48-51)EMPTYAH4 (55-58)S3 (78-82)AH8 (158-168)TI2 (72-75)S4 (87-88)TIV1 (112-115)S6 (115-116)AH6 (90-103)S5 (107-112)TVIa1 (127-130)AH7 (118-122)TI3 (123-126)3H1 (137-140)AH9 (183-188)3H2 (144-146)TI4 (147-150)S10 (194-201)TII1 (191-194)S9 (177-178)TI5 (179-182)S11 (207-214)TIV4 (202-205)TIV5 (203-206)AH2 (32-36)TVIII1 (85-88)3H3 (172-174)Updating...
connected with : NaN
molecule tags Transferase/dna/rna
source organism Saccharomyces cerevisiae
publication title Structural basis of RNA polymerase II backtracking, arrest and reactivation.
pubmed doi rcsb
molecule keywords DNA-directed RNA polymerase II subunit RPB1
total genus 73
structure length 214
sequence length 214
ec nomenclature
pdb deposition date 2010-11-21

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
E PF01191 RNA_pol_Rpb5_C RNA polymerase Rpb5, C-terminal domain
E PF03871 RNA_pol_Rpb5_N RNA polymerase Rpb5, N-terminal domain
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.40.1340.10 Alpha Beta 3-Layer(aba) Sandwich Dna-directed Rna Polymerases I, Ii, And Iii 27 Kd Polypeptide; Chain: A; domain 1 RNA polymerase, Rpb5, N-terminal domain 3po3E01
3.90.940.20 Alpha Beta Alpha-Beta Complex Eukaryotic RPB6 RNA polymerase subunit RPB5-like RNA polymerase subunit 3po3E02
5IP7E 1R9TE 5M3FE 1Y1WE 5FLME 4A3DE 3S14E 3HOVE 2B63E 5M5WE 3FKIE 3S15E 3GTJE 1DZFA 1TWCE 4C3IE 4Y7NE 1I6HE 1I3QE 5C4JE 5IYCE 2NVYE 3S1QE 4A93E 4X6AE 5M5YE 3GTPE 2YU9E 2E2HE 3GTME 4BY7E 3S17E 2R93E 4AYBH 1TWFE 2JA5E 3RZOE 4A3GE 4BY1E 3I4ME 2E2IE 3HOZE 2NVXE 4A3JE 5IYBE 4A3EE 4A3IE 3CQZE 4C2ME 2JA7E 4BXXE 4A3KE 3H0GE 3S16E 2WB1H 3PO2E 3GTGE 2NVQE 3S2HE 2NVTE 2E2JE 1TWAE 1Y1VE 1K83E 4BBSE 4C3HE 3RZDE 3HOXE 3S2DE 1SFOE 3S1ME 3GTLE 1I50E 2JA6E 3HOWE 3M4OE 2PMZH 5C3EE 3HOUE 5C4XE 5M3ME 1EIKA 4QIWH 2WAQH 5M5XE 3HOYE 3S1RE 2Y0SH 3S1NE 1TWGE 5C44E 4A3BE 5FJ8E 4A3LE 5IP9E 4BBRE 2R92E 3GTKE 2JA8E 3GTOE 3I4NE 2R7ZE 3K7AE 4Y52E 4C3JE 3M3YE 3GTQE 4A3CE 1TWHE 3PO3E 1WCME 4A3FE 3HKZH 2VUME 5IYDE 3H3VF 4A3ME
chains in the Genus database with same CATH superfamily
5D4DE 5IP7E 4QIWK 1R9TE 4A3KF 3EQLE 2WAQK 5M3FE 1Y1WE 5FLME 4A3DE 3S14E 3H0GF 3HOVE 1QKLA 3PO2F 3GTGF 2NVQF 2B63E 5M5WE 2KRXA 3FKIE 1SMYE 3S2HF 4G7ZE 5TMFE 2A69E 2NVTF 3S15E 4G7OE 2E2JF 3GTMF 1TWAF 3GTJE 1DZFA 1TWCE 4C3IE 4Y7NE 1I6HE 1K83F 1I6VE 1Y1VF 4C3HF 1I3QE 5C4JE 5IYCE 2NVYE 3S1QE 4YFNE 4BBSF 4A93E 4KMUE 3RZDF 3HOXF 3S2DF 4X6AE 4XLNE 5M5YE 3GTPE 4MQ9E 1SFOF 5D4CE 2A6EE 4BXXF 2YU9E 3S1MF 2E2HE 3GTME 4BY7E 3S17E 3GTLF 3H3VG 1I50F 4Q5SE 2JA6F 2JA7F 2R93E 4AYBH 1TWFE 3HOWF 3M4OF 2JA5E 3RZOE 4A3GE 4BY1E 1HQME 3I4ME 4Q4ZE 5C3EF 3HOUF 5C4XF 3HKZK 2E2IE 5M3MF 3HOZE 2CW0E 2NVXE 3S16F 4A3JE 5D4EE 5IYBE 4A3EE 4A3IE 5M5XF 5E18E 3HOYF 3CQZE 3S1RF 4KN7E 4C2ME 5TMCE 2JA7E 4MEXE 1TWGF 3S1NF 4BXXE 4LJZE 5C44F 4OIOE 2A6HE 4A3BF 5FJ8F 4A3KE 4A3LF 5IP9F 4BBRF 2R92F 3GTKF 2JA8F 2BE5E 3H0GE 3S16E 3GTOF 5E17E 5IPLE 2WB1H 3I4NF 3PO2E 3GTGE 2NVQE 2R7ZF 3S2HE 2NVTE 3K7AF 4Y52F 2E2JE 4YG2E 4C3JF 1TWAE 3M3YF 3GTQF 1Y1VE 1K83E 4A3CF 2WB1I 4BBSE 4C3HE 1TWHF 4AYBK 3PO3F 1WCMF 3RZDE 3HOXE 3S2DE 4A3FF 1SFOE 4XSZE 4ZH4E 2VUMF 5IYDF 4A3MF 3S1ME 5IP7F 1R9TF 3GTLE 1I50E 4YFKE 5M3FF 1Y1WF 2JA6E 5FLMF 4A3DF 3S14F 3WODE 3HOVF 3HOWE 3M4OE 2PMZH 4KN4E 5C3EE 3HOUE 5C4XE 5M3ME 5M5WF 1YNJK 2B63F 3FKIF 1EIKA 2O5IE 4QIWH 2PPBE 2A68E 3S15F 2WAQH 3GTJF 4LLGE 1TWCF 4C3IF 5M5XE 4Y7NF 4OINE 1I6HF 3HOYE 4JK1E 1I3QF 5C4JF 3S1RE 2NVYF 5IYCF 2Y0SH 3S1QF 4A93F 4X6AF 3S1NE 5M5YF 3GTPF 1TWGE 4GZYE 3DXJE 4G7HE 5C44E 2YU9F 2O5JE 4A3BE 4LK0E 5FJ8E 1IW7E 4XSXE 4BY7F 4A3LE 1YNNK 2E2HF 5IP9E 4BBRE 2R92E 3S17F 3GTKE 2JA8E 3GTOE 4OIPE 2Y0SI 1TWFF 4XLPE 2R93F 2JA5F 3RZOF 3I4NE 4BY1F 4A3GF 4OIRE 3I4MF 2R7ZE 4YFXE 2E2IF 3HOZF 4MEYE 2NVXF 4OIQE 3K7AE 4A3JF 4Y52E 4C3JE 3M3YE 5IYBF 4A3EF 3GTQE 4A3IF 4A3CE 1TWHE 3CQZF 1ZYRE 4LK1E 2PMZK 3PO3E 1WCME 4C2MF 4A3FE 3HKZH 2VUME 5IYDE 3H3VF 4A3ME 5BYHE
chains in the Genus database with same CATH topology
5IP7E 1R9TE 5M3FE 1Y1WE 5FLME 4A3DE 3S14E 3HOVE 2B63E 5M5WE 3FKIE 3S15E 3GTJE 1DZFA 1TWCE 4C3IE 4Y7NE 1I6HE 1I3QE 5C4JE 5IYCE 2NVYE 3S1QE 4A93E 4X6AE 5M5YE 3GTPE 2YU9E 2E2HE 3GTME 4BY7E 3S17E 2R93E 4AYBH 1TWFE 2JA5E 3RZOE 4A3GE 4BY1E 3I4ME 2E2IE 3HOZE 2NVXE 4A3JE 5IYBE 4A3EE 4A3IE 3CQZE 4C2ME 2JA7E 4BXXE 4A3KE 3H0GE 3S16E 2WB1H 3PO2E 3GTGE 2NVQE 3S2HE 2NVTE 2E2JE 1TWAE 1Y1VE 1K83E 4BBSE 4C3HE 3RZDE 3HOXE 3S2DE 1SFOE 3S1ME 3GTLE 1I50E 2JA6E 3HOWE 3M4OE 2PMZH 5C3EE 3HOUE 5C4XE 5M3ME 1EIKA 4QIWH 2WAQH 5M5XE 3HOYE 3S1RE 2Y0SH 3S1NE 1TWGE 5C44E 4A3BE 5FJ8E 4A3LE 5IP9E 4BBRE 2R92E 3GTKE 2JA8E 3GTOE 3I4NE 2R7ZE 3K7AE 4Y52E 4C3JE 3M3YE 3GTQE 4A3CE 1TWHE 3PO3E 1WCME 4A3FE 3HKZH 2VUME 5IYDE 3H3VF 4A3ME
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 5IP7 E;  1R9T E;  5M3F E;  1Y1W E;  5FLM E;  4A3D E;  3S14 E;  3HOV E;  2B63 E;  5M5W E;  3FKI E;  3S15 E;  3GTJ E;  1DZF A;  1TWC E;  4C3I E;  4Y7N E;  1I6H E;  1I3Q E;  5C4J E;  5IYC E;  2NVY E;  3S1Q E;  4A93 E;  4X6A E;  5M5Y E;  3GTP E;  2YU9 E;  2E2H E;  3GTM E;  4BY7 E;  3S17 E;  2R93 E;  4AYB H;  1TWF E;  2JA5 E;  3RZO E;  4A3G E;  4BY1 E;  3I4M E;  2E2I E;  3HOZ E;  2NVX E;  4A3J E;  5IYB E;  4A3E E;  4A3I E;  3CQZ E;  4C2M E;  2JA7 E;  4BXX E;  4A3K E;  3H0G E;  3S16 E;  2WB1 H;  3PO2 E;  3GTG E;  2NVQ E;  3S2H E;  2NVT E;  2E2J E;  1TWA E;  1Y1V E;  1K83 E;  4BBS E;  4C3H E;  3RZD E;  3HOX E;  3S2D E;  1SFO E;  3S1M E;  3GTL E;  1I50 E;  2JA6 E;  3HOW E;  3M4O E;  2PMZ H;  5C3E E;  3HOU E;  5C4X E;  5M3M E;  1EIK A;  4QIW H;  2WAQ H;  5M5X E;  3HOY E;  3S1R E;  2Y0S H;  3S1N E;  1TWG E;  5C44 E;  4A3B E;  5FJ8 E;  4A3L E;  5IP9 E;  4BBR E;  2R92 E;  3GTK E;  2JA8 E;  3GTO E;  3I4N E;  2R7Z E;  3K7A E;  4Y52 E;  4C3J E;  3M3Y E;  3GTQ E;  4A3C E;  1TWH E;  3PO3 E;  1WCM E;  4A3F E;  3HKZ H;  2VUM E;  5IYD E;  3H3V F;  4A3M E; 
#chains in the Genus database with same CATH topology
 5D4D E;  5IP7 E;  4QIW K;  1R9T E;  4A3K F;  3EQL E;  2WAQ K;  5M3F E;  1Y1W E;  5FLM E;  4A3D E;  3S14 E;  3H0G F;  3HOV E;  1QKL A;  3PO2 F;  3GTG F;  2NVQ F;  2B63 E;  5M5W E;  2KRX A;  3FKI E;  1SMY E;  3S2H F;  4G7Z E;  5TMF E;  2A69 E;  2NVT F;  3S15 E;  4G7O E;  2E2J F;  3GTM F;  1TWA F;  3GTJ E;  1DZF A;  1TWC E;  4C3I E;  4Y7N E;  1I6H E;  1K83 F;  1I6V E;  1Y1V F;  4C3H F;  1I3Q E;  5C4J E;  5IYC E;  2NVY E;  3S1Q E;  4YFN E;  4BBS F;  4A93 E;  4KMU E;  3RZD F;  3HOX F;  3S2D F;  4X6A E;  4XLN E;  5M5Y E;  3GTP E;  4MQ9 E;  1SFO F;  5D4C E;  2A6E E;  4BXX F;  2YU9 E;  3S1M F;  2E2H E;  3GTM E;  4BY7 E;  3S17 E;  3GTL F;  3H3V G;  1I50 F;  4Q5S E;  2JA6 F;  2JA7 F;  2R93 E;  4AYB H;  1TWF E;  3HOW F;  3M4O F;  2JA5 E;  3RZO E;  4A3G E;  4BY1 E;  1HQM E;  3I4M E;  4Q4Z E;  5C3E F;  3HOU F;  5C4X F;  3HKZ K;  2E2I E;  5M3M F;  3HOZ E;  2CW0 E;  2NVX E;  3S16 F;  4A3J E;  5D4E E;  5IYB E;  4A3E E;  4A3I E;  5M5X F;  5E18 E;  3HOY F;  3CQZ E;  3S1R F;  4KN7 E;  4C2M E;  5TMC E;  2JA7 E;  4MEX E;  1TWG F;  3S1N F;  4BXX E;  4LJZ E;  5C44 F;  4OIO E;  2A6H E;  4A3B F;  5FJ8 F;  4A3K E;  4A3L F;  5IP9 F;  4BBR F;  2R92 F;  3GTK F;  2JA8 F;  2BE5 E;  3H0G E;  3S16 E;  3GTO F;  5E17 E;  5IPL E;  2WB1 H;  3I4N F;  3PO2 E;  3GTG E;  2NVQ E;  2R7Z F;  3S2H E;  2NVT E;  3K7A F;  4Y52 F;  2E2J E;  4YG2 E;  4C3J F;  1TWA E;  3M3Y F;  3GTQ F;  1Y1V E;  1K83 E;  4A3C F;  2WB1 I;  4BBS E;  4C3H E;  1TWH F;  4AYB K;  3PO3 F;  1WCM F;  3RZD E;  3HOX E;  3S2D E;  4A3F F;  1SFO E;  4XSZ E;  4ZH4 E;  2VUM F;  5IYD F;  4A3M F;  3S1M E;  5IP7 F;  1R9T F;  3GTL E;  1I50 E;  4YFK E;  5M3F F;  1Y1W F;  2JA6 E;  5FLM F;  4A3D F;  3S14 F;  3WOD E;  3HOV F;  3HOW E;  3M4O E;  2PMZ H;  4KN4 E;  5C3E E;  3HOU E;  5C4X E;  5M3M E;  5M5W F;  1YNJ K;  2B63 F;  3FKI F;  1EIK A;  2O5I E;  4QIW H;  2PPB E;  2A68 E;  3S15 F;  2WAQ H;  3GTJ F;  4LLG E;  1TWC F;  4C3I F;  5M5X E;  4Y7N F;  4OIN E;  1I6H F;  3HOY E;  4JK1 E;  1I3Q F;  5C4J F;  3S1R E;  2NVY F;  5IYC F;  2Y0S H;  3S1Q F;  4A93 F;  4X6A F;  3S1N E;  5M5Y F;  3GTP F;  1TWG E;  4GZY E;  3DXJ E;  4G7H E;  5C44 E;  2YU9 F;  2O5J E;  4A3B E;  4LK0 E;  5FJ8 E;  1IW7 E;  4XSX E;  4BY7 F;  4A3L E;  1YNN K;  2E2H F;  5IP9 E;  4BBR E;  2R92 E;  3S17 F;  3GTK E;  2JA8 E;  3GTO E;  4OIP E;  2Y0S I;  1TWF F;  4XLP E;  2R93 F;  2JA5 F;  3RZO F;  3I4N E;  4BY1 F;  4A3G F;  4OIR E;  3I4M F;  2R7Z E;  4YFX E;  2E2I F;  3HOZ F;  4MEY E;  2NVX F;  4OIQ E;  3K7A E;  4A3J F;  4Y52 E;  4C3J E;  3M3Y E;  5IYB F;  4A3E F;  3GTQ E;  4A3I F;  4A3C E;  1TWH E;  3CQZ F;  1ZYR E;  4LK1 E;  2PMZ K;  3PO3 E;  1WCM E;  4C2M F;  4A3F E;  3HKZ H;  2VUM E;  5IYD E;  3H3V F;  4A3M E;  5BYH E; 
#chains in the Genus database with same CATH homology
 5IP7 E;  1R9T E;  5M3F E;  1Y1W E;  5FLM E;  4A3D E;  3S14 E;  3HOV E;  2B63 E;  5M5W E;  3FKI E;  3S15 E;  3GTJ E;  1DZF A;  1TWC E;  4C3I E;  4Y7N E;  1I6H E;  1I3Q E;  5C4J E;  5IYC E;  2NVY E;  3S1Q E;  4A93 E;  4X6A E;  5M5Y E;  3GTP E;  2YU9 E;  2E2H E;  3GTM E;  4BY7 E;  3S17 E;  2R93 E;  4AYB H;  1TWF E;  2JA5 E;  3RZO E;  4A3G E;  4BY1 E;  3I4M E;  2E2I E;  3HOZ E;  2NVX E;  4A3J E;  5IYB E;  4A3E E;  4A3I E;  3CQZ E;  4C2M E;  2JA7 E;  4BXX E;  4A3K E;  3H0G E;  3S16 E;  2WB1 H;  3PO2 E;  3GTG E;  2NVQ E;  3S2H E;  2NVT E;  2E2J E;  1TWA E;  1Y1V E;  1K83 E;  4BBS E;  4C3H E;  3RZD E;  3HOX E;  3S2D E;  1SFO E;  3S1M E;  3GTL E;  1I50 E;  2JA6 E;  3HOW E;  3M4O E;  2PMZ H;  5C3E E;  3HOU E;  5C4X E;  5M3M E;  1EIK A;  4QIW H;  2WAQ H;  5M5X E;  3HOY E;  3S1R E;  2Y0S H;  3S1N E;  1TWG E;  5C44 E;  4A3B E;  5FJ8 E;  4A3L E;  5IP9 E;  4BBR E;  2R92 E;  3GTK E;  2JA8 E;  3GTO E;  3I4N E;  2R7Z E;  3K7A E;  4Y52 E;  4C3J E;  3M3Y E;  3GTQ E;  4A3C E;  1TWH E;  3PO3 E;  1WCM E;  4A3F E;  3HKZ H;  2VUM E;  5IYD E;  3H3V F;  4A3M E; 
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