4BY7E

Elongating rna polymerase ii-bye1 tld complex
Total Genus 63
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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
63
sequence length
215
structure length
215
Chain Sequence
MDQENERNISRLWRAFRTVKEMVKDRGYFITQEEVELPLEDFKAKYCDSMGRPQRKMMSFQANPTEESISKFPDMGSLWVEFCDEPSVGVKTMKTFVIHIQEKNFQTGIFVYQNNITPSAMKLVPSIPPATIETFNEAALVVNITHHELVPKHIRLSSDEKRELLKRYRLKESQLPRIQRADPVALYLGLKRGEVVKIIRKSETSGRYASYRICM
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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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publication title Structures of RNA polymerase II complexes with Bye1, a chromatin-binding PHF3/DIDO homologue.
pubmed doi rcsb
source organism Saccharomyces cerevisiae
molecule tags Transcription
molecule keywords DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1
total genus 63
structure length 215
sequence length 215
ec nomenclature
pdb deposition date 2013-07-18

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 4by7E01
3.90.940.20 Alpha Beta Alpha-Beta Complex Eukaryotic RPB6 RNA polymerase subunit RPB5-like RNA polymerase subunit 4by7E02
1TWAE 4C2ME 1DZFA 3HOXE 5C4JE 1I50E 3M3YE 3S1QE 2NVTE 3H3VF 5FJ8E 3H0GE 1Y1VE 2E2HE 4BXXE 5M5YE 4C3IE 1TWCE 1WCME 4A3KE 1Y1WE 3HOUE 3CQZE 2R93E 3HOVE 2E2IE 5IYCE 3I4NE 2WAQH 3GTJE 2NVYE 3FKIE 4C3HE 1TWFE 3GTQE 2JA7E 5M3ME 2JA5E 4QIWH 5FLME 4BY7E 3HKZH 4A3BE 2PMZH 3S1ME 4A3FE 3S2DE 2B63E 3S17E 2R7ZE 3HOYE 4A3LE 3S1RE 4A3IE 5IP9E 5M5XE 3S15E 1SFOE 5C4XE 2WB1H 4BY1E 1TWGE 4C3JE 1TWHE 4Y7NE 1I3QE 3K7AE 1R9TE 3RZOE 2NVQE 3PO3E 2VUME 3GTKE 4A3DE 1EIKA 1I6HE 5IP7E 4BBRE 3HOWE 5C3EE 3S1NE 3GTPE 2JA6E 4AYBH 3GTME 4A3GE 4A3ME 5IYBE 3RZDE 3GTOE 3M4OE 3GTGE 5C44E 4X6AE 5M3FE 3S14E 3S16E 2E2JE 4A3JE 4A3CE 5M5WE 3GTLE 3PO2E 2Y0SH 5IYDE 2JA8E 2YU9E 2R92E 3HOZE 4A3EE 4Y52E 4BBSE 2NVXE 3I4ME 4A93E 1K83E 3S2HE
chains in the Genus database with same CATH superfamily
1TWAE 2KRXA 4C2ME 1DZFA 3HOXE 3GTKF 5C4JE 1I50E 3M3YE 5IP7F 5M5WF 4LLGE 3HOVF 5IYCF 5E18E 3S1QE 2O5IE 3S15F 5IPLE 2NVTE 1SMYE 3S2DF 3H3VF 3GTMF 3S2HF 5IYDF 5FJ8E 1TWFF 2R7ZF 2JA5F 3GTOF 3H0GE 4QIWK 2BE5E 1Y1VE 1I6HF 2E2HE 4BXXE 5M5YE 4BBSF 4C3IE 1TWCE 2JA6F 3I4NF 3S16F 5D4EE 1WCME 4A3JF 4G7OE 2NVQF 1TWAF 2JA7F 4YFXE 4A3KE 4XLNE 4GZYE 1Y1WE 4YG2E 3M4OF 2VUMF 1IW7E 3HOUE 3CQZE 2CW0E 4MEXE 2R93E 3DXJE 3GTLF 4XSZE 4G7HE 3HOVE 2E2IE 3S17F 5IYCE 3HOYF 3I4NE 2WAQH 3HOZF 3GTJE 3HKZK 2NVYE 3FKIE 4A3CF 4C3HE 1TWFE 3GTQE 2JA7E 5M3ME 4A3KF 2JA5E 3H0GF 4OIOE 4QIWH 4OIPE 4XSXE 4C3IF 2A68E 2E2IF 5FLME 4BY7E 1ZYRE 3WODE 3HKZH 1TWGF 4XLPE 3HOXF 3M3YF 4A3BE 2PMZH 4A3IF 5M3MF 1I3QF 3S1ME 4A3FE 3I4MF 4KMUE 3S2DE 1K83F 2B63E 3PO2F 3PO3F 3S17E 5C4XF 2R7ZE 3HOYE 4BY1F 5FJ8F 4A3LE 5M3FF 2A69E 2JA8F 1TWHF 3S1RE 4MEYE 2R92F 4A3IE 5IP9E 3HOWF 3K7AF 1R9TF 3RZOF 5M5XE 4A3BF 3S15E 3S1QF 4A3FF 3GTPF 5E17E 4A93F 1WCMF 1YNNK 1SFOE 5C4XE 2WB1H 4BY1E 1QKLA 4YFKE 4A3GF 5IYBF 1TWGE 4Q4ZE 4C3JE 1TWHE 4A3EF 5C4JF 3GTGF 4Y7NE 5C44F 1I3QE 2O5JE 3K7AE 1R9TE 3RZOE 2WB1I 4MQ9E 5M5XF 2NVXF 2NVTF 2NVQE 2NVYF 3PO3E 3FKIF 5TMCE 5BYHE 4A3LF 4LK1E 3RZDF 1Y1WF 2VUME 3GTKE 4A3DE 1I50F 1EIKA 2R93F 4Q5SE 1I6HE 1Y1VF 5IP7E 4BBRE 3HOWE 5C3EE 5IP9F 3S1NE 4X6AF 3GTPE 4JK1E 2JA6E 4AYBH 2E2JF 3GTJF 1SFOF 3GTME 4A3GE 4A3ME 1I6VE 5IYBE 3EQLE 3RZDE 3GTOE 3M4OE 3S14F 4G7ZE 3GTGE 5M5YF 5C44E 2PMZK 5C3EF 4KN4E 4X6AE 3S1NF 5M3FE 2A6EE 3S14E 2YU9F 3S16E 2E2JE 4OINE 4A3JE 4Y52F 2A6HE 4A3CE 4ZH4E 4OIRE 4KN7E 5M5WE 2Y0SI 2WAQK 4A3MF 5D4DE 4A3DF 3GTLE 3CQZF 3PO2E 2Y0SH 2B63F 4BBRF 3HOUF 4LK0E 2PPBE 4YFNE 5IYDE 1YNJK 4C2MF 4BY7F 2JA8E 5FLMF 2YU9E 2R92E 1HQME 4C3JF 5D4CE 3HOZE 4A3EE 4AYBK 3S1RF 4Y52E 4OIQE 4C3HF 4BBSE 5TMFE 2E2HF 4Y7NF 3GTQF 4BXXF 1TWCF 2NVXE 3I4ME 4A93E 3S1MF 4LJZE 3H3VG 1K83E 3S2HE
chains in the Genus database with same CATH topology
1TWAE 4C2ME 1DZFA 3HOXE 5C4JE 1I50E 3M3YE 3S1QE 2NVTE 3H3VF 5FJ8E 3H0GE 1Y1VE 2E2HE 4BXXE 5M5YE 4C3IE 1TWCE 1WCME 4A3KE 1Y1WE 3HOUE 3CQZE 2R93E 3HOVE 2E2IE 5IYCE 3I4NE 2WAQH 3GTJE 2NVYE 3FKIE 4C3HE 1TWFE 3GTQE 2JA7E 5M3ME 2JA5E 4QIWH 5FLME 4BY7E 3HKZH 4A3BE 2PMZH 3S1ME 4A3FE 3S2DE 2B63E 3S17E 2R7ZE 3HOYE 4A3LE 3S1RE 4A3IE 5IP9E 5M5XE 3S15E 1SFOE 5C4XE 2WB1H 4BY1E 1TWGE 4C3JE 1TWHE 4Y7NE 1I3QE 3K7AE 1R9TE 3RZOE 2NVQE 3PO3E 2VUME 3GTKE 4A3DE 1EIKA 1I6HE 5IP7E 4BBRE 3HOWE 5C3EE 3S1NE 3GTPE 2JA6E 4AYBH 3GTME 4A3GE 4A3ME 5IYBE 3RZDE 3GTOE 3M4OE 3GTGE 5C44E 4X6AE 5M3FE 3S14E 3S16E 2E2JE 4A3JE 4A3CE 5M5WE 3GTLE 3PO2E 2Y0SH 5IYDE 2JA8E 2YU9E 2R92E 3HOZE 4A3EE 4Y52E 4BBSE 2NVXE 3I4ME 4A93E 1K83E 3S2HE
chains in the Genus database with same CATH homology


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