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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molecule tags Transcription
source organism Saccharomyces cerevisiae
publication title Structures of RNA polymerase II complexes with Bye1, a chromatin-binding PHF3/DIDO homologue.
pubmed doi rcsb
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
4C3HE 3M3YE 4C3JE 1TWCE 2R93E 4C2ME 3GTJE 5M5XE 4A3ME 3HOUE 1WCME 2WB1H 3GTLE 3FKIE 3H3VF 4X6AE 2WAQH 1TWHE 4A3KE 4A3LE 4A3EE 3I4ME 3S17E 4C3IE 4Y52E 3HOVE 2JA7E 5C3EE 3PO2E 2R7ZE 4A3JE 4BBRE 3S1ME 2PMZH 4A3DE 4BXXE 1I3QE 3GTKE 4BY7E 1Y1WE 1Y1VE 5IP7E 3RZOE 2NVYE 4BY1E 5FJ8E 2JA8E 3H0GE 5IYDE 3GTQE 4QIWH 3RZDE 3GTPE 4Y7NE 2JA5E 1I6HE 2NVXE 3CQZE 2R92E 5IYCE 5IP9E 2VUME 3K7AE 3GTGE 3HOWE 4A3CE 2E2JE 5M5YE 2B63E 2Y0SH 5C44E 5IYBE 1TWFE 3S15E 3S14E 2E2IE 3I4NE 3HOZE 4BBSE 5M3FE 5C4XE 1SFOE 3S2HE 1DZFA 3HOYE 3S1NE 3PO3E 3S2DE 3GTME 4A3BE 2NVTE 3HOXE 4A93E 3S1QE 1TWGE 1R9TE 1I50E 2JA6E 2NVQE 2YU9E 4A3IE 4A3GE 4AYBH 5C4JE 1EIKA 3GTOE 2E2HE 1K83E 4A3FE 3HKZH 3M4OE 3S1RE 1TWAE 5M5WE 3S16E 5FLME 5M3ME
chains in the Genus database with same CATH superfamily
5D4EE 1SFOF 3EQLE 3HKZK 4C3HE 3M3YE 1QKLA 5IPLE 4C3HF 3M3YF 4C3JE 1TWCE 2R93E 4MEXE 4C3JF 5E18E 2R93F 4C2ME 3GTJE 3DXJE 5TMCE 4C2MF 3GTJF 2NVTF 5M5XE 4A3ME 5M5XF 3HOUE 2KRXA 4A3MF 4G7ZE 3HOUF 1WCME 2WB1H 3GTLE 3FKIE 3H3VF 4X6AE 3GTLF 3FKIF 2WAQH 2NVQF 4X6AF 1TWHE 4OIQE 4ZH4E 1TWHF 4A3KE 4A3LE 4A3KF 4A3EE 4A3LF 4A3GF 3I4ME 5E17E 3I4MF 3S17E 4G7OE 4LK0E 4C3IE 3S17F 4Q4ZE 2E2HF 1K83F 2WAQK 4Y52E 3HOVE 3S1RF 4Y52F 3S16F 4YG2E 2JA7E 5C3EE 5FLMF 3H3VG 3PO2E 1YNJK 2R7ZE 5M3MF 2JA7F 3PO2F 2R7ZF 4XLNE 4YFNE 4A3JE 4BBRE 3S1ME 2PMZH 4A3JF 4BBRF 4A3DE 4BXXE 3S1MF 1HQME 3WODE 4YFKE 1TWCF 1I3QE 3GTKE 4BY7E 4G7HE 1I3QF 3GTKF 4BY7F 5BYHE 2CW0E 2O5JE 4Q5SE 1Y1WE 1Y1VE 2PMZK 1Y1WF 1Y1VF 2O5IE 5IP7E 1WCMF 3RZOE 2A6HE 5IP7F 2NVYE 3RZOF 4BY1E 2NVYF 5FJ8E 1ZYRE 2JA8E 3H0GE 5IYDE 5FJ8F 3GTQE 1I6VE 5IYDF 4A3EF 3GTQF 2A69E 3RZDE 4QIWH 3GTPE 4OINE 3RZDF 4C3IF 5TMFE 3GTPF 4GZYE 4Y7NE 2WB1I 2JA5E 4Y7NF 3HOVF 1I6HE 2NVXE 5C3EF 3CQZE 1I6HF 2R92E 2NVXF 3CQZF 4QIWK 4XSZE 5IYCE 5IP9E 2R92F 5IP9F 5IYCF 2VUME 3K7AE 3GTGE 2VUMF 3HOWE 3K7AF 3GTGF 4A3CE 4LJZE 3HOWF 4BXXF 4A3DF 4A3CF 2E2JE 2E2JF 4OIPE 5M5YE 2B63E 2A6EE 4KN4E 2Y0SH 5C44E 5M5YF 2B63F 5IYBE 4LK1E 5IYBF 1TWFE 3S15E 3S14E 1TWFF 2E2IE 3S15F 3S14F 1YNNK 2E2IF 2A68E 3I4NE 4BY1F 3I4NF 2JA8F 3H0GF 4XSXE 3HOZE 3HOZF 4OIOE 4BBSE 5M3FE 5C4XE 1SFOE 2BE5E 5M3FF 5C4XF 1IW7E 3S2HE 1DZFA 2JA5F 3S2HF 3HOYE 3S1NE 3PO3E 3HOYF 3S2DE 3PO3F 3GTME 3S1NF 3S2DF 4KN7E 3GTMF 4A3BE 2NVTE 4A3BF 3HOXE 4XLPE 3HOXF 4MQ9E 4A93E 3S1QE 4A93F 4OIRE 1TWGE 1R9TE 3S1QF 1I50E 2JA6E 2NVQE 1TWGF 4MEYE 1I50F 1R9TF 2PPBE 2YU9E 4A3IE 2JA6F 1SMYE 2YU9F 4KMUE 4A3IF 4LLGE 4A3GE 4AYBH 5C44F 5D4CE 5D4DE 5C4JE 1EIKA 5C4JF 3GTOE 4YFXE 2E2HE 3GTOF 1K83E 4A3FE 3HKZH 4A3FF 3M4OE 3S1RE 1TWAE 5M5WE 4JK1E 3M4OF 3S16E 1TWAF 5M5WF 5FLME 4AYBK 5M3ME 2Y0SI 4BBSF
chains in the Genus database with same CATH topology
4C3HE 3M3YE 4C3JE 1TWCE 2R93E 4C2ME 3GTJE 5M5XE 4A3ME 3HOUE 1WCME 2WB1H 3GTLE 3FKIE 3H3VF 4X6AE 2WAQH 1TWHE 4A3KE 4A3LE 4A3EE 3I4ME 3S17E 4C3IE 4Y52E 3HOVE 2JA7E 5C3EE 3PO2E 2R7ZE 4A3JE 4BBRE 3S1ME 2PMZH 4A3DE 4BXXE 1I3QE 3GTKE 4BY7E 1Y1WE 1Y1VE 5IP7E 3RZOE 2NVYE 4BY1E 5FJ8E 2JA8E 3H0GE 5IYDE 3GTQE 4QIWH 3RZDE 3GTPE 4Y7NE 2JA5E 1I6HE 2NVXE 3CQZE 2R92E 5IYCE 5IP9E 2VUME 3K7AE 3GTGE 3HOWE 4A3CE 2E2JE 5M5YE 2B63E 2Y0SH 5C44E 5IYBE 1TWFE 3S15E 3S14E 2E2IE 3I4NE 3HOZE 4BBSE 5M3FE 5C4XE 1SFOE 3S2HE 1DZFA 3HOYE 3S1NE 3PO3E 3S2DE 3GTME 4A3BE 2NVTE 3HOXE 4A93E 3S1QE 1TWGE 1R9TE 1I50E 2JA6E 2NVQE 2YU9E 4A3IE 4A3GE 4AYBH 5C4JE 1EIKA 3GTOE 2E2HE 1K83E 4A3FE 3HKZH 3M4OE 3S1RE 1TWAE 5M5WE 3S16E 5FLME 5M3ME
chains in the Genus database with same CATH homology


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