1Y1VE

Refined rna polymerase ii-tfiis complex
Total Genus 47
Loading diagram...

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
47
sequence length
214
structure length
214
Chain Sequence
DQENERNISRLWRAFRTVKEMVKDRGYFITQEEVELPLEDFKAKYCDSMGRPQRKMMSFQANPTEESISKFPDMGSLWVEFCDEPSVGVKTMKTFVIHIQEKNFQTGIFVYQNNITPSAMKLVPSIPPATIETFNEAALVVNITHHELVPKHIRLSSDEKRELLKRYRLKESQLPRIQRADPVALYLGLKRGEVVKIIRKSETSGRYASYRICM
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
{{ tooltip.sname }} connected with {{ tooltip.tname }} : {{qFormat(tooltip.svalue) }}
molecule tags Transferase/transcription
molecule keywords DNA-directed RNA polymerase II largest subunit
publication title Complete RNA polymerase II elongation complex structure and its interactions with NTP and TFIIS.
pubmed doi rcsb
source organism Saccharomyces cerevisiae
total genus 47
structure length 214
sequence length 214
ec nomenclature
pdb deposition date 2004-11-19

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 1y1vE01
3.90.940.20 Alpha Beta Alpha-Beta Complex Eukaryotic RPB6 RNA polymerase subunit RPB5-like RNA polymerase subunit 1y1vE02
5FLME 3M4OE 2WB1H 4A93E 5M3ME 3GTKE 1I6HE 3HOYE 5M5XE 4BY7E 5C4XE 3H3VF 3S1NE 3RZDE 3GTQE 3GTME 3GTGE 3M3YE 3I4ME 2NVQE 3S2DE 4BY1E 3S1ME 4C2ME 4A3GE 5IP9E 3S1RE 2WAQH 3GTJE 4A3ME 2JA6E 3S14E 4BBRE 5C3EE 1TWCE 5IP7E 2NVYE 2Y0SH 3S1QE 4A3BE 1R9TE 3PO3E 3GTLE 4AYBH 5C44E 3K7AE 2R93E 1I50E 5M5YE 1I3QE 4A3FE 3HOVE 2PMZH 5M3FE 2VUME 3I4NE 1TWFE 2YU9E 3PO2E 3HOZE 5FJ8E 2NVXE 2E2HE 4X6AE 3S16E 2R7ZE 3HOUE 5IYBE 1TWHE 3S15E 4A3LE 3H0GE 1Y1WE 3RZOE 5IYCE 3FKIE 4C3HE 4C3JE 3S2HE 2JA7E 2B63E 4BBSE 1EIKA 2E2JE 5IYDE 3GTPE 4A3CE 1SFOE 3GTOE 4C3IE 3S17E 1DZFA 5C4JE 1TWGE 4A3EE 3HKZH 4A3IE 3CQZE 1K83E 4QIWH 1WCME 2R92E 2E2IE 1TWAE 3HOXE 1Y1VE 4A3KE 4BXXE 4Y7NE 5M5WE 2NVTE 2JA5E 4A3JE 4Y52E 4A3DE 3HOWE 2JA8E
chains in the Genus database with same CATH superfamily
3HOZF 5FLME 3M4OE 1TWGF 4A3EF 5IPLE 2E2HF 2WB1H 3EQLE 4A93E 3S16F 5M3ME 3GTKE 1I6HE 2A68E 3HOYE 2A6EE 1K83F 1WCMF 2R92F 2Y0SI 2E2IF 5M5XE 4BY7E 2PMZK 5C4XE 3H3VF 1TWAF 3S1NE 3HOXF 1Y1VF 4BXXF 3H0GF 4MEXE 4Y7NF 3RZDE 3GTQE 1YNJK 2WAQK 3GTME 3GTGE 3M3YE 3I4ME 4YFNE 2NVTF 3FKIF 4C3HF 5TMFE 2JA5F 4Q4ZE 4LK0E 2NVQE 4A3JF 3H3VG 3S2DE 4OIRE 2CW0E 4A3DF 5E17E 1I6HF 2JA8F 4BY1E 1HQME 3S1ME 4C2ME 3GTOF 4C3IF 4A3GE 4KN4E 5IP9E 2KRXA 3S1RE 2WAQH 4A93F 4LJZE 5M3MF 3GTKF 4ZH4E 3GTJE 4A3ME 2JA6E 5C4JF 3S14E 4BBRE 5C3EE 1TWCE 5IP7E 1SMYE 4A3IF 4BY7F 5M5XF 2NVYE 5C4XF 2Y0SH 3CQZF 3S1NF 3S1QE 4A3BE 3RZDF 1R9TE 3GTQF 3GTMF 3GTGF 3I4MF 3PO3E 4MQ9E 3GTLE 4KN7E 4AYBH 5C44E 4A3KF 1ZYRE 3K7AE 3S2DF 2R93E 5M5WF 4YFKE 1I50E 4C2MF 5M5YE 4A3GF 3HKZK 4LLGE 5IP9F 1I3QE 4A3FE 4Y52F 3HOWF 3HOVE 2PMZH 5M3FE 2VUME 3I4NE 1TWFE 4QIWK 4MEYE 5FLMF 4AYBK 4G7ZE 4A3MF 2JA6F 3M4OF 4BBRF 5C3EF 2PPBE 2YU9E 3PO2E 4YG2E 4G7HE 4OIQE 4XLNE 3HOZE 3HOYF 5FJ8E 4A3BF 3S1QF 2NVXE 1R9TF 2E2HE 4X6AE 3S16E 3DXJE 2R7ZE 3PO3F 3HOUE 4G7OE 2O5JE 5IYBE 1TWHE 5C44F 3S15E 3S14F 3K7AF 4GZYE 2R93F 4A3LE 3M3YF 1YNNK 5D4CE 4Q5SE 2NVQF 3H0GE 2A69E 5M5YF 5D4DE 1Y1WE 3RZOE 4A3FF 5IYCE 3HOVF 4LK1E 3FKIE 4C3HE 4C3JE 3S2HE 4BY1F 2VUMF 2JA7E 3S1MF 2B63E 4BBSE 1EIKA 2YU9F 3PO2F 2E2JE 3S1RF 5IYDE 3GTPE 4A3CE 2BE5E 1SFOE 3GTOE 3GTJF 4C3IE 4OIOE 3S17E 5FJ8F 4XLPE 1TWCF 1DZFA 5IP7F 2NVXF 2A6HE 4X6AF 4OIPE 2NVYF 3HOUF 2R7ZF 5IYBF 1I6VE 5C4JE 1TWHF 2WB1I 1TWGE 5TMCE 4A3EE 5D4EE 5BYHE 3S15F 3HKZH 4A3LF 1IW7E 4A3IE 5E18E 4XSZE 3GTLF 3CQZE 1K83E 4QIWH 1WCME 2R92E 1Y1WF 3RZOF 2E2IE 5IYCF 4XSXE 2O5IE 4C3JF 3S2HF 1TWAE 1I50F 2JA7F 3HOXE 1Y1VE 4A3KE 4BXXE 4JK1E 4YFXE 2B63F 4Y7NE 4BBSF 1I3QF 5M5WE 2E2JF 2NVTE 5IYDF 3GTPF 4A3CF 5M3FF 2JA5E 1SFOF 1TWFF 3I4NF 4A3JE 4KMUE 3S17F 4Y52E 3WODE 4A3DE 3HOWE 1QKLA 4OINE 2JA8E
chains in the Genus database with same CATH topology
5FLME 3M4OE 2WB1H 4A93E 5M3ME 3GTKE 1I6HE 3HOYE 5M5XE 4BY7E 5C4XE 3H3VF 3S1NE 3RZDE 3GTQE 3GTME 3GTGE 3M3YE 3I4ME 2NVQE 3S2DE 4BY1E 3S1ME 4C2ME 4A3GE 5IP9E 3S1RE 2WAQH 3GTJE 4A3ME 2JA6E 3S14E 4BBRE 5C3EE 1TWCE 5IP7E 2NVYE 2Y0SH 3S1QE 4A3BE 1R9TE 3PO3E 3GTLE 4AYBH 5C44E 3K7AE 2R93E 1I50E 5M5YE 1I3QE 4A3FE 3HOVE 2PMZH 5M3FE 2VUME 3I4NE 1TWFE 2YU9E 3PO2E 3HOZE 5FJ8E 2NVXE 2E2HE 4X6AE 3S16E 2R7ZE 3HOUE 5IYBE 1TWHE 3S15E 4A3LE 3H0GE 1Y1WE 3RZOE 5IYCE 3FKIE 4C3HE 4C3JE 3S2HE 2JA7E 2B63E 4BBSE 1EIKA 2E2JE 5IYDE 3GTPE 4A3CE 1SFOE 3GTOE 4C3IE 3S17E 1DZFA 5C4JE 1TWGE 4A3EE 3HKZH 4A3IE 3CQZE 1K83E 4QIWH 1WCME 2R92E 2E2IE 1TWAE 3HOXE 1Y1VE 4A3KE 4BXXE 4Y7NE 5M5WE 2NVTE 2JA5E 4A3JE 4Y52E 4A3DE 3HOWE 2JA8E
chains in the Genus database with same CATH homology


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

 
#similar chains in the Genus database (?% sequence similarity)
...loading similar chains, please wait...
#similar chains, but unknotted
...loading similar chains, please wait...
#similar chains in the pdb database (?% sequence similarity)
...loading similar chains, please wait...