3S15F

Rna polymerase ii initiation complex with a 7-nt rna
Total Genus 22
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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
22
sequence length
85
structure length
85
Chain Sequence
EKAIPKDQRATTPYMTKYERARILGTRALQISMNAPVFVDLEGETDPLRIAMKELAEKKIPLVIRRYLPDGSFEDWSVEELIVDL
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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/rna/dna
molecule keywords DNA-directed RNA polymerase II subunit RPB1
publication title Initiation complex structure and promoter proofreading.
pubmed doi rcsb
total genus 22
structure length 85
sequence length 85
ec nomenclature
pdb deposition date 2011-05-14

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
F PF01192 RNA_pol_Rpb6 RNA polymerase Rpb6
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.90.940.10 Alpha Beta Alpha-Beta Complex Eukaryotic RPB6 RNA polymerase subunit Eukaryotic RPB6 RNA polymerase subunit 3s15F00
3I4MF 3H3VG 3S2HF 4C3IF 5C4JF 4MEYE 3M3YF 3M4OF 2JA8F 4A3DF 4A3JF 1YNJK 1TWCF 4G7HE 2A68E 2E2IF 4A3BF 4C3JF 3H0GF 3S17F 4KN7E 3GTOF 5M3FF 4KN4E 4OIOE 2A6HE 4BXXF 2R93F 2CW0E 4LLGE 1SFOF 5C4XF 5IYBF 2BE5E 3HOWF 2Y0SI 2JA7F 2NVTF 1I50F 5M5YF 2NVQF 2R7ZF 3S2DF 1Y1WF 1K83F 5TMFE 4Q4ZE 4GZYE 4MQ9E 5IYCF 2NVYF 4XSZE 1HQME 4Y7NF 2A6EE 4A3MF 3PO3F 2A69E 2NVXF 5IPLE 3HKZK 3GTKF 5E17E 2R92F 3GTLF 5TMCE 1I6HF 4OIQE 3S1MF 2PMZK 4A3GF 1IW7E 4C2MF 4A3KF 4BY7F 1ZYRE 3EQLE 2WAQK 1TWAF 4BBSF 4YG2E 2WB1I 3S14F 1QKLA 1WCMF 4XLPE 2JA5F 5IYDF 4BY1F 3S1RF 2JA6F 3S15F 4C3HF 3HOVF 4Q5SE 1R9TF 4MEXE 4A3LF 5C3EF 4XLNE 2O5IE 4A3FF 5M5WF 4YFKE 4YFXE 1TWFF 4OIRE 5D4DE 5M3MF 5FLMF 5D4EE 2VUMF 4XSXE 3GTMF 3HOYF 5E18E 5M5XF 1Y1VF 4Y52F 2YU9F 3S16F 2E2HF 4KMUE 5IP9F 3CQZF 2B63F 2E2JF 3GTQF 4OIPE 3I4NF 3RZOF 4A3CF 4A3IF 4X6AF 5FJ8F 3GTPF 4LJZE 1I3QF 3K7AF 1TWHF 3RZDF 5BYHE 2O5JE 4BBRF 4OINE 4A3EF 3S1QF 4JK1E 3HOZF 4A93F 3HOXF 3FKIF 3GTGF 4LK1E 1TWGF 5IP7F 1SMYE 1YNNK 5D4CE 4G7ZE 5C44F 4ZH4E 3HOUF 4LK0E 3WODE 3GTJF 1I6VE 3DXJE 4G7OE 4YFNE 3S1NF 3PO2F 4AYBK 2PPBE
chains in the Genus database with same CATH superfamily
3I4MF 3H3VG 3S2HF 1SFOE 4C3IF 5C4JF 4MEYE 3M3YF 3M4OF 2JA7E 2JA8F 4AYBH 4A3DF 1I50E 4A3JF 1TWAE 1YNJK 2R7ZE 1TWCF 4G7HE 2A68E 2E2IF 3S2DE 4A3BF 4BBSE 4C3JF 3H0GF 5IYDE 4BY1E 3S17F 4KN7E 4C3HE 3GTOF 5M3FF 3HOVE 3S15E 1R9TE 2NVYE 4KN4E 4OIOE 2A6HE 4A3LE 4Y7NE 4BXXF 5C3EE 2CW0E 2R93F 4LLGE 4A3ME 1SFOF 5C4XF 5IYBF 2BE5E 3HOWF 2Y0SI 1TWFE 2JA7F 2NVTF 1I50F 5M5YF 2NVQF 2R7ZF 2VUME 3S2DF 3HOYE 1Y1WF 1K83F 5TMFE 4C2ME 4A3KE 4BY7E 4Q4ZE 4GZYE 4MQ9E 5IYCF 2NVYF 4XSZE 3GTKE 1HQME 4Y7NF 2A6EE 4A3MF 3PO3F 2A69E 2NVXF 5IPLE 3GTQE 3HKZK 3I4NE 3GTKF 3S14E 5E17E 4A3IE 1WCME 2R92F 4X6AE 2JA5E 5FJ8E 3S1RE 5TMCE 1I6HF 4OIQE 2JA6E 2PMZK 3GTLF 3GTPE 3S1MF 1IW7E 4A3GF 1TWHE 2Y0SH 3HKZH 4BBRE 4C2MF 4A3KF 4BY7F 4BXXE 4A3EE 1ZYRE 4A3FE 5M5WE 3HOZE 4A93E 3HOXE 2PMZH 3FKIE 3GTGE 1TWGE 3EQLE 2WAQK 5IP7E 1TWAF 5M3ME 4YG2E 2WB1I 5FLME 3S14F 4BBSF 3GTME 3HOUE 5C44E 1QKLA 1WCMF 4XLPE 2JA5F 5IYDF 4BY1F 5M5XE 3S1RF 2JA6F 4C3HF 3HOVF 4Q5SE 3S15F 2WAQH 1R9TF 1Y1VE 2YU9E 3S16E 4MEXE 2E2HE 4A3LF 4Y52E 3PO2E 1EIKA 5C3EF 4XLNE 2O5IE 5IP9E 3CQZE 2B63E 4A3FF 5M5WF 2E2JE 4YFKE 3RZOE 3S2HE 4A3CE 5C4JE 4YFXE 1TWFF 2JA8E 4OIRE 1I3QE 5M3MF 5FLMF 5D4DE 5D4EE 3K7AE 2VUMF 4XSXE 3RZDE 3GTMF 3HOYF 1DZFA 4A3BE 5E18E 3H3VF 4C3JE 3H0GE 5M5XF 3S1QE 2WB1H 1Y1VF 4Y52F 4QIWK 2YU9F 2E2HF 3S16F 4KMUE 5IP9F 3CQZF 2B63F 2E2JF 3GTQF 4OIPE 3I4NF 3RZOF 4A3CF 5C4XE 4A3IF 5IYBE 4QIWH 3HOWE 3GTJE 4X6AF 5FJ8F 2NVTE 3GTPF 4LJZE 1I3QF 5M5YE 2NVQE 3K7AF 1TWHF 3RZDF 5BYHE 2KRXA 3S1NE 2O5JE 1Y1WE 1K83E 4BBRF 4OINE 4A3EF 3I4ME 3S1QF 4JK1E 2R93E 3HOZF 4A93F 5IYCE 3HOXF 4C3IE 3FKIF 3GTGF 4LK1E 3M3YE 1TWGF 3M4OE 3PO3E 5IP7F 4A3DE 2NVXE 1SMYE 4A3JE 1TWCE 1YNNK 5D4CE 4G7ZE 5C44F 4ZH4E 2E2IE 4LK0E 3WODE 3GTJF 3HOUF 2R92E 3GTLE 3S17E 1I6VE 3S1ME 1I6HE 3GTOE 3DXJE 5M3FE 4G7OE 4A3GE 4YFNE 3S1NF 3PO2F 4AYBK 2PPBE
chains in the Genus database with same CATH topology
3I4MF 3H3VG 3S2HF 4C3IF 5C4JF 4MEYE 3M3YF 3M4OF 2JA8F 4A3DF 4A3JF 1YNJK 1TWCF 4G7HE 2A68E 2E2IF 4A3BF 4C3JF 3H0GF 3S17F 4KN7E 3GTOF 5M3FF 4KN4E 4OIOE 2A6HE 4BXXF 2R93F 2CW0E 4LLGE 1SFOF 5C4XF 5IYBF 2BE5E 3HOWF 2Y0SI 2JA7F 2NVTF 1I50F 5M5YF 2NVQF 2R7ZF 3S2DF 1Y1WF 1K83F 5TMFE 4Q4ZE 4GZYE 4MQ9E 5IYCF 2NVYF 4XSZE 1HQME 4Y7NF 2A6EE 4A3MF 3PO3F 2A69E 2NVXF 5IPLE 3HKZK 3GTKF 5E17E 2R92F 3GTLF 5TMCE 1I6HF 4OIQE 3S1MF 2PMZK 4A3GF 1IW7E 4C2MF 4A3KF 4BY7F 1ZYRE 3EQLE 2WAQK 1TWAF 4BBSF 4YG2E 2WB1I 3S14F 1QKLA 1WCMF 4XLPE 2JA5F 5IYDF 4BY1F 3S1RF 2JA6F 3S15F 4C3HF 3HOVF 4Q5SE 1R9TF 4MEXE 4A3LF 5C3EF 4XLNE 2O5IE 4A3FF 5M5WF 4YFKE 4YFXE 1TWFF 4OIRE 5D4DE 5M3MF 5FLMF 5D4EE 2VUMF 4XSXE 3GTMF 3HOYF 5E18E 5M5XF 1Y1VF 4Y52F 4QIWK 2YU9F 2E2HF 3S16F 4KMUE 5IP9F 3CQZF 2B63F 2E2JF 3GTQF 4OIPE 3I4NF 3RZOF 4A3CF 4A3IF 4X6AF 5FJ8F 3GTPF 4LJZE 1I3QF 3K7AF 1TWHF 3RZDF 5BYHE 2KRXA 2O5JE 4BBRF 4OINE 4A3EF 3S1QF 4JK1E 3HOZF 4A93F 3HOXF 3FKIF 3GTGF 4LK1E 1TWGF 5IP7F 1SMYE 1YNNK 5D4CE 4G7ZE 5C44F 4ZH4E 3HOUF 4LK0E 3WODE 3GTJF 1I6VE 3DXJE 4G7OE 4YFNE 3S1NF 3PO2F 4AYBK 2PPBE
chains in the Genus database with same CATH homology


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