3S14F

Rna polymerase ii initiation complex with a 6-nt rna
Total Genus 25
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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
25
sequence length
85
structure length
85
Chain Sequence
EKAIPKDQRATTPYMTKYERARILGTRALQISMNAPVFVDLEGETDPLRIAMKELAEKKIPLVIRRYLPDGSFEDWSVEELIVDL
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
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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 25
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 3s14F00
5M3MF 4A3BF 1K83F 2YU9F 3HOXF 2R92F 5E18E 3S2DF 5M5XF 5BYHE 4A3JF 3S1QF 1Y1VF 3H0GF 3PO3F 4A93F 1QKLA 4JK1E 3DXJE 5M3FF 2R7ZF 2JA6F 4KN4E 3S14F 4MQ9E 2NVQF 4X6AF 1I50F 4YFNE 4LLGE 4BBRF 3K7AF 3HOYF 5C44F 3HOZF 3S1NF 2BE5E 3EQLE 4AYBK 5IYDF 4A3EF 2VUMF 3S1MF 4G7OE 2O5JE 1I3QF 4ZH4E 1YNJK 5IYBF 3GTJF 4BY1F 3M4OF 4OIRE 5E17E 4A3IF 4A3CF 4BY7F 2E2JF 4G7ZE 4Q5SE 4MEXE 3I4MF 3S15F 2PPBE 1TWHF 3GTQF 4A3KF 2WB1I 4LK1E 1TWAF 4OIOE 5TMCE 4XLPE 4C3IF 3S1RF 1Y1WF 3HOVF 2JA8F 2NVTF 4BXXF 5D4EE 4G7HE 4A3FF 3S17F 4C2MF 5IP7F 3M3YF 3RZOF 4YFKE 5M5YF 3GTMF 2A6HE 5M5WF 4XSXE 3GTOF 1IW7E 4XLNE 4KMUE 3HOUF 4Q4ZE 4OIQE 1SMYE 5C4JF 2WAQK 1I6VE 1I6HF 2A6EE 4LK0E 4BBSF 2Y0SI 4A3GF 3H3VG 4MEYE 1WCMF 5TMFE 1SFOF 3PO2F 2JA7F 2NVXF 3HOWF 2E2IF 5C3EF 5IPLE 3I4NF 4Y7NF 4C3JF 2PMZK 3FKIF 4OIPE 5FLMF 4Y52F 3CQZF 4KN7E 2JA5F 5D4DE 2CW0E 5D4CE 4A3MF 1HQME 1TWFF 5FJ8F 2R93F 4XSZE 5IP9F 3S16F 5C4XF 4GZYE 3GTKF 1TWCF 1R9TF 4YFXE 3S2HF 2E2HF 4LJZE 4YG2E 1ZYRE 5IYCF 4A3LF 3GTLF 3WODE 1TWGF 3HKZK 3GTPF 4C3HF 1YNNK 2A69E 2O5IE 4A3DF 3GTGF 3RZDF 4OINE 2B63F 2NVYF 2A68E
chains in the Genus database with same CATH superfamily
5M3MF 4A3BF 4A3CE 1K83F 2YU9F 3HOXF 2E2JE 2R92F 5E18E 3S15E 3HOUE 5M5XF 1TWHE 5BYHE 4A3JF 3S2DF 3S1QF 1Y1VF 3H0GF 3GTQE 5C4JE 4A3KE 3PO3F 4A93F 1TWAE 1I6HE 1QKLA 4JK1E 3DXJE 5M3FF 2R7ZF 4C3IE 2JA6F 3S1RE 1Y1WE 4KN4E 3S14F 4MQ9E 2NVQF 3HOVE 2JA8E 2NVTE 4X6AF 4A3FE 1I50F 4YFNE 4C2ME 4LLGE 3S17E 4BBRF 2NVXE 2JA7E 2E2IE 3K7AF 3HOYF 5C3EE 5IP7E 5C44F 3HOZF 3S1NF 2BE5E 3EQLE 4AYBK 5IYDF 4A3EF 2VUMF 3S1MF 3I4ME 2JA5E 4G7OE 2O5JE 3M3YE 3RZOE 1I3QF 4Y52E 4ZH4E 1YNJK 5IYBF 4AYBH 3GTJF 5M5YE 3GTME 4BY1F 3M4OF 5M5WE 4OIRE 5E17E 3GTOE 5C4XE 4A3IF 3GTKE 4A3CF 4BY7F 2E2JF 4G7ZE 4Q5SE 4MEXE 3I4MF 3S15F 1TWGE 1TWHF 2PPBE 3GTQF 4A3KF 2WB1I 4LK1E 4BBSE 1TWAF 4QIWK 3GTGE 4OIOE 4A3GE 5TMCE 4XLPE 2B63E 1WCME 4C3IF 1SFOE 3PO2E 3S1RF 1Y1WF 3HOVF 3HOWE 5M3ME 2JA8F 2NVTF 4BXXF 5D4EE 4G7HE 4A3FF 3I4NE 4C2MF 4Y7NE 4C3JE 3S17F 3FKIE 5FLME 5IP7F 3S2DE 3CQZE 3H0GE 4A3ME 3PO3E 1TWFE 3M3YF 3RZOF 5FJ8E 2R93E 5M3FE 4YFKE 5IP9E 3S16E 5M5YF 3GTMF 2A6HE 2NVQE 1TWCE 5M5WF 1R9TE 3S2HE 2E2HE 4XSXE 3GTOF 5IYCE 1IW7E 4XLNE 3GTLE 3K7AE 4A3LE 4KMUE 3HOUF 4Q4ZE 5C44E 4OIQE 1SMYE 3GTPE 5C4JF 4C3HE 4A3DE 2WB1H 2WAQK 1I6VE 1I6HF 2A6EE 3RZDE 2NVYE 4LK0E 4A93E 2WAQH 3M4OE 4BBSF 2Y0SI 4QIWH 4A3GF 4A3BE 3H3VG 1K83E 4MEYE 1WCMF 5TMFE 3HOXE 1SFOF 2YU9E 3PO2F 2R92E 4A3IE 2NVXF 2JA7F 2E2IF 3HOWF 5C3EF 3H3VF 4BY7E 5M5XE 4A3JE 3S1QE 5IPLE 3I4NF 1Y1VE 4C3JF 4Y7NF 2PMZK 3FKIF 4OIPE 5FLMF 4Y52F 3CQZF 4KN7E 2JA5F 5D4DE 2CW0E 2R7ZE 5D4CE 4A3MF 2PMZH 1HQME 2JA6E 1TWFF 5FJ8F 3S14E 2R93F 4XSZE 5IP9F 3S16F 4X6AE 5C4XF 1I50E 4GZYE 4BBRE 3GTKF 1TWCF 1R9TF 4YFXE 3HOYE 2E2HF 3S2HF 1DZFA 4LJZE 4BXXE 4YG2E 1ZYRE 3HOZE 3S1NE 4A3EE 5IYCF 2VUME 5IYDE 3GTLF 3WODE 3S1ME 4A3LF 1TWGF 1I3QE 3HKZK 5IYBE 3GTPF 3GTJE 4C3HF 1YNNK 2A69E 4BY1E 2KRXA 2O5IE 4A3DF 1EIKA 2Y0SH 3GTGF 3HKZH 3RZDF 4OINE 2B63F 2NVYF 2A68E
chains in the Genus database with same CATH topology
5M3MF 4A3BF 1K83F 2YU9F 3HOXF 2R92F 5E18E 3S2DF 5M5XF 5BYHE 4A3JF 3S1QF 1Y1VF 3H0GF 3PO3F 4A93F 1QKLA 4JK1E 3DXJE 5M3FF 2R7ZF 2JA6F 4KN4E 3S14F 4MQ9E 2NVQF 4X6AF 1I50F 4YFNE 4LLGE 4BBRF 3K7AF 3HOYF 5C44F 3HOZF 3S1NF 2BE5E 3EQLE 4AYBK 5IYDF 4A3EF 2VUMF 3S1MF 4G7OE 2O5JE 1I3QF 4ZH4E 1YNJK 5IYBF 3GTJF 4BY1F 3M4OF 4OIRE 5E17E 4A3IF 4A3CF 4BY7F 2E2JF 4G7ZE 4Q5SE 4MEXE 3I4MF 3S15F 2PPBE 1TWHF 3GTQF 4A3KF 2WB1I 4LK1E 1TWAF 4QIWK 4OIOE 5TMCE 4XLPE 4C3IF 3S1RF 1Y1WF 3HOVF 2JA8F 2NVTF 4BXXF 5D4EE 4G7HE 4A3FF 3S17F 4C2MF 5IP7F 3M3YF 3RZOF 4YFKE 5M5YF 3GTMF 2A6HE 5M5WF 4XSXE 3GTOF 1IW7E 4XLNE 4KMUE 3HOUF 4Q4ZE 4OIQE 1SMYE 5C4JF 2WAQK 1I6VE 1I6HF 2A6EE 4LK0E 4BBSF 2Y0SI 4A3GF 3H3VG 4MEYE 1WCMF 5TMFE 1SFOF 3PO2F 2JA7F 2NVXF 3HOWF 2E2IF 5C3EF 5IPLE 3I4NF 4Y7NF 4C3JF 2PMZK 3FKIF 4OIPE 5FLMF 4Y52F 3CQZF 4KN7E 2JA5F 5D4DE 2CW0E 5D4CE 4A3MF 1HQME 1TWFF 5FJ8F 2R93F 4XSZE 5IP9F 3S16F 5C4XF 4GZYE 3GTKF 1TWCF 1R9TF 4YFXE 3S2HF 2E2HF 4LJZE 4YG2E 1ZYRE 5IYCF 4A3LF 3GTLF 3WODE 1TWGF 3HKZK 3GTPF 4C3HF 1YNNK 2A69E 2O5IE 2KRXA 4A3DF 3GTGF 3RZDF 4OINE 2B63F 2NVYF 2A68E
chains in the Genus database with same CATH homology


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