2NVXF

Rna polymerase ii elongation complex in 5 mm mg+2 with 2'-dutp
Total Genus 17
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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
17
sequence length
88
structure length
88
Chain Sequence
TLKEKAIPKDQRATTPYMTKYERARILGTRALQISMNAPVFVDLEGETDPLRIAMKELAEKKIPLVIRRYLPDGSFEDWSVEELIVDL
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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,transferase/dna-rna hybrid
molecule keywords 5'-R(*AP*UP*CP*GP*AP*GP*AP*GP*GP*A)-3'
publication title Structural basis of transcription: role of the trigger loop in substrate specificity and catalysis
pubmed doi rcsb
total genus 17
structure length 88
sequence length 88
ec nomenclature
pdb deposition date 2006-11-13

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 2nvxF00
4KN4E 2NVXF 4Y52F 4A93F 3GTGF 3S17F 4LK0E 2R93F 1TWCF 3I4NF 2O5IE 4BY7F 1YNJK 3H3VG 4OIRE 3S1MF 4GZYE 4OIQE 2Y0SI 4YFKE 3S1QF 3PO3F 1HQME 4A3KF 3PO2F 4YG2E 4JK1E 5TMCE 1SMYE 2WAQK 3GTPF 4BBRF 3S2HF 1I6HF 3HOXF 2NVTF 3RZDF 1I50F 4A3FF 2VUMF 3EQLE 5IP9F 4XSZE 5M5XF 5FLMF 5E18E 1TWFF 2PMZK 3HOWF 4KN7E 4OINE 4LLGE 4OIPE 4YFXE 4YFNE 5IPLE 2JA8F 3S16F 3S15F 1Y1VF 4ZH4E 4Q4ZE 2E2JF 3RZOF 3GTOF 2CW0E 5M5YF 1SFOF 4MQ9E 2O5JE 4MEXE 2NVQF 5D4DE 3HOUF 1Y1WF 4LJZE 1QKLA 4C3HF 5E17E 3K7AF 3FKIF 3H0GF 4BXXF 4A3MF 5M5WF 1ZYRE 2WB1I 4A3LF 3DXJE 1WCMF 2R92F 2E2IF 2PPBE 4C3IF 4C3JF 4A3IF 4LK1E 3GTLF 1TWHF 2JA7F 2YU9F 5FJ8F 2NVYF 4G7OE 4XLNE 5TMFE 4C2MF 5C4JF 2JA5F 3CQZF 3GTQF 1R9TF 3GTKF 4X6AF 4G7HE 5C3EF 5IP7F 1TWAF 3S1RF 3GTJF 2R7ZF 5IYBF 5D4CE 3WODE 1YNNK 4Q5SE 4AYBK 2A68E 4Y7NF 5C4XF 4A3DF 3S1NF 4A3BF 3M3YF 1TWGF 1I3QF 5D4EE 3M4OF 2A6HE 3I4MF 2E2HF 4A3CF 2A6EE 5M3MF 3S14F 4A3EF 4XSXE 2BE5E 5M3FF 3GTMF 4KMUE 3HOYF 4XLPE 4BBSF 4A3JF 5IYDF 4A3GF 5IYCF 5C44F 3HOVF 2JA6F 4G7ZE 1I6VE 2B63F 5BYHE 4BY1F 4OIOE 2A69E 3S2DF 1IW7E 4MEYE 1K83F 3HOZF 3HKZK
chains in the Genus database with same CATH superfamily
4KN4E 5IYBE 1EIKA 2NVXF 4AYBH 4Y52F 4A93F 3GTGF 3S17F 4LK0E 2R93F 5C4XE 1TWCF 4A3DE 3S1NE 3I4NF 2O5IE 4BY7F 1YNJK 3H3VG 4OIRE 3S1MF 4GZYE 1TWGE 4OIQE 2Y0SI 4YFKE 1I3QE 3S1QF 3M4OE 3I4ME 3PO3F 1HQME 4A3KF 2E2HE 3PO2F 4YG2E 4JK1E 5TMCE 1SMYE 2WAQK 3GTPF 4BBRF 3S14E 3S2HF 4A3EE 1I6HF 3HOXF 2NVTF 2Y0SH 3RZDF 1I50F 5M3FE 4A3FF 2VUMF 3GTME 4BBSE 3EQLE 4A3GE 4A3JE 5IYDE 5IP9F 4A3FE 2VUME 4XSZE 5IYCE 5M5XF 5C44E 5FLMF 5E18E 2JA6E 1TWFF 2PMZK 3HOVE 4KN7E 3HOWF 4OINE 4LLGE 4OIPE 5FLME 3S2DE 1TWFE 4YFXE 3HOWE 4YFNE 1K83E 3HOZE 5IPLE 4QIWH 3HKZH 2NVXE 2JA8F 3S16F 3S15F 1Y1VF 4A93E 4Y52E 3GTGE 3S17E 2R93E 4ZH4E 4Q4ZE 1TWCE 2E2JF 3RZOF 3GTOF 3I4NE 4BY7E 2CW0E 5M5YF 1SFOF 3S1ME 2E2JE 3RZOE 4MQ9E 3S1QE 2O5JE 4MEXE 3PO3E 4A3KE 2NVQF 5D4DE 3HOUF 1Y1WF 3PO2E 4LJZE 1QKLA 4C3HF 5E17E 3K7AF 4BBRE 3GTPE 3S2HE 2WAQH 3FKIF 3H0GF 3HOXE 1I6HE 2NVTE 4A3MF 4BXXF 1ZYRE 2WB1I 1I50E 5M5WF 3RZDE 4A3LF 3DXJE 1WCMF 5IP9E 2E2IF 2PPBE 2R92F 5M5XE 4BY1E 4C3IF 4C3JF 4A3IF 4LK1E 3GTLF 1TWHF 2PMZH 2JA7F 2YU9F 2WB1H 5FJ8F 2NVYF 4C3IE 4G7OE 4XLNE 5TMFE 4C2MF 5C4JF 2JA7E 2YU9E 2NVYE 2JA5F 3CQZF 3GTQF 2JA8E 1R9TF 3CQZE 1Y1VE 3S16E 3S15E 3GTKF 4X6AF 4G7HE 1DZFA 1R9TE 5C3EF 3GTOE 5IP7F 5M5YE 1TWAF 1SFOE 5C3EE 3S1RF 3GTJF 2R7ZF 2NVQE 3H3VF 5IYBF 5D4CE 3S1RE 1Y1WE 3HOUE 3WODE 1YNNK 4Q5SE 4AYBK 2A68E 4C3HE 3K7AE 4Y7NF 3FKIE 3H0GE 5C4XF 4BXXE 4A3ME 5M5WE 4A3DF 4Y7NE 3S1NF 4A3BF 4A3LE 3M3YF 1TWGF 1WCME 2R92E 2E2IE 1I3QF 5D4EE 3M4OF 2A6HE 3I4MF 3HOZF 4C3JE 2E2HF 3M3YE 4A3IE 4A3BE 3GTLE 1TWHE 5FJ8E 4A3CF 2A6EE 5M3MF 3S14F 4A3EF 4C2ME 5C4JE 4XSXE 4A3CE 2BE5E 2JA5E 5M3FF 5M3ME 3GTMF 4KMUE 3HOYF 4XLPE 4BBSF 4A3JF 5IYDF 3GTQE 4A3GF 5IYCF 3GTKE 3HOYE 5C44F 3HOVF 4X6AE 2JA6F 4G7ZE 1I6VE 2B63F 5BYHE 5IP7E 4BY1F 4OIOE 2A69E 1TWAE 3S2DF 2B63E 1IW7E 4MEYE 2KRXA 3GTJE 1K83F 4QIWK 3HKZK 2R7ZE
chains in the Genus database with same CATH topology
4KN4E 2NVXF 4Y52F 4A93F 3GTGF 3S17F 4LK0E 2R93F 1TWCF 3I4NF 2O5IE 4BY7F 1YNJK 3H3VG 4OIRE 3S1MF 4GZYE 4OIQE 2Y0SI 4YFKE 3S1QF 3PO3F 1HQME 4A3KF 3PO2F 4YG2E 4JK1E 5TMCE 1SMYE 2WAQK 3GTPF 4BBRF 3S2HF 1I6HF 3HOXF 2NVTF 3RZDF 1I50F 4A3FF 2VUMF 3EQLE 5IP9F 4XSZE 5M5XF 5FLMF 5E18E 1TWFF 2PMZK 3HOWF 4KN7E 4OINE 4LLGE 4OIPE 4YFXE 4YFNE 5IPLE 2JA8F 3S16F 3S15F 1Y1VF 4ZH4E 4Q4ZE 2E2JF 3RZOF 3GTOF 2CW0E 5M5YF 1SFOF 4MQ9E 2O5JE 4MEXE 2NVQF 5D4DE 3HOUF 1Y1WF 4LJZE 1QKLA 4C3HF 5E17E 3K7AF 3FKIF 3H0GF 4BXXF 4A3MF 5M5WF 1ZYRE 2WB1I 4A3LF 3DXJE 1WCMF 2R92F 2E2IF 2PPBE 4C3IF 4C3JF 4A3IF 4LK1E 3GTLF 1TWHF 2JA7F 2YU9F 5FJ8F 2NVYF 4G7OE 4XLNE 5TMFE 4C2MF 5C4JF 2JA5F 3CQZF 3GTQF 1R9TF 3GTKF 4X6AF 4G7HE 5C3EF 5IP7F 1TWAF 3S1RF 3GTJF 2R7ZF 5IYBF 5D4CE 4AYBK 3WODE 1YNNK 4Q5SE 2A68E 4Y7NF 5C4XF 4A3DF 3S1NF 4A3BF 3M3YF 1TWGF 1I3QF 5D4EE 3M4OF 2A6HE 3I4MF 3HOZF 2E2HF 4A3CF 2A6EE 5M3MF 3S14F 4A3EF 4XSXE 2BE5E 5M3FF 3GTMF 4KMUE 3HOYF 4XLPE 4BBSF 4A3JF 5IYDF 4A3GF 5IYCF 5C44F 3HOVF 2JA6F 4G7ZE 1I6VE 2B63F 5BYHE 4BY1F 4OIOE 2A69E 3S2DF 1IW7E 4MEYE 2KRXA 1K83F 4QIWK 3HKZK
chains in the Genus database with same CATH homology


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