4OIOE

Crystal structure of thermus thermophilus pre-insertion substrate complex for de novo transcription initiation
Total Genus 24
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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
24
sequence length
94
structure length
94
Chain Sequence
AEPGIDKLFGMVDSKYRLTVVVAKRAQQLLRHGFKNTVLEPEERPKMQTLEGLFDDPNAVTWAMKELLTGRLVFGENLVPEDRLQKEMERLYPV
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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
molecule keywords DNA-directed RNA polymerase subunit alpha
publication title GE23077 binds to the RNA polymerase 'i' and 'i+1' sites and prevents the binding of initiating nucleotides.
pubmed rcsb
source organism Thermus thermophilus
total genus 24
structure length 94
sequence length 94
ec nomenclature ec 2.7.7.6: DNA-directed RNA polymerase.
pdb deposition date 2014-01-20

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
E 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 4oioE00
2JA7F 3S2HF 2E2IF 1I6VE 1Y1WF 4LK0E 1WCMF 3CQZF 4OIRE 2PMZK 2WB1I 2PPBE 3S15F 5M3FF 2JA6F 3S16F 1R9TF 3H3VG 4A3FF 3RZDF 4JK1E 4XSXE 1ZYRE 5TMFE 3GTJF 2NVXF 1QKLA 4KN7E 1I6HF 4A3GF 3HKZK 5M5XF 5FJ8F 5E18E 4A3CF 5IYBF 3S1MF 5C4XF 3DXJE 4G7ZE 4XLPE 4C3HF 2B63F 2NVTF 5IYDF 2E2JF 4A3DF 4LLGE 4X6AF 5IPLE 1SMYE 3S14F 5D4CE 3WODE 5IP9F 4OIPE 1K83F 3GTKF 3RZOF 4LJZE 3S1RF 2BE5E 4A3LF 4MQ9E 1TWGF 3GTPF 3HOZF 5M5YF 3GTQF 5C3EF 4Q5SE 2YU9F 5C4JF 3S17F 5E17E 1TWHF 4OIQE 3FKIF 2CW0E 4C2MF 1YNNK 4A3MF 1IW7E 4XSZE 5M5WF 2A6EE 5D4DE 2WAQK 4OIOE 4Y52F 5FLMF 3I4NF 1I3QF 4A3JF 4BY1F 2NVQF 4BBSF 4KMUE 4A3KF 3HOYF 2O5IE 3S1NF 3S1QF 3K7AF 4A3EF 1TWAF 4MEYE 4Y7NF 5TMCE 4MEXE 4YFKE 4AYBK 4YG2E 4YFXE 2A68E 1SFOF 3GTOF 3S2DF 4Q4ZE 5C44F 2R92F 4GZYE 2O5JE 3HOVF 2R7ZF 4G7OE 4A3BF 5IYCF 3EQLE 1I50F 4A3IF 5M3MF 4BXXF 4LK1E 1YNJK 3HOXF 4OINE 2Y0SI 2JA8F 3PO3F 3GTLF 2VUMF 1TWFF 2A69E 4BBRF 4C3IF 2E2HF 4C3JF 3M4OF 5IP7F 1Y1VF 5D4EE 3GTGF 2NVYF 4ZH4E 4KN4E 3I4MF 3PO2F 3HOUF 4A93F 1TWCF 2A6HE 1HQME 2R93F 3H0GF 4XLNE 2JA5F 3M3YF 4G7HE 5BYHE 4BY7F 3GTMF 4YFNE 3HOWF
chains in the Genus database with same CATH superfamily
2JA7F 4BXXE 3HOXE 3S2HF 2E2IF 2JA8E 1I6VE 2Y0SH 3PO3E 1Y1WF 4LK0E 1WCMF 3CQZF 4AYBH 4OIRE 2VUME 1TWFE 3GTMF 2PMZK 3GTLE 5E17E 2WB1I 2PPBE 3S15F 5M3FF 2JA6F 4BBRE 3S16F 3CQZE 1R9TF 4C3IE 2E2HE 3H3VG 4A3FF 4C3JE 3RZDF 3M4OE 4JK1E 4XSXE 1ZYRE 5TMFE 1Y1VE 5IP7E 3GTJF 2NVXF 1QKLA 4KN7E 1I6HF 4A3GF 3HKZK 3GTGE 5M5XF 5FJ8F 5E18E 4A3CF 5IYBF 3S1MF 5C4XF 3DXJE 4G7ZE 3PO2E 4XLPE 3HOUE 4C3HF 2B63F 4A93E 2NVTF 5IYDF 1TWCE 2E2JF 3H3VF 2R93E 4A3DF 4LLGE 4X6AF 5IPLE 1SMYE 3H0GE 3S14F 2JA5E 5D4CE 3M3YE 3WODE 5IP9F 4OIPE 1K83F 3GTKF 3RZOF 4BY7E 4A3DE 1DZFA 3GTME 4LJZE 3HOWE 2JA7E 3S1RF 2BE5E 4A3LF 4MQ9E 1TWGF 3GTPF 3HOZF 3S2HE 2E2IE 5M5YF 1Y1WE 1WCME 3GTQF 5C3EF 4Q5SE 2YU9F 5C4JF 3S15E 3S17F 2WB1H 1TWHF 5M3FE 2JA6E 4OIQE 3FKIF 3S16E 1R9TE 2CW0E 4C2MF 1YNNK 4A3FE 1IW7E 4XSZE 5M5WF 4A3MF 2A6EE 3RZDE 5D4DE 2WAQK 4OIOE 3GTJE 4Y52F 5FLMF 3I4NF 2NVXE 4QIWH 1I3QF 4A3JF 4A3GE 1I6HE 4BY1F 2NVQF 5M5XE 5FJ8E 4BBSF 4KMUE 4A3KF 4A3CE 5IYBE 3HOYF 3S1ME 5C4XE 2O5IE 3S1NF 3S1QF 4C3HE 2B63E 3K7AF 4A3EF 2NVTE 5IYDE 1TWAF 4MEYE 2E2JE 1EIKA 4Y7NF 5TMCE 4MEXE 2PMZH 4X6AE 3S14E 4YFKE 3K7AE 4YG2E 4AYBK 4YFXE 2A68E 5IP9E 1SFOF 3GTOF 3RZOE 1K83E 4Q4ZE 3GTKE 3S2DF 5C44F 2R92F 4GZYE 2O5JE 3S1RE 3HOVF 2KRXA 2R7ZF 4A3LE 4G7OE 1TWGE 3HKZH 3GTPE 4A3BF 3HOZE 5IYCF 3EQLE 1I50F 5M5YE 4A3IF 5M3MF 3GTQE 5C3EE 4A3BE 2YU9E 3S17E 5C4JE 4BXXF 4LK1E 1TWHE 1YNJK 3HOXF 3FKIE 2Y0SI 4OINE 2JA8F 4C2ME 4A3ME 3PO3F 5M5WE 3GTLF 2VUMF 1TWFF 4Y52E 2A69E 5FLME 3I4NE 1I3QE 4A3JE 4BY1E 4BBRF 2NVQE 4BBSE 4A3KE 4C3IF 2E2HF 3HOYE 4C3JF 3S1NE 3M4OF 3S1QE 5IP7F 1Y1VF 4A3EE 5D4EE 3GTGF 1TWAE 4Y7NE 2NVYF 4ZH4E 4KN4E 3I4MF 3PO2F 1SFOE 3GTOE 3HOUF 3S2DE 4A93F 2NVYE 5C44E 2R92E 1TWCF 2A6HE 3I4ME 1HQME 2WAQH 2R93F 2R7ZE 3HOVE 3H0GF 4XLNE 2JA5F 3M3YF 4G7HE 5IYCE 4QIWK 4BY7F 5BYHE 1I50E 4A3IE 5M3ME 4YFNE 3HOWF
chains in the Genus database with same CATH topology
2JA7F 3S2HF 2E2IF 1I6VE 1Y1WF 4LK0E 1WCMF 3CQZF 4OIRE 2PMZK 2WB1I 2PPBE 3S15F 5M3FF 2JA6F 3S16F 1R9TF 3H3VG 4A3FF 3RZDF 4JK1E 4XSXE 1ZYRE 5TMFE 3GTJF 2NVXF 1QKLA 4KN7E 1I6HF 4A3GF 3HKZK 5M5XF 5FJ8F 5E18E 4A3CF 5IYBF 3S1MF 5C4XF 3DXJE 4G7ZE 4XLPE 4C3HF 2B63F 2NVTF 5IYDF 2E2JF 4A3DF 4LLGE 4X6AF 5IPLE 1SMYE 3S14F 5D4CE 3WODE 5IP9F 4OIPE 1K83F 3GTKF 3RZOF 4LJZE 3S1RF 2BE5E 4A3LF 4MQ9E 1TWGF 3GTPF 3HOZF 5M5YF 3GTQF 5C3EF 4Q5SE 2YU9F 5C4JF 3S17F 5E17E 1TWHF 4OIQE 3FKIF 2CW0E 4C2MF 1YNNK 4A3MF 1IW7E 4XSZE 5M5WF 2A6EE 5D4DE 2WAQK 4OIOE 4Y52F 5FLMF 3I4NF 1I3QF 4A3JF 4BY1F 2NVQF 4BBSF 4KMUE 4A3KF 3HOYF 2O5IE 3S1NF 3S1QF 3K7AF 4A3EF 1TWAF 4MEYE 4Y7NF 5TMCE 4MEXE 4YFKE 4AYBK 4YG2E 4YFXE 2A68E 1SFOF 3GTOF 3S2DF 4Q4ZE 5C44F 2R92F 4GZYE 2O5JE 3HOVF 2R7ZF 2KRXA 4G7OE 4A3BF 5IYCF 3EQLE 1I50F 4A3IF 5M3MF 4BXXF 4LK1E 1YNJK 3HOXF 4OINE 2Y0SI 2JA8F 3PO3F 3GTLF 2VUMF 1TWFF 2A69E 4BBRF 4C3IF 2E2HF 4C3JF 3M4OF 5IP7F 1Y1VF 5D4EE 3GTGF 2NVYF 4ZH4E 4KN4E 3I4MF 3PO2F 3HOUF 4A93F 1TWCF 2A6HE 1HQME 2R93F 3H0GF 4XLNE 2JA5F 3M3YF 4G7HE 4QIWK 4BY7F 5BYHE 3GTMF 4YFNE 3HOWF
chains in the Genus database with same CATH homology


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