5D4EE

Crystal structure of thermus thermophilus product complex for transcription initiation with 3'-dephosphate-coa and ctp
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
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/dna
molecule keywords DNA-directed RNA polymerase subunit alpha
publication title The mechanism of RNA 5' capping with NAD(+), NADH and desphospho-CoA.
pubmed doi rcsb
source organism Thermus thermophilus (strain hb27 / atcc baa-163 / dsm 7039)
total genus 25
structure length 94
sequence length 94
chains with identical sequence O
ec nomenclature ec 2.7.7.6: DNA-directed RNA polymerase.
pdb deposition date 2015-08-07

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 5d4eE00
4A3KF 5M5YF 4YFXE 5IP9F 5D4EE 5BYHE 4JK1E 4BY1F 4XSZE 3GTMF 1QKLA 2JA6F 2O5IE 1Y1WF 3S2DF 4A3EF 2CW0E 3I4MF 4KMUE 4Q4ZE 5M3FF 1HQME 5IP7F 3GTOF 3HOYF 1WCMF 4OINE 3S2HF 4A3GF 4G7HE 1TWHF 5C44F 2A68E 3S1NF 4BBRF 2PPBE 4Y52F 2NVXF 4OIOE 3S1MF 1TWGF 3CQZF 1YNJK 4A93F 4G7ZE 4OIPE 3GTKF 4XLNE 5C3EF 2Y0SI 1IW7E 3RZDF 4C2MF 2BE5E 2JA5F 2PMZK 4A3CF 4XLPE 2NVTF 2R92F 4GZYE 4YFKE 5TMFE 3S1QF 1I6VE 4MQ9E 4A3MF 4OIRE 4C3HF 3H0GF 3WODE 4C3IF 4C3JF 3HOWF 2B63F 3S15F 3RZOF 1I50F 2E2IF 4A3JF 2JA8F 4YG2E 2NVQF 4A3DF 4X6AF 1TWAF 4Q5SE 5M5WF 5D4CE 1K83F 3M3YF 4XSXE 4Y7NF 4MEXE 5M3MF 3S1RF 4OIQE 4A3FF 4BBSF 4LK0E 1TWCF 2O5JE 5TMCE 3HKZK 1YNNK 3HOUF 5C4XF 2E2JF 2VUMF 3S17F 5M5XF 1Y1VF 2YU9F 5E18E 4LK1E 4A3IF 3GTQF 4G7OE 5IPLE 3HOXF 4A3LF 3HOVF 4KN4E 4MEYE 1I3QF 4A3BF 5IYCF 2R7ZF 3FKIF 3EQLE 4LJZE 3H3VG 3M4OF 2NVYF 3S14F 3PO2F 2E2HF 5FJ8F 1TWFF 5IYBF 2R93F 2A6EE 1R9TF 3PO3F 2JA7F 3GTPF 2A6HE 1SMYE 4AYBK 5IYDF 5E17E 2WAQK 3HOZF 3GTJF 4KN7E 2WB1I 5FLMF 4YFNE 3S16F 3GTGF 1ZYRE 4LLGE 1SFOF 4BXXF 3DXJE 3GTLF 5D4DE 1I6HF 5C4JF 2A69E 4BY7F 3K7AF 4ZH4E 3I4NF
chains in the Genus database with same CATH superfamily
4A3JE 4A3DE 4A3KF 4X6AE 3FKIE 1TWAE 5M5YF 4YFXE 5IP9F 5D4EE 1K83E 5BYHE 3M4OE 4JK1E 4Y7NE 4BY1F 4XSZE 3GTMF 1QKLA 2JA6F 2O5IE 1Y1WF 2NVYE 3S2DF 3PO2E 4A3EF 5FJ8E 1DZFA 2CW0E 3S1RE 1TWFE 5IYBE 2E2HE 4A3FE 3I4MF 2R93E 4BBSE 4KMUE 4Q4ZE 5M3FF 3PO3E 3GTPE 1HQME 5IP7F 3GTOF 2Y0SH 5IYDE 3HOYF 2YU9E 1WCMF 4OINE 3S2HF 4A3GF 3GTJE 3GTQE 4G7HE 1TWHF 5C44F 3HOXE 2A68E 3HOVE 3S1NF 4BBRF 2PPBE 4Y52F 1I3QE 2NVXF 4OIOE 1TWGF 3CQZF 3GTLE 2PMZH 3S1MF 1YNJK 1I6HE 2R7ZE 5C4JE 4BY7E 4A93F 4G7ZE 4QIWH 4OIPE 1EIKA 3GTKF 4XLNE 5C3EF 2Y0SI 1IW7E 3RZDF 4C2MF 2BE5E 4A3KE 2JA5F 2PMZK 5M5YE 4A3CF 5IP9E 4XLPE 2NVTF 2R92F 3S14E 4YFKE 4GZYE 5TMFE 4BY1E 1I6VE 4MQ9E 4A3MF 4OIRE 3S1QF 4QIWK 3S2DE 1Y1WE 4C3HF 3H0GF 3WODE 1R9TE 4C3IF 2JA7E 4C3JF 3HOWF 5M3FE 2B63F 3S15F 3RZOF 1I50F 2E2IF 4A3JF 2JA8F 4YG2E 2NVQF 3HOZE 4A3DF 5IP7E 3GTOE 4X6AF 1TWAF 4Q5SE 5FLME 5M5WF 5D4CE 1K83F 3GTGE 4XSXE 1WCME 3HKZH 4Y7NF 3M3YF 3S16E 3S2HE 1SFOE 4BXXE 4AYBH 5M3MF 4MEXE 1TWHE 3S1RF 4OIQE 3S1NE 4A3FF 4Y52E 2NVXE 4BBSF 1TWGE 3CQZE 3K7AE 1TWCF 4LK0E 2O5JE 5TMCE 3HKZK 1YNNK 3I4NE 3HOUF 4A93E 5C4XF 2E2JF 2VUMF 3S17F 2KRXA 5M5XF 3GTKE 5C3EE 1Y1VF 3RZDE 2YU9F 3GTME 5E18E 2JA5E 4LK1E 4A3IF 2JA6E 3GTQF 4G7OE 4A3EE 5IPLE 3HOXF 4A3LF 3HOVF 3S1QE 4KN4E 3I4ME 4MEYE 1I3QF 4A3BF 4C3HE 5IYCF 2R7ZF 4C3IE 4C3JE 3HOWE 2B63E 3FKIF 3EQLE 3HOYE 1I50E 2E2IE 3RZOE 4LJZE 3H3VG 2JA8E 2NVQE 3M4OF 2WB1H 4A3GE 5M5WE 2NVYF 5C44E 3M3YE 2E2HF 5FJ8F 3S14F 3PO2F 1TWFF 4BBRE 5IYBF 2R93F 2WAQH 5M3ME 3S1ME 2A6EE 1R9TF 3PO3F 2JA7F 3GTPF 2A6HE 1SMYE 4AYBK 1TWCE 5IYDF 5E17E 3H3VF 3HOUE 5C4XE 2WAQK 4C2ME 2E2JE 2VUME 3HOZF 3S17E 3GTJF 4KN7E 2WB1I 5M5XE 4YFNE 5FLMF 2NVTE 3S16F 3GTGF 1Y1VE 1ZYRE 4A3CE 2R92E 4LLGE 4A3ME 1SFOF 4BXXF 3DXJE 4A3IE 3GTLF 5D4DE 4A3LE 3H0GE 1I6HF 5C4JF 2A69E 4BY7F 4A3BE 3K7AF 3S15E 5IYCE 4ZH4E 3I4NF
chains in the Genus database with same CATH topology
4A3KF 5M5YF 4YFXE 5IP9F 5D4EE 5BYHE 4JK1E 4BY1F 4XSZE 3GTMF 1QKLA 2JA6F 2O5IE 1Y1WF 3S2DF 4A3EF 2CW0E 3I4MF 4KMUE 4Q4ZE 5M3FF 1HQME 5IP7F 3GTOF 3HOYF 1WCMF 4OINE 3S2HF 4A3GF 4G7HE 1TWHF 5C44F 2A68E 3S1NF 4BBRF 2PPBE 4Y52F 2NVXF 4OIOE 3S1MF 1TWGF 3CQZF 1YNJK 4A93F 4G7ZE 4OIPE 3GTKF 4XLNE 5C3EF 2Y0SI 1IW7E 3RZDF 4C2MF 2BE5E 2JA5F 2PMZK 4A3CF 4XLPE 2NVTF 2R92F 4GZYE 4YFKE 5TMFE 3S1QF 1I6VE 4MQ9E 4A3MF 4OIRE 4QIWK 4C3HF 3H0GF 3WODE 4C3IF 4C3JF 3HOWF 2B63F 3S15F 3RZOF 1I50F 2E2IF 4A3JF 2JA8F 4YG2E 2NVQF 4A3DF 4X6AF 1TWAF 4Q5SE 5M5WF 5D4CE 1K83F 3M3YF 4XSXE 4Y7NF 4MEXE 5M3MF 3S1RF 4OIQE 4A3FF 4BBSF 4LK0E 1TWCF 2O5JE 5TMCE 3HKZK 1YNNK 3HOUF 5C4XF 2E2JF 2VUMF 3S17F 2KRXA 5M5XF 1Y1VF 2YU9F 5E18E 4LK1E 4A3IF 3GTQF 4G7OE 5IPLE 3HOXF 4A3LF 3HOVF 4KN4E 4MEYE 1I3QF 4A3BF 5IYCF 2R7ZF 3FKIF 3EQLE 4LJZE 3H3VG 3M4OF 2NVYF 3S14F 3PO2F 2E2HF 5FJ8F 1TWFF 5IYBF 2R93F 2A6EE 1R9TF 3PO3F 2JA7F 3GTPF 2A6HE 1SMYE 4AYBK 5IYDF 5E17E 2WAQK 3HOZF 3GTJF 4KN7E 2WB1I 5FLMF 4YFNE 3S16F 3GTGF 1ZYRE 4LLGE 1SFOF 4BXXF 3DXJE 3GTLF 5D4DE 1I6HF 5C4JF 2A69E 4BY7F 3K7AF 4ZH4E 3I4NF
chains in the Genus database with same CATH homology


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