5D4CE

Crystal structure of thermus thermophilus product complex for transcription initiation with atp and ctp
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/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 hb8 / atcc 27634 / dsm 579)
total genus 24
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 5d4cE00
1IW7E 4A3FF 4XSXE 2NVYF 4Y52F 2A69E 4LJZE 1R9TF 4YG2E 4XLNE 1I50F 1TWAF 5M5YF 1I6HF 4A3IF 2O5IE 4A3GF 1SFOF 4A3JF 3H3VG 1WCMF 4YFXE 2E2IF 2R92F 3S14F 4C3JF 3GTMF 3S15F 4MEXE 4XSZE 3HOWF 2A6EE 1TWCF 4X6AF 4KMUE 5IPLE 5E18E 4A3KF 1QKLA 2JA5F 4MQ9E 3I4MF 2JA8F 3GTLF 3RZOF 3CQZF 2CW0E 1Y1WF 4Q5SE 2R93F 2Y0SI 4Y7NF 4A3BF 2WAQK 3M3YF 4MEYE 3PO2F 2BE5E 3FKIF 4OIPE 2A6HE 2NVTF 4Q4ZE 2O5JE 3HKZK 2VUMF 5M5XF 1TWFF 5IYBF 3HOXF 4LLGE 2NVXF 3EQLE 3GTKF 4YFKE 4C3IF 3S1NF 2PMZK 3GTPF 4LK1E 1ZYRE 3S1MF 3S16F 5IYCF 4OIOE 3S2DF 4G7OE 5E17E 4OIRE 4A3DF 3HOVF 5TMCE 5TMFE 5C4XF 5D4CE 4G7ZE 5D4EE 1YNNK 4BY7F 4XLPE 4BBRF 1TWGF 5M5WF 1YNJK 5M3FF 4A3MF 2R7ZF 4A93F 4YFNE 4LK0E 3GTQF 1Y1VF 4C2MF 5IP7F 1HQME 5C4JF 3WODE 3S2HF 2E2HF 2JA6F 3H0GF 1K83F 3GTGF 4BBSF 1I3QF 4KN4E 5FJ8F 4G7HE 2JA7F 3GTOF 3K7AF 3GTJF 2YU9F 2B63F 2WB1I 3HOYF 4BY1F 5IP9F 3S1RF 5D4DE 5FLMF 4A3EF 2PPBE 4BXXF 1SMYE 4C3HF 4JK1E 4A3LF 2E2JF 4KN7E 5IYDF 4A3CF 5C44F 3M4OF 5C3EF 1TWHF 3RZDF 1I6VE 3HOUF 3PO3F 2A68E 3HOZF 3S1QF 4OINE 4ZH4E 4OIQE 3I4NF 5M3MF 3DXJE 4GZYE 2NVQF 3S17F 5BYHE 4AYBK
chains in the Genus database with same CATH superfamily
1IW7E 4A3FF 4XSXE 2NVYF 4Y52F 2A69E 3HOZE 4LJZE 1R9TF 3I4NE 4YG2E 4XLNE 5M3ME 1I50F 1TWAF 5M5YF 1I6HF 4A3IF 2NVQE 3S17E 2O5IE 3S1QE 4A3GF 1SFOF 4A3FE 4A3JF 5C4XF 3H3VG 1WCMF 4YFXE 2E2IF 2R92F 2NVYE 4Y52E 3S14F 4C3JF 3GTMF 1R9TE 3S15F 4MEXE 4QIWH 4XSZE 3HOWF 1I50E 1TWCF 1TWAE 2A6EE 5M5YE 4A3IE 4KMUE 1I6HE 4X6AF 5IPLE 5E18E 4A3KF 1QKLA 2JA5F 4MQ9E 4A3GE 3I4MF 1SFOE 2JA8F 2WB1H 4A3JE 3CQZF 3GTLF 3RZOF 2CW0E 1WCME 1Y1WF 4Q5SE 2E2IE 2R93F 2R92E 3S14E 4C3JE 3GTME 2Y0SI 4Y7NF 4A3BF 2WAQK 3S15E 3HOWE 3M3YF 4MEYE 1TWCE 3PO2F 4X6AE 2BE5E 4A3KE 3FKIF 4OIPE 2A6HE 2NVTF 4Q4ZE 2JA5E 3HKZK 2O5JE 2VUMF 3I4ME 5M5XF 1TWFF 5IYBF 3HOXF 5M3FE 3CQZE 4LLGE 2NVXF 3EQLE 2JA8E 3GTLE 1Y1WE 4YFKE 3GTKF 2R93E 4C3IF 3S1NF 4Y7NE 2PMZK 3GTPF 4A3BE 4LK1E 1ZYRE 3S1MF 3M3YE 3S16F 5IYCF 4OIOE 3S2DF 3PO2E 3RZOE 4G7OE 3FKIE 5E17E 4OIRE 2NVTE 4A3DF 3HOVF 5TMCE 2VUME 5TMFE 5M5XE 1TWFE 2KRXA 5IYBE 3HOXE 4G7ZE 5D4CE 5D4EE 2NVXE 3GTKE 1YNNK 3H3VF 4BY7F 4C3IE 4BBRF 1TWGF 5M5WF 1YNJK 4XLPE 5M3FF 4A3MF 3GTPE 2R7ZF 3PO3E 4A93F 3S1ME 3S16E 1EIKA 5IYCE 3S2DE 4YFNE 4LK0E 3GTQF 1Y1VF 4C2MF 4A3DE 3HOVE 5IP7F 1HQME 5C4JF 5C4XE 3WODE 3S2HF 2E2HF 2JA6F 3H0GF 4BY7E 2R7ZE 1K83F 1TWGE 4BBRE 5M5WE 4A3ME 4A93E 3GTGF 4BBSF 1I3QF 5BYHE 4KN4E 5FJ8F 4G7HE 2JA7F 1Y1VE 4C2ME 3GTOF 3GTQE 5IP7E 5C4JE 4AYBH 3S2HE 2E2HE 2JA6E 3H0GE 3K7AF 3GTJF 2YU9F 2B63F 1K83E 2WB1I 3GTGE 4BY1F 3HOYF 5IP9F 4QIWK 3HKZH 5D4DE 1I3QE 5FLMF 3S1RF 5FJ8E 4BBSE 2JA7E 3GTOE 2Y0SH 4A3EF 2PPBE 4BXXF 3S1NE 2PMZH 3K7AE 3GTJE 1SMYE 2YU9E 2B63E 4C3HF 1DZFA 4JK1E 4A3LF 2E2JF 4KN7E 5IYDF 4BY1E 5IP9E 5C44F 3HOYE 3S1RE 5C3EF 3M4OF 4A3CF 5FLME 1TWHF 3RZDF 1I6VE 3HOUF 3PO3F 4A3EE 4BXXE 2A68E 3HOZF 3S1QF 4OINE 4C3HE 4ZH4E 4OIQE 3I4NF 5M3MF 3DXJE 4A3LE 2E2JE 2WAQH 4GZYE 4A3CE 5IYDE 2NVQF 3S17F 5C44E 3M4OE 5C3EE 1TWHE 3RZDE 4AYBK 3HOUE
chains in the Genus database with same CATH topology
1IW7E 4A3FF 4XSXE 2NVYF 4Y52F 2A69E 4LJZE 1R9TF 4YG2E 4XLNE 1I50F 1TWAF 5M5YF 1I6HF 4A3IF 2O5IE 4A3GF 1SFOF 4A3JF 3H3VG 1WCMF 4YFXE 2E2IF 2R92F 3S14F 4C3JF 3GTMF 3S15F 4MEXE 4XSZE 3HOWF 2A6EE 1TWCF 4X6AF 4KMUE 5IPLE 5E18E 4A3KF 1QKLA 2JA5F 4MQ9E 3I4MF 2JA8F 3GTLF 3RZOF 3CQZF 2CW0E 1Y1WF 4Q5SE 2R93F 2Y0SI 4Y7NF 4A3BF 2WAQK 3M3YF 4MEYE 3PO2F 2BE5E 3FKIF 4OIPE 2A6HE 2NVTF 4Q4ZE 2O5JE 3HKZK 2VUMF 5M5XF 1TWFF 5IYBF 3HOXF 4LLGE 2NVXF 3EQLE 3GTKF 4YFKE 4C3IF 3S1NF 2PMZK 3GTPF 4LK1E 1ZYRE 3S1MF 3S16F 5IYCF 4OIOE 3S2DF 4G7OE 5E17E 4OIRE 4A3DF 3HOVF 5TMCE 5TMFE 5C4XF 2KRXA 5D4CE 4G7ZE 5D4EE 1YNNK 4BY7F 4XLPE 4BBRF 1TWGF 5M5WF 1YNJK 5M3FF 4A3MF 2R7ZF 4A93F 4YFNE 4LK0E 3GTQF 1Y1VF 4C2MF 5IP7F 1HQME 5C4JF 3WODE 3S2HF 2E2HF 2JA6F 3H0GF 1K83F 3GTGF 4BBSF 1I3QF 4KN4E 5FJ8F 4G7HE 2JA7F 3GTOF 3K7AF 3GTJF 2YU9F 2B63F 2WB1I 3HOYF 4BY1F 5IP9F 4QIWK 5D4DE 3S1RF 5FLMF 4A3EF 2PPBE 4BXXF 1SMYE 4C3HF 4JK1E 4A3LF 2E2JF 4KN7E 5IYDF 4A3CF 5C44F 3M4OF 5C3EF 1TWHF 3RZDF 1I6VE 3HOUF 3PO3F 2A68E 3HOZF 3S1QF 4OINE 4ZH4E 4OIQE 3I4NF 5M3MF 3DXJE 4GZYE 2NVQF 3S17F 5BYHE 4AYBK
chains in the Genus database with same CATH homology


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