5TMCE

Re-refinement of thermus thermopiles dna-directed rna polymerase structure
Total Genus 18
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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
18
sequence length
95
structure length
95
Chain Sequence
AEPGIDKLFGMVDSKYRLTVVVAKRAQQLLRHGFKNTVLEPEERPKMQTLEGLFDDPNAETWAMKELLTGRLVFGENLVPEDRLQKEMERIYPGE
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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 Transferase
publication title On the validation of crystallographic symmetry and the quality of structures.
pubmed doi rcsb
molecule keywords DNA-directed RNA polymerase subunit alpha
total genus 18
structure length 95
sequence length 95
ec nomenclature ec 2.7.7.6: DNA-directed RNA polymerase.
pdb deposition date 2016-10-12

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 5tmcE00
3S2DF 2A6HE 1TWHF 2JA6F 2Y0SI 3DXJE 4BBRF 3RZOF 3CQZF 1TWFF 4A3BF 4C2MF 5TMCE 2VUMF 4LK1E 3HOVF 4Q4ZE 1SFOF 1R9TF 4OIRE 4G7ZE 5IPLE 4BXXF 4YFKE 4G7OE 5D4DE 4G7HE 1YNNK 3RZDF 4LJZE 4YFXE 2YU9F 2A69E 2A6EE 4A3FF 4A93F 4ZH4E 5IYBF 4LLGE 4KN4E 4OIQE 2O5JE 3GTGF 3GTMF 4Q5SE 2JA5F 3HOYF 5IP9F 3HOUF 2WAQK 4AYBK 2PMZK 5FLMF 5M3MF 5D4CE 3PO3F 4Y52F 5IP7F 4A3CF 2E2HF 1I3QF 3HOWF 4MQ9E 3K7AF 3GTQF 4XLNE 3GTOF 4A3EF 3PO2F 5IYDF 1I50F 4KN7E 4KMUE 1I6HF 1IW7E 4OIPE 3GTJF 4YFNE 4A3GF 3S15F 3S1QF 5E17E 4C3IF 4MEXE 1SMYE 5C4XF 4Y7NF 2B63F 3EQLE 3GTLF 3H3VG 5D4EE 1YNJK 2E2IF 4X6AF 2R7ZF 3HKZK 5M5WF 5M5YF 2NVYF 1Y1VF 2JA7F 4YG2E 3HOXF 3GTPF 3S17F 4A3KF 1ZYRE 1Y1WF 1TWGF 3S1NF 2BE5E 2JA8F 2WB1I 3S1RF 4A3DF 1TWAF 2CW0E 3FKIF 3H0GF 2O5IE 4LK0E 3M4OF 4A3LF 1WCMF 5IYCF 3HOZF 2PPBE 3S16F 4OIOE 2NVTF 5C4JF 3S1MF 5TMFE 4A3IF 3S14F 5BYHE 2NVXF 3S2HF 4BY1F 4C3HF 5FJ8F 4C3JF 5M3FF 4BY7F 4XSZE 1K83F 3I4MF 4XSXE 3WODE 2R93F 4OINE 2R92F 2E2JF 4MEYE 4A3JF 4BBSF 4GZYE 5E18E 2A68E 1TWCF 4JK1E 4XLPE 5C44F 2NVQF 1I6VE 3GTKF 4A3MF 3I4NF 5M5XF 1QKLA 5C3EF 3M3YF 1HQME
chains in the Genus database with same CATH superfamily
2PMZH 3S2DF 5M5YE 2A6HE 2NVYE 1TWHF 2JA6F 2Y0SH 2JA7E 3HOXE 1I3QE 3GTPE 3S17E 2Y0SI 4A3CE 3DXJE 4BBRF 3RZOF 3K7AE 3CQZF 3GTQE 1TWFF 4A3BF 1TWGE 3S1NE 2JA8E 4C2MF 4A3EE 5TMCE 2VUMF 1TWAE 4LK1E 3FKIE 1DZFA 3H0GE 4Q4ZE 1R9TF 1SFOF 3HOVF 4OIRE 4G7ZE 3M4OE 5IPLE 5IYCE 3HOZE 4YFKE 4BXXF 4G7OE 5D4DE 4G7HE 1YNNK 3RZDF 4LJZE 4YFXE 2YU9F 1EIKA 3S16E 2A69E 2NVTE 3S1ME 5C4JE 4C3IE 2A6EE 4A3IE 3S14E 4A3FF 4A93F 4ZH4E 5IYBF 4LLGE 2NVXE 4C3HE 4KN4E 4OIQE 2O5JE 3GTGF 5M3FE 2E2IE 4Q5SE 2JA5F 2R7ZE 3GTMF 3HOYF 5IP9F 3HOUF 3I4ME 2R93E 4QIWH 1Y1VE 2E2JE 4A3JE 3HKZH 2WAQK 4AYBK 2PMZK 5FLMF 4A3KE 5M3MF 5D4CE 1TWCE 2NVQE 4Y52F 1Y1WE 3PO3F 5IP7F 3GTKE 3I4NE 4A3CF 2E2HF 3S1RE 5M5XE 4A3DE 5C3EE 1I3QF 3HOWF 4MQ9E 3K7AF 3GTQF 4A3LE 1WCME 4XLNE 1TWHE 2JA6E 3GTOF 4A3EF 3PO2F 4BBRE 5IYDF 3RZOE 3CQZE 1TWFE 1I50F 4KN7E 4KMUE 4C2ME 3S2HE 4BY1E 1I6HF 1IW7E 5FJ8E 2VUME 3HOVE 4OIPE 4C3JE 3GTJF 4YFNE 1R9TE 1SFOE 3S15F 3S1QF 4A3GF 4BY7E 5E17E 4C3IF 1K83E 4MEXE 4BXXE 1SMYE 4BBSE 2R92E 5C4XF 2YU9E 3RZDE 4Y7NF 2B63F 3EQLE 3GTLF 3H3VG 5D4EE 1YNJK 2E2IF 4QIWK 4X6AF 5C44E 2R7ZF 3HKZK 5M5WF 4A3FE 4A3ME 4A93E 5M5YF 2NVYF 1Y1VF 2JA7F 4YG2E 3HOXF 3GTPF 3GTGE 3M3YE 3GTME 3S17F 2JA5E 3HOYE 4A3KF 1ZYRE 2WB1H 5IP9E 1Y1WF 1TWGF 3HOUE 3S2DE 2BE5E 3S1NF 2JA8F 2WB1I 3S1RF 4A3DF 1TWAF 2CW0E 3FKIF 3H0GF 3PO3E 2O5IE 4A3BE 4Y52E 4LK0E 4AYBH 2E2HE 3M4OF 1WCMF 5IYCF 3HOZF 4A3LF 2PPBE 3HOWE 3S16F 4OIOE 2NVTF 5C4JF 3S1MF 5TMFE 4A3IF 3GTOE 3S14F 5BYHE 2NVXF 3S2HF 4BY1F 4C3HF 5FJ8F 3PO2E 5IYDE 2KRXA 4C3JF 5M3FF 5M5WE 1I50E 4BY7F 4XSZE 5IYBE 1K83F 3I4MF 4XSXE 3WODE 2R93F 4OINE 2R92F 2E2JF 4MEYE 4A3JF 4BBSF 4GZYE 1I6HE 3GTJE 4A3GE 3S15E 3S1QE 5E18E 2A68E 1TWCF 4JK1E 4XLPE 5C44F 2NVQF 1I6VE 3GTKF 4A3MF 3H3VF 3I4NF 5C4XE 5M5XF 1QKLA 4Y7NE 5C3EF 2B63E 3GTLE 5FLME 3M3YF 5M3ME 4X6AE 1HQME 2WAQH 5IP7E
chains in the Genus database with same CATH topology
3S2DF 2A6HE 1TWHF 2JA6F 2Y0SI 3DXJE 4BBRF 3RZOF 3CQZF 1TWFF 4A3BF 4C2MF 5TMCE 2VUMF 4LK1E 3HOVF 4Q4ZE 1SFOF 1R9TF 4OIRE 4G7ZE 5IPLE 4BXXF 4YFKE 4G7OE 5D4DE 4G7HE 1YNNK 3RZDF 4LJZE 4YFXE 2YU9F 2A69E 2A6EE 4A3FF 4A93F 4ZH4E 5IYBF 4LLGE 4KN4E 4OIQE 2O5JE 3GTGF 3GTMF 4Q5SE 2JA5F 3HOYF 5IP9F 3HOUF 2WAQK 4AYBK 2PMZK 5FLMF 5M3MF 5D4CE 3PO3F 4Y52F 5IP7F 4A3CF 2E2HF 1I3QF 3HOWF 4MQ9E 3K7AF 3GTQF 4XLNE 3GTOF 4A3EF 3PO2F 5IYDF 1I50F 4KN7E 4KMUE 1I6HF 1IW7E 4OIPE 3GTJF 4YFNE 4A3GF 3S15F 3S1QF 5E17E 4C3IF 4MEXE 1SMYE 5C4XF 4Y7NF 2B63F 3EQLE 3GTLF 3H3VG 5D4EE 1YNJK 2E2IF 4QIWK 4X6AF 2R7ZF 3HKZK 5M5WF 5M5YF 2NVYF 1Y1VF 2JA7F 4YG2E 3HOXF 3GTPF 3S17F 4A3KF 1ZYRE 1Y1WF 1TWGF 3S1NF 2BE5E 2JA8F 2WB1I 3S1RF 4A3DF 1TWAF 2CW0E 3FKIF 3H0GF 2O5IE 4LK0E 3M4OF 4A3LF 1WCMF 5IYCF 3HOZF 2PPBE 3S16F 4OIOE 2NVTF 5C4JF 3S1MF 5TMFE 4A3IF 3S14F 5BYHE 2NVXF 3S2HF 4BY1F 4C3HF 5FJ8F 2KRXA 4C3JF 5M3FF 4BY7F 4XSZE 1K83F 3I4MF 4XSXE 3WODE 2R93F 4OINE 2R92F 2E2JF 4MEYE 4A3JF 4BBSF 4GZYE 5E18E 2A68E 1TWCF 4JK1E 4XLPE 5C44F 2NVQF 1I6VE 3GTKF 4A3MF 3I4NF 5M5XF 1QKLA 5C3EF 3M3YF 1HQME
chains in the Genus database with same CATH homology


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