3HKZK

The x-ray crystal structure of rna polymerase from archaea
Total Genus 16
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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
16
sequence length
82
structure length
82
Chain Sequence
QDLHFNEVFISLWQNRLTRYEIARVISARALQLAMGAPALIDINNLSSTDVISIAEEEFRRGVLPITIRRRLPNGKIILLSL
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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
molecule keywords DNA-directed RNA polymerase subunit A'
publication title The X-ray crystal structure of RNA polymerase from Archaea.
pubmed doi rcsb
total genus 16
structure length 82
sequence length 82
chains with identical sequence U
ec nomenclature ec 2.7.7.6: DNA-directed RNA polymerase.
pdb deposition date 2009-05-26

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
K 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 3hkzK00
4A3DF 4MEXE 3PO3F 2R92F 3EQLE 2A6HE 3M4OF 3RZOF 3DXJE 4Q4ZE 5D4EE 4OINE 5FJ8F 3HKZK 5IPLE 1IW7E 2Y0SI 1I3QF 2JA8F 2A68E 5IYCF 4MEYE 5IP7F 4LK0E 4A3JF 4XSXE 2WAQK 3GTKF 1Y1VF 3M3YF 2PPBE 3I4MF 4KN4E 3S17F 4A3GF 1WCMF 2A69E 4YFNE 1I6HF 1I50F 4A3MF 3GTOF 4LJZE 4XLPE 2PMZK 4LLGE 5TMCE 2NVXF 3S2DF 1TWAF 3S1RF 2E2IF 1YNNK 4X6AF 3S15F 3GTGF 1TWFF 3HOWF 4G7ZE 4BY7F 5D4DE 3HOXF 4OIOE 1I6VE 3RZDF 2JA7F 4A93F 2BE5E 2JA5F 4C3JF 4A3BF 5BYHE 4A3KF 4A3IF 1SFOF 3S1QF 3H3VG 2CW0E 3HOVF 3S14F 4KN7E 5IYDF 4OIQE 2E2JF 2E2HF 4BY1F 3I4NF 3K7AF 1K83F 3H0GF 4MQ9E 4ZH4E 5E18E 4C3HF 4BBSF 1TWGF 4A3CF 1Y1WF 3S2HF 2R93F 2VUMF 3S16F 5C4XF 1R9TF 2R7ZF 2NVQF 3WODE 3GTMF 1TWHF 4YFXE 3S1NF 4G7OE 2WB1I 4YFKE 2O5IE 4KMUE 4Q5SE 5FLMF 1ZYRE 4XLNE 3GTLF 1SMYE 1HQME 4XSZE 1YNJK 4C3IF 3S1MF 3HOYF 5M5XF 5C3EF 2YU9F 3CQZF 4OIRE 2JA6F 4BXXF 5C4JF 3GTPF 4A3LF 5M5WF 4AYBK 4Y52F 4LK1E 3FKIF 4A3FF 5IP9F 3HOZF 5M3FF 5M5YF 5M3MF 5IYBF 4BBRF 4G7HE 1QKLA 5TMFE 4JK1E 2B63F 3HOUF 1TWCF 4A3EF 4Y7NF 3GTQF 4GZYE 4OIPE 4C2MF 2O5JE 3PO2F 4YG2E 2NVTF 5D4CE 2A6EE 2NVYF 3GTJF 5E17E 5C44F
chains in the Genus database with same CATH superfamily
4AYBH 2JA5E 4A3DF 4C3JE 4MEXE 4A3BE 3PO3F 2R92F 4A3KE 3EQLE 2A6HE 4C3IE 4A3IE 1SFOE 3M4OF 3S1QE 4QIWH 3RZOF 3DXJE 3S14E 3CQZE 4Q4ZE 5IYDE 4BXXE 5D4EE 2E2JE 4OINE 2E2HE 5FJ8F 3HKZK 3I4NE 1IW7E 5IPLE 2Y0SI 1I3QF 3K7AE 2A68E 1K83E 3H0GE 5IYCF 2JA8F 4BBSE 4C3HE 4MEYE 2KRXA 1TWGE 4A3CE 5IP7F 1Y1WE 3S2HE 4LK0E 4A3JF 2R93E 4XSXE 2VUME 2WAQK 3S16E 3GTKF 2B63E 3HOUE 2Y0SH 1Y1VF 1R9TE 3M3YF 2PPBE 2NVQE 3I4MF 4KN4E 3GTME 1TWHE 3S17F 1WCMF 2A69E 4YFNE 1I6HF 1I50F 4A3GF 4A3MF 3GTOF 4LJZE 4XLPE 2PMZK 3H3VF 4LLGE 5TMCE 5FLME 2NVXF 1TWAF 3S2DF 3S1RF 3GTLE 2E2IF 1YNNK 4X6AF 3S1ME 3S15F 3GTGF 1TWFF 3HKZH 3HOWF 4G7ZE 3HOYE 5M5XE 4BY7F 5C3EE 5D4DE 3HOXF 2YU9E 5C4XE 4OIOE 2JA6E 1I6VE 3RZDF 5C4JE 2JA7F 2BE5E 3GTPE 4A93F 3M4OE 4A3LE 5M5WE 2WAQH 4Y52E 3FKIE 4A3FE 5IP9E 2JA5F 4C3JF 3HOZE 4A3BF 5M3FE 5M5YE 5BYHE 5M3ME 5IYBE 4BBRE 4A3KF 1EIKA 2PMZH 4A3IF 1SFOF 3S1QF 1TWCE 4A3EE 3H3VG 4Y7NE 3GTQE 1DZFA 2CW0E 3HOVF 3S14F 4KN7E 4C2ME 5IYDF 4OIQE 2E2JF 3PO2E 2E2HF 4BY1F 3I4NF 2NVTE 3S17E 3K7AF 1K83F 1I50E 3H0GF 4MQ9E 2NVYE 4ZH4E 4C3HF 5E18E 3GTJE 4BBSF 1TWGF 4A3CF 1Y1WF 3S2HF 5C44E 3HOVE 3S2DE 2R93F 4A3DE 2VUMF 3S16F 3PO3E 5C4XF 1R9TF 2R7ZF 2R92E 2NVQF 3WODE 3GTMF 1TWHF 4YFXE 3S1NF 4G7OE 2WB1I 4YFKE 2O5IE 3RZOE 4KMUE 4Q5SE 5FLMF 1ZYRE 4XLNE 5FJ8E 3GTLF 1SMYE 1HQME 4XSZE 1YNJK 1I3QE 2WB1H 4C3IF 2JA8E 3S1MF 5IYCE 3HOYF 5M5XF 5C3EF 2YU9F 5IP7E 3CQZF 4A3JE 4OIRE 2JA6F 4BXXF 5C4JF 3GTPF 3GTKE 1Y1VE 3M3YE 4A3LF 3I4ME 5M5WF 4AYBK 4A3GE 1WCME 4Y52F 4LK1E 1I6HE 3FKIF 4A3FF 5IP9F 4A3ME 3GTOE 3HOZF 4BY1E 5M3FF 5M5YF 2NVXE 1TWAE 5M3MF 5IYBF 4BBRF 4G7HE 1QKLA 5TMFE 4QIWK 4JK1E 3S1RE 2E2IE 2B63F 3HOUF 4X6AE 1TWCF 4A3EF 3S15E 4Y7NF 3GTQF 3GTGE 4OIPE 1TWFE 3HOWE 4GZYE 4C2MF 4BY7E 2O5JE 3HOXE 3PO2F 2R7ZE 4YG2E 3RZDE 2JA7E 4A93E 2NVTF 5D4CE 3S1NE 2A6EE 2NVYF 3GTJF 5E17E 5C44F
chains in the Genus database with same CATH topology
4A3DF 4MEXE 3PO3F 2R92F 3EQLE 2A6HE 3M4OF 3RZOF 3DXJE 4Q4ZE 5D4EE 4OINE 5FJ8F 3HKZK 5IPLE 1IW7E 2Y0SI 1I3QF 2JA8F 2A68E 5IYCF 4MEYE 2KRXA 5IP7F 4LK0E 4A3JF 4XSXE 2WAQK 3GTKF 1Y1VF 3M3YF 2PPBE 3I4MF 4KN4E 3S17F 4A3GF 1WCMF 2A69E 4YFNE 1I6HF 1I50F 4A3MF 3GTOF 4LJZE 4XLPE 2PMZK 4LLGE 5TMCE 2NVXF 3S2DF 1TWAF 3S1RF 2E2IF 1YNNK 4X6AF 3S15F 3GTGF 1TWFF 3HOWF 4G7ZE 4BY7F 5D4DE 3HOXF 4OIOE 1I6VE 3RZDF 2JA7F 4A93F 2BE5E 2JA5F 4C3JF 4A3BF 5BYHE 4A3KF 4A3IF 1SFOF 3S1QF 3H3VG 2CW0E 3HOVF 3S14F 4KN7E 5IYDF 4OIQE 2E2JF 2E2HF 4BY1F 3I4NF 3K7AF 1K83F 3H0GF 4MQ9E 4ZH4E 5E18E 4C3HF 4BBSF 1TWGF 4A3CF 1Y1WF 3S2HF 2R93F 2VUMF 3S16F 5C4XF 1R9TF 2R7ZF 2NVQF 3WODE 3GTMF 1TWHF 4YFXE 3S1NF 4G7OE 2WB1I 4YFKE 2O5IE 4KMUE 4Q5SE 5FLMF 1ZYRE 4XLNE 3GTLF 1SMYE 1HQME 4XSZE 1YNJK 4C3IF 3S1MF 3HOYF 5M5XF 5C3EF 2YU9F 3CQZF 4OIRE 2JA6F 4BXXF 5C4JF 3GTPF 4A3LF 5M5WF 4AYBK 4Y52F 4LK1E 3FKIF 4A3FF 5IP9F 3HOZF 5M3FF 5M5YF 5M3MF 5IYBF 4BBRF 4G7HE 1QKLA 5TMFE 4QIWK 4JK1E 2B63F 3HOUF 1TWCF 4A3EF 4Y7NF 3GTQF 4GZYE 4OIPE 4C2MF 2O5JE 3PO2F 4YG2E 2NVTF 5D4CE 2A6EE 2NVYF 3GTJF 5E17E 5C44F
chains in the Genus database with same CATH homology


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