4A3BF

Rna polymerase ii initial transcribing complex with a 4nt dna-rna hybrid
Total Genus 27
Loading diagram...

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
27
sequence length
84
structure length
84
Chain Sequence
KAIPKDQRATTPYMTKYERARILGTRALQISMNAPVFVDLEGETDPLRIAMKELAEKKIPLVIRRYLPDGSFEDWSVEELIVDL
Loading diagram...

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
molecule keywords DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1
publication title Structural basis of initial RNA polymerase II transcription.
pubmed doi rcsb
total genus 27
structure length 84
sequence length 84
ec nomenclature
pdb deposition date 2011-09-30

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
F 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 4a3bF00
1I50F 4JK1E 3HOVF 1IW7E 2WB1I 3GTOF 4AYBK 4Q4ZE 4BY1F 3GTJF 5IYBF 4G7OE 2A69E 2VUMF 5C44F 4BBSF 1TWHF 4LLGE 1YNJK 4C3JF 4LK0E 3RZOF 5M3FF 4XSXE 3GTMF 3S1NF 3S1RF 2JA8F 3EQLE 5C4XF 3I4MF 4YFKE 4A3EF 5E17E 4YFNE 3H0GF 4G7ZE 5BYHE 4OIPE 2YU9F 2CW0E 1TWFF 2O5IE 2R92F 3S14F 1R9TF 1TWCF 4A3KF 3RZDF 1ZYRE 5C3EF 3M4OF 4A3FF 4OIOE 3I4NF 3S16F 4KMUE 4BBRF 5M3MF 4C3HF 4G7HE 5IPLE 4LK1E 1I6HF 5IYCF 1Y1WF 2A6EE 1WCMF 3GTLF 1I6VE 4A3JF 3CQZF 5D4EE 4A3BF 4BXXF 4X6AF 3S2DF 5FLMF 3HOYF 3FKIF 1HQME 4XSZE 2BE5E 4GZYE 4KN7E 2PPBE 1I3QF 4XLNE 4A3DF 1K83F 3GTKF 2E2HF 3HOWF 2NVXF 1YNNK 2E2IF 3H3VG 2Y0SI 2A6HE 4LJZE 4Q5SE 2R7ZF 4C3IF 3HOUF 4A3CF 4A93F 3GTPF 3HOXF 3S1QF 4ZH4E 4BY7F 4MEYE 3S15F 5D4CE 2O5JE 5TMCE 5M5WF 4A3IF 2B63F 3M3YF 2R93F 4KN4E 3DXJE 1TWAF 2JA6F 3HOZF 3S1MF 1QKLA 5M5YF 4Y7NF 5IYDF 1TWGF 5TMFE 3K7AF 5E18E 2JA5F 5IP7F 4OINE 3HKZK 2JA7F 4OIRE 4A3MF 5D4DE 4YG2E 2NVQF 4C2MF 3S17F 4A3GF 4OIQE 4MQ9E 3GTQF 5C4JF 1SFOF 3PO2F 3GTGF 3WODE 3PO3F 2NVYF 2PMZK 2NVTF 5IP9F 1Y1VF 5FJ8F 4YFXE 2E2JF 2A68E 2WAQK 4Y52F 4MEXE 3S2HF 1SMYE 5M5XF 4XLPE 4A3LF
chains in the Genus database with same CATH superfamily
1I50F 4A3EE 4JK1E 3HOVF 1I3QE 1IW7E 2WB1I 3H0GE 3GTOF 1K83E 3GTKE 2E2HE 4AYBK 4Q4ZE 2YU9E 2R92E 4QIWH 4BY1F 1R9TE 3S14E 3GTJF 5IYBF 4AYBH 4G7OE 2A69E 4A3FE 3I4NE 2R7ZE 2VUMF 3S16E 4C3IE 5C44F 4BBSF 1TWHF 4BBRE 4LLGE 1YNJK 4C3JF 4A3CE 4LK0E 3RZOF 5M3FF 4XSXE 3HOXE 4A93E 3GTMF 3S1NF 3S1RF 2JA8F 1I6HE 3EQLE 5IYCE 5C4XF 5M5WE 3I4MF 4A3IE 1WCME 4YFKE 4A3EF 3GTLE 3M3YE 5E17E 4YFNE 3H0GF 4G7ZE 5BYHE 4OIPE 4BXXE 4X6AE 3S2DE 5FLME 3HOYE 2YU9F 2CW0E 1TWFF 5M5YE 2O5IE 3FKIE 5IYDE 1TWCF 4A3KF 3RZDF 1R9TF 2R92F 1ZYRE 3S14F 5C3EF 3M4OF 4QIWK 4A3FF 4OIOE 3I4NF 4A3DE 5IP7E 3HOWE 3S16F 2NVXE 4KMUE 4BBRF 5M3MF 4C3HF 4G7HE 2E2IE 5IPLE 2WB1H 5C4JE 4LK1E 1SFOE 1I6HF 3PO2E 5IYCF 1Y1WF 3HOUE 3GTGE 3PO3E 3GTPE 2A6EE 1WCMF 3GTLF 3S1QE 1I6VE 4A3JF 3CQZF 5D4EE 5IP9E 4A3BF 4BXXF 4X6AF 3S2DF 4BY7E 5FLMF 3S15E 5FJ8E 3HOYF 4XSZE 3FKIF 1HQME 2BE5E 4GZYE 2B63E 4KN7E 4Y52E 2PPBE 2R93E 1I3QF 1TWAE 4XLNE 3S2HE 4A3DF 1K83F 3GTKF 2E2HF 2JA6E 3HOWF 3S1ME 3HOZE 2NVXF 4Y7NE 1TWGE 1YNNK 2E2IF 3H3VG 3HKZH 3K7AE 2Y0SI 2A6HE 2JA5E 4LJZE 4Q5SE 2R7ZF 4C3IF 2JA7E 3HOUF 4A3CF 4A3ME 4A93F 3GTPF 4BY1E 2Y0SH 3HOXF 2NVQE 3S1QF 4C2ME 3S17E 4A3GE 1DZFA 4ZH4E 3GTQE 1EIKA 4BY7F 4MEYE 3S15F 5D4CE 2O5JE 5TMCE 5M5WF 2KRXA 2PMZH 5C44E 1TWHE 4A3IF 2B63F 4BBSE 3M3YF 2R93F 4KN4E 3RZOE 2NVYE 3DXJE 1TWAF 2NVTE 3GTME 3S1NE 3S1RE 2JA6F 1Y1VE 3HOZF 3S1MF 1QKLA 5M5YF 4Y7NF 5IYDF 1TWGF 2E2JE 5C4XE 5TMFE 3K7AF 5E18E 2JA5F 5IP7F 4OINE 3HKZK 5M5XE 2JA7F 4OIRE 4A3MF 1TWFE 5D4DE 4YG2E 4A3LE 1TWCE 4A3KE 3RZDE 2NVQF 1I50E 4C2MF 3S17F 4OIQE 4MQ9E 5C3EE 3GTQF 5C4JF 3HOVE 1SFOF 3M4OE 3GTOE 3PO2F 3GTGF 3WODE 3PO3F 5M3ME 4C3HE 2NVYF 5IYBE 3GTJE 2PMZK 2NVTF 5IP9F 3H3VF 1Y1VF 2VUME 5FJ8F 4YFXE 1Y1WE 2E2JF 2A68E 2WAQK 4Y52F 4MEXE 4C3JE 5M3FE 3S2HF 2WAQH 4A3JE 1SMYE 3CQZE 5M5XF 2JA8E 4A3BE 4XLPE 4A3GF 4A3LF 3I4ME
chains in the Genus database with same CATH topology
1I50F 4JK1E 3HOVF 1IW7E 2WB1I 3GTOF 4AYBK 4Q4ZE 4BY1F 3GTJF 5IYBF 4G7OE 2A69E 2VUMF 5C44F 4BBSF 1TWHF 4LLGE 1YNJK 4C3JF 4LK0E 3RZOF 5M3FF 4XSXE 3GTMF 3S1NF 3S1RF 2JA8F 3EQLE 5C4XF 3I4MF 4YFKE 4A3EF 5E17E 4YFNE 3H0GF 4G7ZE 5BYHE 4OIPE 2YU9F 2CW0E 1TWFF 2O5IE 2R92F 3S14F 1R9TF 1TWCF 4A3KF 3RZDF 1ZYRE 5C3EF 3M4OF 4QIWK 4A3FF 4OIOE 3I4NF 3S16F 4KMUE 4BBRF 5M3MF 4C3HF 4G7HE 5IPLE 4LK1E 1I6HF 5IYCF 1Y1WF 2A6EE 1WCMF 3GTLF 1I6VE 4A3JF 3CQZF 5D4EE 4A3BF 4BXXF 4X6AF 3S2DF 5FLMF 3HOYF 3FKIF 1HQME 4XSZE 2BE5E 4GZYE 4KN7E 2PPBE 1I3QF 4XLNE 4A3DF 1K83F 3GTKF 2E2HF 3HOWF 2NVXF 1YNNK 2E2IF 3H3VG 2Y0SI 2A6HE 4LJZE 4Q5SE 2R7ZF 4C3IF 3HOUF 4A3CF 4A93F 3GTPF 3HOXF 3S1QF 4ZH4E 4BY7F 4MEYE 3S15F 5D4CE 2O5JE 5TMCE 5M5WF 2KRXA 4A3IF 2B63F 3M3YF 2R93F 4KN4E 3DXJE 1TWAF 2JA6F 3HOZF 3S1MF 1QKLA 5M5YF 4Y7NF 5IYDF 1TWGF 5TMFE 3K7AF 5E18E 2JA5F 5IP7F 4OINE 3HKZK 2JA7F 4OIRE 4A3MF 5D4DE 4YG2E 2NVQF 4C2MF 3S17F 4A3GF 4OIQE 4MQ9E 3GTQF 5C4JF 1SFOF 3PO2F 3GTGF 3WODE 3PO3F 2NVYF 2PMZK 2NVTF 5IP9F 1Y1VF 5FJ8F 4YFXE 2E2JF 2A68E 2WAQK 4Y52F 4MEXE 3S2HF 1SMYE 5M5XF 4XLPE 4A3LF
chains in the Genus database with same CATH homology


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