4BBSF

Structure of an initially transcribing rna polymerase ii-tfiib complex
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
87
structure length
87
Chain Sequence
LKEKAIPKDQRATTPYMTKYERARILGTRALQISMNAPVFVDLEGETDPLRIAMKELAEKKIPLVIRRYLPDGSFEDWSVEELIVDL
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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
source organism Saccharomyces cerevisiae
publication title Structure and Function of the Initially Transcribing RNA Polymerase II-TFIIB Complex
pubmed doi rcsb
molecule keywords DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1
total genus 25
structure length 87
sequence length 87
ec nomenclature
pdb deposition date 2012-09-27

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 4bbsF00
4A3CF 2O5IE 3GTQF 4A3KF 2A6EE 5BYHE 2JA7F 4A3GF 4OIPE 2E2HF 4OINE 3S17F 3HOWF 3GTMF 3S1QF 4XSZE 1Y1WF 2PPBE 5D4CE 2NVQF 3RZDF 3M4OF 4A93F 2NVYF 5M5YF 2A6HE 4A3JF 2NVTF 4YFXE 5FLMF 2JA5F 4Y52F 4BBSF 1K83F 4Q5SE 1R9TF 4JK1E 3DXJE 3HOUF 3RZOF 2A69E 1I6VE 4C3HF 4KMUE 1TWFF 2A68E 2JA8F 4A3MF 1I6HF 2B63F 2E2JF 1I50F 4ZH4E 4A3IF 3S1NF 5TMCE 3HOXF 3GTPF 1WCMF 3HKZK 5C4XF 5IPLE 4C3IF 4YG2E 5FJ8F 1YNNK 3WODE 2WAQK 1HQME 5IYBF 3CQZF 5IYDF 1IW7E 2NVXF 3K7AF 3H3VG 1SMYE 3GTGF 1I3QF 4A3EF 4BXXF 2R93F 4OIQE 3S1MF 5C4JF 2BE5E 5D4EE 1QKLA 4GZYE 1SFOF 4MEYE 5C3EF 5C44F 3I4NF 3GTLF 4XLNE 3EQLE 2VUMF 2Y0SI 5IP7F 4G7OE 5E17E 3HOZF 4XSXE 2O5JE 3I4MF 3PO2F 1YNJK 1TWHF 5E18E 4OIRE 4X6AF 1TWGF 4A3DF 4LK0E 4BBRF 3PO3F 4AYBK 4KN7E 4Q4ZE 5M3MF 4Y7NF 2PMZK 5D4DE 5M3FF 4LJZE 3GTJF 4KN4E 3S14F 4BY7F 4G7ZE 3FKIF 1ZYRE 4OIOE 2YU9F 4C3JF 2R7ZF 3S2HF 4MQ9E 4YFNE 1Y1VF 4XLPE 4LK1E 4LLGE 5M5WF 5M5XF 5IYCF 2CW0E 3HOVF 4YFKE 4G7HE 4A3LF 5IP9F 3GTKF 3GTOF 2WB1I 1TWCF 5TMFE 4A3FF 4MEXE 2R92F 4A3BF 3S16F 3M3YF 2E2IF 3H0GF 1TWAF 3S15F 3S1RF 4C2MF 3HOYF 4BY1F 2JA6F 3S2DF
chains in the Genus database with same CATH superfamily
1Y1WE 4A3CF 2O5IE 3GTQF 2NVQE 3RZDE 3M4OE 4A3KF 2A6EE 4A93E 4A3GE 2NVYE 4A3EE 5M5YE 4BXXE 5BYHE 2JA7F 4A3GF 4OIPE 4A3JE 2E2HF 4OINE 2NVTE 5FLME 2JA5E 3GTMF 3HOWF 3S17F 4XSZE 2WB1H 1Y1WF 2PPBE 4BBSE 4Y52E 5D4CE 2NVQF 2KRXA 3RZDF 3M4OF 1R9TE 4A93F 3HOUE 2NVYF 5M5YF 2A6HE 4C3HE 1TWFE 4A3JF 2NVTF 4YFXE 5FLMF 2JA5F 3S17E 4Y52F 2JA8E 4BBSF 2VUME 1K83F 4Q5SE 4A3ME 1R9TF 4JK1E 3DXJE 2B63E 1I6HE 2E2JE 3HOUF 1I50E 3RZOF 4A3IE 2A69E 3S1NE 1I6VE 4C3HF 4KMUE 1TWFF 3HOXE 3GTPE 5C4XE 2A68E 3S1QE 4C3IE 2JA8F 5FJ8E 5IYBE 4A3MF 3CQZE 5IYDE 2NVXE 1I6HF 2B63F 4A3DE 3K7AE 2E2JF 1I50F 4ZH4E 4BBRE 4A3IF 1I3QE 3GTGE 3S1NF 5TMCE 3HOXF 3GTPF 1WCMF 3HKZK 2R93E 5C4XF 5IPLE 4C3IF 5C4JE 4YG2E 3S1ME 5FJ8F 1YNNK 3S2DF 3WODE 2WAQK 1HQME 5IYBF 3CQZF 5IYDF 1IW7E 2NVXF 1SFOE 3K7AF 5C3EE 3H3VG 3HKZH 1SMYE 5C44E 1I3QF 3GTGF 3I4NE 4A3EF 4BXXF 2R93F 3GTLE 4OIQE 2WAQH 3S1MF 5C4JF 2R7ZE 2BE5E 5D4EE 5IP7E 1QKLA 4GZYE 1SFOF 4MEYE 5C3EF 5C44F 3HOZE 3I4NF 3S1QF 3GTLF 3I4ME 3PO2E 4XLNE 1TWHE 3EQLE 2VUMF 2Y0SI 5IP7F 4X6AE 4G7OE 5E17E 1TWGE 3HOZF 4XSXE 3PO3E 2O5JE 3I4MF 3GTOE 5M3ME 4Y7NE 3PO2F 1YNJK 1TWHF 5E18E 5M3FE 4QIWK 4OIRE 4X6AF 3S1RE 3GTJE 1TWGF 4A3DF 3H3VF 4LK0E 4BBRF 3S14E 4AYBK 3PO3F 4BY7E 4KN7E 1DZFA 4Q4ZE 5M3MF 2Y0SH 4Y7NF 2PMZK 3FKIE 4QIWH 5D4DE 4C3JE 2YU9E 5M3FF 4LJZE 3S2HE 4AYBH 3GTJF 4KN4E 3S14F 2PMZH 4BY7F 1Y1VE 4G7ZE 3FKIF 1ZYRE 4OIOE 5M5WE 4C3JF 5M5XE 5IYCE 2YU9F 2R7ZF 3S2HF 4MQ9E 3HOVE 4A3LE 4YFNE 1Y1VF 4XLPE 1K83E 5IP9E 3GTKE 4LK1E 4LLGE 5M5WF 1TWCE 5M5XF 5IYCF 4A3FE 3RZOE 2R92E 4A3BE 3S16E 3M3YE 2CW0E 3H0GE 1TWAE 4YFKE 2E2IE 4C2ME 4G7HE 4BY1E 2JA6E 3HOVF 3HOYE 3S15E 3S2DE 4A3LF 1EIKA 4A3CE 5IP9F 3GTKF 3GTOF 3GTQE 2WB1I 1TWCF 5TMFE 4A3FF 4MEXE 4A3KE 2R92F 4A3BF 3S16F 3M3YF 2E2IF 1WCME 1TWAF 3H0GF 3S1RF 4C2MF 2E2HE 4BY1F 2JA6F 2JA7E 3HOWE 3GTME 3S15F 3HOYF
chains in the Genus database with same CATH topology
4A3CF 2O5IE 3GTQF 4A3KF 2A6EE 5BYHE 2JA7F 4A3GF 4OIPE 2E2HF 4OINE 3S17F 3HOWF 3GTMF 3S1QF 4XSZE 1Y1WF 2PPBE 5D4CE 2NVQF 2KRXA 3RZDF 3M4OF 4A93F 2NVYF 5M5YF 2A6HE 4A3JF 2NVTF 4YFXE 5FLMF 2JA5F 4Y52F 4BBSF 1K83F 4Q5SE 1R9TF 4JK1E 3DXJE 3HOUF 3RZOF 2A69E 1I6VE 4C3HF 4KMUE 1TWFF 2A68E 2JA8F 4A3MF 1I6HF 2B63F 2E2JF 1I50F 4ZH4E 4A3IF 3S1NF 5TMCE 3HOXF 3GTPF 1WCMF 3HKZK 5C4XF 5IPLE 4C3IF 4YG2E 5FJ8F 1YNNK 3WODE 2WAQK 1HQME 5IYBF 3CQZF 5IYDF 1IW7E 2NVXF 3K7AF 3H3VG 1SMYE 3GTGF 1I3QF 4A3EF 4BXXF 2R93F 4OIQE 3S1MF 5C4JF 2BE5E 5D4EE 1QKLA 4GZYE 1SFOF 4MEYE 5C3EF 5C44F 3I4NF 3GTLF 4XLNE 3EQLE 2VUMF 2Y0SI 5IP7F 4G7OE 5E17E 3HOZF 4XSXE 2O5JE 3I4MF 3PO2F 1YNJK 1TWHF 5E18E 4QIWK 4OIRE 4X6AF 1TWGF 4A3DF 4LK0E 4BBRF 3PO3F 4AYBK 4KN7E 4Q4ZE 5M3MF 4Y7NF 2PMZK 5D4DE 5M3FF 4LJZE 3GTJF 4KN4E 3S14F 4BY7F 4G7ZE 3FKIF 1ZYRE 4OIOE 2YU9F 4C3JF 2R7ZF 3S2HF 4MQ9E 4YFNE 1Y1VF 4XLPE 4LK1E 4LLGE 5M5WF 5M5XF 5IYCF 2CW0E 3HOVF 4YFKE 4G7HE 4A3LF 5IP9F 3GTKF 3GTOF 2WB1I 1TWCF 5TMFE 4A3FF 4MEXE 2R92F 4A3BF 3S16F 3M3YF 2E2IF 3H0GF 1TWAF 3S15F 3S1RF 4C2MF 3HOYF 4BY1F 2JA6F 3S2DF
chains in the Genus database with same CATH homology


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