2VUMD

Alpha-amanitin inhibited complete rna polymerase ii elongation complex
Total Genus 36
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
36
sequence length
218
structure length
177
Chain Sequence
STSTFQTRRRRLKKVEEEENAATLQLGQEFQLKQINHQGEEEELIALNLSEARLVIKEALVERRRAFKRSQKKTREKELESIDVLLEQTTGGNNKDLKNTMQYLTNFSRFRDQETVGAVIQLLKSTGLHPFEVAQLGSLACDTADEAKTLIPSLNNKISDDELERILKELSNLETLY
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
{{ tooltip.sname }} connected with {{ tooltip.tname }} : {{qFormat(tooltip.svalue) }}
molecule tags Transferase
molecule keywords DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1
publication title Structural Basis of Transcription Inhibition by Alpha-Amanitin and Implications for RNA Polymerase II Translocation.
pubmed doi rcsb
total genus 36
structure length 177
sequence length 218
ec nomenclature
pdb deposition date 2008-05-27

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
D PF03874 RNA_pol_Rpb4 RNA polymerase Rpb4
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
1.20.1250.40 Mainly Alpha Up-down Bundle Growth Hormone; Chain: A; Growth Hormone; Chain: A; 2vumD02
4A3KD 3I4MD 4A3FD 5IYCD 3I4ND 5C4XD 2JA8D 4BBSD 3HOUD 4BY7D 3H0GD 5C3ED 2VUMD 4A3CD 5IP9D 4BXXD 3PO2D 3HOVD 4A93D 5IYBD 3PO3D 3AYHA 4A3JD 1Y1VD 5IP7D 1Y1WD 4BY1D 3FKID 4A3MD 3HOXD 2JA5D 1WCMD 5IYDD 2B63D 4A3ED 4A3GD 4BBRD 2R92D 2R7ZD 2JA7D 2R93D 2C35A 5C44D 4A3LD 3H3VE 3HOYD 2JA6D 1Y14A 3HOWD 5FLMD 4A3BD 3HOZD 4A3DD 4A3ID
chains in the Genus database with same CATH superfamily
1PGRA 4FA8E 3BESL 4XNJA 3DUHC 1N1FA 1BGEA 1M48A 2CFPA 3QAZA 2H24A 4YBQA 1B5LA 4YPGC 3D87A 1CYLA 5D59A 4GS7A 4U4VA 4Z5RD 4QIQA 3HOZD 1V7MV 2V8NA 3NCEA 4ZS7A 3QWRB 1CD9A 3I4ND 4BY7D 2E9WC 3WCYI 4WRLB 4X51A 1AXIA 1Y6KL 5D70A 1JLIA 3HOXD 4A3ED 2R93D 3O7PA 4TPJA 1WU3I 1CSGA 3NCBA 5FUCA 1Y14A 3BPOA 3OG4A 4CNIC 3I4MD 4TPGA 4YDYI 1HWGA 1HUWA 4TPHA 4A93D 3DI2A 5KNHI 1PVHB 1QVNA 5D58A 4IKZA 2R7ZD 1AX8A 4GBYA 1IRLA 1ITMA 4GC0A 4MHLA 3H3VE 1NBPA 3DI3A 5L6YC 4ZWCA 4ZWBA 4JA3A 5IP9D 3UF2A 5LQBA 3MZGA 1ALUA 4ZYRA 4LRLA 4D2BA 3HOWD 3WDOA 3VA2A 4IKXA 1LK3A 3NCCA 4NN6A 5EQHA 3HHRA 1LQSL 2Y5YA 3UF5A 2IL6A 2L3YA 1IK0A 4LEPA 3DGCL 1PV6A 2LMSA 5TS9A 4O6KA 5A2OA 1M49A 3EW3A 2O26A 4DKFA 4LDSA 1ILKA 1HIKA 4NI9A 2KZ1A 1J7VL 1HGUA 4NN7A 4PS4A 1RW5A 3S9DA 1EVSA 5C7XA 1Y1WD 1HIJA 3FKID 4J4LC 3BPLA 2B63D 1CN4C 1CNT1 2PSMA 5D6KA 5A2NA 2B5IA 3NPZA 3NCFA 1INRA 3BPNA 1Z92A 1M4RA 5IYCD 3TGXB 3H0GD 5IYBD 2LAGA 3AYHA 4IKYA 4NN5A 2D9QA 4JREA 4U4WA 4APSA 5D72A 2D48A 1VLKA 3Q1SI 4YUEC 1D9CA 2CFQA 3HMXB 4A3BD 4I77Z 4ZF7A 4J05A 1YKBA 2GMFA 3PIVA 4EXNA 3N06A 3B5KA 3PO3D 4A3JD 1RCBA 2B8YA 2ILKA 4BY1D 2B91A 2O6IA 2JA5D 1KF9A 4IU9A 1FYHA 4JR9A 1PW6A 4D2CA 3INKC 1LKIA 3G6DA 1V7NV 1AU1A 4UVMA 5D22A 3HOVD 1M4CA 1M47A 1EERA 1BGCA 1BP3A 5C3ED 5FHXA 3D48P 2JA8D 1M4BA 1Y1VD 1Y6ML 1WCMD 1ITLA 1HWHA 2Z3QA 4A3LD 3QT2C 3HOYD 4DKEA 3LB6A 2ERJD 3HOUD 4EXPA 2O27A 4GRWA 4PYPA 1RFBA 1RHGA 2Q98A 3IRHA 1EMRA 3PIWA 4DOHA 1HULA 1PW4A 2R92D 2JA7D 5C44D 2C35A 4DKDA 5D28B 2B90A 1PY2A 4U4TA 4YB9D 4RS1A 1A7MA 4O9HA 4BXXD 1SCFA 3D85C 5IP7D 4YQXA 1A22A 3SE3B 1GNCA 4Q65A 4XNIA 1ETEA 1GA3A 5FLMD 5D71A 4BBSD 1M4AA 1IJZA 1BBNA 1ITFA 4ZW9A 3O7QA 5IYDD 4IU8A 3N0PA 3UX9A 4OH3A 5E4EA 3UEZE 2JA6D 2INTA 1EKUA 4A3DD 4A3ID 1IL6A 3DLQI 2HYMB 4IKWA 1D9GA 4A3CD 4OAAA 3L5XA 1FG9A 3QB1A 4A3MD 4IKVA 4A3GD 2Z3RA 1Z7CA 2B8ZA 5EQIA 4NI7A 1P9MB 2CYKA 1F45B 2XQBA 2Q14A 4A3KD 3EJJA 3L5WI 4NKQC 2B8XA 3HHCA 3PO2D 2B8UA 1HZIA 2OQPA 4GBZA 5GXBA 4D2DA 2XUTA 4W6VA 4BBRD 4NEJA 3OG6A 1BCNA 3SE4B 1I1RB 4NEMA 4A3FD 3LB6B 2Q7NB 1EXZA 5C4XD 2L3OA 3OQ3A 2VUMD 1PV7A 4DKCA 1F6FA 1Y6NL 1ITIA 5C65A 3G9VB 1IARA 5EQGA 1BUYA 3QB7A 1BGDA
chains in the Genus database with same CATH topology
5D71A 1AU1A 1PGRA 3NCCA 4NN6A 4FA8E 3BESL 5C44D 4BBSD 1M4AA 3HHRA 1LQSL 5D22A 2IL6A 3DUHC 1N1FA 1IJZA 1BBNA 2L3YA 3UF5A 3HOVD 1IK0A 1BGEA 1M48A 3DGCL 2LMSA 3QAZA 2H24A 5TS9A 1ITFA 4O6KA 1B5LA 1M4CA 4YPGC 5IYDD 1M49A 1M47A 3N0PA 3EW3A 3D87A 1CYLA 2O26A 3UX9A 4DKFA 4GS7A 5E4EA 3UEZE 2JA6D 4Z5RD 1ILKA 1HIKA 2INTA 1EERA 4NI9A 1BGCA 3HOZD 1EKUA 4A3DD 1BP3A 1IL6A 5C3ED 2KZ1A 5FHXA 1V7MV 4A3ID 1J7VL 1HGUA 3D48P 3NCEA 4ZS7A 3DLQI 3QWRB 1CD9A 3I4ND 2HYMB 2JA8D 4BY7D 2E9WC 4NN7A 3WCYI 4PS4A 1D9GA 4A3CD 4WRLB 4X51A 1AXIA 1RW5A 1Y6KL 5D70A 3S9DA 1EVSA 3L5XA 1FG9A 1M4BA 1Y1VD 1Y6ML 5C7XA 1Y1WD 3QB1A 1HIJA 1JLIA 3FKID 3BPLA 4J4LC 4A3MD 3HOXD 1WCMD 2B63D 4A3ED 1ITLA 1CN4C 1HWHA 1CNT1 2Z3QA 2Z3RA 4A3GD 2PSMA 2R93D 1Z7CA 2B5IA 4A3LD 3QT2C 1WU3I 2B8ZA 3HOYD 1CSGA 4NI7A 3NCBA 5FUCA 1Y14A 4DKEA 3BPOA 1P9MB 2CYKA 3LB6A 1F45B 2XQBA 3NCFA 3NPZA 1INRA 3OG4A 4CNIC 3BPNA 2Q14A 1Z92A 1M4RA 3EJJA 4A3KD 3I4MD 3L5WI 4NKQC 2ERJD 5IYCD 3TGXB 1HWGA 2B8XA 4YDYI 3H0GD 1HUWA 3HHCA 4EXPA 3HOUD 2O27A 3PO2D 3VA2A 4A93D 2B8UA 4GRWA 2LAGA 3AYHA 1RFBA 3DI2A 5IYBD 1RHGA 1HZIA 2OQPA 3G6DA 4NN5A 2Q98A 3IRHA 1EMRA 5KNHI 2D9QA 3PIWA 4DOHA 1PVHB 1QVNA 1HULA 4BBRD 2R92D 2R7ZD 2JA7D 1AX8A 2C35A 1VLKA 1IRLA 1ITMA 2D48A 4MHLA 4NEJA 3Q1SI 4YUEC 3H3VE 3OG6A 4DKDA 1NBPA 1D9CA 3HMXB 3DI3A 5L6YC 5D28B 4A3BD 4I77Z 1BCNA 4ZF7A 2B90A 3SE4B 1I1RB 1PY2A 1YKBA 2GMFA 4NEMA 4A3FD 3LB6B 2Q7NB 1EXZA 3PIVA 5C4XD 2L3OA 3OQ3A 4EXNA 4RS1A 3N06A 2VUMD 1A7MA 4O9HA 5IP9D 4BXXD 3B5KA 3UF2A 1SCFA 4A3JD 3PO3D 3D85C 5IP7D 1RCBA 2B8YA 2ILKA 4YQXA 4BY1D 4DKCA 2B91A 2O6IA 5LQBA 2JA5D 1F6FA 1KF9A 1Y6NL 1A22A 5D72A 3MZGA 3SE3B 1ALUA 1ITIA 3G9VB 1GNCA 1IARA 1FYHA 1ETEA 1GA3A 1BUYA 4LRLA 3HOWD 3QB7A 1PW6A 5FLMD 3INKC 1LKIA 1V7NV 1BGDA 1LK3A
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 4A3K D;  3I4M D;  4A3F D;  5IYC D;  3I4N D;  5C4X D;  2JA8 D;  4BBS D;  3HOU D;  4BY7 D;  3H0G D;  5C3E D;  2VUM D;  4A3C D;  5IP9 D;  4BXX D;  3PO2 D;  3HOV D;  4A93 D;  5IYB D;  3PO3 D;  3AYH A;  4A3J D;  1Y1V D;  5IP7 D;  1Y1W D;  4BY1 D;  3FKI D;  4A3M D;  3HOX D;  2JA5 D;  1WCM D;  5IYD D;  2B63 D;  4A3E D;  4A3G D;  4BBR D;  2R92 D;  2R7Z D;  2JA7 D;  2R93 D;  2C35 A;  5C44 D;  4A3L D;  3H3V E;  3HOY D;  2JA6 D;  1Y14 A;  3HOW D;  5FLM D;  4A3B D;  3HOZ D;  4A3D D;  4A3I D; 
#chains in the Genus database with same CATH topology
 1PGR A;  4FA8 E;  3BES L;  4XNJ A;  3DUH C;  1N1F A;  1BGE A;  1M48 A;  2CFP A;  3QAZ A;  2H24 A;  4YBQ A;  1B5L A;  4YPG C;  3D87 A;  1CYL A;  5D59 A;  4GS7 A;  4U4V A;  4Z5R D;  4QIQ A;  3HOZ D;  1V7M V;  2V8N A;  3NCE A;  4ZS7 A;  3QWR B;  1CD9 A;  3I4N D;  4BY7 D;  2E9W C;  3WCY I;  4WRL B;  4X51 A;  1AXI A;  1Y6K L;  5D70 A;  1JLI A;  3HOX D;  4A3E D;  2R93 D;  3O7P A;  4TPJ A;  1WU3 I;  1CSG A;  3NCB A;  5FUC A;  1Y14 A;  3BPO A;  3OG4 A;  4CNI C;  3I4M D;  4TPG A;  4YDY I;  1HWG A;  1HUW A;  4TPH A;  4A93 D;  3DI2 A;  5KNH I;  1PVH B;  1QVN A;  5D58 A;  4IKZ A;  2R7Z D;  1AX8 A;  4GBY A;  1IRL A;  1ITM A;  4GC0 A;  4MHL A;  3H3V E;  1NBP A;  3DI3 A;  5L6Y C;  4ZWC A;  4ZWB A;  4JA3 A;  5IP9 D;  3UF2 A;  5LQB A;  3MZG A;  1ALU A;  4ZYR A;  4LRL A;  4D2B A;  3HOW D;  3WDO A;  3VA2 A;  4IKX A;  1LK3 A;  3NCC A;  4NN6 A;  5EQH A;  3HHR A;  1LQS L;  2Y5Y A;  3UF5 A;  2IL6 A;  2L3Y A;  1IK0 A;  4LEP A;  3DGC L;  1PV6 A;  2LMS A;  5TS9 A;  4O6K A;  5A2O A;  1M49 A;  3EW3 A;  2O26 A;  4DKF A;  4LDS A;  1ILK A;  1HIK A;  4NI9 A;  2KZ1 A;  1J7V L;  1HGU A;  4NN7 A;  4PS4 A;  1RW5 A;  3S9D A;  1EVS A;  5C7X A;  1Y1W D;  1HIJ A;  3FKI D;  4J4L C;  3BPL A;  2B63 D;  1CN4 C;  1CNT 1;  2PSM A;  5D6K A;  5A2N A;  2B5I A;  3NPZ A;  3NCF A;  1INR A;  3BPN A;  1Z92 A;  1M4R A;  5IYC D;  3TGX B;  3H0G D;  5IYB D;  2LAG A;  3AYH A;  4IKY A;  4NN5 A;  2D9Q A;  4JRE A;  4U4W A;  4APS A;  5D72 A;  2D48 A;  1VLK A;  3Q1S I;  4YUE C;  1D9C A;  2CFQ A;  3HMX B;  4A3B D;  4I77 Z;  4ZF7 A;  4J05 A;  1YKB A;  2GMF A;  3PIV A;  4EXN A;  3N06 A;  3B5K A;  3PO3 D;  4A3J D;  1RCB A;  2B8Y A;  2ILK A;  4BY1 D;  2B91 A;  2O6I A;  2JA5 D;  1KF9 A;  4IU9 A;  1FYH A;  4JR9 A;  1PW6 A;  4D2C A;  3INK C;  1LKI A;  3G6D A;  1V7N V;  1AU1 A;  4UVM A;  5D22 A;  3HOV D;  1M4C A;  1M47 A;  1EER A;  1BGC A;  1BP3 A;  5C3E D;  5FHX A;  3D48 P;  2JA8 D;  1M4B A;  1Y1V D;  1Y6M L;  1WCM D;  1ITL A;  1HWH A;  2Z3Q A;  4A3L D;  3QT2 C;  3HOY D;  4DKE A;  3LB6 A;  2ERJ D;  3HOU D;  4EXP A;  2O27 A;  4GRW A;  4PYP A;  1RFB A;  1RHG A;  2Q98 A;  3IRH A;  1EMR A;  3PIW A;  4DOH A;  1HUL A;  1PW4 A;  2R92 D;  2JA7 D;  5C44 D;  2C35 A;  4DKD A;  5D28 B;  2B90 A;  1PY2 A;  4U4T A;  4YB9 D;  4RS1 A;  1A7M A;  4O9H A;  4BXX D;  1SCF A;  3D85 C;  5IP7 D;  4YQX A;  1A22 A;  3SE3 B;  1GNC A;  4Q65 A;  4XNI A;  1ETE A;  1GA3 A;  5FLM D;  5D71 A;  4BBS D;  1M4A A;  1IJZ A;  1BBN A;  1ITF A;  4ZW9 A;  3O7Q A;  5IYD D;  4IU8 A;  3N0P A;  3UX9 A;  4OH3 A;  5E4E A;  3UEZ E;  2JA6 D;  2INT A;  1EKU A;  4A3D D;  4A3I D;  1IL6 A;  3DLQ I;  2HYM B;  4IKW A;  1D9G A;  4A3C D;  4OAA A;  3L5X A;  1FG9 A;  3QB1 A;  4A3M D;  4IKV A;  4A3G D;  2Z3R A;  1Z7C A;  2B8Z A;  5EQI A;  4NI7 A;  1P9M B;  2CYK A;  1F45 B;  2XQB A;  2Q14 A;  4A3K D;  3EJJ A;  3L5W I;  4NKQ C;  2B8X A;  3HHC A;  3PO2 D;  2B8U A;  1HZI A;  2OQP A;  4GBZ A;  5GXB A;  4D2D A;  2XUT A;  4W6V A;  4BBR D;  4NEJ A;  3OG6 A;  1BCN A;  3SE4 B;  1I1R B;  4NEM A;  4A3F D;  3LB6 B;  2Q7N B;  1EXZ A;  5C4X D;  2L3O A;  3OQ3 A;  2VUM D;  1PV7 A;  4DKC A;  1F6F A;  1Y6N L;  1ITI A;  5C65 A;  3G9V B;  1IAR A;  5EQG A;  1BUY A;  3QB7 A;  1BGD A; 
#chains in the Genus database with same CATH homology
 5D71 A;  1AU1 A;  1PGR A;  3NCC A;  4NN6 A;  4FA8 E;  3BES L;  5C44 D;  4BBS D;  1M4A A;  3HHR A;  1LQS L;  5D22 A;  2IL6 A;  3DUH C;  1N1F A;  1IJZ A;  1BBN A;  2L3Y A;  3UF5 A;  3HOV D;  1IK0 A;  1BGE A;  1M48 A;  3DGC L;  2LMS A;  3QAZ A;  2H24 A;  5TS9 A;  1ITF A;  4O6K A;  1B5L A;  1M4C A;  4YPG C;  5IYD D;  1M49 A;  1M47 A;  3N0P A;  3EW3 A;  3D87 A;  1CYL A;  2O26 A;  3UX9 A;  4DKF A;  4GS7 A;  5E4E A;  3UEZ E;  2JA6 D;  4Z5R D;  1ILK A;  1HIK A;  2INT A;  1EER A;  4NI9 A;  1BGC A;  3HOZ D;  1EKU A;  4A3D D;  1BP3 A;  1IL6 A;  5C3E D;  2KZ1 A;  5FHX A;  1V7M V;  4A3I D;  1J7V L;  1HGU A;  3D48 P;  3NCE A;  4ZS7 A;  3DLQ I;  3QWR B;  1CD9 A;  3I4N D;  2HYM B;  2JA8 D;  4BY7 D;  2E9W C;  4NN7 A;  3WCY I;  4PS4 A;  1D9G A;  4A3C D;  4WRL B;  4X51 A;  1AXI A;  1RW5 A;  1Y6K L;  5D70 A;  3S9D A;  1EVS A;  3L5X A;  1FG9 A;  1M4B A;  1Y1V D;  1Y6M L;  5C7X A;  1Y1W D;  3QB1 A;  1HIJ A;  1JLI A;  3FKI D;  3BPL A;  4J4L C;  4A3M D;  3HOX D;  1WCM D;  2B63 D;  4A3E D;  1ITL A;  1CN4 C;  1HWH A;  1CNT 1;  2Z3Q A;  2Z3R A;  4A3G D;  2PSM A;  2R93 D;  1Z7C A;  2B5I A;  4A3L D;  3QT2 C;  1WU3 I;  2B8Z A;  3HOY D;  1CSG A;  4NI7 A;  3NCB A;  5FUC A;  1Y14 A;  4DKE A;  3BPO A;  1P9M B;  2CYK A;  3LB6 A;  1F45 B;  2XQB A;  3NCF A;  3NPZ A;  1INR A;  3OG4 A;  4CNI C;  3BPN A;  2Q14 A;  1Z92 A;  1M4R A;  3EJJ A;  4A3K D;  3I4M D;  3L5W I;  4NKQ C;  2ERJ D;  5IYC D;  3TGX B;  1HWG A;  2B8X A;  4YDY I;  3H0G D;  1HUW A;  3HHC A;  4EXP A;  3HOU D;  2O27 A;  3PO2 D;  3VA2 A;  4A93 D;  2B8U A;  4GRW A;  2LAG A;  3AYH A;  1RFB A;  3DI2 A;  5IYB D;  1RHG A;  1HZI A;  2OQP A;  3G6D A;  4NN5 A;  2Q98 A;  3IRH A;  1EMR A;  5KNH I;  2D9Q A;  3PIW A;  4DOH A;  1PVH B;  1QVN A;  1HUL A;  4BBR D;  2R92 D;  2R7Z D;  2JA7 D;  1AX8 A;  2C35 A;  1VLK A;  1IRL A;  1ITM A;  2D48 A;  4MHL A;  4NEJ A;  3Q1S I;  4YUE C;  3H3V E;  3OG6 A;  4DKD A;  1NBP A;  1D9C A;  3HMX B;  3DI3 A;  5L6Y C;  5D28 B;  4A3B D;  4I77 Z;  1BCN A;  4ZF7 A;  2B90 A;  3SE4 B;  1I1R B;  1PY2 A;  1YKB A;  2GMF A;  4NEM A;  4A3F D;  3LB6 B;  2Q7N B;  1EXZ A;  3PIV A;  5C4X D;  2L3O A;  3OQ3 A;  4EXN A;  4RS1 A;  3N06 A;  2VUM D;  1A7M A;  4O9H A;  5IP9 D;  4BXX D;  3B5K A;  3UF2 A;  1SCF A;  4A3J D;  3PO3 D;  3D85 C;  5IP7 D;  1RCB A;  2B8Y A;  2ILK A;  4YQX A;  4BY1 D;  4DKC A;  2B91 A;  2O6I A;  5LQB A;  2JA5 D;  1F6F A;  1KF9 A;  1Y6N L;  1A22 A;  5D72 A;  3MZG A;  3SE3 B;  1ALU A;  1ITI A;  3G9V B;  1GNC A;  1IAR A;  1FYH A;  1ETE A;  1GA3 A;  1BUY A;  4LRL A;  3HOW D;  3QB7 A;  1PW6 A;  5FLM D;  3INK C;  1LKI A;  1V7N V;  1BGD A;  1LK3 A; 
...loading similar chains, please wait...
similar chains in the Genus database (?% sequence similarity)
...loading similar chains, please wait...
similar chains in the pdb database (?% sequence similarity)

 
#similar chains in the Genus database (?% sequence similarity)
...loading similar chains, please wait...
#similar chains, but unknotted
...loading similar chains, please wait...
#similar chains in the pdb database (?% sequence similarity)
...loading similar chains, please wait...