2JA5D

Cpd lesion containing rna polymerase ii elongation complex a
Total Genus 38
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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
38
sequence length
218
structure length
177
Chain Sequence
STSTFQTRRRRLKKVEEEENAATLQLGQEFQLKQINHQGEEEELIALNLSEARLVIKEALVERRRAFKRSQKKTREKELESIDVLLEQTTGGNNKDLKNTMQYLTNFSRFRDQETVGAVIQLLKSTGLHPFEVAQLGSLACDTADEAKTLIPSLNNKISDDELERILKELSNLETLY
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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 II subunit RPB1
publication title Cpd Damage Recognition by Transcribing RNA Polymerase II
pubmed doi rcsb
total genus 38
structure length 177
sequence length 218
ec nomenclature
pdb deposition date 2006-11-23

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; 2ja5D02
4A3DD 5IYDD 4BY1D 2C35A 1Y1VD 2JA8D 4A93D 3AYHA 4A3MD 4A3BD 1Y14A 5IP7D 3H3VE 3HOZD 4A3GD 4A3JD 3PO2D 2JA6D 3HOWD 4A3LD 4A3ID 4A3CD 4A3KD 4A3ED 3HOXD 3HOVD 5C4XD 2VUMD 2R92D 5IP9D 2B63D 2R7ZD 3PO3D 3FKID 3HOUD 1WCMD 3I4MD 4BBSD 4BXXD 3H0GD 5IYBD 4BBRD 3I4ND 2R93D 1Y1WD 5IYCD 4A3FD 3HOYD 4BY7D 5FLMD 5C44D 5C3ED 2JA7D 2JA5D
chains in the Genus database with same CATH superfamily
2O6IA 3LB6A 1YKBA 3H3VE 3HOZD 4RS1A 1F6FA 4PS4A 1EMRA 4ZWBA 4XNJA 4ZYRA 1BGDA 4BBRD 4YQXA 1ALUA 5GXBA 3DGCL 1F45B 4NEJA 5D70A 2IL6A 3N06A 1SCFA 5KNHI 1Y6ML 2R92D 2B90A 2XUTA 3WDOA 1IK0A 4TPHA 1Y1WD 1M4CA 3DI3A 2JA5D 5D71A 3NPZA 1AX8A 5D59A 2L3OA 5IP7D 3D85C 2CFQA 3OG4A 4NN6A 4XNIA 1M48A 2CFPA 4YPGC 1KF9A 3NCCA 1BCNA 3G9VB 1M47A 4O9HA 1EVSA 1ITFA 3D48P 4JR9A 1RW5A 4U4TA 2R7ZD 2OQPA 3FKID 3O7PA 3H0GD 3EW3A 5IYBD 4DKFA 2R93D 3DLQI 2HYMB 3HOYD 5C44D 5C3ED 5D72A 4DKDA 1BBNA 3O7QA 1ITMA 3UEZE 2B8ZA 4A3CD 5D22A 2Q14A 4YB9D 3SE4B 3I4MD 1GNCA 4BXXD 4MHLA 5TS9A 3BESL 4NI9A 5C65A 2CYKA 1PY2A 1CSGA 4BY7D 2B8UA 3QWRB 1CNT1 1IRLA 2PSMA 4A3GD 4A3LD 5EQIA 2V8NA 4IU9A 1D9CA 3HHCA 3TGXB 1B5LA 4YUEC 3UF5A 1PV7A 4Z5RD 4UVMA 1M4BA 1N1FA 1INRA 1FG9A 4ZF7A 4A3DD 3INKC 2XQBA 4A3MD 3UX9A 3S9DA 5D6KA 5IP9D 2B63D 4IKWA 4EXPA 1AXIA 1NBPA 5L6YC 1D9GA 4U4VA 5A2OA 1HIJA 1A7MA 5IYCD 4IU8A 4D2DA 1P9MB 4A3FD 1EXZA 3D87A 3VA2A 4APSA 5FHXA 2ILKA 1Y6KL 4PYPA 4A3BD 3OG6A 1LK3A 3NCEA 5EQGA 3IRHA 4LRLA 1HIKA 4QIQA 1BP3A 3NCFA 4TPJA 1LQSL 3PIWA 4NKQC 3AYHA 1BGEA 5E4EA 1Y14A 4NI7A 1HZIA 1VLKA 4IKVA 3HOUD 3HHRA 2D9QA 4NN7A 1M4RA 3MZGA 5LQBA 3UF2A 2KZ1A 4NEMA 4IKYA 2JA7D 4I77Z 1EERA 4D2BA 1CN4C 1M49A 3SE3B 4ZS7A 3OQ3A 4FA8E 1RCBA 1ITLA 2L3YA 3QAZA 3B5KA 3L5WI 1V7MV 5D28B 1WCMD 3BPOA 3QB1A 4DOHA 4BBSD 1QVNA 1EKUA 1FYHA 3N0PA 2ERJD 2Y5YA 2E9WC 4ZWCA 2LMSA 4ZW9A 1RHGA 4A3KD 5C7XA 4EXNA 3HOVD 2VUMD 4GC0A 1BGCA 2O26A 1GA3A 3PIVA 3QB7A 1PGRA 4JREA 4JA3A 4X51A 4GS7A 3QT2C 4J05A 5FLMD 3NCBA 1LKIA 4GBZA 4BY1D 3WCYI 5D58A 5A2NA 2Z3QA 1JLIA 2D48A 3L5XA 4A3ID 2B5IA 5C4XD 4OAAA 4TPGA 1PW4A 4OH3A 1CD9A 1HWGA 1J7VL 1HUWA 3BPLA 1PV6A 2O27A 4J4LC 5EQHA 2C35A 1PW6A 4A3JD 3EJJA 3PO2D 4DKCA 1WU3I 1ETEA 4DKEA 1A22A 2Z3RA 3G6DA 3I4ND 4LEPA 4D2CA 4NN5A 5IYDD 1Y1VD 1HWHA 4GRWA 3HOWD 4A3ED 3HOXD 2INTA 4Q65A 2B8YA 4W6VA 2H24A 2LAGA 4WRLB 1BUYA 1V7NV 2Q98A 5FUCA 1ITIA 4IKXA 2B91A 1HGUA 4O6KA 4YDYI 4A93D 1IARA 1Y6NL 2B8XA 4LDSA 3PO3D 1RFBA 1CYLA 1IL6A 2GMFA 4CNIC 1AU1A 1IJZA 4YBQA 1I1RB 4U4WA 4IKZA 2JA8D 3HMXB 2JA6D 3DUHC 1Z7CA 1HULA 4GBYA 2Q7NB 3LB6B 1M4AA 1Z92A 1PVHB 3BPNA 1ILKA 3DI2A 3Q1SI
chains in the Genus database with same CATH topology
4DKDA 2C35A 1BBNA 3PIWA 2O6IA 3LB6A 4NKQC 3AYHA 1YKBA 1ITMA 1BGEA 1PW6A 1Y14A 5E4EA 3UEZE 3H3VE 3HOZD 4A3JD 2B8ZA 3EJJA 3PO2D 4DKCA 4A3CD 4RS1A 4NI7A 1HZIA 5D22A 1F6FA 1WU3I 1EMRA 4PS4A 1VLKA 1ETEA 2Q14A 3SE4B 3HOUD 3HHRA 2D9QA 1A22A 4NN7A 4DKEA 3I4MD 4BXXD 1GNCA 4MHLA 5TS9A 3BESL 4NI9A 2Z3RA 1M4RA 1BGDA 4BBRD 2CYKA 3MZGA 5LQBA 3G6DA 3UF2A 3I4ND 1PY2A 4YQXA 1CSGA 4BY7D 2KZ1A 4NEMA 1ALUA 2B8UA 3QWRB 1CNT1 2JA7D 4I77Z 4NN5A 1EERA 5IYDD 1Y1VD 3DGCL 1CN4C 1M49A 1F45B 1IRLA 2PSMA 1HWHA 4NEJA 5D70A 1A7MA 3SE3B 4ZS7A 3OQ3A 4GRWA 4FA8E 4A3GD 3HOWD 4A3LD 1RCBA 2IL6A 3N06A 1ITLA 1SCFA 5KNHI 2L3YA 4A3ED 3HOXD 1D9CA 3QAZA 2INTA 1Y6ML 3B5KA 2R92D 3HHCA 1V7MV 2B8YA 3L5WI 3TGXB 2B90A 2H24A 2LAGA 5D28B 1B5LA 1WCMD 4WRLB 4YUEC 1BUYA 3BPOA 3QB1A 3UF5A 1V7NV 4DOHA 4BBSD 2Q98A 1QVNA 1EKUA 1FYHA 3N0PA 1IK0A 5FUCA 4Z5RD 1Y1WD 2ERJD 1M4CA 1M4BA 1N1FA 2E9WC 1INRA 3DI3A 1ITIA 1FG9A 4ZF7A 4A3DD 2B91A 2JA5D 5D71A 1HGUA 3INKC 4O6KA 4YDYI 2XQBA 3NPZA 2LMSA 4A93D 1AX8A 1IARA 4A3MD 1Y6NL 2B8XA 3UX9A 5IP7D 2L3OA 3S9DA 3D85C 1RHGA 4A3KD 5C7XA 4EXNA 3HOVD 2VUMD 1BGCA 3OG4A 5IP9D 2O26A 2B63D 1GA3A 3PO3D 3PIVA 3QB7A 1PGRA 4EXPA 1RFBA 1CYLA 1AXIA 1IL6A 1NBPA 2GMFA 1D9GA 4NN6A 1HIJA 4GS7A 1M48A 4X51A 4CNIC 5L6YC 5IYCD 1P9MB 4A3FD 1AU1A 1EXZA 1IJZA 3D87A 3QT2C 5FLMD 3NCBA 1LKIA 4YPGC 1KF9A 3NCCA 3VA2A 1BCNA 3G9VB 4BY1D 1I1RB 5FHXA 3WCYI 1M47A 2ILKA 1Y6KL 2JA8D 4A3BD 2Z3QA 4O9HA 1EVSA 1JLIA 3HMXB 2D48A 3L5XA 3OG6A 2JA6D 4A3ID 1ITFA 3DUHC 3D48P 1LK3A 1Z7CA 2B5IA 5C4XD 1HULA 1RW5A 2Q7NB 2R7ZD 2OQPA 3FKID 3LB6B 1M4AA 3NCEA 3H0GD 3IRHA 1CD9A 1HWGA 4LRLA 3EW3A 5IYBD 1HIKA 1Z92A 1J7VL 1HUWA 3BPLA 4DKFA 1PVHB 1BP3A 1ILKA 3BPNA 3DI2A 3DLQI 2R93D 2HYMB 3HOYD 3NCFA 3Q1SI 2O27A 4J4LC 5C44D 5C3ED 1LQSL 5D72A
chains in the Genus database with same CATH homology


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