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
b'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
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molecule keywords DNA-directed RNA polymerase II subunit RPB1
publication title Cpd Damage Recognition by Transcribing RNA Polymerase II
pubmed doi rcsb
molecule tags Transferase
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
5C44D 3FKID 5IP7D 3HOWD 5FLMD 4A3BD 4A93D 5IYCD 3HOZD 5IP9D 4BY7D 3PO2D 1Y1VD 4A3GD 5C4XD 2JA5D 2VUMD 3HOVD 3I4MD 3AYHA 1WCMD 4A3JD 3HOUD 2R92D 4BBSD 2C35A 3H0GD 2JA7D 1Y14A 4BBRD 5IYBD 3HOXD 3H3VE 3HOYD 3I4ND 4BXXD 2R93D 4A3DD 4BY1D 5IYDD 4A3FD 4A3LD 3PO3D 4A3CD 1Y1WD 2R7ZD 4A3KD 2JA6D 4A3MD 2JA8D 2B63D 4A3ED 4A3ID 5C3ED
chains in the Genus database with same CATH superfamily
4D2CA 5D72A 4Q65A 1IL6A 1HWHA 5D70A 1LQSL 2Q98A 4ZYRA 4DKFA 1BP3A 4BBRD 3D85C 1GA3A 5IYDD 5C3ED 1HGUA 3NCBA 3EW3A 4NI7A 1M4CA 3QB7A 1BBNA 1YKBA 4PYPA 1HIJA 1P9MB 3O7QA 4A3GD 2B8UA 1PV6A 1BUYA 1CN4C 4A3DD 1ITFA 4TPJA 4IU8A 4IKVA 1CYLA 4NN5A 2CFQA 4ZF7A 5C44D 1AX8A 4YB9D 5C65A 3DI3A 4W6VA 3NCFA 5D22A 1HIKA 4IKYA 3HOXD 4D2DA 4BY1D 4A3FD 4X51A 4NN7A 4A3MD 1M49A 4YQXA 4YPGC 3HOWD 1SCFA 1IK0A 4XNJA 2Q7NB 1M4RA 3G6DA 1IJZA 3HMXB 1WU3I 2R93D 4O6KA 2B91A 3VA2A 2L3YA 3Q1SI 1Z7CA 2ERJD 1A22A 1KF9A 1HWGA 2B5IA 4U4TA 5IYCD 4JR9A 4WRLB 4MHLA 1EERA 5EQGA 4NEMA 5FHXA 3H3VE 5C7XA 2CFPA 1J7VL 3BPOA 4GBYA 2JA6D 2B63D 1F45B 4A3ED 1ITIA 2INTA 4J4LC 1JLIA 4U4VA 3B5KA 2D48A 4J05A 4UVMA 5LQBA 5KNHI 1BGCA 1ITLA 5EQHA 2HYMB 3HOUD 5D71A 2B8YA 3BPNA 5A2OA 2Q14A 1VLKA 1Z92A 3SE4B 3D87A 3UF2A 4GS7A 2D9QA 1I1RB 3FKID 2E9WC 3HHCA 4NI9A 4BY7D 1CSGA 3IRHA 4YBQA 1INRA 4CNIC 1PW6A 3DLQI 1HZIA 3WCYI 4YDYI 1ILKA 3PO3D 4A3ID 3LB6B 4JREA 3OG4A 1V7NV 2O27A 3O7PA 3UEZE 3PO2D 4DOHA 2Z3RA 4LDSA 3BPLA 2O6IA 3DI2A 5A2NA 4IKXA 3HOYD 1FG9A 2XUTA 1PY2A 2LMSA 4Z5RD 3UX9A 1PV7A 2V8NA 5D6KA 1EKUA 3OG6A 1ITMA 5IP7D 3UF5A 1D9GA 4TPGA 5C4XD 4DKEA 3HOVD 4IKZA 4IKWA 1PVHB 5FUCA 5IYBD 2CYKA 2IL6A 1PGRA 1RCBA 2R7ZD 1NBPA 4NEJA 3QB1A 1EMRA 2B90A 1M48A 1RFBA 1GNCA 1F6FA 4GC0A 1HUWA 4A93D 3NPZA 1Y1VD 2O26A 2H24A 4XNIA 2VUMD 1V7MV 1IARA 3DGCL 4ZWBA 2Z3QA 3QT2C 1AU1A 2XQBA 3PIVA 1CD9A 3QWRB 2B8XA 1LKIA 5D59A 3S9DA 4LRLA 2Y5YA 4BBSD 4FA8E 3PIWA 2L3OA 1M47A 2KZ1A 3N06A 1PW4A 4O9HA 2LAGA 3INKC 1QVNA 2ILKA 5GXBA 4JA3A 1N1FA 4A3JD 3G9VB 3MZGA 2JA7D 3WDOA 1RW5A 1RHGA 5D28B 1CNT1 4A3CD 4A3KD 5TS9A 2JA8D 3L5WI 1Y6ML 3SE3B 5IP9D 4GBZA 1Y6NL 3I4MD 3AYHA 4RS1A 2OQPA 4EXNA 2C35A 1Y6KL 2B8ZA 4QIQA 3QAZA 4YUEC 1M4AA 1ETEA 1B5LA 4OH3A 4PS4A 4NKQC 4OAAA 4GRWA 3HOZD 4U4WA 4EXPA 1IRLA 2JA5D 4D2BA 1ALUA 3EJJA 1AXIA 1M4BA 4IU9A 4LEPA 2R92D 1LK3A 3H0GD 5D58A 1Y14A 1FYHA 4A3LD 2GMFA 3I4ND 1HULA 3BESL 5L6YC 3D48P 5FLMD 4A3BD 3OQ3A 1BGEA 3NCEA 1EXZA 3LB6A 5E4EA 2PSMA 1WCMD 1EVSA 4NN6A 4BXXD 1Y1WD 3N0PA 4ZS7A 3TGXB 4DKCA 4TPHA 4ZW9A 3L5XA 3HHRA 4APSA 4ZWCA 1A7MA 4DKDA 5EQIA 4I77Z 1D9CA 3DUHC 1BGDA 3NCCA 1BCNA
chains in the Genus database with same CATH topology
5D72A 1HWGA 2B5IA 1EKUA 3OG6A 1ITMA 5IP7D 1IL6A 3UF5A 3L5WI 1D9GA 1Y6ML 5IYCD 3SE3B 1HWHA 5IP9D 5D70A 1LQSL 1Y6NL 2Q98A 5C4XD 4WRLB 4DKEA 4DKFA 3HOVD 3I4MD 3AYHA 4MHLA 4RS1A 1BP3A 2OQPA 4EXNA 2C35A 1EERA 1Y6KL 1PVHB 4NEMA 5FHXA 2B8ZA 2CYKA 5FUCA 4BBRD 5IYBD 3D85C 2IL6A 3H3VE 5C7XA 1GA3A 1J7VL 1PGRA 5IYDD 3BPOA 1RCBA 2R7ZD 1NBPA 3QAZA 3NCCA 4YUEC 2JA6D 2B63D 1M4AA 1F45B 4A3ED 4NEJA 3QB1A 1ETEA 1B5LA 2INTA 4J4LC 5C3ED 1ITIA 1JLIA 1HGUA 4PS4A 1EMRA 2B90A 1M48A 3NCBA 1RFBA 3B5KA 2D48A 4NKQC 1GNCA 1F6FA 3EW3A 4NI7A 1HUWA 1M4CA 4GRWA 3QB7A 5KNHI 5LQBA 3HOZD 4A93D 1BBNA 1YKBA 4EXPA 1HIJA 3NPZA 1P9MB 1Y1VD 2O26A 4A3GD 1IRLA 1BGCA 2H24A 1ITLA 2JA5D 2B8UA 2VUMD 1ALUA 3EJJA 2HYMB 3HOUD 1AXIA 1M4BA 1V7MV 2R92D 1IARA 3DGCL 5D71A 1LK3A 2Z3QA 3H0GD 1Y14A 2B8YA 3BPNA 1BUYA 1FYHA 1CN4C 4A3DD 1ITFA 2Q14A 4A3LD 3QT2C 1AU1A 1VLKA 1CYLA 1Z92A 3SE4B 2GMFA 3D87A 3UF2A 3I4ND 2XQBA 1HULA 3BESL 3PIVA 4GS7A 1CD9A 2D9QA 3QWRB 1I1RB 4NN5A 4ZF7A 5C44D 5L6YC 3FKID 2E9WC 3D48P 3HHCA 5FLMD 4A3BD 1AX8A 3OQ3A 2B8XA 1BGEA 1LKIA 3NCEA 4NI9A 4BY7D 3S9DA 3DI3A 4LRLA 1CSGA 1EXZA 3LB6A 5E4EA 3IRHA 1INRA 1WCMD 3NCFA 4CNIC 1EVSA 4NN6A 4BBSD 5D22A 1HIKA 3HOXD 4BXXD 4FA8E 1PW6A 3PIWA 2L3OA 1M47A 3DLQI 4BY1D 1HZIA 4A3FD 2KZ1A 3N06A 3WCYI 4YDYI 1ILKA 3PO3D 1Y1WD 4X51A 4NN7A 3N0PA 4O9HA 4A3MD 1M49A 2LAGA 4ZS7A 4A3ID 3LB6B 3INKC 4YQXA 4YPGC 3OG4A 1QVNA 3HOWD 1SCFA 2ILKA 3TGXB 4DKCA 1V7NV 2O27A 3UEZE 1IK0A 3PO2D 4DOHA 2Q7NB 1M4RA 1N1FA 2Z3RA 3G6DA 3HHRA 3L5XA 3BPLA 2O6IA 4A3JD 3G9VB 3DI2A 1IJZA 1A7MA 3MZGA 2JA7D 4DKDA 3HOYD 3HMXB 1WU3I 2R93D 1RW5A 1FG9A 1RHGA 4I77Z 1D9CA 4O6KA 1PY2A 2B91A 3DUHC 3VA2A 5D28B 1CNT1 2ERJD 2L3YA 2LMSA 3Q1SI 4Z5RD 4A3CD 4A3KD 1Z7CA 5TS9A 3UX9A 2JA8D 1A22A 1KF9A 1BGDA 2PSMA 1BCNA
chains in the Genus database with same CATH homology


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