2JA5D

Cpd lesion containing rna polymerase ii elongation complex a
Total Genus 38
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
38
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 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
4A3ED 4A3KD 2JA8D 4BY7D 4BBRD 4A3LD 3AYHA 4A3CD 3HOUD 1Y1VD 3FKID 2B63D 4BY1D 4A3JD 4A3MD 5C4XD 2JA7D 2VUMD 4BXXD 3HOXD 2C35A 1WCMD 5IYCD 1Y1WD 4A93D 1Y14A 3PO3D 5C44D 5IYBD 3HOVD 3HOWD 5IYDD 2JA5D 4A3DD 3H0GD 5FLMD 3H3VE 2JA6D 2R92D 3HOYD 3HOZD 3I4ND 4BBSD 3I4MD 2R93D 4A3ID 4A3BD 4A3FD 5IP9D 3PO2D 4A3GD 5C3ED 2R7ZD 5IP7D
chains in the Genus database with same CATH superfamily
4D2BA 1ITIA 4A3LD 1PY2A 3D48P 3DGCL 5D71A 4EXPA 4GS7A 2JA5D 2GMFA 4YB9D 2L3YA 5D58A 2CFQA 4A3BD 1BGCA 1M47A 4A3KD 4ZS7A 1M4AA 1Z7CA 4MHLA 5A2OA 1NBPA 3VA2A 1EMRA 3TGXB 5C44D 4NKQC 4LDSA 4YUEC 1B5LA 3I4MD 4DKDA 4D2CA 2R7ZD 1LQSL 1IRLA 1Y1VD 4ZWBA 4U4WA 1CD9A 4DKCA 5GXBA 1IL6A 1HZIA 4DOHA 2E9WC 1LKIA 1Y6KL 4NI9A 1M48A 1BUYA 3B5KA 1RFBA 4U4TA 4X51A 1FYHA 3O7QA 5A2NA 3LB6B 2JA8D 4JREA 3QWRB 1ITMA 4J05A 1HULA 2B8XA 1SCFA 4JR9A 2IL6A 4OAAA 4IKXA 2KZ1A 5C4XD 3N06A 3D85C 4TPGA 1KF9A 4YPGC 1V7MV 3UX9A 1BP3A 1EXZA 1Y6ML 4WRLB 5IP7D 3MZGA 2ILKA 1PGRA 3SE4B 2B8ZA 2INTA 3FKID 2B63D 1RHGA 4UVMA 4A3MD 5D70A 1D9GA 1PW4A 1CSGA 5IYCD 4A93D 4ZF7A 2O6IA 3HOVD 1ITLA 5C7XA 2CFPA 1M4RA 5D72A 4FA8E 2Y5YA 4YBQA 3NCFA 1AX8A 4LRLA 1I1RB 2C35A 3LB6A 3NPZA 3Q1SI 4Q65A 1HUWA 1HWHA 3QB7A 2R93D 1BGEA 4TPJA 2B91A 1IK0A 2O27A 1PV6A 4QIQA 3QT2C 1ETEA 3D87A 1HWGA 4BY1D 4I77Z 1Y1WD 3O7PA 1PVHB 3H0GD 4BBSD 4A3FD 5IP9D 4RS1A 4APSA 1HIKA 1WU3I 3UEZE 1ITFA 4A3DD 4YDYI 2Z3QA 4O6KA 2B8YA 4J4LC 3EW3A 1YKBA 4BBRD 3AYHA 1VLKA 2B8UA 3PIWA 3NCBA 5D59A 1EKUA 4A3JD 3QAZA 1HIJA 3UF5A 1HGUA 5LQBA 3OG4A 3PO3D 3DI2A 5IYDD 1A22A 3H3VE 2R92D 3I4ND 4A3GD 2OQPA 4A3ED 4XNJA 5EQGA 1IJZA 2D9QA 3HMXB 1Y6NL 1INRA 4IKVA 1ILKA 2VUMD 4BXXD 4XNIA 3L5WI 4O9HA 1A7MA 2XQBA 1BBNA 2JA6D 4NN5A 4W6VA 3S9DA 1M49A 1BCNA 3OG6A 1Z92A 3BPOA 1AXIA 3BESL 1M4CA 5FUCA 3HOUD 2LAGA 2Q7NB 4GBYA 3WCYI 1Y14A 4YQXA 1LK3A 4DKEA 3HOZD 4NI7A 1P9MB 1CN4C 4GRWA 1N1FA 1ALUA 2LMSA 5EQIA 4IU9A 4TPHA 2JA7D 3QB1A 1CNT1 5D28B 1PV7A 3N0PA 4LEPA 4IKWA 1QVNA 3L5XA 2Q14A 4BY7D 5E4EA 2CYKA 2D48A 4PYPA 5L6YC 4ZW9A 2Q98A 3G9VB 1JLIA 5FLMD 1AU1A 1F6FA 1BGDA 3DLQI 1D9CA 4NN6A 3BPNA 4JA3A 3OQ3A 4IU8A 3NCCA 1GNCA 1RW5A 5TS9A 4NEMA 5KNHI 1EVSA 1J7VL 3HHCA 2HYMB 4IKZA 4D2DA 1RCBA 4DKFA 4GC0A 3DI3A 2Z3RA 1EERA 4Z5RD 1M4BA 4U4VA 2O26A 3WDOA 1CYLA 4OH3A 5IYBD 1GA3A 4GBZA 5C65A 5C3ED 3IRHA 3UF2A 5D22A 1PW6A 4NN7A 4NEJA 2PSMA 1IARA 2H24A 3NCEA 3HOXD 3HOWD 2L3OA 3HOYD 1F45B 4A3ID 3EJJA 4CNIC 2ERJD 4IKYA 4PS4A 3PIVA 4EXNA 5EQHA 4A3CD 5FHXA 2B90A 2XUTA 2V8NA 5D6KA 2B5IA 3G6DA 3DUHC 3SE3B 1WCMD 1FG9A 1V7NV 3INKC 3HHRA 4ZYRA 4ZWCA 3PO2D 3BPLA
chains in the Genus database with same CATH topology
3MZGA 2ILKA 4A3ED 1PGRA 1IJZA 2D9QA 3SE4B 3NCCA 2B8ZA 1Y6NL 3HMXB 1ITIA 1GNCA 1RW5A 1PY2A 4A3LD 3D48P 3DGCL 5TS9A 2INTA 4NEMA 1INRA 3FKID 5KNHI 2B63D 1RHGA 1ILKA 4A3MD 1EVSA 5D70A 2VUMD 1J7VL 4BXXD 1D9GA 2HYMB 3HHCA 5D71A 1CSGA 3L5WI 4GS7A 4O9HA 4EXPA 4ZF7A 5IYCD 2O6IA 4A93D 3HOVD 2JA5D 1A7MA 2GMFA 4A3CD 2L3YA 2XQBA 1BBNA 1RCBA 1ITLA 2JA6D 4NN5A 4DKFA 5C7XA 3S9DA 4A3BD 3DI3A 3BPLA 1M49A 1BCNA 2Z3RA 1BGCA 3OG6A 1Z92A 1EERA 1M47A 4A3KD 3BPOA 1AXIA 1M4RA 5D72A 4Z5RD 4FA8E 3BESL 1M4CA 5FUCA 4ZS7A 1M4AA 1M4BA 3HOUD 3NCFA 1AX8A 1Z7CA 4LRLA 4MHLA 1I1RB 2O26A 2LAGA 1NBPA 2Q7NB 2C35A 3VA2A 1CYLA 3LB6A 3NPZA 3WCYI 1Y14A 1EMRA 3TGXB 4YQXA 5IYBD 3Q1SI 5C44D 2OQPA 4NKQC 1LK3A 4DKEA 1GA3A 1HUWA 3HOZD 1HWHA 4YUEC 4NI7A 1P9MB 1B5LA 3I4MD 3QB7A 2R93D 4DKDA 1BGEA 5C3ED 2R7ZD 1CN4C 3IRHA 3UF2A 5D22A 2B91A 1PW6A 1N1FA 4GRWA 1IK0A 1LQSL 2O27A 1ALUA 2LMSA 3QT2C 1ETEA 4NN7A 3D87A 1HWGA 4NEJA 1IRLA 1Y1VD 2PSMA 4BY1D 1CD9A 4DKCA 2JA7D 2H24A 4I77Z 1IL6A 3NCEA 3HOXD 3QB1A 1HZIA 1Y1WD 4DOHA 1CNT1 2E9WC 1LKIA 1Y6KL 5D28B 3HOWD 1PVHB 3H0GD 3N0PA 4NI9A 1M48A 1BUYA 2L3OA 1RFBA 3B5KA 3HOYD 1F45B 4BBSD 1QVNA 4X51A 1FYHA 4A3ID 4A3FD 3L5XA 5IP9D 3EJJA 4RS1A 1HIKA 1WU3I 3UEZE 4CNIC 1ITFA 4A3DD 2ERJD 2Q14A 3LB6B 4YDYI 2JA8D 4PS4A 2Z3QA 4O6KA 4BY7D 2B8YA 3QWRB 4J4LC 1ITMA 1HULA 1YKBA 3EW3A 3PIVA 5E4EA 3AYHA 4BBRD 1VLKA 4EXNA 2B8XA 1SCFA 2B8UA 2CYKA 3PIWA 2D48A 2IL6A 2B90A 5FHXA 3NCBA 2B5IA 3G6DA 1EKUA 5L6YC 4A3JD 2KZ1A 3QAZA 1HIJA 3DUHC 3UF5A 1HGUA 5C4XD 3SE3B 3N06A 1WCMD 2Q98A 3D85C 3OG4A 5LQBA 3PO3D 3G9VB 3DI2A 5IYDD 1KF9A 1A22A 4YPGC 1FG9A 1JLIA 1V7NV 1V7MV 3INKC 1AU1A 3UX9A 5FLMD 2R92D 3H3VE 1F6FA 1BGDA 3I4ND 3DLQI 1D9CA 1BP3A 3HHRA 1EXZA 3BPNA 4NN6A 1Y6ML 3PO2D 4A3GD 4WRLB 3OQ3A 1IARA 5IP7D
chains in the Genus database with same CATH homology


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