3H0GD

Rna polymerase ii from schizosaccharomyces pombe
Total Genus 32
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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
32
sequence length
130
structure length
130
Chain Sequence
FEEDAAQLKLGPEFENEDMLTVSEAKILIETVLAQRARETNGEIPMTDVMKKTVAYFNVFARFKTAEATYACERILGNRFHKFERAQLGTLCCEDAEEARTLIPSLANKIDDQNLQGILDELSTLRKFQD
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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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publication title Schizosacharomyces pombe RNA polymerase II at 3.6-A resolution.
pubmed doi rcsb
molecule tags Transcription
molecule keywords DNA-directed RNA polymerase II subunit rpb1
total genus 32
structure length 130
sequence length 130
chains with identical sequence P
ec nomenclature
pdb deposition date 2009-04-09

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; 3h0gD00
5IYDD 5C3ED 4BBSD 2JA8D 4BXXD 3I4ND 1Y1VD 4A93D 3H3VE 3AYHA 3PO2D 3HOVD 3FKID 3I4MD 5IYBD 5C44D 4A3GD 4A3BD 3PO3D 3HOXD 3H0GD 1Y14A 5FLMD 4A3KD 1WCMD 4A3FD 2VUMD 2R92D 5C4XD 4A3LD 5IP7D 2C35A 3HOYD 2JA7D 4A3DD 4BBRD 2JA5D 2R7ZD 1Y1WD 4A3ED 4A3JD 2R93D 3HOWD 5IYCD 4A3MD 5IP9D 4BY1D 3HOZD 4A3CD 2JA6D 2B63D 4A3ID 4BY7D 3HOUD
chains in the Genus database with same CATH superfamily
5IYDD 3QWRB 1PV7A 4U4VA 1KF9A 3WDOA 3D85C 4DKCA 3FKID 4YPGC 2L3YA 3WCYI 5IP7D 4D2BA 5EQGA 4X51A 3OQ3A 1Z7CA 2B8YA 3DI3A 2Y5YA 2ILKA 1HIJA 2H24A 4TPHA 2B5IA 1HWGA 1PV6A 2O6IA 5FLMD 5C4XD 5D59A 4A3JD 3O7QA 3DGCL 2JA8D 3TGXB 3BPOA 4Z5RD 3PIVA 1INRA 1CD9A 3OG4A 3HOXD 3SE3B 5A2NA 1ITMA 1HUWA 4PYPA 2JA7D 1FYHA 3BPNA 2R7ZD 1ITIA 1J7VL 3NCFA 3UX9A 4J4LC 1HGUA 1NBPA 4DOHA 3HHRA 1CSGA 4LEPA 1JLIA 2GMFA 1AXIA 4NI9A 4GBYA 2Q98A 1ITFA 1V7NV 4JREA 1A22A 1EMRA 3EJJA 1IARA 4D2DA 5IYCD 5D72A 1Z92A 3UF2A 1IRLA 3LB6B 1RFBA 4U4TA 4GC0A 4NI7A 3PO3D 1Y14A 4DKFA 1PGRA 4A3LD 4UVMA 1PW4A 4BBRD 2INTA 3HHCA 3N06A 5IP9D 3NCEA 4BBSD 3OG6A 1RCBA 4OH3A 4ZS7A 5GXBA 3QAZA 4TPGA 3D87A 1EXZA 1Y6NL 2Q7NB 4APSA 4A3KD 2VUMD 2C35A 5C7XA 1V7MV 5D58A 3EW3A 1M4AA 4QIQA 1D9CA 2JA6D 4NKQC 2V8NA 2B8ZA 1VLKA 1Y1VD 2LAGA 2XQBA 4DKEA 2PSMA 3G6DA 2ERJD 4PS4A 4O9HA 4IKWA 3DI2A 3QT2C 4A3FD 3VA2A 3NPZA 1Y1WD 4Q65A 1I1RB 5D28B 5C65A 1LQSL 5E4EA 1CN4C 3QB7A 3PO2D 1M48A 1B5LA 1Y6KL 1M4BA 5D70A 1LK3A 3O7PA 3BESL 1ILKA 1M49A 3QB1A 2B8XA 1M4RA 4CNIC 2CYKA 1PY2A 1RHGA 1HIKA 5FUCA 3L5XA 2Q14A 3D48P 4A3GD 2D48A 4I77Z 1WU3I 4FA8E 3HOYD 4GRWA 4DKDA 2KZ1A 5D6KA 1D9GA 4ZWBA 4U4WA 1RW5A 1CNT1 4IKVA 1F45B 2O27A 1BGEA 3IRHA 4NN7A 1BCNA 2D9QA 4IU8A 1P9MB 2R93D 1FG9A 3I4ND 3L5WI 1EVSA 4JA3A 3H3VE 5EQIA 3NCCA 2XUTA 1EERA 1HZIA 3I4MD 2B8UA 2B91A 1ETEA 5KNHI 2L3OA 4NEJA 2IL6A 4LRLA 4NN6A 3LB6A 1AU1A 1N1FA 1GA3A 5D22A 3HOVD 1F6FA 5IYBD 2OQPA 4RS1A 4GBZA 5D71A 4EXPA 2Z3QA 4IU9A 2JA5D 3SE4B 4BY1D 2LMSA 1Y6ML 3HOUD 4ZF7A 1SCFA 1M4CA 1M47A 3DUHC 1BGCA 2CFQA 1WCMD 4YB9D 2R92D 1EKUA 5EQHA 4GS7A 1IJZA 1BBNA 3HOZD 3INKC 4W6VA 2CFPA 1IK0A 1HULA 4A93D 4IKYA 3S9DA 4D2CA 1PVHB 1AX8A 3AYHA 5TS9A 5LQBA 1A7MA 3H0GD 4J05A 4A3DD 2E9WC 4NN5A 4XNJA 1ALUA 3N0PA 2B63D 5C3ED 4BXXD 4OAAA 5L6YC 3NCBA 4IKZA 5FHXA 1YKBA 3Q1SI 4ZWCA 4O6KA 4YDYI 1QVNA 1BGDA 3HMXB 1BP3A 1ITLA 4WRLB 4A3ED 2HYMB 3PIWA 4XNIA 3HOWD 4A3MD 1LKIA 4MHLA 4ZYRA 1PW6A 4TPJA 3G9VB 1BUYA 4YQXA 3UEZE 1IL6A 4EXNA 4IKXA 4NEMA 2Z3RA 2O26A 1CYLA 1HWHA 4YBQA 5C44D 4ZW9A 4A3BD 3BPLA 3DLQI 3UF5A 3B5KA 2B90A 3MZGA 1GNCA 4JR9A 4LDSA 4A3CD 4A3ID 5A2OA 4YUEC 4BY7D
chains in the Genus database with same CATH topology
2CYKA 1PY2A 5IYDD 1RHGA 3QWRB 1HIKA 1KF9A 1Z92A 4ZF7A 5FUCA 3D85C 3UF2A 1IRLA 3L5XA 2Q14A 4DKCA 3LB6B 3FKID 1SCFA 1RFBA 4YPGC 1M4CA 3D48P 4A3GD 2L3YA 1M47A 3WCYI 2D48A 3DUHC 1BGCA 4I77Z 4NI7A 1WU3I 1Y14A 3PO3D 1WCMD 4FA8E 4DKFA 1PGRA 2R92D 1EKUA 4A3LD 5IP7D 3HOYD 4BBRD 2INTA 4GS7A 3HHCA 4GRWA 4DKDA 1IJZA 2KZ1A 3N06A 1BBNA 4X51A 5IP9D 3HOZD 3INKC 3NCEA 3OQ3A 1Z7CA 1D9GA 2B8YA 3DI3A 4BBSD 3OG6A 1RCBA 1IK0A 1HULA 1RW5A 4ZS7A 4A93D 2ILKA 1CNT1 3S9DA 1HIJA 1F45B 1PVHB 1AX8A 3AYHA 2H24A 3QAZA 5TS9A 2B5IA 3D87A 5LQBA 1EXZA 1HWGA 1A7MA 1Y6NL 2Q7NB 3H0GD 2O6IA 5FLMD 2O27A 4A3KD 1BGEA 2VUMD 5C4XD 2C35A 5C7XA 4A3DD 2E9WC 3IRHA 1V7MV 4NN5A 3EW3A 4NN7A 4A3JD 1M4AA 2D9QA 1P9MB 2R93D 1BCNA 1ALUA 1D9CA 1FG9A 3N0PA 2JA6D 2B63D 3DGCL 4NKQC 5C3ED 2JA8D 4BXXD 2B8ZA 3I4ND 1VLKA 3L5WI 1Y1VD 2LAGA 2XQBA 4DKEA 1EVSA 3H3VE 2PSMA 5L6YC 3NCBA 5FHXA 3G6DA 3NCCA 2ERJD 1YKBA 4PS4A 3TGXB 1EERA 1HZIA 3BPOA 4O9HA 3I4MD 3Q1SI 4Z5RD 3PIVA 4O6KA 3DI2A 1INRA 3QT2C 2B8UA 4YDYI 1CD9A 3OG4A 1QVNA 3HOXD 1BGDA 3SE3B 3HMXB 1ITMA 1HUWA 2B91A 4A3FD 1ETEA 3VA2A 1BP3A 2JA7D 1FYHA 1ITLA 3BPNA 2R7ZD 3NPZA 1Y1WD 4WRLB 1ITIA 5KNHI 2L3OA 4A3ED 2HYMB 1J7VL 3NCFA 3PIWA 4NEJA 1I1RB 1LKIA 3UX9A 4A3MD 4J4LC 4MHLA 5D28B 3HOWD 1PW6A 2IL6A 1HGUA 1BUYA 3G9VB 4YQXA 4LRLA 1NBPA 1LQSL 5E4EA 3HHRA 1CSGA 4NN6A 4DOHA 3LB6A 1AU1A 3UEZE 1IL6A 1N1FA 4EXNA 1CN4C 3QB7A 2Z3RA 4NEMA 1GA3A 5D22A 1JLIA 2O26A 2GMFA 3PO2D 1M48A 3HOVD 1AXIA 4NI9A 1CYLA 1B5LA 1F6FA 1HWHA 2OQPA 1Y6KL 5IYBD 1M4BA 5C44D 4RS1A 5D70A 4A3BD 5D71A 2Q98A 1LK3A 3BPLA 3DLQI 1ITFA 1V7NV 4EXPA 3BESL 3UF5A 3B5KA 2B90A 1A22A 3MZGA 2Z3QA 1EMRA 3EJJA 2JA5D 1IARA 3SE4B 1GNCA 1ILKA 5IYCD 1M49A 3QB1A 2LMSA 4BY1D 1Y6ML 4A3CD 2B8XA 1M4RA 4A3ID 4CNIC 5D72A 4YUEC 4BY7D 3HOUD
chains in the Genus database with same CATH homology


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