4A3B | Genus

Total Genus 50

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	50
sequence length	219
structure length	178
Chain Sequence	VSTSTFQTRRRRLKKVEEEENAATLQLGQEFQLKQINHQGEEEELIALNLSEARLVIKEALVERRRAFKRSQKKTREKELESIDVLLEQTTGGNNKDLKNTMQYLTNFSRFRDQETVGAVIQLLKSTGLHPFEVAQLGSLACDTADEAKTLIPSLNNKISDDELERILKELSNLETLY

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

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After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.

Genus data interpretation

Chord Diagram

molecule tags	Transcription
publication title	Structural basis of initial RNA polymerase II transcription. pubmed doi rcsb
molecule keywords	DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1
total genus	50
structure length	178
sequence length	219
ec nomenclature
pdb deposition date	2011-09-30

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	Class	Architecture	Topology	Homology	Domain
1.20.1250.40	Mainly Alpha	Up-down Bundle	Growth Hormone; Chain: A;	Growth Hormone; Chain: A;	4a3bD02

4A3MD 5C3ED 3FKID 3I4MD 4BXXD 2C35A 5FLMD 3PO2D 4A93D 2R93D 4BY1D 2JA6D 2JA5D 1Y1VD 4A3JD 3HOWD 3HOZD 4A3FD 4A3LD 3I4ND 2B63D 5IYBD 1WCMD 3H3VE 2R7ZD 4A3GD 4A3DD 3HOVD 1Y1WD 3PO3D 5IYCD 3HOYD 3AYHA 1Y14A 4A3ED 2JA8D 3HOXD 4BBRD 3H0GD 5C4XD 4A3ID 4A3BD 5IP7D 2R92D 2VUMD 4BBSD 5C44D 2JA7D 4BY7D 4A3CD 4A3KD 5IP9D 5IYDD 3HOUD
chains in the Genus database with same CATH superfamily

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

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

#chains in the Genus database with same CATH superfamily
 4A3M D;  5C3E D;  3FKI D;  3I4M D;  4BXX D;  2C35 A;  5FLM D;  3PO2 D;  4A93 D;  2R93 D;  4BY1 D;  2JA6 D;  2JA5 D;  1Y1V D;  4A3J D;  3HOW D;  3HOZ D;  4A3F D;  4A3L D;  3I4N D;  2B63 D;  5IYB D;  1WCM D;  3H3V E;  2R7Z D;  4A3G D;  4A3D D;  3HOV D;  1Y1W D;  3PO3 D;  5IYC D;  3HOY D;  3AYH A;  1Y14 A;  4A3E D;  2JA8 D;  3HOX D;  4BBR D;  3H0G D;  5C4X D;  4A3I D;  4A3B D;  5IP7 D;  2R92 D;  2VUM D;  4BBS D;  5C44 D;  2JA7 D;  4BY7 D;  4A3C D;  4A3K D;  5IP9 D;  5IYD D;  3HOU D; 
#chains in the Genus database with same CATH topology
 1Y6K L;  2C35 A;  5D22 A;  4J4L C;  4Z5R D;  5D71 A;  3PIW A;  5FHX A;  1AU1 A;  2H24 A;  4PYP A;  1M4A A;  5A2N A;  1M49 A;  1LKI A;  3EJJ A;  4FA8 E;  2Z3Q A;  2KZ1 A;  3HMX B;  4ZWC A;  5IYD D;  3OG4 A;  4OAA A;  4DOH A;  2JA6 D;  4GBY A;  2B8X A;  5LQB A;  2D9Q A;  5D59 A;  1PW6 A;  3PO3 D;  4ZYR A;  4IKZ A;  2B8Z A;  1IK0 A;  2LAG A;  2E9W C;  1B5L A;  3DI3 A;  3UF2 A;  1JLI A;  4J05 A;  4NN7 A;  5C44 D;  2JA7 D;  4A3K D;  1M48 A;  1ETE A;  4YBQ A;  3HOU D;  3QWR B;  2Z3R A;  1V7M V;  4Q65 A;  3I4N D;  1PV7 A;  4YQX A;  3UF5 A;  3L5X A;  5D70 A;  4NI7 A;  1Y14 A;  4A3E D;  1YKB A;  1J7V L;  2CYK A;  4BBR D;  4TPG A;  1ITI A;  2D48 A;  5GXB A;  4YB9 D;  1BGC A;  1P9M B;  3TGX B;  4A3F D;  3MZG A;  4PS4 A;  1FG9 A;  1I1R B;  4GRW A;  3HHR A;  3NCF A;  4JR9 A;  5C4X D;  1GNC A;  3WDO A;  3LB6 A;  3NPZ A;  4JRE A;  1CSG A;  5FUC A;  1Y6M L;  1ITL A;  4RS1 A;  4LDS A;  3HOW D;  3EW3 A;  1Z7C A;  1Z92 A;  1EXZ A;  1HWG A;  1M4C A;  1N1F A;  4APS A;  1EVS A;  3AYH A;  5EQG A;  3O7P A;  2HYM B;  4BBS D;  4A3C D;  4NEM A;  4EXN A;  1A22 A;  1M4R A;  4EXP A;  3QB1 A;  2PSM A;  5KNH I;  4O9H A;  1CD9 A;  3D87 A;  2IL6 A;  1D9G A;  3NCC A;  4YPG C;  3UEZ E;  4I77 Z;  5C65 A;  1BUY A;  2ERJ D;  4GC0 A;  4ZW9 A;  4IU8 A;  3D85 C;  2INT A;  3QT2 C;  3QB7 A;  4DKE A;  5IP9 D;  3I4M D;  4O6K A;  4XNJ A;  1IL6 A;  1Y1V D;  4A3G D;  4IKY A;  1KF9 A;  4A3D D;  1HGU A;  2JA8 D;  2B91 A;  3BPO A;  5FLM D;  1LK3 A;  1ILK A;  2Q98 A;  1BCN A;  1PV6 A;  1AXI A;  1RCB A;  3NCB A;  4ZS7 A;  5IYC D;  1ITM A;  4YUE C;  4NKQ C;  3HOX D;  2O6I A;  3O7Q A;  2OQP A;  3L5W I;  1BBN A;  2JA5 D;  3DUH C;  1BGD A;  1IRL A;  1CN4 C;  1PY2 A;  1IAR A;  4IU9 A;  1HIJ A;  3UX9 A;  2Q14 A;  1EER A;  1A7M A;  4WRL B;  4DKC A;  3DI2 A;  4DKF A;  1RHG A;  1M4B A;  3HHC A;  2B63 D;  5IYB D;  5A2O A;  1RFB A;  1AX8 A;  1M47 A;  4W6V A;  1HWH A;  4UVM A;  4D2C A;  5L6Y C;  4A3B D;  3BES L;  2ILK A;  5C3E D;  4NN6 A;  2O27 A;  4BY1 D;  4QIQ A;  1PW4 A;  5D58 A;  3N0P A;  3WCY I;  4YDY I;  1HUL A;  2B8Y A;  3BPN A;  4CNI C;  2LMS A;  3IRH A;  3PIV A;  4DKD A;  5C7X A;  2R92 D;  1D9C A;  2Q7N B;  4OH3 A;  4A3M D;  5E4E A;  1LQS L;  1CNT 1;  1WCM D;  2O26 A;  1INR A;  4D2D A;  4D2B A;  4LEP A;  3DLQ I;  1WU3 I;  2V8N A;  4A3I D;  2B5I A;  4XNI A;  2VUM D;  4BY7 D;  5D6K A;  1FYH A;  2L3O A;  4A3J D;  4JA3 A;  2Y5Y A;  5EQI A;  1PGR A;  3G9V B;  1EMR A;  1F6F A;  3HOY D;  2B8U A;  4MHL A;  2B90 A;  5D28 B;  2XQB A;  3B5K A;  3D48 P;  4NI9 A;  2GMF A;  1BGE A;  4NEJ A;  3PO2 D;  4LRL A;  2XUT A;  4A3L D;  1EKU A;  1ITF A;  5EQH A;  4NN5 A;  2CFQ A;  3NCE A;  2R7Z D;  3HOV D;  1HZI A;  4TPJ A;  3DGC L;  1IJZ A;  1QVN A;  3SE3 B;  3BPL A;  3S9D A;  5TS9 A;  2R93 D;  4IKW A;  4U4V A;  3G6D A;  2L3Y A;  4U4T A;  3INK C;  3QAZ A;  4ZF7 A;  4GBZ A;  1RW5 A;  1PVH B;  4GS7 A;  1Y6N L;  5IP7 D;  1CYL A;  3Q1S I;  1ALU A;  1F45 B;  4X51 A;  1HUW A;  4ZWB A;  3FKI D;  4BXX D;  4A93 D;  5D72 A;  3HOZ D;  1VLK A;  2CFP A;  4IKX A;  1HIK A;  4U4W A;  4TPH A;  3H3V E;  1NBP A;  1Y1W D;  1GA3 A;  1V7N V;  1BP3 A;  3OG6 A;  3SE4 B;  3LB6 B;  3H0G D;  3VA2 A;  4IKV A;  3OQ3 A;  1SCF A;  3N06 A; 
#chains in the Genus database with same CATH homology
 1FYH A;  1Y6M L;  1Y6K L;  1ITL A;  2C35 A;  2L3O A;  4RS1 A;  5D22 A;  4J4L C;  4A3J D;  2JA5 D;  4Z5R D;  3HOW D;  3DUH C;  1BGD A;  5D71 A;  1IRL A;  1CN4 C;  3EW3 A;  1PY2 A;  3PIW A;  1Z7C A;  1Z92 A;  5FHX A;  1AU1 A;  1PGR A;  1EXZ A;  1IAR A;  2H24 A;  3G9V B;  1EMR A;  1F6F A;  1HWG A;  1M4C A;  1M4A A;  1HIJ A;  1N1F A;  3HOY D;  2B8U A;  1EVS A;  4MHL A;  1M49 A;  2B90 A;  1LKI A;  3AYH A;  3EJJ A;  5D28 B;  3UX9 A;  2XQB A;  3B5K A;  2HYM B;  2Z3Q A;  4FA8 E;  2KZ1 A;  2Q14 A;  1EER A;  3D48 P;  4NI9 A;  3HMX B;  2GMF A;  4A3C D;  4WRL B;  4BBS D;  1BGE A;  4NEM A;  4EXN A;  5IYD D;  3OG4 A;  3DI2 A;  1A22 A;  4DKC A;  1M4R A;  4NEJ A;  3QB1 A;  4DKF A;  4DOH A;  4EXP A;  4LRL A;  3PO2 D;  2PSM A;  1RHG A;  2JA6 D;  5KNH I;  1M4B A;  2B8X A;  3HHC A;  5LQB A;  4A3L D;  4O9H A;  1CD9 A;  3D87 A;  2B63 D;  1EKU A;  5IYB D;  1ITF A;  4NN5 A;  2IL6 A;  1D9G A;  1RFB A;  3NCC A;  3NCE A;  4YPG C;  2D9Q A;  2R7Z D;  1AX8 A;  3UEZ E;  1M47 A;  3HOV D;  4I77 Z;  1PW6 A;  3PO3 D;  1HZI A;  1HWH A;  1BUY A;  2B8Z A;  1IK0 A;  2ERJ D;  2LAG A;  2E9W C;  3DGC L;  1B5L A;  1IJZ A;  5L6Y C;  1QVN A;  3D85 C;  3DI3 A;  2INT A;  3UF2 A;  3SE3 B;  1JLI A;  3QT2 C;  4A3B D;  3BES L;  4NN7 A;  3QB7 A;  4DKE A;  5C44 D;  2JA7 D;  3BPL A;  4A3K D;  2ILK A;  5IP9 D;  1M48 A;  1ETE A;  5TS9 A;  3S9D A;  3HOU D;  3QWR B;  5C3E D;  3I4M D;  2R93 D;  4NN6 A;  4O6K A;  2O27 A;  1IL6 A;  4BY1 D;  1Y1V D;  2Z3R A;  1V7M V;  3G6D A;  3I4N D;  4YQX A;  2L3Y A;  3UF5 A;  4A3G D;  1KF9 A;  3L5X A;  4A3D D;  3N0P A;  3INK C;  3WCY I;  1HUL A;  2B8Y A;  1HGU A;  3BPN A;  5D70 A;  4YDY I;  3QAZ A;  4ZF7 A;  1A7M A;  4NI7 A;  4CNI C;  1RW5 A;  1Y14 A;  2LMS A;  3IRH A;  4A3E D;  1YKB A;  1J7V L;  2JA8 D;  1PVH B;  2B91 A;  2CYK A;  3PIV A;  4GS7 A;  4BBR D;  4DKD A;  5C7X A;  1Y6N L;  5IP7 D;  1CYL A;  3Q1S I;  2R92 D;  1D9C A;  2Q7N B;  1ALU A;  1F45 B;  4X51 A;  1ITI A;  2D48 A;  1HUW A;  3BPO A;  4A3M D;  3FKI D;  4BXX D;  5FLM D;  4A93 D;  1LK3 A;  1BGC A;  5D72 A;  3HOZ D;  1VLK A;  1ILK A;  2Q98 A;  1P9M B;  5E4E A;  1LQS L;  3TGX B;  4A3F D;  1BCN A;  1CNT 1;  1HIK A;  3MZG A;  1WCM D;  1AXI A;  2O26 A;  4PS4 A;  3H3V E;  1NBP A;  1RCB A;  3NCB A;  1INR A;  4ZS7 A;  1Y1W D;  5IYC D;  1GA3 A;  1FG9 A;  1V7N V;  1BP3 A;  1ITM A;  3OG6 A;  1I1R B;  4GRW A;  3DLQ I;  1WU3 I;  3HHR A;  4YUE C;  3LB6 B;  3NCF A;  4NKQ C;  3SE4 B;  3HOX D;  3H0G D;  5C4X D;  2O6I A;  2B5I A;  4A3I D;  3VA2 A;  1GNC A;  3LB6 A;  3NPZ A;  2OQP A;  2VUM D;  3L5W I;  1BBN A;  1CSG A;  3OQ3 A;  4BY7 D;  1SCF A;  3N06 A;  5FUC 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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4A3BD

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations