2B63 | Genus

Total Genus 39

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	39
sequence length	218
structure length	177
Chain Sequence	STSTFQTRRRRLKKVEEEENAATLQLGQEFQLKQINHQGEEEELIALNLSEARLVIKEALVERRRAFKRSQKKTREKELESIDVLLEQTTGGNNKDLKNTMQYLTNFSRFRDQETVGAVIQLLKSTGLHPFEVAQLGSLACDTADEAKTLIPSLNNKISDDELERILKELSNLETLY

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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The Resolver thinks Pdb

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Time for openFile(/file/5d2650d6e9d3bc0f4887e90f/pdb.gz): 3511 ms

reading 177 atoms

ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false

1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.

Default Van der Waals type for model set to Jmol

177 atoms created

ModelSet: autobonding; use autobond=false to not generate bonds automatically

Time for creating model: 23 ms

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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	Transferase/rna
source organism	Saccharomyces cerevisiae
publication title	Structure of an RNA polymerase II-RNA inhibitor complex elucidates transcription regulation by noncoding RNAs pubmed doi rcsb
molecule keywords	31-MER
total genus	39
structure length	177
sequence length	218
ec nomenclature
pdb deposition date	2005-09-30

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;	2b63D02

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

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

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

#chains in the Genus database with same CATH superfamily
 2R92 D;  2JA6 D;  3HOU D;  2R93 D;  3HOV D;  3I4M D;  4A3I D;  4BBR D;  3PO3 D;  3AYH A;  2JA7 D;  5IYB D;  1Y1W D;  2C35 A;  4A3G D;  3HOX D;  2VUM D;  2JA5 D;  4A3K D;  2R7Z D;  4BY7 D;  5C44 D;  4A3B D;  4A3D D;  3HOY D;  5IYC D;  4A3M D;  5IYD D;  5IP9 D;  5C3E D;  4BXX D;  4A3E D;  4A3L D;  3HOZ D;  3I4N D;  4A93 D;  4A3C D;  3H0G D;  2B63 D;  5IP7 D;  3H3V E;  2JA8 D;  4A3J D;  3PO2 D;  1Y1V D;  4BY1 D;  4BBS D;  1Y14 A;  3FKI D;  4A3F D;  3HOW D;  5C4X D;  1WCM D;  5FLM D; 
#chains in the Genus database with same CATH topology
 3QAZ A;  3I4M D;  2XUT A;  3BPO A;  4EXN A;  1D9C A;  3NCB A;  2XQB A;  1RCB A;  4GRW A;  3I4N D;  4IKX A;  1Y6M L;  4U4V A;  1HUW A;  5FHX A;  2O6I A;  2KZ1 A;  5EQG A;  5A2N A;  2LMS A;  3HOU D;  1AU1 A;  3AYH A;  2VUM D;  1ITL A;  3G6D A;  4J4L C;  4QIQ A;  4NKQ C;  4YDY I;  1BCN A;  1PY2 A;  5IP9 D;  1CYL A;  4A93 D;  1YKB A;  1M4B A;  5IP7 D;  1GNC A;  3HHC A;  1LKI A;  3QT2 C;  1IJZ A;  2HYM B;  2V8N A;  4WRL B;  1RFB A;  3WCY I;  3B5K A;  3S9D A;  3NCF A;  3UX9 A;  1BGC A;  3G9V B;  4GS7 A;  1CD9 A;  1J7V L;  2B8Z A;  4PYP A;  1EMR A;  2B91 A;  3UF5 A;  4CNI C;  4J05 A;  4GBZ A;  1D9G A;  5FUC A;  4OAA A;  1ALU A;  4ZYR A;  3VA2 A;  5D70 A;  1AXI A;  3HMX B;  4I77 Z;  4UVM A;  4PS4 A;  3SE3 B;  2ILK A;  2B63 D;  3IRH A;  3BES L;  4BY1 D;  5EQH A;  1ETE A;  1ITF A;  3OG4 A;  2Q7N B;  1PGR A;  2JA7 D;  2R7Z D;  1M4A A;  4U4T A;  5D58 A;  1Z7C A;  2E9W C;  5C3E D;  4NN6 A;  1PVH B;  3QB7 A;  1Y6K L;  3PIV A;  1ILK A;  3MZG A;  1EVS A;  5C4X D;  3DI3 A;  1HGU A;  1BUY A;  1M48 A;  2B90 A;  1PV7 A;  4EXP A;  1EKU A;  3L5X A;  4D2B A;  5D59 A;  2L3Y A;  3HOZ D;  3H3V E;  1M4C A;  1V7N V;  1Y14 A;  3Q1S I;  2R93 D;  1A7M A;  3HOV D;  5LQB A;  2C35 A;  3N0P A;  3D85 C;  5D71 A;  3INK C;  1M49 A;  5C7X A;  2L3O A;  3DI2 A;  1IL6 A;  4A3E D;  2O27 A;  4IKV A;  2GMF A;  4BBS D;  3PIW A;  5D72 A;  1HIK A;  5C65 A;  3EJJ A;  1LQS L;  1RW5 A;  4BBR D;  3NCE A;  4A3G D;  2LAG A;  2Y5Y A;  3D87 A;  4BY7 D;  4YUE C;  1IAR A;  1P9M B;  5D28 B;  4IKW A;  4X51 A;  1ITI A;  1Y6N L;  4YBQ A;  2R92 D;  3SE4 B;  3NCC A;  4DKE A;  3QB1 A;  1Y1W D;  1ITM A;  1GA3 A;  2B5I A;  5C44 D;  4DOH A;  5IYC D;  1A22 A;  4ZW9 A;  4A3C D;  4APS A;  5GXB A;  5D22 A;  3DUH C;  2B8U A;  1IK0 A;  3BPL A;  1BBN A;  1F45 B;  1INR A;  4LDS A;  3TGX B;  2Q98 A;  1HWG A;  2Z3Q A;  2ERJ D;  2Q14 A;  4LRL A;  5D6K A;  1BP3 A;  1CNT 1;  4IU9 A;  4A3K D;  1CSG A;  5EQI A;  3WDO A;  4FA8 E;  3QWR B;  4A3L D;  1EER A;  1FYH A;  4O6K A;  3H0G D;  4XNJ A;  2H24 A;  3PO2 D;  3DGC L;  4ZF7 A;  3UEZ E;  4NEM A;  1HZI A;  1AX8 A;  1M47 A;  1IRL A;  4BXX D;  4IU8 A;  1V7M V;  3DLQ I;  4DKF A;  2Z3R A;  2OQP A;  4A3M D;  1HUL A;  1SCF A;  1B5L A;  1FG9 A;  2O26 A;  1HIJ A;  3LB6 A;  4DKD A;  3HOW D;  5FLM D;  3NPZ A;  4NEJ A;  5TS9 A;  1N1F A;  4IKZ A;  2JA5 D;  1HWH A;  3HOY D;  4ZWC A;  4JR9 A;  1WU3 I;  1QVN A;  4TPJ A;  4A3J D;  1PV6 A;  1I1R B;  1PW4 A;  4O9H A;  4GBY A;  5KNH I;  4MHL A;  4A3I D;  2D9Q A;  3PO3 D;  1M4R A;  4XNI A;  4NI9 A;  4YQX A;  3L5W I;  5A2O A;  5E4E A;  3OG6 A;  4YPG C;  4GC0 A;  4Z5R D;  1F6F A;  3N06 A;  4TPH A;  4OH3 A;  3D48 P;  1BGE A;  3LB6 B;  3OQ3 A;  3O7P A;  4W6V A;  4RS1 A;  1KF9 A;  2JA8 D;  2INT A;  3O7Q A;  1Z92 A;  4A3F D;  1JLI A;  1VLK A;  2JA6 D;  2CFP A;  4YB9 D;  2CFQ A;  1BGD A;  4D2C A;  3BPN A;  1EXZ A;  2B8X A;  4TPG A;  4A3B D;  5IYD D;  4JA3 A;  4NI7 A;  5L6Y C;  2CYK A;  4D2D A;  1Y1V D;  1RHG A;  3FKI D;  2D48 A;  4IKY A;  1WCM D;  4LEP A;  4DKC A;  4NN7 A;  4ZS7 A;  4JRE A;  3HOX D;  2IL6 A;  1PW6 A;  4A3D D;  3EW3 A;  4ZWB A;  3HHR A;  1CN4 C;  4Q65 A;  4U4W A;  1LK3 A;  3UF2 A;  2PSM A;  4NN5 A;  2B8Y A;  1NBP A;  5IYB D; 
#chains in the Genus database with same CATH homology
 5KNH I;  2R92 D;  4MHL A;  3QAZ A;  2Q7N B;  3SE4 B;  3I4M D;  4A3I D;  1PGR A;  2D9Q A;  3NCC A;  3PO3 D;  4DKE A;  3QB1 A;  2JA7 D;  1M4R A;  1Y1W D;  3BPO A;  1ITM A;  4YQX A;  4NI9 A;  1GA3 A;  2R7Z D;  2B5I A;  1M4A A;  5C44 D;  3L5W I;  4DOH A;  4EXN A;  1D9C A;  5IYC D;  1A22 A;  3NCB A;  1Z7C A;  2E9W C;  5C3E D;  5E4E A;  4NN6 A;  3OG6 A;  1PVH B;  2XQB A;  1RCB A;  3QB7 A;  4GRW A;  1Y6K L;  4YPG C;  3PIV A;  4Z5R D;  3I4N D;  4A3C D;  1F6F A;  3N06 A;  1ILK A;  1Y6M L;  5D22 A;  4O9H A;  3DUH C;  1HUW A;  5FHX A;  2O6I A;  3MZG A;  1EVS A;  2KZ1 A;  2B8U A;  3DI3 A;  5C4X D;  1HGU A;  1IK0 A;  1BUY A;  1M48 A;  3BPL A;  2B90 A;  2LMS A;  3HOU D;  3D48 P;  1BBN A;  1F45 B;  1BGE A;  1INR A;  1AU1 A;  3TGX B;  2Q98 A;  1HWG A;  2Z3Q A;  1GNC A;  3AYH A;  4EXP A;  2ERJ D;  2Q14 A;  4LRL A;  3LB6 B;  1BP3 A;  2VUM D;  1ITL A;  3G6D A;  3OQ3 A;  1CNT 1;  4J4L C;  4A3K D;  1CSG A;  4NKQ C;  1EKU A;  4YDY I;  3L5X A;  1BCN A;  1PY2 A;  4FA8 E;  5IP9 D;  2L3Y A;  3QWR B;  4RS1 A;  4A3L D;  1CYL A;  3HOZ D;  1EER A;  1FYH A;  4O6K A;  3H0G D;  1YKB A;  4A93 D;  1KF9 A;  1M4B A;  2H24 A;  5IP7 D;  3H3V E;  3DGC L;  3HHC A;  1M4C A;  1V7N V;  1LKI A;  3QT2 C;  4ZF7 A;  2JA8 D;  3PO2 D;  2INT A;  3UEZ E;  4NEM A;  1IJZ A;  1HZI A;  1AX8 A;  1M47 A;  1Y14 A;  1IRL A;  2HYM B;  1Z92 A;  4A3F D;  3Q1S I;  4BXX D;  1JLI A;  4WRL B;  1VLK A;  2JA6 D;  2R93 D;  1A7M A;  3HOV D;  5LQB A;  1RFB A;  1BGD A;  1V7M V;  3DLQ I;  3WCY I;  2C35 A;  3B5K A;  3N0P A;  3S9D A;  3D85 C;  3BPN A;  3NCF A;  1EXZ A;  3UX9 A;  1BGC A;  3INK C;  1M49 A;  2B8X A;  3G9V B;  2L3O A;  2Z3R A;  3DI2 A;  5D71 A;  5C7X A;  4GS7 A;  4A3B D;  1IL6 A;  2OQP A;  5IYD D;  4A3M D;  1CD9 A;  1HUL A;  1J7V L;  1SCF A;  4A3E D;  2B8Z A;  4NI7 A;  1EMR A;  2O27 A;  5L6Y C;  2CYK A;  1B5L A;  1Y1V D;  2B91 A;  1FG9 A;  2GMF A;  1RHG A;  3UF5 A;  4BBS D;  3PIW A;  2O26 A;  1HIJ A;  3LB6 A;  3FKI D;  5D72 A;  1HIK A;  2D48 A;  4DKD A;  3HOW D;  1WCM D;  5FLM D;  3NPZ A;  4CNI C;  3EJJ A;  1LQS L;  1RW5 A;  4NEJ A;  4DKC A;  4NN7 A;  4BBR D;  1D9G A;  5FUC A;  4ZS7 A;  3NCE A;  5TS9 A;  2LAG A;  4A3G D;  1ALU A;  3HOX D;  1N1F A;  3VA2 A;  2IL6 A;  5D70 A;  1AXI A;  3D87 A;  3HMX B;  2JA5 D;  1PW6 A;  4I77 Z;  1HWH A;  4BY7 D;  4YUE C;  4A3D D;  3HOY D;  1IAR A;  3EW3 A;  1P9M B;  4PS4 A;  5D28 B;  3SE3 B;  1WU3 I;  1QVN A;  3HHR A;  2ILK A;  4X51 A;  1CN4 C;  1ITI A;  2B63 D;  3IRH A;  1LK3 A;  3UF2 A;  2PSM A;  3BES L;  4NN5 A;  4A3J D;  4BY1 D;  1ETE A;  2B8Y A;  1Y6N L;  1NBP A;  4DKF A;  1ITF A;  5IYB D;  1I1R B;  3OG4 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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2B63D

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations