3X0UA

Crystal structure of pirb
Total Genus 149
50100150200250300350400020406080100120140
Genus TraceResidueGenus

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
149
sequence length
425
structure length
425
Chain Sequence
LTEFNPNNARKSYLFDNYEVDPNYAFKAMVSFGLSNIPYAGGFLSTLWNIFWPNTPNEPDIENIWEQLRDRIQDLVDESIIDAINGILDSKIKETRDKIQDINETIENFGYAAAKDDYIGLVTHYLIGLEENFKRELDGDEWLGYAILPLLATTVSLQITYMACGLDYKDEFGFTDSDVHKLTRNIDKLYDDVSSYITELAAWADNDSYNNANQDNVYDEVMGARSWCTVHGFEHMLIWQKIKELKKVDVFVHSNLISYSPAVGFPSGNFNYIATGTEDEIPQPLKPNMFGERRNRIVKIESWNSIEIHYYNRVGRLKLTYENGEVVELGKAHKYDEHYQSIELNGAYIKYVDVIANGPEAIDRIVFHFSDDRTFVVGENSGKPSVRLQLEGHFICGMLADQEGSDKVAAFSVAYELFHPDEFGT

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
TI1 (16-19)TI2 (18-21)EMPTYTIV7 (391-394)TVIII1 (27-30)AH1 (34-43)AH10 (244-256)AH7 (152-183)AH4 (89-100)TII1 (48-51)AH2 (54-62)TI4 (84-87)3H3 (140-144)AH3 (75-84)3H2 (123-125)AH6 (126-137)AH8 (187-222)TII2 (137-140)TIV1 (149-152)S14 (404-412)TI5 (224-227)TVIII2 (258-261)AH9 (227-242)S15 (421-428)TVIa1 (293-296)S13 (397-401)S2 (268-270)S3 (274-275)AH11 (279-286)S7 (322-332)3H4 (289-291)TI'3 (413-416)TIV3 (318-321)TVIII3 (295-298)TI7 (344-347)S4 (300-301)TIV4 (339-342)S6 (308-319)S8 (337-340)TII'1 (301-304)S5 (304-305)S11 (372-380)TI'2 (355-358)TII3 (401-404)TI6 (332-335)S9 (348-354)TIV5 (368-371)S10 (360-368)TI8 (380-383)S12 (385-389)3H1 (45-47)AH5 (102-120)S1 (29-30)Updating...
connected with : NaN
molecule tags Toxin
source organism Vibrio parahaemolyticus m0605
publication title The opportunistic marine pathogen Vibrio parahaemolyticus becomes virulent by acquiring a plasmid that expresses a deadly toxin
pubmed doi rcsb
molecule keywords Uncharacterized protein
total genus 149
structure length 425
sequence length 425
chains with identical sequence B
ec nomenclature
pdb deposition date 2014-10-22
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
1.20.190.10 Mainly Alpha Up-down Bundle Delta-Endotoxin; domain 1 Pesticidal crystal protein, N-terminal domain 3x0uA01
1I5PA 3X0UA 1CIYA 1W99A 4QX1A 1JI6A 4MOAA 3EB7A 4ARXA 4W8JA 4QX3A 4ARYA 4QX2A 1DLCA 2C9KA 4D8MA 4QX0A
chains in the Genus database with same CATH superfamily
2C1JA 3E6YA 5EWZA 1W99A 4DHRA 3O8IA 3IQVA 3P1QA 2O8PA 3MHRA 3UX0A 1S2XA 4WRQA 1YWTA 4E2EA 4QX0A 3SPRA 4DHTA 3EB7A 2C1NA 4N7GA 2BQ0A 5D2DA 4GNTA 4QX1A 3I4RA 5BTVA 1A4OA 3T0LA 4BG6A 5D3FA 5LU1A 3CU8A 4QX2A 4N84A 3IQJA 4Y5IA 2C9KA 1O9FA 2WH0A 4FJ3A 1O9EA 1QJBA 4ARXA 3M50A 4DHSA 5LVZA 3T0MA 3SMMA 1URJA 3NKXA 4N7YA 1I5PA 1A37A 3P1RA 3AXYC 4Y3BA 3P1NA 2NPMA 3LW1A 3P1SA 4DHOA 2O98A 1CIYA 4IEAA 4DHPA 4Y32A 4DHUA 2BTPA 3ZHEB 4DATA 4D8MA 4ZDRA 3U9XA 5IQPA 2BR9A 4ARYA 3SMKA 1O9DA 3IQUA 3X0UA 3CQGA 3CQCA 1QJAA 4MOAA 4IHLA 3P1PA 2O02A 4J6SA 4ZQ0A 3EFZA 3RDHA 3SMNA 3SP5A 4DHMA 3P1OA 4JDDA 3UBWA 1IB1A 4DNKA 4FR3A 4DHQA 5D3EA 5HF3A 4W8JA 3SMLA 5J31A 3M51A 5LHOA 1JI6A 2C23A 3UALA 4QX3A 5LU2A 1DLCA 5F74A 2V7DA 2B05A 4HKCA 4QLIA 2C74A 4FL5A 4JC3A 5BY9A 4DAUA 4DX0A 4O46A 5LX2A 2C63A 1O9CA 3UZDA 5EXAA 1A38A 3SMOA 4F7RA 4DHNA 1YZ5A
chains in the Genus database with same CATH topology
1I5PA 3X0UA 1CIYA 1W99A 4QX1A 1JI6A 4MOAA 3EB7A 4ARXA 4W8JA 4QX3A 4ARYA 4QX2A 1DLCA 2C9KA 4D8MA 4QX0A
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 1I5P A;  3X0U A;  1CIY A;  1W99 A;  4QX1 A;  1JI6 A;  4MOA A;  3EB7 A;  4ARX A;  4W8J A;  4QX3 A;  4ARY A;  4QX2 A;  1DLC A;  2C9K A;  4D8M A;  4QX0 A; 
#chains in the Genus database with same CATH topology
 2C1J A;  3E6Y A;  5EWZ A;  1W99 A;  4DHR A;  3O8I A;  3IQV A;  3P1Q A;  2O8P A;  3MHR A;  3UX0 A;  1S2X A;  4WRQ A;  1YWT A;  4E2E A;  4QX0 A;  3SPR A;  4DHT A;  3EB7 A;  2C1N A;  4N7G A;  2BQ0 A;  5D2D A;  4GNT A;  4QX1 A;  3I4R A;  5BTV A;  1A4O A;  3T0L A;  4BG6 A;  5D3F A;  5LU1 A;  3CU8 A;  4QX2 A;  4N84 A;  3IQJ A;  4Y5I A;  2C9K A;  1O9F A;  2WH0 A;  4FJ3 A;  1O9E A;  1QJB A;  4ARX A;  3M50 A;  4DHS A;  5LVZ A;  3T0M A;  3SMM A;  1URJ A;  3NKX A;  4N7Y A;  1I5P A;  1A37 A;  3P1R A;  3AXY C;  4Y3B A;  3P1N A;  2NPM A;  3LW1 A;  3P1S A;  4DHO A;  2O98 A;  1CIY A;  4IEA A;  4DHP A;  4Y32 A;  4DHU A;  2BTP A;  3ZHE B;  4DAT A;  4D8M A;  4ZDR A;  3U9X A;  5IQP A;  2BR9 A;  4ARY A;  3SMK A;  1O9D A;  3IQU A;  3X0U A;  3CQG A;  3CQC A;  1QJA A;  4MOA A;  4IHL A;  3P1P A;  2O02 A;  4J6S A;  4ZQ0 A;  3EFZ A;  3RDH A;  3SMN A;  3SP5 A;  4DHM A;  3P1O A;  4JDD A;  3UBW A;  1IB1 A;  4DNK A;  4FR3 A;  4DHQ A;  5D3E A;  5HF3 A;  4W8J A;  3SML A;  5J31 A;  3M51 A;  5LHO A;  1JI6 A;  2C23 A;  3UAL A;  4QX3 A;  5LU2 A;  1DLC A;  5F74 A;  2V7D A;  2B05 A;  4HKC A;  4QLI A;  2C74 A;  4FL5 A;  4JC3 A;  5BY9 A;  4DAU A;  4DX0 A;  4O46 A;  5LX2 A;  2C63 A;  1O9C A;  3UZD A;  5EXA A;  1A38 A;  3SMO A;  4F7R A;  4DHN A;  1YZ5 A; 
#chains in the Genus database with same CATH homology
 1I5P A;  3X0U A;  1CIY A;  1W99 A;  4QX1 A;  1JI6 A;  4MOA A;  3EB7 A;  4ARX A;  4W8J A;  4QX3 A;  4ARY A;  4QX2 A;  1DLC A;  2C9K A;  4D8M A;  4QX0 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)

 
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#similar chains, but unknotted
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