1S2X | Genus

Total Genus 72

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	72
sequence length	180
structure length	180
Chain Sequence	VDELGFNEAERQKILDSNSSLMRNANEVRDKFIQNYATSLKDSNDPQDFLRRVQELRINMQKNFISFDAYYNYLNNLVLASYNRCKQEKTFAESTIKNELTLGEFVAEISDNFNNFTCDEVARISDLVASYLPREYLPPFIDGNMMGVAFQILGIDDFGKKLNEIVQDIGTKYIILSKNK

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/5cfbfc1fc85a9a330f04debc/pdb.gz): 1566 ms

reading 180 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

180 atoms created

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

Time for creating model: 22 ms

Adding embedded #jmolscript: select ({0:179});backbone only;select *;

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	Unknown function
source organism	Helicobacter pylori
publication title	Crystal structure of CagZ, a protein from the Helicobacter pylori pathogenicity island that encodes for a type IV secretion system pubmed doi rcsb
molecule keywords	Cag-Z
total genus	72
structure length	180
sequence length	180
ec nomenclature
pdb deposition date	2004-01-12

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
A	PF09053	CagZ	CagZ

Image from the rcsb pdb (www.rcsb.org)

cath code	Class	Architecture	Topology	Homology	Domain
1.20.190.30	Mainly Alpha	Up-down Bundle	Delta-Endotoxin; domain 1	Delta-Endotoxin; domain 1	1s2xA00

1S2XA
chains in the Genus database with same CATH superfamily

5LHOA 1S2XA 3SMLA 2BTPA 3NKXA 3U9XA 3UBWA 5F74A 3M51A 3T0MA 1QJAA 4ARYA 4DHRA 3SMKA 2C23A 4DAUA 4N7YA 3IQUA 4IEAA 3X0UA 5BTVA 5BY9A 4FL5A 4DHQA 5LU2A 4D8MA 1I5PA 2B05A 5LX2A 1IB1A 3ZHEB 3SP5A 2C74A 3SMNA 1A4OA 3EFZA 4DHOA 3M50A 4QX3A 4F7RA 4O46A 3AXYC 4ZQ0A 4ARXA 1W99A 4DHSA 4WRQA 4J6SA 1URJA 1YZ5A 5D3EA 5EWZA 1A38A 4QLIA 3P1OA 1O9DA 3UX0A 4QX2A 4ZDRA 4DATA 3UALA 4JDDA 5HF3A 4DHNA 4N7GA 3SMOA 4QX1A 5J31A 2C9KA 3IQVA 4BG6A 3T0LA 1YWTA 2O98A 3E6YA 4DHUA 3I4RA 5D2DA 4FJ3A 4JC3A 3O8IA 3RDHA 4W8JA 3CQGA 2BQ0A 3P1PA 4IHLA 3MHRA 4E2EA 3P1NA 3P1RA 3LW1A 2C1JA 4MOAA 4GNTA 3UZDA 3EB7A 3P1QA 4HKCA 5EXAA 4DHPA 4Y3BA 1DLCA 1JI6A 4DNKA 5IQPA 5D3FA 1CIYA 2WH0A 3SMMA 5LVZA 4FR3A 2C1NA 5LU1A 4QX0A 2O8PA 4DX0A 3CU8A 1O9EA 4Y32A 2NPMA 4Y5IA 4N84A 2C63A 4DHMA 1QJBA 1O9CA 2BR9A 2O02A 3P1SA 1O9FA 1A37A 3IQJA 2V7DA 3SPRA 3CQCA 4DHTA
chains in the Genus database with same CATH topology

1URJA 3ZHEB 1S2XA 3CQGA 3I4RA 3CQCA
chains in the Genus database with same CATH homology

#chains in the Genus database with same CATH superfamily
 1S2X A; 
#chains in the Genus database with same CATH topology
 5LHO A;  1S2X A;  3SML A;  2BTP A;  3NKX A;  3U9X A;  3UBW A;  5F74 A;  3M51 A;  3T0M A;  1QJA A;  4ARY A;  4DHR A;  3SMK A;  2C23 A;  4DAU A;  4N7Y A;  3IQU A;  4IEA A;  3X0U A;  5BTV A;  5BY9 A;  4FL5 A;  4DHQ A;  5LU2 A;  4D8M A;  1I5P A;  2B05 A;  5LX2 A;  1IB1 A;  3ZHE B;  3SP5 A;  2C74 A;  3SMN A;  1A4O A;  3EFZ A;  4DHO A;  3M50 A;  4QX3 A;  4F7R A;  4O46 A;  3AXY C;  4ZQ0 A;  4ARX A;  1W99 A;  4DHS A;  4WRQ A;  4J6S A;  1URJ A;  1YZ5 A;  5D3E A;  5EWZ A;  1A38 A;  4QLI A;  3P1O A;  1O9D A;  3UX0 A;  4QX2 A;  4ZDR A;  4DAT A;  3UAL A;  4JDD A;  5HF3 A;  4DHN A;  4N7G A;  3SMO A;  4QX1 A;  5J31 A;  2C9K A;  3IQV A;  4BG6 A;  3T0L A;  1YWT A;  2O98 A;  3E6Y A;  4DHU A;  3I4R A;  5D2D A;  4FJ3 A;  4JC3 A;  3O8I A;  3RDH A;  4W8J A;  3CQG A;  2BQ0 A;  3P1P A;  4IHL A;  3MHR A;  4E2E A;  3P1N A;  3P1R A;  3LW1 A;  2C1J A;  4MOA A;  4GNT A;  3UZD A;  3EB7 A;  3P1Q A;  4HKC A;  5EXA A;  4DHP A;  4Y3B A;  1DLC A;  1JI6 A;  4DNK A;  5IQP A;  5D3F A;  1CIY A;  2WH0 A;  3SMM A;  5LVZ A;  4FR3 A;  2C1N A;  5LU1 A;  4QX0 A;  2O8P A;  4DX0 A;  3CU8 A;  1O9E A;  4Y32 A;  2NPM A;  4Y5I A;  4N84 A;  2C63 A;  4DHM A;  1QJB A;  1O9C A;  2BR9 A;  2O02 A;  3P1S A;  1O9F A;  1A37 A;  3IQJ A;  2V7D A;  3SPR A;  3CQC A;  4DHT A; 
#chains in the Genus database with same CATH homology
 1URJ A;  3ZHE B;  1S2X A;  3CQG A;  3I4R A;  3CQC 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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#similar chains in the pdb database (?% sequence similarity)
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1S2XA

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations