4KYIA

Crystal structure of the phospholipase vipd from legionella pneumophila in complex with the human gtpase rab5
Total Genus 166
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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
166
sequence length
541
structure length
530
Chain Sequence
GSEISKTEAGQYSVSAPEHKGLVLSGGGAKGISYLGMIQALQERGKIKNLTHVSGASAGAMTASILAVGMDIKDIKKLIEGLDITKLLDNSGVGFRARGDRFRNILDVIYMMQMKKHLESVQQPIPPEQQMNYGILKQKIALYEDKLSRAGIVINNVDDIINLTKSVKDLEKLDKALNSIPTELKGAKGEQLENPRLTLGDLGRLRELLPEENKHLIKNLSVVVTNQTKHELERYSEDTTPQQSIAQVVQWSGAHPVLFVPGRNAKGEYIADGGILDNMPEIEGLDREEVLCVKAEAGTAFEDRVNKAKQSAMEAISWFKARMDSLVTSSVLNREKVYYNIDNMIYINTGEVTTTNTSPTPEQRARAVKNGYDQTMQLLDSHKQTFDHPLMAILYIGHDKLKDALIDEKSEKEIFEASAHAQAILHLQEQIVKEMNDGDYSSVQNYLDQIEDILTVDAKMDDIQKEKAFALCIKQVNFLSEGKLETYLNKVEAEAKAAAEPSWATKILNLLWAPIEWVVSLFKGPAQDFK
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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 Structural basis for the recruitment and activation of the Legionella phospholipase VipD by the host GTPase Rab5.
pubmed doi rcsb
molecule tags Protein binding/transport protein
source organism Legionella pneumophila subsp. pneumophila
molecule keywords VipD
total genus 166
structure length 530
sequence length 541
chains with identical sequence C, E, G
ec nomenclature
pdb deposition date 2013-05-29

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF01734 Patatin Patatin-like phospholipase
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.40.1090.10 Alpha Beta 3-Layer(aba) Sandwich Cytosolic phospholipase A2 catalytic domain Cytosolic phospholipase A2 catalytic domain 4kyiA02
4KYIA 1OXWA 4PKAX 4PKBA 4AKFA 4PK9A 1CJYA
chains in the Genus database with same CATH superfamily
4KYIA 1OXWA 4PKAX 4AKXB 4PKBA 3TU3B 4AKFA 4PK9A 4QMKA 1CJYA
chains in the Genus database with same CATH topology
4KYIA 1OXWA 4PKAX 4AKXB 4PKBA 3TU3B 4AKFA 4PK9A 4QMKA 1CJYA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 4KYI A;  1OXW A;  4PKA X;  4PKB A;  4AKF A;  4PK9 A;  1CJY A; 
#chains in the Genus database with same CATH topology
 4KYI A;  1OXW A;  4PKA X;  4AKX B;  4PKB A;  3TU3 B;  4AKF A;  4PK9 A;  4QMK A;  1CJY A; 
#chains in the Genus database with same CATH homology
 4KYI A;  1OXW A;  4PKA X;  4AKX B;  4PKB A;  3TU3 B;  4AKF A;  4PK9 A;  4QMK A;  1CJY 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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