3FGW | Genus

Total Genus 170

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	170
sequence length	534
structure length	529
Chain Sequence	PPVSRTRSLLLDAASGQLRLEDGFHPDAVAWANLTNAIRETGWAYLDLSTNGRYNDSLQAYAAGVVEASVSEELIYMHWMNTVVNYCGPFEYEVGYCEKLKNFLEANLEWMQREMELNPDSPYWHQVRLTLLQLKGLEDSYEGRLTFPTGRFTIKPLGFLLLQISGDLEDLEPALNKTNGSGSCSALIKLLPGGHDLLVAHNTWNSYQNMLRIIKKYRLQFREGPQEEYPLVAGNNLVFSSYPGTIFSGDDFYILGSGLVTLETTIGNKNPALWKYVQPQGCVLEWIRNVVANRLALDGATWADVFKRFNSGTYNNQWMIVDYKAFLPNGPSPGSRVLTILEQIPGMVVVADKTAELYKTTYWASYNIPYFETVFNASGLQALVAQYGDWFSYTKNPRAKIFQRDQSLVEDMDAMVRLMRYNDFLHDPLSLCEACNPKPNAENAISARSDLNPANGSYPFQALHQRAHGGIDVKVTSFTLAKYMSMLAASGPTWDQCPPFQWSKSPFHSMLHMGQPDLWMFSPIRVPWD

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/5cfee30bc3a02958549d915c/pdb.gz): 1016 ms

reading 529 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

529 atoms created

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

Time for creating model: 39 ms

Adding embedded #jmolscript: select ({0:528});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

publication title	Initial insight into the function of the lysosomal 66.3 kDa protein from mouse by means of X-ray crystallography pubmed doi rcsb
molecule keywords	Putative phospholipase B-like 2
molecule tags	Hydrolase
source organism	Mus musculus
total genus	170
structure length	529
sequence length	534
ec nomenclature	ec 3.1.1.-:
pdb deposition date	2008-12-08

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
A	PF04916	Phospholip_B	Phospholipase B

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

cath code	Class	Architecture	Topology	Homology	Domain
3.60.60.30	Alpha Beta	4-Layer Sandwich	Penicillin V Acylase; Chain A	Penicillin V Acylase; Chain A	3fgwA00

3FBXA 3FGWA
chains in the Genus database with same CATH superfamily

2RLCA 4WL2A 2X1EA 2BJGA 3MJIA 2RG2A 2BJFA 3GVZA 3FBXA 2IWMA 2RF8A 3FGTB 2HEZA 4BWCB 3HBCA 2PVAA 2HF0A 3FGRB 2X1CA 4WL3A 2X1DA 3FGWA 5HKEA 2QUYA 2Z71A 3PVAA 2OQCA
chains in the Genus database with same CATH topology

#chains in the Genus database with same CATH superfamily
 3FBX A;  3FGW A; 
#chains in the Genus database with same CATH topology
 2RLC A;  4WL2 A;  2X1E A;  2BJG A;  3MJI A;  2RG2 A;  2BJF A;  3GVZ A;  3FBX A;  2IWM A;  2RF8 A;  3FGT B;  2HEZ A;  4BWC B;  3HBC A;  2PVA A;  2HF0 A;  3FGR B;  2X1C A;  4WL3 A;  2X1D A;  3FGW A;  5HKE A;  2QUY A;  2Z71 A;  3PVA A;  2OQC A; 
#chains in the Genus database with same CATH homology
 2RLC A;  4WL2 A;  2X1E A;  2BJG A;  3MJI A;  2RG2 A;  2BJF A;  3GVZ A;  3FBX A;  2IWM A;  2RF8 A;  3FGT B;  2HEZ A;  4BWC B;  3HBC A;  2PVA A;  2HF0 A;  3FGR B;  2X1C A;  4WL3 A;  2X1D A;  3FGW A;  5HKE A;  2QUY A;  2Z71 A;  3PVA A;  2OQC 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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3FGWA

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

pfam database annotations