CAZyme Information: QRD05348.1

Basic Information

• Species: Parastagonospora nodorum
• Lineage: Ascomycota; Dothideomycetes; ; Phaeosphaeriaceae; Parastagonospora; Parastagonospora nodorum
• CAZyme ID: QRD05348.1
• CAZy Family: GH92
• CAZyme Description: rhamnogalacturonan endolyase

CAZyme Property

Protein Length	CGC	Molecular Weight	Isoelectric Point
652		71890.84	6.8238

Genome Property

Genome Version/Assembly ID	Genes	Strain NCBI Taxon ID	Non Protein Coding Genes	Protein Coding Genes
FungiDB-61_PnodorumSN15	17580	321614	132	17448

• Gene Location: location=CP069040:837168-839175(-)

Full Sequence      

MLSTRFLLSLPFWASMVQAAIKSSENNNTIDISNDRLSFTVAKGTGYVSKLSLDGQNLLG
SGRGPYLDGHLDSGFWTPGKGAKYQLFKGTDGDGKTYAGAMMSQGYQTTGIVFEQYWFLR
DGETGLHVFSRAKYSNSSVPSGGDLGEFRQLFRPSGSVWTHLSSSDEMFAPLPNTTGAPV
VQDASWYVGGSKSDPYVKQVSDYFTKYMFSEEWRDQTVHGMYGDGTKSSDGTNFGAWLLM
NTKDTYFNGPTHSDLTVDGIVYNYMISNHHGNGVPELANGFDHTFGPQVYYFNIGSKGTS
LQSLRSDAKKMVSTNWAAFYDAIAQHVPNLVPSTGRGTFKATVSLPKGATRALAVLAVDG
HDFQDNNKIPSAYQYWGNIEKSGSVTIPSVKAGTYRLTVYADNIFGQYEQDGIVIKAGSL
ATTTATWNAESAGTELWRIGTPDKSSGEFRHGNEEDTTRTNQPRQYRLYWAVHDFVKDFP
NGVKYHVGNSSLYELNYVHWSVFGGKANYLRKDPYYTNVNNWTLTFDLTQNQISNKSEAT
FTIQLAGVKTSAGNNDAAAPGKAWADLPYNVIINGRQLETWVIPSTHSSSCAVRSAATCY
TTGHKFKFPVSQLKEGYNEFVLSLPARATAPEDAELPESVYVQYDALRLEVK

Enzyme Prediction     

EC	4.2.2.23:2

CAZyme Signature Domains

Family	Start	End	Evalue	family coverage
PL4	19	637	2.4e-299	0.9968354430379747

CDD Domains     

Cdd ID	Domain	E-Value	qStart	qEnd	sStart	sEnd	Domain Description
199907	RGL4_N	1.24e-52	21	297	1	261	N-terminal catalytic domain of rhamnogalacturonan lyase, a family 4 polysaccharide lyase. The rhamnogalacturonan lyase of the polysaccharide lyase family 4 (RGL4) is involved in the degradation of RG (rhamnogalacturonan) type-I, an important pectic plant cell wall polysaccharide, by cleaving the alpha-1,4 glycoside bond between L-rhamnose and D-galacturonic acids in the backbone of RG type-I through a beta-elimination reaction. RGL4 consists of three domains, an N-terminal catalytic domain, a middle domain with a FNIII type fold and a C-terminal domain with a jelly roll fold; the middle and C-terminal domains are both putative carbohydrate binding modules. There are two types of RG lyases, which both cleave the alpha-1,4 bonds of the RG-I main chain (RG chain) through the beta-elimination reaction, but belong to two structurally unrelated polysaccharide lyase (PL) families, 4 and 11.
199904	RGL4_M	4.30e-29	335	427	1	92	Middle domain of rhamnogalacturonan lyase, a family 4 polysaccharide lyase. The rhamnogalacturonan lyase of the polysaccharide lyase family 4 (RGL4) is involved in the degradation of RG (rhamnogalacturonan) type-I, an important pectic plant cell wall polysaccharide, by cleaving the alpha-1,4 glycoside bond between L-rhamnose and D-galacturonic acids in the backbone of RG type-I through a beta-elimination reaction. RGL4 consists of three domains, an N-terminal catalytic domain, a middle domain with a FNIII type fold and a C-terminal domain with a jelly roll fold. Both the middle domain represented by this model and the C-terminal domain are putative carbohydrate binding modules. There are two types of RG lyases, which both cleave the alpha-1,4 bonds of the RG-I main chain (RG chain) through the beta-elimination reaction, but belong to two structurally unrelated polysaccharide lyase (PL) families, 4 and 11.
199905	RGL4_C	1.07e-28	437	650	1	161	C-terminal domain of rhamnogalacturonan lyase, a family 4 polysaccharide lyase. The rhamnogalacturonan lyase of the polysaccharide lyase family 4 (RGL4) is involved in the degradation of RG (rhamnogalacturonan) type-I, an important pectic plant cell wall polysaccharide, by cleaving the alpha-1,4 glycoside bond between L-rhamnose and D-galacturonic acids in the backbone of RG type-I through a beta-elimination reaction. RGL4 consists of three domains, an N-terminal catalytic domain, a middle domain with a FNIII type fold and a C-terminal domain with a jelly roll fold. Both the middle and the C-terminal domain are putative carbohydrate binding modules. There are two types of RG lyases, which both cleave the alpha-1,4 bonds of the RG-I main chain (RG chain) through the beta-elimination reaction, but belong to two structurally unrelated polysaccharide lyase (PL) families, 4 and 11.
405387	fn3_3	8.97e-25	346	422	1	74	Polysaccharide lyase family 4, domain II. FnIII-like is domain II of rhamnogalacturonan lyase (RG-lyase). The full-length protein specifically recognizes and cleaves alpha-1,4 glycosidic bonds between l-rhamnose and d-galacturonic acids in the backbone of rhamnogalacturonan-I, a major component of the plant cell wall polysaccharide, pectin. This domain displays an immunoglobulin-like or more specifically Fibronectin-III type fold and shows highest structural similarity to the C-terminal beta-sandwich subdomain of the pro-hormone/propeptide processing enzyme carboxypeptidase gp180 from duck. It serves to assist in producing the deep pocket, with domain III, into which the substrate fits.
405384	CBM-like	2.42e-13	436	649	2	157	Polysaccharide lyase family 4, domain III. CBM-like is domain III of rhamnogalacturonan lyase (RG-lyase). The full-length protein specifically recognizes and cleaves alpha-1,4 glycosidic bonds between l-rhamnose and d-galacturonic acids in the backbone of rhamnogalacturonan-I, a major component of the plant cell wall polysaccharide, pectin. This domain possesses a jelly roll beta-sandwich fold structurally homologous to carbohydrate binding modules (CBMs), and it carries two sulfate ions and a hexa-coordinated calcium ion.

CAZyme Hits     

Hit ID	E-Value	Query Start	Query End	Hit Start	Hit End
QRD05348.1|PL4_3	0.0	1	652	1	652
CBY00247.1|PL4_3	0.0	7	651	7	651
QGI80329.1|PL4_3	1.00e-262	2	652	6	670
QGI63162.1|PL4_3	1.00e-262	2	652	6	670
QGI94046.1|PL4_3	2.02e-262	2	652	6	670

PDB Hits     

QRD05348.1 has no PDB hit.

Swiss-Prot Hits     

Hit ID	E-Value	Query Start	Query End	Hit Start	Hit End	Description
sp|Q2U5P7|RGLC_ASPOR	4.57e-235	3	643	5	654	Probable rhamnogalacturonate lyase C OS=Aspergillus oryzae (strain ATCC 42149 / RIB 40) OX=510516 GN=rglC PE=3 SV=1
sp|Q5AZ85|RGLB_EMENI	6.21e-224	9	652	8	660	Rhamnogalacturonate lyase B OS=Emericella nidulans (strain FGSC A4 / ATCC 38163 / CBS 112.46 / NRRL 194 / M139) OX=227321 GN=rglB PE=2 SV=2
sp|B8N5T6|RGLB_ASPFN	1.10e-217	14	651	14	662	Probable rhamnogalacturonate lyase B OS=Aspergillus flavus (strain ATCC 200026 / FGSC A1120 / IAM 13836 / NRRL 3357 / JCM 12722 / SRRC 167) OX=332952 GN=rglB PE=3 SV=1
sp|Q5B5P1|RGLC_EMENI	1.28e-217	14	643	16	650	Probable rhamnogalacturonate lyase C OS=Emericella nidulans (strain FGSC A4 / ATCC 38163 / CBS 112.46 / NRRL 194 / M139) OX=227321 GN=rglC PE=3 SV=1
sp|A1D144|RGLB_NEOFI	1.86e-217	13	651	13	657	Probable rhamnogalacturonate lyase B OS=Neosartorya fischeri (strain ATCC 1020 / DSM 3700 / CBS 544.65 / FGSC A1164 / JCM 1740 / NRRL 181 / WB 181) OX=331117 GN=rglB PE=3 SV=1

SignalP and Lipop Annotations

This protein is predicted as SP

Other	SP_Sec_SPI	CS Position
0.000246	0.999736	CS pos: 19-20. Pr: 0.9748

TMHMM  Annotations     

There is no transmembrane helices in QRD05348.1.