Citrus Sinensis ID: 042417

Local Sequence Feature Prediction

Prediction and (Method)	Result

Residue Number Marker

Protein Sequence

Secondary Structure (PSIPRED)

Secondary Structure Prediction (SSPRO)

Coil and Loop (DISEMBL)

Flexible Loop (DISEMBL)

Low Complexity Region (SEG)

Disordered region (IsUnstruct)

Disordered Region (DISOPRED)

Disordered Region (DISEMBL)

Disordered Region (DISPRO)

Transmembrane Helix (TMHMM)

Transmembrane Helix (HMMTOP)

Transmembrane Helix (MEMSAT)

TM Helix, Signal Peptide (MEMSAT_SVM)

TM Helix, Signal Peptide (Phobius)

Signal Peptide (SignalP HMM Mode)

Signal Peptide (SignalP NN Mode)

Coiled Coils (COILS)

Positional Conservation

--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------25

VFNVKDFGAVADGIKDDSKAFETAWREACNWDGIKSAVLVPPGKYLSIRFNFLNDSTITGIKSVDSRYFHINILGCYNLKLNDLKITAHADSPNTEGIHIGSSNGSEISHSVIATGDDCVSLGHGISVGSLGKGINDEEVVGLTVRNCTFTGTNIVTNNVENPIVIDQLYCPYNKCNIKVPSQVKTSNVRFNNIRGTSANKIPCQNIGIGNINWVYNGVNVKVEGPETTSLCSNVKPTLFGKQIPATCV

cEEEEEEEEEEcEEEcccccHHHHHHccccccccccccccccccEEEEEEEEEEccEEEEEEEEccccEEEEEEcEEcEEEEEEEEEccccccccccEEEcccccEEEEEEEEEEcccEEEEcccEEEcccccccccccEEEEEEEEEEEEEEEEEEEcccccEEEEEEEcccccccccccccEEEEcEEEEEEEEEEcccccEEcEEEEEEEEEEccEEEEEccccccEEEEcEEEEEcccccccccc

cccEcEEEEEEcEEEcccccHHHHHHcccccccccccccccccccEEEEEEEcccEEEEEEEEEccccEEEEEEccEEEEEEEEEEEccccccccccEEEEccccEEEEEEEEcccccEEEEcccEEEcEcccccccccEEEEEEEEEEEEccEEEEEcccccEEEEcccccccccccccccEEEEEEEEEEEEccccccccccccEEEEEEEEEEcccccccccccccEEEccccccEcccccccccc

vfnvkdfgavadgikdDSKAFETAWREAcnwdgiksavlvppgkylsIRFNFlndstitgiksvdsryFHINILGcynlklndlkitahadspntegihigssngseishsviatgddcvslghgisvgslgkgindeevvgltvrnctftgtnivtnnvenpividqlycpynkcnikvpsqvktsnvrfnnirgtsankipcqnigigninwvYNGVnvkvegpettslcsnvkptlfgkqipatcv

vfnvkdfgavadgikddsKAFETAWREACNWDGIKSAVLVPPGKYLSIRFNFLNDSTITGIKSVDSRYFHINILGCYNLKLNDLKITAHADSPNTEGIHIGSSNGSEISHSVIATGDDCVSLGHGISVGslgkgindeeVVGLTVRNCTFtgtnivtnnvenPIVIDQLYCPYNKCNIKVPSQVKTSNVRFNNIrgtsankipcqniGIGNINWVYNGVNVKVEGPETTslcsnvkptlfgkqipatcv

******FGAVADGIKDDSKAFETAWREACNWDGIKSAVLVPPGKYLSIRFNFLNDSTITGIKSVDSRYFHINILGCYNLKLNDLKITAHA*****************ISHSVIATGDDCVSLGHGISVGSLGKGINDEEVVGLTVRNCTFTGTNIVTNNVENPIVIDQLYCPYNKCNIKVPSQVKTSNVRFNNIRGTSANKIPCQNIGIGNINWVYNGVNVKVEGPETTSLCSNVKPTLFG********

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no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Alignment graph	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query		249	2.2.26 [Sep-21-2011]
Q6H9K0		377	Exopolygalacturonase (Fra	N/A	no	0.787	0.519	0.412	5e-48
Q05967		396	Polygalacturonase OS=Nico	N/A	no	0.787	0.494	0.416	6e-45
P24548		362	Exopolygalacturonase (Fra	N/A	no	0.795	0.546	0.400	3e-44
P49063		444	Exopolygalacturonase clon	no	no	0.795	0.445	0.420	3e-43
Q39786		407	Polygalacturonase OS=Goss	N/A	no	0.931	0.570	0.389	5e-43
Q39766		407	Polygalacturonase OS=Goss	N/A	no	0.931	0.570	0.385	6e-43
P35337		397	Polygalacturonase OS=Bras	N/A	no	0.799	0.501	0.393	1e-42
Q40312		421	Polygalacturonase OS=Medi	N/A	no	0.815	0.482	0.363	4e-40
P35338		410	Exopolygalacturonase OS=Z	N/A	no	0.763	0.463	0.322	1e-30
P26216		410	Exopolygalacturonase OS=Z	N/A	no	0.763	0.463	0.318	1e-30

>sp\|Q6H9K0\|PGLR2_PLAAC Exopolygalacturonase (Fragment) OS=Platanus acerifolia GN=plaa2 PE=1 SV=1	Back alignment and function desciption

 Score =  191 bits (484), Expect = 5e-48,   Method: Compositional matrix adjust.
 Identities = 103/250 (41%), Positives = 146/250 (58%), Gaps = 54/250 (21%)

Query: 46  LSIRFNFLNDSTITGIKSVDSRYFHINILGCYNLKLNDLKITAHADSPNTEGIHIGSSNG 105
           +++RF+FL  + +  I S++S+ FHIN+L C ++    + +TA   S NT+GIH+G S G
Sbjct: 129 MNLRFDFLKHAMVRDITSLNSKMFHINVLECEDITFQHVTVTAPGTSINTDGIHVGISKG 188

Query: 106 SEISHSVIATGDDCVSL----------------GHGISVGSLGKGINDEEVVGLTVRNCT 149
             I+++ IATGDDC+S+                GHGIS+GSLG+  N++EV G+TV+ CT
Sbjct: 189 VTITNTKIATGDDCISIGPGSQNVTITQVNCGPGHGISIGSLGRYNNEKEVRGITVKGCT 248

Query: 150 FTGT-----------------------NIVTNNVENPIVIDQLYCPYNKCNIKVPSQVKT 186
           F+GT                       ++  NNV+NP+++DQ YCPY +C+ + PS++K 
Sbjct: 249 FSGTMNGVRVKTWPNSPPGAATDLTFQDLTMNNVQNPVILDQEYCPYGQCSRQAPSRIKL 308

Query: 187 SNVRFNNIRGTSANKI----------PCQNIGIGNINWVYNGVNVKVEGPETTSLCSNVK 236
           SN+ FNNIRGTS  K+          PC N+ IG IN  Y G      G   TS CSNVK
Sbjct: 309 SNINFNNIRGTSTGKVAVVIACSHGMPCSNMKIGEINLSYRGA-----GGPATSTCSNVK 363

Query: 237 PTLFGKQIPA 246
           PT  GKQ+PA
Sbjct: 364 PTFSGKQVPA 373

May function in depolymerizing pectin during pollen development, germination, and tube growth. Acts as an exo-polygalacturonase.
Platanus acerifolia (taxid: 140101)
EC: 3EC: .EC: 2EC: .EC: 1EC: .EC: 6EC: 7

>sp\|Q05967\|PGLR_TOBAC Polygalacturonase OS=Nicotiana tabacum GN=PG1 PE=2 SV=1	Back alignment and function description

>sp\|P24548\|PGLR_OENOR Exopolygalacturonase (Fragment) OS=Oenothera organensis PE=2 SV=1	Back alignment and function description

>sp\|P49063\|PGLR2_ARATH Exopolygalacturonase clone GBGA483 OS=Arabidopsis thaliana GN=At3g07850 PE=1 SV=2	Back alignment and function description

>sp\|Q39786\|PGLR_GOSHI Polygalacturonase OS=Gossypium hirsutum GN=G9 PE=2 SV=1	Back alignment and function description

>sp\|Q39766\|PGLR_GOSBA Polygalacturonase OS=Gossypium barbadense GN=G9 PE=2 SV=1	Back alignment and function description

>sp\|P35337\|PGLR_BRANA Polygalacturonase OS=Brassica napus PE=2 SV=1	Back alignment and function description

>sp\|Q40312\|PGLR_MEDSA Polygalacturonase OS=Medicago sativa PE=2 SV=1	Back alignment and function description

>sp\|P35338\|PGLR2_MAIZE Exopolygalacturonase OS=Zea mays GN=PG9 PE=2 SV=1	Back alignment and function description

>sp\|P26216\|PGLR1_MAIZE Exopolygalacturonase OS=Zea mays GN=PG1 PE=1 SV=1	Back alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Alignment Graph	Length	Definition	Q cover	H cover	Identity	E-value
Query		249
225447625		395	PREDICTED: polygalacturonase [Vitis vini	0.799	0.503	0.450	2e-49
225446732		395	PREDICTED: polygalacturonase [Vitis vini	0.795	0.501	0.452	5e-49
147835149		1260	hypothetical protein VITISV_002009 [Viti	0.791	0.156	0.447	6e-49
147835151		587	hypothetical protein VITISV_002011 [Viti	0.791	0.335	0.447	1e-48
359485871		396	PREDICTED: polygalacturonase-like [Vitis	0.863	0.542	0.419	1e-48
225446736		395	PREDICTED: polygalacturonase [Vitis vini	0.795	0.501	0.448	2e-48
296084975		452	unnamed protein product [Vitis vinifera]	0.775	0.426	0.449	6e-48
302143491		1080	unnamed protein product [Vitis vinifera]	0.783	0.180	0.449	9e-48
91806395		280	polygalacturonase/pectinase [Arabidopsis	0.799	0.710	0.433	1e-47
15231878		401	polygalacturonase-like protein [Arabidop	0.795	0.493	0.434	1e-47

>gi\|225447625\|ref\|XP_002274125.1\| PREDICTED: polygalacturonase [Vitis vinifera]	Back alignment and taxonomy information

 Score =  201 bits (511), Expect = 2e-49,   Method: Compositional matrix adjust.
 Identities = 114/253 (45%), Positives = 151/253 (59%), Gaps = 54/253 (21%)

Query: 46  LSIRFNFLNDSTITGIKSVDSRYFHINILGCYNLKLNDLKITAHADSPNTEGIHIGSSNG 105
           +++RFNF+ +S +  I S DS+ FHIN+LGC NL   ++ I+A  +S NT+GIHIG S+G
Sbjct: 148 INLRFNFITNSMVKDITSRDSKQFHINLLGCKNLAFYNVAISAPDESLNTDGIHIGRSSG 207

Query: 106 SEISHSVIATGDDCVSL----------------GHGISVGSLGKGINDEEVVGLTVRNCT 149
             I+ S I TGDDCVS+                GHGISVGSLGK  N+E VVG++V+NCT
Sbjct: 208 INITDSTIETGDDCVSIGDGSEQINIQRVTCGPGHGISVGSLGKYPNEEPVVGISVKNCT 267

Query: 150 FTGT-----------------------NIVTNNVENPIVIDQLYCPYNKCNIKVPSQVKT 186
            T T                       +IV NNV NPI+IDQ YCP+N+CN+K PS++K 
Sbjct: 268 LTNTQNGVRVKTFPASHQGIASEMHFEDIVMNNVGNPIIIDQEYCPHNQCNLKSPSRIKL 327

Query: 187 SNVRFNNIRGTSANK----------IPCQNIGIGNINWVYNGVNVKVEGPETTSLCSNVK 236
           SNV F NIRGT++ +          +PCQ++ +G+IN  YNG     EGP   S C N+K
Sbjct: 328 SNVSFRNIRGTTSTQVAVKLLCSQGVPCQDVELGDINLKYNG----KEGP-AMSQCKNIK 382

Query: 237 PTLFGKQIPATCV 249
           P L G Q+P  C 
Sbjct: 383 PNLLGVQLPRICA 395

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi\|225446732\|ref\|XP_002282573.1\| PREDICTED: polygalacturonase [Vitis vinifera]	Back alignment and taxonomy information

>gi\|147835149\|emb\|CAN65674.1\| hypothetical protein VITISV_002009 [Vitis vinifera]	Back alignment and taxonomy information

>gi\|147835151\|emb\|CAN65676.1\| hypothetical protein VITISV_002011 [Vitis vinifera]	Back alignment and taxonomy information

>gi\|359485871\|ref\|XP_003633345.1\| PREDICTED: polygalacturonase-like [Vitis vinifera] gi\|296084979\|emb\|CBI28394.3\| unnamed protein product [Vitis vinifera]	Back alignment and taxonomy information

>gi\|225446736\|ref\|XP_002282594.1\| PREDICTED: polygalacturonase [Vitis vinifera]	Back alignment and taxonomy information

>gi\|296084975\|emb\|CBI28390.3\| unnamed protein product [Vitis vinifera]	Back alignment and taxonomy information

>gi\|302143491\|emb\|CBI22052.3\| unnamed protein product [Vitis vinifera]	Back alignment and taxonomy information

>gi\|91806395\|gb\|ABE65925.1\| polygalacturonase/pectinase [Arabidopsis thaliana]	Back alignment and taxonomy information

>gi\|15231878\|ref\|NP_187441.1\| polygalacturonase-like protein [Arabidopsis thaliana] gi\|6648196\|gb\|AAF21194.1\|AC013483_18 putative polygalacturonase [Arabidopsis thaliana] gi\|332641089\|gb\|AEE74610.1\| polygalacturonase-like protein [Arabidopsis thaliana]	Back alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Alignment graph	Length	Definition	Q cover	H cover	Identity	E-value
Query		249
UNIPROTKB\|Q6H9K0		377	plaa2 "Exopolygalacturonase" [	0.433	0.286	0.427	1.3e-56
TAIR\|locus:2164773		395	AT5G48140 [Arabidopsis thalian	0.437	0.275	0.464	5.4e-54
TAIR\|locus:2088252		445	AT3G14040 [Arabidopsis thalian	0.437	0.244	0.448	1.2e-51
TAIR\|locus:2077437		401	AT3G07840 [Arabidopsis thalian	0.437	0.271	0.464	1.3e-49
TAIR\|locus:2077402		391	AT3G07820 [Arabidopsis thalian	0.570	0.363	0.414	2.3e-46
TAIR\|locus:2077412		397	AT3G07830 [Arabidopsis thalian	0.437	0.274	0.448	1.6e-45
TAIR\|locus:2077442		444	AT3G07850 [Arabidopsis thalian	0.574	0.322	0.397	7.1e-43
TAIR\|locus:2063114		404	AT2G40310 [Arabidopsis thalian	0.453	0.279	0.387	1.5e-37
TAIR\|locus:2047153		404	AT2G15470 [Arabidopsis thalian	0.453	0.279	0.372	1.5e-37
TAIR\|locus:2119485		404	AT4G13760 [Arabidopsis thalian	0.453	0.279	0.372	2e-37

UNIPROTKB\|Q6H9K0 plaa2 "Exopolygalacturonase" [Platanus x acerifolia (taxid:140101)]	Back alignment and assigned GO terms

 Score = 261 (96.9 bits), Expect = 1.3e-56, Sum P(3) = 1.3e-56
 Identities = 53/124 (42%), Positives = 81/124 (65%)

Query:    46 LSIRFNFLNDSTITGIKSVDSRYFHINILGCYNLKLNDLKITAHADSPNTEGIHIGSSNG 105
             +++RF+FL  + +  I S++S+ FHIN+L C ++    + +TA   S NT+GIH+G S G
Sbjct:   129 MNLRFDFLKHAMVRDITSLNSKMFHINVLECEDITFQHVTVTAPGTSINTDGIHVGISKG 188

Query:   106 SEISHSVIATGDDCVSLG----------------HGISVGSLGKGINDEEVVGLTVRNCT 149
               I+++ IATGDDC+S+G                HGIS+GSLG+  N++EV G+TV+ CT
Sbjct:   189 VTITNTKIATGDDCISIGPGSQNVTITQVNCGPGHGISIGSLGRYNNEKEVRGITVKGCT 248

Query:   150 FTGT 153
             F+GT
Sbjct:   249 FSGT 252

GO:0005575 "cellular_component" evidence=ND

GO:0019863 "IgE binding" evidence=IDA

GO:0045490 "pectin catabolic process" evidence=IDA

GO:0047911 "galacturan 1,4-alpha-galacturonidase activity" evidence=IDA

TAIR\|locus:2164773 AT5G48140 [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2088252 AT3G14040 [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2077437 AT3G07840 [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2077402 AT3G07820 [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2077412 AT3G07830 [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2077442 AT3G07850 [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2063114 AT2G40310 [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2047153 AT2G15470 [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2119485 AT4G13760 [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	3.2.1	0.691

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	GSVIVG00029169001	SubName- Full=Chromosome chr12 scaffold_47, whole genome shotgun sequence; (395 aa)
		(Vitis vinifera)
Predicted Functional Partners:
		Sorry, there are no predicted associations at the current settings.

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Alignment Graph	Length	Definition	E-value
Query		249
PLN02188		404	PLN02188, PLN02188, polygalacturonase/glycoside hy	2e-58
pfam00295		325	pfam00295, Glyco_hydro_28, Glycosyl hydrolases fam	1e-46
PLN02155		394	PLN02155, PLN02155, polygalacturonase	2e-36
PLN02793		443	PLN02793, PLN02793, Probable polygalacturonase	2e-30
PLN02218		431	PLN02218, PLN02218, polygalacturonase ADPG	6e-28
PLN03003		456	PLN03003, PLN03003, Probable polygalacturonase At3	7e-25
PLN03010		409	PLN03010, PLN03010, polygalacturonase	1e-24
PLN02188		404	PLN02188, PLN02188, polygalacturonase/glycoside hy	2e-08
PLN02793		443	PLN02793, PLN02793, Probable polygalacturonase	4e-06
PLN02218		431	PLN02218, PLN02218, polygalacturonase ADPG	2e-04
pfam12708		222	pfam12708, Pectate_lyase_3, Pectate lyase superfam	2e-04
COG5434		542	COG5434, PGU1, Endopygalactorunase [Cell envelope	2e-04
PLN02155		394	PLN02155, PLN02155, polygalacturonase	7e-04
PLN03003		456	PLN03003, PLN03003, Probable polygalacturonase At3	0.002

>gnl\|CDD\|215120 PLN02188, PLN02188, polygalacturonase/glycoside hydrolase family protein	Back alignment and domain information

 Score =  190 bits (483), Expect = 2e-58
 Identities = 102/252 (40%), Positives = 140/252 (55%), Gaps = 55/252 (21%)

Query: 47  SIRFNFLNDSTITGIKSVDSRYFHINILGCYNLKLNDLKITAHADSPNTEGIHIGSSNGS 106
           S++F  +N++ + GI SV+S++FHI ++ C N K + LKI+A +DSPNT+GIHI  S+G 
Sbjct: 157 SVKFVNMNNTVVRGITSVNSKFFHIALVECRNFKGSGLKISAPSDSPNTDGIHIERSSGV 216

Query: 107 EISHSVIATGDDCVSL----------------GHGISVGSLGKGINDEEVVGLTVRNCTF 150
            IS S I TGDDC+S+                GHGISVGSLG+  N+ +V GL VR+CTF
Sbjct: 217 YISDSRIGTGDDCISIGQGNSQVTITRIRCGPGHGISVGSLGRYPNEGDVTGLVVRDCTF 276

Query: 151 TGT------------------------NIVTNNVENPIVIDQLYCPYNKCNIKVPSQVKT 186
           TGT                        NIV NNV NPI+IDQ YCP+  C  K PS V  
Sbjct: 277 TGTTNGIRIKTWANSPGKSAATNMTFENIVMNNVTNPIIIDQKYCPFYSCESKYPSGVTL 336

Query: 187 SNVRFNNIRGTSANK----------IPCQNIGIGNINWVYNGVNVKVEGPETTSLCSNVK 236
           S++ F NIRGTS+++          +PCQ + + +++   +          T+S C NV+
Sbjct: 337 SDIYFKNIRGTSSSQVAVLLKCSRGVPCQGVYLQDVHLDLSSGE-----GGTSSSCENVR 391

Query: 237 PTLFGKQIPATC 248
               G QIP  C
Sbjct: 392 AKYIGTQIPPPC 403

Length = 404

>gnl\|CDD\|215843 pfam00295, Glyco_hydro_28, Glycosyl hydrolases family 28	Back alignment and domain information

>gnl\|CDD\|165802 PLN02155, PLN02155, polygalacturonase	Back alignment and domain information

>gnl\|CDD\|215426 PLN02793, PLN02793, Probable polygalacturonase	Back alignment and domain information

>gnl\|CDD\|177865 PLN02218, PLN02218, polygalacturonase ADPG	Back alignment and domain information

>gnl\|CDD\|178580 PLN03003, PLN03003, Probable polygalacturonase At3g15720	Back alignment and domain information

>gnl\|CDD\|215540 PLN03010, PLN03010, polygalacturonase	Back alignment and domain information

>gnl\|CDD\|215120 PLN02188, PLN02188, polygalacturonase/glycoside hydrolase family protein	Back alignment and domain information

>gnl\|CDD\|215426 PLN02793, PLN02793, Probable polygalacturonase	Back alignment and domain information

>gnl\|CDD\|177865 PLN02218, PLN02218, polygalacturonase ADPG	Back alignment and domain information

>gnl\|CDD\|221728 pfam12708, Pectate_lyase_3, Pectate lyase superfamily protein	Back alignment and domain information

>gnl\|CDD\|227721 COG5434, PGU1, Endopygalactorunase [Cell envelope biogenesis, outer membrane]	Back alignment and domain information

>gnl\|CDD\|165802 PLN02155, PLN02155, polygalacturonase	Back alignment and domain information

>gnl\|CDD\|178580 PLN03003, PLN03003, Probable polygalacturonase At3g15720	Back alignment and domain information

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Alignment Graph	Length	Definition	Probability
Query		249
PLN02188		404	polygalacturonase/glycoside hydrolase family prote	100.0
PLN02155		394	polygalacturonase	100.0
PLN03003		456	Probable polygalacturonase At3g15720	100.0
PLN03010		409	polygalacturonase	100.0
PLN02793		443	Probable polygalacturonase	100.0
PLN02218		431	polygalacturonase ADPG	100.0
PF00295		326	Glyco_hydro_28: Glycosyl hydrolases family 28; Int	100.0
COG5434		542	PGU1 Endopygalactorunase [Cell envelope biogenesis	99.97
PF12708		225	Pectate_lyase_3: Pectate lyase superfamily protein	99.74
TIGR03808		455	RR_plus_rpt_1 twin-arg-translocated uncharacterize	99.67
PF00295		326	Glyco_hydro_28: Glycosyl hydrolases family 28; Int	99.39
PLN02793		443	Probable polygalacturonase	99.38
PLN02218		431	polygalacturonase ADPG	99.36
PLN02155		394	polygalacturonase	99.33
PLN02188		404	polygalacturonase/glycoside hydrolase family prote	99.33
PF03718		582	Glyco_hydro_49: Glycosyl hydrolase family 49; Inte	99.31
PLN03003		456	Probable polygalacturonase At3g15720	99.23
TIGR03805		314	beta_helix_1 parallel beta-helix repeat-containing	99.21
PLN03010		409	polygalacturonase	99.12
COG5434		542	PGU1 Endopygalactorunase [Cell envelope biogenesis	98.55
PF12541		277	DUF3737: Protein of unknown function (DUF3737) ; I	97.94
PRK10123		464	wcaM putative colanic acid biosynthesis protein; P	97.88
PF12541		277	DUF3737: Protein of unknown function (DUF3737) ; I	97.84
TIGR03805		314	beta_helix_1 parallel beta-helix repeat-containing	97.75
COG3866		345	PelB Pectate lyase [Carbohydrate transport and met	97.67
PF05048		236	NosD: Periplasmic copper-binding protein (NosD); I	97.57
PF13229		158	Beta_helix: Right handed beta helix region; PDB: 2	97.51
smart00656		190	Amb_all Amb_all domain.	97.19
PF07602		246	DUF1565: Protein of unknown function (DUF1565); In	97.13
PF14592		425	Chondroitinas_B: Chondroitinase B; PDB: 1OFM_A 1OF	96.99
smart00656		190	Amb_all Amb_all domain.	96.61
PF00544		200	Pec_lyase_C: Pectate lyase; InterPro: IPR002022 Pe	96.52
PLN02480		343	Probable pectinesterase	96.47
PF13229		158	Beta_helix: Right handed beta helix region; PDB: 2	96.41
PF00544		200	Pec_lyase_C: Pectate lyase; InterPro: IPR002022 Pe	96.39
PF05048		236	NosD: Periplasmic copper-binding protein (NosD); I	96.06
PLN02432		293	putative pectinesterase	95.91
PLN02773		317	pectinesterase	95.71
TIGR03808		455	RR_plus_rpt_1 twin-arg-translocated uncharacterize	95.6
PF12218		67	End_N_terminal: N terminal extension of bacterioph	95.53
PF12708		225	Pectate_lyase_3: Pectate lyase superfamily protein	95.2
PF03718		582	Glyco_hydro_49: Glycosyl hydrolase family 49; Inte	95.17
PLN02304		379	probable pectinesterase	95.03
PLN02682		369	pectinesterase family protein	94.83
PLN02176		340	putative pectinesterase	94.78
PF01095		298	Pectinesterase: Pectinesterase; InterPro: IPR00007	94.66
PLN02170		529	probable pectinesterase/pectinesterase inhibitor	94.66
PRK10531		422	acyl-CoA thioesterase; Provisional	94.58
COG3866		345	PelB Pectate lyase [Carbohydrate transport and met	94.55
PLN02713		566	Probable pectinesterase/pectinesterase inhibitor	94.51
PLN02416		541	probable pectinesterase/pectinesterase inhibitor	94.25
PLN02506		537	putative pectinesterase/pectinesterase inhibitor	94.19
PLN02201		520	probable pectinesterase/pectinesterase inhibitor	94.17
PLN02916		502	pectinesterase family protein	94.17
PLN02301		548	pectinesterase/pectinesterase inhibitor	94.09
PLN02745		596	Putative pectinesterase/pectinesterase inhibitor	93.87
PLN02634		359	probable pectinesterase	93.82
PLN02671		359	pectinesterase	93.7
PLN02488		509	probable pectinesterase/pectinesterase inhibitor	93.69
COG3420		408	NosD Nitrous oxidase accessory protein [Inorganic	93.68
PLN02708		553	Probable pectinesterase/pectinesterase inhibitor	93.67
PLN02217		670	probable pectinesterase/pectinesterase inhibitor	93.49
PLN02933		530	Probable pectinesterase/pectinesterase inhibitor	93.49
PLN02468		565	putative pectinesterase/pectinesterase inhibitor	93.43
PLN02990		572	Probable pectinesterase/pectinesterase inhibitor	93.39
PLN02313		587	Pectinesterase/pectinesterase inhibitor	93.12
PLN02197		588	pectinesterase	93.1
PLN02314		586	pectinesterase	93.05
PLN02497		331	probable pectinesterase	92.94
PLN02665		366	pectinesterase family protein	92.74
PLN03043		538	Probable pectinesterase/pectinesterase inhibitor;	92.33
COG4677		405	PemB Pectin methylesterase [Carbohydrate transport	91.59
PLN02484		587	probable pectinesterase/pectinesterase inhibitor	90.48
PLN02995		539	Probable pectinesterase/pectinesterase inhibitor	90.29
PF01696		386	Adeno_E1B_55K: Adenovirus EB1 55K protein / large	89.52
TIGR03804		44	para_beta_helix parallel beta-helix repeat (two co	89.16

>PLN02188 polygalacturonase/glycoside hydrolase family protein	Back alignment and domain information

Probab=100.00  E-value=1.1e-57  Score=415.67  Aligned_cols=243  Identities=52%  Similarity=0.937  Sum_probs=221.8

Q ss_pred             CeeeeecCccCCCccchHHHHHHHHHHHhhcCCCCcEEEecCCeEE----------------------------------
Q 042417            1 VFNVKDFGAVADGIKDDSKAFETAWREACNWDGIKSAVLVPPGKYL----------------------------------   46 (249)
Q Consensus         1 ~~~v~dfGA~gdg~~ddt~Aiq~Ai~~a~~~~g~g~~v~iP~G~y~----------------------------------   46 (249)
                      ++||+||||+|||.+|||+|||+||++||+..| |++|+||+|+|+                                  
T Consensus        36 ~~nv~d~GA~gDg~tddT~Ai~~Ai~~aC~~~G-gg~V~vP~G~yl~g~i~lkgpc~~~s~v~l~L~~s~d~~~y~~~~~  114 (404)
T PLN02188         36 LFDVRSFGARANGHTDDSKAFMAAWKAACASTG-AVTLLIPPGTYYIGPVQFHGPCTNVSSLTFTLKAATDLSRYGSGND  114 (404)
T ss_pred             EEehhhcCcCCCCCeeCHHHHHHHHHHHhccCC-CeEEEECCCeEEEEeEEeCCCcCcceeEEEEEEcCCCHHHCCCccc
Confidence            489999999999999999999999987898888 899999999998                                  


Q ss_pred             ------------------------------------------EEEEEecCCCceeceeEecccCeEEEEEceeeEEEEee
Q 042417           47 ------------------------------------------SIRFNFLNDSTITGIKSVDSRYFHINILGCYNLKLNDL   84 (249)
Q Consensus        47 ------------------------------------------~i~~~~~~nv~i~gi~i~ns~~~~i~~~~s~nv~I~n~   84 (249)
                                                                +|.|.+|+++.|++++++|||+|++++..|++|+|+++
T Consensus       115 ~i~~~~~~ni~I~G~G~IDG~G~~ww~~~~~~~~~~~~~rP~~i~f~~~~nv~i~gitl~nSp~w~i~~~~~~~v~i~~v  194 (404)
T PLN02188        115 WIEFGWVNGLTLTGGGTFDGQGAAAWPFNKCPIRKDCKLLPTSVKFVNMNNTVVRGITSVNSKFFHIALVECRNFKGSGL  194 (404)
T ss_pred             eEEEeceeeEEEEeeEEEeCCCcccccccccccCCCCCcCceEEEEEeeeeEEEeCeEEEcCCCeEEEEEccccEEEEEE
Confidence                                                      67888999999999999999999999999999999999


Q ss_pred             EEecCCCCCCCcceEecCcccEEEEeeEEecCCCeeEe----------------CcceEEccCCCCCCCCceEeEEEEee
Q 042417           85 KITAHADSPNTEGIHIGSSNGSEISHSVIATGDDCVSL----------------GHGISVGSLGKGINDEEVVGLTVRNC  148 (249)
Q Consensus        85 ~i~~~~~~~n~DGi~~~~s~nv~I~n~~i~~gDD~i~i----------------g~Gi~iGs~g~~~~~~~v~ni~v~n~  148 (249)
                      +|+++.++||+||||+.+|+||+|+||+|.+|||||++                ||||+|||+|++.+.+.|+||+|+||
T Consensus       195 ~I~~~~~spNtDGidi~~s~nV~I~n~~I~~GDDcIaiksg~~nI~I~n~~c~~ghGisiGSlG~~~~~~~V~nV~v~n~  274 (404)
T PLN02188        195 KISAPSDSPNTDGIHIERSSGVYISDSRIGTGDDCISIGQGNSQVTITRIRCGPGHGISVGSLGRYPNEGDVTGLVVRDC  274 (404)
T ss_pred             EEeCCCCCCCCCcEeeeCcccEEEEeeEEeCCCcEEEEccCCccEEEEEEEEcCCCcEEeCCCCCCCcCCcEEEEEEEee
Confidence            99999889999999999999999999999999999999                89999999998877788999999999


Q ss_pred             EEEcc------------------------ceEEecCCccEEEEeeeCCCCCCCcCCCCceeEEeEEEEeEEEEccCC---
Q 042417          149 TFTGT------------------------NIVTNNVENPIVIDQLYCPYNKCNIKVPSQVKTSNVRFNNIRGTSANK---  201 (249)
Q Consensus       149 ~~~~~------------------------nI~~~nv~~~i~i~~~y~~~~~~~~~~~~~~~i~nI~~~ni~g~~~~~---  201 (249)
                      +|.++                        ||+|+|+++||.|+++|++...|....++.+.|+||+|+||+++....   
T Consensus       275 ~~~~t~~GiriKt~~g~~~~G~v~nI~f~ni~m~~v~~pI~i~~~Y~~~~~~~~~~~s~v~I~nIt~~nI~gt~~~~~a~  354 (404)
T PLN02188        275 TFTGTTNGIRIKTWANSPGKSAATNMTFENIVMNNVTNPIIIDQKYCPFYSCESKYPSGVTLSDIYFKNIRGTSSSQVAV  354 (404)
T ss_pred             EEECCCcEEEEEEecCCCCceEEEEEEEEeEEecCccceEEEEccccCCCCCCcCCCCCcEEEeEEEEEEEEEecCceEE
Confidence            99998                        777777889999999998765554334567899999999999988643   


Q ss_pred             -------CceecEEEEeEEEEEcCceeecCCCCCcceeecccCccCCcccCCCCC
Q 042417          202 -------IPCQNIGIGNINWVYNGVNVKVEGPETTSLCSNVKPTLFGKQIPATCV  249 (249)
Q Consensus       202 -------~~~~~i~~~nv~i~~~~g~~~~~~~~~~~~c~n~~~~~~~~~~~~~c~  249 (249)
                             .||++|+|+||+|+.++|.    ++ ..+.|.|++|.+.|.++|.||+
T Consensus       355 ~l~cs~~~pc~ni~~~nV~i~~~~g~----~~-~~~~C~nv~g~~~g~~~p~~C~  404 (404)
T PLN02188        355 LLKCSRGVPCQGVYLQDVHLDLSSGE----GG-TSSSCENVRAKYIGTQIPPPCP  404 (404)
T ss_pred             EEEECCCCCEeeEEEEeeEEEecCCC----CC-cCceeEcceeEEcccCcCCCCC
Confidence                   7899999999999988664    23 5799999999999999999997

>PLN02155 polygalacturonase	Back alignment and domain information

>PLN03003 Probable polygalacturonase At3g15720	Back alignment and domain information

>PLN03010 polygalacturonase	Back alignment and domain information

>PLN02793 Probable polygalacturonase	Back alignment and domain information

>PLN02218 polygalacturonase ADPG	Back alignment and domain information

>PF00295 Glyco_hydro_28: Glycosyl hydrolases family 28; InterPro: IPR000743 O-Glycosyl hydrolases 3	Back alignment and domain information

>COG5434 PGU1 Endopygalactorunase [Cell envelope biogenesis, outer membrane]	Back alignment and domain information

>PF12708 Pectate_lyase_3: Pectate lyase superfamily protein; PDB: 3EQN_A 3EQO_A 2PYG_A 2PYH_A 3SUC_A 3GQ7_A 3GQ9_A 3GQA_A 3GQ8_A 2VBE_A	Back alignment and domain information

>TIGR03808 RR_plus_rpt_1 twin-arg-translocated uncharacterized repeat protein	Back alignment and domain information

>PF00295 Glyco_hydro_28: Glycosyl hydrolases family 28; InterPro: IPR000743 O-Glycosyl hydrolases 3	Back alignment and domain information

>PLN02793 Probable polygalacturonase	Back alignment and domain information

>PLN02218 polygalacturonase ADPG	Back alignment and domain information

>PLN02155 polygalacturonase	Back alignment and domain information

>PLN02188 polygalacturonase/glycoside hydrolase family protein	Back alignment and domain information

>PF03718 Glyco_hydro_49: Glycosyl hydrolase family 49; InterPro: IPR005192 O-Glycosyl hydrolases 3	Back alignment and domain information

>PLN03003 Probable polygalacturonase At3g15720	Back alignment and domain information

>TIGR03805 beta_helix_1 parallel beta-helix repeat-containing protein	Back alignment and domain information

>PLN03010 polygalacturonase	Back alignment and domain information

>COG5434 PGU1 Endopygalactorunase [Cell envelope biogenesis, outer membrane]	Back alignment and domain information

>PF12541 DUF3737: Protein of unknown function (DUF3737) ; InterPro: IPR022208 This family of proteins is found in bacteria, archaea and eukaryotes	Back alignment and domain information

>PRK10123 wcaM putative colanic acid biosynthesis protein; Provisional	Back alignment and domain information

>PF12541 DUF3737: Protein of unknown function (DUF3737) ; InterPro: IPR022208 This family of proteins is found in bacteria, archaea and eukaryotes	Back alignment and domain information

>TIGR03805 beta_helix_1 parallel beta-helix repeat-containing protein	Back alignment and domain information

>COG3866 PelB Pectate lyase [Carbohydrate transport and metabolism]	Back alignment and domain information

>PF05048 NosD: Periplasmic copper-binding protein (NosD); InterPro: IPR007742 Bacterial nitrous oxide (N(2)O) reductase is the terminal oxidoreductase of a respiratory process that generates dinitrogen from N(2)O	Back alignment and domain information

>PF13229 Beta_helix: Right handed beta helix region; PDB: 2INV_C 2INU_C 1RU4_A	Back alignment and domain information

>smart00656 Amb_all Amb_all domain	Back alignment and domain information

>PF07602 DUF1565: Protein of unknown function (DUF1565); InterPro: IPR011459 These proteins share a region of homology in their N termini, and are found in several phylogenetically diverse bacteria and in the archaeon Methanosarcina acetivorans	Back alignment and domain information

>PF14592 Chondroitinas_B: Chondroitinase B; PDB: 1OFM_A 1OFL_A 1DBO_A 1DBG_A	Back alignment and domain information

>smart00656 Amb_all Amb_all domain	Back alignment and domain information

>PF00544 Pec_lyase_C: Pectate lyase; InterPro: IPR002022 Pectate lyase 4	Back alignment and domain information

>PLN02480 Probable pectinesterase	Back alignment and domain information

>PF13229 Beta_helix: Right handed beta helix region; PDB: 2INV_C 2INU_C 1RU4_A	Back alignment and domain information

>PF00544 Pec_lyase_C: Pectate lyase; InterPro: IPR002022 Pectate lyase 4	Back alignment and domain information

>PF05048 NosD: Periplasmic copper-binding protein (NosD); InterPro: IPR007742 Bacterial nitrous oxide (N(2)O) reductase is the terminal oxidoreductase of a respiratory process that generates dinitrogen from N(2)O	Back alignment and domain information

>PLN02432 putative pectinesterase	Back alignment and domain information

>PLN02773 pectinesterase	Back alignment and domain information

>TIGR03808 RR_plus_rpt_1 twin-arg-translocated uncharacterized repeat protein	Back alignment and domain information

>PF12218 End_N_terminal: N terminal extension of bacteriophage endosialidase; InterPro: IPR024429 This entry represents the N-terminal extension domain of endosialidases which is approximately 70 amino acids in length	Back alignment and domain information

>PF12708 Pectate_lyase_3: Pectate lyase superfamily protein; PDB: 3EQN_A 3EQO_A 2PYG_A 2PYH_A 3SUC_A 3GQ7_A 3GQ9_A 3GQA_A 3GQ8_A 2VBE_A	Back alignment and domain information

>PF03718 Glyco_hydro_49: Glycosyl hydrolase family 49; InterPro: IPR005192 O-Glycosyl hydrolases 3	Back alignment and domain information

>PLN02304 probable pectinesterase	Back alignment and domain information

>PLN02682 pectinesterase family protein	Back alignment and domain information

>PLN02176 putative pectinesterase	Back alignment and domain information

>PF01095 Pectinesterase: Pectinesterase; InterPro: IPR000070 Pectinesterase 3	Back alignment and domain information

>PLN02170 probable pectinesterase/pectinesterase inhibitor	Back alignment and domain information

>PRK10531 acyl-CoA thioesterase; Provisional	Back alignment and domain information

>COG3866 PelB Pectate lyase [Carbohydrate transport and metabolism]	Back alignment and domain information

>PLN02713 Probable pectinesterase/pectinesterase inhibitor	Back alignment and domain information

>PLN02416 probable pectinesterase/pectinesterase inhibitor	Back alignment and domain information

>PLN02506 putative pectinesterase/pectinesterase inhibitor	Back alignment and domain information

>PLN02201 probable pectinesterase/pectinesterase inhibitor	Back alignment and domain information

>PLN02916 pectinesterase family protein	Back alignment and domain information

>PLN02301 pectinesterase/pectinesterase inhibitor	Back alignment and domain information

>PLN02745 Putative pectinesterase/pectinesterase inhibitor	Back alignment and domain information

>PLN02634 probable pectinesterase	Back alignment and domain information

>PLN02671 pectinesterase	Back alignment and domain information

>PLN02488 probable pectinesterase/pectinesterase inhibitor	Back alignment and domain information

>COG3420 NosD Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]	Back alignment and domain information

>PLN02708 Probable pectinesterase/pectinesterase inhibitor	Back alignment and domain information

>PLN02217 probable pectinesterase/pectinesterase inhibitor	Back alignment and domain information

>PLN02933 Probable pectinesterase/pectinesterase inhibitor	Back alignment and domain information

>PLN02468 putative pectinesterase/pectinesterase inhibitor	Back alignment and domain information

>PLN02990 Probable pectinesterase/pectinesterase inhibitor	Back alignment and domain information

>PLN02313 Pectinesterase/pectinesterase inhibitor	Back alignment and domain information

>PLN02197 pectinesterase	Back alignment and domain information

>PLN02314 pectinesterase	Back alignment and domain information

>PLN02497 probable pectinesterase	Back alignment and domain information

>PLN02665 pectinesterase family protein	Back alignment and domain information

>PLN03043 Probable pectinesterase/pectinesterase inhibitor; Provisional	Back alignment and domain information

>COG4677 PemB Pectin methylesterase [Carbohydrate transport and metabolism]	Back alignment and domain information

>PLN02484 probable pectinesterase/pectinesterase inhibitor	Back alignment and domain information

>PLN02995 Probable pectinesterase/pectinesterase inhibitor	Back alignment and domain information

>PF01696 Adeno_E1B_55K: Adenovirus EB1 55K protein / large t-antigen; InterPro: IPR002612 This family consists of adenovirus E1B 55 kDa protein or large t-antigen	Back alignment and domain information

>TIGR03804 para_beta_helix parallel beta-helix repeat (two copies)	Back alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Alignment Graph	Length	Definition	E-value
Query		249
1ia5_A		339	Polygalacturonase From Aspergillus Aculeatus Length		4e-04
1bhe_A		376	Polygalacturonase From Erwinia Carotovora Ssp. Caro		7e-04

>pdb|1IA5|A Chain A, Polygalacturonase From Aspergillus Aculeatus Length = 339

Back alignment and structure

Iteration: 1

Score = 41.6 bits (96), Expect = 4e-04, Method: Compositional matrix adjust. Identities = 52/168 (30%), Positives = 78/168 (46%), Gaps = 37/168 (22%) Query: 53 LNDSTITGIKSVDSRYFHINILGCYNLKLNDLKI-TAHAD---SPNTEGIHIGSSNGSEI 108 L +S I+G+K V+S ++ G L L D+ I + D NT+ IG+S I Sbjct: 112 LTNSVISGLKIVNSPVQVFSVAGSDYLTLKDITIDNSDGDDNGGHNTDAFDIGTSTYVTI 171 Query: 109 SHSVIATGDDCVSL---------------GHGISVGSLGKGINDEEVVGLTVRNCTFTGT 153 S + + DDCV++ GHG+S+GS+G G +D TV+N TF + Sbjct: 172 SGATVYNQDDCVAVNSGENIYFSGGYCSGGHGLSIGSVG-GRSDN-----TVKNVTFVDS 225 Query: 154 NIVTNNVENPIVIDQLYCPYNKCNIKVPSQVKTSNVRFNNIRGTSANK 201 I+ N +N + I K NI V S+V + +I TS K Sbjct: 226 TII--NSDNGVRI--------KTNIDTTGSV--SDVTYKDITLTSIAK 261

PyMOL of 1ia5

>pdb|1BHE|A Chain A, Polygalacturonase From Erwinia Carotovora Ssp. Carotovora Length = 376

Back alignment and structure

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Alignment Graph	Length	Definition	E-value
Query		249
1rmg_A		422	Rgase A, rhamnogalacturonase A; hydrolase, inverti	2e-45
1bhe_A		376	PEHA, polygalacturonase; family 28 glycosyl hydrol	6e-45
2iq7_A		339	Endopolygalacturonase; parallel beta helix, hydrol	1e-41
1ia5_A		339	Polygalacturonase; glycosylhydrolase, hydrolase; H	6e-41
1nhc_A		336	Polygalacturonase I; beta-helix, hydrolase; HET: M	3e-39
1czf_A		362	Polygalacturonase II; beta helix, hydrolase; HET:	4e-39
1hg8_A		349	Endopolygalacturonase; hydrolase, pectin degradati	2e-37
1k5c_A		335	Endopolygalacturonase; beta helical structure, gly	5e-35
3jur_A		448	EXO-poly-alpha-D-galacturonosidase; beta-helix, ce	4e-29
3jur_A		448	EXO-poly-alpha-D-galacturonosidase; beta-helix, ce	9e-11
2uvf_A		608	Exopolygalacturonase; GH28, pectin, cell WALL, hyd	6e-27
2uvf_A		608	Exopolygalacturonase; GH28, pectin, cell WALL, hyd	2e-10
1h80_A		464	IOTA-carrageenase; hydrolase, IOTA-carrageenan dou	8e-10
3gqn_A		772	Preneck appendage protein; beta helix, beta barrel	3e-08
1x0c_A		549	Isopullulanase; glycoside hydrolase family 49, gly	2e-07
3gq8_A		609	Preneck appendage protein; beta helix, viral prote	3e-07
2pyg_A		377	Poly(beta-D-mannuronate) C5 epimerase 4; beta-heli	6e-07
2vbk_A		514	Tailspike-protein; viral adhesion protein, viral p	2e-06
3eqn_A		758	Glucan 1,3-beta-glucosidase; tandem beta-helix dom	3e-05

>1rmg_A Rgase A, rhamnogalacturonase A; hydrolase, inverting, parallel beta-helix, glycosidase; HET: NAG BMA MAN GLC; 2.00A {Aspergillus aculeatus} SCOP: b.80.1.3 Length = 422	Back alignment and structure

 Score =  156 bits (396), Expect = 2e-45
 Identities = 40/252 (15%), Positives = 82/252 (32%), Gaps = 64/252 (25%)

Query: 47  SIRFNFLNDSTITGIKSVDSRYFHINILGCYNLKLNDLKITAHADSPNTEGIHIGSSNGS 106
            +R   +   ++  I  VD+  FH  +  C + ++ ++ I    +    +GI +  SN  
Sbjct: 129 ILRLTDVTHFSVHDIILVDAPAFHFTMDTCSDGEVYNMAIRG-GNEGGLDGIDVWGSNIW 187

Query: 107 EISHSVIATGDDCVSL----------------GHGISVGSLGKGINDEEVVGLTVRNCTF 150
            +    +   D+CV++                  G ++GSLG    D +V  +  RN   
Sbjct: 188 -VHDVEVTNKDECVTVKSPANNILVESIYCNWSGGCAMGSLGA---DTDVTDIVYRNVYT 243

Query: 151 TGT---------------------NIVTNNVENPIVIDQLYCPYNKCNIKVPSQVKTSNV 189
             +                     N + +     + ID  +             V+ +N+
Sbjct: 244 WSSNQMYMIKSNGGSGTVSNVLLENFIGHGNAYSLDIDGYWSSMTAVA---GDGVQLNNI 300

Query: 190 RFNNIRGTSANK-------------IPCQNIGIGNINWVYNGVNVKVEGPETTSLCSNVK 236
              N +GT AN               PC ++ + +I            G     LC +  
Sbjct: 301 TVKNWKGTEANGATRPPIRVVCSDTAPCTDLTLEDIAIWTES------GSSELYLCRSAY 354

Query: 237 PTLFGKQIPATC 248
            + +  +  ++ 
Sbjct: 355 GSGYCLKDSSSH 366

PyMOL of 1rmg

>1bhe_A PEHA, polygalacturonase; family 28 glycosyl hydrolase, hydrolyses polygalacturonic acid, glycosidase; 1.90A {Pectobacterium carotovorum subsp} SCOP: b.80.1.3 Length = 376	Back alignment and structure

>2iq7_A Endopolygalacturonase; parallel beta helix, hydrolase; HET: NAG MAN PG4; 1.94A {Colletotrichum lupini} Length = 339	Back alignment and structure

>1ia5_A Polygalacturonase; glycosylhydrolase, hydrolase; HET: MAN NAG; 2.00A {Aspergillus aculeatus} SCOP: b.80.1.3 PDB: 1ib4_A* Length = 339	Back alignment and structure

>1nhc_A Polygalacturonase I; beta-helix, hydrolase; HET: MAN NAG BMA; 1.70A {Aspergillus niger} SCOP: b.80.1.3 Length = 336	Back alignment and structure

>1czf_A Polygalacturonase II; beta helix, hydrolase; HET: NAG; 1.68A {Aspergillus niger} SCOP: b.80.1.3 Length = 362	Back alignment and structure

>1hg8_A Endopolygalacturonase; hydrolase, pectin degradation; HET: NAG; 1.73A {Fusarium moniliforme} SCOP: b.80.1.3 Length = 349	Back alignment and structure

>1k5c_A Endopolygalacturonase; beta helical structure, glycoside hydrolase, silver-LEAF IND substance, hydrolase; HET: NAG; 0.96A {Chondrostereum purpureum} SCOP: b.80.1.3 PDB: 1kcc_A* 1kcd_A* Length = 335	Back alignment and structure

>3jur_A EXO-poly-alpha-D-galacturonosidase; beta-helix, cell WALL biogenesis/degradation, glycosidase; 2.05A {Thermotoga maritima} Length = 448	Back alignment and structure

>3jur_A EXO-poly-alpha-D-galacturonosidase; beta-helix, cell WALL biogenesis/degradation, glycosidase; 2.05A {Thermotoga maritima} Length = 448	Back alignment and structure

>2uvf_A Exopolygalacturonase; GH28, pectin, cell WALL, hydrolase, periplasm, beta-helix, glycosidase, EXO-activity; HET: AD0; 2.1A {Yersinia enterocolitica} PDB: 2uve_A* Length = 608	Back alignment and structure

>2uvf_A Exopolygalacturonase; GH28, pectin, cell WALL, hydrolase, periplasm, beta-helix, glycosidase, EXO-activity; HET: AD0; 2.1A {Yersinia enterocolitica} PDB: 2uve_A* Length = 608	Back alignment and structure

>1h80_A IOTA-carrageenase; hydrolase, IOTA-carrageenan double helix degradation; 1.6A {Alteromonas SP} SCOP: b.80.1.8 PDB: 1ktw_A* 3lmw_A Length = 464	Back alignment and structure

>1x0c_A Isopullulanase; glycoside hydrolase family 49, glycoprotein, hydro; HET: NAG; 1.70A {Aspergillus niger} PDB: 1wmr_A* 2z8g_A* Length = 549	Back alignment and structure

>3gq8_A Preneck appendage protein; beta helix, viral protein; HET: NHE; 2.00A {Bacillus phage PHI29} PDB: 3gq7_A* 3gq9_A* 3gqa_A Length = 609	Back alignment and structure

>2pyg_A Poly(beta-D-mannuronate) C5 epimerase 4; beta-helix, isomerase; 2.10A {Azotobacter vinelandii} PDB: 2pyh_A* Length = 377	Back alignment and structure

>2vbk_A Tailspike-protein; viral adhesion protein, viral protein, hydrolase, endorhamnosidase, right-handed parallel beta-helix; 1.25A {Enterobacteria phage SF6} PDB: 2vbe_A 2vbm_A* Length = 514	Back alignment and structure

>3eqn_A Glucan 1,3-beta-glucosidase; tandem beta-helix domains, glycosidase, hydrolase; HET: NAG BMA; 1.70A {Phanerochaete chrysosporium} PDB: 3eqo_A* Length = 758	Back alignment and structure

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Alignment Graph	Length	Definition	Probability
Query		249
1rmg_A		422	Rgase A, rhamnogalacturonase A; hydrolase, inverti	100.0
3jur_A		448	EXO-poly-alpha-D-galacturonosidase; beta-helix, ce	100.0
1bhe_A		376	PEHA, polygalacturonase; family 28 glycosyl hydrol	100.0
1nhc_A		336	Polygalacturonase I; beta-helix, hydrolase; HET: M	100.0
2iq7_A		339	Endopolygalacturonase; parallel beta helix, hydrol	100.0
1czf_A		362	Polygalacturonase II; beta helix, hydrolase; HET:	100.0
1hg8_A		349	Endopolygalacturonase; hydrolase, pectin degradati	100.0
1ia5_A		339	Polygalacturonase; glycosylhydrolase, hydrolase; H	100.0
2uvf_A		608	Exopolygalacturonase; GH28, pectin, cell WALL, hyd	100.0
1k5c_A		335	Endopolygalacturonase; beta helical structure, gly	100.0
2x6w_A		600	Tail spike protein; viral protein, beta-helix, hyd	100.0
2vbk_A		514	Tailspike-protein; viral adhesion protein, viral p	99.94
1x0c_A		549	Isopullulanase; glycoside hydrolase family 49, gly	99.93
1h80_A		464	IOTA-carrageenase; hydrolase, IOTA-carrageenan dou	99.93
3gq8_A		609	Preneck appendage protein; beta helix, viral prote	99.92
3gqn_A		772	Preneck appendage protein; beta helix, beta barrel	99.92
1ogo_X		574	Dextranase; hydrolase, dextran degradation, glycos	99.91
3eqn_A		758	Glucan 1,3-beta-glucosidase; tandem beta-helix dom	99.82
2pyg_A		377	Poly(beta-D-mannuronate) C5 epimerase 4; beta-heli	99.81
3jur_A		448	EXO-poly-alpha-D-galacturonosidase; beta-helix, ce	99.65
2iq7_A		339	Endopolygalacturonase; parallel beta helix, hydrol	99.39
1bhe_A		376	PEHA, polygalacturonase; family 28 glycosyl hydrol	99.39
2uvf_A		608	Exopolygalacturonase; GH28, pectin, cell WALL, hyd	99.38
1hg8_A		349	Endopolygalacturonase; hydrolase, pectin degradati	99.37
1ia5_A		339	Polygalacturonase; glycosylhydrolase, hydrolase; H	99.33
1nhc_A		336	Polygalacturonase I; beta-helix, hydrolase; HET: M	99.3
1rmg_A		422	Rgase A, rhamnogalacturonase A; hydrolase, inverti	99.28
1czf_A		362	Polygalacturonase II; beta helix, hydrolase; HET:	99.26
1k5c_A		335	Endopolygalacturonase; beta helical structure, gly	99.25
1h80_A		464	IOTA-carrageenase; hydrolase, IOTA-carrageenan dou	99.12
2inu_A		410	Insulin fructotransferase; right-handed parallel b	99.03
3gq8_A		609	Preneck appendage protein; beta helix, viral prote	99.0
3gqn_A		772	Preneck appendage protein; beta helix, beta barrel	98.98
3eqn_A		758	Glucan 1,3-beta-glucosidase; tandem beta-helix dom	98.93
1ogo_X		574	Dextranase; hydrolase, dextran degradation, glycos	98.66
1x0c_A		549	Isopullulanase; glycoside hydrolase family 49, gly	98.6
2x6w_A		600	Tail spike protein; viral protein, beta-helix, hyd	98.37
2pyg_A		377	Poly(beta-D-mannuronate) C5 epimerase 4; beta-heli	98.24
1pcl_A		355	Pectate lyase E; lyase (acting on polysaccharides)	97.98
3zsc_A		340	Pectate trisaccharide-lyase; hydrolase; HET: ADA A	97.96
1ru4_A		400	Pectate lyase, PEL9A; parallel beta-helix; 1.60A {	97.89
2qy1_A		330	Pectate lyase II; GAG lyase; 1.90A {Xanthomonas ca	97.89
1pxz_A		346	Major pollen allergen JUN A 1; parallel beta-helix	97.82
1idk_A		359	Pectin lyase A; signal, glycoprotein, multigene fa	97.75
2o04_A		399	Pectate lyase, PL; hexasaccharide compound II, cal	97.68
1qcx_A		359	Pectin lyase B; beta-helix protein, plant cell WAL	97.58
1air_A		353	Pectate lyase C, PELC; pectate cleavage, pectinoly	97.58
3vmv_A		326	Pectate lyase; polysaccharide lyase family 1, beta	97.55
1pe9_A		361	Pectate lyase A; parallel beta helix; 1.60A {Erwin	97.3
1xg2_A		317	Pectinesterase 1; protein-protein complex, beta he	97.28
1gq8_A		319	Pectinesterase; hydrolase, carboxylic ester hydrol	97.26
2x3h_A		542	K5 lyase, K5A lyase; bacteriophage, glycosaminogly	97.19
1vbl_A		416	Pectate lyase 47; PL 47, thermostable, bacillus su	97.16
1pcl_A		355	Pectate lyase E; lyase (acting on polysaccharides)	97.14
1pxz_A		346	Major pollen allergen JUN A 1; parallel beta-helix	97.09
1dbg_A		506	Chondroitinase B; beta helix, polysaccharide lyase	97.08
3uw0_A		364	Pectinesterase; right-handed beta-helix, carbohydr	97.04
1air_A		353	Pectate lyase C, PELC; pectate cleavage, pectinoly	96.9
3zsc_A		340	Pectate trisaccharide-lyase; hydrolase; HET: ADA A	96.87
2nsp_A		342	Pectinesterase A; michaelis complex, hydrolase; HE	96.72
1vbl_A		416	Pectate lyase 47; PL 47, thermostable, bacillus su	96.58
2qy1_A		330	Pectate lyase II; GAG lyase; 1.90A {Xanthomonas ca	96.58
1idk_A		359	Pectin lyase A; signal, glycoprotein, multigene fa	96.43
3vmv_A		326	Pectate lyase; polysaccharide lyase family 1, beta	96.17
2o04_A		399	Pectate lyase, PL; hexasaccharide compound II, cal	95.96
1qcx_A		359	Pectin lyase B; beta-helix protein, plant cell WAL	95.94
1pe9_A		361	Pectate lyase A; parallel beta helix; 1.60A {Erwin	95.36
3grh_A		422	YBHC, acyl-COA thioester hydrolase YBGC; beta-heli	93.8
2vbk_A		514	Tailspike-protein; viral adhesion protein, viral p	92.78
2inu_A		410	Insulin fructotransferase; right-handed parallel b	91.46
3t9g_A		196	Pectate lyase; PL3, parallel beta-helix; HET: GOL;	89.71
3t9g_A		196	Pectate lyase; PL3, parallel beta-helix; HET: GOL;	88.42
3ju4_A		670	Endo-N-acetylneuraminidase; endonf, polysia, high-	85.63
1ru4_A		400	Pectate lyase, PEL9A; parallel beta-helix; 1.60A {	83.65
1dbg_A		506	Chondroitinase B; beta helix, polysaccharide lyase	80.71
2nsp_A		342	Pectinesterase A; michaelis complex, hydrolase; HE	80.43

>1rmg_A Rgase A, rhamnogalacturonase A; hydrolase, inverting, parallel beta-helix, glycosidase; HET: NAG BMA MAN GLC; 2.00A {Aspergillus aculeatus} SCOP: b.80.1.3	Back alignment and structure

Probab=100.00  E-value=2.7e-45  Score=337.24  Aligned_cols=220  Identities=24%  Similarity=0.441  Sum_probs=193.0

Q ss_pred             CeeeeecCccCCCccchHHHHHHHHHHHhhcCCCCcEEEecCCeEE----------------------------------
Q 042417            1 VFNVKDFGAVADGIKDDSKAFETAWREACNWDGIKSAVLVPPGKYL----------------------------------   46 (249)
Q Consensus         1 ~~~v~dfGA~gdg~~ddt~Aiq~Ai~~a~~~~g~g~~v~iP~G~y~----------------------------------   46 (249)
                      +++|+||||++||++|||+|||+|| ++|+  + +++|+||+|+|+                                  
T Consensus        20 ~~~V~~~GA~~dg~tddT~Aiq~Ai-~ac~--~-g~~V~vP~G~Yli~~~l~l~g~s~v~l~l~G~~l~~~~~~~~~~~~   95 (422)
T 1rmg_A           20 TCNILSYGAVADNSTDVGPAITSAW-AACK--S-GGLVYIPSGNYALNTWVTLTGGSATAIQLDGIIYRTGTASGNMIAV   95 (422)
T ss_dssp             EEEGGGGTCCCSSSSBCHHHHHHHH-HHHT--B-TCEEEECSSEEEECSCEEEESCEEEEEEECSEEEECCCCSSEEEEE
T ss_pred             EEEeeeccccCCCCcccHHHHHHHH-HHCC--C-CCEEEECCCeEEeCCceeecCCCeEEEEEcCcEEcccCCCCceEEE
Confidence            4799999999999999999999999 4785  3 679999999998                                  


Q ss_pred             ---------------------------------EEEEEecCCCceeceeEecccCeEEEEEceeeEEEEeeEEecCCCCC
Q 042417           47 ---------------------------------SIRFNFLNDSTITGIKSVDSRYFHINILGCYNLKLNDLKITAHADSP   93 (249)
Q Consensus        47 ---------------------------------~i~~~~~~nv~i~gi~i~ns~~~~i~~~~s~nv~I~n~~i~~~~~~~   93 (249)
                                                       +|+|.+|+|++|++++|+|+++|++++..|+|++|+|++|++ .+++
T Consensus        96 ~~~~~~~~i~i~G~G~IdG~G~~~w~~~~~rp~~i~~~~~~nv~I~~iti~nsp~~~i~i~~~~nv~I~n~~I~~-~d~~  174 (422)
T 1rmg_A           96 TDTTDFELFSSTSKGAVQGFGYVYHAEGTYGARILRLTDVTHFSVHDIILVDAPAFHFTMDTCSDGEVYNMAIRG-GNEG  174 (422)
T ss_dssp             EEEEEEEEECSSSCCEEECCTHHHHTTTCCCCEEEEEEEEEEEEEEEEEEECCSSCSEEEEEEEEEEEEEEEEEC-CSST
T ss_pred             EecCceeEEeeccCEEEECCcchhhcCCCCCceEEEEcccceEEEECeEEECCCceEEEEeCcCCEEEEeEEEEC-CCCC
Confidence                                             456677899999999999999999999999999999999999 5568


Q ss_pred             CCcceEecCcccEEEEeeEEecCCCeeEe----------------CcceEEccCCCCCCCCceEeEEEEeeEEEcc----
Q 042417           94 NTEGIHIGSSNGSEISHSVIATGDDCVSL----------------GHGISVGSLGKGINDEEVVGLTVRNCTFTGT----  153 (249)
Q Consensus        94 n~DGi~~~~s~nv~I~n~~i~~gDD~i~i----------------g~Gi~iGs~g~~~~~~~v~ni~v~n~~~~~~----  153 (249)
                      |+||||+.+ +||+|+||+|.++||||++                +|||+|||+|.+   +.|+||+|+||+|.++    
T Consensus       175 ntDGidi~~-~nV~I~n~~i~~gDD~Iai~s~~~nI~I~n~~~~~~~GisIGS~g~~---~~v~nV~v~n~~~~~~~~Gi  250 (422)
T 1rmg_A          175 GLDGIDVWG-SNIWVHDVEVTNKDECVTVKSPANNILVESIYCNWSGGCAMGSLGAD---TDVTDIVYRNVYTWSSNQMY  250 (422)
T ss_dssp             TCCSEEEEE-EEEEEEEEEEESSSEEEEEEEEEEEEEEEEEEEESSSEEEEEEECTT---EEEEEEEEEEEEEESSSCSE
T ss_pred             CCccEeecC-CeEEEEeeEEeCCCCeEEeCCCCcCEEEEeEEEcCCcceeecccCCC---CcEEEEEEEeEEEeccceEE
Confidence            999999999 9999999999999999999                789999999643   4799999999999987    


Q ss_pred             -----------------ceEEecCCccEEEEeeeCCCCCCCcCCCCceeEEeEEEEeEEEEccC-----C--------Cc
Q 042417          154 -----------------NIVTNNVENPIVIDQLYCPYNKCNIKVPSQVKTSNVRFNNIRGTSAN-----K--------IP  203 (249)
Q Consensus       154 -----------------nI~~~nv~~~i~i~~~y~~~~~~~~~~~~~~~i~nI~~~ni~g~~~~-----~--------~~  203 (249)
                                       ||+|++++++|.|+++|+....   .....+.|+||+|+||+++...     .        .|
T Consensus       251 ~Ikt~~g~G~v~nI~~~NI~~~~v~~~i~i~~~y~~~~~---~~~~~~~i~nI~~~nI~gt~~~g~~~~~i~i~~~~~~~  327 (422)
T 1rmg_A          251 MIKSNGGSGTVSNVLLENFIGHGNAYSLDIDGYWSSMTA---VAGDGVQLNNITVKNWKGTEANGATRPPIRVVCSDTAP  327 (422)
T ss_dssp             EEEEBBCCEEEEEEEEEEEEEEEESCSEEEETBCTTSCC---BSSSCCEEEEEEEEEEEEEESCTTTSCSEEEECBTTBC
T ss_pred             EEEecCCCcEEEEEEEEeEEEECccccEEEEeeccCCCc---ccCCCceEEEEEEEeEEEEecccccceeEEEEeCCCCc
Confidence                             6666667889999999976432   2345689999999999999742     1        68


Q ss_pred             eecEEEEeEEEEEcCceeecCCCCCcceeecccCc
Q 042417          204 CQNIGIGNINWVYNGVNVKVEGPETTSLCSNVKPT  238 (249)
Q Consensus       204 ~~~i~~~nv~i~~~~g~~~~~~~~~~~~c~n~~~~  238 (249)
                      |++|+|+||+|+.+.|+     + ..+.|+|++|.
T Consensus       328 ~~ni~l~nv~i~~~~g~-----~-~~~~C~n~~g~  356 (422)
T 1rmg_A          328 CTDLTLEDIAIWTESGS-----S-ELYLCRSAYGS  356 (422)
T ss_dssp             EEEEEEEEEEEEESSSS-----C-EEEEEESEEEE
T ss_pred             EeeEEEEeEEEEcCCCC-----c-cceEEECCCcc
Confidence            99999999999998875     4 67999999875

PyMOL of 1rmg

>3jur_A EXO-poly-alpha-D-galacturonosidase; beta-helix, cell WALL biogenesis/degradation, glycosidase; 2.05A {Thermotoga maritima}	Back alignment and structure

>1bhe_A PEHA, polygalacturonase; family 28 glycosyl hydrolase, hydrolyses polygalacturonic acid, glycosidase; 1.90A {Pectobacterium carotovorum subsp} SCOP: b.80.1.3	Back alignment and structure

>1nhc_A Polygalacturonase I; beta-helix, hydrolase; HET: MAN NAG BMA; 1.70A {Aspergillus niger} SCOP: b.80.1.3	Back alignment and structure

>2iq7_A Endopolygalacturonase; parallel beta helix, hydrolase; HET: NAG MAN PG4; 1.94A {Colletotrichum lupini}	Back alignment and structure

>1czf_A Polygalacturonase II; beta helix, hydrolase; HET: NAG; 1.68A {Aspergillus niger} SCOP: b.80.1.3	Back alignment and structure

>1hg8_A Endopolygalacturonase; hydrolase, pectin degradation; HET: NAG; 1.73A {Fusarium moniliforme} SCOP: b.80.1.3	Back alignment and structure

>1ia5_A Polygalacturonase; glycosylhydrolase, hydrolase; HET: MAN NAG; 2.00A {Aspergillus aculeatus} SCOP: b.80.1.3 PDB: 1ib4_A*	Back alignment and structure

>2uvf_A Exopolygalacturonase; GH28, pectin, cell WALL, hydrolase, periplasm, beta-helix, glycosidase, EXO-activity; HET: AD0; 2.1A {Yersinia enterocolitica} PDB: 2uve_A*	Back alignment and structure

>1k5c_A Endopolygalacturonase; beta helical structure, glycoside hydrolase, silver-LEAF IND substance, hydrolase; HET: NAG; 0.96A {Chondrostereum purpureum} SCOP: b.80.1.3 PDB: 1kcc_A* 1kcd_A*	Back alignment and structure

>2x6w_A Tail spike protein; viral protein, beta-helix, hydrolase; HET: RAM GLC GLA NAG NDG; 1.35A {Enterobacteria phage HK620} PDB: 2vji_A 2vjj_A* 2x85_A* 2x6x_A* 2x6y_A*	Back alignment and structure

>2vbk_A Tailspike-protein; viral adhesion protein, viral protein, hydrolase, endorhamnosidase, right-handed parallel beta-helix; 1.25A {Enterobacteria phage SF6} PDB: 2vbe_A 2vbm_A*	Back alignment and structure

>1x0c_A Isopullulanase; glycoside hydrolase family 49, glycoprotein, hydro; HET: NAG; 1.70A {Aspergillus niger} PDB: 1wmr_A* 2z8g_A*	Back alignment and structure

>1h80_A IOTA-carrageenase; hydrolase, IOTA-carrageenan double helix degradation; 1.6A {Alteromonas SP} SCOP: b.80.1.8 PDB: 1ktw_A* 3lmw_A	Back alignment and structure

>3gq8_A Preneck appendage protein; beta helix, viral protein; HET: NHE; 2.00A {Bacillus phage PHI29} PDB: 3gq7_A* 3gq9_A* 3gqa_A	Back alignment and structure

>1ogo_X Dextranase; hydrolase, dextran degradation, glycosidase; HET: BGC GLC; 1.65A {Penicillium minioluteum} SCOP: b.133.1.1 b.80.1.10 PDB: 1ogm_X*	Back alignment and structure

>3eqn_A Glucan 1,3-beta-glucosidase; tandem beta-helix domains, glycosidase, hydrolase; HET: NAG BMA; 1.70A {Phanerochaete chrysosporium} PDB: 3eqo_A*	Back alignment and structure

>2pyg_A Poly(beta-D-mannuronate) C5 epimerase 4; beta-helix, isomerase; 2.10A {Azotobacter vinelandii} PDB: 2pyh_A*	Back alignment and structure

>3jur_A EXO-poly-alpha-D-galacturonosidase; beta-helix, cell WALL biogenesis/degradation, glycosidase; 2.05A {Thermotoga maritima}	Back alignment and structure

>2iq7_A Endopolygalacturonase; parallel beta helix, hydrolase; HET: NAG MAN PG4; 1.94A {Colletotrichum lupini}	Back alignment and structure

>1bhe_A PEHA, polygalacturonase; family 28 glycosyl hydrolase, hydrolyses polygalacturonic acid, glycosidase; 1.90A {Pectobacterium carotovorum subsp} SCOP: b.80.1.3	Back alignment and structure

>2uvf_A Exopolygalacturonase; GH28, pectin, cell WALL, hydrolase, periplasm, beta-helix, glycosidase, EXO-activity; HET: AD0; 2.1A {Yersinia enterocolitica} PDB: 2uve_A*	Back alignment and structure

>1hg8_A Endopolygalacturonase; hydrolase, pectin degradation; HET: NAG; 1.73A {Fusarium moniliforme} SCOP: b.80.1.3	Back alignment and structure

>1ia5_A Polygalacturonase; glycosylhydrolase, hydrolase; HET: MAN NAG; 2.00A {Aspergillus aculeatus} SCOP: b.80.1.3 PDB: 1ib4_A*	Back alignment and structure

>1nhc_A Polygalacturonase I; beta-helix, hydrolase; HET: MAN NAG BMA; 1.70A {Aspergillus niger} SCOP: b.80.1.3	Back alignment and structure

>1rmg_A Rgase A, rhamnogalacturonase A; hydrolase, inverting, parallel beta-helix, glycosidase; HET: NAG BMA MAN GLC; 2.00A {Aspergillus aculeatus} SCOP: b.80.1.3	Back alignment and structure

>1czf_A Polygalacturonase II; beta helix, hydrolase; HET: NAG; 1.68A {Aspergillus niger} SCOP: b.80.1.3	Back alignment and structure

>1k5c_A Endopolygalacturonase; beta helical structure, glycoside hydrolase, silver-LEAF IND substance, hydrolase; HET: NAG; 0.96A {Chondrostereum purpureum} SCOP: b.80.1.3 PDB: 1kcc_A* 1kcd_A*	Back alignment and structure

>1h80_A IOTA-carrageenase; hydrolase, IOTA-carrageenan double helix degradation; 1.6A {Alteromonas SP} SCOP: b.80.1.8 PDB: 1ktw_A* 3lmw_A	Back alignment and structure

>2inu_A Insulin fructotransferase; right-handed parallel beta-helix, lyase; 1.80A {Bacillus SP} PDB: 2inv_A*	Back alignment and structure

>3gq8_A Preneck appendage protein; beta helix, viral protein; HET: NHE; 2.00A {Bacillus phage PHI29} PDB: 3gq7_A* 3gq9_A* 3gqa_A	Back alignment and structure

>3eqn_A Glucan 1,3-beta-glucosidase; tandem beta-helix domains, glycosidase, hydrolase; HET: NAG BMA; 1.70A {Phanerochaete chrysosporium} PDB: 3eqo_A*	Back alignment and structure

>1ogo_X Dextranase; hydrolase, dextran degradation, glycosidase; HET: BGC GLC; 1.65A {Penicillium minioluteum} SCOP: b.133.1.1 b.80.1.10 PDB: 1ogm_X*	Back alignment and structure

>1x0c_A Isopullulanase; glycoside hydrolase family 49, glycoprotein, hydro; HET: NAG; 1.70A {Aspergillus niger} PDB: 1wmr_A* 2z8g_A*	Back alignment and structure

>2x6w_A Tail spike protein; viral protein, beta-helix, hydrolase; HET: RAM GLC GLA NAG NDG; 1.35A {Enterobacteria phage HK620} PDB: 2vji_A 2vjj_A* 2x85_A* 2x6x_A* 2x6y_A*	Back alignment and structure

>2pyg_A Poly(beta-D-mannuronate) C5 epimerase 4; beta-helix, isomerase; 2.10A {Azotobacter vinelandii} PDB: 2pyh_A*	Back alignment and structure

>1pcl_A Pectate lyase E; lyase (acting on polysaccharides); 2.20A {Erwinia chrysanthemi} SCOP: b.80.1.1	Back alignment and structure

>3zsc_A Pectate trisaccharide-lyase; hydrolase; HET: ADA AQA; 1.94A {Thermotoga maritima}	Back alignment and structure

>1ru4_A Pectate lyase, PEL9A; parallel beta-helix; 1.60A {Erwinia chrysanthemi} SCOP: b.80.1.9	Back alignment and structure

>2qy1_A Pectate lyase II; GAG lyase; 1.90A {Xanthomonas campestris PV} PDB: 2qxz_A 2qx3_A	Back alignment and structure

>1pxz_A Major pollen allergen JUN A 1; parallel beta-helix, cedar pollen; 1.70A {Juniperus ashei} SCOP: b.80.1.1	Back alignment and structure

>1idk_A Pectin lyase A; signal, glycoprotein, multigene family; 1.93A {Aspergillus niger} SCOP: b.80.1.2 PDB: 1idj_A	Back alignment and structure

>2o04_A Pectate lyase, PL; hexasaccharide compound II, calciums; HET: ADA; 1.70A {Bacillus subtilis} PDB: 2nzm_A* 2o0v_A* 2o0w_A 2o17_A* 2o1d_A* 2bsp_A 1bn8_A 3krg_A*	Back alignment and structure

>1qcx_A Pectin lyase B; beta-helix protein, plant cell WALL; 1.70A {Aspergillus niger} SCOP: b.80.1.2	Back alignment and structure

>1air_A Pectate lyase C, PELC; pectate cleavage, pectinolyitc activity, trans-elimination; 2.20A {Erwinia chrysanthemi} SCOP: b.80.1.1 PDB: 1o88_A 1o8d_A 1o8e_A 1o8f_A 1o8g_A 1o8h_A 1o8i_A 1o8j_A 1o8k_A 1o8l_A 1o8m_A 1plu_A 2pec_A 2ewe_A*	Back alignment and structure

>3vmv_A Pectate lyase; polysaccharide lyase family 1, beta-helix, pectolytic, polygalacturonate; 1.54A {Bacillus} PDB: 3vmw_A*	Back alignment and structure

>1pe9_A Pectate lyase A; parallel beta helix; 1.60A {Erwinia chrysanthemi} SCOP: b.80.1.1 PDB: 1ooc_A 1jta_A 1jrg_A	Back alignment and structure

>1xg2_A Pectinesterase 1; protein-protein complex, beta helix,four helix bundle, hydrolase/hydrolase inhibitor complex; 1.90A {Solanum lycopersicum}	Back alignment and structure

>1gq8_A Pectinesterase; hydrolase, carboxylic ester hydrolase; 1.75A {Daucus carota} SCOP: b.80.1.5	Back alignment and structure

>2x3h_A K5 lyase, K5A lyase; bacteriophage, glycosaminoglycan; 1.60A {Enterobacteria phage k1-5}	Back alignment and structure

>1vbl_A Pectate lyase 47; PL 47, thermostable, bacillus subtilis, pectin, calcium ION; 1.91A {Bacillus SP}	Back alignment and structure

>1pcl_A Pectate lyase E; lyase (acting on polysaccharides); 2.20A {Erwinia chrysanthemi} SCOP: b.80.1.1	Back alignment and structure

>1pxz_A Major pollen allergen JUN A 1; parallel beta-helix, cedar pollen; 1.70A {Juniperus ashei} SCOP: b.80.1.1	Back alignment and structure

>1dbg_A Chondroitinase B; beta helix, polysaccharide lyase, dematan sulfate; HET: MAN RAM GCU MXY G4D BGC; 1.70A {Pedobacter heparinus} SCOP: b.80.1.4 PDB: 1dbo_A* 1ofl_A* 1ofm_A*	Back alignment and structure

>3uw0_A Pectinesterase; right-handed beta-helix, carbohydrate esterase, hydrolase; 3.50A {Yersinia enterocolitica subsp}	Back alignment and structure

>1air_A Pectate lyase C, PELC; pectate cleavage, pectinolyitc activity, trans-elimination; 2.20A {Erwinia chrysanthemi} SCOP: b.80.1.1 PDB: 1o88_A 1o8d_A 1o8e_A 1o8f_A 1o8g_A 1o8h_A 1o8i_A 1o8j_A 1o8k_A 1o8l_A 1o8m_A 1plu_A 2pec_A 2ewe_A*	Back alignment and structure

>3zsc_A Pectate trisaccharide-lyase; hydrolase; HET: ADA AQA; 1.94A {Thermotoga maritima}	Back alignment and structure

>2nsp_A Pectinesterase A; michaelis complex, hydrolase; HET: M8C ADA; 1.70A {Erwinia chrysanthemi} PDB: 2nst_A* 2nt6_A* 2nt9_A* 2ntp_A* 2ntb_A* 2ntq_A* 1qjv_A	Back alignment and structure

>1vbl_A Pectate lyase 47; PL 47, thermostable, bacillus subtilis, pectin, calcium ION; 1.91A {Bacillus SP}	Back alignment and structure

>2qy1_A Pectate lyase II; GAG lyase; 1.90A {Xanthomonas campestris PV} PDB: 2qxz_A 2qx3_A	Back alignment and structure

>1idk_A Pectin lyase A; signal, glycoprotein, multigene family; 1.93A {Aspergillus niger} SCOP: b.80.1.2 PDB: 1idj_A	Back alignment and structure

>3vmv_A Pectate lyase; polysaccharide lyase family 1, beta-helix, pectolytic, polygalacturonate; 1.54A {Bacillus} PDB: 3vmw_A*	Back alignment and structure

>2o04_A Pectate lyase, PL; hexasaccharide compound II, calciums; HET: ADA; 1.70A {Bacillus subtilis} PDB: 2nzm_A* 2o0v_A* 2o0w_A 2o17_A* 2o1d_A* 2bsp_A 1bn8_A 3krg_A*	Back alignment and structure

>1qcx_A Pectin lyase B; beta-helix protein, plant cell WALL; 1.70A {Aspergillus niger} SCOP: b.80.1.2	Back alignment and structure

>1pe9_A Pectate lyase A; parallel beta helix; 1.60A {Erwinia chrysanthemi} SCOP: b.80.1.1 PDB: 1ooc_A 1jta_A 1jrg_A	Back alignment and structure

>3grh_A YBHC, acyl-COA thioester hydrolase YBGC; beta-helix, periplasmic, lipoprotein, outer membrane, carbohydrate esterase family 8; 1.70A {Escherichia coli k-12}	Back alignment and structure

>2vbk_A Tailspike-protein; viral adhesion protein, viral protein, hydrolase, endorhamnosidase, right-handed parallel beta-helix; 1.25A {Enterobacteria phage SF6} PDB: 2vbe_A 2vbm_A*	Back alignment and structure

>2inu_A Insulin fructotransferase; right-handed parallel beta-helix, lyase; 1.80A {Bacillus SP} PDB: 2inv_A*	Back alignment and structure

>3t9g_A Pectate lyase; PL3, parallel beta-helix; HET: GOL; 1.50A {Caldicellulosiruptor bescii}	Back alignment and structure

>3t9g_A Pectate lyase; PL3, parallel beta-helix; HET: GOL; 1.50A {Caldicellulosiruptor bescii}	Back alignment and structure

>3ju4_A Endo-N-acetylneuraminidase; endonf, polysia, high-resolution, glycosidase, hydrolase; HET: SLB; 0.98A {Enterobacteria phage K1F} PDB: 3gvl_A* 3gvj_A* 3gvk_A* 1v0e_A 1v0f_A*	Back alignment and structure

>1ru4_A Pectate lyase, PEL9A; parallel beta-helix; 1.60A {Erwinia chrysanthemi} SCOP: b.80.1.9	Back alignment and structure

>1dbg_A Chondroitinase B; beta helix, polysaccharide lyase, dematan sulfate; HET: MAN RAM GCU MXY G4D BGC; 1.70A {Pedobacter heparinus} SCOP: b.80.1.4 PDB: 1dbo_A* 1ofl_A* 1ofm_A*	Back alignment and structure

>2nsp_A Pectinesterase A; michaelis complex, hydrolase; HET: M8C ADA; 1.70A {Erwinia chrysanthemi} PDB: 2nst_A* 2nt6_A* 2nt9_A* 2ntp_A* 2ntb_A* 2ntq_A* 1qjv_A	Back alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Alignment Graph	Length	Definition	E-value
Query		249
d1ia5a_		339	b.80.1.3 (A:) Polygalacturonase {Fungus (Aspergill	5e-27
d1rmga_		422	b.80.1.3 (A:) Rhamnogalacturonase A {Aspergillus a	1e-26
d1czfa_		335	b.80.1.3 (A:) Polygalacturonase {Fungus (Aspergill	9e-23
d1ogmx2		373	b.80.1.10 (X:202-574) Dextranase, catalytic domain	1e-22
d1ogmx2		373	b.80.1.10 (X:202-574) Dextranase, catalytic domain	0.002
d1k5ca_		333	b.80.1.3 (A:) Polygalacturonase {Fungus (Stereum p	1e-21
d1nhca_		336	b.80.1.3 (A:) Polygalacturonase {Fungus (Aspergill	2e-20
d1hg8a_		349	b.80.1.3 (A:) Polygalacturonase {Fusarium monilifo	4e-19
d1bhea_		376	b.80.1.3 (A:) Polygalacturonase {Erwinia carotovor	2e-17

>d1ia5a_ b.80.1.3 (A:) Polygalacturonase {Fungus (Aspergillus aculeatus) [TaxId: 5053]} Length = 339	Back information, alignment and structure


class: All beta proteins
fold: Single-stranded right-handed beta-helix
superfamily: Pectin lyase-like
family: Galacturonase
domain: Polygalacturonase
species: Fungus (Aspergillus aculeatus) [TaxId: 5053]

 Score =  104 bits (260), Expect = 5e-27
 Identities = 52/236 (22%), Positives = 92/236 (38%), Gaps = 55/236 (23%)

Query: 48  IRFNFLNDSTITGIKSVDSRYFHINILGCYNLKLNDLKITAHA----DSPNTEGIHIGSS 103
              + L +S I+G+K V+S     ++ G   L L D+ I           NT+   IG+S
Sbjct: 107 FAAHSLTNSVISGLKIVNSPVQVFSVAGSDYLTLKDITIDNSDGDDNGGHNTDAFDIGTS 166

Query: 104 NGSEISHSVIATGDDCVSLG---------------HGISVGSLGKGINDEEVVGLTVRNC 148
               IS + +   DDCV++                HG+S+GS+G G +D  V  +T  + 
Sbjct: 167 TYVTISGATVYNQDDCVAVNSGENIYFSGGYCSGGHGLSIGSVG-GRSDNTVKNVTFVDS 225

Query: 149 TFTGTN-----------------------IVTNNVENPIVIDQLYCPYNKCNIKVPSQVK 185
           T   ++                        +T+  +  IV+ Q Y   +       + V 
Sbjct: 226 TIINSDNGVRIKTNIDTTGSVSDVTYKDITLTSIAKYGIVVQQNYGDTSSTP---TTGVP 282

Query: 186 TSNVRFNNIRGTSANKIP-----CQNIGIGNINWVYNGVNVKVEGPETTSLCSNVK 236
            ++   +N+ G+  +        C +    +  W     +V V G +T+S C+NV 
Sbjct: 283 ITDFVLDNVHGSVVSSGTNILISCGSGSCSDWTW----TDVSVSGGKTSSKCTNVP 334

PyMOL of d1ia5a_

>d1rmga_ b.80.1.3 (A:) Rhamnogalacturonase A {Aspergillus aculeatus [TaxId: 5053]} Length = 422	Back information, alignment and structure

>d1czfa_ b.80.1.3 (A:) Polygalacturonase {Fungus (Aspergillus niger), endo-polygalacturonase II [TaxId: 5061]} Length = 335	Back information, alignment and structure

>d1ogmx2 b.80.1.10 (X:202-574) Dextranase, catalytic domain {Penicillium minioluteum [TaxId: 28574]} Length = 373	Back information, alignment and structure

>d1ogmx2 b.80.1.10 (X:202-574) Dextranase, catalytic domain {Penicillium minioluteum [TaxId: 28574]} Length = 373	Back information, alignment and structure

>d1k5ca_ b.80.1.3 (A:) Polygalacturonase {Fungus (Stereum purpureum), endo-polygalacturonase I [TaxId: 58369]} Length = 333	Back information, alignment and structure

>d1nhca_ b.80.1.3 (A:) Polygalacturonase {Fungus (Aspergillus niger), endo-polygalacturonase I [TaxId: 5061]} Length = 336	Back information, alignment and structure

>d1hg8a_ b.80.1.3 (A:) Polygalacturonase {Fusarium moniliforme [TaxId: 117187]} Length = 349	Back information, alignment and structure

>d1bhea_ b.80.1.3 (A:) Polygalacturonase {Erwinia carotovora, subsp. carotovora [TaxId: 554]} Length = 376	Back information, alignment and structure

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Alignment Graph	Length	Definition	Probability
Query		249
d1rmga_		422	Rhamnogalacturonase A {Aspergillus aculeatus [TaxI	100.0
d1czfa_		335	Polygalacturonase {Fungus (Aspergillus niger), end	100.0
d1ia5a_		339	Polygalacturonase {Fungus (Aspergillus aculeatus)	100.0
d1nhca_		336	Polygalacturonase {Fungus (Aspergillus niger), end	100.0
d1hg8a_		349	Polygalacturonase {Fusarium moniliforme [TaxId: 11	100.0
d1bhea_		376	Polygalacturonase {Erwinia carotovora, subsp. caro	100.0
d1k5ca_		333	Polygalacturonase {Fungus (Stereum purpureum), end	100.0
d1ogmx2		373	Dextranase, catalytic domain {Penicillium miniolut	100.0
d1ia5a_		339	Polygalacturonase {Fungus (Aspergillus aculeatus)	99.46
d1hg8a_		349	Polygalacturonase {Fusarium moniliforme [TaxId: 11	99.44
d1bhea_		376	Polygalacturonase {Erwinia carotovora, subsp. caro	99.39
d1czfa_		335	Polygalacturonase {Fungus (Aspergillus niger), end	99.34
d1nhca_		336	Polygalacturonase {Fungus (Aspergillus niger), end	99.25
d1k5ca_		333	Polygalacturonase {Fungus (Stereum purpureum), end	99.08
d1rmga_		422	Rhamnogalacturonase A {Aspergillus aculeatus [TaxI	99.08
d1h80a_		464	iota-carrageenase {Alteromonas sp., atcc 43554 [Ta	98.98
d1ogmx2		373	Dextranase, catalytic domain {Penicillium miniolut	98.67
d1o88a_		353	Pectate lyase {Erwinia chrysanthemi, type C [TaxId	98.03
d1ofla_		481	Chondroitinase B {Pedobacter heparinus [TaxId: 984	97.73
d1idka_		359	Pectin lyase {Aspergillus niger, type A [TaxId: 50	97.6
d1pxza_		346	Major pollen allergen Jun a 1 {Ozark white cedar (	97.24
d1qcxa_		359	Pectin lyase {Aspergillus niger, type B [TaxId: 50	97.23
d1ru4a_		400	Pectate transeliminase {Erwinia chrysanthemi [TaxI	96.67
d1bn8a_		399	Pectate lyase {Bacillus subtilis [TaxId: 1423]}	96.61
d1pcla_		355	Pectate lyase {Erwinia chrysanthemi, type E [TaxId	96.52
d1pe9a_		361	Pectate lyase {Erwinia chrysanthemi, type A [TaxId	95.87
d1pxza_		346	Major pollen allergen Jun a 1 {Ozark white cedar (	95.49
d1idka_		359	Pectin lyase {Aspergillus niger, type A [TaxId: 50	95.0
d1o88a_		353	Pectate lyase {Erwinia chrysanthemi, type C [TaxId	94.9
d1gq8a_		319	Pectin methylesterase PemA {Carrot (Daucus carota)	94.5
d1qcxa_		359	Pectin lyase {Aspergillus niger, type B [TaxId: 50	94.0
d1pcla_		355	Pectate lyase {Erwinia chrysanthemi, type E [TaxId	93.97
d1qjva_		342	Pectin methylesterase PemA {Erwinia chrysanthemi [	93.87
d1bn8a_		399	Pectate lyase {Bacillus subtilis [TaxId: 1423]}	89.54
d1pe9a_		361	Pectate lyase {Erwinia chrysanthemi, type A [TaxId	88.25
d1ee6a_		197	Pectate lyase {Bacillus sp., strain ksmp15 [TaxId:	85.22

>d1rmga_ b.80.1.3 (A:) Rhamnogalacturonase A {Aspergillus aculeatus [TaxId: 5053]}	Back information, alignment and structure

class: All beta proteins
fold: Single-stranded right-handed beta-helix
superfamily: Pectin lyase-like
family: Galacturonase
domain: Rhamnogalacturonase A
species: Aspergillus aculeatus [TaxId: 5053]

Probab=100.00  E-value=7.3e-50  Score=365.41  Aligned_cols=222  Identities=24%  Similarity=0.438  Sum_probs=197.7

Q ss_pred             CeeeeecCccCCCccchHHHHHHHHHHHhhcCCCCcEEEecCCeEE----------------------------------
Q 042417            1 VFNVKDFGAVADGIKDDSKAFETAWREACNWDGIKSAVLVPPGKYL----------------------------------   46 (249)
Q Consensus         1 ~~~v~dfGA~gdg~~ddt~Aiq~Ai~~a~~~~g~g~~v~iP~G~y~----------------------------------   46 (249)
                      +|||+||||+|||++|||+|||+|| +||+.   |++|+||+|+|+                                  
T Consensus        20 ~~nV~dfGA~gDG~tDdT~Ai~~Ai-~ac~~---gg~V~iP~Gty~l~~~i~l~g~~~~~l~~~G~i~~~~~~~~~~~~~   95 (422)
T d1rmga_          20 TCNILSYGAVADNSTDVGPAITSAW-AACKS---GGLVYIPSGNYALNTWVTLTGGSATAIQLDGIIYRTGTASGNMIAV   95 (422)
T ss_dssp             EEEGGGGTCCCSSSSBCHHHHHHHH-HHHTB---TCEEEECSSEEEECSCEEEESCEEEEEEECSEEEECCCCSSEEEEE
T ss_pred             EEEEecCCCCCCCCccCHHHHHHHH-HhcCC---CCEEEECCCcEEEeCcEEEcCCCceEEEEeEEEEeccCCccCEEEe
Confidence            5899999999999999999999999 68853   579999999986                                  


Q ss_pred             ---------------------------------EEEEEecCCCceeceeEecccCeEEEEEceeeEEEEeeEEecCCCCC
Q 042417           47 ---------------------------------SIRFNFLNDSTITGIKSVDSRYFHINILGCYNLKLNDLKITAHADSP   93 (249)
Q Consensus        47 ---------------------------------~i~~~~~~nv~i~gi~i~ns~~~~i~~~~s~nv~I~n~~i~~~~~~~   93 (249)
                                                       +|+|.+|+|+.|++++++|+|.|++++..|++++|+|++|.++ +.+
T Consensus        96 ~~~~~~~~~~~~g~G~IdG~G~~~~~~~~~~p~~l~~~~~~n~~i~git~~nsp~~~i~i~~c~~v~i~nv~I~~~-~~~  174 (422)
T d1rmga_          96 TDTTDFELFSSTSKGAVQGFGYVYHAEGTYGARILRLTDVTHFSVHDIILVDAPAFHFTMDTCSDGEVYNMAIRGG-NEG  174 (422)
T ss_dssp             EEEEEEEEECSSSCCEEECCTHHHHTTTCCCCEEEEEEEEEEEEEEEEEEECCSSCSEEEEEEEEEEEEEEEEECC-SST
T ss_pred             ccCccEEEEEeecceEEecCcceecCCCCCCCcEEEEEeeeeeEEECcEecCCCceEEEEeccccEEEEeeEEcCC-CCC
Confidence                                             7899999999999999999999999999999999999999985 468


Q ss_pred             CCcceEecCcccEEEEeeEEecCCCeeEe----------------CcceEEccCCCCCCCCceEeEEEEeeEEEcc----
Q 042417           94 NTEGIHIGSSNGSEISHSVIATGDDCVSL----------------GHGISVGSLGKGINDEEVVGLTVRNCTFTGT----  153 (249)
Q Consensus        94 n~DGi~~~~s~nv~I~n~~i~~gDD~i~i----------------g~Gi~iGs~g~~~~~~~v~ni~v~n~~~~~~----  153 (249)
                      |+||||+.+ +||+|+||+|.++||||++                +||+++||+|.   ...|+||+|+||++.++    
T Consensus       175 NtDGIdi~~-snv~I~n~~i~~gDDcIaiks~s~nI~i~n~~c~~g~GisiGs~g~---~~~V~nV~v~n~~~~~s~~g~  250 (422)
T d1rmga_         175 GLDGIDVWG-SNIWVHDVEVTNKDECVTVKSPANNILVESIYCNWSGGCAMGSLGA---DTDVTDIVYRNVYTWSSNQMY  250 (422)
T ss_dssp             TCCSEEEEE-EEEEEEEEEEESSSEEEEEEEEEEEEEEEEEEEESSSEEEEEEECT---TEEEEEEEEEEEEEESSSCSE
T ss_pred             ccceEeecc-cEEEEEeeEEEcCCCccccCCCCccEEEEeeEEccccceeEeeccC---CCCEEEEEEEeEEEeCCCceE
Confidence            999999986 5899999999999999998                89999999974   35799999999999987    


Q ss_pred             -----------------ceEEecCCccEEEEeeeCCCCCCCcCCCCceeEEeEEEEeEEEEccCC-------------Cc
Q 042417          154 -----------------NIVTNNVENPIVIDQLYCPYNKCNIKVPSQVKTSNVRFNNIRGTSANK-------------IP  203 (249)
Q Consensus       154 -----------------nI~~~nv~~~i~i~~~y~~~~~~~~~~~~~~~i~nI~~~ni~g~~~~~-------------~~  203 (249)
                                       ||+|+|+++||.|+++|+....+   .+++++|+||+|+||+|+....             .|
T Consensus       251 ~ik~~~g~G~V~nI~f~Ni~~~nv~~pI~Id~~y~~~~~~---~~~~v~isnIt~~Ni~GT~~~~~~~~~i~l~Cs~~~p  327 (422)
T d1rmga_         251 MIKSNGGSGTVSNVLLENFIGHGNAYSLDIDGYWSSMTAV---AGDGVQLNNITVKNWKGTEANGATRPPIRVVCSDTAP  327 (422)
T ss_dssp             EEEEBBCCEEEEEEEEEEEEEEEESCSEEEETBCTTSCCB---SSSCCEEEEEEEEEEEEEESCTTTSCSEEEECBTTBC
T ss_pred             EEEEcCCCceecceEEEEEEEecccccEEEecccCCCCCC---CCCCeEEEEEEEEeEEEEecCCcccccEEEEcCCCCC
Confidence                             66677778999999999876542   3456799999999999987432             79


Q ss_pred             eecEEEEeEEEEEcCceeecCCCCCcceeecccCccC
Q 042417          204 CQNIGIGNINWVYNGVNVKVEGPETTSLCSNVKPTLF  240 (249)
Q Consensus       204 ~~~i~~~nv~i~~~~g~~~~~~~~~~~~c~n~~~~~~  240 (249)
                      |+||+|+||+|+.++|+     . +.+.|+|++|...
T Consensus       328 c~ni~l~ni~l~~~~g~-----~-~~~~C~na~G~~~  358 (422)
T d1rmga_         328 CTDLTLEDIAIWTESGS-----S-ELYLCRSAYGSGY  358 (422)
T ss_dssp             EEEEEEEEEEEEESSSS-----C-EEEEEESEEEEST
T ss_pred             CcceEEEEEEEEcCCCC-----C-cceEEECceeeEE
Confidence            99999999999998885     4 6789999998664

PyMOL of d1rmga_

>d1czfa_ b.80.1.3 (A:) Polygalacturonase {Fungus (Aspergillus niger), endo-polygalacturonase II [TaxId: 5061]}	Back information, alignment and structure

>d1ia5a_ b.80.1.3 (A:) Polygalacturonase {Fungus (Aspergillus aculeatus) [TaxId: 5053]}	Back information, alignment and structure

>d1nhca_ b.80.1.3 (A:) Polygalacturonase {Fungus (Aspergillus niger), endo-polygalacturonase I [TaxId: 5061]}	Back information, alignment and structure

>d1hg8a_ b.80.1.3 (A:) Polygalacturonase {Fusarium moniliforme [TaxId: 117187]}	Back information, alignment and structure

>d1bhea_ b.80.1.3 (A:) Polygalacturonase {Erwinia carotovora, subsp. carotovora [TaxId: 554]}	Back information, alignment and structure

>d1k5ca_ b.80.1.3 (A:) Polygalacturonase {Fungus (Stereum purpureum), endo-polygalacturonase I [TaxId: 58369]}	Back information, alignment and structure

>d1ogmx2 b.80.1.10 (X:202-574) Dextranase, catalytic domain {Penicillium minioluteum [TaxId: 28574]}	Back information, alignment and structure

>d1ia5a_ b.80.1.3 (A:) Polygalacturonase {Fungus (Aspergillus aculeatus) [TaxId: 5053]}	Back information, alignment and structure

>d1hg8a_ b.80.1.3 (A:) Polygalacturonase {Fusarium moniliforme [TaxId: 117187]}	Back information, alignment and structure

>d1bhea_ b.80.1.3 (A:) Polygalacturonase {Erwinia carotovora, subsp. carotovora [TaxId: 554]}	Back information, alignment and structure

>d1czfa_ b.80.1.3 (A:) Polygalacturonase {Fungus (Aspergillus niger), endo-polygalacturonase II [TaxId: 5061]}	Back information, alignment and structure

>d1nhca_ b.80.1.3 (A:) Polygalacturonase {Fungus (Aspergillus niger), endo-polygalacturonase I [TaxId: 5061]}	Back information, alignment and structure

>d1k5ca_ b.80.1.3 (A:) Polygalacturonase {Fungus (Stereum purpureum), endo-polygalacturonase I [TaxId: 58369]}	Back information, alignment and structure

>d1rmga_ b.80.1.3 (A:) Rhamnogalacturonase A {Aspergillus aculeatus [TaxId: 5053]}	Back information, alignment and structure

>d1h80a_ b.80.1.8 (A:) iota-carrageenase {Alteromonas sp., atcc 43554 [TaxId: 232]}	Back information, alignment and structure

>d1ogmx2 b.80.1.10 (X:202-574) Dextranase, catalytic domain {Penicillium minioluteum [TaxId: 28574]}	Back information, alignment and structure

>d1o88a_ b.80.1.1 (A:) Pectate lyase {Erwinia chrysanthemi, type C [TaxId: 556]}	Back information, alignment and structure

>d1ofla_ b.80.1.4 (A:) Chondroitinase B {Pedobacter heparinus [TaxId: 984]}	Back information, alignment and structure

>d1idka_ b.80.1.2 (A:) Pectin lyase {Aspergillus niger, type A [TaxId: 5061]}	Back information, alignment and structure

>d1pxza_ b.80.1.1 (A:) Major pollen allergen Jun a 1 {Ozark white cedar (Juniperus ashei) [TaxId: 13101]}	Back information, alignment and structure

>d1qcxa_ b.80.1.2 (A:) Pectin lyase {Aspergillus niger, type B [TaxId: 5061]}	Back information, alignment and structure

>d1ru4a_ b.80.1.9 (A:) Pectate transeliminase {Erwinia chrysanthemi [TaxId: 556]}	Back information, alignment and structure

>d1bn8a_ b.80.1.1 (A:) Pectate lyase {Bacillus subtilis [TaxId: 1423]}	Back information, alignment and structure

>d1pcla_ b.80.1.1 (A:) Pectate lyase {Erwinia chrysanthemi, type E [TaxId: 556]}	Back information, alignment and structure

>d1pe9a_ b.80.1.1 (A:) Pectate lyase {Erwinia chrysanthemi, type A [TaxId: 556]}	Back information, alignment and structure

>d1pxza_ b.80.1.1 (A:) Major pollen allergen Jun a 1 {Ozark white cedar (Juniperus ashei) [TaxId: 13101]}	Back information, alignment and structure

>d1idka_ b.80.1.2 (A:) Pectin lyase {Aspergillus niger, type A [TaxId: 5061]}	Back information, alignment and structure

>d1o88a_ b.80.1.1 (A:) Pectate lyase {Erwinia chrysanthemi, type C [TaxId: 556]}	Back information, alignment and structure

>d1gq8a_ b.80.1.5 (A:) Pectin methylesterase PemA {Carrot (Daucus carota) [TaxId: 4039]}	Back information, alignment and structure

>d1qcxa_ b.80.1.2 (A:) Pectin lyase {Aspergillus niger, type B [TaxId: 5061]}	Back information, alignment and structure

>d1pcla_ b.80.1.1 (A:) Pectate lyase {Erwinia chrysanthemi, type E [TaxId: 556]}	Back information, alignment and structure

>d1qjva_ b.80.1.5 (A:) Pectin methylesterase PemA {Erwinia chrysanthemi [TaxId: 556]}	Back information, alignment and structure

>d1bn8a_ b.80.1.1 (A:) Pectate lyase {Bacillus subtilis [TaxId: 1423]}	Back information, alignment and structure

>d1pe9a_ b.80.1.1 (A:) Pectate lyase {Erwinia chrysanthemi, type A [TaxId: 556]}	Back information, alignment and structure

>d1ee6a_ b.80.1.1 (A:) Pectate lyase {Bacillus sp., strain ksmp15 [TaxId: 1409]}	Back information, alignment and structure