| Basic Information | |
|---|---|
| Species | Brassica rapa |
| Cazyme ID | Bra032138 |
| Family | GH28 |
| Protein Properties | Length: 801 Molecular Weight: 89833.2 Isoelectric Point: 8.1831 |
| Chromosome | Chromosome/Scaffold: 04 Start: 10659692 End: 10666239 |
| Description | Pectin lyase-like superfamily protein |
| View CDS | |
| External Links |
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| NCBI Taxonomy |
| CAZyDB |
| Signature Domain Download full data set without filtering | |||
|---|---|---|---|
| Family | Start | End | Evalue |
| GH28 | 412 | 757 | 0 |
| DGGVQLIVPPGKWLTGSFNLTSHFTLFIQKDATILASQDESEYPVVAPLPSYGQGRDAAGPTFASLISGTNLTDVVITGNNGTINGQGKYWWVKYRSGGF KNITRPYTLELVFSKDVQISNITIVDSPAWNIHPVYCTNVIVKGVTILAPIDSPNTDGINPDSCTNTLIEDCFVVSGDDCIAVKSGWDQFGIKVGMPTQQ LSIRRLTCISPDSAGIALGSEMSGGIKDVRMEDITLLQTQSAIRIKTAVGRGGYVKDIFARRFTMKTMKYVFWMSGAYNQHPASGFDPKAMPEITNINYR DMTADNVTQPARLDGFTNDPFTKICMSNINIVLAAEPKKLLWNCTA | |||
| Full Sequence |
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| Protein Sequence Length: 801 Download |
| MPKMNPQGIY VDKNLRLDNI QVYGFDYDYT LAHYSSDLQS LIYDLAKQHM VNDFRYPESC 60 MKFKYDPTFP IRGLYYDKQK GCLMKLDFFG SIEPYGCYFC RRKLSRKELE NMYGTRHMGR 120 EQARVLVGLM DFFCFSEACL IADMVQYFVD AKLEFDASYI YNDVNRAIQH VHRSGLVHRG 180 ILADPTRYLL KNGQLLRFLR SLKDKGKKLF LMTNSPYHFV DGGMRYLMEE SFGLRDSWRD 240 LFDVVIAKAN KPEFYTSEHP FRCYDEGRDT LAFTKVDSFH PDKIYYHGCL KSFLQITKWR 300 GPEVIYFGDH LFSDLRGPSK AGWRTVAIIH ELEMTRTSFV IVVVLAICSF QMMESSPDLA 360 NKVKANNIQY DAINCRKHSA VITEFGAVGD GKTSNTKAFK EAITKLAPKA ADGGVQLIVP 420 PGKWLTGSFN LTSHFTLFIQ KDATILASQD ESEYPVVAPL PSYGQGRDAA GPTFASLISG 480 TNLTDVVITG NNGTINGQGK YWWVKYRSGG FKNITRPYTL ELVFSKDVQI SNITIVDSPA 540 WNIHPVYCTN VIVKGVTILA PIDSPNTDGI NPDSCTNTLI EDCFVVSGDD CIAVKSGWDQ 600 FGIKVGMPTQ QLSIRRLTCI SPDSAGIALG SEMSGGIKDV RMEDITLLQT QSAIRIKTAV 660 GRGGYVKDIF ARRFTMKTMK YVFWMSGAYN QHPASGFDPK AMPEITNINY RDMTADNVTQ 720 PARLDGFTND PFTKICMSNI NIVLAAEPKK LLWNCTAISG VSSKVTPKPC SLLPENAPVD 780 CAFPVDKIPI ESVVLNKCSA * 840 |
| Functional Domains Download unfiltered results here | ||||||||
|---|---|---|---|---|---|---|---|---|
| Cdd ID | Domain | E-Value | Start | End | Length | Domain Description | ||
| PLN02218 | PLN02218 | 7.0e-26 | 368 | 742 | 387 | + polygalacturonase ADPG | ||
| pfam00295 | Glyco_hydro_28 | 2.0e-26 | 415 | 743 | 336 | + Glycosyl hydrolases family 28. Glycosyl hydrolase family 28 includes polygalacturonase EC:3.2.1.15 as well as rhamnogalacturonase A(RGase A), EC:3.2.1.-. These enzymes is important in cell wall metabolism. | ||
| COG5434 | PGU1 | 5.0e-53 | 380 | 677 | 322 | + Endopygalactorunase [Cell envelope biogenesis, outer membrane] | ||
| TIGR02244 | HAD-IG-Ncltidse | 4.0e-160 | 9 | 333 | 330 | + HAD superfamily (subfamily IG) hydrolase, 5'-nucleotidase. This model includes a 5'-nucleotidase specific for purines (IMP and GMP). These enzymes are members of the Haloacid Dehalogenase (HAD) superfamily. HAD members are recognized by three short motifs {hhhhDxDx(T/V)}, {hhhh(T/S)}, and either {hhhh(D/E)(D/E)x(3-4)(G/N)} or {hhhh(G/N)(D/E)x(3-4)(D/E)} (where "h" stands for a hydrophobic residue). Crystal structures of many HAD enzymes has verified PSI-PRED predictions of secondary structural elements which show each of the "hhhh" sequences of the motifs as part of beta sheets. This subfamily of enzymes is part of "Subfamily I" of the HAD superfamily by virtue of a "cap" domain in between motifs 1 and 2. This subfamily's cap domain has a different predicted secondary structure than all other known HAD enzymes and thus has been designated "subfamily IG". This domain appears to consist of a mixed alpha/beta fold. A Pfam model (pfam05761) detects an identical range of sequences above the trusted cutoff, but does not model the N-terminal motif 1 region. A TIGRFAMs model (TIGR01993) represents a (putative) family of _pyrimidine_ 5'-nucleotidases which are also subfamily I HAD's, which should not be confused with the current model. | ||
| pfam05761 | 5_nucleotid | 1.0e-164 | 9 | 333 | 329 | + 5' nucleotidase family. This family of eukaryotic proteins includes 5' nucleotidase enzymes, such as purine 5'-nucleotidase EC:3.1.3.5. | ||
| Gene Ontology | |
|---|---|
| GO Term | Description |
| GO:0004650 | polygalacturonase activity |
| GO:0005975 | carbohydrate metabolic process |
| Annotations - NR Download unfiltered results here | |||||||
|---|---|---|---|---|---|---|---|
| Source | Hit ID | E-Value | Query Start | Query End | Hit Start | Hit End | Description |
| GenBank | AAC63679.1 | 0 | 334 | 800 | 1 | 466 | putative polygalacturonase [Arabidopsis thaliana] |
| GenBank | ABK28510.1 | 0 | 332 | 800 | 10 | 477 | unknown [Arabidopsis thaliana] |
| RefSeq | NP_179968.2 | 0 | 332 | 800 | 10 | 477 | glycoside hydrolase family 28 protein / polygalacturonase (pectinase) family protein [Arabidopsis thaliana] |
| RefSeq | NP_190464.1 | 0 | 334 | 798 | 1 | 467 | glycoside hydrolase family 28 protein / polygalacturonase (pectinase) family protein [Arabidopsis thaliana] |
| RefSeq | XP_002513653.1 | 0 | 340 | 800 | 15 | 471 | polygalacturonase, putative [Ricinus communis] |
| Annotations - PDB Download unfiltered results here | |||||||
|---|---|---|---|---|---|---|---|
| Source | Hit ID | E-Value | Query Start | Query End | Hit Start | Hit End | Description |
| PDB | 3jur_D | 2.99878e-43 | 358 | 752 | 5 | 419 | A Chain A, The Crystal Structure Of A Hyperthermoactive Exopolygalacturonase From Thermotoga Maritima |
| PDB | 3jur_C | 2.99878e-43 | 358 | 752 | 5 | 419 | A Chain A, The Crystal Structure Of A Hyperthermoactive Exopolygalacturonase From Thermotoga Maritima |
| PDB | 3jur_B | 2.99878e-43 | 358 | 752 | 5 | 419 | A Chain A, The Crystal Structure Of A Hyperthermoactive Exopolygalacturonase From Thermotoga Maritima |
| PDB | 3jur_A | 2.99878e-43 | 358 | 752 | 5 | 419 | A Chain A, The Crystal Structure Of A Hyperthermoactive Exopolygalacturonase From Thermotoga Maritima |
| PDB | 4h4b_A | 3e-36 | 9 | 332 | 54 | 394 | A Chain A, The Crystal Structure Of A Hyperthermoactive Exopolygalacturonase From Thermotoga Maritima |
| Metabolic Pathways | |||
|---|---|---|---|
| Pathway Name | Reaction | EC | Protein Name |
| adenosine nucleotides degradation I | RXN-7607 | EC-3.1.3.5 | 5'-nucleotidase |
| adenosine nucleotides degradation I | XMPXAN-RXN | EC-3.1.3.5 | 5'-nucleotidase |
| adenosine nucleotides degradation II | AMP-DEPHOSPHORYLATION-RXN | EC-3.1.3.5 | 5'-nucleotidase |
| guanosine nucleotides degradation I | RXN-7609 | EC-3.1.3.5 | 5'-nucleotidase |
| guanosine nucleotides degradation II | RXN-7609 | EC-3.1.3.5 | 5'-nucleotidase |
| pyridine nucleotide cycling (plants) | RXN-5841 | EC-3.1.3.5 | 5'-nucleotidase |
| urate biosynthesis/inosine 5'-phosphate degradation | XMPXAN-RXN | EC-3.1.3.5 | 5'-nucleotidase |
| Hydropathy |
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| EST Download unfiltered results here | ||||
|---|---|---|---|---|
| Hit | Length | Start | End | EValue |
| DY021770 | 282 | 330 | 609 | 0 |
| ES270592 | 257 | 498 | 754 | 0 |
| GR454113 | 274 | 332 | 605 | 0 |
| DY282416 | 298 | 1 | 298 | 0 |
| ES270401 | 272 | 483 | 754 | 0 |
| Sequence Alignments (This image is cropped. Click for full image.) |
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