NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|15242028|ref|NP_197563|]
View 

germin 3 [Arabidopsis thaliana]

Protein Classification

germin family protein( domain architecture ID 14388826)

germin family protein is a cupin domain-containing protein similar to oxalate oxidase (also called germin) that catalyzes the manganese-dependent oxidative decarboxylation of oxalate to carbon dioxide and hydrogen peroxide

CATH:  2.60.120.10
Gene Ontology:  GO:0046872
PubMed:  14697267|19478949
SCOP:  3001825

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
cupin_OxOx cd02241
Oxalate oxidase (germin), cupin domain; Oxalate oxidase (OxOx, also known as germin; EC 1.2.3. ...
 20-207 4.01e-80

Oxalate oxidase (germin), cupin domain; Oxalate oxidase (OxOx, also known as germin; EC 1.2.3.4) catalyzes the manganese-dependent oxidative decarboxylation of oxalate to carbon dioxide and hydrogen peroxide (H2O2). It is widespread in fungi and various plant tissues and may play a role in plant signaling and defense. This enzyme has been employed in a widely used assay for detecting urinary oxalate levels. Also, the gene encoding OxOx from barley roots has been expressed in oilseed rape in order to provide a defense against externally supplied oxalic acid. In germin, the predominant protein produced during the early phase of wheat germination, it is believed that H2O2 production is employed as a defense mechanism in response to infection by pathogens. Germin is also a marker of growth onset in cell walls in germinating cereals. The H2O2 produced by OxOx, together with the Ca2+ released by degradation of calcium oxalate, are thought to mediate cell wall cross-linking at high concentrations. Proteins in this family belong to the cupin superfamily with a conserved "jelly roll-like" beta-barrel fold capable of homodimerization.


:

Pssm-ID: 380368  Cd Length: 191  Bit Score: 237.11  E-value: 4.01e-80
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15242028  20 ASVQDFCVADPKGPQSPSGYSCKNPDQVTENDFAFTGLGTAGNTSNIIKAAVTPAFAPAYAGINGLGVSLARLDLAGGGV 99
Cdd:cd02241   3 DPLQDFCVADLSSPRTPNGYPCKDPALVTADDFVFDFLNPPGNTSNPLGGSVTLANVANFPALNGLGISMARGDLAPCGV 82

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15242028 100 IPLHTHPGASEVLVVIQGTICAGFISS-ANKVYLKTLNRGDSMVFPQGLLHFQLNSGKGPALAFVAFGSSSPGLQILPFA 178
Cdd:cd02241  83 NPPHTHPRATELLYVVEGTLYVGFVDEnGNRLFTKTLNPGDVFVFPQGLIHFQFNPGCEPAVFVAAFNSEDPGTQQIAQA 162

                       170       180
                ....*....|....*....|....*....
gi 15242028 179 LFANDLPSELVEATTFLSDAEVKKLKGVL 207
Cdd:cd02241 163 LFGLPPPDDVLAAAFGLDGAQVEKLKSKF 191
 
Name Accession Description Interval E-value
cupin_OxOx cd02241
Oxalate oxidase (germin), cupin domain; Oxalate oxidase (OxOx, also known as germin; EC 1.2.3. ...
 20-207 4.01e-80

Oxalate oxidase (germin), cupin domain; Oxalate oxidase (OxOx, also known as germin; EC 1.2.3.4) catalyzes the manganese-dependent oxidative decarboxylation of oxalate to carbon dioxide and hydrogen peroxide (H2O2). It is widespread in fungi and various plant tissues and may play a role in plant signaling and defense. This enzyme has been employed in a widely used assay for detecting urinary oxalate levels. Also, the gene encoding OxOx from barley roots has been expressed in oilseed rape in order to provide a defense against externally supplied oxalic acid. In germin, the predominant protein produced during the early phase of wheat germination, it is believed that H2O2 production is employed as a defense mechanism in response to infection by pathogens. Germin is also a marker of growth onset in cell walls in germinating cereals. The H2O2 produced by OxOx, together with the Ca2+ released by degradation of calcium oxalate, are thought to mediate cell wall cross-linking at high concentrations. Proteins in this family belong to the cupin superfamily with a conserved "jelly roll-like" beta-barrel fold capable of homodimerization.


Pssm-ID: 380368  Cd Length: 191  Bit Score: 237.11  E-value: 4.01e-80
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15242028  20 ASVQDFCVADPKGPQSPSGYSCKNPDQVTENDFAFTGLGTAGNTSNIIKAAVTPAFAPAYAGINGLGVSLARLDLAGGGV 99
Cdd:cd02241   3 DPLQDFCVADLSSPRTPNGYPCKDPALVTADDFVFDFLNPPGNTSNPLGGSVTLANVANFPALNGLGISMARGDLAPCGV 82

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15242028 100 IPLHTHPGASEVLVVIQGTICAGFISS-ANKVYLKTLNRGDSMVFPQGLLHFQLNSGKGPALAFVAFGSSSPGLQILPFA 178
Cdd:cd02241  83 NPPHTHPRATELLYVVEGTLYVGFVDEnGNRLFTKTLNPGDVFVFPQGLIHFQFNPGCEPAVFVAAFNSEDPGTQQIAQA 162

                       170       180
                ....*....|....*....|....*....
gi 15242028 179 LFANDLPSELVEATTFLSDAEVKKLKGVL 207
Cdd:cd02241 163 LFGLPPPDDVLAAAFGLDGAQVEKLKSKF 191
Cupin_1 pfam00190
Cupin; This family represents the conserved barrel domain of the 'cupin' superfamily ('cupa' ...
 55-201 1.60e-42

Cupin; This family represents the conserved barrel domain of the 'cupin' superfamily ('cupa' is the Latin term for a small barrel). This family contains 11S and 7S plant seed storage proteins, and germins. Plant seed storage proteins provide the major nitrogen source for the developing plant.


Pssm-ID: 395138  Cd Length: 151  Bit Score: 140.55  E-value: 1.60e-42
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15242028    55 TGLGTAGNTSNIIKAAVTPAFAPAYAGINGLGVSLARLDLAGGGVIPLHTHPGASEVLVVIQGTICAGFISSAN--KVYL 132
Cdd:pfam00190   1 LNLLEPGPTYNPEGGRVTTVNSKNLPGLNTLGISAARVDLAPGGMNPPHWHPNATEILYVLQGRGRVGFVVPGNgnRVFH 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 15242028   133 KTLNRGDSMVFPQGLLHFQLNSGKGPALAFVAFGSSSPGLQILPFALFA--NDLPSELVEATTFLSDAEVK 201
Cdd:pfam00190  81 KVLREGDVFVVPQGLPHFQYNIGDEPAVAFVAFDTNNPGNQSILAGGFSslPALPPEVLAKAFQLAGEEVK 151
Cupin_1 smart00835
Cupin; This family represents the conserved barrel domain of the 'cupin' superfamily ('cupa' ...
 61-201 1.21e-37

Cupin; This family represents the conserved barrel domain of the 'cupin' superfamily ('cupa' is the Latin term for a small barrel). This family contains 11S and 7S plant seed storage proteins, and germins. Plant seed storage proteins provide the major nitrogen source for the developing plant.


Pssm-ID: 214845 [Multi-domain]  Cd Length: 146  Bit Score: 127.78  E-value: 1.21e-37
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15242028     61 GNTSNIIKAAVTPAFAPAYAGINGLGVSLARLDLAGGGVIPLHTHPGASEVLVVIQGTICAGFI-SSANKVYLKTLNRGD 139
Cdd:smart00835   4 RPDFSNEGGRLREADPTNFPALNGLGISAARVNLEPGGMLPPHYHPRATELLYVVRGEGRVGVVdPNGNKVYDARLREGD 83

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 15242028    140 SMVFPQGLLHFQLNSGKGPaLAFVAFGSSSPGLQILPFALFA--NDLPSELVEATTFLSDAEVK 201
Cdd:smart00835  84 VFVVPQGHPHFQVNSGDEN-LEFVAFNTNDPNRRFFLAGRNSvlRGLPPEVLAAAFGVSAEEVR 146
ManC COG0662
Mannose-6-phosphate isomerase, cupin superfamily [Carbohydrate transport and metabolism];
65-159 6.99e-10

Mannose-6-phosphate isomerase, cupin superfamily [Carbohydrate transport and metabolism];


Pssm-ID: 440426 [Multi-domain]  Cd Length: 114  Bit Score: 54.38  E-value: 6.99e-10
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15242028  65 NIIKAAVTPAFAPAYAGINGLGVSLARLDLAGGGVIPLHTHPGASEVLVVIQGTicaGFISSANKVYlkTLNRGDSMVFP 144
Cdd:COG0662   5 NIEELKAIGWGSYEVLGEGGERLSVKRITVPPGAELSLHVHPHRDEFFYVLEGT---GEVTIGDEEV--ELKAGDSVYIP 79

                        90
                ....*....|....*
gi 15242028 145 QGLLHFQLNSGKGPA 159
Cdd:COG0662  80 AGVPHRLRNPGDEPL 94
bicupin_oxalic TIGR03404
bicupin, oxalate decarboxylase family; Members of this protein family are defined as bicupins ...
 86-204 1.32e-03

bicupin, oxalate decarboxylase family; Members of this protein family are defined as bicupins as they have two copies of the cupin domain (pfam00190). Two different known activities for members of this family are oxalate decarboxylase (EC 4.1.1.2) and oxalate oxidase (EC 1.2.3.4), although the latter activity has more often been found in distantly related monocupin (germin) proteins.


Pssm-ID: 274565 [Multi-domain]  Cd Length: 367  Bit Score: 38.84  E-value: 1.32e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15242028    86 GVSLARLDLAGGGVIPLHTHPGASEVLVVIQGTICAG-FISSANKvylKTLN--RGDSMVFPQGLLHFQLNSGKGPaLAF 162
Cdd:TIGR03404 244 TIAAAIVTVEPGAMRELHWHPNADEWQYFIQGQARMTvFAAGGNA---RTFDyqAGDVGYVPRNMGHYVENTGDET-LVF 319

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 15242028   163 VAFgSSSPGLQILPFALFANDLPSELVEATTFLSDAEVKKLK 204
Cdd:TIGR03404 320 LEV-FKADRFADVSLNQWLALTPPQLVAAHLNLDDEVIDSLK 360
 
Name Accession Description Interval E-value
cupin_OxOx cd02241
Oxalate oxidase (germin), cupin domain; Oxalate oxidase (OxOx, also known as germin; EC 1.2.3. ...
 20-207 4.01e-80

Oxalate oxidase (germin), cupin domain; Oxalate oxidase (OxOx, also known as germin; EC 1.2.3.4) catalyzes the manganese-dependent oxidative decarboxylation of oxalate to carbon dioxide and hydrogen peroxide (H2O2). It is widespread in fungi and various plant tissues and may play a role in plant signaling and defense. This enzyme has been employed in a widely used assay for detecting urinary oxalate levels. Also, the gene encoding OxOx from barley roots has been expressed in oilseed rape in order to provide a defense against externally supplied oxalic acid. In germin, the predominant protein produced during the early phase of wheat germination, it is believed that H2O2 production is employed as a defense mechanism in response to infection by pathogens. Germin is also a marker of growth onset in cell walls in germinating cereals. The H2O2 produced by OxOx, together with the Ca2+ released by degradation of calcium oxalate, are thought to mediate cell wall cross-linking at high concentrations. Proteins in this family belong to the cupin superfamily with a conserved "jelly roll-like" beta-barrel fold capable of homodimerization.


Pssm-ID: 380368  Cd Length: 191  Bit Score: 237.11  E-value: 4.01e-80
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15242028  20 ASVQDFCVADPKGPQSPSGYSCKNPDQVTENDFAFTGLGTAGNTSNIIKAAVTPAFAPAYAGINGLGVSLARLDLAGGGV 99
Cdd:cd02241   3 DPLQDFCVADLSSPRTPNGYPCKDPALVTADDFVFDFLNPPGNTSNPLGGSVTLANVANFPALNGLGISMARGDLAPCGV 82

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15242028 100 IPLHTHPGASEVLVVIQGTICAGFISS-ANKVYLKTLNRGDSMVFPQGLLHFQLNSGKGPALAFVAFGSSSPGLQILPFA 178
Cdd:cd02241  83 NPPHTHPRATELLYVVEGTLYVGFVDEnGNRLFTKTLNPGDVFVFPQGLIHFQFNPGCEPAVFVAAFNSEDPGTQQIAQA 162

                       170       180
                ....*....|....*....|....*....
gi 15242028 179 LFANDLPSELVEATTFLSDAEVKKLKGVL 207
Cdd:cd02241 163 LFGLPPPDDVLAAAFGLDGAQVEKLKSKF 191
Cupin_1 pfam00190
Cupin; This family represents the conserved barrel domain of the 'cupin' superfamily ('cupa' ...
 55-201 1.60e-42

Cupin; This family represents the conserved barrel domain of the 'cupin' superfamily ('cupa' is the Latin term for a small barrel). This family contains 11S and 7S plant seed storage proteins, and germins. Plant seed storage proteins provide the major nitrogen source for the developing plant.


Pssm-ID: 395138  Cd Length: 151  Bit Score: 140.55  E-value: 1.60e-42
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15242028    55 TGLGTAGNTSNIIKAAVTPAFAPAYAGINGLGVSLARLDLAGGGVIPLHTHPGASEVLVVIQGTICAGFISSAN--KVYL 132
Cdd:pfam00190   1 LNLLEPGPTYNPEGGRVTTVNSKNLPGLNTLGISAARVDLAPGGMNPPHWHPNATEILYVLQGRGRVGFVVPGNgnRVFH 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 15242028   133 KTLNRGDSMVFPQGLLHFQLNSGKGPALAFVAFGSSSPGLQILPFALFA--NDLPSELVEATTFLSDAEVK 201
Cdd:pfam00190  81 KVLREGDVFVVPQGLPHFQYNIGDEPAVAFVAFDTNNPGNQSILAGGFSslPALPPEVLAKAFQLAGEEVK 151
Cupin_1 smart00835
Cupin; This family represents the conserved barrel domain of the 'cupin' superfamily ('cupa' ...
 61-201 1.21e-37

Cupin; This family represents the conserved barrel domain of the 'cupin' superfamily ('cupa' is the Latin term for a small barrel). This family contains 11S and 7S plant seed storage proteins, and germins. Plant seed storage proteins provide the major nitrogen source for the developing plant.


Pssm-ID: 214845 [Multi-domain]  Cd Length: 146  Bit Score: 127.78  E-value: 1.21e-37
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15242028     61 GNTSNIIKAAVTPAFAPAYAGINGLGVSLARLDLAGGGVIPLHTHPGASEVLVVIQGTICAGFI-SSANKVYLKTLNRGD 139
Cdd:smart00835   4 RPDFSNEGGRLREADPTNFPALNGLGISAARVNLEPGGMLPPHYHPRATELLYVVRGEGRVGVVdPNGNKVYDARLREGD 83

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 15242028    140 SMVFPQGLLHFQLNSGKGPaLAFVAFGSSSPGLQILPFALFA--NDLPSELVEATTFLSDAEVK 201
Cdd:smart00835  84 VFVVPQGHPHFQVNSGDEN-LEFVAFNTNDPNRRFFLAGRNSvlRGLPPEVLAAAFGVSAEEVR 146
cupin_OxDC-like cd20306
Oxalate decarboxylase (OxDC)-like cupin domain; This subfamily contains bacterial and ...
 86-192 3.43e-10

Oxalate decarboxylase (OxDC)-like cupin domain; This subfamily contains bacterial and eukaryotic cupin domains of proteins homologous to oxalate decarboxylase (OxDC; EC 4.1.1.2) such as MSMEG_2254, a putative OxDC from Mycobacterium smegmatis. OxDC is a manganese-dependent bicupin that catalyzes the conversion of oxalate to formate and carbon dioxide, utilizing dioxygen as a cofactor. It is evolutionarily related to oxalate oxidase (OxOx or germin; EC 1.2.3.4) which, in contrast, converts oxalate and dioxygen to carbon dioxide and hydrogen peroxide. OxDC is classified as a bicupin because it contains two cupin folds with each domain containing one manganese binding site, with four manganese binding residues (three histidines and one glutamate) conserved as well as a number of hydrophobic residues.


Pssm-ID: 380440 [Multi-domain]  Cd Length: 151  Bit Score: 56.06  E-value: 3.43e-10
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15242028  86 GVSLARLDLAGGGVIPLHTHPGASEVLVVIQGTICAGFISSANKVYLKTLNRGDsMVF-PQGLLHFQLNSGKGPALAFVA 164
Cdd:cd20306  33 GLSIYRLRLSPGGIREPHWHPNANELGYVISGEARVSILDPTGSLDTFTVKPGQ-VVFiPQGWLHWIENVGDEEAHLLIF 111

                        90       100
                ....*....|....*....|....*...
gi 15242028 165 FGSSSPglQILPFALFANDLPSELVEAT 192
Cdd:cd20306 112 FNHETP--EDIGLSDSLRATPPEVLGNT 137
ManC COG0662
Mannose-6-phosphate isomerase, cupin superfamily [Carbohydrate transport and metabolism];
65-159 6.99e-10

Mannose-6-phosphate isomerase, cupin superfamily [Carbohydrate transport and metabolism];


Pssm-ID: 440426 [Multi-domain]  Cd Length: 114  Bit Score: 54.38  E-value: 6.99e-10
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15242028  65 NIIKAAVTPAFAPAYAGINGLGVSLARLDLAGGGVIPLHTHPGASEVLVVIQGTicaGFISSANKVYlkTLNRGDSMVFP 144
Cdd:COG0662   5 NIEELKAIGWGSYEVLGEGGERLSVKRITVPPGAELSLHVHPHRDEFFYVLEGT---GEVTIGDEEV--ELKAGDSVYIP 79

                        90
                ....*....|....*
gi 15242028 145 QGLLHFQLNSGKGPA 159
Cdd:COG0662  80 AGVPHRLRNPGDEPL 94
Cupin_2 pfam07883
Cupin domain; This family represents the conserved barrel domain of the 'cupin' superfamily ( ...
 90-165 1.31e-08

Cupin domain; This family represents the conserved barrel domain of the 'cupin' superfamily ('cupa' is the Latin term for a small barrel).


Pssm-ID: 462300 [Multi-domain]  Cd Length: 71  Bit Score: 49.95  E-value: 1.31e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15242028    90 ARLDLAGGGVIPLHTHPGASEVLVVIQGTIcagfissanKVYL----KTLNRGDSMVFPQGLLHFQLNSGKGPALAFVAF 165
Cdd:pfam07883   1 GLVTLPPGESSPPHRHPGEDEFFYVLEGEG---------ELTVdgeeVVLKAGDSVYFPAGVPHRFRNTGDEPARLLDVY 71
QdoI COG1917
Cupin domain protein related to quercetin dioxygenase [General function prediction only];
87-165 2.55e-08

Cupin domain protein related to quercetin dioxygenase [General function prediction only];


Pssm-ID: 441521 [Multi-domain]  Cd Length: 99  Bit Score: 49.85  E-value: 2.55e-08
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 15242028  87 VSLARLDLAGGGVIPLHTHPGaSEVLVVIQGTicaGFISSANKVYlkTLNRGDSMVFPQGLLHFQLNSGKGPALAFVAF 165
Cdd:COG1917  23 LEVVRVTFEPGARTPWHSHPG-EELIYVLEGE---GEVEVGGEEY--ELKPGDVVFIPPGVPHAFRNLGDEPAVLLVVF 95
cupin_OxDC cd02240
Oxalate decarboxylase (OxDC), cupin domain; Oxalate decarboxylase (OxDC; EC 4.1.1.2) is a ...
 86-203 2.07e-07

Oxalate decarboxylase (OxDC), cupin domain; Oxalate decarboxylase (OxDC; EC 4.1.1.2) is a manganese-dependent bicupin that catalyzes the conversion of oxalate to formate and carbon dioxide, utilizing dioxygen as a cofactor. It is evolutionarily related to oxalate oxidase (OxOx or germin; EC 1.2.3.4) which, in contrast, converts oxalate and dioxygen to carbon dioxide and hydrogen peroxide. OxDC is classified as a bicupin because it contains two cupin folds and both domains are included in this alignment. Each OxDC cupin domain contains one manganese binding site, with four manganese binding residues (three histidines and one glutamate) conserved as well as a number of hydrophobic residues. Members of this family belong to the cupin superfamily with a conserved "jelly roll-like" beta-barrel fold.


Pssm-ID: 380367 [Multi-domain]  Cd Length: 145  Bit Score: 48.63  E-value: 2.07e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15242028  86 GVSLARLDLAGGGVIPLHTHPGASEVLVVIQGTICAGFISSANKVYLKTLNRGDSMVFPQGLLHFQLNSGKGPALAFVAF 165
Cdd:cd02240  26 DLSSALVRVAPGAMRELHWHPNTAEWQYVISGSARVTVFDEDGRFETFNLGAGDVGYVPSGSGHHIENIGDEDAEFLLIF 105

                        90       100       110
                ....*....|....*....|....*....|....*...
gi 15242028 166 GSSSPGLQILPFalFANDLPSElVEATTFLSDAEVKKL 203
Cdd:cd02240 106 DDGTFADVSLPW--WLAMTPEE-VLAATLDLGKFIDAL 140
cupin_BLL4011-like cd02235
Bradyrhizobium diazoefficiens BLL4011 and related proteins, cupin domain; This family includes ...
 89-159 2.76e-06

Bradyrhizobium diazoefficiens BLL4011 and related proteins, cupin domain; This family includes bacterial and fungal proteins homologous to BLL4011, a Bradyrhizobium diazoefficiens protein of unknown function. Proteins in this family belong to the cupin superfamily with a conserved "jelly roll-like" beta-barrel fold capable of homodimerization.


Pssm-ID: 380363 [Multi-domain]  Cd Length: 100  Bit Score: 44.49  E-value: 2.76e-06
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 15242028  89 LARLDLAGGGVIPLHTHPGaSEVLVVIQGTIcagfissankVYL------KTLNRGDSMVFPQGLLHFQLNSGKGPA 159
Cdd:cd02235  21 QVRVEIPPGAVAGRHTHPG-EESGYVLEGSL----------ELEvdgqppVTLKAGDSFFIPAGTVHNAKNVGSGPA 86
COG3837 COG3837
Uncharacterized conserved protein, cupin superfamily [Function unknown];
80-170 6.16e-06

Uncharacterized conserved protein, cupin superfamily [Function unknown];


Pssm-ID: 443048 [Multi-domain]  Cd Length: 115  Bit Score: 43.85  E-value: 6.16e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15242028  80 AGINGLGVSLARLDlAGGGVIPLHTHPGASEVLVVIQGTICAGFissANKVYlkTLNRGDSMVFPQGLLHFQLNSGKGPA 159
Cdd:COG3837  23 LGLTRLGVNLITLP-PGASSSPYHAHSAEEEFVYVLEGELTLRI---GGEEY--VLEPGDSVGFPAGVPHRLRNRGDEPA 96

                        90
                ....*....|.
gi 15242028 160 LaFVAFGSSSP 170
Cdd:COG3837  97 R-YLVVGTRAP 106
cupin_OxDC_C cd20305
Oxalate decarboxylase (OxDC), C-terminal cupin domain; This model represents the C-terminal ...
 90-204 1.64e-05

Oxalate decarboxylase (OxDC), C-terminal cupin domain; This model represents the C-terminal cupin domain of oxalate decarboxylase (OxDC; EC 4.1.1.2), a manganese-dependent bicupin that catalyzes the conversion of oxalate to formate and carbon dioxide, utilizing dioxygen as a cofactor. It is evolutionarily related to oxalate oxidase (OxOx or germin; EC 1.2.3.4) which, in contrast, converts oxalate and dioxygen to carbon dioxide and hydrogen peroxide. OxDC is classified as a bicupin because it contains two cupin folds with each domain containing one manganese binding site, with four manganese binding residues (three histidines and one glutamate) conserved as well as a number of hydrophobic residues. Members of this family belong to the cupin superfamily with a conserved "jelly roll-like" beta-barrel fold.


Pssm-ID: 380439 [Multi-domain]  Cd Length: 153  Bit Score: 43.34  E-value: 1.64e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15242028  90 ARLDLAGGGVIPLHTHPGASEVLVVIQGTICAGFISSANKVYLKTLNRGDSMVFPQGLLHFQLNSGKGPALAFVAFGssS 169
Cdd:cd20305  37 ALVTLEPGALRELHWHPNADEWQYYISGKARMTVFASGGRARTFDFQAGDVGYVPRGYGHYIENTGDEPLEFLEVFN--S 114

                        90       100       110
                ....*....|....*....|....*....|....*
gi 15242028 170 PGLQILPFALFANDLPSELVEATTFLSDAEVKKLK 204
Cdd:cd20305 115 GRYQDISLSQWLALTPPDLVAAHLGLPDDTIAKLP 149
cupin_DAD_ChrR cd02237
2,4'-Dihydroxyacetophenone dioxygenase (DAD) and anti-sigma factor ChrR, and similar proteins; ...
 83-166 1.88e-05

2,4'-Dihydroxyacetophenone dioxygenase (DAD) and anti-sigma factor ChrR, and similar proteins; cupin domain; This family includes the proteins 2,4'-Dihydroxyacetophenone dioxygenase (DAD) and anti-sigma factor ChrR. DAD catalyzes the oxidation of 2,4'-dihydroxyacetophenone to 4-hydroxybenzoate and formate as part of the 4-hydroxyacetophenone catabolic pathway. The enzyme is a homotetramer containing one iron per molecule of enzyme. Anti-sigma factor ChrR is a member of the ZAS (Zn2+ anti-sigma) subfamily of group IV anti-sigmas. It inhibits transcriptional activity by binding to the Rsp extra cytoplasmic function (ECF) sigma factor E (sigmaE). Some ChrR members contain tandem repeats of two distinct homologous functional domains. Members of this family belong to the cupin superfamily with a conserved "jelly roll-like" beta-barrel fold.


Pssm-ID: 380365 [Multi-domain]  Cd Length: 82  Bit Score: 41.61  E-value: 1.88e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15242028  83 NGLGVSLARLdlAGGGVIPLHTHPGASEVLvVIQGTIcagfissankVYLK-TLNRGDSMVFPQGLLHfQLNSGKGPALA 161
Cdd:cd02237  12 TGLITAILRM--APGARLPDHEHVGGEEFY-VLDGAL----------TDEDgTAGAGDFVREPPGSRH-SAVAPREGCLI 77


                ....*
gi 15242028 162 FVAFG 166
Cdd:cd02237  78 LVILQ 82
cupin_MAE_RS03005 cd06987
Microcystis aeruginosa MAE_RS03005 and related proteins, cupin domain; This family includes ...
 97-157 2.84e-05

Microcystis aeruginosa MAE_RS03005 and related proteins, cupin domain; This family includes bacterial and some eukaryotic proteins homologous to MAE_RS03005, a Microcystis aeruginosa protein of unknown function. Proteins in this family belong to the cupin superfamily with a conserved "jelly roll-like" beta-barrel fold capable of homodimerization.


Pssm-ID: 380392 [Multi-domain]  Cd Length: 122  Bit Score: 41.87  E-value: 2.84e-05
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 15242028  97 GGVIPLHTHPGASEVLVVIQGT---ICAGFissankvyLKTLNRGDSMVFPQGLLHFQLNSGKG 157
Cdd:cd06987  38 GGRTPPNTHPAAHEMFFVLAGEgraYCDGQ--------RVPLRPGDALVVPPGSEHVIENTGSG 93
cupin_RmlC-like cd02208
RmlC-like cupin superfamily; This superfamily contains proteins similar to the RmlC (dTDP ...
 89-163 5.07e-05

RmlC-like cupin superfamily; This superfamily contains proteins similar to the RmlC (dTDP (deoxythymidine diphosphates)-4-dehydrorhamnose 3,5-epimerase)-like cupins. RmlC is a dTDP-sugar isomerase involved in the synthesis of L-rhamnose, a saccharide required for the virulence of some pathogenic bacteria. Cupins are a functionally diverse superfamily originally discovered based on the highly conserved motif found in germin and germin-like proteins. This conserved motif forms a beta-barrel fold found in all of the cupins, giving rise to the name cupin ('cupa' is the Latin term for small barrel). The active site of members of this superfamily is generally located at the center of a conserved barrel and usually includes a metal ion. The different functional classes in this superfamily include single domain bacterial isomerases and epimerases involved in the modification of cell wall carbohydrates, two domain bicupins such as the desiccation-tolerant seed storage globulins, and multidomain nuclear transcription factors involved in legume root nodulation.


Pssm-ID: 380338 [Multi-domain]  Cd Length: 73  Bit Score: 40.16  E-value: 5.07e-05
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 15242028  89 LARLDLAGGGVIPLHTHPGASEVLVVIQGTICAgFISSANKVylkTLNRGDSMVFPQGLLHFQLNSGKGPALAFV 163
Cdd:cd02208   1 ISVVTLPPGTSSPPHWHPEQDEIFYVLSGEGEL-TLDDGETV---ELKAGDIVLIPPGVPHSFVNTSDEPAVFLV 71
cupin_yp_001338853-like cd07008
Klebsiella pneumoniae yp_001338853.1 and related proteins, cupin domain; This family includes ...
 97-163 5.31e-05

Klebsiella pneumoniae yp_001338853.1 and related proteins, cupin domain; This family includes bacterial proteins homologous to Klebsiella pneumoniae yp_001338853.1, an uncharacterized conserved protein with double-stranded beta-helix domain. Proteins in this family belong to the cupin superfamily with a conserved "jelly roll-like" beta-barrel fold capable of homodimerization.


Pssm-ID: 380411 [Multi-domain]  Cd Length: 101  Bit Score: 40.70  E-value: 5.31e-05
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 15242028  97 GGVIPLHTHPGASEVLVVIQGTicAGFISSANKVylKTLNRGDSMVFPQGLLHFQLNSGKGPaLAFV 163
Cdd:cd07008  37 GQEIAAHIHPHGQDTWIVLSGE--GEYLLGDGQT--VPIKAGDIVIAPAGQVHGARNTGDEP-LVFV 98
cupin_DRT102 cd06989
Arabidopsis thaliana DRT102 and related proteins, cupin domain; This family includes bacterial ...
 86-150 5.56e-05

Arabidopsis thaliana DRT102 and related proteins, cupin domain; This family includes bacterial and eukaryotic proteins homologous to DNA-damage-repair/toleration protein DRT102 found in Arabidopsis thaliana. DRT102 may be involved in DNA repair from UV damage. Proteins in this family belong to the cupin superfamily with a conserved "jelly roll-like" beta-barrel fold capable of homodimerization.


Pssm-ID: 380394  Cd Length: 97  Bit Score: 40.59  E-value: 5.56e-05
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 15242028  86 GVSLARLDLAGGGVIPLHTHPgASEVLVVIQGTICAGFISSANKVYLKTLNRGDSMVFPQGLLHF 150
Cdd:cd06989  17 GPFVVRLKFPAGYKIPPHTHP-DDERVTVISGTFYLGMGDKFDEAKAKALPAGSFFTLPAGTPHF 80
cupin_XRE_C cd02209
XRE (Xenobiotic Response Element) family transcriptional regulators, C-terminal cupin domain; ...
 95-165 1.24e-04

XRE (Xenobiotic Response Element) family transcriptional regulators, C-terminal cupin domain; This family contains transcriptional regulators containing an N-terminal XRE (Xenobiotic Response Element) family helix-turn-helix (HTH) DNA-binding domain and a C-terminal cupin domain. Included in this family is Escherichia coli transcription factor SutR (YdcN) that plays a regulatory role in sulfur utilization; it regulates a set of genes involved in the generation of sulfate and its reduction, the synthesis of cysteine, the synthesis of enzymes containing Fe-S as cofactors, and the modification of tRNA with use of sulfur-containing substrates. This family belongs to the cupin superfamily with a conserved "jelly roll-like" beta-barrel fold capable of homodimerization.


Pssm-ID: 380339 [Multi-domain]  Cd Length: 90  Bit Score: 39.41  E-value: 1.24e-04
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 15242028  95 AGGGVIPLHTHPGaSEVLVVIQGTICagfISSANKVYlkTLNRGDSMVFPQGLLHFQLNSGKGPALAFVAF 165
Cdd:cd02209  25 PGGSGGEPYSHEG-EEFGYVLEGELE---LTVGGETY--VLEAGDSIYFDSDVPHRYRNPGDEPARVLWVI 89
cupin_TcmJ-like cd06991
TcmJ monooxygenase and related proteins, cupin domain; This family includes TcmJ, a subunit of ...
 67-161 5.54e-04

TcmJ monooxygenase and related proteins, cupin domain; This family includes TcmJ, a subunit of the tetracenomycin (TCM) polyketide synthase (PKS) type II complex in Streptomyces glaucescens. TcmJ is a quinone-forming monooxygenase involved in the modification of aromatic polyketides synthesized by polyketide synthases of types II and III. Orthologs of TcmJ include the Streptomyces BenD (benastatin biosynthetic pathway), the Streptomyces olivaceus ElmJ (polyketide antibiotic elloramycin biosynthetic pathway), the Actinomadura hibisca PdmL (pradimicin biosynthetic pathway), the Streptomyces cyaneus CurC (curamycin biosynthetic pathway), the Streptomyces rishiriensis Lct30 (lactonamycin biosynthetic pathway), and the Streptomyces WhiE II (spore pigment polyketide biosynthetic pathway). Proteins in this family belong to the cupin superfamily with a conserved "jelly roll-like" beta-barrel fold capable of homodimerization.


Pssm-ID: 380396 [Multi-domain]  Cd Length: 105  Bit Score: 38.04  E-value: 5.54e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15242028  67 IKAAVTPAFAPAYAGINGLgvslarLDLAGGGVIPLHTHPGASEVLVVIQGTICAgFISSANKVylktLNRGDSMVFPQG 146
Cdd:cd06991   5 LRILLSPKTVGATSGFMGT------LTLAPGERVSEHYHPYSEEFLYVVRGRLVV-RVDGEPVV----LEAGEALLVPRG 73

                        90
                ....*....|....*
gi 15242028 147 LLHFQLNSGKGPALA 161
Cdd:cd06991  74 VRHRLENAGDEPARL 88
OxdD COG2140
Oxalate decarboxylase/archaeal phosphoglucose isomerase, cupin superfamily [Carbohydrate ...
 86-165 8.28e-04

Oxalate decarboxylase/archaeal phosphoglucose isomerase, cupin superfamily [Carbohydrate transport and metabolism]; Oxalate decarboxylase/archaeal phosphoglucose isomerase, cupin superfamily is part of the Pathway/BioSystem: Glycolysis


Pssm-ID: 441743 [Multi-domain]  Cd Length: 115  Bit Score: 37.64  E-value: 8.28e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15242028  86 GVSLARLDLAGGGVIPLHTHPGASEVLVVIQGTICAGFISSANKVYLKTLNRGDSMVFPQGLLHFQLNSGKGPaLAFVAF 165
Cdd:COG2140   2 TLAGGLTVLEPGGVREEHWHPNAAEWYYVLSGEARMTVQDPPGRARTVDVGPGDVVYVPPGYGHYIINTGDEP-LVFLAV 80
bicupin_oxalic TIGR03404
bicupin, oxalate decarboxylase family; Members of this protein family are defined as bicupins ...
 86-204 1.32e-03

bicupin, oxalate decarboxylase family; Members of this protein family are defined as bicupins as they have two copies of the cupin domain (pfam00190). Two different known activities for members of this family are oxalate decarboxylase (EC 4.1.1.2) and oxalate oxidase (EC 1.2.3.4), although the latter activity has more often been found in distantly related monocupin (germin) proteins.


Pssm-ID: 274565 [Multi-domain]  Cd Length: 367  Bit Score: 38.84  E-value: 1.32e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15242028    86 GVSLARLDLAGGGVIPLHTHPGASEVLVVIQGTICAG-FISSANKvylKTLN--RGDSMVFPQGLLHFQLNSGKGPaLAF 162
Cdd:TIGR03404 244 TIAAAIVTVEPGAMRELHWHPNADEWQYFIQGQARMTvFAAGGNA---RTFDyqAGDVGYVPRNMGHYVENTGDET-LVF 319

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 15242028   163 VAFgSSSPGLQILPFALFANDLPSELVEATTFLSDAEVKKLK 204
Cdd:TIGR03404 320 LEV-FKADRFADVSLNQWLALTPPQLVAAHLNLDDEVIDSLK 360
cupin_PA3510-like cd02225
Pseudomonas aeruginosa PA3510 and related proteins, cupin domain; This family includes ...
 101-176 1.78e-03

Pseudomonas aeruginosa PA3510 and related proteins, cupin domain; This family includes bacterial proteins homologous to PA3510, a Pseudomonas aeruginosa protein of unknown function with a beta-barrel fold that belongs to the cupin superfamily.


Pssm-ID: 380354  Cd Length: 150  Bit Score: 37.26  E-value: 1.78e-03
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 15242028 101 PLHTHPgASEVLVVIQG--TIcagFISSANKVYLKTLNRGDSMVFPQGLLHFQLNSGKGPALAFVAFGSSSPGLQILP 176
Cdd:cd02225  67 ALHTHE-VEEVFFVLQGrlTV---FWEDEGEEHERELGPRDMISVPAGVYRGFKNIGEEDALMQVMLGTGKPGRPTYP 140
cupin_CV2614-like cd02236
Chromobacterium violaceum CV2614 and related proteins, cupin domain; This family includes ...
 87-165 3.38e-03

Chromobacterium violaceum CV2614 and related proteins, cupin domain; This family includes mostly bacterial proteins homologous to CV2614, a Chromobacterium violaceum protein of unknown function. Proteins in this family belong to the cupin superfamily with a conserved "jelly roll-like" beta-barrel fold capable of homodimerization.


Pssm-ID: 380364 [Multi-domain]  Cd Length: 102  Bit Score: 35.93  E-value: 3.38e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15242028  87 VSLARLDLAGGGVIPLHTHPgASEVLVVIQGTIcagfissanKVYL-----KTLNRGDSMVFPQGLLHFQLNSGKGPALA 161
Cdd:cd02236  22 ITVLRITIPPGAELPWHTHP-VPNAGYVLSGEL---------TVEYedgkkRTFKAGDAFVEAVNTWHRGRNGGDEPVEL 91


                ....
gi 15242028 162 FVAF 165
Cdd:cd02236  92 LVFY 95
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH