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Conserved domains on  [gi|1063717079|ref|NP_001326111|]
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DUF399 family protein, putative (DUF399 and DUF3411) [Arabidopsis thaliana]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
RETICULATA-like pfam11891
Protein RETICULATA-related; This entry represents RETICULATA and related proteins from plants. ...
 260-444 2.49e-85

Protein RETICULATA-related; This entry represents RETICULATA and related proteins from plants. Arabidopsis RETICULATA protein is involved in differential development of bundle sheath and mesophyll cell chloroplasts.


:

Pssm-ID: 432167  Cd Length: 177  Bit Score: 261.36  E-value: 2.49e-85
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063717079 260 ERLLADPKFLNRLAIEEAISITTTLIAQYEKRKENFFEEIDYVITDTVRGSVVDFFTVWLPAPTLSFLSYADETTgpdsi 339
Cdd:pfam11891   1 ERLLADPSFLFKLLIEEAIGVGASLLAEYEKRGERFWNELDLVFADVVVGSVVNFALVWLLAPTRSYGSTSAFAG----- 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063717079 340 dALRGLLGSIPDNAFQKSLAGREWNLNLRIASVIVGGLKLAGVGVVSSFAAVGASNALNIARKVIKPELvvAEKPKRSPL 419
Cdd:pfam11891  76 -ALQNLLGSLPNNAFEKSYPGREFTLQQRIAAFFYKGAELAAVGFAAGLVGTGLSNALIALRKKMDPSF--EPSVKVPPV 152

                         170       180
                  ....*....|....*....|....*
gi 1063717079 420 LKTAMVYGGFLGTSANLRYQIIAGL 444
Cdd:pfam11891 153 VKNALGYGAFMGVSSNLRYQILAGL 177
Cofac_haem_bdg super family cl01139
Haem-binding uptake, Tiki superfamily, ChaN; This is a family of putative bacterial ...
 1-153 5.60e-28

Haem-binding uptake, Tiki superfamily, ChaN; This is a family of putative bacterial lipoproteins necessary for the uptake of haem-iron. The structure of UniProtKB:Q0PBW2, PDB:2g5g, comprises a large parallel beta-sheet with flanking alpha-helices and a smaller domain consisting of alpha-helices. Two cofacial haem groups (~3.5 Angstom apart with an inter-iron distance of 4.4 Angstrom) bind in a pocket formed by a dimer of two ChaN monomers.


The actual alignment was detected with superfamily member pfam04187:

Pssm-ID: 470093  Cd Length: 211  Bit Score: 111.20  E-value: 5.60e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063717079   1 MDGETLKSYV---THWPAqRWQEYEPLLSYCRDNSVRLIACGTPLKVLRTVQAEGIRGLSK-SERKLYTPPAGSGFISGF 76
Cdd:pfam04187  63 IDEAELLEELdwqRRWPN-DWALYRPLVEFARENGLPLVALNVPRELVRKVAREGLESLDPlPERARVSLPPLPDPPSEA 141

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1063717079  77 SSFSRRSTFDMSlpTQIVPFGPSSYLSAQARVVEDHTMSQVILQAVADGGGTglLLVVTGASHVEYgsrGTGLPARI 153
Cdd:pfam04187 142 YRARLLAVFGGH--HCGALPGESLERFVEAQVLWDATMAESIAQALKPNPRK--VVVIAGSGHVRY---GLGIPARL 211
 
Name Accession Description Interval E-value
RETICULATA-like pfam11891
Protein RETICULATA-related; This entry represents RETICULATA and related proteins from plants. ...
 260-444 2.49e-85

Protein RETICULATA-related; This entry represents RETICULATA and related proteins from plants. Arabidopsis RETICULATA protein is involved in differential development of bundle sheath and mesophyll cell chloroplasts.


Pssm-ID: 432167  Cd Length: 177  Bit Score: 261.36  E-value: 2.49e-85
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063717079 260 ERLLADPKFLNRLAIEEAISITTTLIAQYEKRKENFFEEIDYVITDTVRGSVVDFFTVWLPAPTLSFLSYADETTgpdsi 339
Cdd:pfam11891   1 ERLLADPSFLFKLLIEEAIGVGASLLAEYEKRGERFWNELDLVFADVVVGSVVNFALVWLLAPTRSYGSTSAFAG----- 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063717079 340 dALRGLLGSIPDNAFQKSLAGREWNLNLRIASVIVGGLKLAGVGVVSSFAAVGASNALNIARKVIKPELvvAEKPKRSPL 419
Cdd:pfam11891  76 -ALQNLLGSLPNNAFEKSYPGREFTLQQRIAAFFYKGAELAAVGFAAGLVGTGLSNALIALRKKMDPSF--EPSVKVPPV 152

                         170       180
                  ....*....|....*....|....*
gi 1063717079 420 LKTAMVYGGFLGTSANLRYQIIAGL 444
Cdd:pfam11891 153 VKNALGYGAFMGVSSNLRYQILAGL 177
Cofac_haem_bdg pfam04187
Haem-binding uptake, Tiki superfamily, ChaN; This is a family of putative bacterial ...
 1-153 5.60e-28

Haem-binding uptake, Tiki superfamily, ChaN; This is a family of putative bacterial lipoproteins necessary for the uptake of haem-iron. The structure of UniProtKB:Q0PBW2, PDB:2g5g, comprises a large parallel beta-sheet with flanking alpha-helices and a smaller domain consisting of alpha-helices. Two cofacial haem groups (~3.5 Angstom apart with an inter-iron distance of 4.4 Angstrom) bind in a pocket formed by a dimer of two ChaN monomers.


Pssm-ID: 461215  Cd Length: 211  Bit Score: 111.20  E-value: 5.60e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063717079   1 MDGETLKSYV---THWPAqRWQEYEPLLSYCRDNSVRLIACGTPLKVLRTVQAEGIRGLSK-SERKLYTPPAGSGFISGF 76
Cdd:pfam04187  63 IDEAELLEELdwqRRWPN-DWALYRPLVEFARENGLPLVALNVPRELVRKVAREGLESLDPlPERARVSLPPLPDPPSEA 141

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1063717079  77 SSFSRRSTFDMSlpTQIVPFGPSSYLSAQARVVEDHTMSQVILQAVADGGGTglLLVVTGASHVEYgsrGTGLPARI 153
Cdd:pfam04187 142 YRARLLAVFGGH--HCGALPGESLERFVEAQVLWDATMAESIAQALKPNPRK--VVVIAGSGHVRY---GLGIPARL 211
ChanN-like cd14727
ChaN is an iron-regulated, heme-binding protein; This family represents a domain found in ChaN, ...
 2-164 4.54e-17

ChaN is an iron-regulated, heme-binding protein; This family represents a domain found in ChaN, a heme-binding/iron-regulated lipoprotein from Campylobacter jejuni. ChaN, possibly involved in the uptake of heme-iron, contains a pair of cofacial heme groups situated between two ChaN monomers. A single tyrosine residue contacts the heme-bound iron atom while the heme-binding regions of each monomer also have contacts to the heme in the complementary monomer. ChaN presumably associates with an outer membrane-associated receptor, ChaR. Campylobacter jejuni is an important cause of food-borne illness, and is dependent on iron uptake from the host. ChaN like proteins are related to the Tiki/TraB like family of proteases. Proteins containing this domain also include protein reticulata-related from Arabidopsis which may play a role in leaf development.


Pssm-ID: 350609  Cd Length: 211  Bit Score: 79.95  E-value: 4.54e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063717079   2 DGETLKSYVTHWPAQrWQEYEPLLSYCRDNSVRLIACGTPLKVLRTVQAEGIRGLSKSERKLY------TPPAGSGFISG 75
Cdd:cd14727    58 EELELLDWARGWPNY-FTLYRPLFEFARENGLPVVALNVPREYVRKVAREGLESLDEEERALLpldidlPDPAYRARLEA 136

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063717079  76 FSSFSRRSTFDMSLPtqivPFgpssylsAQARVVEDHTMSQVILQAVADGGGtGLLLVVTGASHVEYGSrgtGLPARISR 155
Cdd:cd14727   137 VFGGHCGGLPEEMFE----NF-------VEAQALWDATMAESIAEALKANPG-GPVVVIAGSGHVRYGL---GIPARLAR 201


                  ....*....
gi 1063717079 156 KFPKKNQVV 164
Cdd:cd14727   202 RAPPKVAVV 210
 
Name Accession Description Interval E-value
RETICULATA-like pfam11891
Protein RETICULATA-related; This entry represents RETICULATA and related proteins from plants. ...
 260-444 2.49e-85

Protein RETICULATA-related; This entry represents RETICULATA and related proteins from plants. Arabidopsis RETICULATA protein is involved in differential development of bundle sheath and mesophyll cell chloroplasts.


Pssm-ID: 432167  Cd Length: 177  Bit Score: 261.36  E-value: 2.49e-85
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063717079 260 ERLLADPKFLNRLAIEEAISITTTLIAQYEKRKENFFEEIDYVITDTVRGSVVDFFTVWLPAPTLSFLSYADETTgpdsi 339
Cdd:pfam11891   1 ERLLADPSFLFKLLIEEAIGVGASLLAEYEKRGERFWNELDLVFADVVVGSVVNFALVWLLAPTRSYGSTSAFAG----- 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063717079 340 dALRGLLGSIPDNAFQKSLAGREWNLNLRIASVIVGGLKLAGVGVVSSFAAVGASNALNIARKVIKPELvvAEKPKRSPL 419
Cdd:pfam11891  76 -ALQNLLGSLPNNAFEKSYPGREFTLQQRIAAFFYKGAELAAVGFAAGLVGTGLSNALIALRKKMDPSF--EPSVKVPPV 152

                         170       180
                  ....*....|....*....|....*
gi 1063717079 420 LKTAMVYGGFLGTSANLRYQIIAGL 444
Cdd:pfam11891 153 VKNALGYGAFMGVSSNLRYQILAGL 177
Cofac_haem_bdg pfam04187
Haem-binding uptake, Tiki superfamily, ChaN; This is a family of putative bacterial ...
 1-153 5.60e-28

Haem-binding uptake, Tiki superfamily, ChaN; This is a family of putative bacterial lipoproteins necessary for the uptake of haem-iron. The structure of UniProtKB:Q0PBW2, PDB:2g5g, comprises a large parallel beta-sheet with flanking alpha-helices and a smaller domain consisting of alpha-helices. Two cofacial haem groups (~3.5 Angstom apart with an inter-iron distance of 4.4 Angstrom) bind in a pocket formed by a dimer of two ChaN monomers.


Pssm-ID: 461215  Cd Length: 211  Bit Score: 111.20  E-value: 5.60e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063717079   1 MDGETLKSYV---THWPAqRWQEYEPLLSYCRDNSVRLIACGTPLKVLRTVQAEGIRGLSK-SERKLYTPPAGSGFISGF 76
Cdd:pfam04187  63 IDEAELLEELdwqRRWPN-DWALYRPLVEFARENGLPLVALNVPRELVRKVAREGLESLDPlPERARVSLPPLPDPPSEA 141

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1063717079  77 SSFSRRSTFDMSlpTQIVPFGPSSYLSAQARVVEDHTMSQVILQAVADGGGTglLLVVTGASHVEYgsrGTGLPARI 153
Cdd:pfam04187 142 YRARLLAVFGGH--HCGALPGESLERFVEAQVLWDATMAESIAQALKPNPRK--VVVIAGSGHVRY---GLGIPARL 211
ChanN-like cd14727
ChaN is an iron-regulated, heme-binding protein; This family represents a domain found in ChaN, ...
 2-164 4.54e-17

ChaN is an iron-regulated, heme-binding protein; This family represents a domain found in ChaN, a heme-binding/iron-regulated lipoprotein from Campylobacter jejuni. ChaN, possibly involved in the uptake of heme-iron, contains a pair of cofacial heme groups situated between two ChaN monomers. A single tyrosine residue contacts the heme-bound iron atom while the heme-binding regions of each monomer also have contacts to the heme in the complementary monomer. ChaN presumably associates with an outer membrane-associated receptor, ChaR. Campylobacter jejuni is an important cause of food-borne illness, and is dependent on iron uptake from the host. ChaN like proteins are related to the Tiki/TraB like family of proteases. Proteins containing this domain also include protein reticulata-related from Arabidopsis which may play a role in leaf development.


Pssm-ID: 350609  Cd Length: 211  Bit Score: 79.95  E-value: 4.54e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063717079   2 DGETLKSYVTHWPAQrWQEYEPLLSYCRDNSVRLIACGTPLKVLRTVQAEGIRGLSKSERKLY------TPPAGSGFISG 75
Cdd:cd14727    58 EELELLDWARGWPNY-FTLYRPLFEFARENGLPVVALNVPREYVRKVAREGLESLDEEERALLpldidlPDPAYRARLEA 136

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063717079  76 FSSFSRRSTFDMSLPtqivPFgpssylsAQARVVEDHTMSQVILQAVADGGGtGLLLVVTGASHVEYGSrgtGLPARISR 155
Cdd:cd14727   137 VFGGHCGGLPEEMFE----NF-------VEAQALWDATMAESIAEALKANPG-GPVVVIAGSGHVRYGL---GIPARLAR 201


                  ....*....
gi 1063717079 156 KFPKKNQVV 164
Cdd:cd14727   202 RAPPKVAVV 210
MadM pfam03818
Malonate/sodium symporter MadM subunit;
382-444 4.87e-03

Malonate/sodium symporter MadM subunit;


Pssm-ID: 427524  Cd Length: 249  Bit Score: 38.77  E-value: 4.87e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1063717079 382 VGVVSSfAAVGASN---ALNIARKVIKPELVVAEKPKRSPLL-----KTAMVYGGFLGTSANlryqIIAGL 444
Cdd:pfam03818 146 VGPVTG-AALGASSeviALSIAAGVVKAILVMIGTPFVAKYIglnnpRSAMVFGGLMGTTSG----VAAGL 211
 
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.
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