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Conserved domains on  [gi|18406956|ref|NP_564767|]
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SNARE-like superfamily protein [Arabidopsis thaliana]

Protein Classification

coatomer subunit zeta( domain architecture ID 13000590)

coatomer subunit zeta is a component of the coatomer, a cytosolic protein complex that binds to dilysine motifs and reversibly associates with Golgi non-clathrin-coated vesicles, which further mediate biosynthetic protein transport from the ER, via the Golgi up to the trans Golgi network

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Zeta-COP cd14829
zeta subunit of the F-COPI complex; Zeta subunit of the heterotetrameric F-COPI complex, which ...
 8-143 3.15e-71

zeta subunit of the F-COPI complex; Zeta subunit of the heterotetrameric F-COPI complex, which consists of one beta-, one gamma-, one delta-, and one zeta subunit, where beta- and gamma- subunits are related to the large adaptor protein (AP) complex subunits, and delta- and zeta- subunits are related to the medium and small AP subunits, respectively. F-COPI forms a coatomer together with the B-COPI subcomplex, which assembles with a small GTPase, ADP-ribosylation factor 1 (ARF1), playing an important role in the formation of COPI complex-coated vesicles. COPI complex-coated vesicles function in the early secretory pathway mediating the retrograde transport from the Golgi to the ER, and intra-Golgi transport.


:

Pssm-ID: 341433  Cd Length: 132  Bit Score: 211.25  E-value: 3.15e-71
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18406956   8 KNILLLDSEGKRVAVKYYSDDWPTNSAQEAFEKSVFTKTQKTNArtevEVTALENNIVVYKFVQDLHFFVTGGEEENELI 87
Cdd:cd14829   1 KAILILDNDGKRVLAKYYDDTFPTVKEQKAFEKKLFDKTHKANA----EIILLDGLTVVYKSNIDLTFYVVGSSDENELI 76

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|....*.
gi 18406956  88 LASVLEGLFDAVTLLLRSNVDKREALDNLDLIFLSFDEIIDGGIVLETDANVIAGK 143
Cdd:cd14829  77 LASVLNCLYDALSLLLRKNVEKRALLENLDLVLLALDEIVDGGIILETDPTAIASR 132
 
Name Accession Description Interval E-value
Zeta-COP cd14829
zeta subunit of the F-COPI complex; Zeta subunit of the heterotetrameric F-COPI complex, which ...
 8-143 3.15e-71

zeta subunit of the F-COPI complex; Zeta subunit of the heterotetrameric F-COPI complex, which consists of one beta-, one gamma-, one delta-, and one zeta subunit, where beta- and gamma- subunits are related to the large adaptor protein (AP) complex subunits, and delta- and zeta- subunits are related to the medium and small AP subunits, respectively. F-COPI forms a coatomer together with the B-COPI subcomplex, which assembles with a small GTPase, ADP-ribosylation factor 1 (ARF1), playing an important role in the formation of COPI complex-coated vesicles. COPI complex-coated vesicles function in the early secretory pathway mediating the retrograde transport from the Golgi to the ER, and intra-Golgi transport.


Pssm-ID: 341433  Cd Length: 132  Bit Score: 211.25  E-value: 3.15e-71
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18406956   8 KNILLLDSEGKRVAVKYYSDDWPTNSAQEAFEKSVFTKTQKTNArtevEVTALENNIVVYKFVQDLHFFVTGGEEENELI 87
Cdd:cd14829   1 KAILILDNDGKRVLAKYYDDTFPTVKEQKAFEKKLFDKTHKANA----EIILLDGLTVVYKSNIDLTFYVVGSSDENELI 76

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|....*.
gi 18406956  88 LASVLEGLFDAVTLLLRSNVDKREALDNLDLIFLSFDEIIDGGIVLETDANVIAGK 143
Cdd:cd14829  77 LASVLNCLYDALSLLLRKNVEKRALLENLDLVLLALDEIVDGGIILETDPTAIASR 132
RET3 COG5541
Vesicle coat complex COPI, zeta subunit [Posttranslational modification, protein turnover, ...
 7-177 1.04e-24

Vesicle coat complex COPI, zeta subunit [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 227828  Cd Length: 187  Bit Score: 94.62  E-value: 1.04e-24
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18406956   7 VKNILLLDSEGKRVAVKYYSDDWPT-------NSA--QEAFEKSVFTKTQKTNArtevEVTALENNIVVYKFVQDLHFFV 77
Cdd:COG5541   8 VEALLILDSQGERIYRKYYQPPHRSeghqlvfNSVkkEKEFEKKLAEKTAKDRE----SILMFYDRLVMCKRLDDVLLYI 83

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18406956  78 TGGEEENELILASVLEGLFDAVTLLLRSNVDKREALDNLDLIFLSFDEIIDGGIVLETDANVIAGKAGINST-DPNAPLS 156
Cdd:COG5541  84 VSPMEENEPFLGQVFDEIRAALILIVKTPTDKRNVWENYDQIVLLVDETIDEGVILETKSDEIADRVPKPPNfEGQDGMK 163

                       170       180
                ....*....|....*....|..
gi 18406956 157 -EQTISQALATAREHLTRSLMK 177
Cdd:COG5541 164 vPRGFASFLHKATKKLSERSNK 185
Clat_adaptor_s pfam01217
Clathrin adaptor complex small chain;
7-140 8.85e-16

Clathrin adaptor complex small chain;


Pssm-ID: 460115  Cd Length: 142  Bit Score: 70.08  E-value: 8.85e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18406956     7 VKNILLLDSEGKRVAVKYYsDDWPTNSAQEAFEKSVFTKTQKTNARTEVevTALENNIVVYKFVQDLHFFVTGGEEENEL 86
Cdd:pfam01217   2 IKAILIFNRQGKPRLAKWY-TPYSDPEQQKLIEQIYALISARKPKMSNF--IEFNDLKVIYKRYATLYFVVIVDDQDNEL 78

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....
gi 18406956    87 ILASVLEGLFDAVTLLLRsNVDKREALDNLDLIFLSFDEIIDGGIVLETDANVI 140
Cdd:pfam01217  79 IILELIHRFVESLDRYFG-NVCELDLIFNFEKVYLILDEMVMGGEILETSKNEV 131
 
Name Accession Description Interval E-value
Zeta-COP cd14829
zeta subunit of the F-COPI complex; Zeta subunit of the heterotetrameric F-COPI complex, which ...
 8-143 3.15e-71

zeta subunit of the F-COPI complex; Zeta subunit of the heterotetrameric F-COPI complex, which consists of one beta-, one gamma-, one delta-, and one zeta subunit, where beta- and gamma- subunits are related to the large adaptor protein (AP) complex subunits, and delta- and zeta- subunits are related to the medium and small AP subunits, respectively. F-COPI forms a coatomer together with the B-COPI subcomplex, which assembles with a small GTPase, ADP-ribosylation factor 1 (ARF1), playing an important role in the formation of COPI complex-coated vesicles. COPI complex-coated vesicles function in the early secretory pathway mediating the retrograde transport from the Golgi to the ER, and intra-Golgi transport.


Pssm-ID: 341433  Cd Length: 132  Bit Score: 211.25  E-value: 3.15e-71
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18406956   8 KNILLLDSEGKRVAVKYYSDDWPTNSAQEAFEKSVFTKTQKTNArtevEVTALENNIVVYKFVQDLHFFVTGGEEENELI 87
Cdd:cd14829   1 KAILILDNDGKRVLAKYYDDTFPTVKEQKAFEKKLFDKTHKANA----EIILLDGLTVVYKSNIDLTFYVVGSSDENELI 76

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|....*.
gi 18406956  88 LASVLEGLFDAVTLLLRSNVDKREALDNLDLIFLSFDEIIDGGIVLETDANVIAGK 143
Cdd:cd14829  77 LASVLNCLYDALSLLLRKNVEKRALLENLDLVLLALDEIVDGGIILETDPTAIASR 132
RET3 COG5541
Vesicle coat complex COPI, zeta subunit [Posttranslational modification, protein turnover, ...
 7-177 1.04e-24

Vesicle coat complex COPI, zeta subunit [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 227828  Cd Length: 187  Bit Score: 94.62  E-value: 1.04e-24
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18406956   7 VKNILLLDSEGKRVAVKYYSDDWPT-------NSA--QEAFEKSVFTKTQKTNArtevEVTALENNIVVYKFVQDLHFFV 77
Cdd:COG5541   8 VEALLILDSQGERIYRKYYQPPHRSeghqlvfNSVkkEKEFEKKLAEKTAKDRE----SILMFYDRLVMCKRLDDVLLYI 83

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18406956  78 TGGEEENELILASVLEGLFDAVTLLLRSNVDKREALDNLDLIFLSFDEIIDGGIVLETDANVIAGKAGINST-DPNAPLS 156
Cdd:COG5541  84 VSPMEENEPFLGQVFDEIRAALILIVKTPTDKRNVWENYDQIVLLVDETIDEGVILETKSDEIADRVPKPPNfEGQDGMK 163

                       170       180
                ....*....|....*....|..
gi 18406956 157 -EQTISQALATAREHLTRSLMK 177
Cdd:COG5541 164 vPRGFASFLHKATKKLSERSNK 185
AP_longin-like cd14823
Longin-like domains of AP complex subunits; AP complex sigma subunits are part of the ...
 10-140 1.29e-20

Longin-like domains of AP complex subunits; AP complex sigma subunits are part of the heterotetrameric adaptor protein (AP) complex which consists of one large subunit (alpha-, gamma-, delta- or epsilon), one beta-, one mu-, and one sigma-subunit. In general, AP complexes link the cytosolic domains of the cargo proteins to the protein coat that induces vesicle budding in the donor compartment during vesicle transport. In most cases the coat protein is clathrin (AP1 and AP2 complex), but some of the other members of the AP complex family are associated with nonclathrin coats. The sigma subunit is comprised of a single longin domain and plays a role in binding dileucine-based sorting signals.


Pssm-ID: 341427  Cd Length: 131  Bit Score: 82.57  E-value: 1.29e-20
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18406956  10 ILLLDSEGKRVAVKYYSDDWPTNSAQEAFEKSVFTKTQktnaRTEVEVTALENNIVVYKFVQDLHFFVTGGEEENELILA 89
Cdd:cd14823   3 ILVLDNDGKRLFAKYYDDTYPSVKEQKAFEKNIFNKKH----RTDSEIVLLEGLRVVYKSSIDLYFVVIGSKNENELLLL 78

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|.
gi 18406956  90 SVLEGLFDAVTLLLRsNVDKREALDNLDLIFLSFDEIIDGGIVLETDANVI 140
Cdd:cd14823  79 EVLNCLVDVLSEYFR-KVEERAILENFEGLYFALDEIVDGGYIQETDPKQV 128
Clat_adaptor_s pfam01217
Clathrin adaptor complex small chain;
7-140 8.85e-16

Clathrin adaptor complex small chain;


Pssm-ID: 460115  Cd Length: 142  Bit Score: 70.08  E-value: 8.85e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18406956     7 VKNILLLDSEGKRVAVKYYsDDWPTNSAQEAFEKSVFTKTQKTNARTEVevTALENNIVVYKFVQDLHFFVTGGEEENEL 86
Cdd:pfam01217   2 IKAILIFNRQGKPRLAKWY-TPYSDPEQQKLIEQIYALISARKPKMSNF--IEFNDLKVIYKRYATLYFVVIVDDQDNEL 78

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....
gi 18406956    87 ILASVLEGLFDAVTLLLRsNVDKREALDNLDLIFLSFDEIIDGGIVLETDANVI 140
Cdd:pfam01217  79 IILELIHRFVESLDRYFG-NVCELDLIFNFEKVYLILDEMVMGGEILETSKNEV 131
longin-like cd14818
Longin-like domains; Longin-like domains are small protein domains present in a variety of ...
 8-126 6.10e-12

Longin-like domains; Longin-like domains are small protein domains present in a variety of proteins and members of protein complexes involved in or required for different steps during the transport of proteins from the ribosome to the ER to the plasma membrane, via the Golgi apparatus. Examples are mu and sigma subunits of the heterotetrameric adaptor protein (AP) complex, zeta and delta subunits of the heterotetrameric F-COPI complex, a subgroup of R-SNARE proteins, a subfamily of the transport protein particle (TRAPP), and the signal recognition particle receptor subunit alpha (SR-alpha).


Pssm-ID: 341426  Cd Length: 117  Bit Score: 59.46  E-value: 6.10e-12
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18406956   8 KNILLLDSEGKRVAVKYYSDDWPTNSAQEAFEKSVFTKTQKTnaRTEVEVTALENNIVVYKFVQDLHFFVTGGEEENELI 87
Cdd:cd14818   1 LQLAVFDPQGQVLAASNWLGKKPSVKFSLIQIKSFFSKLITS--GFDFLTLTIGSYTFHYYLNKGLYFVVITDEQELRQE 78

                        90       100       110
                ....*....|....*....|....*....|....*....
gi 18406956  88 LASVLEGLFDAVTLLLRSNVDKREALDNLDLIFLSFDEI 126
Cdd:cd14818  79 LFQTLNLLLKEFNSLHGSEVITKNIEDDLEEFESYLDIK 117
AP_Mu_N cd14828
AP complex subunit mu N-terminal domain; AP complex mu subunits are part of the ...
 105-140 3.22e-03

AP complex subunit mu N-terminal domain; AP complex mu subunits are part of the heterotetrameric adaptor protein (AP) complex which consists of one large subunit (alpha-, gamma-, delta- or epsilon), one beta-, one mu-, and one sigma-subunit. In general, AP complexes link the cytosolic domains of the cargo proteins to the protein coat that induces vesicle budding in the donor compartment during vesicle transport. In most cases the coat protein is clathrin (AP1 and AP2 complex), but some of the other members of the AP complex family are associated with nonclathrin coats. The mu subunit is comprised of an N-terminal longin domain followed by a C-terminal domain which is involved in the binding of the Y-X-X-Phi sorting signal.


Pssm-ID: 341432  Cd Length: 136  Bit Score: 36.02  E-value: 3.22e-03
                        10        20        30
                ....*....|....*....|....*....|....*.
gi 18406956 105 SNVDKREALDNLDLIFLSFDEIIDGGIVLETDANVI 140
Cdd:cd14828  95 KKLDKNSIIDNFVLIYELIDESIDFGIIQLTDYNIL 130
 
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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