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Conserved domains on  [gi|972775664|ref|NP_001305417|]
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trafficking protein particle complex subunit 4 isoform 3 [Homo sapiens]

Protein Classification

longin-like domain-containing protein( domain architecture ID 1000061)

longin-like domain-containing protein; 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

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
longin-like super family cl38905
Longin-like domains; Longin-like domains are small protein domains present in a variety of ...
 4-167 6.58e-39

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).


The actual alignment was detected with superfamily member cd14856:

Pssm-ID: 365781  Cd Length: 127  Bit Score: 129.17  E-value: 6.58e-39
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 972775664   4 FSVYVVNKAGGLIYQldsyapraeaeKTFSYPLdlllklhdervlvafgqrdgirvghavlaingmdvngrytadgkevl 83
Cdd:cd14856    1 YSLYIINKAGGLIYQ-----------KDFSDAL----------------------------------------------- 22

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 972775664  84 eylgnpanypvsirfgrPRLTSNEKLMLASMFHSLFAIGSQLSPEQGSSGIEMLETDTFKLHCYQTLT------------ 151
Cdd:cd14856   23 -----------------AKLSSNDYLRLASTFHGLHAIAAQLSPVPGSSGIELLETDTFRLHCFQTLTgikfvlvadpkq 85

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|..
gi 972775664 152 --------------------------EMPIRCELFDQNLKLA 167
Cdd:cd14856   86 pgldallrrvyelyadyvlknpfyelEMPIRCELFDENLQKL 127
 
Name Accession Description Interval E-value
TRAPPC4_synbindin cd14856
Trafficking protein particle complex subunit 4; Trafficking protein particle complex subunit 4 ...
 4-167 6.58e-39

Trafficking protein particle complex subunit 4; Trafficking protein particle complex subunit 4 (TRAPPC4), also known as synbindin or TRS23, has been identified as a component of the transport protein particle (TRAPP), required for tethering endoplasmic reticulum (ER)-derived vesicles to Golgi membranes and for Golgi traffic.


Pssm-ID: 341446  Cd Length: 127  Bit Score: 129.17  E-value: 6.58e-39
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 972775664   4 FSVYVVNKAGGLIYQldsyapraeaeKTFSYPLdlllklhdervlvafgqrdgirvghavlaingmdvngrytadgkevl 83
Cdd:cd14856    1 YSLYIINKAGGLIYQ-----------KDFSDAL----------------------------------------------- 22

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 972775664  84 eylgnpanypvsirfgrPRLTSNEKLMLASMFHSLFAIGSQLSPEQGSSGIEMLETDTFKLHCYQTLT------------ 151
Cdd:cd14856   23 -----------------AKLSSNDYLRLASTFHGLHAIAAQLSPVPGSSGIELLETDTFRLHCFQTLTgikfvlvadpkq 85

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|..
gi 972775664 152 --------------------------EMPIRCELFDQNLKLA 167
Cdd:cd14856   86 pgldallrrvyelyadyvlknpfyelEMPIRCELFDENLQKL 127
Sybindin pfam04099
Sybindin-like family; Sybindin is a physiological syndecan-2 ligand on dendritic spines, the ...
 97-171 2.05e-31

Sybindin-like family; Sybindin is a physiological syndecan-2 ligand on dendritic spines, the small protrusions on the surface of dendrites that receive the vast majority of excitatory synapses.


Pssm-ID: 282019  Cd Length: 134  Bit Score: 110.48  E-value: 2.05e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 972775664   97 RFGRPRLTSNEKLMLASMFHSLFAIGSQLSPEQGSSGIEMLETDTFKLHCYQTLT------------------------- 151
Cdd:pfam04099  21 RPKKTKLTTNEYKLLAGMLHSLHSISSKISPLPGSSGIESLETDTFKLHCLETLTgikfvlvtdpgtginrdsllrkyye 100

                          90       100       110
                  ....*....|....*....|....*....|....
gi 972775664  152 --------------EMPIRCELFDQNLKLALEVA 171
Cdd:pfam04099 101 lysdyvlknpfyslGMPIRCELFDEKLDQYVRSL 134
TRS23 COG5122
Transport protein particle (TRAPP) complex subunit [Intracellular trafficking and secretion];
99-169 9.52e-15

Transport protein particle (TRAPP) complex subunit [Intracellular trafficking and secretion];


Pssm-ID: 227451  Cd Length: 134  Bit Score: 67.23  E-value: 9.52e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 972775664  99 GRPRLTSNEKLMLASMFHSLFAIGSQLSPEQGSSGIEMLETDTFKLHCYQTLT--------------------------- 151
Cdd:COG5122   24 GETELNSNEYLILASTLHGVSAILTQTIPLPGSSGRLVLYFRNFVMTIFQTTTgtkfvfvaekrtvnalfqlqkiyslys 103

                         90       100
                 ....*....|....*....|....*....
gi 972775664 152 -----------EMPIRCELFDQNLKLALE 169
Cdd:COG5122  104 dyvtknpfyspEMPIQCSLFDEHLKRMFE 132
 
Name Accession Description Interval E-value
TRAPPC4_synbindin cd14856
Trafficking protein particle complex subunit 4; Trafficking protein particle complex subunit 4 ...
 4-167 6.58e-39

Trafficking protein particle complex subunit 4; Trafficking protein particle complex subunit 4 (TRAPPC4), also known as synbindin or TRS23, has been identified as a component of the transport protein particle (TRAPP), required for tethering endoplasmic reticulum (ER)-derived vesicles to Golgi membranes and for Golgi traffic.


Pssm-ID: 341446  Cd Length: 127  Bit Score: 129.17  E-value: 6.58e-39
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 972775664   4 FSVYVVNKAGGLIYQldsyapraeaeKTFSYPLdlllklhdervlvafgqrdgirvghavlaingmdvngrytadgkevl 83
Cdd:cd14856    1 YSLYIINKAGGLIYQ-----------KDFSDAL----------------------------------------------- 22

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 972775664  84 eylgnpanypvsirfgrPRLTSNEKLMLASMFHSLFAIGSQLSPEQGSSGIEMLETDTFKLHCYQTLT------------ 151
Cdd:cd14856   23 -----------------AKLSSNDYLRLASTFHGLHAIAAQLSPVPGSSGIELLETDTFRLHCFQTLTgikfvlvadpkq 85

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|..
gi 972775664 152 --------------------------EMPIRCELFDQNLKLA 167
Cdd:cd14856   86 pgldallrrvyelyadyvlknpfyelEMPIRCELFDENLQKL 127
Sybindin pfam04099
Sybindin-like family; Sybindin is a physiological syndecan-2 ligand on dendritic spines, the ...
 97-171 2.05e-31

Sybindin-like family; Sybindin is a physiological syndecan-2 ligand on dendritic spines, the small protrusions on the surface of dendrites that receive the vast majority of excitatory synapses.


Pssm-ID: 282019  Cd Length: 134  Bit Score: 110.48  E-value: 2.05e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 972775664   97 RFGRPRLTSNEKLMLASMFHSLFAIGSQLSPEQGSSGIEMLETDTFKLHCYQTLT------------------------- 151
Cdd:pfam04099  21 RPKKTKLTTNEYKLLAGMLHSLHSISSKISPLPGSSGIESLETDTFKLHCLETLTgikfvlvtdpgtginrdsllrkyye 100

                          90       100       110
                  ....*....|....*....|....*....|....
gi 972775664  152 --------------EMPIRCELFDQNLKLALEVA 171
Cdd:pfam04099 101 lysdyvlknpfyslGMPIRCELFDEKLDQYVRSL 134
TRS23 COG5122
Transport protein particle (TRAPP) complex subunit [Intracellular trafficking and secretion];
99-169 9.52e-15

Transport protein particle (TRAPP) complex subunit [Intracellular trafficking and secretion];


Pssm-ID: 227451  Cd Length: 134  Bit Score: 67.23  E-value: 9.52e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 972775664  99 GRPRLTSNEKLMLASMFHSLFAIGSQLSPEQGSSGIEMLETDTFKLHCYQTLT--------------------------- 151
Cdd:COG5122   24 GETELNSNEYLILASTLHGVSAILTQTIPLPGSSGRLVLYFRNFVMTIFQTTTgtkfvfvaekrtvnalfqlqkiyslys 103

                         90       100
                 ....*....|....*....|....*....
gi 972775664 152 -----------EMPIRCELFDQNLKLALE 169
Cdd:COG5122  104 dyvtknpfyspEMPIQCSLFDEHLKRMFE 132
TRAPPC_longin-like cd14853
Longin-like domains of Trafficking protein particle complex; Longin-like domains of a ...
 103-153 6.89e-07

Longin-like domains of Trafficking protein particle complex; Longin-like domains of a subfamily of core components of the trafficking protein particle complex (TRAPP), including TRAPPC2, TRAPPC4, TRAPPC1 and a TRAPPC2L, whose function is not known. TRAPP complexes are required for tethering endoplasmic reticulum (ER)-derived vesicles to Golgi membranes and for Golgi traffic.


Pssm-ID: 341443  Cd Length: 132  Bit Score: 46.32  E-value: 6.89e-07
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|.
gi 972775664 103 LTSNEKLMLASMFHSLFAIGSQLSPEQGSSGIEMLETDTFKLHCYQTLTEM 153
Cdd:cd14853   27 DNEEEYKLLAGMLHSVRSINSKLSPNVEKYLKLSDKTNEYKVHAYVTATGL 77
TRAPPC1_MUM2 cd14855
Trafficking protein particle complex subunit 1; Trafficking protein particle complex subunit 1 ...
 97-151 6.50e-05

Trafficking protein particle complex subunit 1; Trafficking protein particle complex subunit 1 (TRAPPC1), also known as MUM2 and BET5, has been identified as a component of the transport protein particle (TRAPP), required for tethering endoplasmic reticulum (ER)-derived vesicles to Golgi membranes and for Golgi traffic.


Pssm-ID: 341445  Cd Length: 132  Bit Score: 40.99  E-value: 6.50e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 972775664  97 RFGRPRLTSNE----KLMLAsMFHSLFAIGSQLSPEQGSSGIEMLETDTFKLHCYQTLT 151
Cdd:cd14855   20 RPKQSSNGKSEeeeqKLMFG-LLFSLKSFVRKISPTDDTCGFHSYTTNKYKLHYYETPT 77
 
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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