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Conserved domains on  [gi|972775491|ref|NP_001305415|]
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trafficking protein particle complex subunit 4 isoform 2 [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 ...
 45-99 1.80e-33

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: 112.61  E-value: 1.80e-33
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 972775491  45 TRIKFVVLADPRQAGIDSLLRKIYEIYSDFALKNPFYSLEMPIRCELFDQNLKLA 99
Cdd:cd14856   73 TGIKFVLVADPKQPGLDALLRRVYELYADYVLKNPFYELEMPIRCELFDENLQKL 127
 
Name Accession Description Interval E-value
TRAPPC4_synbindin cd14856
Trafficking protein particle complex subunit 4; Trafficking protein particle complex subunit 4 ...
 45-99 1.80e-33

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: 112.61  E-value: 1.80e-33
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 972775491  45 TRIKFVVLADPRQAGIDSLLRKIYEIYSDFALKNPFYSLEMPIRCELFDQNLKLA 99
Cdd:cd14856   73 TGIKFVLVADPKQPGLDALLRRVYELYADYVLKNPFYELEMPIRCELFDENLQKL 127
Sybindin pfam04099
Sybindin-like family; Sybindin is a physiological syndecan-2 ligand on dendritic spines, the ...
 45-103 1.95e-27

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: 97.77  E-value: 1.95e-27
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 972775491   45 TRIKFVVLADPRQ-AGIDSLLRKIYEIYSDFALKNPFYSLEMPIRCELFDQNLKLALEVA 103
Cdd:pfam04099  75 TGIKFVLVTDPGTgINRDSLLRKYYELYSDYVLKNPFYSLGMPIRCELFDEKLDQYVRSL 134
TRS23 COG5122
Transport protein particle (TRAPP) complex subunit [Intracellular trafficking and secretion];
45-101 1.18e-16

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


Pssm-ID: 227451  Cd Length: 134  Bit Score: 69.93  E-value: 1.18e-16
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 972775491  45 TRIKFVVLADPRQAGIDSLLRKIYEIYSDFALKNPFYSLEMPIRCELFDQNLKLALE 101
Cdd:COG5122   76 TGTKFVFVAEKRTVNALFQLQKIYSLYSDYVTKNPFYSPEMPIQCSLFDEHLKRMFE 132
 
Name Accession Description Interval E-value
TRAPPC4_synbindin cd14856
Trafficking protein particle complex subunit 4; Trafficking protein particle complex subunit 4 ...
 45-99 1.80e-33

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: 112.61  E-value: 1.80e-33
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 972775491  45 TRIKFVVLADPRQAGIDSLLRKIYEIYSDFALKNPFYSLEMPIRCELFDQNLKLA 99
Cdd:cd14856   73 TGIKFVLVADPKQPGLDALLRRVYELYADYVLKNPFYELEMPIRCELFDENLQKL 127
Sybindin pfam04099
Sybindin-like family; Sybindin is a physiological syndecan-2 ligand on dendritic spines, the ...
 45-103 1.95e-27

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: 97.77  E-value: 1.95e-27
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 972775491   45 TRIKFVVLADPRQ-AGIDSLLRKIYEIYSDFALKNPFYSLEMPIRCELFDQNLKLALEVA 103
Cdd:pfam04099  75 TGIKFVLVTDPGTgINRDSLLRKYYELYSDYVLKNPFYSLGMPIRCELFDEKLDQYVRSL 134
TRS23 COG5122
Transport protein particle (TRAPP) complex subunit [Intracellular trafficking and secretion];
45-101 1.18e-16

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


Pssm-ID: 227451  Cd Length: 134  Bit Score: 69.93  E-value: 1.18e-16
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 972775491  45 TRIKFVVLADPRQAGIDSLLRKIYEIYSDFALKNPFYSLEMPIRCELFDQNLKLALE 101
Cdd:COG5122   76 TGTKFVFVAEKRTVNALFQLQKIYSLYSDYVTKNPFYSPEMPIQCSLFDEHLKRMFE 132
TRAPPC1_MUM2 cd14855
Trafficking protein particle complex subunit 1; Trafficking protein particle complex subunit 1 ...
 45-96 5.34e-11

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: 55.25  E-value: 5.34e-11
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 972775491  45 TRIKFVVLADPRQAGIDSLLRKIY-EIYSDFALKNPFYSLEMPIRCELFDQNL 96
Cdd:cd14855   77 TGLKFVLLTDPNVGDLRDVLQQIYsNIYVEYVVKNPLYPPGEPITSELFRSKL 129
Sedlin_N pfam04628
Sedlin, N-terminal conserved region; Mutations in this protein are associated with the ...
 45-99 1.01e-07

Sedlin, N-terminal conserved region; Mutations in this protein are associated with the X-linked spondyloepiphyseal dysplasia tarda syndrome (OMIM:313400). This family represents an N-terminal conserved region.


Pssm-ID: 335859  Cd Length: 129  Bit Score: 46.87  E-value: 1.01e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 972775491   45 TRIKFVVLADPRQ---AGIDSLLRKIYEIYSDFALkNPFYSLEMPIRCELFDQNLKLA 99
Cdd:pfam04628  70 SHIKFILVHESSTksdENIKQFFQEVHELYVKTLM-NPFYKPNDPIRSPAFDKKVRKL 126
TRAPPC2_sedlin cd14825
Trafficking protein particle complex subunit 2; Trafficking protein particle complex subunit 2 ...
 46-99 2.74e-07

Trafficking protein particle complex subunit 2; Trafficking protein particle complex subunit 2 (TRAPPC2), also known as Sedlin (SEDL) or TRS20, 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. In humans, deletions or point mutations in the SEDL gene cause the genetic disease spondyloepiphyseal dysplasia tarda (SEDT), an X-linked skeletal disorder.


Pssm-ID: 341429  Cd Length: 135  Bit Score: 45.60  E-value: 2.74e-07
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 972775491  46 RIKFVVLADPRQ-AGIDSLLRKIYEIYSDFALkNPFYSLEMPIRCELFDQNLKLA 99
Cdd:cd14825   77 NIRFLLLHDNKNdDGIKNFFQEVYELYVKILM-NPFYEPNTPIRSPAFDRRVRAL 130
TRAPPC_longin-like cd14853
Longin-like domains of Trafficking protein particle complex; Longin-like domains of a ...
 45-97 4.97e-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: 45.17  E-value: 4.97e-07
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 972775491  45 TRIKFVVLADPRQAGI-DSLLRKIYEIYSDFALKNPFYSLEM--PIRCELFDQNLK 97
Cdd:cd14853   75 TGLKFVMLTDVLMDRIeDVLKNFFSDLYVLYVKKNPNPFYEPnsPIRSRLFDSKVQ 130
TRAPPC2L cd14854
Trafficking protein particle complex subunit 2-like; Trafficking protein particle complex ...
 43-97 1.57e-06

Trafficking protein particle complex subunit 2-like; Trafficking protein particle complex subunit 2-like (TRAPPC2L) is related to TRAPPC2. Its function is not known, but there are indications that it is part of the TRAPP II complex, which is required for distinct tethering events at Golgi membranes. TRAPPC2 has been identified as a general component of transport protein particle (TRAPP), required for tethering endoplasmic reticulum (ER)-derived vesicles to Golgi membranes and for Golgi traffic.


Pssm-ID: 341444  Cd Length: 135  Bit Score: 43.73  E-value: 1.57e-06
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 972775491  43 CSTRIKFVVL-----ADPRQAGIDSLLRKIYEIYSDfALKNPFYSLEMPIRCELFDQNLK 97
Cdd:cd14854   73 TNTKVKFILVledtnTPLRDNDVRTLFRRLHNAYVD-AVSNPFYPPGTPITSKKFDRRVD 131
 
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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