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Conserved domains on  [gi|1822412639|ref|XP_032825741|]
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conserved oligomeric Golgi complex subunit 5 [Petromyzon marinus]

Protein Classification

conserved oligomeric Golgi complex subunit 5( domain architecture ID 10564031)

conserved oligomeric Golgi complex subunit 5 (COG5) is a component of the conserved oligomeric Golgi complex (COG), and is required for normal Golgi function

Gene Ontology:  GO:0070085|GO:0007030|GO:0048219|GO:0006891|GO:0015031

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
COG5 pfam10392
Golgi transport complex subunit 5; The COG complex, the peripheral membrane oligomeric protein ...
 41-163 1.31e-31

Golgi transport complex subunit 5; The COG complex, the peripheral membrane oligomeric protein complex involved in intra-Golgi protein trafficking, consists of eight subunits arranged in two lobes bridged by Cog1. Cog5 is in the smaller, B lobe, bound in with Cog6-8, and is itself bound to Cog1 as well as, strongly, to Cog7.


:

Pssm-ID: 192566  Cd Length: 132  Bit Score: 119.72  E-value: 1.31e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1822412639  41 DFANEEFDVRGYTTRALQGA--------DTASQLARLAQGVALLDAELRAQVSDRHEDLLAQATGIESLEGVLQMMQARI 112
Cdd:pfam10392   2 AFLDPDFDPKSFANALLLATnnnddtplDLSTPLKRLNYDIQELDRRIRTLITSNHLELLSHLSSIKSASSILSTLKSSL 81

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1822412639 113 SALQSAVDRIRVKIVEPYNKIVARTAQLARLQAACDLLRRIIRILYLSKRL 163
Cdd:pfam10392  82 EYLSASYERLKSDVLEPYERALKLQSALKRLHQTTDLLRALLRFLHLSRQL 132
SMC_prok_B super family cl37069
chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of ...
 43-302 2.47e-03

chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle. [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]


The actual alignment was detected with superfamily member TIGR02168:

Pssm-ID: 274008 [Multi-domain]  Cd Length: 1179  Bit Score: 41.58  E-value: 2.47e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1822412639   43 ANEEFDVRGYTTRALQGADTASQLARLAQGVALLDAELrAQVSDRHEDLLAQatgIESLEGVLQMMQARISALQSAVDRI 122
Cdd:TIGR02168  309 ERLANLERQLEELEAQLEELESKLDELAEELAELEEKL-EELKEELESLEAE---LEELEAELEELESRLEELEEQLETL 384

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1822412639  123 RVKIVEPY-------NKIVARTAQLARLQAACDLLRRIIRILyLSKRLQAQLQGGSREISKAAQSLNELDyLCQGVDLSG 195
Cdd:TIGR02168  385 RSKVAQLElqiaslnNEIERLEARLERLEDRRERLQQEIEEL-LKKLEEAELKELQAELEELEEELEELQ-EELERLEEA 462

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1822412639  196 VEVIAGDLVFIARARGEVEAQGSRLLQ-----QGMETQNPTQVGTALQVFHNLGGLATTVGRVLESARATlhEQTRRALD 270
Cdd:TIGR02168  463 LEELREELEEAEQALDAAERELAQLQArldslERLQENLEGFSEGVKALLKNQSGLSGILGVLSELISVD--EGYEAAIE 540

                          250       260       270
                   ....*....|....*....|....*....|..
gi 1822412639  271 AralsqAVGGSRGstpgrtSMVAPGNSAAFRA 302
Cdd:TIGR02168  541 A-----ALGGRLQ------AVVVENLNAAKKA 561
 
Name Accession Description Interval E-value
COG5 pfam10392
Golgi transport complex subunit 5; The COG complex, the peripheral membrane oligomeric protein ...
 41-163 1.31e-31

Golgi transport complex subunit 5; The COG complex, the peripheral membrane oligomeric protein complex involved in intra-Golgi protein trafficking, consists of eight subunits arranged in two lobes bridged by Cog1. Cog5 is in the smaller, B lobe, bound in with Cog6-8, and is itself bound to Cog1 as well as, strongly, to Cog7.


Pssm-ID: 192566  Cd Length: 132  Bit Score: 119.72  E-value: 1.31e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1822412639  41 DFANEEFDVRGYTTRALQGA--------DTASQLARLAQGVALLDAELRAQVSDRHEDLLAQATGIESLEGVLQMMQARI 112
Cdd:pfam10392   2 AFLDPDFDPKSFANALLLATnnnddtplDLSTPLKRLNYDIQELDRRIRTLITSNHLELLSHLSSIKSASSILSTLKSSL 81

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1822412639 113 SALQSAVDRIRVKIVEPYNKIVARTAQLARLQAACDLLRRIIRILYLSKRL 163
Cdd:pfam10392  82 EYLSASYERLKSDVLEPYERALKLQSALKRLHQTTDLLRALLRFLHLSRQL 132
SMC_prok_B TIGR02168
chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of ...
 43-302 2.47e-03

chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle. [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]


Pssm-ID: 274008 [Multi-domain]  Cd Length: 1179  Bit Score: 41.58  E-value: 2.47e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1822412639   43 ANEEFDVRGYTTRALQGADTASQLARLAQGVALLDAELrAQVSDRHEDLLAQatgIESLEGVLQMMQARISALQSAVDRI 122
Cdd:TIGR02168  309 ERLANLERQLEELEAQLEELESKLDELAEELAELEEKL-EELKEELESLEAE---LEELEAELEELESRLEELEEQLETL 384

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1822412639  123 RVKIVEPY-------NKIVARTAQLARLQAACDLLRRIIRILyLSKRLQAQLQGGSREISKAAQSLNELDyLCQGVDLSG 195
Cdd:TIGR02168  385 RSKVAQLElqiaslnNEIERLEARLERLEDRRERLQQEIEEL-LKKLEEAELKELQAELEELEEELEELQ-EELERLEEA 462

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1822412639  196 VEVIAGDLVFIARARGEVEAQGSRLLQ-----QGMETQNPTQVGTALQVFHNLGGLATTVGRVLESARATlhEQTRRALD 270
Cdd:TIGR02168  463 LEELREELEEAEQALDAAERELAQLQArldslERLQENLEGFSEGVKALLKNQSGLSGILGVLSELISVD--EGYEAAIE 540

                          250       260       270
                   ....*....|....*....|....*....|..
gi 1822412639  271 AralsqAVGGSRGstpgrtSMVAPGNSAAFRA 302
Cdd:TIGR02168  541 A-----ALGGRLQ------AVVVENLNAAKKA 561
 
Name Accession Description Interval E-value
COG5 pfam10392
Golgi transport complex subunit 5; The COG complex, the peripheral membrane oligomeric protein ...
 41-163 1.31e-31

Golgi transport complex subunit 5; The COG complex, the peripheral membrane oligomeric protein complex involved in intra-Golgi protein trafficking, consists of eight subunits arranged in two lobes bridged by Cog1. Cog5 is in the smaller, B lobe, bound in with Cog6-8, and is itself bound to Cog1 as well as, strongly, to Cog7.


Pssm-ID: 192566  Cd Length: 132  Bit Score: 119.72  E-value: 1.31e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1822412639  41 DFANEEFDVRGYTTRALQGA--------DTASQLARLAQGVALLDAELRAQVSDRHEDLLAQATGIESLEGVLQMMQARI 112
Cdd:pfam10392   2 AFLDPDFDPKSFANALLLATnnnddtplDLSTPLKRLNYDIQELDRRIRTLITSNHLELLSHLSSIKSASSILSTLKSSL 81

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1822412639 113 SALQSAVDRIRVKIVEPYNKIVARTAQLARLQAACDLLRRIIRILYLSKRL 163
Cdd:pfam10392  82 EYLSASYERLKSDVLEPYERALKLQSALKRLHQTTDLLRALLRFLHLSRQL 132
Vps51 pfam08700
Vps51/Vps67; This family includes a presumed domain found in a number of components of ...
 42-123 1.27e-09

Vps51/Vps67; This family includes a presumed domain found in a number of components of vesicular transport. The VFT tethering complex (also known as GARP complex, Golgi associated retrograde protein complex, Vps53 tethering complex) is a conserved eukaryotic docking complex which is involved recycling of proteins from endosomes to the late Golgi. Vps51 (also known as Vps67) is a subunit of VFT and interacts with the SNARE Tlg1. Cog1_N is the N-terminus of the Cog1 subunit of the eight-unit Conserved Oligomeric Golgi (COG) complex that participates in retrograde vesicular transport and is required to maintain normal Golgi structure and function. The subunits are located in two lobes and Cog1 serves to bind the two lobes together probably via the highly conserved N-terminal domain of approximately 85 residues.


Pssm-ID: 462568  Cd Length: 86  Bit Score: 55.36  E-value: 1.27e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1822412639  42 FANEEFDVRGYTTRALQGAdTASQL----ARLAQGVALLDAELRAQVSDRHEDLLAQATGIESLEGVLQMMQARISALQS 117
Cdd:pfam08700   1 LDSPSFDADRYVSELLSKA-TLEELlqfeSSLRSEIERLDSELKQLVYDNYRDLIKAADTISKMKSEMEQLSQKLSELKQ 79


                  ....*.
gi 1822412639 118 AVDRIR 123
Cdd:pfam08700  80 ALSKIA 85
SMC_prok_B TIGR02168
chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of ...
 43-302 2.47e-03

chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle. [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]


Pssm-ID: 274008 [Multi-domain]  Cd Length: 1179  Bit Score: 41.58  E-value: 2.47e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1822412639   43 ANEEFDVRGYTTRALQGADTASQLARLAQGVALLDAELrAQVSDRHEDLLAQatgIESLEGVLQMMQARISALQSAVDRI 122
Cdd:TIGR02168  309 ERLANLERQLEELEAQLEELESKLDELAEELAELEEKL-EELKEELESLEAE---LEELEAELEELESRLEELEEQLETL 384

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1822412639  123 RVKIVEPY-------NKIVARTAQLARLQAACDLLRRIIRILyLSKRLQAQLQGGSREISKAAQSLNELDyLCQGVDLSG 195
Cdd:TIGR02168  385 RSKVAQLElqiaslnNEIERLEARLERLEDRRERLQQEIEEL-LKKLEEAELKELQAELEELEEELEELQ-EELERLEEA 462

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1822412639  196 VEVIAGDLVFIARARGEVEAQGSRLLQ-----QGMETQNPTQVGTALQVFHNLGGLATTVGRVLESARATlhEQTRRALD 270
Cdd:TIGR02168  463 LEELREELEEAEQALDAAERELAQLQArldslERLQENLEGFSEGVKALLKNQSGLSGILGVLSELISVD--EGYEAAIE 540

                          250       260       270
                   ....*....|....*....|....*....|..
gi 1822412639  271 AralsqAVGGSRGstpgrtSMVAPGNSAAFRA 302
Cdd:TIGR02168  541 A-----ALGGRLQ------AVVVENLNAAKKA 561
 
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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