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Conserved domains on  [gi|1039750752|ref|XP_017172388|]
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syntaxin-binding protein 5-like isoform X6 [Mus musculus]

Protein Classification

LLGL and R-SNARE_STXBP5 domain-containing protein( domain architecture ID 13236891)

protein containing domains WD40, LLGL, and R-SNARE_STXBP5

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
LLGL pfam08366
LLGL2; This domain is found in lethal giant larvae homolog 2 (LLGL2) proteins and ...
 94-203 2.66e-44

LLGL2; This domain is found in lethal giant larvae homolog 2 (LLGL2) proteins and syntaxin-binding proteins like tomosyn. It has been identified in eukaryotes and tends to be found together with WD repeats (pfam00400).


:

Pssm-ID: 462446  Cd Length: 103  Bit Score: 155.43  E-value: 2.66e-44
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039750752   94 TTVPHGksqregrkSESCKPILKVEYKTCRNSEPFIIFSGGLSYDKACRRPSLTIMHGKAITVLEMDHPIVEFLTLCETP 173
Cdd:pfam08366    1 PTTPYG--------PFPCKAITKILWKTTKTGEPFIIFSGGMPRASYGDRHCITVMHGKKHTVFDFTSKVIDFFTLCESP 72

                           90       100       110
                   ....*....|....*....|....*....|.
gi 1039750752  174 YPN-EFQEPYAVAVLLEKDLIVVDLTQTNFP 203
Cdd:pfam08366   73 DPNaEFDDPYALVVLLEEELVVIDLTTPGWP 103
R-SNARE_STXBP5 cd15893
SNARE domain of STXBP5; Syntaxin binding protein 5 (STXBP5, also called Tomosyn), as well as ...
 956-1016 8.51e-32

SNARE domain of STXBP5; Syntaxin binding protein 5 (STXBP5, also called Tomosyn), as well as its relative Syntaxin binding protein 6 (STXBP6, also called Amisyn) contains a C-terminal R-SNARE-like domain, which allows it to assemble into SNARE complexes, which in turn makes the complexes inactive and inhibits exocytosis. Tomosyn contains an N-terminal WD40 repeat region and has been shown to form complexes with SNAP-25 and syntaxin 1a, as well as SNAP-23 and syntaxin 4. In general, SNARE (soluble N-ethylmaleimide-sensitive factor attachment protein receptor) proteins consist of coiled-coil helices (called SNARE motifs) which mediate the interactions between SNARE proteins, and a transmembrane domain. The SNARE complex mediates membrane fusion, important for trafficking of newly synthesized proteins, recycling of pre-existing proteins and organelle formation. SNARE proteins are classified into four groups, Qa-, Qb-, Qc- and R-SNAREs, depending on whether the residue in the hydrophilic center layer of the four-helical bundle is a glutamine (Q) or arginine (R). Qc-, as well as Qa- and Qb-SNAREs, are localized to target organelle membranes, while R-SNARE is localized to vesicle membranes. They form unique complexes consisting of one member of each subgroup, that mediate fusion between a specific type of vesicles and their target organelle.


:

Pssm-ID: 277246  Cd Length: 61  Bit Score: 118.22  E-value: 8.51e-32
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1039750752  956 PGSIEGMKGAAGGVMGELTRARIALDERGQRLGELEEKTAGMMTSAEAFSKHAHELMLKYK 1016
Cdd:cd15893      1 PGGIEGVKGAASGVVGELARARLALDERGQKLGELEERTAAMLASADSFSKHAHEMMLKYK 61
WD40 super family cl29593
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 9-87 1.10e-05

WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from its N-terminus and the WD dipeptide at its C-terminus and is 40 residues long, hence the name WD40; between GH and WD lies a conserved core; serves as a stable propeller-like platform to which proteins can bind either stably or reversibly; forms a propeller-like structure with several blades where each blade is composed of a four-stranded anti-parallel b-sheet; instances with few detectable copies are hypothesized to form larger structures by dimerization; each WD40 sequence repeat forms the first three strands of one blade and the last strand in the next blade; the last C-terminal WD40 repeat completes the blade structure of the first WD40 repeat to create the closed ring propeller-structure; residues on the top and bottom surface of the propeller are proposed to coordinate interactions with other proteins and/or small ligands; 7 copies of the repeat are present in this alignment.


The actual alignment was detected with superfamily member cd00200:

Pssm-ID: 475233 [Multi-domain]  Cd Length: 289  Bit Score: 48.49  E-value: 1.10e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039750752    9 STKTHPGPVVHLSDSPrDEGKLLIGYENGTVVFWDLKSKRaELRVYY--DEAIHSIDWHHEGKQFMCSHSDGSLTLWNLK 86
Cdd:cd00200    130 TLRGHTDWVNSVAFSP-DGTFVASSSQDGTIKLWDLRTGK-CVATLTghTGEVNSVAFSPDGEKLLSSSSDGTIKLWDLS 207


                   .
gi 1039750752   87 S 87
Cdd:cd00200    208 T 208
 
Name Accession Description Interval E-value
LLGL pfam08366
LLGL2; This domain is found in lethal giant larvae homolog 2 (LLGL2) proteins and ...
 94-203 2.66e-44

LLGL2; This domain is found in lethal giant larvae homolog 2 (LLGL2) proteins and syntaxin-binding proteins like tomosyn. It has been identified in eukaryotes and tends to be found together with WD repeats (pfam00400).


Pssm-ID: 462446  Cd Length: 103  Bit Score: 155.43  E-value: 2.66e-44
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039750752   94 TTVPHGksqregrkSESCKPILKVEYKTCRNSEPFIIFSGGLSYDKACRRPSLTIMHGKAITVLEMDHPIVEFLTLCETP 173
Cdd:pfam08366    1 PTTPYG--------PFPCKAITKILWKTTKTGEPFIIFSGGMPRASYGDRHCITVMHGKKHTVFDFTSKVIDFFTLCESP 72

                           90       100       110
                   ....*....|....*....|....*....|.
gi 1039750752  174 YPN-EFQEPYAVAVLLEKDLIVVDLTQTNFP 203
Cdd:pfam08366   73 DPNaEFDDPYALVVLLEEELVVIDLTTPGWP 103
R-SNARE_STXBP5 cd15893
SNARE domain of STXBP5; Syntaxin binding protein 5 (STXBP5, also called Tomosyn), as well as ...
 956-1016 8.51e-32

SNARE domain of STXBP5; Syntaxin binding protein 5 (STXBP5, also called Tomosyn), as well as its relative Syntaxin binding protein 6 (STXBP6, also called Amisyn) contains a C-terminal R-SNARE-like domain, which allows it to assemble into SNARE complexes, which in turn makes the complexes inactive and inhibits exocytosis. Tomosyn contains an N-terminal WD40 repeat region and has been shown to form complexes with SNAP-25 and syntaxin 1a, as well as SNAP-23 and syntaxin 4. In general, SNARE (soluble N-ethylmaleimide-sensitive factor attachment protein receptor) proteins consist of coiled-coil helices (called SNARE motifs) which mediate the interactions between SNARE proteins, and a transmembrane domain. The SNARE complex mediates membrane fusion, important for trafficking of newly synthesized proteins, recycling of pre-existing proteins and organelle formation. SNARE proteins are classified into four groups, Qa-, Qb-, Qc- and R-SNAREs, depending on whether the residue in the hydrophilic center layer of the four-helical bundle is a glutamine (Q) or arginine (R). Qc-, as well as Qa- and Qb-SNAREs, are localized to target organelle membranes, while R-SNARE is localized to vesicle membranes. They form unique complexes consisting of one member of each subgroup, that mediate fusion between a specific type of vesicles and their target organelle.


Pssm-ID: 277246  Cd Length: 61  Bit Score: 118.22  E-value: 8.51e-32
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1039750752  956 PGSIEGMKGAAGGVMGELTRARIALDERGQRLGELEEKTAGMMTSAEAFSKHAHELMLKYK 1016
Cdd:cd15893      1 PGGIEGVKGAASGVVGELARARLALDERGQKLGELEERTAAMLASADSFSKHAHEMMLKYK 61
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 9-87 1.10e-05

WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from its N-terminus and the WD dipeptide at its C-terminus and is 40 residues long, hence the name WD40; between GH and WD lies a conserved core; serves as a stable propeller-like platform to which proteins can bind either stably or reversibly; forms a propeller-like structure with several blades where each blade is composed of a four-stranded anti-parallel b-sheet; instances with few detectable copies are hypothesized to form larger structures by dimerization; each WD40 sequence repeat forms the first three strands of one blade and the last strand in the next blade; the last C-terminal WD40 repeat completes the blade structure of the first WD40 repeat to create the closed ring propeller-structure; residues on the top and bottom surface of the propeller are proposed to coordinate interactions with other proteins and/or small ligands; 7 copies of the repeat are present in this alignment.


Pssm-ID: 238121 [Multi-domain]  Cd Length: 289  Bit Score: 48.49  E-value: 1.10e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039750752    9 STKTHPGPVVHLSDSPrDEGKLLIGYENGTVVFWDLKSKRaELRVYY--DEAIHSIDWHHEGKQFMCSHSDGSLTLWNLK 86
Cdd:cd00200    130 TLRGHTDWVNSVAFSP-DGTFVASSSQDGTIKLWDLRTGK-CVATLTghTGEVNSVAFSPDGEKLLSSSSDGTIKLWDLS 207


                   .
gi 1039750752   87 S 87
Cdd:cd00200    208 T 208
WD40 COG2319
WD40 repeat [General function prediction only];
11-99 5.62e-05

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 46.83  E-value: 5.62e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039750752   11 KTHPGPVVHLSDSPrDEGKLLIGYENGTVVFWDLKSKRaELRVY--YDEAIHSIDWHHEGKQFMCSHSDGSLTLWNLKSP 88
Cdd:COG2319    243 TGHSGSVRSVAFSP-DGRLLASGSADGTVRLWDLATGE-LLRTLtgHSGGVNSVAFSPDGKLLASGSDDGTVRLWDLATG 320

                           90
                   ....*....|.
gi 1039750752   89 sRPFQTTVPHG 99
Cdd:COG2319    321 -KLLRTLTGHT 330
Synaptobrevin pfam00957
Synaptobrevin;
982-1021 5.11e-04

Synaptobrevin;


Pssm-ID: 395764  Cd Length: 89  Bit Score: 39.83  E-value: 5.11e-04
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|..
gi 1039750752  982 ERGQRLGELEEKTAGMMTSAEAFSKHAHELMLKY--KDKKWY 1021
Cdd:pfam00957   28 ERGEKLDLLVDKTENLQSSAQQFRRQARKLKRKMwwKNMKLY 69
 
Name Accession Description Interval E-value
LLGL pfam08366
LLGL2; This domain is found in lethal giant larvae homolog 2 (LLGL2) proteins and ...
 94-203 2.66e-44

LLGL2; This domain is found in lethal giant larvae homolog 2 (LLGL2) proteins and syntaxin-binding proteins like tomosyn. It has been identified in eukaryotes and tends to be found together with WD repeats (pfam00400).


Pssm-ID: 462446  Cd Length: 103  Bit Score: 155.43  E-value: 2.66e-44
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039750752   94 TTVPHGksqregrkSESCKPILKVEYKTCRNSEPFIIFSGGLSYDKACRRPSLTIMHGKAITVLEMDHPIVEFLTLCETP 173
Cdd:pfam08366    1 PTTPYG--------PFPCKAITKILWKTTKTGEPFIIFSGGMPRASYGDRHCITVMHGKKHTVFDFTSKVIDFFTLCESP 72

                           90       100       110
                   ....*....|....*....|....*....|.
gi 1039750752  174 YPN-EFQEPYAVAVLLEKDLIVVDLTQTNFP 203
Cdd:pfam08366   73 DPNaEFDDPYALVVLLEEELVVIDLTTPGWP 103
R-SNARE_STXBP5 cd15893
SNARE domain of STXBP5; Syntaxin binding protein 5 (STXBP5, also called Tomosyn), as well as ...
 956-1016 8.51e-32

SNARE domain of STXBP5; Syntaxin binding protein 5 (STXBP5, also called Tomosyn), as well as its relative Syntaxin binding protein 6 (STXBP6, also called Amisyn) contains a C-terminal R-SNARE-like domain, which allows it to assemble into SNARE complexes, which in turn makes the complexes inactive and inhibits exocytosis. Tomosyn contains an N-terminal WD40 repeat region and has been shown to form complexes with SNAP-25 and syntaxin 1a, as well as SNAP-23 and syntaxin 4. In general, SNARE (soluble N-ethylmaleimide-sensitive factor attachment protein receptor) proteins consist of coiled-coil helices (called SNARE motifs) which mediate the interactions between SNARE proteins, and a transmembrane domain. The SNARE complex mediates membrane fusion, important for trafficking of newly synthesized proteins, recycling of pre-existing proteins and organelle formation. SNARE proteins are classified into four groups, Qa-, Qb-, Qc- and R-SNAREs, depending on whether the residue in the hydrophilic center layer of the four-helical bundle is a glutamine (Q) or arginine (R). Qc-, as well as Qa- and Qb-SNAREs, are localized to target organelle membranes, while R-SNARE is localized to vesicle membranes. They form unique complexes consisting of one member of each subgroup, that mediate fusion between a specific type of vesicles and their target organelle.


Pssm-ID: 277246  Cd Length: 61  Bit Score: 118.22  E-value: 8.51e-32
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1039750752  956 PGSIEGMKGAAGGVMGELTRARIALDERGQRLGELEEKTAGMMTSAEAFSKHAHELMLKYK 1016
Cdd:cd15893      1 PGGIEGVKGAASGVVGELARARLALDERGQKLGELEERTAAMLASADSFSKHAHEMMLKYK 61
R-SNARE_STXBP5_6 cd15873
SNARE domain of STXBP5, STXBP6 and related proteins; Syntaxin binding protein 5 (STXBP5, also ...
 956-1016 1.92e-21

SNARE domain of STXBP5, STXBP6 and related proteins; Syntaxin binding protein 5 (STXBP5, also called Tomosyn), as well as its relative Syntaxin binding protein 6 (STXBP6, also called Amisyn) contains a C-terminal R-SNARE-like domain, which allows it to assemble into SNARE complexes, which in turn makes the complexes inactive and inhibits exocytosis. In general, SNARE (soluble N-ethylmaleimide-sensitive factor attachment protein receptor) proteins consist of coiled-coil helices (called SNARE motifs) which mediate the interactions between SNARE proteins, and a transmembrane domain. The SNARE complex mediates membrane fusion, important for trafficking of newly synthesized proteins, recycling of pre-existing proteins and organelle formation. SNARE proteins are classified into four groups, Qa-, Qb-, Qc- and R-SNAREs, depending on whether the residue in the hydrophilic center layer of the four-helical bundle is a glutamine (Q) or arginine (R). Qc-, as well as Qa- and Qb-SNAREs, are localized to target organelle membranes, while R-SNARE is localized to vesicle membranes. They form unique complexes consisting of one member of each subgroup, that mediate fusion between a specific type of vesicles and their target organelle.


Pssm-ID: 277226  Cd Length: 61  Bit Score: 88.47  E-value: 1.92e-21
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1039750752  956 PGSIEGMKGAAGGVMGELTRARIALDERGQRLGELEEKTAGMMTSAEAFSKHAHELMLKYK 1016
Cdd:cd15873      1 GGGMKALRAKAGSAASAAARARQALNERGEKLSELEDRTAEMEDNAESFASTAKELAKKYK 61
R-SNARE_STXBP6 cd15892
SNARE domain of STXBP6; Syntaxin binding protein 6 (STXBP6, also called Amisyn), as well as ...
 955-1016 3.22e-11

SNARE domain of STXBP6; Syntaxin binding protein 6 (STXBP6, also called Amisyn), as well as its relative Syntaxin binding protein 5 (STXBP5, also called Tomosyn), contains a C-terminal R-SNARE-like domain, which allows it to assemble into SNARE complexes, which in turn makes the complexes inactive and inhibits exocytosis. In general, SNARE (soluble N-ethylmaleimide-sensitive factor attachment protein receptor) proteins consist of coiled-coil helices (called SNARE motifs) which mediate the interactions between SNARE proteins, and a transmembrane domain. The SNARE complex mediates membrane fusion, important for trafficking of newly synthesized proteins, recycling of pre-existing proteins and organelle formation. SNARE proteins are classified into four groups, Qa-, Qb-, Qc- and R-SNAREs, depending on whether the residue in the hydrophilic center layer of the four-helical bundle is a glutamine (Q) or arginine (R). Qc-, as well as Qa- and Qb-SNAREs, are localized to target organelle membranes, while R-SNARE is localized to vesicle membranes. They form unique complexes consisting of one member of each subgroup, that mediate fusion between a specific type of vesicles and their target organelle.


Pssm-ID: 277245  Cd Length: 62  Bit Score: 59.78  E-value: 3.22e-11
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1039750752  955 GPGSIegMKGAAGGVMGELTRARIALDERGQRLGELEEKTAGMMTSAEAFSKHAHELMLKYK 1016
Cdd:cd15892      2 GGNSI--LHSAADSVTSAVQKASQALNERGERLGRAEEKTEDMKNSAQQFAETAHKLAMKHK 61
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 9-87 1.10e-05

WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from its N-terminus and the WD dipeptide at its C-terminus and is 40 residues long, hence the name WD40; between GH and WD lies a conserved core; serves as a stable propeller-like platform to which proteins can bind either stably or reversibly; forms a propeller-like structure with several blades where each blade is composed of a four-stranded anti-parallel b-sheet; instances with few detectable copies are hypothesized to form larger structures by dimerization; each WD40 sequence repeat forms the first three strands of one blade and the last strand in the next blade; the last C-terminal WD40 repeat completes the blade structure of the first WD40 repeat to create the closed ring propeller-structure; residues on the top and bottom surface of the propeller are proposed to coordinate interactions with other proteins and/or small ligands; 7 copies of the repeat are present in this alignment.


Pssm-ID: 238121 [Multi-domain]  Cd Length: 289  Bit Score: 48.49  E-value: 1.10e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039750752    9 STKTHPGPVVHLSDSPrDEGKLLIGYENGTVVFWDLKSKRaELRVYY--DEAIHSIDWHHEGKQFMCSHSDGSLTLWNLK 86
Cdd:cd00200    130 TLRGHTDWVNSVAFSP-DGTFVASSSQDGTIKLWDLRTGK-CVATLTghTGEVNSVAFSPDGEKLLSSSSDGTIKLWDLS 207


                   .
gi 1039750752   87 S 87
Cdd:cd00200    208 T 208
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 11-296 1.24e-05

WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from its N-terminus and the WD dipeptide at its C-terminus and is 40 residues long, hence the name WD40; between GH and WD lies a conserved core; serves as a stable propeller-like platform to which proteins can bind either stably or reversibly; forms a propeller-like structure with several blades where each blade is composed of a four-stranded anti-parallel b-sheet; instances with few detectable copies are hypothesized to form larger structures by dimerization; each WD40 sequence repeat forms the first three strands of one blade and the last strand in the next blade; the last C-terminal WD40 repeat completes the blade structure of the first WD40 repeat to create the closed ring propeller-structure; residues on the top and bottom surface of the propeller are proposed to coordinate interactions with other proteins and/or small ligands; 7 copies of the repeat are present in this alignment.


Pssm-ID: 238121 [Multi-domain]  Cd Length: 289  Bit Score: 48.10  E-value: 1.24e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039750752   11 KTHPGPVVHLSDSPrDEGKLLIGYENGTVVFWDLKSKRAELRVY-YDEAIHSIDWHHEGKQFMCSHSDGSLTLWNLKSPs 89
Cdd:cd00200      6 KGHTGGVTCVAFSP-DGKLLATGSGDGTIKVWDLETGELLRTLKgHTGPVRDVAASADGTYLASGSSDKTIRLWDLETG- 83

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039750752   90 RPFQTTVPHgksqregrksesCKPILKVEYktcrNSEPFIIFSGglSYDKACRrpSLTIMHGKAITVLEmDHPI-VEFLT 168
Cdd:cd00200     84 ECVRTLTGH------------TSYVSSVAF----SPDGRILSSS--SRDKTIK--VWDVETGKCLTTLR-GHTDwVNSVA 142

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039750752  169 LCETPypnefqePYAVAVLLEKDLIVVDLtqtnfpifENPYPM---DIHESPVTCTAYFAD------CPPDLILVLYSIG 239
Cdd:cd00200    143 FSPDG-------TFVASSSQDGTIKLWDL--------RTGKCVatlTGHTGEVNSVAFSPDgekllsSSSDGTIKLWDLS 207

                          250       260       270       280       290
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 1039750752  240 VKHKKQGYSNKEWPVSGGAWNLGaqtyPEIIITGHADGTIKFWDasAMTLQMLYKLK 296
Cdd:cd00200    208 TGKCLGTLRGHENGVNSVAFSPD----GYLLASGSEDGTIRVWD--LRTGECVQTLS 258
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 1-283 1.32e-05

WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from its N-terminus and the WD dipeptide at its C-terminus and is 40 residues long, hence the name WD40; between GH and WD lies a conserved core; serves as a stable propeller-like platform to which proteins can bind either stably or reversibly; forms a propeller-like structure with several blades where each blade is composed of a four-stranded anti-parallel b-sheet; instances with few detectable copies are hypothesized to form larger structures by dimerization; each WD40 sequence repeat forms the first three strands of one blade and the last strand in the next blade; the last C-terminal WD40 repeat completes the blade structure of the first WD40 repeat to create the closed ring propeller-structure; residues on the top and bottom surface of the propeller are proposed to coordinate interactions with other proteins and/or small ligands; 7 copies of the repeat are present in this alignment.


Pssm-ID: 238121 [Multi-domain]  Cd Length: 289  Bit Score: 48.10  E-value: 1.32e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039750752    1 MWNKA---IELSTKTHPGPVVHLSDSPRDEgKLLIGYENGTVVFWDLKSKRaELRVY--YDEAIHSIDWHHEGKQFMCSH 75
Cdd:cd00200     35 VWDLEtgeLLRTLKGHTGPVRDVAASADGT-YLASGSSDKTIRLWDLETGE-CVRTLtgHTSYVSSVAFSPDGRILSSSS 112

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039750752   76 SDGSLTLWNLKSPSrpfQTTVPHGKSqregrksescKPILKVEYktcrNSEPFIIFSGglSYDKacrrpslTIM-----H 150
Cdd:cd00200    113 RDKTIKVWDVETGK---CLTTLRGHT----------DWVNSVAF----SPDGTFVASS--SQDG-------TIKlwdlrT 166

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039750752  151 GKAITVLEmDHpIVEFLTLCetPYPNEfqEPYAVAVlLEKDLIVVDLTQtnfpiFENPYPMDIHESPVTCTAYFAD---- 226
Cdd:cd00200    167 GKCVATLT-GH-TGEVNSVA--FSPDG--EKLLSSS-SDGTIKLWDLST-----GKCLGTLRGHENGVNSVAFSPDgyll 234

                          250       260       270       280       290
                   ....*....|....*....|....*....|....*....|....*....|....*....
gi 1039750752  227 --CPPDLILVLYSIGVKHKKQGYSNKEWPVSGGAWNLGAQTypeiIITGHADGTIKFWD 283
Cdd:cd00200    235 asGSEDGTIRVWDLRTGECVQTLSGHTNSVTSLAWSPDGKR----LASGSADGTIRIWD 289
R-SNARE cd15843
SNARE motif, subgroup R-SNARE; SNARE (soluble N-ethylmaleimide-sensitive factor attachment ...
 982-1016 3.18e-05

SNARE motif, subgroup R-SNARE; SNARE (soluble N-ethylmaleimide-sensitive factor attachment protein receptor) proteins consist of coiled-coil helices (called SNARE motifs) which mediate the interactions between SNARE proteins, and a transmembrane domain. The SNARE complex mediates membrane fusion, important for trafficking of newly synthesized proteins, recycling of pre-existing proteins and organelle formation. SNARE proteins are classified into four groups, Qa-, Qb-, Qc- and R-SNAREs, depending on whether the residue in the hydrophilic center layer of the four-helical bundle is a glutamine (Q) or arginine (R). In contrast to Qa-, Qb- and Qc-SNAREs that are localized to target organelle membranes, R-SNAREs are localized to vesicle membranes. They form unique complexes consisting of one member of each subgroup, that mediate fusion between a specific type of vesicles and their target organelle. Their SNARE motifs form twisted and parallel heterotetrameric helix bundles. Examples for members of the Qa SNAREs are syntaxin 18, syntaxin 5, syntaxin 16, and syntaxin 1.


Pssm-ID: 277196 [Multi-domain]  Cd Length: 60  Bit Score: 42.49  E-value: 3.18e-05
                           10        20        30
                   ....*....|....*....|....*....|....*
gi 1039750752  982 ERGQRLGELEEKTAGMMTSAEAFSKHAHELMLKYK 1016
Cdd:cd15843     26 ERGEKLEDLVDKTENLNESANAFKKQARKLKRKMW 60
WD40 COG2319
WD40 repeat [General function prediction only];
11-99 5.62e-05

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 46.83  E-value: 5.62e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039750752   11 KTHPGPVVHLSDSPrDEGKLLIGYENGTVVFWDLKSKRaELRVY--YDEAIHSIDWHHEGKQFMCSHSDGSLTLWNLKSP 88
Cdd:COG2319    243 TGHSGSVRSVAFSP-DGRLLASGSADGTVRLWDLATGE-LLRTLtgHSGGVNSVAFSPDGKLLASGSDDGTVRLWDLATG 320

                           90
                   ....*....|.
gi 1039750752   89 sRPFQTTVPHG 99
Cdd:COG2319    321 -KLLRTLTGHT 330
WD40 COG2319
WD40 repeat [General function prediction only];
13-87 7.36e-05

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 46.44  E-value: 7.36e-05
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1039750752   13 HPGPVVHLSDSPrDEGKLLIGYENGTVVFWDLKSKRaELRVY--YDEAIHSIDWHHEGKQFMCSHSDGSLTLWNLKS 87
Cdd:COG2319    329 HTGAVRSVAFSP-DGKTLASGSDDGTVRLWDLATGE-LLRTLtgHTGAVTSVAFSPDGRTLASGSADGTVRLWDLAT 403
WD40 COG2319
WD40 repeat [General function prediction only];
13-101 1.55e-04

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 45.29  E-value: 1.55e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039750752   13 HPGPVVHLSDSPrdEGKLLI-GYENGTVVFWDLKSKRaELRVY--YDEAIHSIDWHHEGKQFMCSHSDGSLTLWNLKSPs 89
Cdd:COG2319    161 HSGAVTSVAFSP--DGKLLAsGSDDGTVRLWDLATGK-LLRTLtgHTGAVRSVAFSPDGKLLASGSADGTVRLWDLATG- 236

                           90
                   ....*....|..
gi 1039750752   90 RPFQTTVPHGKS 101
Cdd:COG2319    237 KLLRTLTGHSGS 248
WD40 COG2319
WD40 repeat [General function prediction only];
5-98 4.34e-04

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 43.75  E-value: 4.34e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039750752    5 AIELSTKTHPGPVVHLSDSPrDEGKLLIGYENGTVVFWDLKSKRAELRVY-YDEAIHSIDWHHEGKQFMCSHSDGSLTLW 83
Cdd:COG2319     69 ALLATLLGHTAAVLSVAFSP-DGRLLASASADGTVRLWDLATGLLLRTLTgHTGAVRSVAFSPDGKTLASGSADGTVRLW 147

                           90
                   ....*....|....*
gi 1039750752   84 NLKSPsRPFQTTVPH 98
Cdd:COG2319    148 DLATG-KLLRTLTGH 161
Synaptobrevin pfam00957
Synaptobrevin;
982-1021 5.11e-04

Synaptobrevin;


Pssm-ID: 395764  Cd Length: 89  Bit Score: 39.83  E-value: 5.11e-04
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|..
gi 1039750752  982 ERGQRLGELEEKTAGMMTSAEAFSKHAHELMLKY--KDKKWY 1021
Cdd:pfam00957   28 ERGEKLDLLVDKTENLQSSAQQFRRQARKLKRKMwwKNMKLY 69
 
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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