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Conserved domains on  [gi|1958668350|ref|XP_038945204|]
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small G protein signaling modulator 1 isoform X1 [Rattus norvegicus]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
RUN_SGSM1 cd17703
RUN domain found in small G protein signaling modulator 1 (SGSM1) and similar proteins; SGSM1, ...
 20-196 2.58e-132

RUN domain found in small G protein signaling modulator 1 (SGSM1) and similar proteins; SGSM1, also called RUN and TBC1 domain-containing protein 2 (RUTBC2), interacts with numerous Rab family members, functioning as Rab effector for some, and as GTPase activator for others. It is a Rab9A effector and GTPase-activating protein for Rab36, and links Rab9A function to Rab36 function in the endosomal system. This model contains the RUN domain of SGSM1.


:

Pssm-ID: 439065  Cd Length: 177  Bit Score: 398.61  E-value: 2.58e-132
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958668350   20 KEVKQIMEEAVTRKFVHEDSSHIISFCAAVEACVLHGLRRRAAGFLRSNKIAALFMKVGKGFPPAEELSRKVQELEQLIE 99
Cdd:cd17703      1 KEVKQIMEEAVTRKFVHEDSSHIISFCAAVEACVLHGLKRRAAGFLRSNKIAALFMKVGKSFPPAEELCRKVQELEQLLE 80

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958668350  100 SARNQIQGLQENVRKLPKLPNLSPLAIKHLWIRTALFERVLDKIVHYLVENSSKYYEKEALLMDPVDGPILASLLVGPCA 179
Cdd:cd17703     81 NKRNQMQGLQENVRKMPKLPNLSPQAIKHLWIRTALFEKVLDKIVHYLVENSSKYYEKEALLMDPVDGPILASLLVGPCA 160

                          170
                   ....*....|....*..
gi 1958668350  180 LEYTKMKTADHFWTDPS 196
Cdd:cd17703    161 LEYTKMKTADHFWTDPS 177
PH_RUTBC cd15784
Rab-binding Pleckstrin homology domain (PH) of small G-protein signaling modulator 1 and ...
 257-428 4.05e-101

Rab-binding Pleckstrin homology domain (PH) of small G-protein signaling modulator 1 and similar proteins; Small G-protein signaling modulator 1, or RUN and TBC1 domain containing 2 (RUTBC2), as well as RUTBC1, bind to Rab9A via their Pleckstrin homology (PH) domain. They do not seem to act as GAP proteins that stimulate GTP hydrolysis by Rab9A, and RUTBC2 has been shown to also interact with Rab9B, most likely in a similar manner. RUTBC1 does stimulate GTP hydrolysis by Rab32 and Rab33B, however, while RUTBC2 appears to be a GAP for Rab36. Rab9A and associated proteins control the recycling of mannose-6-phosphate receptors from late endosomes to the trans-Golgi.


:

Pssm-ID: 275431  Cd Length: 176  Bit Score: 315.81  E-value: 4.05e-101
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958668350  257 ATLLYGKNNVLVQPRDDMEAVPGYLSLHQTAD-VMTLKWTPNQLMNGSVGD-----LDYEKSVYWDYAVTIRLEEIVYLH 330
Cdd:cd15784      1 STLLYGKNNVLVQPRDDKEPIKGYLSLHQTGRgNLTLKWTPNQLMNGSSQAssaksNSLDSSVYWDYALSVNLDDIVYIH 80

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958668350  331 CHQQVDSGGTVVLVSQDGIQRPPFRFPKGGHLLQFLSCLENGLLPHGQLDPPLWSQRGKGKVFPKLRKRSPQGSseSTSS 410
Cdd:cd15784     81 CHQQDDSGGTVVLVGQDGVQRPPLHFPQGGHLLAFLSCLENGLLPHGQLDPPLWSQRGKGKVLPKLRKRSSLTS--SKLS 158

                          170
                   ....*....|....*...
gi 1958668350  411 DKEDDEATDYVFRIIYPG 428
Cdd:cd15784    159 EVKEEQATDYVFRIIYPG 176
TBC smart00164
Domain in Tre-2, BUB2p, and Cdc16p. Probable Rab-GAPs; Widespread domain present in Gyp6 and ...
 884-1053 1.60e-39

Domain in Tre-2, BUB2p, and Cdc16p. Probable Rab-GAPs; Widespread domain present in Gyp6 and Gyp7, thereby giving rise to the notion that it performs a GTP-activator activity on Rab-like GTPases.


:

Pssm-ID: 214540 [Multi-domain]  Cd Length: 216  Bit Score: 145.91  E-value: 1.60e-39
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958668350   884 LHRIEKDVQRCDRSYWYFTAAN---LEKLRNIMCSYIWQHIEIGYVQGMCDLLAPLLVILDDEALAFSCFTELMKRMNQN 960
Cdd:smart00164   47 VHQIEKDLRRTFPEHSFFQDKEgpgQESLRRVLKAYALYNPEVGYCQGMNFLAAPLLLVMEDEEDAFWCLVKLMERYGPN 126

                            90       100       110       120       130       140       150       160
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958668350   961 F--PHGGAMDTHFANMRSLIQILDSELFELMHQNGDYTHFYfCYRWFLLDFKRELVYDDVFSVWETIWAAKHvssaHYVL 1038
Cdd:smart00164  127 FylPDMSGLQLDLLQLDRLVKEYDPDLYKHLKDLGITPSLY-ALRWFLTLFARELPLEIVLRIWDVLFAEGS----DFLF 201

                           170
                    ....*....|....*
gi 1958668350  1039 FIALALVEVYRDIIL 1053
Cdd:smart00164  202 RVALALLKLHRDVLL 216
 
Name Accession Description Interval E-value
RUN_SGSM1 cd17703
RUN domain found in small G protein signaling modulator 1 (SGSM1) and similar proteins; SGSM1, ...
 20-196 2.58e-132

RUN domain found in small G protein signaling modulator 1 (SGSM1) and similar proteins; SGSM1, also called RUN and TBC1 domain-containing protein 2 (RUTBC2), interacts with numerous Rab family members, functioning as Rab effector for some, and as GTPase activator for others. It is a Rab9A effector and GTPase-activating protein for Rab36, and links Rab9A function to Rab36 function in the endosomal system. This model contains the RUN domain of SGSM1.


Pssm-ID: 439065  Cd Length: 177  Bit Score: 398.61  E-value: 2.58e-132
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958668350   20 KEVKQIMEEAVTRKFVHEDSSHIISFCAAVEACVLHGLRRRAAGFLRSNKIAALFMKVGKGFPPAEELSRKVQELEQLIE 99
Cdd:cd17703      1 KEVKQIMEEAVTRKFVHEDSSHIISFCAAVEACVLHGLKRRAAGFLRSNKIAALFMKVGKSFPPAEELCRKVQELEQLLE 80

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958668350  100 SARNQIQGLQENVRKLPKLPNLSPLAIKHLWIRTALFERVLDKIVHYLVENSSKYYEKEALLMDPVDGPILASLLVGPCA 179
Cdd:cd17703     81 NKRNQMQGLQENVRKMPKLPNLSPQAIKHLWIRTALFEKVLDKIVHYLVENSSKYYEKEALLMDPVDGPILASLLVGPCA 160

                          170
                   ....*....|....*..
gi 1958668350  180 LEYTKMKTADHFWTDPS 196
Cdd:cd17703    161 LEYTKMKTADHFWTDPS 177
PH_RUTBC cd15784
Rab-binding Pleckstrin homology domain (PH) of small G-protein signaling modulator 1 and ...
 257-428 4.05e-101

Rab-binding Pleckstrin homology domain (PH) of small G-protein signaling modulator 1 and similar proteins; Small G-protein signaling modulator 1, or RUN and TBC1 domain containing 2 (RUTBC2), as well as RUTBC1, bind to Rab9A via their Pleckstrin homology (PH) domain. They do not seem to act as GAP proteins that stimulate GTP hydrolysis by Rab9A, and RUTBC2 has been shown to also interact with Rab9B, most likely in a similar manner. RUTBC1 does stimulate GTP hydrolysis by Rab32 and Rab33B, however, while RUTBC2 appears to be a GAP for Rab36. Rab9A and associated proteins control the recycling of mannose-6-phosphate receptors from late endosomes to the trans-Golgi.


Pssm-ID: 275431  Cd Length: 176  Bit Score: 315.81  E-value: 4.05e-101
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958668350  257 ATLLYGKNNVLVQPRDDMEAVPGYLSLHQTAD-VMTLKWTPNQLMNGSVGD-----LDYEKSVYWDYAVTIRLEEIVYLH 330
Cdd:cd15784      1 STLLYGKNNVLVQPRDDKEPIKGYLSLHQTGRgNLTLKWTPNQLMNGSSQAssaksNSLDSSVYWDYALSVNLDDIVYIH 80

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958668350  331 CHQQVDSGGTVVLVSQDGIQRPPFRFPKGGHLLQFLSCLENGLLPHGQLDPPLWSQRGKGKVFPKLRKRSPQGSseSTSS 410
Cdd:cd15784     81 CHQQDDSGGTVVLVGQDGVQRPPLHFPQGGHLLAFLSCLENGLLPHGQLDPPLWSQRGKGKVLPKLRKRSSLTS--SKLS 158

                          170
                   ....*....|....*...
gi 1958668350  411 DKEDDEATDYVFRIIYPG 428
Cdd:cd15784    159 EVKEEQATDYVFRIIYPG 176
PH_RBD pfam12068
Rab-binding domain (RBD); This domain has been called the Rab-binding domain (RBD). The domain ...
 258-394 1.41e-53

Rab-binding domain (RBD); This domain has been called the Rab-binding domain (RBD). The domain adopts a Ph-like fold. This domain is found associated with pfam00566.


Pssm-ID: 432305  Cd Length: 149  Bit Score: 183.87  E-value: 1.41e-53
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958668350  258 TLLYGKNNVLVQPRDDMEAVPGYLSLHQTADV-MTLKWTPNQLM----------NGSVGDLDYEKSVYWDYAVTIRLEEI 326
Cdd:pfam12068    1 RLLYGKNNVFVYPSDIGKPIKGYLSLHQNDKGsVFLKWTPNQLMksssqpssasSDSEELQSPDGKNPWSWAINVNVKEL 80

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1958668350  327 VYLHCHQQ-VDSGGTVVLVSQDGIQRPPFRFPKGGHLLQFLSCLENGLLPHGQLDPPLWSQRGKGKVFP 394
Cdd:pfam12068   81 KYIHKHQPnEGSPSYIILVTQDGGQFPPLHFPHGGHLLLFLSCLESGLFPVVRLDPPLSRSLSKGKLFP 149
TBC smart00164
Domain in Tre-2, BUB2p, and Cdc16p. Probable Rab-GAPs; Widespread domain present in Gyp6 and ...
 884-1053 1.60e-39

Domain in Tre-2, BUB2p, and Cdc16p. Probable Rab-GAPs; Widespread domain present in Gyp6 and Gyp7, thereby giving rise to the notion that it performs a GTP-activator activity on Rab-like GTPases.


Pssm-ID: 214540 [Multi-domain]  Cd Length: 216  Bit Score: 145.91  E-value: 1.60e-39
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958668350   884 LHRIEKDVQRCDRSYWYFTAAN---LEKLRNIMCSYIWQHIEIGYVQGMCDLLAPLLVILDDEALAFSCFTELMKRMNQN 960
Cdd:smart00164   47 VHQIEKDLRRTFPEHSFFQDKEgpgQESLRRVLKAYALYNPEVGYCQGMNFLAAPLLLVMEDEEDAFWCLVKLMERYGPN 126

                            90       100       110       120       130       140       150       160
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958668350   961 F--PHGGAMDTHFANMRSLIQILDSELFELMHQNGDYTHFYfCYRWFLLDFKRELVYDDVFSVWETIWAAKHvssaHYVL 1038
Cdd:smart00164  127 FylPDMSGLQLDLLQLDRLVKEYDPDLYKHLKDLGITPSLY-ALRWFLTLFARELPLEIVLRIWDVLFAEGS----DFLF 201

                           170
                    ....*....|....*
gi 1958668350  1039 FIALALVEVYRDIIL 1053
Cdd:smart00164  202 RVALALLKLHRDVLL 216
RUN pfam02759
RUN domain; This domain is present in several proteins that are linked to the functions of ...
 44-188 5.51e-37

RUN domain; This domain is present in several proteins that are linked to the functions of GTPases in the Rap and Rab families. They could hence play important roles in multiple Ras-like GTPase signalling pathways. The domain is comprises six conserved regions, which in some proteins have considerable insertions between them. The domain core is thought to take up a predominantly alpha fold, with basic amino acids in regions A and D possibly playing a functional role in interactions with Ras GTPases.


Pssm-ID: 460679  Cd Length: 134  Bit Score: 135.87  E-value: 5.51e-37
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958668350   44 SFCAAVEACVLHGLRR------RAAGFLRSNKIAALFMKVGKGFPPAEELSRKVQELEQLIESArnqiqglqenvrklpk 117
Cdd:pfam02759    1 QLCAALEALLSHGLKRssllilRAAGLLPERSFWALLERVGKLVPPAEELLSSVQELEQIHTPY---------------- 64

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1958668350  118 lpnlSPLAIKHLWIRTALFERVLDKIVHYLVENS---SKYYEKEALLMDPVDGPILASLLVGPCALEYTKMKTA 188
Cdd:pfam02759   65 ----SPDGRGRAWIRLALNEKLLDQWLKLLLSNKellSEYYEPWALLADPEFGEILLGLLVGLSALDFNLCLKL 134
RabGAP-TBC pfam00566
Rab-GTPase-TBC domain; Identification of a TBC domain in GYP6_YEAST and GYP7_YEAST, which are ...
 885-1053 1.44e-31

Rab-GTPase-TBC domain; Identification of a TBC domain in GYP6_YEAST and GYP7_YEAST, which are GTPase activator proteins of yeast Ypt6 and Ypt7, implies that these domains are GTPase activator proteins of Rab-like small GTPases.


Pssm-ID: 459855  Cd Length: 178  Bit Score: 121.98  E-value: 1.44e-31
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958668350  885 HRIEKDVQRCDRSYWYFT-AANLEKLRNIMCSYIWQHIEIGYVQGMCDLLAPLLVILDDEALAFSCFTELMKR--MNQNF 961
Cdd:pfam00566   10 EQIEKDVPRTFPHSFFFDnGPGQNSLRRILKAYSIYNPDVGYCQGMNFIAAPLLLVYLDEEDAFWCFVSLLENylLRDFY 89

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958668350  962 PHGG-AMDTHFANMRSLIQILDSELFELMHQNGdYTHFYFCYRWFLLDFKRELVYDDVFSVWETIWAAKHvssAHYVLFI 1040
Cdd:pfam00566   90 TPDFpGLKRDLYVFEELLKKKLPKLYKHLKELG-LDPDLFASQWFLTLFAREFPLSTVLRIWDYFFLEGE---KFVLFRV 165

                          170
                   ....*....|...
gi 1958668350 1041 ALALVEVYRDIIL 1053
Cdd:pfam00566  166 ALAILKRFREELL 178
COG5210 COG5210
GTPase-activating protein [General function prediction only];
884-1095 1.21e-18

GTPase-activating protein [General function prediction only];


Pssm-ID: 227535 [Multi-domain]  Cd Length: 496  Bit Score: 90.63  E-value: 1.21e-18
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958668350  884 LHRIEKDVQRCDRSYWYF---TAANLEKLRNIMCSYIWQHIEIGYVQGMCDLLAPLLVILDDEALAFSCFTELMKR---- 956
Cdd:COG5210    257 ISQIEKDLSRTFPDNSLFqteISIRAENLRRVLKAYSLYNPEVGYVQGMNFLAAPLLLVLESEEQAFWCLVKLLKNyglp 336

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958668350  957 --MNQNFPhggAMDTHFANMRSLIQILDSELFELMHQNGDYTHFyFCYRWFLLDFKRELVYDDVFSVWETIWAakHVSSA 1034
Cdd:COG5210    337 gyFLKNLS---GLHRDLKVLDDLVEELDPELYEHLLREGVVLLM-FAFRWFLTLFVREFPLEYALRIWDCLFL--EGSSM 410

                          170       180       190       200       210       220
                   ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1958668350 1035 HYVLFIALALVEVYRDIILENNMDFTDIIKFFNEMAERHNAKQILQLARDLVHKVQILIEN 1095
Cdd:COG5210    411 LFQLALAILKLLRDKLLKLDSDELLDLLLKQLFLHSGKEAWSSILKFRHGTDRDILLFIED 471
RUN smart00593
domain involved in Ras-like GTPase signaling;
127-187 1.32e-14

domain involved in Ras-like GTPase signaling;


Pssm-ID: 214736 [Multi-domain]  Cd Length: 64  Bit Score: 69.18  E-value: 1.32e-14
                            10        20        30        40        50        60
                    ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1958668350   127 KHLWIRTALFERVLDKIVHYLVENS---SKYYEKEALLMDPVDGPILASLLVGPCALEYTKMKT 187
Cdd:smart00593    1 FRAWIRLALNEKLLSSWLNLLLSDEellSKYYEPWAFLRDPEEGEQLLGLLVGLSALDFNLPVD 64
 
Name Accession Description Interval E-value
RUN_SGSM1 cd17703
RUN domain found in small G protein signaling modulator 1 (SGSM1) and similar proteins; SGSM1, ...
 20-196 2.58e-132

RUN domain found in small G protein signaling modulator 1 (SGSM1) and similar proteins; SGSM1, also called RUN and TBC1 domain-containing protein 2 (RUTBC2), interacts with numerous Rab family members, functioning as Rab effector for some, and as GTPase activator for others. It is a Rab9A effector and GTPase-activating protein for Rab36, and links Rab9A function to Rab36 function in the endosomal system. This model contains the RUN domain of SGSM1.


Pssm-ID: 439065  Cd Length: 177  Bit Score: 398.61  E-value: 2.58e-132
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958668350   20 KEVKQIMEEAVTRKFVHEDSSHIISFCAAVEACVLHGLRRRAAGFLRSNKIAALFMKVGKGFPPAEELSRKVQELEQLIE 99
Cdd:cd17703      1 KEVKQIMEEAVTRKFVHEDSSHIISFCAAVEACVLHGLKRRAAGFLRSNKIAALFMKVGKSFPPAEELCRKVQELEQLLE 80

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958668350  100 SARNQIQGLQENVRKLPKLPNLSPLAIKHLWIRTALFERVLDKIVHYLVENSSKYYEKEALLMDPVDGPILASLLVGPCA 179
Cdd:cd17703     81 NKRNQMQGLQENVRKMPKLPNLSPQAIKHLWIRTALFEKVLDKIVHYLVENSSKYYEKEALLMDPVDGPILASLLVGPCA 160

                          170
                   ....*....|....*..
gi 1958668350  180 LEYTKMKTADHFWTDPS 196
Cdd:cd17703    161 LEYTKMKTADHFWTDPS 177
PH_RUTBC cd15784
Rab-binding Pleckstrin homology domain (PH) of small G-protein signaling modulator 1 and ...
 257-428 4.05e-101

Rab-binding Pleckstrin homology domain (PH) of small G-protein signaling modulator 1 and similar proteins; Small G-protein signaling modulator 1, or RUN and TBC1 domain containing 2 (RUTBC2), as well as RUTBC1, bind to Rab9A via their Pleckstrin homology (PH) domain. They do not seem to act as GAP proteins that stimulate GTP hydrolysis by Rab9A, and RUTBC2 has been shown to also interact with Rab9B, most likely in a similar manner. RUTBC1 does stimulate GTP hydrolysis by Rab32 and Rab33B, however, while RUTBC2 appears to be a GAP for Rab36. Rab9A and associated proteins control the recycling of mannose-6-phosphate receptors from late endosomes to the trans-Golgi.


Pssm-ID: 275431  Cd Length: 176  Bit Score: 315.81  E-value: 4.05e-101
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958668350  257 ATLLYGKNNVLVQPRDDMEAVPGYLSLHQTAD-VMTLKWTPNQLMNGSVGD-----LDYEKSVYWDYAVTIRLEEIVYLH 330
Cdd:cd15784      1 STLLYGKNNVLVQPRDDKEPIKGYLSLHQTGRgNLTLKWTPNQLMNGSSQAssaksNSLDSSVYWDYALSVNLDDIVYIH 80

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958668350  331 CHQQVDSGGTVVLVSQDGIQRPPFRFPKGGHLLQFLSCLENGLLPHGQLDPPLWSQRGKGKVFPKLRKRSPQGSseSTSS 410
Cdd:cd15784     81 CHQQDDSGGTVVLVGQDGVQRPPLHFPQGGHLLAFLSCLENGLLPHGQLDPPLWSQRGKGKVLPKLRKRSSLTS--SKLS 158

                          170
                   ....*....|....*...
gi 1958668350  411 DKEDDEATDYVFRIIYPG 428
Cdd:cd15784    159 EVKEEQATDYVFRIIYPG 176
RUN_SGSM2 cd17704
RUN domain found in small G protein signaling modulator 2 (SGSM2) and similar proteins; SGSM2, ...
 20-196 1.68e-96

RUN domain found in small G protein signaling modulator 2 (SGSM2) and similar proteins; SGSM2, also called RUN and TBC1 domain-containing protein 1 (RUTBC1), is a GTPase-activating protein for Rab32/38, and regulates melanogenic enzyme trafficking in melanocytes. It also acts as a Rab9A effector that activates GTP hydrolysis by Rab32 and Rab33B proteins. This model contains the RUN domain of SGSM2.


Pssm-ID: 439066  Cd Length: 180  Bit Score: 303.78  E-value: 1.68e-96
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958668350   20 KEVKQIMEEAVTRKFVHEDSSHIISFCAAVEACVLHGLRRRAAGFLRSNKIAALFMKVGKGFPPAEELSRKVQELEQLIE 99
Cdd:cd17704      1 KEVKQIMEEAVTRKFVHEDSSHIIALCGVVEACLLHLLKRRAAGFLRSDKVAALFTKVGKTYPTAGDICKKVQELQQQVE 80

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958668350  100 SaRNQIQGLQENVRKLP----KLPNLSPLAIKHLWIRTALFERVLDKIVHYLVENSSKYYEKEALLMDPVDGPILASLLV 175
Cdd:cd17704     81 G-RKNTQSTQEELRRQSsttsKTPPLTPQAIKHIWVRTALIEKVLDKIVQYIVDNCSKYYEKEALMSDPVCGPILASLLV 159

                          170       180
                   ....*....|....*....|.
gi 1958668350  176 GPCALEYTKMKTADHFWTDPS 196
Cdd:cd17704    160 GPCALEYTKLKTADHYWTDPS 180
RUN_SGSM1_like cd17687
RUN domain found in small G protein signaling modulators, SGSM1, SGSM2, and similar proteins; ...
 20-184 4.54e-87

RUN domain found in small G protein signaling modulators, SGSM1, SGSM2, and similar proteins; SGSM1, also called RUN and TBC1 domain-containing protein 2 (RUTBC2), interacts with numerous Rab family members, functioning as Rab effector for some, and as GTPase activator for others. It is a Rab9A effector and GTPase-activating protein for Rab36, and links Rab9A function to Rab36 function in the endosomal system. SGSM2, also called RUN and TBC1 domain-containing protein 1 (RUTBC1), is a GTPase-activating protein for Rab32/38, and regulates melanogenic enzyme trafficking in melanocytes. It also acts as a Rab9A effector that activates GTP hydrolysis by Rab32 and Rab33B proteins. This model contains the RUN domain of SGSM1 and SGSM2.


Pssm-ID: 439049  Cd Length: 161  Bit Score: 277.63  E-value: 4.54e-87
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958668350   20 KEVKQIMEEAVTRKFVHEDSSHIISFCAAVEACVLHGLRRRAAGFLRSNKIAALFMKVGKGFPPAEELSRKVQELEQLIE 99
Cdd:cd17687      1 KEVKQLMEEAVTRKFIHEDSSSVTSLCGAVDACLLHGLRKRALGLFRSSSTFSLLQKVAKSCPPAADILRKVQEIENLSE 80

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958668350  100 SARNQIQGlqenVRKLPKLPNLSPLAIKHLWIRTALFERVLDKIVHYLVENSSKYYEKEALLMDPVDGPILASLLVGPCA 179
Cdd:cd17687     81 NKRSSSSS----GSNSSNSHGNSSSNRKILWIRIALFEKVLDKIVDYLVENASKYYEKEALMADPVDGPLLASLLVGPCA 156


                   ....*
gi 1958668350  180 LEYTK 184
Cdd:cd17687    157 LDYTK 161
PH_RBD pfam12068
Rab-binding domain (RBD); This domain has been called the Rab-binding domain (RBD). The domain ...
 258-394 1.41e-53

Rab-binding domain (RBD); This domain has been called the Rab-binding domain (RBD). The domain adopts a Ph-like fold. This domain is found associated with pfam00566.


Pssm-ID: 432305  Cd Length: 149  Bit Score: 183.87  E-value: 1.41e-53
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958668350  258 TLLYGKNNVLVQPRDDMEAVPGYLSLHQTADV-MTLKWTPNQLM----------NGSVGDLDYEKSVYWDYAVTIRLEEI 326
Cdd:pfam12068    1 RLLYGKNNVFVYPSDIGKPIKGYLSLHQNDKGsVFLKWTPNQLMksssqpssasSDSEELQSPDGKNPWSWAINVNVKEL 80

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1958668350  327 VYLHCHQQ-VDSGGTVVLVSQDGIQRPPFRFPKGGHLLQFLSCLENGLLPHGQLDPPLWSQRGKGKVFP 394
Cdd:pfam12068   81 KYIHKHQPnEGSPSYIILVTQDGGQFPPLHFPHGGHLLLFLSCLESGLFPVVRLDPPLSRSLSKGKLFP 149
TBC smart00164
Domain in Tre-2, BUB2p, and Cdc16p. Probable Rab-GAPs; Widespread domain present in Gyp6 and ...
 884-1053 1.60e-39

Domain in Tre-2, BUB2p, and Cdc16p. Probable Rab-GAPs; Widespread domain present in Gyp6 and Gyp7, thereby giving rise to the notion that it performs a GTP-activator activity on Rab-like GTPases.


Pssm-ID: 214540 [Multi-domain]  Cd Length: 216  Bit Score: 145.91  E-value: 1.60e-39
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958668350   884 LHRIEKDVQRCDRSYWYFTAAN---LEKLRNIMCSYIWQHIEIGYVQGMCDLLAPLLVILDDEALAFSCFTELMKRMNQN 960
Cdd:smart00164   47 VHQIEKDLRRTFPEHSFFQDKEgpgQESLRRVLKAYALYNPEVGYCQGMNFLAAPLLLVMEDEEDAFWCLVKLMERYGPN 126

                            90       100       110       120       130       140       150       160
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958668350   961 F--PHGGAMDTHFANMRSLIQILDSELFELMHQNGDYTHFYfCYRWFLLDFKRELVYDDVFSVWETIWAAKHvssaHYVL 1038
Cdd:smart00164  127 FylPDMSGLQLDLLQLDRLVKEYDPDLYKHLKDLGITPSLY-ALRWFLTLFARELPLEIVLRIWDVLFAEGS----DFLF 201

                           170
                    ....*....|....*
gi 1958668350  1039 FIALALVEVYRDIIL 1053
Cdd:smart00164  202 RVALALLKLHRDVLL 216
RUN pfam02759
RUN domain; This domain is present in several proteins that are linked to the functions of ...
 44-188 5.51e-37

RUN domain; This domain is present in several proteins that are linked to the functions of GTPases in the Rap and Rab families. They could hence play important roles in multiple Ras-like GTPase signalling pathways. The domain is comprises six conserved regions, which in some proteins have considerable insertions between them. The domain core is thought to take up a predominantly alpha fold, with basic amino acids in regions A and D possibly playing a functional role in interactions with Ras GTPases.


Pssm-ID: 460679  Cd Length: 134  Bit Score: 135.87  E-value: 5.51e-37
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958668350   44 SFCAAVEACVLHGLRR------RAAGFLRSNKIAALFMKVGKGFPPAEELSRKVQELEQLIESArnqiqglqenvrklpk 117
Cdd:pfam02759    1 QLCAALEALLSHGLKRssllilRAAGLLPERSFWALLERVGKLVPPAEELLSSVQELEQIHTPY---------------- 64

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1958668350  118 lpnlSPLAIKHLWIRTALFERVLDKIVHYLVENS---SKYYEKEALLMDPVDGPILASLLVGPCALEYTKMKTA 188
Cdd:pfam02759   65 ----SPDGRGRAWIRLALNEKLLDQWLKLLLSNKellSEYYEPWALLADPEFGEILLGLLVGLSALDFNLCLKL 134
RabGAP-TBC pfam00566
Rab-GTPase-TBC domain; Identification of a TBC domain in GYP6_YEAST and GYP7_YEAST, which are ...
 885-1053 1.44e-31

Rab-GTPase-TBC domain; Identification of a TBC domain in GYP6_YEAST and GYP7_YEAST, which are GTPase activator proteins of yeast Ypt6 and Ypt7, implies that these domains are GTPase activator proteins of Rab-like small GTPases.


Pssm-ID: 459855  Cd Length: 178  Bit Score: 121.98  E-value: 1.44e-31
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958668350  885 HRIEKDVQRCDRSYWYFT-AANLEKLRNIMCSYIWQHIEIGYVQGMCDLLAPLLVILDDEALAFSCFTELMKR--MNQNF 961
Cdd:pfam00566   10 EQIEKDVPRTFPHSFFFDnGPGQNSLRRILKAYSIYNPDVGYCQGMNFIAAPLLLVYLDEEDAFWCFVSLLENylLRDFY 89

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958668350  962 PHGG-AMDTHFANMRSLIQILDSELFELMHQNGdYTHFYFCYRWFLLDFKRELVYDDVFSVWETIWAAKHvssAHYVLFI 1040
Cdd:pfam00566   90 TPDFpGLKRDLYVFEELLKKKLPKLYKHLKELG-LDPDLFASQWFLTLFAREFPLSTVLRIWDYFFLEGE---KFVLFRV 165

                          170
                   ....*....|...
gi 1958668350 1041 ALALVEVYRDIIL 1053
Cdd:pfam00566  166 ALAILKRFREELL 178
COG5210 COG5210
GTPase-activating protein [General function prediction only];
884-1095 1.21e-18

GTPase-activating protein [General function prediction only];


Pssm-ID: 227535 [Multi-domain]  Cd Length: 496  Bit Score: 90.63  E-value: 1.21e-18
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958668350  884 LHRIEKDVQRCDRSYWYF---TAANLEKLRNIMCSYIWQHIEIGYVQGMCDLLAPLLVILDDEALAFSCFTELMKR---- 956
Cdd:COG5210    257 ISQIEKDLSRTFPDNSLFqteISIRAENLRRVLKAYSLYNPEVGYVQGMNFLAAPLLLVLESEEQAFWCLVKLLKNyglp 336

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958668350  957 --MNQNFPhggAMDTHFANMRSLIQILDSELFELMHQNGDYTHFyFCYRWFLLDFKRELVYDDVFSVWETIWAakHVSSA 1034
Cdd:COG5210    337 gyFLKNLS---GLHRDLKVLDDLVEELDPELYEHLLREGVVLLM-FAFRWFLTLFVREFPLEYALRIWDCLFL--EGSSM 410

                          170       180       190       200       210       220
                   ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1958668350 1035 HYVLFIALALVEVYRDIILENNMDFTDIIKFFNEMAERHNAKQILQLARDLVHKVQILIEN 1095
Cdd:COG5210    411 LFQLALAILKLLRDKLLKLDSDELLDLLLKQLFLHSGKEAWSSILKFRHGTDRDILLFIED 471
RUN cd17671
RUN domain; RUN domain, named after RPIP8 (Rap2 interacting protein 8), UNC-14 and NESCA (new ...
 20-180 1.54e-15

RUN domain; RUN domain, named after RPIP8 (Rap2 interacting protein 8), UNC-14 and NESCA (new molecule containing SH3 at the carboxyl-terminus), is a less conserved protein motif that comprises six conserved regions, which in some proteins have considerable insertions between them. The domain core is thought to take up a predominantly alpha fold, with basic amino acids in regions A and D possibly playing a functional role in interactions with Ras GTPases. RUN domains are often found in proteins linked particularly to the functions of GTPases in the Rap and Rab families, suggesting the RUN domain may be involved in Rab-mediated membrane trafficking, possibly as a Rab-binding site. RUN domain-containing proteins could hence play important roles in multiple Ras-like GTPase signalling pathways.


Pssm-ID: 439038  Cd Length: 154  Bit Score: 75.15  E-value: 1.54e-15
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958668350   20 KEVKQIMEEAVTRK--------FVHEDSSHIISFCAAVEACVLHGLRRRAAGFLRSNkiaaLFMKVgkgfppaeelsrkv 91
Cdd:cd17671      1 KAVKELLESFADNGeaddsaalTLTDDDPVVGRLCAALEAILSHGLKPKRFGGGKVS----FWDFL-------------- 62

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958668350   92 qeleQLIESARNQIQGLQEnVRKLPKLPNLSPLAIK-HLWIRTALFERVLDKIVHYLVENSS---KYYEKEALLMDPVDG 167
Cdd:cd17671     63 ----EALEKLLPAPSLKQA-IRDINSLSNVKTDDGRgRAWIRLALNEKSLESYLAALLSDQSllrKYYEPWALLRDPEEA 137

                          170
                   ....*....|...
gi 1958668350  168 PILASLLVGPCAL 180
Cdd:cd17671    138 ELFLSLLVGLSSL 150
RUN smart00593
domain involved in Ras-like GTPase signaling;
127-187 1.32e-14

domain involved in Ras-like GTPase signaling;


Pssm-ID: 214736 [Multi-domain]  Cd Length: 64  Bit Score: 69.18  E-value: 1.32e-14
                            10        20        30        40        50        60
                    ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1958668350   127 KHLWIRTALFERVLDKIVHYLVENS---SKYYEKEALLMDPVDGPILASLLVGPCALEYTKMKT 187
Cdd:smart00593    1 FRAWIRLALNEKLLSSWLNLLLSDEellSKYYEPWAFLRDPEEGEQLLGLLVGLSALDFNLPVD 64
RUN_RUFY1_like cd17681
RUN domain found in RUN and FYVE domain-containing proteins, RUFY1, RUFY2, RUFY3 and similar ...
 11-176 2.85e-11

RUN domain found in RUN and FYVE domain-containing proteins, RUFY1, RUFY2, RUFY3 and similar proteins; This family includes RUN and FYVE domain-containing protein RUFY1, RUFY2, and RUFY3. RUFY1, also called FYVE-finger protein EIP1, or La-binding protein 1, or Rab4-interacting protein (Rabip4), or Zinc finger FYVE domain-containing protein 12 (ZFY12), a human homolog of mouse Rabip4, an effector of Rab4 GTPase that regulates recycling of endocytosed cargo. RUFY1 is an endosomal protein that functions as a dual effector of Rab4 and Rab14 and is involved in efficient recycling of transferrin (Tfn). It is a downstream effector of Etk, a downstream tyrosine kinase of PI3-kinase that is involved in regulation of vesicle trafficking. RUFY2, also called Rab4-interacting protein related, is a novel embryonic factor that is present in the nucleus at early stages of embryonic development. It may have both endosomal functions in the cytoplasm and nuclear functions. RUFY3, also called Rap2-interacting protein x (RIPx or RPIPx), or single axon-regulated protein (singar), is an N-terminal RUN domain and a C-terminal FYVE domain containing protein predominantly expressed in the brain. It suppresses formation of surplus axons for neuronal polarity. Unlike other RUFY proteins, RUFY3 can associate with the GTP-bound active form of Rab5. RUFY1, RUFY2, and RUFY3 contain an N-terminal RUN domain and a C-terminal FYVE domain with two coiled-coil domains in-between; this model represents the RUN domain.


Pssm-ID: 439043  Cd Length: 155  Bit Score: 62.59  E-value: 2.85e-11
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958668350   11 RQRLLRTVKKEVKQIMEEAV-TRKFVHEDSSHIISFCAAVEACVLHGLRRRAaGFLRSNKIAalfmkvgkgFPPAEELSR 89
Cdd:cd17681      2 RRNLLNLAKLSIKELIESALsFGRTLDSDHVPLQQFFVILEHVLRHGLKVKK-SFLGPNKSF---------WPVLEHVEK 71

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958668350   90 KVQELEQLIESARNqiqglqenvrklpkLPNL-SPLAIKHLWIRTALFERVLDKIVHYLVENS---SKYYEKEALLMDPv 165
Cdd:cd17681     72 LVPEANEITASVRD--------------LPGIkTPLGRARAWLRLALMQKKLADYFRALIENKdllSEFYEPGALMMSE- 136

                          170
                   ....*....|.
gi 1958668350  166 DGPILASLLVG 176
Cdd:cd17681    137 EAVVIAGLLVG 147
PH-like cd00900
Pleckstrin homology-like domain; The PH-like family includes the PH domain, both the Shc-like ...
 263-369 3.34e-11

Pleckstrin homology-like domain; The PH-like family includes the PH domain, both the Shc-like and IRS-like PTB domains, the ran-binding domain, the EVH1 domain, a domain in neurobeachin and the third domain of FERM. All of these domains have a PH fold, but lack significant sequence similarity. They are generally involved in targeting to protein to the appropriate cellular location or interacting with a binding partner. This domain family possesses multiple functions including the ability to bind inositol phosphates and to other proteins.


Pssm-ID: 275390  Cd Length: 89  Bit Score: 60.49  E-value: 3.34e-11
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958668350  263 KNNVLVQPRDDMEAVPGYLSLHQtadvMTLKWTPNQLMngsvgdldyeksvywDYAVTIRLEEIVYLHCHQQVDSGGTVV 342
Cdd:cd00900      2 KFRAVRVYREPTKRVEGTLYITS----DRLILRDKNDG---------------GLELSIPISDIVNVNVSPQGPSSRYLV 62

                           90       100
                   ....*....|....*....|....*..
gi 1958668350  343 LVSQDGIQRPPFRFPKGGHLLQFLSCL 369
Cdd:cd00900     63 LVLKDRGEFVGFSFPKEEDAIEISDAL 89
RUN_RUFY2 cd17695
RUN domain found in RUN and FYVE domain-containing protein 2 (RUFY2) and similar proteins; ...
 11-176 5.19e-08

RUN domain found in RUN and FYVE domain-containing protein 2 (RUFY2) and similar proteins; RUFY2, also called Rab4-interacting protein related, is a novel embryonic factor that contains an N-terminal RUN domain and a C-terminal FYVE domain with two coiled-coil domains in-between. It is present in the nucleus at early stages of embryonic development. It may have both endosomal functions in the cytoplasm and nuclear functions. This model represents the RUN domain of RUFY2.


Pssm-ID: 439057  Cd Length: 156  Bit Score: 53.44  E-value: 5.19e-08
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958668350   11 RQRLLRTVKKEVKQIMEEAVT-RKFVHEDSSHIISFCAAVEACVLHGLRRRAAgFLRSNK-IAALFMKVGKGFPPAEELS 88
Cdd:cd17695      2 RANLLNMAKLSIKGLIESALSfGRTLDSDYPPLQQFFVVMEHCLKHGLKVRKS-FLSYNKtIWGPLELVEKLCPEAEEIA 80

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958668350   89 rkvqeleqliesarnqiqglqENVRKLPKLPnlSPLAIKHLWIRTALFERVLDKIVHYLVENS---SKYYEKEALLMDPv 165
Cdd:cd17695     81 ---------------------ASVRDLPGLK--TPLGRARAWLRLALMQKKLADYLRCLIIRRdllSEFYEYHALMMEE- 136

                          170
                   ....*....|.
gi 1958668350  166 DGPILASLLVG 176
Cdd:cd17695    137 EGAVIVGLLVG 147
RUN_RUFY3 cd17696
RUN domain found in RUN and FYVE domain-containing protein 3 (RUFY3) and similar proteins; ...
 11-176 6.08e-06

RUN domain found in RUN and FYVE domain-containing protein 3 (RUFY3) and similar proteins; RUFY3, also called Rap2-interacting protein x (RIPx or RPIPx), or single axon-regulated protein (singar), is an N-terminal RUN domain and a C-terminal FYVE domain containing protein predominantly expressed in the brain. It suppresses formation of surplus axons for neuronal polarity. Unlike other RUFY proteins, RUFY3 can associate with the GTP-bound active form of Rab5. This model represents the RUN domain of RUFY3.


Pssm-ID: 439058  Cd Length: 156  Bit Score: 47.30  E-value: 6.08e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958668350   11 RQRLLRTVKKEVKQIMEEAVTR-KFVHEDSSHIISFCAAVEACVLHGLRRRAAgFLRSNKiaalfmkvgKGFPPAEELSR 89
Cdd:cd17696      2 RMNLMNMAKLSIKGLIESALNLgRTLDSDYAPLQQFFVVMEHCLKHGLKAKKT-FLGQNK---------SFWGPLELVEK 71

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958668350   90 KVQELEQLIESarnqiqglqenVRKLPKLPnlSPLAIKHLWIRTALFERVLDKIVHYLVENS---SKYYEKEALLMDPvD 166
Cdd:cd17696     72 LVPEAAEITAS-----------VKDLPGLK--TPVGRGRAWLRLALMQKKLSEYMKALINRKdllSEFYEPNALMMEE-E 137

                          170
                   ....*....|
gi 1958668350  167 GPILASLLVG 176
Cdd:cd17696    138 GAIIAGLLVG 147
RUN_RUFY4_like cd17682
RUN domain found in RUN and FYVE domain-containing protein 4 (RUFY4), FYVE and coiled-coil ...
 37-174 1.52e-05

RUN domain found in RUN and FYVE domain-containing protein 4 (RUFY4), FYVE and coiled-coil domain-containing protein 1 (FYCO1), and similar proteins; The family includes RUFY4 and FYCO1. RUFY4 acts as a positive regulator that enhances autophagy and lysosome tethering in response to Interleukin-4. It is expressed in a cell-specific manner or under specific immunological conditions associated with IL4 expression such as allergic asthma. FYCO1, also called zinc finger FYVE domain-containing protein 7 (ZFYVE7), is a multidomain autophagy adaptor protein that interacts with kinesin motor proteins and with the autophagosomal membrane components microtubule-associated protein 1 light chain 3 (LC3), Rab7, and phosphatidylinositol 3-phosphate (PI3P), to mediate microtubule plus-end-directed autophagosome transport. Both RUFY4 and FYCO1 contain an N-terminal RUN domain and a C-terminal FYVE domain with two coiled-coil domains in-between; this model represents the RUN domain.


Pssm-ID: 439044  Cd Length: 150  Bit Score: 46.06  E-value: 1.52e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958668350   37 EDSSHIISFCAAVEACVLHGLRRRAAGFLRsnKIAAL-FMkvgkgfppaEELSRKVQE----LEQLIESARNQ--IQGLQ 109
Cdd:cd17682     19 PDNPYLRPFCETLEKILRKGLKEKVSLGGR--RKDYWdWL---------EELLKKLNKipksLSDAVKFVKSCkkVKTNQ 87

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1958668350  110 ENVRklpklpnlsplaikhLWIRTALFERVLDKIVHYLVENS---SKYYEKEALLMDPVDGPILASLL 174
Cdd:cd17682     88 GRGR---------------LFIRYALNKKCLHDPVQQLVKNPkllSDYYSPDSILGNEILSEILLSLL 140
RUN_RUFY1 cd17694
RUN domain found in RUN and FYVE domain-containing protein 1 (RUFY1) and similar proteins; ...
 11-176 2.50e-05

RUN domain found in RUN and FYVE domain-containing protein 1 (RUFY1) and similar proteins; RUFY1, also called FYVE-finger protein EIP1, or La-binding protein 1, or Rab4-interacting protein (Rabip4), or Zinc finger FYVE domain-containing protein 12 (ZFY12), a human homolog of mouse Rabip4, an effector of Rab4 GTPase that regulates recycling of endocytosed cargo. RUFY1 is an endosomal protein that functions as a dual effector of Rab4 and Rab14 and is involved in efficient recycling of transferrin (Tfn). It is a downstream effector of Etk, a downstream tyrosine kinase of PI3-kinase that is involved in regulation of vesicle trafficking. RUFY1 contains an N-terminal RUN domain and a C-terminal FYVE domain with two coiled-coil domains in-between; this model represents the RUN domain.


Pssm-ID: 439056  Cd Length: 156  Bit Score: 45.67  E-value: 2.50e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958668350   11 RQRLLRTVKKEVKQIMEEAVTR-KFVHEDSSHIISFCAAVEACVLHGLRRRAAgFLRSNKiaalfmkvgKGFPPAEELSR 89
Cdd:cd17694      2 RANLMNMMKLSIKVLIQSALSLgRTLDSDYPPLQQFFVVLEHCLKHGLKVKKS-FIGQNK---------SFFGPLELVEK 71

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958668350   90 KVQELEQLIESARNqiqglqenvrkLPKLPnlSPLAIKHLWIRTALFERVLDKIVHYLVENS---SKYYEKEALLMDPvD 166
Cdd:cd17694     72 LCPEASDIATSARN-----------LPELK--TAVGRGRAWLHLALMQKKLADYLKVLIDRKdllSEFYEPGALMMEE-E 137

                          170
                   ....*....|
gi 1958668350  167 GPILASLLVG 176
Cdd:cd17694    138 GAVIVGLLVG 147
RUN_SNX29 cd17689
RUN domain found in sorting nexin-29 (SNX29) and similar proteins; SNX29, also called RUN ...
 37-176 7.12e-05

RUN domain found in sorting nexin-29 (SNX29) and similar proteins; SNX29, also called RUN domain-containing protein 2A (RUNDC2A), belongs to the sorting nexin family. Sorting nexins are a large group of proteins that are localized in the cytoplasm and have the potential for membrane association either through their lipid-binding PX domain, a phospholipid-binding motif, or through protein-protein interactions with membrane-associated protein complexes. Some sorting nexin family members have been shown to facilitate protein sorting. This model contains the RUN domain of SNX29.


Pssm-ID: 439051  Cd Length: 166  Bit Score: 44.53  E-value: 7.12e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958668350   37 EDSSHIISFCAAVEACVLHGLRRRAagflrsnkiaalfmkvgkgfppaeelsrkvqeLEQLIESARNQIQGLQENVRKLP 116
Cdd:cd17689     22 ESDSRVSCLCAQLEAVLQHGLKTSR--------------------------------SPNLVSSAVTQVSGLAGSLGSAE 69

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958668350  117 KLPNLSPLAIKHL-----------------------WIRTALFERVLDKIVHYLVENSS---KYYEKEALLMDPVDGPIL 170
Cdd:cd17689     70 TEPTFWPFVKEHLtkhelerfellkniwtdigrgraWLRSALNEHSLERYLHILLSNENllrQYYEDWAFLRDEERSSML 149


                   ....*.
gi 1958668350  171 ASLLVG 176
Cdd:cd17689    150 PNMAAG 155
RUN_PLEKHM1 cd17679
RUN domain found in pleckstrin homology domain-containing family M member 1 (PLEKHM1) and ...
 11-176 4.81e-04

RUN domain found in pleckstrin homology domain-containing family M member 1 (PLEKHM1) and similar proteins; PLEKHM1, also called PH domain-containing family M member 1, or 162 kDa adapter protein (AP162), may act as a multivalent adapter protein that regulates Rab7-dependent and HOPS complex-dependent fusion events in the endolysosomal system and couples autophagic and the endocytic trafficking pathways. This model represents the RUN domain of PLEKHM1.


Pssm-ID: 439041 [Multi-domain]  Cd Length: 171  Bit Score: 42.19  E-value: 4.81e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958668350   11 RQRLLRTVKKEVKQIMEEAVTRKFVHEDSSHI-ISFCAAVEACVLHGLR----RRAAGFlRSNKIAAL----FMKVGKGF 81
Cdd:cd17679      1 KKSLTKELSSSVKELQLEYVSSDEVVTSSDDGaNTLCCVLEAIFLHGLKdkfiSKVSSV-FSGDVDKLpepnFWPLLLKF 79

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958668350   82 ppaeeLSRKV-QELEQLiesarNQIqglQENV---RKlpklpnlsplaikhlWIRTALFERVLDkivHYLV----ENS-- 151
Cdd:cd17679     80 -----SHRDViDQIEHL-----SQI---TTDVgrcRA---------------WIRLALNDGLLE---SYLEailkDKSal 128

                          170       180
                   ....*....|....*....|....*
gi 1958668350  152 SKYYEKEALLMDPVDGPILASLLVG 176
Cdd:cd17679    129 KSYYNPSAFLRDPEQLDILKSLLQG 153
 
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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