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Conserved domains on  [gi|1720418225|ref|XP_030111319|]
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DENN domain-containing protein 5B isoform X3 [Mus musculus]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
RUN super family cl45896
RUN domain; RUN domain, named after RPIP8 (Rap2 interacting protein 8), UNC-14 and NESCA (new ...
 421-626 1.87e-156

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.


The actual alignment was detected with superfamily member cd17691:

Pssm-ID: 459241 [Multi-domain]  Cd Length: 206  Bit Score: 458.75  E-value: 1.87e-156
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720418225 421 VIAQTNWKFVEGLLKECRMKTKRMLVEKMGHEAVELGHGEANITGLEENTLIASLCDLLERIWSHGLLVKQGKSALWSHL 500
Cdd:cd17691     1 VIAQTNWKFVEGLLKECRMKTKRMLVEKMGHEAVELGHGEANITGLEENTLIASLCDLLERIWSHGLQVKQGKSALWSHL 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720418225 501 LQFQDREEKQEHLTDSPVALGPERRKSDSGVMLPTLRVSLIQDMRHIQNMTEIKTDVGRARAWIRLSLEKKLLSQHLKQL 580
Cdd:cd17691    81 LHFQEREEKQEHVAESPVANGLERRKSETGVNLPTLRVSLIQDMRHIQNMSEIKTDVGRARAWIRLSLEKKLLSQHLKQL 160

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*.
gi 1720418225 581 LSNQPLTKKLYKRYAFLRCEEEREQFLYHLLSLNAVDYFCFTSVFT 626
Cdd:cd17691   161 LSNQALTKKLYKRYAFLRCEEEKEQFLYHLLSLNAVDYFCFTSVFT 206
RUN2_DENND5B cd17693
RUN2 domain found in DENN domain-containing protein 5B (DENND5B) and similar proteins; DENND5B, ...
 785-963 1.73e-123

RUN2 domain found in DENN domain-containing protein 5B (DENND5B) and similar proteins; DENND5B, also called Rab6-interacting protein 1 (Rab6IP1)-like protein, functions in membrane trafficking at a crossroads between the Golgi and the endosomal system. It is composed of an N-terminal DENN (Differentially Expressed in Normal and Neoplastic cells) domain followed by two RUN (RPIP8 [RaP2-interacting protein 8], UNC-14, and NESCA [new molecule containing SH3 at the carboxyl terminus]) domains flanking a PLAT (Polycystin-1, Lipoxygenase, Alpha-Toxin) domain. This model represents the second RUN domain of DENND5B.


:

Pssm-ID: 439055  Cd Length: 179  Bit Score: 372.25  E-value: 1.73e-123
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720418225 785 QIQEGIGEAVNNIVKHFHKPEKERGSLTVLLCGENGLVAALEQVFHHGFKSARIFHKNVFIWDFVEKAVAYFETTDQILD 864
Cdd:cd17693     1 QIQEGIGEAVNNIVKHFHKPEKERGSLTVLLCGENGLVAALEQVFHHGFKSARIFQKNVFIWDFIEKAVAYFETTDQIGD 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720418225 865 NEGDVLIQKPSSKTFCHYVNAINTAPRNIGKDGKFQILVCLGTRDHLLPQWIPLLAECPAITRMYEENALLRDHMTVNSL 944
Cdd:cd17693    81 LEEDLLILKSSCKTFCHYVNAINTAPRNIGKDGKFQLLVCLGARDHLLPQWIPLLAECPVITRMYEENALLRDRMTVNSL 160

                         170
                  ....*....|....*....
gi 1720418225 945 IRILQTIQDFTIVLEGSLI 963
Cdd:cd17693   161 IRVLQTLQDFNITLEGSLI 179
PLAT_RAB6IP1 cd01757
PLAT/LH2 domain present in RAB6 interacting protein 1 (Rab6IP1)_like family. PLAT/LH2 domains ...
 630-738 1.17e-63

PLAT/LH2 domain present in RAB6 interacting protein 1 (Rab6IP1)_like family. PLAT/LH2 domains consists of an eight stranded beta-barrel. In RabIP1 this domain may participate in lipid-mediated modulation of Rab6IP1's function via it's generally proposed function of mediating interaction with lipids or membrane bound proteins.


:

Pssm-ID: 238855  Cd Length: 114  Bit Score: 210.09  E-value: 1.17e-63
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720418225 630 IPYRSVIIPIKKLSNAIITSNPWICVSGELGDTGVMQIPKNLLEMTFECQNLGKLTTVQIGHDNSGLLAKWLVDCVMVRN 709
Cdd:cd01757     1 MPYHVVIVPSKKLGGSMFTANPWICVSGELGETPPLQIPKNSLEMTFDCQNLGKLTTVQIGHDNSGLLAKWLVEYVMVRN 80

                          90       100       110
                  ....*....|....*....|....*....|....
gi 1720418225 710 EITGHTYRFPCGRWLGKGVD-----DGSLERILI 738
Cdd:cd01757    81 EITGHTYKFPCGRWLGEGVDdgngeDGSLERVLV 114
DENN super family cl11519
DENN (AEX-3) domain; DENN (after differentially expressed in neoplastic vs normal cells) is a ...
 1-69 1.06e-24

DENN (AEX-3) domain; DENN (after differentially expressed in neoplastic vs normal cells) is a domain which occurs in several proteins involved in Rab- mediated processes or regulation of MAPK signalling pathways.


The actual alignment was detected with superfamily member pfam02141:

Pssm-ID: 472208  Cd Length: 186  Bit Score: 102.27  E-value: 1.06e-24
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1720418225   1 MTVAEGITTLLFPFQWQHVYVPILPASLLHFLDAPVPYLMGLQSKEGtdrsKLELPQEANLCFVDIDNH 69
Cdd:pfam02141 122 TLVAEAVVALLYPFVWQHIYIPVLPASLLDVLSAPTPFIIGVHSRYF----DLLEDPLDDVVLVDLDTG 186
dDENN smart00801
Domain always found downstream of DENN domain, found in a variety of signalling proteins; The ...
 193-268 1.88e-17

Domain always found downstream of DENN domain, found in a variety of signalling proteins; The dDENN domain is part of the tripartite DENN domain. It is always found downstream of the DENN domain itself, which is found in a variety of signalling proteins involved in Rab-mediated processes or regulation of MAPKs signalling pathways. The DENN domain is always encircled on both sides by more divergent domains, called uDENN (for upstream DENN) and dDENN (for downstream DENN). The function of the DENN domain remains to date unclear, although it appears to represent a good candidate for a GTP/GDP exchange activity.


:

Pssm-ID: 129037  Cd Length: 69  Bit Score: 77.33  E-value: 1.88e-17
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1720418225  193 NVQLREVFANRFTQMFADYEAFVIqtaqdmeSWLTNREQMQNFDKASFLSDQPEPYLPFLSRFIETQMFATFIDNK 268
Cdd:smart00801   1 NDEIREAFLRFFVNLFGGYRNFLR-------ELRKEPGPVITFDKESFLKSRPSSERPFLSKFLETQMFSQFIEER 69
 
Name Accession Description Interval E-value
RUN1_DENND5B cd17691
RUN1 domain found in DENN domain-containing protein 5B (DENND5B) and similar proteins; DENND5B, ...
 421-626 1.87e-156

RUN1 domain found in DENN domain-containing protein 5B (DENND5B) and similar proteins; DENND5B, also called Rab6-interacting protein 1 (Rab6IP1)-like protein, functions in membrane trafficking at a crossroads between the Golgi and the endosomal system. It is composed of an N-terminal DENN (Differentially Expressed in Normal and Neoplastic cells) domain followed by two RUN (RPIP8 [RaP2-interacting protein 8], UNC-14, and NESCA [new molecule containing SH3 at the carboxyl terminus]) domains flanking a PLAT (Polycystin-1, Lipoxygenase, Alpha-Toxin) domain. This model represents the first RUN domain of DENND5B.


Pssm-ID: 439053 [Multi-domain]  Cd Length: 206  Bit Score: 458.75  E-value: 1.87e-156
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720418225 421 VIAQTNWKFVEGLLKECRMKTKRMLVEKMGHEAVELGHGEANITGLEENTLIASLCDLLERIWSHGLLVKQGKSALWSHL 500
Cdd:cd17691     1 VIAQTNWKFVEGLLKECRMKTKRMLVEKMGHEAVELGHGEANITGLEENTLIASLCDLLERIWSHGLQVKQGKSALWSHL 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720418225 501 LQFQDREEKQEHLTDSPVALGPERRKSDSGVMLPTLRVSLIQDMRHIQNMTEIKTDVGRARAWIRLSLEKKLLSQHLKQL 580
Cdd:cd17691    81 LHFQEREEKQEHVAESPVANGLERRKSETGVNLPTLRVSLIQDMRHIQNMSEIKTDVGRARAWIRLSLEKKLLSQHLKQL 160

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*.
gi 1720418225 581 LSNQPLTKKLYKRYAFLRCEEEREQFLYHLLSLNAVDYFCFTSVFT 626
Cdd:cd17691   161 LSNQALTKKLYKRYAFLRCEEEKEQFLYHLLSLNAVDYFCFTSVFT 206
RUN2_DENND5B cd17693
RUN2 domain found in DENN domain-containing protein 5B (DENND5B) and similar proteins; DENND5B, ...
 785-963 1.73e-123

RUN2 domain found in DENN domain-containing protein 5B (DENND5B) and similar proteins; DENND5B, also called Rab6-interacting protein 1 (Rab6IP1)-like protein, functions in membrane trafficking at a crossroads between the Golgi and the endosomal system. It is composed of an N-terminal DENN (Differentially Expressed in Normal and Neoplastic cells) domain followed by two RUN (RPIP8 [RaP2-interacting protein 8], UNC-14, and NESCA [new molecule containing SH3 at the carboxyl terminus]) domains flanking a PLAT (Polycystin-1, Lipoxygenase, Alpha-Toxin) domain. This model represents the second RUN domain of DENND5B.


Pssm-ID: 439055  Cd Length: 179  Bit Score: 372.25  E-value: 1.73e-123
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720418225 785 QIQEGIGEAVNNIVKHFHKPEKERGSLTVLLCGENGLVAALEQVFHHGFKSARIFHKNVFIWDFVEKAVAYFETTDQILD 864
Cdd:cd17693     1 QIQEGIGEAVNNIVKHFHKPEKERGSLTVLLCGENGLVAALEQVFHHGFKSARIFQKNVFIWDFIEKAVAYFETTDQIGD 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720418225 865 NEGDVLIQKPSSKTFCHYVNAINTAPRNIGKDGKFQILVCLGTRDHLLPQWIPLLAECPAITRMYEENALLRDHMTVNSL 944
Cdd:cd17693    81 LEEDLLILKSSCKTFCHYVNAINTAPRNIGKDGKFQLLVCLGARDHLLPQWIPLLAECPVITRMYEENALLRDRMTVNSL 160

                         170
                  ....*....|....*....
gi 1720418225 945 IRILQTIQDFTIVLEGSLI 963
Cdd:cd17693   161 IRVLQTLQDFNITLEGSLI 179
PLAT_RAB6IP1 cd01757
PLAT/LH2 domain present in RAB6 interacting protein 1 (Rab6IP1)_like family. PLAT/LH2 domains ...
 630-738 1.17e-63

PLAT/LH2 domain present in RAB6 interacting protein 1 (Rab6IP1)_like family. PLAT/LH2 domains consists of an eight stranded beta-barrel. In RabIP1 this domain may participate in lipid-mediated modulation of Rab6IP1's function via it's generally proposed function of mediating interaction with lipids or membrane bound proteins.


Pssm-ID: 238855  Cd Length: 114  Bit Score: 210.09  E-value: 1.17e-63
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720418225 630 IPYRSVIIPIKKLSNAIITSNPWICVSGELGDTGVMQIPKNLLEMTFECQNLGKLTTVQIGHDNSGLLAKWLVDCVMVRN 709
Cdd:cd01757     1 MPYHVVIVPSKKLGGSMFTANPWICVSGELGETPPLQIPKNSLEMTFDCQNLGKLTTVQIGHDNSGLLAKWLVEYVMVRN 80

                          90       100       110
                  ....*....|....*....|....*....|....
gi 1720418225 710 EITGHTYRFPCGRWLGKGVD-----DGSLERILI 738
Cdd:cd01757    81 EITGHTYKFPCGRWLGEGVDdgngeDGSLERVLV 114
DENN pfam02141
DENN (AEX-3) domain; DENN (after differentially expressed in neoplastic vs normal cells) is a ...
 1-69 1.06e-24

DENN (AEX-3) domain; DENN (after differentially expressed in neoplastic vs normal cells) is a domain which occurs in several proteins involved in Rab- mediated processes or regulation of MAPK signalling pathways.


Pssm-ID: 460461  Cd Length: 186  Bit Score: 102.27  E-value: 1.06e-24
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1720418225   1 MTVAEGITTLLFPFQWQHVYVPILPASLLHFLDAPVPYLMGLQSKEGtdrsKLELPQEANLCFVDIDNH 69
Cdd:pfam02141 122 TLVAEAVVALLYPFVWQHIYIPVLPASLLDVLSAPTPFIIGVHSRYF----DLLEDPLDDVVLVDLDTG 186
DENN smart00799
Domain found in a variety of signalling proteins, always encircled by uDENN and dDENN; The ...
 1-69 3.63e-24

Domain found in a variety of signalling proteins, always encircled by uDENN and dDENN; The DENN domain is found in a variety of signalling proteins involved in Rab-mediated processes or regulation of MAPKs signalling pathways. The DENN domain is always encircled on both sides by more divergent domains, called uDENN (for upstream DENN) and dDENN (for downstream DENN). The function of the DENN domain remains to date unclear, although it appears to represent a good candidate for a GTP/GDP exchange activity.


Pssm-ID: 214823  Cd Length: 183  Bit Score: 100.73  E-value: 3.63e-24
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1720418225    1 MTVAEGITTLLFPFQWQHVYVPILPASLLHFLDAPVPYLMGLQSKEGTDRSKLELpqeANLCFVDIDNH 69
Cdd:smart00799 118 SAVIEALLALLYPFVWQHIYIPILPASLLDVLSAPTPFIIGVHSSYFEEVKELPD---EDVVVVDLDTG 183
RUN smart00593
domain involved in Ras-like GTPase signaling;
560-623 2.51e-19

domain involved in Ras-like GTPase signaling;


Pssm-ID: 214736 [Multi-domain]  Cd Length: 64  Bit Score: 82.66  E-value: 2.51e-19
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1720418225  560 ARAWIRLSLEKKLLSQHLKQLLSNQPLTKKLYKRYAFLRCEEEREQFLYHLLSLNAVDYFCFTS 623
Cdd:smart00593   1 FRAWIRLALNEKLLSSWLNLLLSDEELLSKYYEPWAFLRDPEEGEQLLGLLVGLSALDFNLPVD 64
RUN pfam02759
RUN domain; This domain is present in several proteins that are linked to the functions of ...
 821-958 2.90e-18

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: 81.94  E-value: 2.90e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720418225 821 LVAALEQVFHHGFKS-------ARIFHKNVFIWDFVEKAVAYFETTDQIldnegdvliqkpssktfCHYVNAINTAPRNI 893
Cdd:pfam02759   2 LCAALEALLSHGLKRssllilrAAGLLPERSFWALLERVGKLVPPAEEL-----------------LSSVQELEQIHTPY 64

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1720418225 894 GKDGKFQILVCLGTRDHLLPQWIPLLAECPAIT-RMYEENALLRDHMTVNSLIRILQTIQDFTIVL 958
Cdd:pfam02759  65 SPDGRGRAWIRLALNEKLLDQWLKLLLSNKELLsEYYEPWALLADPEFGEILLGLLVGLSALDFNL 130
dDENN smart00801
Domain always found downstream of DENN domain, found in a variety of signalling proteins; The ...
 193-268 1.88e-17

Domain always found downstream of DENN domain, found in a variety of signalling proteins; The dDENN domain is part of the tripartite DENN domain. It is always found downstream of the DENN domain itself, which is found in a variety of signalling proteins involved in Rab-mediated processes or regulation of MAPKs signalling pathways. The DENN domain is always encircled on both sides by more divergent domains, called uDENN (for upstream DENN) and dDENN (for downstream DENN). The function of the DENN domain remains to date unclear, although it appears to represent a good candidate for a GTP/GDP exchange activity.


Pssm-ID: 129037  Cd Length: 69  Bit Score: 77.33  E-value: 1.88e-17
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1720418225  193 NVQLREVFANRFTQMFADYEAFVIqtaqdmeSWLTNREQMQNFDKASFLSDQPEPYLPFLSRFIETQMFATFIDNK 268
Cdd:smart00801   1 NDEIREAFLRFFVNLFGGYRNFLR-------ELRKEPGPVITFDKESFLKSRPSSERPFLSKFLETQMFSQFIEER 69
RUN pfam02759
RUN domain; This domain is present in several proteins that are linked to the functions of ...
 474-618 3.61e-16

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: 76.16  E-value: 3.61e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720418225 474 SLCDLLERIWSHGLLVKQGKSALWSHLLQfqdreekQEHLTDSPVALGPerrksdsgvMLPTLRvSLIQDMRHIQNMTEI 553
Cdd:pfam02759   1 QLCAALEALLSHGLKRSSLLILRAAGLLP-------ERSFWALLERVGK---------LVPPAE-ELLSSVQELEQIHTP 63

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1720418225 554 KTDVGRARAWIRLSLEKKLLSQHLKQLLSNQPLTKKLYKRYAFLRCEEEREQFLYHLLSLNAVDY 618
Cdd:pfam02759  64 YSPDGRGRAWIRLALNEKLLDQWLKLLLSNKELLSEYYEPWALLADPEFGEILLGLLVGLSALDF 128
dDENN pfam03455
dDENN domain; This region is always found associated with pfam02141. It is predicted to form a ...
 235-286 1.27e-14

dDENN domain; This region is always found associated with pfam02141. It is predicted to form a globular domain. Although not statistically supported it has been suggested that this domain may be similar to members of the Rho/Rac/Cdc42 GEF family. This N-terminal region of DENN folds into a longin module, consisting of a central antiparallel beta-sheet layered between helix H1 and helices H2 and H3 (strands S1-S5). Rab35 interacts with dDENN via residues in helix 1 and in the loop S3-S4.


Pssm-ID: 460925  Cd Length: 48  Bit Score: 68.76  E-value: 1.27e-14
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1720418225 235 FDKASFLSDQPEPYLPFLSRFIETQMFATFIDNKIMSqweeKDPLLRVFDSR 286
Cdd:pfam03455   1 FDKEAFLKSLPSDSRPFLSQFLETQMFNEFIEERLES----SDPSIDLFDEE 48
PLAT pfam01477
PLAT/LH2 domain; This domain is found in a variety of membrane or lipid associated proteins. ...
 648-737 1.40e-09

PLAT/LH2 domain; This domain is found in a variety of membrane or lipid associated proteins. It is called the PLAT (Polycystin-1, Lipoxygenase, Alpha-Toxin) domain or LH2 (Lipoxygenase homology) domain. The known structure of pancreatic lipase shows this domain binds to procolipase pfam01114, which mediates membrane association. So it appears possible that this domain mediates membrane attachment via other protein binding partners. The structure of this domain is known for many members of the family and is composed of a beta sandwich.


Pssm-ID: 396180  Cd Length: 115  Bit Score: 56.67  E-value: 1.40e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720418225 648 TSNPWICVSGELGDTGVMQIPKNLL------EMTFE---CQNLGKLTTVQIGHDNSGLLAKWLVDCVMV-RNEITGHTYR 717
Cdd:pfam01477  16 DADVYISLYGKVGESAQLEITLDNPdfergaEDSFEidtDWDVGAILKINLHWDNNGLSDEWFLKSITVeVPGETGGKYT 95

                          90       100
                  ....*....|....*....|
gi 1720418225 718 FPCGRWLGKGvDDGSLERIL 737
Cdd:pfam01477  96 FPCNSWVYGS-KKYKETRVF 114
RUN smart00593
domain involved in Ras-like GTPase signaling;
899-959 2.10e-08

domain involved in Ras-like GTPase signaling;


Pssm-ID: 214736 [Multi-domain]  Cd Length: 64  Bit Score: 51.46  E-value: 2.10e-08
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1720418225  899 FQILVCLGTRDHLLPQWI-PLLAECPAITRMYEENALLRDHMTVNSLIRILQTI--QDFTIVLE 959
Cdd:smart00593   1 FRAWIRLALNEKLLSSWLnLLLSDEELLSKYYEPWAFLRDPEEGEQLLGLLVGLsaLDFNLPVD 64
 
Name Accession Description Interval E-value
RUN1_DENND5B cd17691
RUN1 domain found in DENN domain-containing protein 5B (DENND5B) and similar proteins; DENND5B, ...
 421-626 1.87e-156

RUN1 domain found in DENN domain-containing protein 5B (DENND5B) and similar proteins; DENND5B, also called Rab6-interacting protein 1 (Rab6IP1)-like protein, functions in membrane trafficking at a crossroads between the Golgi and the endosomal system. It is composed of an N-terminal DENN (Differentially Expressed in Normal and Neoplastic cells) domain followed by two RUN (RPIP8 [RaP2-interacting protein 8], UNC-14, and NESCA [new molecule containing SH3 at the carboxyl terminus]) domains flanking a PLAT (Polycystin-1, Lipoxygenase, Alpha-Toxin) domain. This model represents the first RUN domain of DENND5B.


Pssm-ID: 439053 [Multi-domain]  Cd Length: 206  Bit Score: 458.75  E-value: 1.87e-156
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720418225 421 VIAQTNWKFVEGLLKECRMKTKRMLVEKMGHEAVELGHGEANITGLEENTLIASLCDLLERIWSHGLLVKQGKSALWSHL 500
Cdd:cd17691     1 VIAQTNWKFVEGLLKECRMKTKRMLVEKMGHEAVELGHGEANITGLEENTLIASLCDLLERIWSHGLQVKQGKSALWSHL 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720418225 501 LQFQDREEKQEHLTDSPVALGPERRKSDSGVMLPTLRVSLIQDMRHIQNMTEIKTDVGRARAWIRLSLEKKLLSQHLKQL 580
Cdd:cd17691    81 LHFQEREEKQEHVAESPVANGLERRKSETGVNLPTLRVSLIQDMRHIQNMSEIKTDVGRARAWIRLSLEKKLLSQHLKQL 160

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*.
gi 1720418225 581 LSNQPLTKKLYKRYAFLRCEEEREQFLYHLLSLNAVDYFCFTSVFT 626
Cdd:cd17691   161 LSNQALTKKLYKRYAFLRCEEEKEQFLYHLLSLNAVDYFCFTSVFT 206
RUN1_DENND5A cd17690
RUN1 domain found in DENN domain-containing protein 5A (DENND5A) and similar proteins; DENND5A, ...
 421-626 4.21e-126

RUN1 domain found in DENN domain-containing protein 5A (DENND5A) and similar proteins; DENND5A, also called Rab6-interacting protein 1 (Rab6IP1), is present predominantly in developing neuronal tissue, and functions in membrane trafficking at a crossroads between the Golgi and the endosomal system. It is composed of an N-terminal DENN (Differentially Expressed in Normal and Neoplastic cells) domain followed by two RUN (RPIP8 [RaP2-interacting protein 8], UNC-14, and NESCA [new molecule containing SH3 at the carboxyl terminus]) domains flanking a PLAT (Polycystin-1, Lipoxygenase, Alpha-Toxin) domain. This model represents the first RUN domain of DENND5A.


Pssm-ID: 439052 [Multi-domain]  Cd Length: 209  Bit Score: 380.51  E-value: 4.21e-126
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720418225 421 VIAQTNWKFVEGLLKECRMKTKRMLVEKMGHEAVELGHGEANITGLEENTLIASLCDLLERIWSHGLLVKQGKSALWSHL 500
Cdd:cd17690     1 VIAQTNWKFVEGLLKECRNKTKRMLVEKMGREAVELGHGEVNITGVEENTLIASLCDLLERIWSHGLQVKQGKSALWSHL 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720418225 501 LQFQDREEKQE---HLTDSPVALGPERRKSDSGVMLPTLRVSLIQDMRHIQNMTEIKTDVGRARAWIRLSLEKKLLSQHL 577
Cdd:cd17690    81 LHYQENRERKTtssGLSTSGIILDSERRKSDASLAMPPLKISLIQDMRHIQNIGEIKTDVGKARAWVRLSMEKKLLSRHL 160

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*....
gi 1720418225 578 KQLLSNQPLTKKLYKRYAFLRCEEEREQFLYHLLSLNAVDYFCFTSVFT 626
Cdd:cd17690   161 KQLLSDHELTKKLYKRYAFLRCDDEKEQFLYHLLSFNAVDYFCFTNVFT 209
RUN1_DENND5 cd17677
RUN1 domain found in DENN domain-containing protein 5 (DENND5) and similar proteins; DENND5 ...
 421-626 5.41e-125

RUN1 domain found in DENN domain-containing protein 5 (DENND5) and similar proteins; DENND5 has been characterized as Rab6-interacting protein which is composed of an N-terminal DENN (Differentially Expressed in Normal and Neoplastic cells) domain followed by two RUN (RPIP8 [RaP2-interacting protein 8], UNC-14, and NESCA [new molecule containing SH3 at the carboxyl terminus]) domains flanking a PLAT (Polycystin-1, Lipoxygenase, Alpha-Toxin) domain. It functions in membrane trafficking at a crossroads between the Golgi and the endosomal system. DENND5 has two isoforms, DENND5A and DENND5B. This model represents the first RUN domain of DENND5.


Pssm-ID: 439039  Cd Length: 183  Bit Score: 376.35  E-value: 5.41e-125
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720418225 421 VIAQTNWKFVEGLLKECRMKTKRMLVEKMGHEAVELGHGEANITGLEENTLIASLCDLLERIWSHGLLVKQGKSALWSHL 500
Cdd:cd17677     1 VIAQTNWKFVEGLLKECKMKTKRMLVEKMGQEAVELGHGEVNITGVEENTLIASLCDLLERIWSHGLQTKQGKSALWSHL 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720418225 501 LQFQDREEKqehltdspvalgperrksdsgvmLPTLRVSLIQDMRHIQNMTEIKTDVGRARAWIRLSLEKKLLSQHLKQL 580
Cdd:cd17677    81 LAYQENEER-----------------------LKPLPESLLFDMKNVQNMKEIKTDVGYARAWIRLALEKKLLSKHLKTL 137

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*.
gi 1720418225 581 LSNQPLTKKLYKRYAFLRCEEEREQFLYHLLSLNAVDYFCFTSVFT 626
Cdd:cd17677   138 LSNQDLLRSLYKRYAFLRCEDEREQFLYHLLSLNAVDYFCFTNTFT 183
RUN2_DENND5B cd17693
RUN2 domain found in DENN domain-containing protein 5B (DENND5B) and similar proteins; DENND5B, ...
 785-963 1.73e-123

RUN2 domain found in DENN domain-containing protein 5B (DENND5B) and similar proteins; DENND5B, also called Rab6-interacting protein 1 (Rab6IP1)-like protein, functions in membrane trafficking at a crossroads between the Golgi and the endosomal system. It is composed of an N-terminal DENN (Differentially Expressed in Normal and Neoplastic cells) domain followed by two RUN (RPIP8 [RaP2-interacting protein 8], UNC-14, and NESCA [new molecule containing SH3 at the carboxyl terminus]) domains flanking a PLAT (Polycystin-1, Lipoxygenase, Alpha-Toxin) domain. This model represents the second RUN domain of DENND5B.


Pssm-ID: 439055  Cd Length: 179  Bit Score: 372.25  E-value: 1.73e-123
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720418225 785 QIQEGIGEAVNNIVKHFHKPEKERGSLTVLLCGENGLVAALEQVFHHGFKSARIFHKNVFIWDFVEKAVAYFETTDQILD 864
Cdd:cd17693     1 QIQEGIGEAVNNIVKHFHKPEKERGSLTVLLCGENGLVAALEQVFHHGFKSARIFQKNVFIWDFIEKAVAYFETTDQIGD 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720418225 865 NEGDVLIQKPSSKTFCHYVNAINTAPRNIGKDGKFQILVCLGTRDHLLPQWIPLLAECPAITRMYEENALLRDHMTVNSL 944
Cdd:cd17693    81 LEEDLLILKSSCKTFCHYVNAINTAPRNIGKDGKFQLLVCLGARDHLLPQWIPLLAECPVITRMYEENALLRDRMTVNSL 160

                         170
                  ....*....|....*....
gi 1720418225 945 IRILQTIQDFTIVLEGSLI 963
Cdd:cd17693   161 IRVLQTLQDFNITLEGSLI 179
RUN2_DENND5 cd17678
RUN2 domain found in DENN domain-containing protein 5 (DENND5) and similar proteins; DENND5 ...
 785-963 2.97e-92

RUN2 domain found in DENN domain-containing protein 5 (DENND5) and similar proteins; DENND5 has been characterized as Rab6-interacting protein which is composed of an N-terminal DENN (Differentially Expressed in Normal and Neoplastic cells) domain followed by two RUN (RPIP8 [RaP2-interacting protein 8], UNC-14, and NESCA [new molecule containing SH3 at the carboxyl terminus]) domains flanking a PLAT (Polycystin-1, Lipoxygenase, Alpha-Toxin) domain. It functions in membrane trafficking at a crossroads between the Golgi and the endosomal system. DENND5 has two isoforms, DENND5A and DENND5B. This model represents the second RUN domain of DENND5.


Pssm-ID: 439040  Cd Length: 182  Bit Score: 290.27  E-value: 2.97e-92
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720418225 785 QIQEGIGEAVNNIVKHFHKPEKERGSLTVLLCGENGLVAALEQVFHHGFKSARIFHKNVFIWDFVEKAVAYFETTDQILD 864
Cdd:cd17678     1 EIQELLGDAVNNIVKYFYKPEKERGSLTLLLCGESGLVSCLEQVFLYGFKSSRLFRRNLYIWDFIEKVKEYFESLLKQEE 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720418225 865 NEGDV---LIQKPSSKTFCHYVNAINTAPRNIGKDGKFQILVCLGTRDHLLPQWIPLLAECPAITRMYEENALLRDHMTV 941
Cdd:cd17678    81 SDKDYelsKEDRSAMRSFCRLVQKINNASSSIGKDGKFQLFICLGLRDHLLHRWLPLLASSPVTLQMYEENSFLRDPDLL 160

                         170       180
                  ....*....|....*....|..
gi 1720418225 942 NSLIRILQTIQDFTIVLEGSLI 963
Cdd:cd17678   161 SFLVQLLESLNEFNITLENSLT 182
RUN2_DENND5A cd17692
RUN2 domain found in DENN domain-containing protein 5A (DENND5A) and similar proteins; DENND5A, ...
 785-963 2.57e-85

RUN2 domain found in DENN domain-containing protein 5A (DENND5A) and similar proteins; DENND5A, also called Rab6-interacting protein 1 (Rab6IP1), is present predominantly in developing neuronal tissue, and functions in membrane trafficking at a crossroads between the Golgi and the endosomal system. It is composed of an N-terminal DENN (Differentially Expressed in Normal and Neoplastic cells) domain followed by two RUN (RPIP8 [RaP2-interacting protein 8], UNC-14, and NESCA [new molecule containing SH3 at the carboxyl terminus]) domains flanking a PLAT (Polycystin-1, Lipoxygenase, Alpha-Toxin) domain. This model represents the second RUN domain of DENND5A.


Pssm-ID: 439054  Cd Length: 176  Bit Score: 271.41  E-value: 2.57e-85
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720418225 785 QIQEGIGEAVNNIVKHFHKPEKERGSLTVLLCGENGLVAALEQVFHHGFKSARIFhKNVFIWDFVEKAVAYFETTDQild 864
Cdd:cd17692     1 QIQEAVGEAINGIVKHFHKPEKERGSLTLLLCGENGLVSALEQVFQHGFKSPRLF-KNVFIWDFLEKAQAYYESLEQ--- 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720418225 865 NEgdvLIQKPS----SKTFCHYVNAINTAPRNIGKDGKFQILVCLGTRDHLLPQWIPLLAECPAITRMYEENALLRDHMT 940
Cdd:cd17692    77 NE---LVPEENwqtrARNFCRFVNAINSTPRNIGKDGKFQMLVCLGARDHLLHHWIALLADCPITAQMYEDTALIKDHTL 153

                         170       180
                  ....*....|....*....|...
gi 1720418225 941 VNSLIRILQTIQDFTIVLEGSLI 963
Cdd:cd17692   154 VNSLIRVLQTLQEFNITLEASLV 176
PLAT_RAB6IP1 cd01757
PLAT/LH2 domain present in RAB6 interacting protein 1 (Rab6IP1)_like family. PLAT/LH2 domains ...
 630-738 1.17e-63

PLAT/LH2 domain present in RAB6 interacting protein 1 (Rab6IP1)_like family. PLAT/LH2 domains consists of an eight stranded beta-barrel. In RabIP1 this domain may participate in lipid-mediated modulation of Rab6IP1's function via it's generally proposed function of mediating interaction with lipids or membrane bound proteins.


Pssm-ID: 238855  Cd Length: 114  Bit Score: 210.09  E-value: 1.17e-63
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720418225 630 IPYRSVIIPIKKLSNAIITSNPWICVSGELGDTGVMQIPKNLLEMTFECQNLGKLTTVQIGHDNSGLLAKWLVDCVMVRN 709
Cdd:cd01757     1 MPYHVVIVPSKKLGGSMFTANPWICVSGELGETPPLQIPKNSLEMTFDCQNLGKLTTVQIGHDNSGLLAKWLVEYVMVRN 80

                          90       100       110
                  ....*....|....*....|....*....|....
gi 1720418225 710 EITGHTYRFPCGRWLGKGVD-----DGSLERILI 738
Cdd:cd01757    81 EITGHTYKFPCGRWLGEGVDdgngeDGSLERVLV 114
RUN cd17671
RUN domain; RUN domain, named after RPIP8 (Rap2 interacting protein 8), UNC-14 and NESCA (new ...
 443-618 6.96e-28

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: 110.21  E-value: 6.96e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720418225 443 RMLVEKMGHEAVELGHGEANITglEENTLIASLCDLLERIWSHGLLVK---QGKSALWSHLLQFQDReekqehltdspva 519
Cdd:cd17671     4 KELLESFADNGEADDSAALTLT--DDDPVVGRLCAALEAILSHGLKPKrfgGGKVSFWDFLEALEKL------------- 68

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720418225 520 lgperrksdsgvmlpTLRVSLIQDMRHIQNMTEIKTDVGRARAWIRLSLEKKLLSQHLKQLLSNQPLTKKLYKRYAFLRC 599
Cdd:cd17671    69 ---------------LPAPSLKQAIRDINSLSNVKTDDGRGRAWIRLALNEKSLESYLAALLSDQSLLRKYYEPWALLRD 133

                         170
                  ....*....|....*....
gi 1720418225 600 EEEREQFLYHLLSLNAVDY 618
Cdd:cd17671   134 PEEAELFLSLLVGLSSLDF 152
DENN pfam02141
DENN (AEX-3) domain; DENN (after differentially expressed in neoplastic vs normal cells) is a ...
 1-69 1.06e-24

DENN (AEX-3) domain; DENN (after differentially expressed in neoplastic vs normal cells) is a domain which occurs in several proteins involved in Rab- mediated processes or regulation of MAPK signalling pathways.


Pssm-ID: 460461  Cd Length: 186  Bit Score: 102.27  E-value: 1.06e-24
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1720418225   1 MTVAEGITTLLFPFQWQHVYVPILPASLLHFLDAPVPYLMGLQSKEGtdrsKLELPQEANLCFVDIDNH 69
Cdd:pfam02141 122 TLVAEAVVALLYPFVWQHIYIPVLPASLLDVLSAPTPFIIGVHSRYF----DLLEDPLDDVVLVDLDTG 186
PLAT_repeat cd01756
PLAT/LH2 domain repeats of family of proteins with unknown function. In general, PLAT/LH2 ...
 649-737 1.18e-24

PLAT/LH2 domain repeats of family of proteins with unknown function. In general, PLAT/LH2 consists of an eight stranded beta-barrel and it's proposed function is to mediate interaction with lipids or membrane bound proteins.


Pssm-ID: 238854  Cd Length: 120  Bit Score: 99.55  E-value: 1.18e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720418225 649 SNPWICVSGELGDTGVMQIPKNLLEMTFE----------CQNLGKLTTVQIGHDNSGLLAKWLVDCVMVRNEITGHTYRF 718
Cdd:cd01756    19 ANVFITLYGENGDTGKRKLKKSNNKNKFErgqtdkftveAVDLGKLKKIRIGHDNSGLGAGWFLDKVEIREPGTGDEYTF 98

                          90
                  ....*....|....*....
gi 1720418225 719 PCGRWLGKGVDDGSLERIL 737
Cdd:cd01756    99 PCNRWLDKDEDDGQIVREL 117
DENN smart00799
Domain found in a variety of signalling proteins, always encircled by uDENN and dDENN; The ...
 1-69 3.63e-24

Domain found in a variety of signalling proteins, always encircled by uDENN and dDENN; The DENN domain is found in a variety of signalling proteins involved in Rab-mediated processes or regulation of MAPKs signalling pathways. The DENN domain is always encircled on both sides by more divergent domains, called uDENN (for upstream DENN) and dDENN (for downstream DENN). The function of the DENN domain remains to date unclear, although it appears to represent a good candidate for a GTP/GDP exchange activity.


Pssm-ID: 214823  Cd Length: 183  Bit Score: 100.73  E-value: 3.63e-24
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1720418225    1 MTVAEGITTLLFPFQWQHVYVPILPASLLHFLDAPVPYLMGLQSKEGTDRSKLELpqeANLCFVDIDNH 69
Cdd:smart00799 118 SAVIEALLALLYPFVWQHIYIPILPASLLDVLSAPTPFIIGVHSSYFEEVKELPD---EDVVVVDLDTG 183
RUN smart00593
domain involved in Ras-like GTPase signaling;
560-623 2.51e-19

domain involved in Ras-like GTPase signaling;


Pssm-ID: 214736 [Multi-domain]  Cd Length: 64  Bit Score: 82.66  E-value: 2.51e-19
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1720418225  560 ARAWIRLSLEKKLLSQHLKQLLSNQPLTKKLYKRYAFLRCEEEREQFLYHLLSLNAVDYFCFTS 623
Cdd:smart00593   1 FRAWIRLALNEKLLSSWLNLLLSDEELLSKYYEPWAFLRDPEEGEQLLGLLVGLSALDFNLPVD 64
PLAT cd00113
PLAT (Polycystin-1, Lipoxygenase, Alpha-Toxin) domain or LH2 (Lipoxygenase homology 2) domain. ...
 631-733 7.67e-19

PLAT (Polycystin-1, Lipoxygenase, Alpha-Toxin) domain or LH2 (Lipoxygenase homology 2) domain. It consists of an eight stranded beta-barrel. The domain can be found in various domain architectures, in case of lipoxygenases, alpha toxin, lipases and polycystin, but also as a single domain or as repeats.The putative function of this domain is to facilitate access to sequestered membrane or micelle bound substrates.


Pssm-ID: 238061  Cd Length: 116  Bit Score: 83.16  E-value: 7.67e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720418225 631 PYRSVIIPIKKLSnAIITSNPWICVSGELGDTGVMQIPKNLL--------EMTFECQ-NLGKLTTVQIGHDNSGLLAKWL 701
Cdd:cd00113     2 RYTVTIKTGDKKG-AGTDSNISLALYGENGNSSDIPILDGPGsfergstdTFQIDLKlDIGDITKVYLRRDGSGLSDGWY 80

                          90       100       110
                  ....*....|....*....|....*....|..
gi 1720418225 702 VDCVMVRNEITGHTYRFPCGRWLGKGVDDGSL 733
Cdd:cd00113    81 CESITVQALGTKKVYTFPVNRWVLGGKWYTSV 112
RUN pfam02759
RUN domain; This domain is present in several proteins that are linked to the functions of ...
 821-958 2.90e-18

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: 81.94  E-value: 2.90e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720418225 821 LVAALEQVFHHGFKS-------ARIFHKNVFIWDFVEKAVAYFETTDQIldnegdvliqkpssktfCHYVNAINTAPRNI 893
Cdd:pfam02759   2 LCAALEALLSHGLKRssllilrAAGLLPERSFWALLERVGKLVPPAEEL-----------------LSSVQELEQIHTPY 64

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1720418225 894 GKDGKFQILVCLGTRDHLLPQWIPLLAECPAIT-RMYEENALLRDHMTVNSLIRILQTIQDFTIVL 958
Cdd:pfam02759  65 SPDGRGRAWIRLALNEKLLDQWLKLLLSNKELLsEYYEPWALLADPEFGEILLGLLVGLSALDFNL 130
dDENN smart00801
Domain always found downstream of DENN domain, found in a variety of signalling proteins; The ...
 193-268 1.88e-17

Domain always found downstream of DENN domain, found in a variety of signalling proteins; The dDENN domain is part of the tripartite DENN domain. It is always found downstream of the DENN domain itself, which is found in a variety of signalling proteins involved in Rab-mediated processes or regulation of MAPKs signalling pathways. The DENN domain is always encircled on both sides by more divergent domains, called uDENN (for upstream DENN) and dDENN (for downstream DENN). The function of the DENN domain remains to date unclear, although it appears to represent a good candidate for a GTP/GDP exchange activity.


Pssm-ID: 129037  Cd Length: 69  Bit Score: 77.33  E-value: 1.88e-17
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1720418225  193 NVQLREVFANRFTQMFADYEAFVIqtaqdmeSWLTNREQMQNFDKASFLSDQPEPYLPFLSRFIETQMFATFIDNK 268
Cdd:smart00801   1 NDEIREAFLRFFVNLFGGYRNFLR-------ELRKEPGPVITFDKESFLKSRPSSERPFLSKFLETQMFSQFIEER 69
RUN cd17671
RUN domain; RUN domain, named after RPIP8 (Rap2 interacting protein 8), UNC-14 and NESCA (new ...
 792-955 1.47e-16

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: 77.85  E-value: 1.47e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720418225 792 EAVNNIVKHFHKPEKERGSLTVLLCGENG----LVAALEQVFHHGFKSARIFHKNVFIWDFVEKAVayfettdqildneg 867
Cdd:cd17671     1 KAVKELLESFADNGEADDSAALTLTDDDPvvgrLCAALEAILSHGLKPKRFGGGKVSFWDFLEALE-------------- 66

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720418225 868 dvliQKPSSKTFCHYVNAINTAPRNIGKDGKFQILVCLGTRDHLLPQWIPLLAECPAITR-MYEENALLRDHMTVNSLIR 946
Cdd:cd17671    67 ----KLLPAPSLKQAIRDINSLSNVKTDDGRGRAWIRLALNEKSLESYLAALLSDQSLLRkYYEPWALLRDPEEAELFLS 142


                  ....*....
gi 1720418225 947 ILQTIQDFT 955
Cdd:cd17671   143 LLVGLSSLD 151
RUN pfam02759
RUN domain; This domain is present in several proteins that are linked to the functions of ...
 474-618 3.61e-16

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: 76.16  E-value: 3.61e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720418225 474 SLCDLLERIWSHGLLVKQGKSALWSHLLQfqdreekQEHLTDSPVALGPerrksdsgvMLPTLRvSLIQDMRHIQNMTEI 553
Cdd:pfam02759   1 QLCAALEALLSHGLKRSSLLILRAAGLLP-------ERSFWALLERVGK---------LVPPAE-ELLSSVQELEQIHTP 63

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1720418225 554 KTDVGRARAWIRLSLEKKLLSQHLKQLLSNQPLTKKLYKRYAFLRCEEEREQFLYHLLSLNAVDY 618
Cdd:pfam02759  64 YSPDGRGRAWIRLALNEKLLDQWLKLLLSNKELLSEYYEPWALLADPEFGEILLGLLVGLSALDF 128
dDENN pfam03455
dDENN domain; This region is always found associated with pfam02141. It is predicted to form a ...
 235-286 1.27e-14

dDENN domain; This region is always found associated with pfam02141. It is predicted to form a globular domain. Although not statistically supported it has been suggested that this domain may be similar to members of the Rho/Rac/Cdc42 GEF family. This N-terminal region of DENN folds into a longin module, consisting of a central antiparallel beta-sheet layered between helix H1 and helices H2 and H3 (strands S1-S5). Rab35 interacts with dDENN via residues in helix 1 and in the loop S3-S4.


Pssm-ID: 460925  Cd Length: 48  Bit Score: 68.76  E-value: 1.27e-14
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1720418225 235 FDKASFLSDQPEPYLPFLSRFIETQMFATFIDNKIMSqweeKDPLLRVFDSR 286
Cdd:pfam03455   1 FDKEAFLKSLPSDSRPFLSQFLETQMFNEFIEERLES----SDPSIDLFDEE 48
RUN_PLEKHM1 cd17679
RUN domain found in pleckstrin homology domain-containing family M member 1 (PLEKHM1) and ...
 542-616 4.97e-14

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: 71.08  E-value: 4.97e-14
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1720418225 542 QDMRHIQNMTEIKTDVGRARAWIRLSLEKKLLSQHLKQLLSNQPLTKKLYKRYAFLRCEEEREQFLYHLLSLNAV 616
Cdd:cd17679    83 DVIDQIEHLSQITTDVGRCRAWIRLALNDGLLESYLEAILKDKSALKSYYNPSAFLRDPEQLDILKSLLQGLESF 157
RUN_RUFY1_like cd17681
RUN domain found in RUN and FYVE domain-containing proteins, RUFY1, RUFY2, RUFY3 and similar ...
 540-618 5.33e-14

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: 70.29  E-value: 5.33e-14
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1720418225 540 LIQDMRHIQNMTEIKTDVGRARAWIRLSLEKKLLSQHLKQLLSNQPLTKKLYKRYAFLrCEEEREQFLYHLLSLNAVDY 618
Cdd:cd17681    76 ANEITASVRDLPGIKTPLGRARAWLRLALMQKKLADYFRALIENKDLLSEFYEPGALM-MSEEAVVIAGLLVGLNVIDC 153
RUN_SNX29 cd17689
RUN domain found in sorting nexin-29 (SNX29) and similar proteins; SNX29, also called RUN ...
 467-601 2.23e-13

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: 68.80  E-value: 2.23e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720418225 467 EENTLIASLCDLLERIWSHGLlvkqgKSALWSHLLQFQDREEKQEHLTDSPVALGPerrksdsgVMLPTLRVSLIQ-DMR 545
Cdd:cd17689    22 ESDSRVSCLCAQLEAVLQHGL-----KTSRSPNLVSSAVTQVSGLAGSLGSAETEP--------TFWPFVKEHLTKhELE 88

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1720418225 546 HIQNMTEIKTDVGRARAWIRLSLEKKLLSQHLKQLLSNQPLTKKLYKRYAFLRCEE 601
Cdd:cd17689    89 RFELLKNIWTDIGRGRAWLRSALNEHSLERYLHILLSNENLLRQYYEDWAFLRDEE 144
RUN_RUFY4_like cd17682
RUN domain found in RUN and FYVE domain-containing protein 4 (RUFY4), FYVE and coiled-coil ...
 458-617 3.45e-12

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: 64.94  E-value: 3.45e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720418225 458 HGEANITGLEENTLIASLCDLLERIWSHGLlvKQGKSALWSHLLQFQDREEKQEHLTDSPvalgperrKSDSGVmlptlr 537
Cdd:cd17682    10 KSEFGEITDPDNPYLRPFCETLEKILRKGL--KEKVSLGGRRKDYWDWLEELLKKLNKIP--------KSLSDA------ 73

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720418225 538 vslIQDmrhIQNMTEIKTDVGRARAWIRLSLEKKLLSQHLKQLLSNQPLTKKLYKRYAFLRCEEEREQFLYHLLSLNAVD 617
Cdd:cd17682    74 ---VKF---VKSCKKVKTNQGRGRLFIRYALNKKCLHDPVQQLVKNPKLLSDYYSPDSILGNEILSEILLSLLYQLNEIN 147
PLAT_polycystin cd01752
PLAT/LH2 domain of polycystin-1 like proteins. Polycystins are a large family of membrane ...
 680-737 9.62e-12

PLAT/LH2 domain of polycystin-1 like proteins. Polycystins are a large family of membrane proteins composed of multiple domains, present in fish, invertebrates, mammals, and humans that are widely expressed in various cell types and whose biological functions remain poorly defined. In human, mutations in polycystin-1 (PKD1) and polycystin-2 (PKD2) have been shown to be the cause for autosomal dominant polycystic kidney disease (ADPKD). The generally proposed function of PLAT/LH2 domains is to mediate interaction with lipids or membrane bound proteins.


Pssm-ID: 238850  Cd Length: 120  Bit Score: 63.06  E-value: 9.62e-12
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1720418225 680 NLGKLTTVQIGHDNSGLLAKWLVDCVMVRNEITGHTYRFPCGRWLGKGVDDGSLERIL 737
Cdd:cd01752    60 PLGELQSIRLWHDNSGLSPSWYLSRVIVRDLQTGKKWFFLCNDWLSVEEGDGTVERTF 117
PLAT pfam01477
PLAT/LH2 domain; This domain is found in a variety of membrane or lipid associated proteins. ...
 648-737 1.40e-09

PLAT/LH2 domain; This domain is found in a variety of membrane or lipid associated proteins. It is called the PLAT (Polycystin-1, Lipoxygenase, Alpha-Toxin) domain or LH2 (Lipoxygenase homology) domain. The known structure of pancreatic lipase shows this domain binds to procolipase pfam01114, which mediates membrane association. So it appears possible that this domain mediates membrane attachment via other protein binding partners. The structure of this domain is known for many members of the family and is composed of a beta sandwich.


Pssm-ID: 396180  Cd Length: 115  Bit Score: 56.67  E-value: 1.40e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720418225 648 TSNPWICVSGELGDTGVMQIPKNLL------EMTFE---CQNLGKLTTVQIGHDNSGLLAKWLVDCVMV-RNEITGHTYR 717
Cdd:pfam01477  16 DADVYISLYGKVGESAQLEITLDNPdfergaEDSFEidtDWDVGAILKINLHWDNNGLSDEWFLKSITVeVPGETGGKYT 95

                          90       100
                  ....*....|....*....|
gi 1720418225 718 FPCGRWLGKGvDDGSLERIL 737
Cdd:pfam01477  96 FPCNSWVYGS-KKYKETRVF 114
RUN_PLEKHM2 cd17680
RUN domain found in pleckstrin homology domain-containing family M member 2 (PLEKHM2) and ...
 474-612 1.40e-09

RUN domain found in pleckstrin homology domain-containing family M member 2 (PLEKHM2) and similar proteins; PLEKHM2, also called PH domain-containing family M member 2, or Salmonella-induced filaments A (SifA) and Kinesin-Interacting Protein (SKIP), is the lysosome, melanosome and lytic granule cargo adaptor that controls lysosome positioning using a composite kinesin-1 heavy and light chain-binding domain. In addition to kinesin-1, it also interacts with several Rabs to affect endosomal trafficking. This model represents the RUN domain of PLEKHM2.


Pssm-ID: 439042  Cd Length: 145  Bit Score: 57.25  E-value: 1.40e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720418225 474 SLCDLLERIWSHGLlvKQGKSALWSHLLQFQDREEkqehltdspvalgperrksdsgvmlptlrvslIQDMRHIQNMTei 553
Cdd:cd17680    36 RLCEALDHALLHGL--RRGNRGYWPFVKEFTHKET--------------------------------IKQIENLPNVT-- 79

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1720418225 554 kTDVGRARAWIRLSLEKKLLSQHLKQLLSNQPLTKKLYKRYAFLRcEEEREQFLYHLLS 612
Cdd:cd17680    80 -TDLGRGRAWLYLALNEGSLESYLRSFLENRKLVKKFYHKHALLR-DSQRLELLLTLLS 136
RUN_RUNDC3 cd17684
RUN domain found in RUN domain-containing protein 3 (RUNDC3) and similar proteins; RUNDC3 ...
 547-618 1.56e-08

RUN domain found in RUN domain-containing protein 3 (RUNDC3) and similar proteins; RUNDC3 contains two isoforms, RUNDC3A and RUNDC3B. RUNDC3A, also called Rap2-interacting protein 8 (RPIP8), may act as an effector of Rap2A GTPase in neuronal cells. RUNDC3B, also called Rap2-binding protein 9, or Rap2-interacting protein 9 (RPIP-9), contains a RUN domain in its N-terminal region that mediates interaction with Rap2, an important component of the Mitogen-Activated Protein Kinase (MAPK) cascade, which regulates cellular proliferation and differentiation. It also contains characteristic binding sites for MAPK intermediates. Both RUNDC3A and RUNDC3B contain a RUN domain.


Pssm-ID: 439046  Cd Length: 150  Bit Score: 54.71  E-value: 1.56e-08
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1720418225 547 IQNMTEIKTDVGRARAWIRLSLEKKLLSQHLKQLLSNQPLTKKLYKRYAFLrCEEEREQFLYHLLSLNAVDY 618
Cdd:cd17684    78 IEQMENIKSPKAKGRAWIRVALMEKRLSEYLSTALKQTRLTRNFYQDGAIM-LSEDATVLCGMLIGLNAIDF 148
RUN smart00593
domain involved in Ras-like GTPase signaling;
899-959 2.10e-08

domain involved in Ras-like GTPase signaling;


Pssm-ID: 214736 [Multi-domain]  Cd Length: 64  Bit Score: 51.46  E-value: 2.10e-08
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1720418225  899 FQILVCLGTRDHLLPQWI-PLLAECPAITRMYEENALLRDHMTVNSLIRILQTI--QDFTIVLE 959
Cdd:smart00593   1 FRAWIRLALNEKLLSSWLnLLLSDEELLSKYYEPWAFLRDPEEGEQLLGLLVGLsaLDFNLPVD 64
RUN_RUFY1 cd17694
RUN domain found in RUN and FYVE domain-containing protein 1 (RUFY1) and similar proteins; ...
 547-617 2.96e-07

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: 51.06  E-value: 2.96e-07
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1720418225 547 IQNMTEIKTDVGRARAWIRLSLEKKLLSQHLKQLLSNQPLTKKLYKRYAfLRCEEEREQFLYHLLSLNAVD 617
Cdd:cd17694    83 ARNLPELKTAVGRGRAWLHLALMQKKLADYLKVLIDRKDLLSEFYEPGA-LMMEEEGAVIVGLLVGLNVID 152
RUN_RUFY2 cd17695
RUN domain found in RUN and FYVE domain-containing protein 2 (RUFY2) and similar proteins; ...
 547-617 3.86e-07

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: 50.75  E-value: 3.86e-07
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1720418225 547 IQNMTEIKTDVGRARAWIRLSLEKKLLSQHLKQLLSNQPLTKKLYKRYAFLrCEEEREQFLYHLLSLNAVD 617
Cdd:cd17695    83 VRDLPGLKTPLGRARAWLRLALMQKKLADYLRCLIIRRDLLSEFYEYHALM-MEEEGAVIVGLLVGLNVID 152
RUN_RUNDC3B cd17700
RUN domain found in RUN domain-containing protein 3B (RUNDC3B) and similar proteins; RUN ...
 547-620 6.70e-07

RUN domain found in RUN domain-containing protein 3B (RUNDC3B) and similar proteins; RUN domain-containing protein 3B (RUNDC3B), also called Rap2-binding protein 9, or Rap2-interacting protein 9 (RPIP-9), contains a RUN domain in its N-terminal region that mediates interaction with Rap2, an important component of the Mitogen-Activated Protein Kinase (MAPK) cascade, which regulates cellular proliferation and differentiation. It also contains characteristic binding sites for MAPK intermediates. RUNDC3B contains a RUN domain.


Pssm-ID: 439062  Cd Length: 151  Bit Score: 49.97  E-value: 6.70e-07
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1720418225 547 IQNMTEIKTDVGRARAWIRLSLEKKLLSQHLKQLLSNQPLTKKLYKRYAFLrCEEEREQFLYHLLSLNAVDY-FC 620
Cdd:cd17700    78 IENMENVSSSRAKGRAWIRVALMEKRLSEYISTALRDFKTTRRFYEDGAIV-LGEEANMLAGMLLGLNAIDFsFC 151
RUN_FYCO1 cd17698
RUN domain found in FYVE and coiled-coil domain-containing protein 1 (FYCO1) and similar ...
 544-618 8.09e-07

RUN domain found in FYVE and coiled-coil domain-containing protein 1 (FYCO1) and similar proteins; 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. This model represents the RUN domain of FYCO1.


Pssm-ID: 439060  Cd Length: 158  Bit Score: 49.69  E-value: 8.09e-07
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1720418225 544 MRHIQNMTEIKTDVGRARAWIRLSLEKKLLSQHLKQLLSNQPLTKKLYK-RYAFLRCEEEREqFLYHLLSLNAVDY 618
Cdd:cd17698    82 IRFVKSLKEVRTSLGKGRAFIRYSLVHQRLADTLQQCVMNGKVTSDWYYpRSVFLNHKYSSD-IINSLYDLNEVQF 156
RUN_RUNDC3A cd17699
RUN domain found in RUN domain-containing protein 3A (RUNDC3A) and similar proteins; RUN ...
 547-620 1.57e-06

RUN domain found in RUN domain-containing protein 3A (RUNDC3A) and similar proteins; RUN domain-containing protein 3A (RUNDC3A), also called Rap2-interacting protein 8 (RPIP8), may act as an effector of Rap2A GTPase in neuronal cells. It contains a RUN domain.


Pssm-ID: 439061  Cd Length: 151  Bit Score: 48.87  E-value: 1.57e-06
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1720418225 547 IQNMTEIKTDVGRARAWIRLSLEKKLLSQHLKQLLSNQPLTKKLYKRYAFLrCEEEREQFLYHLLSLNAVDY-FC 620
Cdd:cd17699    78 IENMENISTSRAKGRAWIRVALMEKRLSEYIATALRDTRTTRRFYDDGAIM-LREESTVLTGMLIGLSAIDFsFC 151
RUN_RUBCN cd17686
RUN domain found in Run domain Beclin-1-interacting and cysteine-rich domain-containing ...
 475-616 1.87e-06

RUN domain found in Run domain Beclin-1-interacting and cysteine-rich domain-containing protein (RUBCN) and similar proteins; RUBCN, also called rubicon, or beclin-1 associated RUN domain containing protein (Baron), is part of a Beclin-1-Vps34-containing autophagy complex. It negatively regulates endosome maturation and degradative endocytic trafficking and impairs autophagosome maturation process. It is also an important negative regulator of the innate immune response, enhances viral replication and may play a role in viral immune evasion. This model contains the RUN domain of RUBCN.


Pssm-ID: 439048  Cd Length: 151  Bit Score: 48.42  E-value: 1.87e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720418225 475 LCDLLERIWSHGLLVKQGKSALWSHLLQFQDREEKQehltdspvalgperrksdsgvmlPTLrVSLIQDMRHIQNMTEIK 554
Cdd:cd17686    24 LCRAVENILQHGLKEFQGLNKEIDDWEFVQGLRWLQ-----------------------PTL-APSIEQQSRSSPSESEV 79

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1720418225 555 TDVGRAraWIRLSLEKKLLSQHLKQLLSNQPLTKKLYKRYAFLRCEEEREQFlyhLLSLNAV 616
Cdd:cd17686    80 SDKGRL--WLRQSLQQHCLSSQLQWLVSDKELLRKYYEDEAFLRQEGYATAL---LICLTAV 136
RUN_RUFY3 cd17696
RUN domain found in RUN and FYVE domain-containing protein 3 (RUFY3) and similar proteins; ...
 547-617 2.41e-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: 48.45  E-value: 2.41e-06
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1720418225 547 IQNMTEIKTDVGRARAWIRLSLEKKLLSQHLKQLLSNQPLTKKLYKRYAfLRCEEEREQFLYHLLSLNAVD 617
Cdd:cd17696    83 VKDLPGLKTPVGRGRAWLRLALMQKKLSEYMKALINRKDLLSEFYEPNA-LMMEEEGAIIAGLLVGLNVID 152
RUN_RUFY4 cd17697
RUN domain found in RUN and FYVE domain-containing protein 4 (RUFY4) and similar proteins; ...
 547-618 4.48e-06

RUN domain found in RUN and FYVE domain-containing protein 4 (RUFY4) and similar proteins; 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. RUFY4 belongs to the FUFY protein family which is characterized by the presence of an N-terminal RUN domain and a C-terminal FYVE domain; this model represents the RUN domain of RUFY4.


Pssm-ID: 439059  Cd Length: 150  Bit Score: 47.48  E-value: 4.48e-06
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1720418225 547 IQNMTEIKTDVGRARAWIRLSLEKKLLSQHLKQLLSNQPLTKKLYKRYAFLRCEEEREQFLYHLLSLNAVDY 618
Cdd:cd17697    77 VNSTDKLKTPLGKGRAFIRYCLVQQQLAESLQLCLLNPELTGEWYYARSPFLSPELRSDILDSLYELNGVNF 148
RUN_SGSM3 cd17688
RUN domain found in small G protein signaling modulator 3 (SGSM3) and similar proteins; SGSM3, ...
 821-936 8.80e-04

RUN domain found in small G protein signaling modulator 3 (SGSM3) and similar proteins; SGSM3, also called RUN and TBC1 domain-containing protein 3 (RUTBC3), or Merlin-Associated Protein (MAP), or Rab-GTPase-activating protein-like protein (RabGAPLP), may play a cooperative role in NF2-mediated growth suppression of cells. This model contains the RUN domain of SGSM3.


Pssm-ID: 439050  Cd Length: 214  Bit Score: 41.96  E-value: 8.80e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720418225 821 LVAALEQVFHHGFKSARIFHKNVFIWDFVEKAVAY-----FETTDQI--------LDNEGDVLiqKPSSKTFcHYVNAIN 887
Cdd:cd17688    51 LCPALKAIFEHGLKKPSLLGGACHPWLFIEEAASKevekdFNSVYSRlvlcktfrLDEDGKVL--TPEELLY-RSVQAVN 127

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1720418225 888 TAPRNIGK--DGKFQILVCLGTRDHLLPQWIPLLAEC-PAITRMYEENALLR 936
Cdd:cd17688   128 MSHDAAHAqmDVKLRSLICVGLNEQVLHLWLEVLCSSvQIVEKWYHPWSFLR 179
 
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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