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Conserved domains on  [gi|1034597780|ref|XP_016879529|]
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RUN domain-containing protein 3A isoform X8 [Homo sapiens]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
RUN_RUNDC3A cd17699
RUN domain found in RUN domain-containing protein 3A (RUNDC3A) and similar proteins; RUN ...
 30-181 8.00e-114

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: 328.91  E-value: 8.00e-114
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1034597780  30 NLITVCRFSVKTLLEKYTAEPIDDSSEEFVNFAAILEQILSHRFKaGPVSWFSSDGQRGFWDYIRLACSKVPNNCVSSIE 109
Cdd:cd17699     1 NLITVCRFSVKTLLEKYTAEPIDDSSEEFVNFAAILEQILSHRFK-GPVSWFSSDGQRGFWDYIRLACSKVPNNCISSIE 79

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1034597780 110 NMENISTARAKGRAWIRVALMEKRMSEYITTALRDTRTTRRFYDSGAIMLRDEATILTGMLIGLSAIDFSFC 181
Cdd:cd17699    80 NMENISTSRAKGRAWIRVALMEKRLSEYIATALRDTRTTRRFYDDGAIMLREESTVLTGMLIGLSAIDFSFC 151
CwlO1 super family cl25603
Uncharacterized N-terminal coiled-coil domain of peptidoglycan hydrolase CwlO [Function ...
 255-400 3.33e-03

Uncharacterized N-terminal coiled-coil domain of peptidoglycan hydrolase CwlO [Function unknown];


The actual alignment was detected with superfamily member COG3883:

Pssm-ID: 443091 [Multi-domain]  Cd Length: 379  Bit Score: 39.43  E-value: 3.33e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1034597780 255 RIVYAQKGYLEELVRLREsQLKDLEAENRRLQLQLEEAAAQNQREKRELEGVILELQEQLTGLiPSDHAPLAQGSKELTT 334
Cdd:COG3883   126 KIADADADLLEELKADKA-ELEAKKAELEAKLAELEALKAELEAAKAELEAQQAEQEALLAQL-SAEEAAAEAQLAELEA 203

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1034597780 335 PLVNQWPSLGTLNGAEGASNSKLYRRHSFMSTEPLSAEASLSSDSQRLGEGTRDEEPWGPIGSSEP 400
Cdd:COG3883   204 ELAAAEAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAASAAGAGAAGAAGAAAGSAGAAGAAA 269
 
Name Accession Description Interval E-value
RUN_RUNDC3A cd17699
RUN domain found in RUN domain-containing protein 3A (RUNDC3A) and similar proteins; RUN ...
 30-181 8.00e-114

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: 328.91  E-value: 8.00e-114
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1034597780  30 NLITVCRFSVKTLLEKYTAEPIDDSSEEFVNFAAILEQILSHRFKaGPVSWFSSDGQRGFWDYIRLACSKVPNNCVSSIE 109
Cdd:cd17699     1 NLITVCRFSVKTLLEKYTAEPIDDSSEEFVNFAAILEQILSHRFK-GPVSWFSSDGQRGFWDYIRLACSKVPNNCISSIE 79

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1034597780 110 NMENISTARAKGRAWIRVALMEKRMSEYITTALRDTRTTRRFYDSGAIMLRDEATILTGMLIGLSAIDFSFC 181
Cdd:cd17699    80 NMENISTSRAKGRAWIRVALMEKRLSEYIATALRDTRTTRRFYDDGAIMLREESTVLTGMLIGLSAIDFSFC 151
RUN pfam02759
RUN domain; This domain is present in several proteins that are linked to the functions of ...
 60-184 1.06e-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: 132.78  E-value: 1.06e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1034597780  60 NFAAILEQILSHRFKAGP---VSWFSSDGQRGFWDYIRLACSKVPN--NCVSSIENMENISTA---RAKGRAWIRVALME 131
Cdd:pfam02759   1 QLCAALEALLSHGLKRSSlliLRAAGLLPERSFWALLERVGKLVPPaeELLSSVQELEQIHTPyspDGRGRAWIRLALNE 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1034597780 132 KRMSEYITTALRDTRTTRRFYDSGAIMLRDE-ATILTGMLIGLSAIDFSFCLKG 184
Cdd:pfam02759  81 KLLDQWLKLLLSNKELLSEYYEPWALLADPEfGEILLGLLVGLSALDFNLCLKL 134
RUN smart00593
domain involved in Ras-like GTPase signaling;
121-183 1.08e-14

domain involved in Ras-like GTPase signaling;


Pssm-ID: 214736 [Multi-domain]  Cd Length: 64  Bit Score: 68.02  E-value: 1.08e-14
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1034597780  121 GRAWIRVALMEKRMSEYITTALRDTRTTRRFYDSGAIMLRDE-ATILTGMLIGLSAIDFSFCLK 183
Cdd:smart00593   1 FRAWIRLALNEKLLSSWLNLLLSDEELLSKYYEPWAFLRDPEeGEQLLGLLVGLSALDFNLPVD 64
CwlO1 COG3883
Uncharacterized N-terminal coiled-coil domain of peptidoglycan hydrolase CwlO [Function ...
 255-400 3.33e-03

Uncharacterized N-terminal coiled-coil domain of peptidoglycan hydrolase CwlO [Function unknown];


Pssm-ID: 443091 [Multi-domain]  Cd Length: 379  Bit Score: 39.43  E-value: 3.33e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1034597780 255 RIVYAQKGYLEELVRLREsQLKDLEAENRRLQLQLEEAAAQNQREKRELEGVILELQEQLTGLiPSDHAPLAQGSKELTT 334
Cdd:COG3883   126 KIADADADLLEELKADKA-ELEAKKAELEAKLAELEALKAELEAAKAELEAQQAEQEALLAQL-SAEEAAAEAQLAELEA 203

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1034597780 335 PLVNQWPSLGTLNGAEGASNSKLYRRHSFMSTEPLSAEASLSSDSQRLGEGTRDEEPWGPIGSSEP 400
Cdd:COG3883   204 ELAAAEAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAASAAGAGAAGAAGAAAGSAGAAGAAA 269
 
Name Accession Description Interval E-value
RUN_RUNDC3A cd17699
RUN domain found in RUN domain-containing protein 3A (RUNDC3A) and similar proteins; RUN ...
 30-181 8.00e-114

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: 328.91  E-value: 8.00e-114
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1034597780  30 NLITVCRFSVKTLLEKYTAEPIDDSSEEFVNFAAILEQILSHRFKaGPVSWFSSDGQRGFWDYIRLACSKVPNNCVSSIE 109
Cdd:cd17699     1 NLITVCRFSVKTLLEKYTAEPIDDSSEEFVNFAAILEQILSHRFK-GPVSWFSSDGQRGFWDYIRLACSKVPNNCISSIE 79

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1034597780 110 NMENISTARAKGRAWIRVALMEKRMSEYITTALRDTRTTRRFYDSGAIMLRDEATILTGMLIGLSAIDFSFC 181
Cdd:cd17699    80 NMENISTSRAKGRAWIRVALMEKRLSEYIATALRDTRTTRRFYDDGAIMLREESTVLTGMLIGLSAIDFSFC 151
RUN_RUNDC3 cd17684
RUN domain found in RUN domain-containing protein 3 (RUNDC3) and similar proteins; RUNDC3 ...
 30-180 1.54e-94

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: 279.67  E-value: 1.54e-94
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1034597780  30 NLITVCRFSVKTLLEKYTAEPIDDSSEEFVNFAAILEQILSHRFKAGpVSWFSSDGQRGFWDYIRLACSKVPNNCVSSIE 109
Cdd:cd17684     1 NLVTVCRLSVKSLIDKACLETIDDSSEELINFAAILEQILSHRLKPV-KPWYGSEEPRTFWDYIRVACKKVPQNCIASIE 79

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1034597780 110 NMENISTARAKGRAWIRVALMEKRMSEYITTALRDTRTTRRFYDSGAIMLRDEATILTGMLIGLSAIDFSF 180
Cdd:cd17684    80 QMENIKSPKAKGRAWIRVALMEKRLSEYLSTALKQTRLTRNFYQDGAIMLSEDATVLCGMLIGLNAIDFSF 150
RUN_RUNDC3B cd17700
RUN domain found in RUN domain-containing protein 3B (RUNDC3B) and similar proteins; RUN ...
 30-181 1.93e-86

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: 259.13  E-value: 1.93e-86
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1034597780  30 NLITVCRFSVKTLLEKYTAEPIDDSSEEFVNFAAILEQILSHRFKaGPVSWFSSDGQRGFWDYIRLACSKVPNNCVSSIE 109
Cdd:cd17700     1 NLITVCRFSVKTLIDRSCFETIDDSSPEFVNFAAILEQILSHRLK-GQVTWFGYESPRSFWDYIRVACSKVPHNCICSIE 79

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1034597780 110 NMENISTARAKGRAWIRVALMEKRMSEYITTALRDTRTTRRFYDSGAIMLRDEATILTGMLIGLSAIDFSFC 181
Cdd:cd17700    80 NMENVSSSRAKGRAWIRVALMEKRLSEYISTALRDFKTTRRFYEDGAIVLGEEANMLAGMLLGLNAIDFSFC 151
RUN pfam02759
RUN domain; This domain is present in several proteins that are linked to the functions of ...
 60-184 1.06e-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: 132.78  E-value: 1.06e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1034597780  60 NFAAILEQILSHRFKAGP---VSWFSSDGQRGFWDYIRLACSKVPN--NCVSSIENMENISTA---RAKGRAWIRVALME 131
Cdd:pfam02759   1 QLCAALEALLSHGLKRSSlliLRAAGLLPERSFWALLERVGKLVPPaeELLSSVQELEQIHTPyspDGRGRAWIRLALNE 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1034597780 132 KRMSEYITTALRDTRTTRRFYDSGAIMLRDE-ATILTGMLIGLSAIDFSFCLKG 184
Cdd:pfam02759  81 KLLDQWLKLLLSNKELLSEYYEPWALLADPEfGEILLGLLVGLSALDFNLCLKL 134
RUN_RUFY1_like cd17681
RUN domain found in RUN and FYVE domain-containing proteins, RUFY1, RUFY2, RUFY3 and similar ...
 27-180 2.09e-36

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: 130.00  E-value: 2.09e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1034597780  27 ERKNLITVCRFSVKTLLEK--YTAEPIDDSSEEFVNFAAILEQILSHRFKAgPVSWFSSDgqRGFWDYIRLACSKVP--N 102
Cdd:cd17681     1 ERRNLLNLAKLSIKELIESalSFGRTLDSDHVPLQQFFVILEHVLRHGLKV-KKSFLGPN--KSFWPVLEHVEKLVPeaN 77

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1034597780 103 NCVSSIENMENISTARAKGRAWIRVALMEKRMSEYItTALRDTRTTRR-FYDSGAIMLRDEATILTGMLIGLSAIDFSF 180
Cdd:cd17681    78 EITASVRDLPGIKTPLGRARAWLRLALMQKKLADYF-RALIENKDLLSeFYEPGALMMSEEAVVIAGLLVGLNVIDCNL 155
RUN cd17671
RUN domain; RUN domain, named after RPIP8 (Rap2 interacting protein 8), UNC-14 and NESCA (new ...
 38-180 6.34e-31

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: 115.60  E-value: 6.34e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1034597780  38 SVKTLLEKY---------TAEPIDDSSEEFVNFAAILEQILSHRFKAgpvSWFSSdGQRGFWDYIRLACSKVPNN----C 104
Cdd:cd17671     2 AVKELLESFadngeaddsAALTLTDDDPVVGRLCAALEAILSHGLKP---KRFGG-GKVSFWDFLEALEKLLPAPslkqA 77

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1034597780 105 VSSIENMENISTARAKGRAWIRVALMEKRMSEYITTALRDTRTTRRFYDSGAIML-RDEATILTGMLIGLSAIDFSF 180
Cdd:cd17671    78 IRDINSLSNVKTDDGRGRAWIRLALNEKSLESYLAALLSDQSLLRKYYEPWALLRdPEEAELFLSLLVGLSSLDFNL 154
RUN_RUFY1 cd17694
RUN domain found in RUN and FYVE domain-containing protein 1 (RUFY1) and similar proteins; ...
 27-181 6.81e-21

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: 88.42  E-value: 6.81e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1034597780  27 ERKNLITVCRFSVKTLLEKYTA--EPIDDSSEEFVNFAAILEQILSHRFKAGPvswfSSDGQ-RGFWDYIRLACSKVP-- 101
Cdd:cd17694     1 ERANLMNMMKLSIKVLIQSALSlgRTLDSDYPPLQQFFVVLEHCLKHGLKVKK----SFIGQnKSFFGPLELVEKLCPea 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1034597780 102 NNCVSSIENMENISTARAKGRAWIRVALMEKRMSEYITTALRDTRTTRRFYDSGAIMLRDEATILTGMLIGLSAIDFSFC 181
Cdd:cd17694    77 SDIATSARNLPELKTAVGRGRAWLHLALMQKKLADYLKVLIDRKDLLSEFYEPGALMMEEEGAVIVGLLVGLNVIDANLC 156
RUN_RUFY3 cd17696
RUN domain found in RUN and FYVE domain-containing protein 3 (RUFY3) and similar proteins; ...
 27-181 5.38e-20

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: 86.20  E-value: 5.38e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1034597780  27 ERKNLITVCRFSVKTLLEKYT--AEPIDDSSEEFVNFAAILEQILSHRFKAGPVSWFSSdgqRGFWDYIRLACSKVPN-- 102
Cdd:cd17696     1 ERMNLMNMAKLSIKGLIESALnlGRTLDSDYAPLQQFFVVMEHCLKHGLKAKKTFLGQN---KSFWGPLELVEKLVPEaa 77

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1034597780 103 NCVSSIENMENISTARAKGRAWIRVALMEKRMSEYITTALRDTRTTRRFYDSGAIMLRDEATILTGMLIGLSAIDFSFC 181
Cdd:cd17696    78 EITASVKDLPGLKTPVGRGRAWLRLALMQKKLSEYMKALINRKDLLSEFYEPNALMMEEEGAIIAGLLVGLNVIDANFC 156
RUN_RUFY2 cd17695
RUN domain found in RUN and FYVE domain-containing protein 2 (RUFY2) and similar proteins; ...
 27-181 7.63e-19

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: 82.72  E-value: 7.63e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1034597780  27 ERKNLITVCRFSVKTLLEKYTA--EPIDDSSEEFVNFAAILEQILSHRFKAGPvSWFSSDgqRGFWDYIRLACSKVPN-- 102
Cdd:cd17695     1 ERANLLNMAKLSIKGLIESALSfgRTLDSDYPPLQQFFVVMEHCLKHGLKVRK-SFLSYN--KTIWGPLELVEKLCPEae 77

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1034597780 103 NCVSSIENMENISTARAKGRAWIRVALMEKRMSEYITTALRDTRTTRRFYDSGAIMLRDEATILTGMLIGLSAIDFSFC 181
Cdd:cd17695    78 EIAASVRDLPGLKTPLGRARAWLRLALMQKKLADYLRCLIIRRDLLSEFYEYHALMMEEEGAVIVGLLVGLNVIDANLC 156
RUN_PLEKHM1 cd17679
RUN domain found in pleckstrin homology domain-containing family M member 1 (PLEKHM1) and ...
 38-187 2.77e-16

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: 76.09  E-value: 2.77e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1034597780  38 SVKTLLEKY--TAEPIDDSSEEFVNFAAILEQILSHRFKAG----PVSWFSSDGQRG----FWDYIRLACSKvpnNCVSS 107
Cdd:cd17679    11 SVKELQLEYvsSDEVVTSSDDGANTLCCVLEAIFLHGLKDKfiskVSSVFSGDVDKLpepnFWPLLLKFSHR---DVIDQ 87

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1034597780 108 IENMENISTARAKGRAWIRVALMEKRMSEYITTALRDTRTTRRFYDSGAImLRD--EATILTGMLIGLSAIDFSFCLKGE 185
Cdd:cd17679    88 IEHLSQITTDVGRCRAWIRLALNDGLLESYLEAILKDKSALKSYYNPSAF-LRDpeQLDILKSLLQGLESFQFELPYNSS 166


                  ..
gi 1034597780 186 VL 187
Cdd:cd17679   167 LL 168
RUN_RUFY4_like cd17682
RUN domain found in RUN and FYVE domain-containing protein 4 (RUFY4), FYVE and coiled-coil ...
 43-180 2.90e-15

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: 72.64  E-value: 2.90e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1034597780  43 LEKYTAEPIDDSSEEFVNFAAILEQILSHRFKAGPVSWFssdGQRGFWDYIR-LA--CSKVP---NNCVSSIENMENIST 116
Cdd:cd17682     9 LKSEFGEITDPDNPYLRPFCETLEKILRKGLKEKVSLGG---RRKDYWDWLEeLLkkLNKIPkslSDAVKFVKSCKKVKT 85

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1034597780 117 ARAKGRAWIRVALMEKRMSEYITTALRDTRTTRRFYDSGAIMLRDE-ATILTGMLIGLSAIDFSF 180
Cdd:cd17682    86 NQGRGRLFIRYALNKKCLHDPVQQLVKNPKLLSDYYSPDSILGNEIlSEILLSLLYQLNEINFDL 150
RUN smart00593
domain involved in Ras-like GTPase signaling;
121-183 1.08e-14

domain involved in Ras-like GTPase signaling;


Pssm-ID: 214736 [Multi-domain]  Cd Length: 64  Bit Score: 68.02  E-value: 1.08e-14
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1034597780  121 GRAWIRVALMEKRMSEYITTALRDTRTTRRFYDSGAIMLRDE-ATILTGMLIGLSAIDFSFCLK 183
Cdd:smart00593   1 FRAWIRLALNEKLLSSWLNLLLSDEELLSKYYEPWAFLRDPEeGEQLLGLLVGLSALDFNLPVD 64
RUN_PLEKHM2 cd17680
RUN domain found in pleckstrin homology domain-containing family M member 2 (PLEKHM2) and ...
 65-180 9.89e-13

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: 65.34  E-value: 9.89e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1034597780  65 LEQILSHRFKagpvswfssDGQRGFWDYIRLACSKvpnNCVSSIENMENISTARAKGRAWIRVALMEKRMSEYITTALRD 144
Cdd:cd17680    41 LDHALLHGLR---------RGNRGYWPFVKEFTHK---ETIKQIENLPNVTTDLGRGRAWLYLALNEGSLESYLRSFLEN 108

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1034597780 145 TRTTRRFYDSGAIMLRDEA-TILTGMLIGLSAIDFSF 180
Cdd:cd17680   109 RKLVKKFYHKHALLRDSQRlELLLTLLSGLEFVQFDL 145
RUN_SNX29 cd17689
RUN domain found in sorting nexin-29 (SNX29) and similar proteins; SNX29, also called RUN ...
 53-179 1.01e-12

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: 65.71  E-value: 1.01e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1034597780  53 DSSEEFVNFAAILEQILSH----RFKAGPVSWFSSDGQRG------------FWDYIRLACSKVPNNCvssIENMENIST 116
Cdd:cd17689    22 ESDSRVSCLCAQLEAVLQHglktSRSPNLVSSAVTQVSGLagslgsaeteptFWPFVKEHLTKHELER---FELLKNIWT 98

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1034597780 117 ARAKGRAWIRVALMEKRMSEYITTALRDTRTTRRFYDSGAiMLRDE--ATILTGMLIGLSAIDFS 179
Cdd:cd17689    99 DIGRGRAWLRSALNEHSLERYLHILLSNENLLRQYYEDWA-FLRDEerSSMLPNMAAGLGSILFA 162
RUN_FYCO1 cd17698
RUN domain found in FYVE and coiled-coil domain-containing protein 1 (FYCO1) and similar ...
 47-178 4.39e-08

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: 52.01  E-value: 4.39e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1034597780  47 TAEPIDDSSEEFVNFAAILEQILSHRFKAgPVSWFSsdGQRGFWDYIR--LACSKVPNNCVSSIENMENISTARAKGRAW 124
Cdd:cd17698    25 TGEPITDDSTTLHKFCAKLEYLLQFDQKE-KTTLLG--GRKDYWDYFCecLAKVKGLNDGIRFVKSLKEVRTSLGKGRAF 101

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1034597780 125 IRVALMEKRMSEYITTALRDTRTTRRFYDSGAIMLR-DEATILTGMLIGLSAIDF 178
Cdd:cd17698   102 IRYSLVHQRLADTLQQCVMNGKVTSDWYYPRSVFLNhKYSSDIINSLYDLNEVQF 156
RUN_RUFY4 cd17697
RUN domain found in RUN and FYVE domain-containing protein 4 (RUFY4) and similar proteins; ...
 50-178 1.29e-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: 47.87  E-value: 1.29e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1034597780  50 PIDDSSEEFVNFAAILEQILSHRFKAGPvSWFSSdgQRGFWDYIR--LACSKVPNNCVSSIENMENISTARAKGRAWIRV 127
Cdd:cd17697    20 PITDGSPELHRLCARLEYLLQFDQKEKK-SFFGS--RKDYWDFLClcLNRHRGGTEGIHFVNSTDKLKTPLGKGRAFIRY 96

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1034597780 128 ALMEKRMSEYITTALRDTRTTRRFYDSGAIMLRDE--ATILtGMLIGLSAIDF 178
Cdd:cd17697    97 CLVQQQLAESLQLCLLNPELTGEWYYARSPFLSPElrSDIL-DSLYELNGVNF 148
RUN_RUBCN cd17686
RUN domain found in Run domain Beclin-1-interacting and cysteine-rich domain-containing ...
 64-176 4.17e-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: 46.11  E-value: 4.17e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1034597780  64 ILEQILSHRFKAGPVSWfssdGQRGFWDYI----RLACSKVPNNCVSSIENMENISTaRAKGRAWIRVALMEKRMSEYIT 139
Cdd:cd17686    27 AVENILQHGLKEFQGLN----KEIDDWEFVqglrWLQPTLAPSIEQQSRSSPSESEV-SDKGRLWLRQSLQQHCLSSQLQ 101

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1034597780 140 TALRDTRTTRRFYDSGAImLRDEATIlTGMLIGLSAI 176
Cdd:cd17686   102 WLVSDKELLRKYYEDEAF-LRQEGYA-TALLICLTAV 136
RUN1_DENND5 cd17677
RUN1 domain found in DENN domain-containing protein 5 (DENND5) and similar proteins; DENND5 ...
 105-181 5.84e-06

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: 46.62  E-value: 5.84e-06
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1034597780 105 VSSIENMENISTARAKGRAWIRVALMEKRMSEYITTALRDTRTTRRFYDSGAIML-RDEATILTGMLIGLSAIDFsFC 181
Cdd:cd17677   101 MKNVQNMKEIKTDVGYARAWIRLALEKKLLSKHLKTLLSNQDLLRSLYKRYAFLRcEDEREQFLYHLLSLNAVDY-FC 177
RUN1_DENND5B cd17691
RUN1 domain found in DENN domain-containing protein 5B (DENND5B) and similar proteins; DENND5B, ...
 108-182 7.57e-06

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: 46.59  E-value: 7.57e-06
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1034597780 108 IENMENISTARAKGRAWIRVALMEKRMSEYITTALRDTRTTRRFYDSGAIM-LRDEATILTGMLIGLSAIDFsFCL 182
Cdd:cd17691   127 IQNMSEIKTDVGRARAWIRLSLEKKLLSQHLKQLLSNQALTKKLYKRYAFLrCEEEKEQFLYHLLSLNAVDY-FCF 201
RUN1_DENND5A cd17690
RUN1 domain found in DENN domain-containing protein 5A (DENND5A) and similar proteins; DENND5A, ...
 108-182 8.32e-05

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: 43.46  E-value: 8.32e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1034597780 108 IENMENISTARAKGRAWIRVALMEKRMSEYITTALRDTRTTRRFYDSGAIM-LRDEATILTGMLIGLSAIDFsFCL 182
Cdd:cd17690   130 IQNIGEIKTDVGKARAWVRLSMEKKLLSRHLKQLLSDHELTKKLYKRYAFLrCDDEKEQFLYHLLSFNAVDY-FCF 204
RUN_SGSM1_like cd17687
RUN domain found in small G protein signaling modulators, SGSM1, SGSM2, and similar proteins; ...
 124-179 5.87e-04

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: 40.35  E-value: 5.87e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1034597780 124 WIRVALMEKRMS---EYITTalrdtrTTRRFYDSGAIML-RDEATILTGMLIGLSAIDFS 179
Cdd:cd17687   107 WIRIALFEKVLDkivDYLVE------NASKYYEKEALMAdPVDGPLLASLLVGPCALDYT 160
CwlO1 COG3883
Uncharacterized N-terminal coiled-coil domain of peptidoglycan hydrolase CwlO [Function ...
 255-400 3.33e-03

Uncharacterized N-terminal coiled-coil domain of peptidoglycan hydrolase CwlO [Function unknown];


Pssm-ID: 443091 [Multi-domain]  Cd Length: 379  Bit Score: 39.43  E-value: 3.33e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1034597780 255 RIVYAQKGYLEELVRLREsQLKDLEAENRRLQLQLEEAAAQNQREKRELEGVILELQEQLTGLiPSDHAPLAQGSKELTT 334
Cdd:COG3883   126 KIADADADLLEELKADKA-ELEAKKAELEAKLAELEALKAELEAAKAELEAQQAEQEALLAQL-SAEEAAAEAQLAELEA 203

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1034597780 335 PLVNQWPSLGTLNGAEGASNSKLYRRHSFMSTEPLSAEASLSSDSQRLGEGTRDEEPWGPIGSSEP 400
Cdd:COG3883   204 ELAAAEAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAASAAGAGAAGAAGAAAGSAGAAGAAA 269
 
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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