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Conserved domains on  [gi|13385418|ref|NP_080203|]
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large ribosomal subunit protein mL45 [Mus musculus]

Protein Classification

Tim44-like domain-containing protein( domain architecture ID 10659503)

Tim44-like domain-containing protein such as the mitochondrial 39S ribosomal protein L45, which is a component of the mitochondrial large ribosomal subunit (mt-LSU)

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Tim44 smart00978
Tim44 is an essential component of the machinery that mediates the translocation of ...
 119-264 4.83e-41

Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane; Tim44 is thought to bind phospholipids of the mitochondrial inner membrane both by electrostatic interactions and by penetrating the polar head group region.


:

Pssm-ID: 214950  Cd Length: 147  Bit Score: 139.38  E-value: 4.83e-41
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13385418    119 QLAIRKIREFDANFKTKDFPEKAKDIFIEAHLCLNNSDHDRLHTLVTEHCFPDMVWDLKYKTVRWGFVESLEPAQVVHVR 198
Cdd:smart00978   1 AKALREIKRIDPGFDTERFLEGAKDAFPMIQEAWDRGDLETLRELLTPEMYNELAAQIAEREARGLFVENKLLDIDVVVL 80

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 13385418    199 CSGLVNQSNM--YGQVTVRLHTRQTLAIYDRFGRLMYGQEDVPKDVLEYVVFERHlMNPYGSWRMHAK 264
Cdd:smart00978  81 DAALLEAWQEgdGAVITVRFHGQQIDVTRDAKGGVVVGGEDKPKEFTEVWTFTRD-LNGDPNWRLSGI 147
 
Name Accession Description Interval E-value
Tim44 smart00978
Tim44 is an essential component of the machinery that mediates the translocation of ...
 119-264 4.83e-41

Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane; Tim44 is thought to bind phospholipids of the mitochondrial inner membrane both by electrostatic interactions and by penetrating the polar head group region.


Pssm-ID: 214950  Cd Length: 147  Bit Score: 139.38  E-value: 4.83e-41
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13385418    119 QLAIRKIREFDANFKTKDFPEKAKDIFIEAHLCLNNSDHDRLHTLVTEHCFPDMVWDLKYKTVRWGFVESLEPAQVVHVR 198
Cdd:smart00978   1 AKALREIKRIDPGFDTERFLEGAKDAFPMIQEAWDRGDLETLRELLTPEMYNELAAQIAEREARGLFVENKLLDIDVVVL 80

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 13385418    199 CSGLVNQSNM--YGQVTVRLHTRQTLAIYDRFGRLMYGQEDVPKDVLEYVVFERHlMNPYGSWRMHAK 264
Cdd:smart00978  81 DAALLEAWQEgdGAVITVRFHGQQIDVTRDAKGGVVVGGEDKPKEFTEVWTFTRD-LNGDPNWRLSGI 147
Tim44 pfam04280
Tim44-like domain; Tim44 is an essential component of the machinery that mediates the ...
 119-264 3.35e-35

Tim44-like domain; Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane. Tim44 is thought to bind phospholipids of the mitochondrial inner membrane both by electrostatic interactions and by penetrating the polar head group region. This family includes the C-terminal region of Tim44 that has been shown to form a stable proteolytic fragment in yeast. This region is also found in a set of smaller bacterial proteins. The molecular function of the bacterial members of this family is unknown but transport seems likely. The crystal structure of the C terminal of Tim44 has revealed a large hydrophobic pocket which might play an important role in interacting with the acyl chains of lipid molecules in the mitochondrial membrane.


Pssm-ID: 427835  Cd Length: 145  Bit Score: 124.27  E-value: 3.35e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13385418   119 QLAIRKIREFDANFKTKDFPEKAKDIFIEAHLCLNNSDHDRLHTLVTEHCFPDMVWDLKYKTvRWGFVESLEPAQVVHVR 198
Cdd:pfam04280   1 ASALRAIKAIDPSFDVEEFLEGAKEAFEPILEAYAKGDLETLRPLLTEEVFEEFAAAIDERE-AQGLTNDLEIVDIREVD 79

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 13385418   199 CSGLVNQSNmYGQVTVRLHTRQTLAIYDRF-GRLMYGQEDVPKDVLEYVVFERHLMNPYGSWRMHAK 264
Cdd:pfam04280  80 IAEAKMEGG-TAVITVRFRAQQIDVTRDDAtGEVVEGDPDDPVEVTEVWTFTRDLGNPDPNWRLVAT 145
Tim44 COG4395
Predicted lipid-binding transport protein, Tim44 family [Lipid transport and metabolism];
111-260 2.27e-06

Predicted lipid-binding transport protein, Tim44 family [Lipid transport and metabolism];


Pssm-ID: 443521  Cd Length: 186  Bit Score: 47.21  E-value: 2.27e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13385418 111 RLRKNAASQLA---IRKIREFDANFKTKDFPEKAKDIFI---EAHlclNNSDHDRLHTLVTehcfPDMVWDLK------- 177
Cdd:COG4395  28 SGRRTGFERPAaagLAAIAAAPPGFDVEAFLRGAKAAFEmiqAAW---DAGDLEDLRELLT----PEVYAEFQaaiaere 100

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13385418 178 --YKTVRWGFVESLEpAQVVHVRCSGlvnqsNMYgQVTVRLHTRQTLAIYDRFGRLMYGQEDVPKDVLEYVVFERHLMNP 255
Cdd:COG4395 101 aaGETNETTFVGILD-AELVDAELEG-----DEA-EVTVRFVGELREATRDADGEVVEGDPAAAEEFREVWTFARPLGSG 173


                ....*
gi 13385418 256 YGSWR 260
Cdd:COG4395 174 DPNWL 178
 
Name Accession Description Interval E-value
Tim44 smart00978
Tim44 is an essential component of the machinery that mediates the translocation of ...
 119-264 4.83e-41

Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane; Tim44 is thought to bind phospholipids of the mitochondrial inner membrane both by electrostatic interactions and by penetrating the polar head group region.


Pssm-ID: 214950  Cd Length: 147  Bit Score: 139.38  E-value: 4.83e-41
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13385418    119 QLAIRKIREFDANFKTKDFPEKAKDIFIEAHLCLNNSDHDRLHTLVTEHCFPDMVWDLKYKTVRWGFVESLEPAQVVHVR 198
Cdd:smart00978   1 AKALREIKRIDPGFDTERFLEGAKDAFPMIQEAWDRGDLETLRELLTPEMYNELAAQIAEREARGLFVENKLLDIDVVVL 80

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 13385418    199 CSGLVNQSNM--YGQVTVRLHTRQTLAIYDRFGRLMYGQEDVPKDVLEYVVFERHlMNPYGSWRMHAK 264
Cdd:smart00978  81 DAALLEAWQEgdGAVITVRFHGQQIDVTRDAKGGVVVGGEDKPKEFTEVWTFTRD-LNGDPNWRLSGI 147
Tim44 pfam04280
Tim44-like domain; Tim44 is an essential component of the machinery that mediates the ...
 119-264 3.35e-35

Tim44-like domain; Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane. Tim44 is thought to bind phospholipids of the mitochondrial inner membrane both by electrostatic interactions and by penetrating the polar head group region. This family includes the C-terminal region of Tim44 that has been shown to form a stable proteolytic fragment in yeast. This region is also found in a set of smaller bacterial proteins. The molecular function of the bacterial members of this family is unknown but transport seems likely. The crystal structure of the C terminal of Tim44 has revealed a large hydrophobic pocket which might play an important role in interacting with the acyl chains of lipid molecules in the mitochondrial membrane.


Pssm-ID: 427835  Cd Length: 145  Bit Score: 124.27  E-value: 3.35e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13385418   119 QLAIRKIREFDANFKTKDFPEKAKDIFIEAHLCLNNSDHDRLHTLVTEHCFPDMVWDLKYKTvRWGFVESLEPAQVVHVR 198
Cdd:pfam04280   1 ASALRAIKAIDPSFDVEEFLEGAKEAFEPILEAYAKGDLETLRPLLTEEVFEEFAAAIDERE-AQGLTNDLEIVDIREVD 79

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 13385418   199 CSGLVNQSNmYGQVTVRLHTRQTLAIYDRF-GRLMYGQEDVPKDVLEYVVFERHLMNPYGSWRMHAK 264
Cdd:pfam04280  80 IAEAKMEGG-TAVITVRFRAQQIDVTRDDAtGEVVEGDPDDPVEVTEVWTFTRDLGNPDPNWRLVAT 145
Tim44 COG4395
Predicted lipid-binding transport protein, Tim44 family [Lipid transport and metabolism];
111-260 2.27e-06

Predicted lipid-binding transport protein, Tim44 family [Lipid transport and metabolism];


Pssm-ID: 443521  Cd Length: 186  Bit Score: 47.21  E-value: 2.27e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13385418 111 RLRKNAASQLA---IRKIREFDANFKTKDFPEKAKDIFI---EAHlclNNSDHDRLHTLVTehcfPDMVWDLK------- 177
Cdd:COG4395  28 SGRRTGFERPAaagLAAIAAAPPGFDVEAFLRGAKAAFEmiqAAW---DAGDLEDLRELLT----PEVYAEFQaaiaere 100

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13385418 178 --YKTVRWGFVESLEpAQVVHVRCSGlvnqsNMYgQVTVRLHTRQTLAIYDRFGRLMYGQEDVPKDVLEYVVFERHLMNP 255
Cdd:COG4395 101 aaGETNETTFVGILD-AELVDAELEG-----DEA-EVTVRFVGELREATRDADGEVVEGDPAAAEEFREVWTFARPLGSG 173


                ....*
gi 13385418 256 YGSWR 260
Cdd:COG4395 174 DPNWL 178
 
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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