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Conserved domains on  [gi|982004369|ref|WP_060181204|]
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MULTISPECIES: translation initiation factor IF-5A [Streptomyces]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PLN03107 super family cl42976
eukaryotic translation initiation factor 5A; Provisional
 1-147 4.18e-38

eukaryotic translation initiation factor 5A; Provisional


The actual alignment was detected with superfamily member PLN03107:

Pssm-ID: 215580  Cd Length: 159  Bit Score: 127.13  E-value: 4.18e-38
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 982004369   1 MSDVDLDFgPSAEASASDTFPMRAGTLRRNGHVLMDGVACRLTDVSISKSAQRGLVEVNLTGVDVFTGEKHQDVHPCAHD 80
Cdd:PLN03107   1 MSDEEHHF-ESADAGASKTYPQQAGTIRKGGYIVIKGRPCKVVEVSTSKTGKHGHAKCHFVAIDIFTGKKLEDIVPSSHN 79

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 982004369  81 VEVPVVVHTEYVLAGI-DDGRLSLLAEStGEAKGGVTLPEGA--LGRVIESDFTAGRDVRVTVTRAMGRE 147
Cdd:PLN03107  80 CDVPHVNRTDYQLIDIsEDGFVSLMDES-GNTKDDLKLPTEDdtLAEQIKDGFDEGKDLVVTVMSAMGEE 148
 
Name Accession Description Interval E-value
PLN03107 PLN03107
eukaryotic translation initiation factor 5A; Provisional
 1-147 4.18e-38

eukaryotic translation initiation factor 5A; Provisional


Pssm-ID: 215580  Cd Length: 159  Bit Score: 127.13  E-value: 4.18e-38
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 982004369   1 MSDVDLDFgPSAEASASDTFPMRAGTLRRNGHVLMDGVACRLTDVSISKSAQRGLVEVNLTGVDVFTGEKHQDVHPCAHD 80
Cdd:PLN03107   1 MSDEEHHF-ESADAGASKTYPQQAGTIRKGGYIVIKGRPCKVVEVSTSKTGKHGHAKCHFVAIDIFTGKKLEDIVPSSHN 79

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 982004369  81 VEVPVVVHTEYVLAGI-DDGRLSLLAEStGEAKGGVTLPEGA--LGRVIESDFTAGRDVRVTVTRAMGRE 147
Cdd:PLN03107  80 CDVPHVNRTDYQLIDIsEDGFVSLMDES-GNTKDDLKLPTEDdtLAEQIKDGFDEGKDLVVTVMSAMGEE 148
eIF_5A TIGR00037
translation elongation factor IF5A; Recent work (2009) changed the view of eIF5A in eukaryotes ...
 16-150 1.66e-24

translation elongation factor IF5A; Recent work (2009) changed the view of eIF5A in eukaryotes and aIF5A in archaea, hypusine-containing proteins, from translation initiation factor to translation elongation factor. [Protein synthesis, Translation factors]


Pssm-ID: 272866 [Multi-domain]  Cd Length: 130  Bit Score: 91.81  E-value: 1.66e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 982004369   16 ASDTFPMRAGTLRRNGHVLMDGVACRLTDVSISKSAQRGLVEVNLTGVDVFTGEKHQDVHPCAHDVEVPVVVHTEYVLAG 95
Cdd:TIGR00037   1 MSATKQVEVSALRVGGYVVIDGEPCKIVDISTSKPGKHGHAKARVVAIGIFDGQKREFVSPVTSKVEVPIVDRREAQVLA 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 982004369   96 IDDGRLSLLaESTGEAKGGVTLPEgALGRVIESDFtagrdvRVTVTRAMGREAAT 150
Cdd:TIGR00037  81 IMGGMVQLM-DLETYETFELPIPE-ELGDSLEPGF------EVEYIEALGQRKII 127
S1_eIF5A cd04468
S1_eIF5A: Eukaryotic translation Initiation Factor 5A (eIF5A), S1-like RNA-binding domain. ...
 86-153 4.95e-15

S1_eIF5A: Eukaryotic translation Initiation Factor 5A (eIF5A), S1-like RNA-binding domain. eIF5A is an evolutionarily conserved protein found in eukaryotes. eIF5A is the only protein known to have the unusual amino acid hypusine. Hypusine is essential for eIF5A function and is a post-translationally modified lysine. eIF5A interacts with components of the 80S ribosome and translation elongation factors 2 (eEF2) in a hypusine-dependent manner. This C-terminal S1 domain resembles the oligonucleotides-binding fold (OB fold) which binds RNA. Moreover, eIF5A prefers binding to the actively translating ribosome. This evidence suggests that eIF5A plays a role in translation elongation instead of translation initiation as previously proposed.


Pssm-ID: 239914  Cd Length: 69  Bit Score: 65.64  E-value: 4.95e-15
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 982004369  86 VVHTEYVLAGIDDGRLSLLAEStGEAKGGVTLPEGALGRVIESDFTAGRDVRVTVTRAMGREAATGHR 153
Cdd:cd04468    1 VKRTEYQLIDIDDGFLSLMDDD-GETREDLKLPEGELGKEIREKFDEGKDVLVTVLSAMGEEQAVAVK 67
eIF-5a pfam01287
Eukaryotic elongation factor 5A hypusine, DNA-binding OB fold; eIF5A, previously thought to be ...
 85-153 4.35e-13

Eukaryotic elongation factor 5A hypusine, DNA-binding OB fold; eIF5A, previously thought to be an initiation factor, has been shown to be required for peptide chain elongation in yeast.


Pssm-ID: 396035  Cd Length: 69  Bit Score: 60.28  E-value: 4.35e-13
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 982004369   85 VVVHTEYVLAGI-DDGRLSLLAEsTGEAKGGVTLPEGALGRVIESDFTAGRDVRVTVTRAMGREAATGHR 153
Cdd:pfam01287   1 NVKRTEYQLIDIsDDGFLSLMDD-DGETKEDVKLPEGELGKEIKAKFEEGKDVLVTVLSAMGEEKIIAVK 69
 
Name Accession Description Interval E-value
PLN03107 PLN03107
eukaryotic translation initiation factor 5A; Provisional
 1-147 4.18e-38

eukaryotic translation initiation factor 5A; Provisional


Pssm-ID: 215580  Cd Length: 159  Bit Score: 127.13  E-value: 4.18e-38
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 982004369   1 MSDVDLDFgPSAEASASDTFPMRAGTLRRNGHVLMDGVACRLTDVSISKSAQRGLVEVNLTGVDVFTGEKHQDVHPCAHD 80
Cdd:PLN03107   1 MSDEEHHF-ESADAGASKTYPQQAGTIRKGGYIVIKGRPCKVVEVSTSKTGKHGHAKCHFVAIDIFTGKKLEDIVPSSHN 79

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 982004369  81 VEVPVVVHTEYVLAGI-DDGRLSLLAEStGEAKGGVTLPEGA--LGRVIESDFTAGRDVRVTVTRAMGRE 147
Cdd:PLN03107  80 CDVPHVNRTDYQLIDIsEDGFVSLMDES-GNTKDDLKLPTEDdtLAEQIKDGFDEGKDLVVTVMSAMGEE 148
PTZ00328 PTZ00328
eukaryotic initiation factor 5a; Provisional
 1-147 3.46e-29

eukaryotic initiation factor 5a; Provisional


Pssm-ID: 140349 [Multi-domain]  Cd Length: 166  Bit Score: 104.75  E-value: 3.46e-29
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 982004369   1 MSDVDLDFGPSA-EASASDTFPMRAGTLRRNGHVLMDGVACRLTDVSISKSAQRGLVEVNLTGVDVFTGEKHQDVHPCAH 79
Cdd:PTZ00328   1 MSDEDHDFSHQGgGDNASKTYPLPAGALKKGGYVCINGRPCKVIDLSVSKTGKHGHAKVSIVATDIFTGNRLEDQAPSTH 80

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 982004369  80 DVEVPVVVHTEYVLAGIDD-------GRLSLLaESTGEAKGGVTL-PEGALGRVIESDFTAGRDVRVTVTRAMGRE 147
Cdd:PTZ00328  81 NVEVPFVKTFTYSVLDIQPnedpslpAHLSLM-DDEGESREDLDMpPDAALATQIKEQFDSGKEVLVVVVSAMGTE 155
eIF_5A TIGR00037
translation elongation factor IF5A; Recent work (2009) changed the view of eIF5A in eukaryotes ...
 16-150 1.66e-24

translation elongation factor IF5A; Recent work (2009) changed the view of eIF5A in eukaryotes and aIF5A in archaea, hypusine-containing proteins, from translation initiation factor to translation elongation factor. [Protein synthesis, Translation factors]


Pssm-ID: 272866 [Multi-domain]  Cd Length: 130  Bit Score: 91.81  E-value: 1.66e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 982004369   16 ASDTFPMRAGTLRRNGHVLMDGVACRLTDVSISKSAQRGLVEVNLTGVDVFTGEKHQDVHPCAHDVEVPVVVHTEYVLAG 95
Cdd:TIGR00037   1 MSATKQVEVSALRVGGYVVIDGEPCKIVDISTSKPGKHGHAKARVVAIGIFDGQKREFVSPVTSKVEVPIVDRREAQVLA 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 982004369   96 IDDGRLSLLaESTGEAKGGVTLPEgALGRVIESDFtagrdvRVTVTRAMGREAAT 150
Cdd:TIGR00037  81 IMGGMVQLM-DLETYETFELPIPE-ELGDSLEPGF------EVEYIEALGQRKII 127
S1_eIF5A cd04468
S1_eIF5A: Eukaryotic translation Initiation Factor 5A (eIF5A), S1-like RNA-binding domain. ...
 86-153 4.95e-15

S1_eIF5A: Eukaryotic translation Initiation Factor 5A (eIF5A), S1-like RNA-binding domain. eIF5A is an evolutionarily conserved protein found in eukaryotes. eIF5A is the only protein known to have the unusual amino acid hypusine. Hypusine is essential for eIF5A function and is a post-translationally modified lysine. eIF5A interacts with components of the 80S ribosome and translation elongation factors 2 (eEF2) in a hypusine-dependent manner. This C-terminal S1 domain resembles the oligonucleotides-binding fold (OB fold) which binds RNA. Moreover, eIF5A prefers binding to the actively translating ribosome. This evidence suggests that eIF5A plays a role in translation elongation instead of translation initiation as previously proposed.


Pssm-ID: 239914  Cd Length: 69  Bit Score: 65.64  E-value: 4.95e-15
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 982004369  86 VVHTEYVLAGIDDGRLSLLAEStGEAKGGVTLPEGALGRVIESDFTAGRDVRVTVTRAMGREAATGHR 153
Cdd:cd04468    1 VKRTEYQLIDIDDGFLSLMDDD-GETREDLKLPEGELGKEIREKFDEGKDVLVTVLSAMGEEQAVAVK 67
eIF-5a pfam01287
Eukaryotic elongation factor 5A hypusine, DNA-binding OB fold; eIF5A, previously thought to be ...
 85-153 4.35e-13

Eukaryotic elongation factor 5A hypusine, DNA-binding OB fold; eIF5A, previously thought to be an initiation factor, has been shown to be required for peptide chain elongation in yeast.


Pssm-ID: 396035  Cd Length: 69  Bit Score: 60.28  E-value: 4.35e-13
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 982004369   85 VVVHTEYVLAGI-DDGRLSLLAEsTGEAKGGVTLPEGALGRVIESDFTAGRDVRVTVTRAMGREAATGHR 153
Cdd:pfam01287   1 NVKRTEYQLIDIsDDGFLSLMDD-DGETKEDVKLPEGELGKEIKAKFEEGKDVLVTVLSAMGEEKIIAVK 69
PRK03999 PRK03999
translation initiation factor IF-5A; Provisional
 25-86 5.32e-09

translation initiation factor IF-5A; Provisional


Pssm-ID: 235193 [Multi-domain]  Cd Length: 129  Bit Score: 51.45  E-value: 5.32e-09
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 982004369  25 GTLRRNGHVLMDGVACRLTDVSISKSAQRGLVEVNLTGVDVFTGEKHQDVHPCAHDVEVPVV 86
Cdd:PRK03999   9 GELKEGSYVVIDGEPCKIVEISKSKPGKHGSAKARIVAIGIFDGQKRSLVQPVDAKVEVPII 70
 
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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