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Conserved domains on  [gi|2489641613|ref|YP_010758899|]
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maturase [Forsythia suspensa]

Protein Classification

reverse transcriptase/maturase family protein( domain architecture ID 10108749)

reverse transcriptase/maturase family protein similar to reverse transcriptases with group II intron origin that transcribe DNA using RNA as template

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
RT_G2_intron cd01651
RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA ...
 3-142 6.52e-33

RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable element with both gag-like and pol-like genes. This subfamily of proteins appears to have captured the RT sequences from transposable elements, which lack long terminal repeats (LTRs).


:

Pssm-ID: 238828 [Multi-domain]  Cd Length: 226  Bit Score: 126.16  E-value: 6.52e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2489641613   3 EAIRMVLESIYDPEFPDTSH-FRSGRGCHSVLRRIKE-EWGTSRWFLEFDIRKCFHTIDRHRLISIFKEEIDDPKFFYSI 80
Cdd:cd01651    27 EALKLVLEPIYEPRFSDCSYgFRPGRSAHDALKAIRRnVKGGYTWVIEGDIKGFFDNIDHDLLLKILKRRIGDKRVLRLI 106

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2489641613  81 HKVFSAGRLVGGEKGP--YSVPHSVLLSALPGNIYLHKLDQEIGRIRQKYEIPIVQRIRSVLLR 142
Cdd:cd01651   107 RKWLKAGVLEDGKLVEteKGTPQGGVISPLLANIYLHELDKFVEEKLKEYYDTSDPKFRRLRYV 170
Intron_maturas2 super family cl03174
Type II intron maturase; Group II introns use intron-encoded reverse transcriptase, maturase ...
 518-605 4.12e-06

Type II intron maturase; Group II introns use intron-encoded reverse transcriptase, maturase and DNA endonuclease activities for site-specific insertion into DNA. Although this type of intron is self splicing in vitro they require a maturase protein for splicing in vivo. It has been shown that a specific region of the aI2 intron is needed for the maturase function. This region was found to be conserved in group II introns and called domain X.


The actual alignment was detected with superfamily member pfam01348:

Pssm-ID: 279664 [Multi-domain]  Cd Length: 140  Bit Score: 46.69  E-value: 4.12e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2489641613 518 IEAPIKKILRRLRDRGLI--SRRRPWPIHVACLTNVSDGDIVNWSAGIAISLLSYYRCRDNLYQVRTIVDHQIRWSAIFT 595
Cdd:pfam01348   6 LNAPIRDIINKLAKAGFCkhYTEKGKPRSVGRWTDLDDRDILLRYNAIIRGILNYYSFADNKKRLYTRIYYILRLSCAKT 85

                          90
                  ....*....|
gi 2489641613 596 PAHKHKSSAR 605
Cdd:pfam01348  86 LARKLKLGTV 95
 
Name Accession Description Interval E-value
RT_G2_intron cd01651
RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA ...
 3-142 6.52e-33

RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable element with both gag-like and pol-like genes. This subfamily of proteins appears to have captured the RT sequences from transposable elements, which lack long terminal repeats (LTRs).


Pssm-ID: 238828 [Multi-domain]  Cd Length: 226  Bit Score: 126.16  E-value: 6.52e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2489641613   3 EAIRMVLESIYDPEFPDTSH-FRSGRGCHSVLRRIKE-EWGTSRWFLEFDIRKCFHTIDRHRLISIFKEEIDDPKFFYSI 80
Cdd:cd01651    27 EALKLVLEPIYEPRFSDCSYgFRPGRSAHDALKAIRRnVKGGYTWVIEGDIKGFFDNIDHDLLLKILKRRIGDKRVLRLI 106

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2489641613  81 HKVFSAGRLVGGEKGP--YSVPHSVLLSALPGNIYLHKLDQEIGRIRQKYEIPIVQRIRSVLLR 142
Cdd:cd01651   107 RKWLKAGVLEDGKLVEteKGTPQGGVISPLLANIYLHELDKFVEEKLKEYYDTSDPKFRRLRYV 170
YkfC COG3344
Retron-type reverse transcriptase [Mobilome: prophages, transposons];
4-123 4.59e-20

Retron-type reverse transcriptase [Mobilome: prophages, transposons];


Pssm-ID: 442573 [Multi-domain]  Cd Length: 434  Bit Score: 93.22  E-value: 4.59e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2489641613   4 AIRMVLESIYDPEFPDTSH-FRSGRGCHSVLRRIKE--EWGTsRWFLEFDIRKCFHTIDRHRLISIFKEEIDDPKFFYSI 80
Cdd:COG3344   108 AVKQVLEPIFEPDFSDSSYgFRPGRSAHDALKKAREyiNEGY-RWVVDADIKKFFDNVDHDLLMKRLRRRIKDKRVLRLI 186

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*...
gi 2489641613  81 HKVFSAGRLVGG-----EKGpysVPHSVLLSALPGNIYLHKLDQEIGR 123
Cdd:COG3344   187 RRWLKAGVMEDGvveerEEG---TPQGGPLSPLLANIYLHELDKELER 231
Intron_maturas2 pfam01348
Type II intron maturase; Group II introns use intron-encoded reverse transcriptase, maturase ...
 518-605 4.12e-06

Type II intron maturase; Group II introns use intron-encoded reverse transcriptase, maturase and DNA endonuclease activities for site-specific insertion into DNA. Although this type of intron is self splicing in vitro they require a maturase protein for splicing in vivo. It has been shown that a specific region of the aI2 intron is needed for the maturase function. This region was found to be conserved in group II introns and called domain X.


Pssm-ID: 279664 [Multi-domain]  Cd Length: 140  Bit Score: 46.69  E-value: 4.12e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2489641613 518 IEAPIKKILRRLRDRGLI--SRRRPWPIHVACLTNVSDGDIVNWSAGIAISLLSYYRCRDNLYQVRTIVDHQIRWSAIFT 595
Cdd:pfam01348   6 LNAPIRDIINKLAKAGFCkhYTEKGKPRSVGRWTDLDDRDILLRYNAIIRGILNYYSFADNKKRLYTRIYYILRLSCAKT 85

                          90
                  ....*....|
gi 2489641613 596 PAHKHKSSAR 605
Cdd:pfam01348  86 LARKLKLGTV 95
RVT_1 pfam00078
Reverse transcriptase (RNA-dependent DNA polymerase); A reverse transcriptase gene is usually ...
 33-134 4.20e-04

Reverse transcriptase (RNA-dependent DNA polymerase); A reverse transcriptase gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. Reverse transcriptases occur in a variety of mobile elements, including retrotransposons, retroviruses, group II introns, bacterial msDNAs, hepadnaviruses, and caulimoviruses.


Pssm-ID: 395031 [Multi-domain]  Cd Length: 189  Bit Score: 41.90  E-value: 4.20e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2489641613  33 LRRIKEEWGTSRWFLEFDIRKCFHTIDRHRLISIFKEEIDDPKFfysIHKVFSAGRLVGGEKG-PYSVPHSVLLSalpgN 111
Cdd:pfam00078  43 FRPGLAKLKKAKWFLKLDLKKAFDQVPLDELDRKLTAFTTPPIN---INWNGELSGGRYEWKGlPQGLVLSPALF----Q 115

                          90       100
                  ....*....|....*....|...
gi 2489641613 112 IYLHKLDQEigrIRQKYEIPIVQ 134
Cdd:pfam00078 116 LFMNELLRP---LRKRAGLTLVR 135
 
Name Accession Description Interval E-value
RT_G2_intron cd01651
RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA ...
 3-142 6.52e-33

RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable element with both gag-like and pol-like genes. This subfamily of proteins appears to have captured the RT sequences from transposable elements, which lack long terminal repeats (LTRs).


Pssm-ID: 238828 [Multi-domain]  Cd Length: 226  Bit Score: 126.16  E-value: 6.52e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2489641613   3 EAIRMVLESIYDPEFPDTSH-FRSGRGCHSVLRRIKE-EWGTSRWFLEFDIRKCFHTIDRHRLISIFKEEIDDPKFFYSI 80
Cdd:cd01651    27 EALKLVLEPIYEPRFSDCSYgFRPGRSAHDALKAIRRnVKGGYTWVIEGDIKGFFDNIDHDLLLKILKRRIGDKRVLRLI 106

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2489641613  81 HKVFSAGRLVGGEKGP--YSVPHSVLLSALPGNIYLHKLDQEIGRIRQKYEIPIVQRIRSVLLR 142
Cdd:cd01651   107 RKWLKAGVLEDGKLVEteKGTPQGGVISPLLANIYLHELDKFVEEKLKEYYDTSDPKFRRLRYV 170
YkfC COG3344
Retron-type reverse transcriptase [Mobilome: prophages, transposons];
4-123 4.59e-20

Retron-type reverse transcriptase [Mobilome: prophages, transposons];


Pssm-ID: 442573 [Multi-domain]  Cd Length: 434  Bit Score: 93.22  E-value: 4.59e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2489641613   4 AIRMVLESIYDPEFPDTSH-FRSGRGCHSVLRRIKE--EWGTsRWFLEFDIRKCFHTIDRHRLISIFKEEIDDPKFFYSI 80
Cdd:COG3344   108 AVKQVLEPIFEPDFSDSSYgFRPGRSAHDALKKAREyiNEGY-RWVVDADIKKFFDNVDHDLLMKRLRRRIKDKRVLRLI 186

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*...
gi 2489641613  81 HKVFSAGRLVGG-----EKGpysVPHSVLLSALPGNIYLHKLDQEIGR 123
Cdd:COG3344   187 RRWLKAGVMEDGvveerEEG---TPQGGPLSPLLANIYLHELDKELER 231
Intron_maturas2 pfam01348
Type II intron maturase; Group II introns use intron-encoded reverse transcriptase, maturase ...
 518-605 4.12e-06

Type II intron maturase; Group II introns use intron-encoded reverse transcriptase, maturase and DNA endonuclease activities for site-specific insertion into DNA. Although this type of intron is self splicing in vitro they require a maturase protein for splicing in vivo. It has been shown that a specific region of the aI2 intron is needed for the maturase function. This region was found to be conserved in group II introns and called domain X.


Pssm-ID: 279664 [Multi-domain]  Cd Length: 140  Bit Score: 46.69  E-value: 4.12e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2489641613 518 IEAPIKKILRRLRDRGLI--SRRRPWPIHVACLTNVSDGDIVNWSAGIAISLLSYYRCRDNLYQVRTIVDHQIRWSAIFT 595
Cdd:pfam01348   6 LNAPIRDIINKLAKAGFCkhYTEKGKPRSVGRWTDLDDRDILLRYNAIIRGILNYYSFADNKKRLYTRIYYILRLSCAKT 85

                          90
                  ....*....|
gi 2489641613 596 PAHKHKSSAR 605
Cdd:pfam01348  86 LARKLKLGTV 95
RT_Bac_retron_I cd01646
RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The ...
 50-130 2.16e-05

RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA branches out from a small ssRNA molecule via a 2'-5'phosphodiester linkage. Bacterial retron RTs produce cDNA corresponding to only a small portion of the retron genome.


Pssm-ID: 238824 [Multi-domain]  Cd Length: 158  Bit Score: 45.01  E-value: 2.16e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2489641613  50 DIRKCFHTIDRHRLISIF------KEEIDDPKFFYSIHKVFSAGRLVGGEKGpysVPHSVLLSALPGNIYLHKLDQEIGR 123
Cdd:cd01646     2 DISNFYDSIYTHSLPWALhgkikaKQLLKLLRLLGNLLDLLLLSSQYGQTNG---LPIGPLTSRFLANIYLNDVDHELKS 78


                  ....*..
gi 2489641613 124 IRQKYEI 130
Cdd:cd01646    79 KLKGVDY 85
RVT_1 pfam00078
Reverse transcriptase (RNA-dependent DNA polymerase); A reverse transcriptase gene is usually ...
 33-134 4.20e-04

Reverse transcriptase (RNA-dependent DNA polymerase); A reverse transcriptase gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. Reverse transcriptases occur in a variety of mobile elements, including retrotransposons, retroviruses, group II introns, bacterial msDNAs, hepadnaviruses, and caulimoviruses.


Pssm-ID: 395031 [Multi-domain]  Cd Length: 189  Bit Score: 41.90  E-value: 4.20e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2489641613  33 LRRIKEEWGTSRWFLEFDIRKCFHTIDRHRLISIFKEEIDDPKFfysIHKVFSAGRLVGGEKG-PYSVPHSVLLSalpgN 111
Cdd:pfam00078  43 FRPGLAKLKKAKWFLKLDLKKAFDQVPLDELDRKLTAFTTPPIN---INWNGELSGGRYEWKGlPQGLVLSPALF----Q 115

                          90       100
                  ....*....|....*....|...
gi 2489641613 112 IYLHKLDQEigrIRQKYEIPIVQ 134
Cdd:pfam00078 116 LFMNELLRP---LRKRAGLTLVR 135
 
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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