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Conserved domains on  [gi|15222796|ref|NP_175985|]
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Tetratricopeptide repeat (TPR)-like superfamily protein [Arabidopsis thaliana]

Protein Classification

pentatricopeptide repeat-containing protein( domain architecture ID 1000098)

pentatricopeptide repeat (PPR)-containing protein may form anti-parallel alpha helices and bind single-stranded RNA in a sequence-specific and modular manner

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PLN03218 super family cl33664
maturation of RBCL 1; Provisional
 115-383 1.20e-15

maturation of RBCL 1; Provisional


The actual alignment was detected with superfamily member PLN03218:

Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 79.15  E-value: 1.20e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15222796   115 IISLYGKAG----MFEnaqkVFEEMPNRDCKRSVLSFNALLS----AYRLSKKFDVveelFNELPGKlSIKPDIVSYNTL 186
Cdd:PLN03218  478 LISTCAKSGkvdaMFE----VFHEMVNAGVEANVHTFGALIDgcarAGQVAKAFGA----YGIMRSK-NVKPDRVVFNAL 548

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15222796   187 IKALCEKDSLPEAVALLDEI--ENKGLKPDIVTFNTLLLSSYLKGQFELGEEIWAKMVEKNVAIDIRTYNARLLGLANEA 264
Cdd:PLN03218  549 ISACGQSGAVDRAFDVLAEMkaETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKG 628

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15222796   265 KSKELVNLFGELKASGLKPDVFSFNAMIRGSINEGKMDEAEAWYKEIVKHGYRPDKATFALLLPAMCKAGDFESAIELFK 344
Cdd:PLN03218  629 DWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYE 708

                         250       260       270
                  ....*....|....*....|....*....|....*....
gi 15222796   345 ETFSKRYLVGQTTLQQLVDELVKGSKREEAEEIVKIAKT 383
Cdd:PLN03218  709 DIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKR 747
 
Name Accession Description Interval E-value
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 115-383 1.20e-15

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 79.15  E-value: 1.20e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15222796   115 IISLYGKAG----MFEnaqkVFEEMPNRDCKRSVLSFNALLS----AYRLSKKFDVveelFNELPGKlSIKPDIVSYNTL 186
Cdd:PLN03218  478 LISTCAKSGkvdaMFE----VFHEMVNAGVEANVHTFGALIDgcarAGQVAKAFGA----YGIMRSK-NVKPDRVVFNAL 548

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15222796   187 IKALCEKDSLPEAVALLDEI--ENKGLKPDIVTFNTLLLSSYLKGQFELGEEIWAKMVEKNVAIDIRTYNARLLGLANEA 264
Cdd:PLN03218  549 ISACGQSGAVDRAFDVLAEMkaETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKG 628

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15222796   265 KSKELVNLFGELKASGLKPDVFSFNAMIRGSINEGKMDEAEAWYKEIVKHGYRPDKATFALLLPAMCKAGDFESAIELFK 344
Cdd:PLN03218  629 DWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYE 708

                         250       260       270
                  ....*....|....*....|....*....|....*....
gi 15222796   345 ETFSKRYLVGQTTLQQLVDELVKGSKREEAEEIVKIAKT 383
Cdd:PLN03218  709 DIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKR 747
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 178-222 7.15e-13

PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR.


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 62.77  E-value: 7.15e-13
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 15222796   178 PDIVSYNTLIKALCEKDSLPEAVALLDEIENKGLKPDIVTFNTLL 222
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILI 45
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 181-215 1.57e-05

pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 41.29  E-value: 1.57e-05
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 15222796   181 VSYNTLIKALCEKDSLPEAVALLDEIENKGLKPDI 215
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
 
Name Accession Description Interval E-value
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 115-383 1.20e-15

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 79.15  E-value: 1.20e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15222796   115 IISLYGKAG----MFEnaqkVFEEMPNRDCKRSVLSFNALLS----AYRLSKKFDVveelFNELPGKlSIKPDIVSYNTL 186
Cdd:PLN03218  478 LISTCAKSGkvdaMFE----VFHEMVNAGVEANVHTFGALIDgcarAGQVAKAFGA----YGIMRSK-NVKPDRVVFNAL 548

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15222796   187 IKALCEKDSLPEAVALLDEI--ENKGLKPDIVTFNTLLLSSYLKGQFELGEEIWAKMVEKNVAIDIRTYNARLLGLANEA 264
Cdd:PLN03218  549 ISACGQSGAVDRAFDVLAEMkaETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKG 628

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15222796   265 KSKELVNLFGELKASGLKPDVFSFNAMIRGSINEGKMDEAEAWYKEIVKHGYRPDKATFALLLPAMCKAGDFESAIELFK 344
Cdd:PLN03218  629 DWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYE 708

                         250       260       270
                  ....*....|....*....|....*....|....*....
gi 15222796   345 ETFSKRYLVGQTTLQQLVDELVKGSKREEAEEIVKIAKT 383
Cdd:PLN03218  709 DIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKR 747
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 103-247 8.45e-15

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 76.45  E-value: 8.45e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15222796   103 YRDMSKEG------FAARIISLYGKAGMFENAQKVFEEMPNRDCKRSVLSFNALLSAYRLSKKFDVVEELFNELPgklSI 176
Cdd:PLN03218  637 YDDMKKKGvkpdevFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIK---SI 713

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 15222796   177 K--PDIVSYNTLIKALCEKDSLPEAVALLDEIENKGLKPDIVTFNTLLLSSYLKGQFELGEEIWAKMVEKNVA 247
Cdd:PLN03218  714 KlrPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIK 786
PLN03077 PLN03077
Protein ECB2; Provisional
 115-379 2.23e-13

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 71.80  E-value: 2.23e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15222796  115 IISLYGKAGMFENAQKVFEEMPNRDCkrsvLSFNALLSAYrlskkfdvveelfnelpgklsikpdivsyntlikalCEKD 194
Cdd:PLN03077 228 LITMYVKCGDVVSARLVFDRMPRRDC----ISWNAMISGY------------------------------------FENG 267

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15222796  195 SLPEAVALLDEIENKGLKPDIVTFNTLLLSSYLKGQFELGEEIWAKMVEKNVAIDIRTYNARLLGLANEAKSKELVNLFG 274
Cdd:PLN03077 268 ECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFS 347

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15222796  275 ELKASglkpDVFSFNAMIRGSINEGKMDEAEAWYKEIVKHGYRPDKATFALLLPAMCKAGDFESAIELFKETFSKRYLVG 354
Cdd:PLN03077 348 RMETK----DAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISY 423

                        250       260
                 ....*....|....*....|....*
gi 15222796  355 QTTLQQLVDELVKGSKREEAEEIVK 379
Cdd:PLN03077 424 VVVANALIEMYSKCKCIDKALEVFH 448
PLN03077 PLN03077
Protein ECB2; Provisional
 144-379 2.44e-13

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 71.80  E-value: 2.44e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15222796  144 VLSFNALLSAYRLSKKFDVVEELFNELPGKlsikpDIVSYNTLIKALCEKDSLPEAVALLDEIENKgLKPDIVTFNTLLL 223
Cdd:PLN03077 424 VVVANALIEMYSKCKCIDKALEVFHNIPEK-----DVISWTSIIAGLRLNNRCFEALIFFRQMLLT-LKPNSVTLIAALS 497

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15222796  224 SSYLKGQFELGEEIWAKMVEKNVAIDIRTYNARLLGLANEAKSKELVNLFgelkaSGLKPDVFSFNAMIRGSINEGKMDE 303
Cdd:PLN03077 498 ACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQF-----NSHEKDVVSWNILLTGYVAHGKGSM 572

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 15222796  304 AEAWYKEIVKHGYRPDKATFALLLPAMCKAGDFESAIELFKETFSKRYLVgqTTLQQ---LVDELVKGSKREEAEEIVK 379
Cdd:PLN03077 573 AVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSIT--PNLKHyacVVDLLGRAGKLTEAYNFIN 649
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 178-222 7.15e-13

PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR.


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 62.77  E-value: 7.15e-13
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 15222796   178 PDIVSYNTLIKALCEKDSLPEAVALLDEIENKGLKPDIVTFNTLL 222
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILI 45
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 115-344 5.42e-12

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 67.59  E-value: 5.42e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15222796  115 IISLYGKAGMFENAQKVFEEMPnrdcKRSVLSFNALLSAYRLSKKFDVVEELFNEL-PGKLSIkpDIVSYNTLIKALCEK 193
Cdd:PLN03081 265 LIDMYSKCGDIEDARCVFDGMP----EKTTVAWNSMLAGYALHGYSEEALCLYYEMrDSGVSI--DQFTFSIMIRIFSRL 338

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15222796  194 DSLPEAVALLDEIENKGLKPDIVTfNTLLLSSYLK-GQFELGEEIWAKMVEKNVAidirTYNARLLGLANEAKSKELVNL 272
Cdd:PLN03081 339 ALLEHAKQAHAGLIRTGFPLDIVA-NTALVDLYSKwGRMEDARNVFDRMPRKNLI----SWNALIAGYGNHGRGTKAVEM 413

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 15222796  273 FGELKASGLKPDVFSFNAMIRGSINEGKMDEAEAWYKEIVK-HGYRPDKATFALLLPAMCKAGDFESAIELFK 344
Cdd:PLN03081 414 FERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSEnHRIKPRAMHYACMIELLGREGLLDEAYAMIR 486
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 120-343 1.91e-11

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 66.05  E-value: 1.91e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15222796   120 GKAGMFENAQKVFEEMPNRDCKRSVLSFNALLSAYRLS----KKFDVVEELFNElpgKLSIKPDIVSYNTLIKALCEKDS 195
Cdd:PLN03218  518 ARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSgavdRAFDVLAEMKAE---THPIDPDHITVGALMKACANAGQ 594

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15222796   196 L------------------PE-----------------AVALLDEIENKGLKPDIVTFNTLLLSSYLKGQFELGEEIWAK 240
Cdd:PLN03218  595 VdrakevyqmiheynikgtPEvytiavnscsqkgdwdfALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQD 674

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15222796   241 MVEKNVAIDIRTYNArLLGLANEAKS-KELVNLFGELKASGLKPDVFSFNAMIRGSINEGKMDEAEAWYKEIVKHGYRPD 319
Cdd:PLN03218  675 ARKQGIKLGTVSYSS-LMGACSNAKNwKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPN 753

                         250       260
                  ....*....|....*....|....
gi 15222796   320 KATFALLLPAMCKAGDFESAIELF 343
Cdd:PLN03218  754 TITYSILLVASERKDDADVGLDLL 777
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 283-332 2.40e-10

PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR.


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 55.45  E-value: 2.40e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 15222796   283 PDVFSFNAMIRGSINEGKMDEAEAWYKEIVKHGYRPDKATFALLLPAMCK 332
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 114-343 2.59e-09

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 59.11  E-value: 2.59e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15222796  114 RIISLYGKAGMFENAQKVFEEMPnrdcKRSVLSFNALLSAYRLSKKFDVVEELFNELPGKLSiKPDIVSYNTLIKALCEK 193
Cdd:PLN03081 163 RVLLMHVKCGMLIDARRLFDEMP----ERNLASWGTIIGGLVDAGNYREAFALFREMWEDGS-DAEPRTFVVMLRASAGL 237

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15222796  194 DSLPEAVALLDEIENKGLKPDiVTFNTLLLSSYLK-GQFELGEEIWAKMVEKNVAidirTYNARLLGLANEAKSKELVNL 272
Cdd:PLN03081 238 GSARAGQQLHCCVLKTGVVGD-TFVSCALIDMYSKcGDIEDARCVFDGMPEKTTV----AWNSMLAGYALHGYSEEALCL 312

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 15222796  273 FGELKASGLKPDVFSFNAMIRGSINEGKMDEAEAWYKEIVKHGYRPDKATFALLLPAMCKAGDFESAIELF 343
Cdd:PLN03081 313 YYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVF 383
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 142-191 6.43e-08

PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR.


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 48.51  E-value: 6.43e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 15222796   142 RSVLSFNALLSAYRLSKKFDVVEELFNELPgKLSIKPDIVSYNTLIKALC 191
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMK-KRGVKPNVYTYTILINGLC 49
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 202-260 1.10e-07

Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. In the case of the Arabidopsis protein UniProtKB:Q66GI4, the repeated helices in this N-terminal region, of protein-only RNase P (PRORP) enzymes, form the pentatricopeptide repeat (PPR) domain which enhances pre-tRNA binding affinity. PROPRP enzymes process precursor tRNAs in human mitochondria and in all tRNA-using compartments of Arabidopsis thaliana.


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 48.51  E-value: 1.10e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 15222796   202 LLDEIENKGLKPDIVTFNTLLLSSYLKGQFELGEEIWAKMVEKNVAIDIRTYNArLLGL 260
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNA-ILGV 59
PLN03077 PLN03077
Protein ECB2; Provisional
 184-327 1.33e-07

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 53.70  E-value: 1.33e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15222796  184 NTLIKALCEKDSLPEAVALLDEIENKGLKPDIVTFNTLLLSSYLKGQFELGEEIWAKMVEKNVAIDIRTYNARLLGLANE 263
Cdd:PLN03077  55 NSQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRLGNAMLSMFVRF 134

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 15222796  264 AKSKELVNLFGELKasglKPDVFSFNAMIRGSINEGKMDEAEAWYKEIVKHGYRPDKATFALLL 327
Cdd:PLN03077 135 GELVHAWYVFGKMP----ERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVL 194
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 213-262 2.26e-07

PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR.


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 46.97  E-value: 2.26e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 15222796   213 PDIVTFNTLLlSSYLK-GQFELGEEIWAKMVEKNVAIDIRTYNARLLGLAN 262
Cdd:pfam13041   1 PDVVTYNTLI-NGYCKkGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 136-345 3.79e-07

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 52.19  E-value: 3.79e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15222796   136 PNRDCKRSVLSFNALLSAYRLSKKFDVVEELfnELPGKLSIkpDIVSYNTLIKALCEKDSLPEAVALLDEIENkglkPDI 215
Cdd:PLN03218  366 GKRKSPEYIDAYNRLLRDGRIKDCIDLLEDM--EKRGLLDM--DKIYHAKFFKACKKQRAVKEAFRFAKLIRN----PTL 437

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15222796   216 VTFNTLLLSSYLKGQFELGEEIWAKMVEKNVAIDIRTYNARLLGLANEAKSKELVNLFGELKASGLKPDVFSFNAMIRGS 295
Cdd:PLN03218  438 STFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGC 517

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|
gi 15222796   296 INEGKMDEAEAWYKEIVKHGYRPDKATFALLLPAMCKAGDFESAIELFKE 345
Cdd:PLN03218  518 ARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAE 567
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 176-207 1.12e-06

PPR repeat; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known.


Pssm-ID: 403914 [Multi-domain]  Cd Length: 34  Bit Score: 44.64  E-value: 1.12e-06
                          10        20        30
                  ....*....|....*....|....*....|..
gi 15222796   176 IKPDIVSYNTLIKALCEKDSLPEAVALLDEIE 207
Cdd:pfam12854   3 LKPDVVTYNTLINGLCRAGRVDEAFELLDEME 34
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 130-189 1.86e-06

Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. In the case of the Arabidopsis protein UniProtKB:Q66GI4, the repeated helices in this N-terminal region, of protein-only RNase P (PRORP) enzymes, form the pentatricopeptide repeat (PPR) domain which enhances pre-tRNA binding affinity. PROPRP enzymes process precursor tRNAs in human mitochondria and in all tRNA-using compartments of Arabidopsis thaliana.


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 45.04  E-value: 1.86e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 15222796   130 KVFEEMPNRDCKRSVLSFNALLSAYRLSKKFDVVEELFNELPgKLSIKPDIVSYNTLIKA 189
Cdd:pfam13812   1 SILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMK-KKGIKPTLDTYNAILGV 59
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 156-343 3.25e-06

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 49.10  E-value: 3.25e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15222796  156 LSKKFDVVEELFNELPGKLSIKPDIVSYNTLIKALCEKDSLPEAVALLDEIENKGLKPDIVTFNTLLLSSYLKGQFELGE 235
Cdd:PLN03081  99 ACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDAR 178

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15222796  236 EIWAKMVEKNVAidirTYNARLLGLANEAKSKELVNLFGELKASGLKPDVFSFNAMIRGSINEGKMDEAEAWYKEIVKHG 315
Cdd:PLN03081 179 RLFDEMPERNLA----SWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTG 254

                        170       180
                 ....*....|....*....|....*...
gi 15222796  316 YRPDKATFALLLPAMCKAGDFESAIELF 343
Cdd:PLN03081 255 VVGDTFVSCALIDMYSKCGDIEDARCVF 282
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 115-332 5.19e-06

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 48.72  E-value: 5.19e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15222796   115 IISLYGKAGMFENAQKVFEEMPNRDCKRSVLSFNALLSAYRLSKKFDVVEELFNELPgKLSIKPDIVSYNTLIKALCEKD 194
Cdd:PLN03218  585 LMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMK-KKGVKPDEVFFSALVDVAGHAG 663

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15222796   195 SLPEAVALLDEIENKGLKPDIVTFNTLLLSSYLKGQFELGEEIWAKMVEKNVAIDIRTYNARLLGLANEAKSKELVNLFG 274
Cdd:PLN03218  664 DLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLS 743

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 15222796   275 ELKASGLKPDVFSFNAMIRGSINEGKMDEAEAWYKEIVKHGYRPDkatfalllPAMCK 332
Cdd:PLN03218  744 EMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPN--------LVMCR 793
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 249-294 6.03e-06

PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR.


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 43.12  E-value: 6.03e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 15222796   249 DIRTYNARLLGLANEAKSKELVNLFGELKASGLKPDVFSFNAMIRG 294
Cdd:pfam13041   2 DVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILING 47
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 87-239 1.52e-05

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 47.18  E-value: 1.52e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15222796    87 AKRLHYVEEILEeqkkyrDMSKEGFAARII---SLYG---KAGMFENAQKVFEEMPNRDCKRSVLSFNALLSAYRLSKKF 160
Cdd:PLN03218  662 AGDLDKAFEILQ------DARKQGIKLGTVsysSLMGacsNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQL 735

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15222796   161 DVVEELFNELPgKLSIKPDIVSYNTLIKALCEKDSLPEAVALLDEIENKGLKPDIVTFNTllLSSYLKGQFE----LGEE 236
Cdd:PLN03218  736 PKALEVLSEMK-RLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRC--ITGLCLRRFEkacaLGEP 812


                  ...
gi 15222796   237 IWA 239
Cdd:PLN03218  813 VVS 815
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 181-215 1.57e-05

pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 41.29  E-value: 1.57e-05
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 15222796   181 VSYNTLIKALCEKDSLPEAVALLDEIENKGLKPDI 215
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 115-154 1.76e-05

PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR.


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 41.58  E-value: 1.76e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 15222796   115 IISLYGKAGMFENAQKVFEEMPNRDCKRSVLSFNALLSAY 154
Cdd:pfam13041   9 LINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGL 48
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 286-319 6.85e-05

pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 39.75  E-value: 6.85e-05
                          10        20        30
                  ....*....|....*....|....*....|....
gi 15222796   286 FSFNAMIRGSINEGKMDEAEAWYKEIVKHGYRPD 319
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 176-222 1.29e-04

Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. In the case of the Arabidopsis protein UniProtKB:Q66GI4, the repeated helices in this N-terminal region, of protein-only RNase P (PRORP) enzymes, form the pentatricopeptide repeat (PPR) domain which enhances pre-tRNA binding affinity. PROPRP enzymes process precursor tRNAs in human mitochondria and in all tRNA-using compartments of Arabidopsis thaliana.


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 39.65  E-value: 1.29e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 15222796   176 IKPDIVSYNTLIKALCEKDSLPEAVALLDEIENKGLKPDIVTFNTLL 222
Cdd:pfam13812  11 IQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAIL 57
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 236-341 1.51e-04

Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large family of modular RNA-binding proteins which mediate several aspects of gene expression primarily in organelles but also in the nucleus. PPR_long is the region of Arabidopsis protein-only RNase P (PRORP) enzyme that consists of up to eleven alpha-helices. PRORPs are a class of RNA processing enzymes that catalyze maturation of the 5' end of precursor tRNAs in Eukaryotes. All PPR proteins contain tandemly repeated sequence motifs (the PPR motifs) which can vary in number. The series of helix-turn-helix motifs formed by PPR motifs throughout the protein produces a superheros with a central groove that allows the protein to bind RNA. Proteins containing PPR motifs are known to have roles in transcription, RNA processing, splicing, stability, editing, and translation. Over a decade after the discovery of PPR proteins, the super-helical structure was confirmed. The protein-only mitochondrial RNase P crystal structure from Arabidopsis thaliana (PRORP1) confirmed the role of its PPR motifs in pre-tRNA binding and suggest it has evolved independently from other RNase P proteins that rely on catalytic RNA.


Pssm-ID: 407303 [Multi-domain]  Cd Length: 212  Bit Score: 42.77  E-value: 1.51e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15222796   236 EIWAKMVEKNVAIDIRTYNARL-LGLANEAKSKELVNL--------FGELKASGLKPDVFSFNAMIRGSINEGKMDEAEA 306
Cdd:pfam17177  32 ALYDAAKAEGVRLAQYHYNVLLyLCSKAADATDLKPQLaadrgfevFEAMKAQGVSPNEATYTAVARLAAAKGDGDLAFD 111

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 15222796   307 WYKEIVKHGYRPDKATFALLLPAMCKAGDFESAIE 341
Cdd:pfam17177 112 LVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYE 146
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 240-292 2.43e-04

Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. In the case of the Arabidopsis protein UniProtKB:Q66GI4, the repeated helices in this N-terminal region, of protein-only RNase P (PRORP) enzymes, form the pentatricopeptide repeat (PPR) domain which enhances pre-tRNA binding affinity. PROPRP enzymes process precursor tRNAs in human mitochondria and in all tRNA-using compartments of Arabidopsis thaliana.


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 38.88  E-value: 2.43e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 15222796   240 KMVEKNVAIDIRTYNARLLGLANEAKSKELVNLFGELKASGLKPDVFSFNAMI 292
Cdd:pfam13812   5 EMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAIL 57
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 280-305 3.97e-04

PPR repeat; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known.


Pssm-ID: 403914 [Multi-domain]  Cd Length: 34  Bit Score: 37.33  E-value: 3.97e-04
                          10        20
                  ....*....|....*....|....*.
gi 15222796   280 GLKPDVFSFNAMIRGSINEGKMDEAE 305
Cdd:pfam12854   2 GLKPDVVTYNTLINGLCRAGRVDEAF 27
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 181-211 4.34e-04

PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309 that may be involved in RNA stabilization. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein Swiss:O49549 that has a domain organization similar to the human BRCA1 protein. The repeat has been called PPR.


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 37.44  E-value: 4.34e-04
                          10        20        30
                  ....*....|....*....|....*....|.
gi 15222796   181 VSYNTLIKALCEKDSLPEAVALLDEIENKGL 211
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 286-315 1.02e-03

PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309 that may be involved in RNA stabilization. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein Swiss:O49549 that has a domain organization similar to the human BRCA1 protein. The repeat has been called PPR.


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 36.29  E-value: 1.02e-03
                          10        20        30
                  ....*....|....*....|....*....|
gi 15222796   286 FSFNAMIRGSINEGKMDEAEAWYKEIVKHG 315
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKG 30
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 314-345 1.56e-03

PPR repeat; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known.


Pssm-ID: 403914 [Multi-domain]  Cd Length: 34  Bit Score: 35.78  E-value: 1.56e-03
                          10        20        30
                  ....*....|....*....|....*....|..
gi 15222796   314 HGYRPDKATFALLLPAMCKAGDFESAIELFKE 345
Cdd:pfam12854   1 KGLKPDVVTYNTLINGLCRAGRVDEAFELLDE 32
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 272-327 1.62e-03

Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. In the case of the Arabidopsis protein UniProtKB:Q66GI4, the repeated helices in this N-terminal region, of protein-only RNase P (PRORP) enzymes, form the pentatricopeptide repeat (PPR) domain which enhances pre-tRNA binding affinity. PROPRP enzymes process precursor tRNAs in human mitochondria and in all tRNA-using compartments of Arabidopsis thaliana.


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 36.57  E-value: 1.62e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 15222796   272 LFGELKASGLKPDVFSFNAMIRGSINEGKMDEAEAWYKEIVKHGYRPDKATFALLL 327
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAIL 57
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 248-345 2.90e-03

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 39.85  E-value: 2.90e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15222796  248 IDIRTYNARLLGLANEAKSKELVNLFGELKASGLKPDVFSFNAMIRGSINEGKMDEAEAWYKEIvkhgyrPDK--ATFAL 325
Cdd:PLN03081 121 LPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEM------PERnlASWGT 194

                         90       100
                 ....*....|....*....|
gi 15222796  326 LLPAMCKAGDFESAIELFKE 345
Cdd:PLN03081 195 IIGGLVDAGNYREAFALFRE 214
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 115-140 6.06e-03

PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309 that may be involved in RNA stabilization. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein Swiss:O49549 that has a domain organization similar to the human BRCA1 protein. The repeat has been called PPR.


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 33.98  E-value: 6.06e-03
                          10        20
                  ....*....|....*....|....*.
gi 15222796   115 IISLYGKAGMFENAQKVFEEMPNRDC 140
Cdd:pfam01535   6 LISGYCKNGKLEEALELFKEMKEKGI 31
 
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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