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Conserved domains on  [gi|15221411|ref|NP_177623|]
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plastid transcriptionally active 2 [Arabidopsis thaliana]

Protein Classification

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
 138-493 6.41e-32

maturation of RBCL 1; Provisional


The actual alignment was detected with superfamily member PLN03218:

Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 134.23  E-value: 6.41e-32
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411   138 KPNEHIYTIMISLLGREGLLDKCLEVFDEMPSQGVSRSVFSYTALINAYGRNGRYETSLELLDRMKNEKISPSILTYNTV 217
Cdd:PLN03218  469 KADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNAL 548

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411   218 INACARGG-----LDwegllgLFAEMRHEG--IQPDIVTYNTLLSACAIRGLGDEAEMVFRTMNDGGIVPDLTTYSHLVE 290
Cdd:PLN03218  549 ISACGQSGavdraFD------VLAEMKAEThpIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVN 622

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411   291 TFGKLRRLEKVCDLLGEMASGGSLPDITSYNVLLEAYAKSGSIKEAMGVFHQMQAAGCTPNANTYSVLLNLFGQSGRYDD 370
Cdd:PLN03218  623 SCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKK 702

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411   371 VRQLFLEMKSSNTDPDAATYNILIEVFGEGGYFKEVVTLFHDMVEENIEPDMETYEGIIFACGKGGLHEDARKILQYMTA 450
Cdd:PLN03218  703 ALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKE 782

                         330       340       350       360
                  ....*....|....*....|....*....|....*....|....*..
gi 15221411   451 NDIVPS---SKAYTGV-IEAFGQAALYEEALVAFNTmhevgSNPSIE 493
Cdd:PLN03218  783 DGIKPNlvmCRCITGLcLRRFEKACALGEPVVSFDS-----GRPQIE 824
SMR smart00463
Small MutS-related domain;
710-796 7.55e-12

Small MutS-related domain;


:

Pssm-ID: 214676 [Multi-domain]  Cd Length: 80  Bit Score: 61.55  E-value: 7.55e-12
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411    710 VWSVDVHRMSEGGMYTALSVWLNDINDMLLKgdlpQLAVVVSVRGqleKSSAARESPIAKAAFSFLQdhvSSSFSFTG-W 788
Cdd:smart00463   1 KWSLDLHGLTVEEALTALDKFLNNARLKGLE----QKLVIITGKG---KHSLGGKSGVKPALKEHLR---VESFRFAEeG 70


                   ....*...
gi 15221411    789 NGGRIMCQ 796
Cdd:smart00463  71 NSGVLVVK 78
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 473-697 2.10e-07

Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal metal-binding domain [Cell wall/membrane/envelope biogenesis];


:

Pssm-ID: 442196 [Multi-domain]  Cd Length: 275  Bit Score: 53.19  E-value: 2.10e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411 473 YEEALVAFNTMHEVGSNpSIETFHSLLYSFARGGLVKESEAILSRLVDsgipRNRDTFNAQIE---AYKQGGKFEEAVKT 549
Cdd:COG2956  24 PDKAIDLLEEALELDPE-TVEAHLALGNLYRRRGEYDRAIRIHQKLLE----RDPDRAEALLElaqDYLKAGLLDRAEEL 98

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411 550 YVDMEKSRCDpDERTLEAVLSVYSFARLVDECREQFEEMKASDiLPSIMCYCMMLAVYGKTERWDDVNELLEEMLSNRVS 629
Cdd:COG2956  99 LEKLLELDPD-DAEALRLLAEIYEQEGDWEKAIEVLERLLKLG-PENAHAYCELAELYLEQGDYDEAIEALEKALKLDPD 176

                       170       180       190       200       210       220       230
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 15221411 630 NI--HQVIGQ--MIKGDYDD-DSNWQIVEyvldKLNSEGCGLgirfYNALLDALWWLGQKERAARVLNEATKR 697
Cdd:COG2956 177 CAraLLLLAElyLEQGDYEEaIAALERAL----EQDPDYLPA----LPRLAELYEKLGDPEEALELLRKALEL 241
 
Name Accession Description Interval E-value
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 138-493 6.41e-32

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 134.23  E-value: 6.41e-32
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411   138 KPNEHIYTIMISLLGREGLLDKCLEVFDEMPSQGVSRSVFSYTALINAYGRNGRYETSLELLDRMKNEKISPSILTYNTV 217
Cdd:PLN03218  469 KADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNAL 548

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411   218 INACARGG-----LDwegllgLFAEMRHEG--IQPDIVTYNTLLSACAIRGLGDEAEMVFRTMNDGGIVPDLTTYSHLVE 290
Cdd:PLN03218  549 ISACGQSGavdraFD------VLAEMKAEThpIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVN 622

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411   291 TFGKLRRLEKVCDLLGEMASGGSLPDITSYNVLLEAYAKSGSIKEAMGVFHQMQAAGCTPNANTYSVLLNLFGQSGRYDD 370
Cdd:PLN03218  623 SCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKK 702

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411   371 VRQLFLEMKSSNTDPDAATYNILIEVFGEGGYFKEVVTLFHDMVEENIEPDMETYEGIIFACGKGGLHEDARKILQYMTA 450
Cdd:PLN03218  703 ALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKE 782

                         330       340       350       360
                  ....*....|....*....|....*....|....*....|....*..
gi 15221411   451 NDIVPS---SKAYTGV-IEAFGQAALYEEALVAFNTmhevgSNPSIE 493
Cdd:PLN03218  783 DGIKPNlvmCRCITGLcLRRFEKACALGEPVVSFDS-----GRPQIE 824
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 194-358 1.64e-15

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: 76.28  E-value: 1.64e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411   194 TSLELLDRMKNEKISPSILTYNTVINACARGGLDWEGLLGL--------FAEMRHEGIQPDIVTYNTLLSACAIRGLGDE 265
Cdd:pfam17177  29 GALALYDAAKAEGVRLAQYHYNVLLYLCSKAADATDLKPQLaadrgfevFEAMKAQGVSPNEATYTAVARLAAAKGDGDL 108

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411   266 AEMVFRTMNDGGIVPDLTTYSHLVETFGKLRRLEKVCDLLGEMASGGSLPDITSYNVLLEAYAKSGSIKEAMGVFHQMQA 345
Cdd:pfam17177 109 AFDLVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHMLAHGVELEEPELAALLKVSAKAGRADKVYAYLHRLRD 188

                         170
                  ....*....|...
gi 15221411   346 AGCTPNANTYSVL 358
Cdd:pfam17177 189 AVRQVSESTAGVL 201
SMR smart00463
Small MutS-related domain;
710-796 7.55e-12

Small MutS-related domain;


Pssm-ID: 214676 [Multi-domain]  Cd Length: 80  Bit Score: 61.55  E-value: 7.55e-12
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411    710 VWSVDVHRMSEGGMYTALSVWLNDINDMLLKgdlpQLAVVVSVRGqleKSSAARESPIAKAAFSFLQdhvSSSFSFTG-W 788
Cdd:smart00463   1 KWSLDLHGLTVEEALTALDKFLNNARLKGLE----QKLVIITGKG---KHSLGGKSGVKPALKEHLR---VESFRFAEeG 70


                   ....*...
gi 15221411    789 NGGRIMCQ 796
Cdd:smart00463  71 NSGVLVVK 78
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 473-697 2.10e-07

Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal metal-binding domain [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 442196 [Multi-domain]  Cd Length: 275  Bit Score: 53.19  E-value: 2.10e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411 473 YEEALVAFNTMHEVGSNpSIETFHSLLYSFARGGLVKESEAILSRLVDsgipRNRDTFNAQIE---AYKQGGKFEEAVKT 549
Cdd:COG2956  24 PDKAIDLLEEALELDPE-TVEAHLALGNLYRRRGEYDRAIRIHQKLLE----RDPDRAEALLElaqDYLKAGLLDRAEEL 98

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411 550 YVDMEKSRCDpDERTLEAVLSVYSFARLVDECREQFEEMKASDiLPSIMCYCMMLAVYGKTERWDDVNELLEEMLSNRVS 629
Cdd:COG2956  99 LEKLLELDPD-DAEALRLLAEIYEQEGDWEKAIEVLERLLKLG-PENAHAYCELAELYLEQGDYDEAIEALEKALKLDPD 176

                       170       180       190       200       210       220       230
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 15221411 630 NI--HQVIGQ--MIKGDYDD-DSNWQIVEyvldKLNSEGCGLgirfYNALLDALWWLGQKERAARVLNEATKR 697
Cdd:COG2956 177 CAraLLLLAElyLEQGDYEEaIAALERAL----EQDPDYLPA----LPRLAELYEKLGDPEEALELLRKALEL 241
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 319-352 4.83e-07

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: 46.68  E-value: 4.83e-07
                          10        20        30
                  ....*....|....*....|....*....|....
gi 15221411   319 SYNVLLEAYAKSGSIKEAMGVFHQMQAAGCTPNA 352
Cdd:TIGR00756   2 TYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 529-564 9.13e-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: 40.81  E-value: 9.13e-05
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 15221411   529 TFNAQIEAYKQGGKFEEAVKTYVDMEKSRCDPDERT 564
Cdd:pfam13041   5 TYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYT 40
 
Name Accession Description Interval E-value
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 138-493 6.41e-32

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 134.23  E-value: 6.41e-32
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411   138 KPNEHIYTIMISLLGREGLLDKCLEVFDEMPSQGVSRSVFSYTALINAYGRNGRYETSLELLDRMKNEKISPSILTYNTV 217
Cdd:PLN03218  469 KADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNAL 548

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411   218 INACARGG-----LDwegllgLFAEMRHEG--IQPDIVTYNTLLSACAIRGLGDEAEMVFRTMNDGGIVPDLTTYSHLVE 290
Cdd:PLN03218  549 ISACGQSGavdraFD------VLAEMKAEThpIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVN 622

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411   291 TFGKLRRLEKVCDLLGEMASGGSLPDITSYNVLLEAYAKSGSIKEAMGVFHQMQAAGCTPNANTYSVLLNLFGQSGRYDD 370
Cdd:PLN03218  623 SCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKK 702

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411   371 VRQLFLEMKSSNTDPDAATYNILIEVFGEGGYFKEVVTLFHDMVEENIEPDMETYEGIIFACGKGGLHEDARKILQYMTA 450
Cdd:PLN03218  703 ALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKE 782

                         330       340       350       360
                  ....*....|....*....|....*....|....*....|....*..
gi 15221411   451 NDIVPS---SKAYTGV-IEAFGQAALYEEALVAFNTmhevgSNPSIE 493
Cdd:PLN03218  783 DGIKPNlvmCRCITGLcLRRFEKACALGEPVVSFDS-----GRPQIE 824
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 149-561 4.75e-28

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 121.91  E-value: 4.75e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411   149 SLLgREGLLDKCLEVFDEMPSQG-VSRSVFSYTALINAYGRNGRYETSLELLDRMKNekisPSILTYNTVINACARGGlD 227
Cdd:PLN03218  379 RLL-RDGRIKDCIDLLEDMEKRGlLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRN----PTLSTFNMLMSVCASSQ-D 452

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411   228 WEGLLGLFAEMRHEGIQPDIVTYNTLLSACAIRGLGDEAEMVFRTMNDGGIVPDLTTYSHLVETFGKLRRLEKVCDLLGE 307
Cdd:PLN03218  453 IDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGI 532

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411   308 MASGGSLPDITSYNVLLEAYAKSGSIKEAMGVFHQMQAAG--CTPNANTYSVLLNLFGQSGRYDDVRQLFLEMKSSNTDP 385
Cdd:PLN03218  533 MRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAEThpIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKG 612

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411   386 DAATYNILIEVFGEGGYFKEVVTLFHDMVEENIEPDMETYEGIIFACGKGGLHEDARKILQYMTANDIVPSSKAYTGVIE 465
Cdd:PLN03218  613 TPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMG 692

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411   466 AFGQAALYEEALVAFNTMHEVGSNPSIETFHSLLYSFARGGLVKESEAILSRLVDSGIPRNRDTFNAQIEAYKQGGKFEE 545
Cdd:PLN03218  693 ACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADV 772

                         410
                  ....*....|....*.
gi 15221411   546 AVKTYVDMEKSRCDPD 561
Cdd:PLN03218  773 GLDLLSQAKEDGIKPN 788
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 315-784 1.10e-23

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 107.66  E-value: 1.10e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411   315 PDITSYNVLLEAYAKSGSIKEAMGVFHQMQAAGCTPNANTYSVLLNLFGQSGRYDDVRQLFLEMKSSNTDPDAATYNILI 394
Cdd:PLN03218  435 PTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALI 514

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411   395 EVFGEGGYFKEVVTLFHDMVEENIEPDMETYEGIIFACGKGGLHEDARKILQYMTA--NDIVPSSKAYTGVIEAFGQAAL 472
Cdd:PLN03218  515 DGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAetHPIDPDHITVGALMKACANAGQ 594

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411   473 YEEALVAFNTMHEVGsnpsietfhsllysfargglVKeseailsrlvdsGIPrnrDTFNAQIEAYKQGGKFEEAVKTYVD 552
Cdd:PLN03218  595 VDRAKEVYQMIHEYN--------------------IK------------GTP---EVYTIAVNSCSQKGDWDFALSIYDD 639

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411   553 MEKSRCDPDERTLEAVLSVYSFARLVDECREQFEEMKASDILPSIMCYCMMLAVYGKTERWDDVNELLEEMLSNR----V 628
Cdd:PLN03218  640 MKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKlrptV 719

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411   629 SNIHQVIGQMIKGDYDDDSnwqiVEYvLDKLNSEGCGLGIRFYNALLDALWWLGQKERAARVLNEATKRGLFPEL----- 703
Cdd:PLN03218  720 STMNALITALCEGNQLPKA----LEV-LSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLvmcrc 794

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411   704 --------FRKN----KLVWSVDVHRMSEGGMYT--ALSVWLNDINdmllKGDLPQLAVVVSVRG--QLEKSSAARESPI 767
Cdd:PLN03218  795 itglclrrFEKAcalgEPVVSFDSGRPQIENKWTswALMVYRETIS----AGTLPTMEVLSQVLGclQLPHDATLRNRLI 870

                         490
                  ....*....|....*..
gi 15221411   768 AKAAFSFLQDHVSSSFS 784
Cdd:PLN03218  871 ENLGISADSQKQSNLST 887
PLN03077 PLN03077
Protein ECB2; Provisional
 163-483 7.86e-22

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 101.46  E-value: 7.86e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411  163 VFDEMPSqgvsRSVFSYTALINAYGRNGRYETSLELLDRMKNEKISPSILTYNTVINACA-----RGGLDWEGL------ 231
Cdd:PLN03077 244 VFDRMPR----RDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACEllgdeRLGREMHGYvvktgf 319

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411  232 ----------------LGLF--AEMRHEGIQ-PDIVTYNTLLSACAIRGLGDEAEMVFRTMNDGGIVPDLTTYSHLVETF 292
Cdd:PLN03077 320 avdvsvcnsliqmylsLGSWgeAEKVFSRMEtKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSAC 399

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411  293 GKLRRLEKVCDLLGEMASGGSLPDITSYNVLLEAYAKSGSIKEAMGVFHQM----------------------------- 343
Cdd:PLN03077 400 ACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIpekdviswtsiiaglrlnnrcfealiffr 479

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411  344 -QAAGCTPNANTY-----------------------------------SVLLNLFGQSGRYDDVRQLFlemksSNTDPDA 387
Cdd:PLN03077 480 qMLLTLKPNSVTLiaalsacarigalmcgkeihahvlrtgigfdgflpNALLDLYVRCGRMNYAWNQF-----NSHEKDV 554

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411  388 ATYNILIEVFGEGGYFKEVVTLFHDMVEENIEPDMETYEGIIFACGKGGLHEDARKILQYMTAN-DIVPSSKAYTGVIEA 466
Cdd:PLN03077 555 VSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKySITPNLKHYACVVDL 634

                        410
                 ....*....|....*..
gi 15221411  467 FGQAALYEEALVAFNTM 483
Cdd:PLN03077 635 LGRAGKLTEAYNFINKM 651
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 155-476 2.88e-20

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 96.09  E-value: 2.88e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411  155 GLLDKCLEVFDEMPSqgvsRSVFSYTALINAYGRNGRYETSLELLDRMKNEKISPSILTYNTVINACARGGLDWEGllgl 234
Cdd:PLN03081 172 GMLIDARRLFDEMPE----RNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAG---- 243

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411  235 faEMRHEGIQPDIVTYNTLLSaCAIR------GLGDEAEMVFRTMndggivPDLTT--YSHLVETFGKLRRLEKVCDLLG 306
Cdd:PLN03081 244 --QQLHCCVLKTGVVGDTFVS-CALIdmyskcGDIEDARCVFDGM------PEKTTvaWNSMLAGYALHGYSEEALCLYY 314

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411  307 EMASGGSLPDITSYNVLLEAYAKSGSIKeamgvfHQMQA-AGCTPN-------ANTysVLLNLFGQSGRYDDVRQLFLEM 378
Cdd:PLN03081 315 EMRDSGVSIDQFTFSIMIRIFSRLALLE------HAKQAhAGLIRTgfpldivANT--ALVDLYSKWGRMEDARNVFDRM 386

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411  379 KSSNTdpdaATYNILIEVFGEGGYFKEVVTLFHDMVEENIEPDMETYEGIIFACGKGGLHEDARKILQYMTAND-IVPSS 457
Cdd:PLN03081 387 PRKNL----ISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHrIKPRA 462

                        330
                 ....*....|....*....
gi 15221411  458 KAYTGVIEAFGQAALYEEA 476
Cdd:PLN03081 463 MHYACMIELLGREGLLDEA 481
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 236-615 4.99e-18

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 89.16  E-value: 4.99e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411  236 AEMRHEGIQPDIVTYNTLLSACAIRGLGDEAEMVFRTMNDGG-IVPDLTTYSHLVETFGKLRRLEKVCDLLGEMASGGSL 314
Cdd:PLN03081  76 ARLDDTQIRKSGVSLCSQIEKLVACGRHREALELFEILEAGCpFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFE 155

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411  315 PDITSYNVLLEAYAKSGSIKEAMGVFHQMQAAgctpNANTYSVLLNLFGQSGRYDDVRQLFLEMKSSNTDPDAATYNILI 394
Cdd:PLN03081 156 PDQYMMNRVLLMHVKCGMLIDARRLFDEMPER----NLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVML 231

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411  395 EVFGEGGYFKEVVTLFHDMVEENIEPDMETYEGIIFACGKGGLHEDARKILQYMTANDIVpsskAYTGVIEAFGQAALYE 474
Cdd:PLN03081 232 RASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTV----AWNSMLAGYALHGYSE 307

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411  475 EALVAFNTMHEVGSNPSIETFHSLLYSFARGGLVKESEAILSRLVDSGIP------------------------------ 524
Cdd:PLN03081 308 EALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPldivantalvdlyskwgrmedarnvfdrmp 387

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411  525 -RNRDTFNAQIEAYKQGGKFEEAVKTYVDMEKSRCDPDERTLEAVLSVYSFARLVDECREQFEEM-KASDILPSIMCYCM 602
Cdd:PLN03081 388 rKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMsENHRIKPRAMHYAC 467

                        410
                 ....*....|...
gi 15221411  603 MLAVYGKTERWDD 615
Cdd:PLN03081 468 MIELLGREGLLDE 480
PLN03077 PLN03077
Protein ECB2; Provisional
 147-623 1.71e-17

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 87.60  E-value: 1.71e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411  147 MISLLGREGLLDKCLEVFDEMPSqgvsRSVFSYTALINAYGRNGRYETSLELLDRMKNEKISPSILTYNTVINACArGGL 226
Cdd:PLN03077 127 MLSMFVRFGELVHAWYVFGKMPE----RDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCG-GIP 201

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411  227 DW----------------------EGLLGLF--------AEMRHEGI-QPDIVTYNTLLSACAIRGLGDEAEMVFRTMND 275
Cdd:PLN03077 202 DLargrevhahvvrfgfeldvdvvNALITMYvkcgdvvsARLVFDRMpRRDCISWNAMISGYFENGECLEGLELFFTMRE 281

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411  276 GGIVPDLTTYSHLVETFGKL--RRLEKvcDLLGEMASGGSLPDITSYNVLLEAYAKSGSIKEAMGVFHQMQaagcTPNAN 353
Cdd:PLN03077 282 LSVDPDLMTITSVISACELLgdERLGR--EMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRME----TKDAV 355

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411  354 TYSVLLNLFGQSGRYDDVRQLFLEMKSSNTDPDAATYNILIEVFGEGGYFKEVVTLfHDMVEENiepDMETY----EGII 429
Cdd:PLN03077 356 SWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKL-HELAERK---GLISYvvvaNALI 431

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411  430 FACGKGGLHEDARKILQYMTANDIVpsskAYTGVIEAFGQAALYEEALVAFNTMhEVGSNPSIETFHSLLYSFARGGLVK 509
Cdd:PLN03077 432 EMYSKCKCIDKALEVFHNIPEKDVI----SWTSIIAGLRLNNRCFEALIFFRQM-LLTLKPNSVTLIAALSACARIGALM 506

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411  510 ESEAILSRLVDSGI------------------------------PRNRDTFNAQIEAYKQGGKFEEAVKTYVDMEKSRCD 559
Cdd:PLN03077 507 CGKEIHAHVLRTGIgfdgflpnalldlyvrcgrmnyawnqfnshEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVN 586

                        490       500       510       520       530       540
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 15221411  560 PDERTLEAVLSVYSFARLVDECREQFEEMKAS-DILPSIMCYCMMLAVYGKTERWDDVNELLEEM 623
Cdd:PLN03077 587 PDEVTFISLLCACSRSGMVTQGLEYFHSMEEKySITPNLKHYACVVDLLGRAGKLTEAYNFINKM 651
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 119-351 8.63e-17

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 85.31  E-value: 8.63e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411   119 GDWQRSLRLFKyMQRQIWCKPNEHIYTIMISLLGREGLLDKCLEVFDEMPSQGVSRSVFSYTALINAYGRNGRYETSLEL 198
Cdd:PLN03218  593 GQVDRAKEVYQ-MIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEI 671

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411   199 LDRMKNEKISPSILTYNTVINACARGGlDWEGLLGLFAEMRHEGIQPDIVTYNTLLSA-CairglgdEAEmvfrtmndgg 277
Cdd:PLN03218  672 LQDARKQGIKLGTVSYSSLMGACSNAK-NWKKALELYEDIKSIKLRPTVSTMNALITAlC-------EGN---------- 733

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 15221411   278 ivpdlttyshlvetfgklrRLEKVCDLLGEMASGGSLPDITSYNVLLEAYAKSGSIKEAMGVFHQMQAAGCTPN 351
Cdd:PLN03218  734 -------------------QLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPN 788
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 115-412 1.46e-16

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 84.15  E-value: 1.46e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411  115 FAGRGDWQRSLRLFKYMQrQIWCKPNEHIYTIMISLLGREGLLDKCLEVFDEMPSQGVSRSVFSYTALINAYGRNGRYET 194
Cdd:PLN03081 199 LVDAGNYREAFALFREMW-EDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIED 277

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411  195 SLELLDRMKnEKispSILTYNTVINACARGGLDWEGLlGLFAEMRHEGIQPDIVTYNTLLSACAIRGLGDEAEMVFRTMN 274
Cdd:PLN03081 278 ARCVFDGMP-EK---TTVAWNSMLAGYALHGYSEEAL-CLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLI 352

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411  275 DGGIVPDLTTYSHLVETFGKLRRLEKVCDLLGEMAsggsLPDITSYNVLLEAYAKSGSIKEAMGVFHQMQAAGCTPNANT 354
Cdd:PLN03081 353 RTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMP----RKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVT 428

                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 15221411  355 YSVLLNLFGQSGRYDDVRQLFLEM-KSSNTDPDAATYNILIEVFGEGGYFKEVVTLFHD 412
Cdd:PLN03081 429 FLAVLSACRYSGLSEQGWEIFQSMsENHRIKPRAMHYACMIELLGREGLLDEAYAMIRR 487
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 144-380 4.07e-16

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 83.00  E-value: 4.07e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411  144 YTIMISLLGREGLLDKCLEVFDEMPSQGVSRSVFSYTALINAYGRNGRYETSLELLDRMKNEkispSILTYNTVINACAR 223
Cdd:PLN03081 328 FSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRK----NLISWNALIAGYGN 403

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411  224 GGLDWEGlLGLFAEMRHEGIQPDIVTYNTLLSACAIRGLGDEAEMVFRTMN-DGGIVPDLTTYSHLVETFGKLRRLEKVC 302
Cdd:PLN03081 404 HGRGTKA-VEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSeNHRIKPRAMHYACMIELLGREGLLDEAY 482

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411  303 DLLGEMasggslPDITSYNV---LLEAYAKSGSIKEAMGVFHQMQAAGcTPNANTYSVLLNLFGQSGRYDDVRQLFLEMK 379
Cdd:PLN03081 483 AMIRRA------PFKPTVNMwaaLLTACRIHKNLELGRLAAEKLYGMG-PEKLNNYVVLLNLYNSSGRQAEAAKVVETLK 555


                 .
gi 15221411  380 S 380
Cdd:PLN03081 556 R 556
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 194-358 1.64e-15

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: 76.28  E-value: 1.64e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411   194 TSLELLDRMKNEKISPSILTYNTVINACARGGLDWEGLLGL--------FAEMRHEGIQPDIVTYNTLLSACAIRGLGDE 265
Cdd:pfam17177  29 GALALYDAAKAEGVRLAQYHYNVLLYLCSKAADATDLKPQLaadrgfevFEAMKAQGVSPNEATYTAVARLAAAKGDGDL 108

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411   266 AEMVFRTMNDGGIVPDLTTYSHLVETFGKLRRLEKVCDLLGEMASGGSLPDITSYNVLLEAYAKSGSIKEAMGVFHQMQA 345
Cdd:pfam17177 109 AFDLVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHMLAHGVELEEPELAALLKVSAKAGRADKVYAYLHRLRD 188

                         170
                  ....*....|...
gi 15221411   346 AGCTPNANTYSVL 358
Cdd:pfam17177 189 AVRQVSESTAGVL 201
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 145-355 1.05e-14

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 78.37  E-value: 1.05e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411  145 TIMISLLGREGLLDKCLEVFDEMPSqgvsRSVFSYTALINAYGRNGRYETSLELLDRMKNEKISPSILTYNTVINACARG 224
Cdd:PLN03081 364 TALVDLYSKWGRMEDARNVFDRMPR----KNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYS 439

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411  225 GLDWEGlLGLFAEM-RHEGIQPDIVTYNTLLSACAIRGLGDEAemvFRTMNDGGIVPDLTTYSHLVeTFGKLRRLEKVCD 303
Cdd:PLN03081 440 GLSEQG-WEIFQSMsENHRIKPRAMHYACMIELLGREGLLDEA---YAMIRRAPFKPTVNMWAALL-TACRIHKNLELGR 514

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|...
gi 15221411  304 LLGEMASGGSLPDITSYNVLLEAYAKSGSIKEAMGVFHQMQAAG-CTPNANTY 355
Cdd:PLN03081 515 LAAEKLYGMGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGlSMHPACTW 567
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 316-632 5.64e-14

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 76.06  E-value: 5.64e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411  316 DITSYNVLLEAYAKSGSIKEAMGVFHQMQAAGCTPNANTYSVLLNLFGQSGRYDDVRQLFLEMKSSNtdpdAATYNILIE 395
Cdd:PLN03081 122 PASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPERN----LASWGTIIG 197

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411  396 VFGEGGYFKEVVTLFHDMVEENIEPDMETYEGIIFACGKGGLHEDARKILQYMTANDIVPSSKAYTGVIEAFGQAALYEE 475
Cdd:PLN03081 198 GLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIED 277

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411  476 ALVAFNTMHEvgsnPSIETFHSLLYSFARGGLVKESEAILSRLVDSGIPRNRDTFNAQIEAYKQGGKFEEAVKTYVDMEK 555
Cdd:PLN03081 278 ARCVFDGMPE----KTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIR 353

                        250       260       270       280       290       300       310
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 15221411  556 SRCDPDERTLEAVLSVYSFARLVDECREQFEEMKASDILPsimcYCMMLAVYGKTERWDDVNELLEEMLSNRVSNIH 632
Cdd:PLN03081 354 TGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLIS----WNALIAGYGNHGRGTKAVEMFERMIAEGVAPNH 426
PLN03077 PLN03077
Protein ECB2; Provisional
 221-570 7.50e-13

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 72.57  E-value: 7.50e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411  221 CARGGLdwEGLLGLFAEMRHEGIQPDIVTYNTLLSACAIRGLGDEAEMVFR----TMNDGGIVPDLTTYSHLVEtFGKLR 296
Cdd:PLN03077  62 CSHGQL--EQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSralsSHPSLGVRLGNAMLSMFVR-FGELV 138

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411  297 RLEKVcdlLGEMASggslPDITSYNVLLEAYAKSGSIKEAMGVFHQMQAAGCTPNANTYSVLLNLFGQSGRYDDVRQLFL 376
Cdd:PLN03077 139 HAWYV---FGKMPE----RDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHA 211

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411  377 EMKSSNTDPDAATYNILIEVFGEGGYFKEVVTLFHDMVEEniepDMETYEGIIFACGKGGLHEDARKILQYMTANDIVPS 456
Cdd:PLN03077 212 HVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRR----DCISWNAMISGYFENGECLEGLELFFTMRELSVDPD 287

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411  457 SKAYTGVIEAFGqaALYEEALVafNTMH----EVGSNPSIETFHSLLYSFARGGLVKESEAILSRLvdsgipRNRD--TF 530
Cdd:PLN03077 288 LMTITSVISACE--LLGDERLG--REMHgyvvKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRM------ETKDavSW 357

                        330       340       350       360
                 ....*....|....*....|....*....|....*....|
gi 15221411  531 NAQIEAYKQGGKFEEAVKTYVDMEKSRCDPDERTLEAVLS 570
Cdd:PLN03077 358 TAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLS 397
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 163-221 8.12e-13

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: 63.92  E-value: 8.12e-13
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 15221411   163 VFDEMPSQGVSRSVFSYTALINAYGRNGRYETSLELLDRMKNEKISPSILTYNTVINAC 221
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVI 60
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 174-223 1.90e-12

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: 62.38  E-value: 1.90e-12
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 15221411   174 RSVFSYTALINAYGRNGRYETSLELLDRMKNEKISPSILTYNTVINACAR 223
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PLN03077 PLN03077
Protein ECB2; Provisional
 124-387 4.40e-12

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 69.88  E-value: 4.40e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411  124 SLRLFKYMQRQIwcKPNEHIYTIMISLLGREGLLDKCLEVFDEMPSQGVSRSVFSYTALINAYGRNGRYETSLELLDRMK 203
Cdd:PLN03077 474 ALIFFRQMLLTL--KPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHE 551

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411  204 NEKISPSILTynTVINACARGGLdwegLLGLFAEMRHEGIQPDIVTYNTLLSACAIRGLGDEAEMVFRTMNDG-GIVPDL 282
Cdd:PLN03077 552 KDVVSWNILL--TGYVAHGKGSM----AVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKySITPNL 625

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411  283 TTYSHLVETFGKLRRLEKVCDLLGEMASGgslPDITSYNVLLEAYAKSGSIK----EAMGVFHQmqaagcTPNANTYSVL 358
Cdd:PLN03077 626 KHYACVVDLLGRAGKLTEAYNFINKMPIT---PDPAVWGALLNACRIHRHVElgelAAQHIFEL------DPNSVGYYIL 696

                        250       260       270
                 ....*....|....*....|....*....|
gi 15221411  359 L-NLFGQSGRYDDVRQLFLEMKSSNTDPDA 387
Cdd:PLN03077 697 LcNLYADAGKWDEVARVRKTMRENGLTVDP 726
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 315-360 4.48e-12

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: 61.23  E-value: 4.48e-12
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 15221411   315 PDITSYNVLLEAYAKSGSIKEAMGVFHQMQAAGCTPNANTYSVLLN 360
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILIN 46
SMR smart00463
Small MutS-related domain;
710-796 7.55e-12

Small MutS-related domain;


Pssm-ID: 214676 [Multi-domain]  Cd Length: 80  Bit Score: 61.55  E-value: 7.55e-12
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411    710 VWSVDVHRMSEGGMYTALSVWLNDINDMLLKgdlpQLAVVVSVRGqleKSSAARESPIAKAAFSFLQdhvSSSFSFTG-W 788
Cdd:smart00463   1 KWSLDLHGLTVEEALTALDKFLNNARLKGLE----QKLVIITGKG---KHSLGGKSGVKPALKEHLR---VESFRFAEeG 70


                   ....*...
gi 15221411    789 NGGRIMCQ 796
Cdd:smart00463  71 NSGVLVVK 78
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 209-258 2.63e-11

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: 59.30  E-value: 2.63e-11
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 15221411   209 PSILTYNTVINACARGGlDWEGLLGLFAEMRHEGIQPDIVTYNTLLSACA 258
Cdd:pfam13041   1 PDVVTYNTLINGYCKKG-KVEEAFKLFNEMKKRGVKPNVYTYTILINGLC 49
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 139-188 5.77e-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: 5.77e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 15221411   139 PNEHIYTIMISLLGREGLLDKCLEVFDEMPSQGVSRSVFSYTALINAYGR 188
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 198-260 6.56e-10

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: 55.83  E-value: 6.56e-10
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 15221411   198 LLDRMKNEKISPSILTYNTVINACARGGlDWEGLLGLFAEMRHEGIQPDIVTYNTLLSACAIR 260
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVG-NLKLALEIFERMKKKGIKPTLDTYNAILGVIGGR 63
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 350-394 1.66e-09

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: 53.91  E-value: 1.66e-09
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 15221411   350 PNANTYSVLLNLFGQSGRYDDVRQLFLEMKSSNTDPDAATYNILI 394
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILI 45
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 245-286 2.58e-09

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: 53.52  E-value: 2.58e-09
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 15221411   245 PDIVTYNTLLSACAIRGLGDEAEMVFRTMNDGGIVPDLTTYS 286
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYT 42
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 234-294 2.85e-09

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: 53.90  E-value: 2.85e-09
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 15221411   234 LFAEMRHEGIQPDIVTYNTLLSACAIRGLGDEAEMVFRTMNDGGIVPDLTTYSHLVETFGK 294
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVIGG 62
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 304-363 1.53e-08

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: 51.59  E-value: 1.53e-08
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411   304 LLGEMASGGSLPDITSYNVLLEAYAKSGSIKEAMGVFHQMQAAGCTPNANTYSVLLNLFG 363
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVIG 61
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 118-264 1.56e-08

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: 55.87  E-value: 1.56e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411   118 RGDWQRSLRLFKYMQRQiWCKPNEHIYTIMISLLGREGL---------LDKCLEVFDEMPSQGVSRSVFSYTALINAYGR 188
Cdd:pfam17177  24 HADATGALALYDAAKAE-GVRLAQYHYNVLLYLCSKAADatdlkpqlaADRGFEVFEAMKAQGVSPNEATYTAVARLAAA 102

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 15221411   189 NGRYETSLELLDRMKNEKISPSILTYNTVINACARGGlDWEGLLGLFAEMRHEGIQPDIVTYNTLLSACAIRGLGD 264
Cdd:pfam17177 103 KGDGDLAFDLVKEMEAAGVSPRLRSYSPALHAYCEAG-DADKAYEVEEHMLAHGVELEEPELAALLKVSAKAGRAD 177
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 324-466 4.55e-08

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: 54.32  E-value: 4.55e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411   324 LEAYAKSGSIKEAMGVFHQMQAAGCTPNANTYSVLLNLFGQSG---------RYDDVRQLFLEMKSSNTDPDAATYNILI 394
Cdd:pfam17177  18 LDKCSKHADATGALALYDAAKAEGVRLAQYHYNVLLYLCSKAAdatdlkpqlAADRGFEVFEAMKAQGVSPNEATYTAVA 97

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 15221411   395 EVFGEGGYFKEVVTLFHDMVEENIEPDMETYEGIIFACGKGGLHEDARKILQYMTANDIVPSSKAYTGVIEA 466
Cdd:pfam17177  98 RLAAAKGDGDLAFDLVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHMLAHGVELEEPELAALLKV 169
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 385-434 6.22e-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: 49.67  E-value: 6.22e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 15221411   385 PDAATYNILIEVFGEGGYFKEVVTLFHDMVEENIEPDMETYEGIIFACGK 434
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 473-697 2.10e-07

Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal metal-binding domain [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 442196 [Multi-domain]  Cd Length: 275  Bit Score: 53.19  E-value: 2.10e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411 473 YEEALVAFNTMHEVGSNpSIETFHSLLYSFARGGLVKESEAILSRLVDsgipRNRDTFNAQIE---AYKQGGKFEEAVKT 549
Cdd:COG2956  24 PDKAIDLLEEALELDPE-TVEAHLALGNLYRRRGEYDRAIRIHQKLLE----RDPDRAEALLElaqDYLKAGLLDRAEEL 98

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411 550 YVDMEKSRCDpDERTLEAVLSVYSFARLVDECREQFEEMKASDiLPSIMCYCMMLAVYGKTERWDDVNELLEEMLSNRVS 629
Cdd:COG2956  99 LEKLLELDPD-DAEALRLLAEIYEQEGDWEKAIEVLERLLKLG-PENAHAYCELAELYLEQGDYDEAIEALEKALKLDPD 176

                       170       180       190       200       210       220       230
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 15221411 630 NI--HQVIGQ--MIKGDYDD-DSNWQIVEyvldKLNSEGCGLgirfYNALLDALWWLGQKERAARVLNEATKR 697
Cdd:COG2956 177 CAraLLLLAElyLEQGDYEEaIAALERAL----EQDPDYLPA----LPRLAELYEKLGDPEEALELLRKALEL 241
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 319-352 4.83e-07

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: 46.68  E-value: 4.83e-07
                          10        20        30
                  ....*....|....*....|....*....|....
gi 15221411   319 SYNVLLEAYAKSGSIKEAMGVFHQMQAAGCTPNA 352
Cdd:TIGR00756   2 TYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 339-398 6.93e-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: 46.97  E-value: 6.93e-07
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411   339 VFHQMQAAGCTPNANTYSVLLNLFGQSGRYDDVRQLFLEMKSSNTDPDAATYNILIEVFG 398
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVIG 61
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 177-211 8.45e-07

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: 45.91  E-value: 8.45e-07
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 15221411   177 FSYTALINAYGRNGRYETSLELLDRMKNEKISPSI 211
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 389-421 5.03e-06

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: 43.98  E-value: 5.03e-06
                          10        20        30
                  ....*....|....*....|....*....|...
gi 15221411   389 TYNILIEVFGEGGYFKEVVTLFHDMVEENIEPD 421
Cdd:TIGR00756   2 TYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 213-247 8.38e-06

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: 43.21  E-value: 8.38e-06
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 15221411   213 TYNTVINACARGGlDWEGLLGLFAEMRHEGIQPDI 247
Cdd:TIGR00756   2 TYNTLIDGLCKAG-RVEEALELFKEMKERGIEPDV 35
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 142-176 1.10e-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: 42.83  E-value: 1.10e-05
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 15221411   142 HIYTIMISLLGREGLLDKCLEVFDEMPSQGVSRSV 176
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 177-207 1.42e-05

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: 42.45  E-value: 1.42e-05
                          10        20        30
                  ....*....|....*....|....*....|.
gi 15221411   177 FSYTALINAYGRNGRYETSLELLDRMKNEKI 207
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 137-167 1.57e-05

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: 42.33  E-value: 1.57e-05
                          10        20        30
                  ....*....|....*....|....*....|.
gi 15221411   137 CKPNEHIYTIMISLLGREGLLDKCLEVFDEM 167
Cdd:pfam12854   3 LKPDVVTYNTLINGLCRAGRVDEAFELLDEM 33
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 143-172 2.44e-05

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: 41.68  E-value: 2.44e-05
                          10        20        30
                  ....*....|....*....|....*....|
gi 15221411   143 IYTIMISLLGREGLLDKCLEVFDEMPSQGV 172
Cdd:pfam01535   2 TYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 241-273 3.72e-05

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: 41.18  E-value: 3.72e-05
                          10        20        30
                  ....*....|....*....|....*....|...
gi 15221411   241 EGIQPDIVTYNTLLSACAIRGLGDEAEMVFRTM 273
Cdd:pfam12854   1 KGLKPDVVTYNTLINGLCRAGRVDEAFELLDEM 33
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 319-348 4.61e-05

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: 40.91  E-value: 4.61e-05
                          10        20        30
                  ....*....|....*....|....*....|
gi 15221411   319 SYNVLLEAYAKSGSIKEAMGVFHQMQAAGC 348
Cdd:pfam01535   2 TYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 171-203 5.19e-05

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: 40.79  E-value: 5.19e-05
                          10        20        30
                  ....*....|....*....|....*....|...
gi 15221411   171 GVSRSVFSYTALINAYGRNGRYETSLELLDRMK 203
Cdd:pfam12854   2 GLKPDVVTYNTLINGLCRAGRVDEAFELLDEME 34
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 409-468 6.02e-05

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: 41.57  E-value: 6.02e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411   409 LFHDMVEENIEPDMETYEGIIFACGKGGLHEDARKILQYMTANDIVPSSKAYTGVIEAFG 468
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVIG 61
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 529-564 9.13e-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: 40.81  E-value: 9.13e-05
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 15221411   529 TFNAQIEAYKQGGKFEEAVKTYVDMEKSRCDPDERT 564
Cdd:pfam13041   5 TYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYT 40
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 248-281 1.11e-04

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: 40.13  E-value: 1.11e-04
                          10        20        30
                  ....*....|....*....|....*....|....
gi 15221411   248 VTYNTLLSACAIRGLGDEAEMVFRTMNDGGIVPD 281
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 126-189 2.18e-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: 40.03  E-value: 2.18e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 15221411   126 RLFKYMQRQiWCKPNEHIYTIMISLLGREGLLDKCLEVFDEMPSQGVSRSVFSYTALINAYGRN 189
Cdd:pfam13812   1 SILREMVRD-GIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVIGGR 63
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 461-621 2.38e-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: 43.15  E-value: 2.38e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411   461 TGVIEAFGQAALYEEALVA--FNTMHEVGSNpSIETFHSLLYSFARGGLvkeseAILSRLVDSGIPRNRDTFNAQIEAYK 538
Cdd:pfam17177  28 TGALALYDAAKAEGVRLAQyhYNVLLYLCSK-AADATDLKPQLAADRGF-----EVFEAMKAQGVSPNEATYTAVARLAA 101

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411   539 QGGKFEEAVKTYVDMEKSRCDPDERTLEAVLSVYSFARLVDECREQFEEMKASDILPSIMCYCMMLAVYGKTERWDDVNE 618
Cdd:pfam17177 102 AKGDGDLAFDLVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHMLAHGVELEEPELAALLKVSAKAGRADKVYA 181


                  ...
gi 15221411   619 LLE 621
Cdd:pfam17177 182 YLH 184
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 354-387 3.17e-04

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: 38.59  E-value: 3.17e-04
                          10        20        30
                  ....*....|....*....|....*....|....
gi 15221411   354 TYSVLLNLFGQSGRYDDVRQLFLEMKSSNTDPDA 387
Cdd:TIGR00756   2 TYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 438-694 3.71e-04

Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal metal-binding domain [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 442196 [Multi-domain]  Cd Length: 275  Bit Score: 43.18  E-value: 3.71e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411 438 HEDARKILQYMTANDivPSS-KAYTGVIEAFGQAALYEEALVAFNTMHEvgSNPSIETFHSLL-YSFARGGLVKESEAIL 515
Cdd:COG2956  24 PDKAIDLLEEALELD--PETvEAHLALGNLYRRRGEYDRAIRIHQKLLE--RDPDRAEALLELaQDYLKAGLLDRAEELL 99

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411 516 SRLVDSGiPRNRDTFNAQIEAYKQGGKFEEAVKTYVDMEKSrcDPDERTLEAVLS-VYSFARLVDECREQFEemKASDIL 594
Cdd:COG2956 100 EKLLELD-PDDAEALRLLAEIYEQEGDWEKAIEVLERLLKL--GPENAHAYCELAeLYLEQGDYDEAIEALE--KALKLD 174

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411 595 PSIMCYCMMLA-VYGKTERWDDVNELLEEMLSNRVSNIHqvIGQMIKGDYDDDSNWQIVEYVLDKLNSEGCglGIRFYNA 673
Cdd:COG2956 175 PDCARALLLLAeLYLEQGDYEEAIAALERALEQDPDYLP--ALPRLAELYEKLGDPEEALELLRKALELDP--SDDLLLA 250

                       250       260
                ....*....|....*....|.
gi 15221411 674 LLDALWWLGQKERAARVLNEA 694
Cdd:COG2956 251 LADLLERKEGLEAALALLERQ 271
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 248-278 6.80e-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: 37.83  E-value: 6.80e-04
                          10        20        30
                  ....*....|....*....|....*....|.
gi 15221411   248 VTYNTLLSACAIRGLGDEAEMVFRTMNDGGI 278
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 122-220 6.90e-04

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 43.32  E-value: 6.90e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221411  122 QRSLRLFKYMQRQIWCKPNEHIYTIMISLLGREGLLDKCLEVFDEMPsqgVSRSVFSYTALINAYGRNGRYE---TSLEL 198
Cdd:PLN03081 443 EQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAP---FKPTVNMWAALLTACRIHKNLElgrLAAEK 519

                         90       100
                 ....*....|....*....|..
gi 15221411  199 LDRMKNEKISPSILTYNTVINA 220
Cdd:PLN03081 520 LYGMGPEKLNNYVVLLNLYNSS 541
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 514-572 7.76e-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: 38.49  E-value: 7.76e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 15221411   514 ILSRLVDSGIPRNRDTFNAQIEAYKQGGKFEEAVKTYVDMEKSRCDPDERTLEAVLSVY 572
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVI 60
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 312-343 8.12e-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: 37.71  E-value: 8.12e-04
                          10        20        30
                  ....*....|....*....|....*....|..
gi 15221411   312 GSLPDITSYNVLLEAYAKSGSIKEAMGVFHQM 343
Cdd:pfam12854   2 GLKPDVVTYNTLINGLCRAGRVDEAFELLDEM 33
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 374-434 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: 37.72  E-value: 1.62e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 15221411   374 LFLEMKSSNTDPDAATYNILIEVFGEGGYFKEVVTLFHDMVEENIEPDMETYEGIIFACGK 434
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVIGG 62
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 389-418 2.06e-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: 36.29  E-value: 2.06e-03
                          10        20        30
                  ....*....|....*....|....*....|
gi 15221411   389 TYNILIEVFGEGGYFKEVVTLFHDMVEENI 418
Cdd:pfam01535   2 TYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 443-499 2.25e-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: 37.34  E-value: 2.25e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 15221411   443 KILQYMTANDIVPSSKAYTGVIEAFGQAALYEEALVAFNTMHEVGSNPSIETFHSLL 499
Cdd:pfam13812   1 SILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAIL 57
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 354-382 3.34e-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: 35.90  E-value: 3.34e-03
                          10        20
                  ....*....|....*....|....*....
gi 15221411   354 TYSVLLNLFGQSGRYDDVRQLFLEMKSSN 382
Cdd:pfam01535   2 TYNSLISGYCKNGKLEEALELFKEMKEKG 30
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 213-243 4.81e-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: 35.13  E-value: 4.81e-03
                          10        20        30
                  ....*....|....*....|....*....|.
gi 15221411   213 TYNTVINACARGGlDWEGLLGLFAEMRHEGI 243
Cdd:pfam01535   2 TYNSLISGYCKNG-KLEEALELFKEMKEKGI 31
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 347-379 9.61e-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: 34.63  E-value: 9.61e-03
                          10        20        30
                  ....*....|....*....|....*....|...
gi 15221411   347 GCTPNANTYSVLLNLFGQSGRYDDVRQLFLEMK 379
Cdd:pfam12854   2 GLKPDVVTYNTLINGLCRAGRVDEAFELLDEME 34
 
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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