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Conserved domains on  [gi|1162472347|ref|XP_020408284|]
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pentatricopeptide repeat-containing protein At5g39710 isoform X2 [Zea mays]

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
 99-367 6.14e-22

maturation of RBCL 1; Provisional


The actual alignment was detected with superfamily member PLN03218:

Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 98.80  E-value: 6.14e-22
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1162472347   99 ALSLLRSSsgpqpQVAADTVSYNIFLAGLSEQGHGRLAPPVLSEMCKRGVPW--DGVTMSTALVGLSRTGLVGEAAALAE 176
Cdd:PLN03218   529 AYGIMRSK-----NVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIdpDHITVGALMKACANAGQVDRAKEVYQ 603

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1162472347  177 MLvRGRGIDGLGVVgWNALIDGYCKVQDMAAALAVVERMTTQGLSLDVVGYNTLVAGFFYSGDADAAWEVAERMKADGVE 256
Cdd:PLN03218   604 MI-HEYNIKGTPEV-YTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIK 681

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1162472347  257 PSVVTHTTLIGEYCKMKRIEEAFTLYEGMVRSGVLPDVVTLSALVDGLCRDGRFSEAYALFREMDKIGVAPNHVTYCTFI 336
Cdd:PLN03218   682 LGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILL 761

                          250       260       270
                   ....*....|....*....|....*....|.
gi 1162472347  337 DSLAKVQRVNESLGLLGEMVSRGVAMDLVMY 367
Cdd:PLN03218   762 VASERKDDADVGLDLLSQAKEDGIKPNLVMC 792
 
Name Accession Description Interval E-value
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 99-367 6.14e-22

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 98.80  E-value: 6.14e-22
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1162472347   99 ALSLLRSSsgpqpQVAADTVSYNIFLAGLSEQGHGRLAPPVLSEMCKRGVPW--DGVTMSTALVGLSRTGLVGEAAALAE 176
Cdd:PLN03218   529 AYGIMRSK-----NVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIdpDHITVGALMKACANAGQVDRAKEVYQ 603

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1162472347  177 MLvRGRGIDGLGVVgWNALIDGYCKVQDMAAALAVVERMTTQGLSLDVVGYNTLVAGFFYSGDADAAWEVAERMKADGVE 256
Cdd:PLN03218   604 MI-HEYNIKGTPEV-YTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIK 681

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1162472347  257 PSVVTHTTLIGEYCKMKRIEEAFTLYEGMVRSGVLPDVVTLSALVDGLCRDGRFSEAYALFREMDKIGVAPNHVTYCTFI 336
Cdd:PLN03218   682 LGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILL 761

                          250       260       270
                   ....*....|....*....|....*....|.
gi 1162472347  337 DSLAKVQRVNESLGLLGEMVSRGVAMDLVMY 367
Cdd:PLN03218   762 VASERKDDADVGLDLLSQAKEDGIKPNLVMC 792
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 257-306 9.25e-15

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: 68.16  E-value: 9.25e-15
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1162472347 257 PSVVTHTTLIGEYCKMKRIEEAFTLYEGMVRSGVLPDVVTLSALVDGLCR 306
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 260-294 9.27e-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: 45.14  E-value: 9.27e-07
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 1162472347 260 VTHTTLIGEYCKMKRIEEAFTLYEGMVRSGVLPDV 294
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
 
Name Accession Description Interval E-value
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 99-367 6.14e-22

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 98.80  E-value: 6.14e-22
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1162472347   99 ALSLLRSSsgpqpQVAADTVSYNIFLAGLSEQGHGRLAPPVLSEMCKRGVPW--DGVTMSTALVGLSRTGLVGEAAALAE 176
Cdd:PLN03218   529 AYGIMRSK-----NVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIdpDHITVGALMKACANAGQVDRAKEVYQ 603

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1162472347  177 MLvRGRGIDGLGVVgWNALIDGYCKVQDMAAALAVVERMTTQGLSLDVVGYNTLVAGFFYSGDADAAWEVAERMKADGVE 256
Cdd:PLN03218   604 MI-HEYNIKGTPEV-YTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIK 681

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1162472347  257 PSVVTHTTLIGEYCKMKRIEEAFTLYEGMVRSGVLPDVVTLSALVDGLCRDGRFSEAYALFREMDKIGVAPNHVTYCTFI 336
Cdd:PLN03218   682 LGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILL 761

                          250       260       270
                   ....*....|....*....|....*....|.
gi 1162472347  337 DSLAKVQRVNESLGLLGEMVSRGVAMDLVMY 367
Cdd:PLN03218   762 VASERKDDADVGLDLLSQAKEDGIKPNLVMC 792
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 115-318 1.19e-19

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 91.47  E-value: 1.19e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1162472347 115 ADTVSYNIFLAGLSEQGHGRLAPPVLSEMCKRGVPWDGVTMSTALVGLSRTGLVGEAA-ALAEMLVRGRGIDglgVVGWN 193
Cdd:PLN03081  288 KTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKqAHAGLIRTGFPLD---IVANT 364

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1162472347 194 ALIDGYCKVQDMAAALAVVERMTTQglslDVVGYNTLVAGFFYSGDADAAWEVAERMKADGVEPSVVTHTTLIGEYCKMK 273
Cdd:PLN03081  365 ALVDLYSKWGRMEDARNVFDRMPRK----NLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSG 440

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*.
gi 1162472347 274 RIEEAFTLYEGMVRS-GVLPDVVTLSALVDGLCRDGRFSEAYALFR 318
Cdd:PLN03081  441 LSEQGWEIFQSMSENhRIKPRAMHYACMIELLGREGLLDEAYAMIR 486
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 257-306 9.25e-15

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: 68.16  E-value: 9.25e-15
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1162472347 257 PSVVTHTTLIGEYCKMKRIEEAFTLYEGMVRSGVLPDVVTLSALVDGLCR 306
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 292-341 6.21e-14

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: 65.85  E-value: 6.21e-14
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1162472347 292 PDVVTLSALVDGLCRDGRFSEAYALFREMDKIGVAPNHVTYCTFIDSLAK 341
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 192-349 7.37e-13

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 70.68  E-value: 7.37e-13
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1162472347  192 WNALIDGYCKVQDMAAALAVVERMTTQGLSLDVVGYNTLVAGFFYSGDADAAWEVAERMKADGVEPSVVTHTTLIGEYCK 271
Cdd:PLN03218   440 FNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCAR 519

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1162472347  272 MKRIEEAFTLYEGMVRSGVLPDVVTLSALVDGLCRDGRFSEAYALFREM--DKIGVAPNHVTYCTFIDSLAKVQRVNESL 349
Cdd:PLN03218   520 AGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMkaETHPIDPDHITVGALMKACANAGQVDRAK 599
PLN03077 PLN03077
Protein ECB2; Provisional
 116-345 1.08e-12

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 69.88  E-value: 1.08e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1162472347 116 DTVSYNIFLAGLSEQGHGRLAPPVLSEMCKRGVPWDGVTMSTALVGlsrTGLVGEAAALAEM--LVRGRGIDGlGVVGWN 193
Cdd:PLN03077  252 DCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISA---CELLGDERLGREMhgYVVKTGFAV-DVSVCN 327

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1162472347 194 ALIDGYCKVQDMAAALAVVERMTTQglslDVVGYNTLVAGFFYSGDADAAWEVAERMKADGVEPS--------------- 258
Cdd:PLN03077  328 SLIQMYLSLGSWGEAEKVFSRMETK----DAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDeitiasvlsacaclg 403

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1162472347 259 --------------------VVTHTTLIGEYCKMKRIEEAFTLYEGMVRSgvlpDVVTLSALVDGLCRDGRFSEAYALFR 318
Cdd:PLN03077  404 dldvgvklhelaerkglisyVVVANALIEMYSKCKCIDKALEVFHNIPEK----DVISWTSIIAGLRLNNRCFEALIFFR 479

                         250       260
                  ....*....|....*....|....*..
gi 1162472347 319 EMdKIGVAPNHVtycTFIDSLAKVQRV 345
Cdd:PLN03077  480 QM-LLTLKPNSV---TLIAALSACARI 502
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 118-332 1.18e-12

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 69.90  E-value: 1.18e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1162472347 118 VSYNIFLAGLSEQGHGRLAPPVLSEMCKRGVPWDGVTMSTALVGLSRTGLVGEAAALAEMLVRgrgidgLGVVGWN---- 193
Cdd:PLN03081  190 ASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLK------TGVVGDTfvsc 263

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1162472347 194 ALIDGYCKVQDMAAALAVVERMTTQglslDVVGYNTLVAGFFYSGDADAAWEVAERMKADGVEPSVVTHTTLIGEYCKMK 273
Cdd:PLN03081  264 ALIDMYSKCGDIEDARCVFDGMPEK----TTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLA 339

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1162472347 274 RIEEAFTLYEGMVRSGVLPDVVTLSALVDGLCRDGRFSEA---------------------YA----------LFREMDK 322
Cdd:PLN03081  340 LLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDArnvfdrmprknliswnaliagYGnhgrgtkaveMFERMIA 419

                         250
                  ....*....|
gi 1162472347 323 IGVAPNHVTY 332
Cdd:PLN03081  420 EGVAPNHVTF 429
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 223-271 4.86e-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: 60.45  E-value: 4.86e-12
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 1162472347 223 DVVGYNTLVAGFFYSGDADAAWEVAERMKADGVEPSVVTHTTLIGEYCK 271
Cdd:pfam13041   2 DVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 211-272 1.02e-11

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: 59.68  E-value: 1.02e-11
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1162472347 211 VVERMTTQGLSLDVVGYNTLVAGFFYSGDADAAWEVAERMKADGVEPSVVTHTTLIGEYCKM 272
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVIGGR 63
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 201-327 1.44e-11

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: 63.57  E-value: 1.44e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1162472347 201 KVQDMAAALAVVERMTTQGLSLDVVGYNTL----------VAGFFYSGdADAAWEVAERMKADGVEPSVVTHTTLIGEYC 270
Cdd:pfam17177  23 KHADATGALALYDAAKAEGVRLAQYHYNVLlylcskaadaTDLKPQLA-ADRGFEVFEAMKAQGVSPNEATYTAVARLAA 101

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1162472347 271 KMKRIEEAFTLYEGMVRSGVLPDVVTLSALVDGLCRDGRFSEAYALFREMDKIGVAP 327
Cdd:pfam17177 102 AKGDGDLAFDLVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHMLAHGVEL 158
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 289-320 4.00e-11

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: 57.36  E-value: 4.00e-11
                          10        20        30
                  ....*....|....*....|....*....|..
gi 1162472347 289 GVLPDVVTLSALVDGLCRDGRFSEAYALFREM 320
Cdd:pfam12854   2 GLKPDVVTYNTLINGLCRAGRVDEAFELLDEM 33
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 227-355 3.41e-10

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 62.20  E-value: 3.41e-10
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1162472347  227 YNTLVAGFFYSGDADAAWEVAERMKADGVEPSVVTHTTLIGEYCKMKRIEEAFTLYEGMVRSGVLPDVVTLSALVDGLCR 306
Cdd:PLN03218   440 FNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCAR 519

                           90       100       110       120
                   ....*....|....*....|....*....|....*....|....*....
gi 1162472347  307 DGRFSEAYALFREMDKIGVAPNHVTYCTFIDSLAKVQRVNESLGLLGEM 355
Cdd:PLN03218   520 AGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEM 568
PLN03077 PLN03077
Protein ECB2; Provisional
 84-355 4.02e-10

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 61.79  E-value: 4.02e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1162472347  84 NSIILSYCSLHALRPALSLLRSSSgpqpqvAADTVSYNIFLAGLSEQGHGRLAPPVLSEMCKRGVPWDGVTMSTALVGLS 163
Cdd:PLN03077  327 NSLIQMYLSLGSWGEAEKVFSRME------TKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACA 400

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1162472347 164 RTGLVGEAAALAEMLVRGRGIdgLGVVGWNALIDGYCKVQDMAAALAVVERMTTQglslDVVGYNTLVAGFFYSGDADAA 243
Cdd:PLN03077  401 CLGDLDVGVKLHELAERKGLI--SYVVVANALIEMYSKCKCIDKALEVFHNIPEK----DVISWTSIIAGLRLNNRCFEA 474

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1162472347 244 WEVAERMKADgVEPSVVTHTT-----------------------------------LIGEYCKMKRIEEAFT-------- 280
Cdd:PLN03077  475 LIFFRQMLLT-LKPNSVTLIAalsacarigalmcgkeihahvlrtgigfdgflpnaLLDLYVRCGRMNYAWNqfnshekd 553

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1162472347 281 ----------------------LYEGMVRSGVLPDVVTLSALVDGLCRDGRFSEAYALFREM-DKIGVAPNHVTYCTFID 337
Cdd:PLN03077  554 vvswnilltgyvahgkgsmaveLFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMeEKYSITPNLKHYACVVD 633

                         330
                  ....*....|....*...
gi 1162472347 338 SLAKVQRVNESLGLLGEM 355
Cdd:PLN03077  634 LLGRAGKLTEAYNFINKM 651
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 253-286 3.34e-07

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: 46.18  E-value: 3.34e-07
                          10        20        30
                  ....*....|....*....|....*....|....
gi 1162472347 253 DGVEPSVVTHTTLIGEYCKMKRIEEAFTLYEGMV 286
Cdd:pfam12854   1 KGLKPDVVTYNTLINGLCRAGRVDEAFELLDEME 34
PLN03077 PLN03077
Protein ECB2; Provisional
 4-389 3.74e-07

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 52.54  E-value: 3.74e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1162472347   4 AASPPQALPPAPTLqasflcSLALAFLRAGRlsaashvvSSLPAPPPARLLRRLIPALASSglvAAASRFRpvpgdpltl 83
Cdd:PLN03077    1 AQPPHFYLNPGKPN------LFQLASHKAPN--------VLPYWNFHGRKRSRGLSVAASS---SSSTHDS--------- 54

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1162472347  84 NSIILSYCSLHALRPALSLLRSSsgPQPQVAADTVSYnIFLAGLSEQGHG-----RLAPPVLSEMckrgvPWDGVTMSTA 158
Cdd:PLN03077   55 NSQLRALCSHGQLEQALKLLESM--QELRVPVDEDAY-VALFRLCEWKRAveegsRVCSRALSSH-----PSLGVRLGNA 126

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1162472347 159 LVG-LSRTGLVGEA-AALAEMLVRGrgidglgVVGWNALIDGYCKVQDMAAALAVVERMTTQGLSLDVVGYNTLVAGFFY 236
Cdd:PLN03077  127 MLSmFVRFGELVHAwYVFGKMPERD-------LFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGG 199

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1162472347 237 SGDADAAWEVAERMKADGVEPSVVTHTTLIGEYCKMKRIEEAFTLYEGMVRSgvlpDVVTLSALVDGLCRDGRFSEAYAL 316
Cdd:PLN03077  200 IPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRR----DCISWNAMISGYFENGECLEGLEL 275

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1162472347 317 FREMDKIGVAPNHVTYCTFIDSLAKVQRVNESLGLLGEMVSRGVAMDLV-------MYTTV--MDRLELAISMAQSRCCC 387
Cdd:PLN03077  276 FFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSvcnsliqMYLSLgsWGEAEKVFSRMETKDAV 355


                  ..
gi 1162472347 388 KW 389
Cdd:PLN03077  356 SW 357
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 237-361 5.59e-07

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: 50.09  E-value: 5.59e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1162472347 237 SGDADAAWEVAERMKADGVEPSVVTHTTLI---------GEYCKMKRIEEAFTLYEGMVRSGVLPDVVTLSALVDGLCRD 307
Cdd:pfam17177  24 HADATGALALYDAAKAEGVRLAQYHYNVLLylcskaadaTDLKPQLAADRGFEVFEAMKAQGVSPNEATYTAVARLAAAK 103

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1162472347 308 GRFSEAYALFREMDKIGVAPNHVTYCTFIDSLAKVQRVNESLGLLGEMVSRGVA 361
Cdd:pfam17177 104 GDGDLAFDLVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHMLAHGVE 157
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 260-294 9.27e-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: 45.14  E-value: 9.27e-07
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 1162472347 260 VTHTTLIGEYCKMKRIEEAFTLYEGMVRSGVLPDV 294
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 256-371 1.91e-06

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 50.26  E-value: 1.91e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1162472347  256 EPSVVTHTTLIGEYCKMKRIEEAFTLYEGMVRSGVLPDVVTLSALVDGLCRDGRFSEAYALFREMDKIGVAPNHVTYCTF 335
Cdd:PLN03218   434 NPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGAL 513

                           90       100       110
                   ....*....|....*....|....*....|....*.
gi 1162472347  336 IDSLAKVQRVNESLGLLGEMVSRGVAMDLVMYTTVM 371
Cdd:PLN03218   514 IDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALI 549
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 116-164 3.02e-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: 43.89  E-value: 3.02e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 1162472347 116 DTVSYNIFLAGLSEQGHGRLAPPVLSEMCKRGVPWDGVTMSTALVGLSR 164
Cdd:pfam13041   2 DVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 327-372 8.98e-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: 42.74  E-value: 8.98e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 1162472347 327 PNHVTYCTFIDSLAKVQRVNESLGLLGEMVSRGVAMDLVMYTTVMD 372
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILIN 46
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 295-325 9.77e-06

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: 42.07  E-value: 9.77e-06
                          10        20        30
                  ....*....|....*....|....*....|.
gi 1162472347 295 VTLSALVDGLCRDGRFSEAYALFREMDKIGV 325
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 193-382 1.44e-05

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 47.56  E-value: 1.44e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1162472347  193 NALIDGYCKVQDMAAALAVVERMTTQGLSLDVVGYNTLVAGFFYSGDADAAWEVAERMKADGVEPSVVTHTTLIGeYCKm 272
Cdd:PLN03218   723 NALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITG-LCL- 800

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1162472347  273 KRIEE-------------------------AFTLYEGMVRSGVLPDVVTLSALVDGLcrdgRFSEAYAL-FREMDKIGVA 326
Cdd:PLN03218   801 RRFEKacalgepvvsfdsgrpqienkwtswALMVYRETISAGTLPTMEVLSQVLGCL----QLPHDATLrNRLIENLGIS 876

                          170       180       190       200       210       220
                   ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1162472347  327 ---PNHVTYCTFIDSLAKVQrvNESLGLLGEMVSRGVAMDLVMYTT--VMDRLELAISMAQ 382
Cdd:PLN03218   877 adsQKQSNLSTLVDGFGEYD--PRAFSLLEEAASLGVVPSVSFKKSpiVIDAEELPVFAAE 935
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 295-328 1.66e-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: 1.66e-05
                          10        20        30
                  ....*....|....*....|....*....|....
gi 1162472347 295 VTLSALVDGLCRDGRFSEAYALFREMDKIGVAPN 328
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34
PLN03077 PLN03077
Protein ECB2; Provisional
 116-289 2.21e-05

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 46.77  E-value: 2.21e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1162472347 116 DTVSYNIFLAGLSEQGHGRLAPPVLSEMCKRGVPWDGVTMSTALVGLSRTGLVGEAAALAEMLVRGRGI----------- 184
Cdd:PLN03077  553 DVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSItpnlkhyacvv 632

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1162472347 185 DGLGVVG--------------------WNALIDGyCKVQDMA-----AALAVVErmttqgLSLDVVGYNTLVAGFFY-SG 238
Cdd:PLN03077  633 DLLGRAGklteaynfinkmpitpdpavWGALLNA-CRIHRHVelgelAAQHIFE------LDPNSVGYYILLCNLYAdAG 705

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1162472347 239 DADAAWEVAERMKADG---------VEPSVVTHTTLIGE--YCKMKRIEEAFT-LYEGMVRSG 289
Cdd:PLN03077  706 KWDEVARVRKTMRENGltvdpgcswVEVKGKVHAFLTDDesHPQIKEINTVLEgFYEKMKASG 768
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 260-290 5.08e-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: 40.14  E-value: 5.08e-05
                          10        20        30
                  ....*....|....*....|....*....|.
gi 1162472347 260 VTHTTLIGEYCKMKRIEEAFTLYEGMVRSGV 290
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 192-224 6.55e-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: 6.55e-05
                          10        20        30
                  ....*....|....*....|....*....|...
gi 1162472347 192 WNALIDGYCKVQDMAAALAVVERMTTQGLSLDV 224
Cdd:TIGR00756   3 YNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 330-363 1.44e-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: 38.98  E-value: 1.44e-04
                          10        20        30
                  ....*....|....*....|....*....|....
gi 1162472347 330 VTYCTFIDSLAKVQRVNESLGLLGEMVSRGVAMD 363
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 324-356 1.46e-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: 38.87  E-value: 1.46e-04
                          10        20        30
                  ....*....|....*....|....*....|...
gi 1162472347 324 GVAPNHVTYCTFIDSLAKVQRVNESLGLLGEMV 356
Cdd:pfam12854   2 GLKPDVVTYNTLINGLCRAGRVDEAFELLDEME 34
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 246-305 2.33e-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: 2.33e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1162472347 246 VAERMKADGVEPSVVTHTTLIGEYCKMKRIEEAFTLYEGMVRSGVLPDVVTLSALVdGLC 305
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAIL-GVI 60
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 281-332 3.32e-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: 3.32e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1162472347 281 LYEGMVRSGVLPDVVTLSALVDGLCRDGRFSEAYALFREMDKIGVAPNHVTY 332
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTY 53
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 227-259 3.48e-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: 37.82  E-value: 3.48e-04
                          10        20        30
                  ....*....|....*....|....*....|...
gi 1162472347 227 YNTLVAGFFYSGDADAAWEVAERMKADGVEPSV 259
Cdd:TIGR00756   3 YNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 219-251 1.94e-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: 35.40  E-value: 1.94e-03
                          10        20        30
                  ....*....|....*....|....*....|...
gi 1162472347 219 GLSLDVVGYNTLVAGFFYSGDADAAWEVAERMK 251
Cdd:pfam12854   2 GLKPDVVTYNTLINGLCRAGRVDEAFELLDEME 34
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 330-360 3.50e-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: 34.75  E-value: 3.50e-03
                          10        20        30
                  ....*....|....*....|....*....|.
gi 1162472347 330 VTYCTFIDSLAKVQRVNESLGLLGEMVSRGV 360
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 189-216 3.87e-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: 3.87e-03
                          10        20
                  ....*....|....*....|....*...
gi 1162472347 189 VVGWNALIDGYCKVQDMAAALAVVERMT 216
Cdd:pfam12854   7 VVTYNTLINGLCRAGRVDEAFELLDEME 34
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 192-220 4.75e-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: 34.36  E-value: 4.75e-03
                          10        20
                  ....*....|....*....|....*....
gi 1162472347 192 WNALIDGYCKVQDMAAALAVVERMTTQGL 220
Cdd:pfam01535   3 YNSLISGYCKNGKLEEALELFKEMKEKGI 31
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 221-340 4.81e-03

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 39.08  E-value: 4.81e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1162472347 221 SLDVVGYNTLVAGFFYSGDADAAWEVAERMKADGVEPSVVTHTTLIGEYCKMKRIEEAFTLYEGMvrsgvlPD--VVTLS 298
Cdd:PLN03081  120 TLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEM------PErnLASWG 193

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 1162472347 299 ALVDGLCRDGRFSEAYALFREMDKIGVAPNHVTYCTFIDSLA 340
Cdd:PLN03081  194 TIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASA 235
 
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.
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