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Conserved domains on  [gi|334187520|ref|NP_001190262|]
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Pentatricopeptide repeat (PPR) superfamily protein [Arabidopsis thaliana]

Protein Classification

pentatricopeptide repeat-containing protein( domain architecture ID 1000585)

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
PLN03077 super family cl33629
Protein ECB2; Provisional
 56-512 1.15e-94

Protein ECB2; Provisional


The actual alignment was detected with superfamily member PLN03077:

Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 306.78  E-value: 1.15e-94
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187520  56 GDVDYAYKFLSKLSDPPNYGWNFVIRGFSNSRNPEKSISVYIQMLRFGLLPDHMTYPFLMKSSSRLSNRKLGGSLHCSVV 135
Cdd:PLN03077 236 GDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVV 315

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187520 136 KSGLEWDLFICNTLIHMYGSFRDQASARKLFDEMPHKNLVTW-------------------------------------- 177
Cdd:PLN03077 316 KTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWtamisgyeknglpdkaletyalmeqdnvspdeitiasv 395

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187520 178 --------------------------------NSILDAYAKSGDVVSARLVFDEMSERDVVTWSSMIDGYVKRGEYNKAL 225
Cdd:PLN03077 396 lsacaclgdldvgvklhelaerkglisyvvvaNALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEAL 475

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187520 226 EIFDQMMrmGSSKANEVTMVSVICACAHLGALNRGKTVHRYILDVHLPLTVILQTSLIDMYAKCGSIGDAWSVFyraSVK 305
Cdd:PLN03077 476 IFFRQML--LTLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQF---NSH 550

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187520 306 ETDALMWNAIIGGLASHGFIRESLQLFHKMRESKIDPDEITFLCLLAACSHGGLVKEAWHFFKSLKES-GAEPKSEHYAC 384
Cdd:PLN03077 551 EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKySITPNLKHYAC 630

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187520 385 MVDVLSRAGLVKDAHDFISEMPIKPTGSMLGALLNGCINHGNLELAETVGKKLIELQPHNDGRYVGLANVYAINKQFRAA 464
Cdd:PLN03077 631 VVDLLGRAGKLTEAYNFINKMPITPDPAVWGALLNACRIHRHVELGELAAQHIFELDPNSVGYYILLCNLYADAGKWDEV 710

                        490       500       510       520
                 ....*....|....*....|....*....|....*....|....*...
gi 334187520 465 RSMREAMEKKGVKKIAGHSILDLDGTRHRFIAHDKTHFHSDKIYAVLQ 512
Cdd:PLN03077 711 ARVRKTMRENGLTVDPGCSWVEVKGKVHAFLTDDESHPQIKEINTVLE 758
 
Name Accession Description Interval E-value
PLN03077 PLN03077
Protein ECB2; Provisional
 56-512 1.15e-94

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 306.78  E-value: 1.15e-94
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187520  56 GDVDYAYKFLSKLSDPPNYGWNFVIRGFSNSRNPEKSISVYIQMLRFGLLPDHMTYPFLMKSSSRLSNRKLGGSLHCSVV 135
Cdd:PLN03077 236 GDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVV 315

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187520 136 KSGLEWDLFICNTLIHMYGSFRDQASARKLFDEMPHKNLVTW-------------------------------------- 177
Cdd:PLN03077 316 KTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWtamisgyeknglpdkaletyalmeqdnvspdeitiasv 395

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187520 178 --------------------------------NSILDAYAKSGDVVSARLVFDEMSERDVVTWSSMIDGYVKRGEYNKAL 225
Cdd:PLN03077 396 lsacaclgdldvgvklhelaerkglisyvvvaNALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEAL 475

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187520 226 EIFDQMMrmGSSKANEVTMVSVICACAHLGALNRGKTVHRYILDVHLPLTVILQTSLIDMYAKCGSIGDAWSVFyraSVK 305
Cdd:PLN03077 476 IFFRQML--LTLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQF---NSH 550

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187520 306 ETDALMWNAIIGGLASHGFIRESLQLFHKMRESKIDPDEITFLCLLAACSHGGLVKEAWHFFKSLKES-GAEPKSEHYAC 384
Cdd:PLN03077 551 EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKySITPNLKHYAC 630

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187520 385 MVDVLSRAGLVKDAHDFISEMPIKPTGSMLGALLNGCINHGNLELAETVGKKLIELQPHNDGRYVGLANVYAINKQFRAA 464
Cdd:PLN03077 631 VVDLLGRAGKLTEAYNFINKMPITPDPAVWGALLNACRIHRHVELGELAAQHIFELDPNSVGYYILLCNLYADAGKWDEV 710

                        490       500       510       520
                 ....*....|....*....|....*....|....*....|....*...
gi 334187520 465 RSMREAMEKKGVKKIAGHSILDLDGTRHRFIAHDKTHFHSDKIYAVLQ 512
Cdd:PLN03077 711 ARVRKTMRENGLTVDPGCSWVEVKGKVHAFLTDDESHPQIKEINTVLE 758
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 172-217 6.67e-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: 54.68  E-value: 6.67e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 334187520  172 KNLVTWNSILDAYAKSGDVVSARLVFDEMSER----DVVTWSSMIDGYVK 217
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRgvkpNVYTYTILINGLCK 50
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 206-235 6.59e-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: 45.52  E-value: 6.59e-07
                          10        20        30
                  ....*....|....*....|....*....|
gi 334187520  206 VTWSSMIDGYVKRGEYNKALEIFDQMMRMG 235
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERG 30
PilF COG3063
Type IV pilus assembly protein PilF/PilW [Cell motility, Extracellular structures];
425-472 1.65e-03

Type IV pilus assembly protein PilF/PilW [Cell motility, Extracellular structures];


Pssm-ID: 442297 [Multi-domain]  Cd Length: 94  Bit Score: 37.84  E-value: 1.65e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*...
gi 334187520 425 GNLELAETVGKKLIELQPHNDGRYVGLANVYAINKQFRAARSMREAME 472
Cdd:COG3063    6 GDLEEAEEYYEKALELDPDNADALNNLGLLLLEQGRYDEAIALEKALK 53
 
Name Accession Description Interval E-value
PLN03077 PLN03077
Protein ECB2; Provisional
 56-512 1.15e-94

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 306.78  E-value: 1.15e-94
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187520  56 GDVDYAYKFLSKLSDPPNYGWNFVIRGFSNSRNPEKSISVYIQMLRFGLLPDHMTYPFLMKSSSRLSNRKLGGSLHCSVV 135
Cdd:PLN03077 236 GDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVV 315

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187520 136 KSGLEWDLFICNTLIHMYGSFRDQASARKLFDEMPHKNLVTW-------------------------------------- 177
Cdd:PLN03077 316 KTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWtamisgyeknglpdkaletyalmeqdnvspdeitiasv 395

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187520 178 --------------------------------NSILDAYAKSGDVVSARLVFDEMSERDVVTWSSMIDGYVKRGEYNKAL 225
Cdd:PLN03077 396 lsacaclgdldvgvklhelaerkglisyvvvaNALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEAL 475

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187520 226 EIFDQMMrmGSSKANEVTMVSVICACAHLGALNRGKTVHRYILDVHLPLTVILQTSLIDMYAKCGSIGDAWSVFyraSVK 305
Cdd:PLN03077 476 IFFRQML--LTLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQF---NSH 550

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187520 306 ETDALMWNAIIGGLASHGFIRESLQLFHKMRESKIDPDEITFLCLLAACSHGGLVKEAWHFFKSLKES-GAEPKSEHYAC 384
Cdd:PLN03077 551 EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKySITPNLKHYAC 630

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187520 385 MVDVLSRAGLVKDAHDFISEMPIKPTGSMLGALLNGCINHGNLELAETVGKKLIELQPHNDGRYVGLANVYAINKQFRAA 464
Cdd:PLN03077 631 VVDLLGRAGKLTEAYNFINKMPITPDPAVWGALLNACRIHRHVELGELAAQHIFELDPNSVGYYILLCNLYADAGKWDEV 710

                        490       500       510       520
                 ....*....|....*....|....*....|....*....|....*...
gi 334187520 465 RSMREAMEKKGVKKIAGHSILDLDGTRHRFIAHDKTHFHSDKIYAVLQ 512
Cdd:PLN03077 711 ARVRKTMRENGLTVDPGCSWVEVKGKVHAFLTDDESHPQIKEINTVLE 758
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 74-508 5.47e-78

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 259.03  E-value: 5.47e-78
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187520  74 YGWNFVIRGFSNSRNPEKSISVYIQMLRFGLLPDHMTYPFLMKSSSRLSNRKLGGSLHCSVVKSGLEWDLFICNTLIHMY 153
Cdd:PLN03081 190 ASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMY 269

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187520 154 gsfrdqasarklfdemphknlvtwnsildayAKSGDVVSARLVFDEMSERDVVTWSSMIDGYVKRGEYNKALEIFdQMMR 233
Cdd:PLN03081 270 -------------------------------SKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLY-YEMR 317

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187520 234 MGSSKANEVTMVSVICACAHLGALNRGKTVHRYILDVHLPLTVILQTSLIDMYAKCGSIGDAWSVFYRASVKetDALMWN 313
Cdd:PLN03081 318 DSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRK--NLISWN 395

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187520 314 AIIGGLASHGFIRESLQLFHKMRESKIDPDEITFLCLLAACSHGGLVKEAWHFFKSLKES-GAEPKSEHYACMVDVLSRA 392
Cdd:PLN03081 396 ALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENhRIKPRAMHYACMIELLGRE 475

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187520 393 GLVKDAHDFISEMPIKPTGSMLGALLNGCINHGNLELAETVGKKLIELQPHNDGRYVGLANVYAINKQFRAARSMREAME 472
Cdd:PLN03081 476 GLLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLK 555

                        410       420       430
                 ....*....|....*....|....*....|....*.
gi 334187520 473 KKGVKKIAGHSILDLDGTRHRFIAHDKTHFHSDKIY 508
Cdd:PLN03081 556 RKGLSMHPACTWIEVKKQDHSFFSGDRLHPQSREIY 591
PLN03077 PLN03077
Protein ECB2; Provisional
 167-354 3.57e-28

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 119.18  E-value: 3.57e-28
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187520 167 DEMPHKNLVTWNSILDAYAKSGDVVSARLVFDEMSERDVVTWSSMIDGYVKRGEYNKALEIFDQMMRMGsSKANEVTMVS 246
Cdd:PLN03077 114 SSHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAG-VRPDVYTFPC 192

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187520 247 VICACAHLGALNRGKTVHRYILDVHLPLTVILQTSLIDMYAKCGSIGDAWSVFYRASVkeTDALMWNAIIGGLASHGFIR 326
Cdd:PLN03077 193 VLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPR--RDCISWNAMISGYFENGECL 270

                        170       180
                 ....*....|....*....|....*...
gi 334187520 327 ESLQLFHKMRESKIDPDEITFLCLLAAC 354
Cdd:PLN03077 271 EGLELFFTMRELSVDPDLMTITSVISAC 298
PLN03077 PLN03077
Protein ECB2; Provisional
 209-359 7.16e-16

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 81.05  E-value: 7.16e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187520 209 SSMIDGYVKRGEYNKALEIFDQMMRMGSSkANEVTMVSVICACAHLGALNRGKTVHRYILDVHLPLTVILQTSLIDMYAK 288
Cdd:PLN03077  55 NSQLRALCSHGQLEQALKLLESMQELRVP-VDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRLGNAMLSMFVR 133

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 334187520 289 CGSIGDAWSVFYRASvkETDALMWNAIIGGLASHGFIRESLQLFHKMRESKIDPDEITFLCLLAACshGGL 359
Cdd:PLN03077 134 FGELVHAWYVFGKMP--ERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTC--GGI 200
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 177-442 5.98e-14

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 74.91  E-value: 5.98e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187520  177 WNSILDAYAKSGDVVSARLVFDEMS----ERDVVTWSSMIDGYVKRGEYNKALEIFDqMMRMGSSKANEVTMVSVICACA 252
Cdd:PLN03218  475 YTTLISTCAKSGKVDAMFEVFHEMVnagvEANVHTFGALIDGCARAGQVAKAFGAYG-IMRSKNVKPDRVVFNALISACG 553

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187520  253 HLGALNRGktvhryiLDVhlpltvilqtsLIDMYAKCGSIgdawsvfyrasvkETDALMWNAIIGGLASHGFIRESLQLF 332
Cdd:PLN03218  554 QSGAVDRA-------FDV-----------LAEMKAETHPI-------------DPDHITVGALMKACANAGQVDRAKEVY 602

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187520  333 HKMRESKIDPDEITFLCLLAACSHGGLVKEAWHFFKSLKESGAEPKSEHYACMVDVLSRAGLVKDAHDFISEMpiKPTGS 412
Cdd:PLN03218  603 QMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDA--RKQGI 680

                         250       260       270
                  ....*....|....*....|....*....|....*....
gi 334187520  413 MLGA-----LLNGCINHGN----LELAETVgkKLIELQP 442
Cdd:PLN03218  681 KLGTvsyssLMGACSNAKNwkkaLELYEDI--KSIKLRP 717
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 278-483 1.50e-10

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 64.13  E-value: 1.50e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187520  278 LQTSLIDMYAKCGSIGDAWSVFYRASVKETDALM--WNAIIGGLASHGFIRESLQLFHKMRESKIDPDEITFLCLLAACS 355
Cdd:PLN03218  474 LYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVhtFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACG 553

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187520  356 HGGLVKEAwhfFKSLKESGAEPKsehyacmvdvlsraglvkdahdfisemPIKPTGSMLGALLNGCINHGNLELAETVGK 435
Cdd:PLN03218  554 QSGAVDRA---FDVLAEMKAETH---------------------------PIDPDHITVGALMKACANAGQVDRAKEVYQ 603

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 334187520  436 KLIElqphNDGRyvGLANVYAINKQFRA-------ARSMREAMEKKGVK----------KIAGHS 483
Cdd:PLN03218  604 MIHE----YNIK--GTPEVYTIAVNSCSqkgdwdfALSIYDDMKKKGVKpdevffsalvDVAGHA 662
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 172-217 6.67e-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: 54.68  E-value: 6.67e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 334187520  172 KNLVTWNSILDAYAKSGDVVSARLVFDEMSER----DVVTWSSMIDGYVK 217
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 ...
 203-253 1.55e-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: 1.55e-09
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 334187520  203 RDVVTWSSMIDGYVKRGEYNKALEIFDQMMRMGsSKANEVTMVSVICACAH 253
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRG-VKPNVYTYTILINGLCK 50
E_motif pfam20431
E motif; This entry represents the E motif found in plant pentatricopeptide repeat (PPR) ...
 424-483 2.50e-09

E motif; This entry represents the E motif found in plant pentatricopeptide repeat (PPR) proteins which contain a DYW deaminase domain. The DYW domain is required for RNA editing, a process that deaminates specific cytidines to uridines. This motif, together with the E+ motif, precedes the DYW domain and, although their role is not clear, they are essential in the RNA editing reaction. The E/E+ motifs may contain two degenerate PPR motifs that could be involved in RNA or protein binding.


Pssm-ID: 466580 [Multi-domain]  Cd Length: 63  Bit Score: 53.32  E-value: 2.50e-09
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187520  424 HGNLELAETVGKKLIELQPHNDGRYVGLANVYAINKQFRAARSMREAMEKKGVKKIAGHS 483
Cdd:pfam20431   1 YSNVELAEKAANILLELEKTNDGNYTLLSNIYAYAGRWKDVERIRKLMKSSGIKKRPGCS 60
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 206-235 3.23e-07

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: 46.69  E-value: 3.23e-07
                          10        20        30
                  ....*....|....*....|....*....|
gi 334187520  206 VTWSSMIDGYVKRGEYNKALEIFDQMMRMG 235
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKG 30
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 206-235 6.59e-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: 45.52  E-value: 6.59e-07
                          10        20        30
                  ....*....|....*....|....*....|
gi 334187520  206 VTWSSMIDGYVKRGEYNKALEIFDQMMRMG 235
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERG 30
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 312-356 7.34e-07

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 45.82  E-value: 7.34e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 334187520  312 WNAIIGGLASHGFIRESLQLFHKMRESKIDPDEITFLCLLAACSH 356
Cdd:pfam13041   6 YNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 202-231 3.52e-06

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


Pssm-ID: 403914 [Multi-domain]  Cd Length: 34  Bit Score: 43.49  E-value: 3.52e-06
                          10        20        30
                  ....*....|....*....|....*....|
gi 334187520  202 ERDVVTWSSMIDGYVKRGEYNKALEIFDQM 231
Cdd:pfam12854   4 KPDVVTYNTLINGLCRAGRVDEAFELLDEM 33
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 175-205 5.49e-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: 5.49e-05
                          10        20        30
                  ....*....|....*....|....*....|.
gi 334187520  175 VTWNSILDAYAKSGDVVSARLVFDEMSERDV 205
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 175-206 6.50e-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: 40.13  E-value: 6.50e-05
                          10        20        30
                  ....*....|....*....|....*....|..
gi 334187520  175 VTWNSILDAYAKSGDVVSARLVFDEMSERDVV 206
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIE 32
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 142-186 8.02e-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: 40.04  E-value: 8.02e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 334187520  142 DLFICNTLIHMYGSFRDQASARKLFDEMPHK----NLVTWNSILDAYAK 186
Cdd:pfam13041   2 DVVTYNTLINGYCKKGKVEEAFKLFNEMKKRgvkpNVYTYTILINGLCK 50
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 311-344 8.14e-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: 8.14e-05
                          10        20        30
                  ....*....|....*....|....*....|....
gi 334187520  311 MWNAIIGGLASHGFIRESLQLFHKMRESKIDPDE 344
Cdd:TIGR00756   2 TYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 181-386 2.47e-04

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 44.10  E-value: 2.47e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187520  181 LDAYAKSGDVVSARLVFDEMSERDV----VTWSSMIDGYVKRGEYNKALEIFDQMMRMGSsKANEVTMVSVICACAHLGA 256
Cdd:PLN03218  621 VNSCSQKGDWDFALSIYDDMKKKGVkpdeVFFSALVDVAGHAGDLDKAFEILQDARKQGI-KLGTVSYSSLMGACSNAKN 699

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187520  257 LNRGktvhryildvhlpltvilqtslIDMYAKCGSIGdawsvfyrasVKETDALMwNAIIGGLASHGFIRESLQLFHKMR 336
Cdd:PLN03218  700 WKKA----------------------LELYEDIKSIK----------LRPTVSTM-NALITALCEGNQLPKALEVLSEMK 746

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|
gi 334187520  337 ESKIDPDEITFLCLLAACSHGGLVKEAWHFFKSLKESGAEPKSEHYACMV 386
Cdd:PLN03218  747 RLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCIT 796
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 134-186 4.13e-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: 4.13e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 334187520  134 VVKSGLEWDLFICNTLIHMYGSFRDQASARKLFDEMPHK----NLVTWNSILDAYAK 186
Cdd:pfam13812   6 MVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKgikpTLDTYNAILGVIGG 62
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 311-340 5.69e-04

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


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 37.44  E-value: 5.69e-04
                          10        20        30
                  ....*....|....*....|....*....|
gi 334187520  311 MWNAIIGGLASHGFIRESLQLFHKMRESKI 340
Cdd:pfam01535   2 TYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 173-201 6.85e-04

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


Pssm-ID: 403914 [Multi-domain]  Cd Length: 34  Bit Score: 37.33  E-value: 6.85e-04
                          10        20
                  ....*....|....*....|....*....
gi 334187520  173 NLVTWNSILDAYAKSGDVVSARLVFDEMS 201
Cdd:pfam12854   6 DVVTYNTLINGLCRAGRVDEAFELLDEME 34
PilF COG3063
Type IV pilus assembly protein PilF/PilW [Cell motility, Extracellular structures];
425-472 1.65e-03

Type IV pilus assembly protein PilF/PilW [Cell motility, Extracellular structures];


Pssm-ID: 442297 [Multi-domain]  Cd Length: 94  Bit Score: 37.84  E-value: 1.65e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*...
gi 334187520 425 GNLELAETVGKKLIELQPHNDGRYVGLANVYAINKQFRAARSMREAME 472
Cdd:COG3063    6 GDLEEAEEYYEKALELDPDNADALNNLGLLLLEQGRYDEAIALEKALK 53
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 76-116 1.71e-03

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: 36.57  E-value: 1.71e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 334187520   76 WNFVIRGFSNSRNPEKSISVYIQMLRFGLLPDHMTYPFLMK 116
Cdd:pfam13041   6 YNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILIN 46
 
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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