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Conserved domains on  [gi|922336451|ref|XP_013446215|]
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putative pentatricopeptide repeat-containing protein At3g16890, mitochondrial [Medicago truncatula]

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
 8-219 6.41e-17

maturation of RBCL 1; Provisional


The actual alignment was detected with superfamily member PLN03218:

Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 79.15  E-value: 6.41e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 922336451    8 PNLVTFNILINGHCKDGAIIKAREPL-EMLLENR-LKPDIFTFSCIIDGLCRLKRTEEAFECFNEMVEWGVNPNAIIYNI 85
Cdd:PLN03218  540 PDRVVFNALISACGQSGAVDRAFDVLaEMKAETHpIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTI 619

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 922336451   86 LIRSLCSIGETTRSVKLLRRMQEEGISPDIYSYNALIQIFCRMNKVEKAKKLFDSMSKSGFNPDNYTYSAFIAALSESGR 165
Cdd:PLN03218  620 AVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKN 699

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....
gi 922336451  166 LEEAKKMFYSIEANGCSPDSYVCNLVIKALVRHDRVEEAQKIVERCRQKGIALN 219
Cdd:PLN03218  700 WKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPN 753
 
Name Accession Description Interval E-value
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 8-219 6.41e-17

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 79.15  E-value: 6.41e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 922336451    8 PNLVTFNILINGHCKDGAIIKAREPL-EMLLENR-LKPDIFTFSCIIDGLCRLKRTEEAFECFNEMVEWGVNPNAIIYNI 85
Cdd:PLN03218  540 PDRVVFNALISACGQSGAVDRAFDVLaEMKAETHpIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTI 619

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 922336451   86 LIRSLCSIGETTRSVKLLRRMQEEGISPDIYSYNALIQIFCRMNKVEKAKKLFDSMSKSGFNPDNYTYSAFIAALSESGR 165
Cdd:PLN03218  620 AVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKN 699

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....
gi 922336451  166 LEEAKKMFYSIEANGCSPDSYVCNLVIKALVRHDRVEEAQKIVERCRQKGIALN 219
Cdd:PLN03218  700 WKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPN 753
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 43-91 1.36e-16

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: 70.86  E-value: 1.36e-16
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 922336451   43 PDIFTFSCIIDGLCRLKRTEEAFECFNEMVEWGVNPNAIIYNILIRSLC 91
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLC 49
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 46-80 3.74e-08

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: 47.84  E-value: 3.74e-08
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 922336451   46 FTFSCIIDGLCRLKRTEEAFECFNEMVEWGVNPNA 80
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
TPR COG0457
Tetratricopeptide (TPR) repeat [General function prediction only];
55-218 4.23e-07

Tetratricopeptide (TPR) repeat [General function prediction only];


Pssm-ID: 440225 [Multi-domain]  Cd Length: 245  Bit Score: 49.23  E-value: 4.23e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 922336451  55 LCRLKRTEEAFECFNEMVEwgVNPN-AIIYNILIRSLCSIGETTRSVKLLRRMQEegISP-DIYSYNALIQIFCRMNKVE 132
Cdd:COG0457   18 YRRLGRYEEAIEDYEKALE--LDPDdAEALYNLGLAYLRLGRYEEALADYEQALE--LDPdDAEALNNLGLALQALGRYE 93

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 922336451 133 KAKKLFDsmsKS-GFNPDNYTYSAFIA-ALSESGRLEEAKKMF-YSIEANGCSPDSYvCNLVIkALVRHDRVEEAQKIVE 209
Cdd:COG0457   94 EALEDYD---KAlELDPDDAEALYNLGlALLELGRYDEAIEAYeRALELDPDDADAL-YNLGI-ALEKLGRYEEALELLE 168


                 ....*....
gi 922336451 210 RCRQKGIAL 218
Cdd:COG0457  169 KLEAAALAA 177
 
Name Accession Description Interval E-value
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 8-219 6.41e-17

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 79.15  E-value: 6.41e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 922336451    8 PNLVTFNILINGHCKDGAIIKAREPL-EMLLENR-LKPDIFTFSCIIDGLCRLKRTEEAFECFNEMVEWGVNPNAIIYNI 85
Cdd:PLN03218  540 PDRVVFNALISACGQSGAVDRAFDVLaEMKAETHpIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTI 619

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 922336451   86 LIRSLCSIGETTRSVKLLRRMQEEGISPDIYSYNALIQIFCRMNKVEKAKKLFDSMSKSGFNPDNYTYSAFIAALSESGR 165
Cdd:PLN03218  620 AVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKN 699

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....
gi 922336451  166 LEEAKKMFYSIEANGCSPDSYVCNLVIKALVRHDRVEEAQKIVERCRQKGIALN 219
Cdd:PLN03218  700 WKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPN 753
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 7-192 7.12e-17

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 78.77  E-value: 7.12e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 922336451    7 TPNLVTfnILINGHCKDGAIIKAREPLEMLLENRLKPDIFTFSCIIDGLCRLKRTEEAFECFNEMVEWGVNPNAIIYNIL 86
Cdd:PLN03218  613 TPEVYT--IAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSL 690

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 922336451   87 IRSLCSIGETTRSVKLLRRMQEEGISPDIYSYNALIQIFCRMNKVEKAKKLFDSMSKSGFNPDNYTYSAFIAALSESGRL 166
Cdd:PLN03218  691 MGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDA 770

                         170       180
                  ....*....|....*....|....*.
gi 922336451  167 EEAKKMFYSIEANGCSPDSYVCNLVI 192
Cdd:PLN03218  771 DVGLDLLSQAKEDGIKPNLVMCRCIT 796
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 43-91 1.36e-16

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: 70.86  E-value: 1.36e-16
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 922336451   43 PDIFTFSCIIDGLCRLKRTEEAFECFNEMVEWGVNPNAIIYNILIRSLC 91
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLC 49
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 7-218 3.07e-16

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 77.22  E-value: 3.07e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 922336451    7 TPNLVTFNILINGHCKDGAIIKAREPLEMLLENRLKPDIFTFSCIIDGLCRLKRTEEAFECFNEMVEWGVNPNA------ 80
Cdd:PLN03218  434 NPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVhtfgal 513

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 922336451   81 -----------------------------IIYNILIRSLCSIGETTRSVKLLRRMQEEG--ISPDIYSYNALIQIFCRMN 129
Cdd:PLN03218  514 idgcaragqvakafgaygimrsknvkpdrVVFNALISACGQSGAVDRAFDVLAEMKAEThpIDPDHITVGALMKACANAG 593

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 922336451  130 KVEKAKKLFDSMSKSGFNPDNYTYSAFIAALSESGRLEEAKKMFYSIEANGCSPDSYVCNLVIKALVRHDRVEEAQKIVE 209
Cdd:PLN03218  594 QVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQ 673


                  ....*....
gi 922336451  210 RCRQKGIAL 218
Cdd:PLN03218  674 DARKQGIKL 682
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 8-222 9.05e-16

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 75.68  E-value: 9.05e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 922336451    8 PNLVTFNILINGHCKDGAIIKAREPLEMLLENRLK--PDIFTF---SCIIDGlcrlkRTEEAFECFNEMVEWGVNPNAII 82
Cdd:PLN03218  577 PDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKgtPEVYTIavnSCSQKG-----DWDFALSIYDDMKKKGVKPDEVF 651

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 922336451   83 YNILIRSLCSIGETTRSVKLLRRMQEEGISPDIYSYNALIQIFCRMNKVEKAKKLFDSMSKSGFNPDNYTYSAFIAALSE 162
Cdd:PLN03218  652 FSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCE 731

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 922336451  163 SGRLEEAKKMFYSIEANGCSPDSYVCNLVIKALVRHDRVEEAQKIVERCRQKGIALNCTL 222
Cdd:PLN03218  732 GNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVM 791
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 113-160 1.06e-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: 1.06e-14
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 922336451  113 PDIYSYNALIQIFCRMNKVEKAKKLFDSMSKSGFNPDNYTYSAFIAAL 160
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGL 48
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 1-206 1.88e-14

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 71.83  E-value: 1.88e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 922336451   1 MQLRGFTPNLVTFNILINGHCKDGAIIKAREPLEMLLENrlkpDIFTFSCIIDGLCRLKRTEEAFECFNEMVEWGVNPNA 80
Cdd:PLN03081 149 VESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPER----NLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEP 224

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 922336451  81 IIYNILIRSLCSIGETTRSVKLLRRMQEEGISPDIYSYNALIQIFCRMNKVEKAKKLFDSMsksgfnPDNYT--YSAFIA 158
Cdd:PLN03081 225 RTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGM------PEKTTvaWNSMLA 298

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*...
gi 922336451 159 ALSESGRLEEAKKMFYSIEANGCSPDSYVCNLVIKALVRHDRVEEAQK 206
Cdd:PLN03081 299 GYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQ 346
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 1-169 1.08e-13

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 69.52  E-value: 1.08e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 922336451    1 MQLRGFTPNLVTFNILINGHCKDGAIIKAREPLEMLLENRLKPDIFTFSCIIDGLCRLKRTEEAFECFNEMVEWG--VNP 78
Cdd:PLN03218  498 MVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAEThpIDP 577

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 922336451   79 NAIIYNILIRSLCSIGETTRSVKLLRRMQEEGI--SPDIYSynALIQIFCRMNKVEKAKKLFDSMSKSGFNPDNYTYSAF 156
Cdd:PLN03218  578 DHITVGALMKACANAGQVDRAKEVYQMIHEYNIkgTPEVYT--IAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSAL 655

                         170
                  ....*....|...
gi 922336451  157 IAALSESGRLEEA 169
Cdd:PLN03218  656 VDVAGHAGDLDKA 668
PLN03077 PLN03077
Protein ECB2; Provisional
 5-210 1.61e-11

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 62.94  E-value: 1.61e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 922336451   5 GFTPNLVTFNILINGHCKDGAIIKAREplemLLENRLKPDIFTFSCIIDGLCRLKRTEEAFECFNEMVeWGVNPNAIIYn 84
Cdd:PLN03077 419 GLISYVVVANALIEMYSKCKCIDKALE----VFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQML-LTLKPNSVTL- 492

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 922336451  85 ILIRSLCSIGETTRSVK-----LLRR-MQEEGISP-------------------------DIYSYNALIQIFCRMNKVEK 133
Cdd:PLN03077 493 IAALSACARIGALMCGKeihahVLRTgIGFDGFLPnalldlyvrcgrmnyawnqfnshekDVVSWNILLTGYVAHGKGSM 572

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 922336451 134 AKKLFDSMSKSGFNPDNYTYSAFIAALSESGRLEEAKKMFYSIEAN-GCSPD--SYVCnlVIKALVRHDRVEEAQKIVER 210
Cdd:PLN03077 573 AVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKySITPNlkHYAC--VVDLLGRAGKLTEAYNFINK 650
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 78-127 1.40e-10

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 54.68  E-value: 1.40e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 922336451   78 PNAIIYNILIRSLCSIGETTRSVKLLRRMQEEGISPDIYSYNALIQIFCR 127
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 1-128 2.05e-10

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 59.89  E-value: 2.05e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 922336451    1 MQLRGFTPNLVTFNILINGHCKDGAIIKAREPLEMLLENRLKPDIFTFSCIIDGLCRLKRTEEAFECFNEMVEWGVNPNA 80
Cdd:PLN03218  675 ARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNT 754

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*...
gi 922336451   81 IIYNILIRSLCSIGETTRSVKLLRRMQEEGISPDIYSYNALIQIFCRM 128
Cdd:PLN03218  755 ITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCLRR 802
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 11-210 2.37e-10

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 59.50  E-value: 2.37e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 922336451  11 VTFNILINGHCKDGAIIKAREPLEMLLENRLKPDIFTFSCIIDGLCRLKRTEEAFECFNEMVEWGVnPNAIIYNI-LIRS 89
Cdd:PLN03081 291 VAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGF-PLDIVANTaLVDL 369

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 922336451  90 LCSIG--ETTRSV--KLLRRmqeegispDIYSYNALIQIFCRMNKVEKAKKLFDSMSKSGFNPDNYTYSAFIAALSESGR 165
Cdd:PLN03081 370 YSKWGrmEDARNVfdRMPRK--------NLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGL 441

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*...
gi 922336451 166 LEEAKKMFYSI-EANGCSPDS--YVCnlVIKALVRHDRVEEAQKIVER 210
Cdd:PLN03081 442 SEQGWEIFQSMsENHRIKPRAmhYAC--MIELLGREGLLDEAYAMIRR 487
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 1-149 1.02e-09

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 57.96  E-value: 1.02e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 922336451    1 MQLRGFTPNLVTFNILIN--GHCKDgaIIKAREPLEMLLENRLKPDIFTFSCIIDGLCRLKRTEEAFECFNEMVEWGVNP 78
Cdd:PLN03218  640 MKKKGVKPDEVFFSALVDvaGHAGD--LDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRP 717

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 922336451   79 NAIIYNILIRSLCSIGETTRSVKLLRRMQEEGISPDIYSYNALIQIFCRMNKVEKAKKLFDSMSKSGFNPD 149
Cdd:PLN03218  718 TVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPN 788
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 64-176 1.71e-09

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: 55.48  E-value: 1.71e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 922336451   64 AFECFNEMVEWGVNPNAIIYNILIRsLCS-IGETTRSVKLLRRMQEEGISPDIYSYNALIQIFCRMNKVEKAKKLFDSMS 142
Cdd:pfam17177  74 GFEVFEAMKAQGVSPNEATYTAVAR-LAAaKGDGDLAFDLVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHML 152

                          90       100       110
                  ....*....|....*....|....*....|....
gi 922336451  143 KSGFNPDNYTYSAFIAALSESGRLEEakkmFYSI 176
Cdd:pfam17177 153 AHGVELEEPELAALLKVSAKAGRADK----VYAY 182
PLN03077 PLN03077
Protein ECB2; Provisional
 8-209 5.13e-09

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 55.63  E-value: 5.13e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 922336451   8 PNLVTFNILINGHCKDGAIIKAREPLEMLLENRLKPDIFTFSCIIDGLCRLKRTEEAFECFN----EMVEWgvnpnaiiy 83
Cdd:PLN03077 487 PNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNshekDVVSW--------- 557

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 922336451  84 NILIRSLCSIGETTRSVKLLRRMQEEGISPDIYSYNALIQIFCRMNKVEKAKKLFDSMS-KSGFNPDNYTYSAFIAALSE 162
Cdd:PLN03077 558 NILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEeKYSITPNLKHYACVVDLLGR 637

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|.
gi 922336451 163 SGRLEEAKKMfysIEANGCSPDSYVCNLVIKALVRHDRVE----EAQKIVE 209
Cdd:PLN03077 638 AGKLTEAYNF---INKMPITPDPAVWGALLNACRIHRHVElgelAAQHIFE 685
PLN03077 PLN03077
Protein ECB2; Provisional
 9-216 6.07e-09

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 55.63  E-value: 6.07e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 922336451   9 NLVTFNILINGHCKDGAIIKAREPLEMLLENRLKPDIFTFSCII---DGLCRLKRTEEAFEcfnEMVEWGVNPNAIIYNI 85
Cdd:PLN03077 151 DLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLrtcGGIPDLARGREVHA---HVVRFGFELDVDVVNA 227

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 922336451  86 LIRSLCSIGETTRSVKLLRRMQEEgispDIYSYNALIQIFCRMNKVEKAKKLFDSMSKSGFNPDNYTYSAFIAALSESGR 165
Cdd:PLN03077 228 LITMYVKCGDVVSARLVFDRMPRR----DCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGD 303

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|.
gi 922336451 166 LEEAKKMFYSIEANGCSPDSYVCNLVIKALVRHDRVEEAQKIVERCRQKGI 216
Cdd:PLN03077 304 ERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDA 354
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 41-72 1.57e-08

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: 48.88  E-value: 1.57e-08
                          10        20        30
                  ....*....|....*....|....*....|..
gi 922336451   41 LKPDIFTFSCIIDGLCRLKRTEEAFECFNEMV 72
Cdd:pfam12854   3 LKPDVVTYNTLINGLCRAGRVDEAFELLDEME 34
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 109-142 2.89e-08

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: 48.11  E-value: 2.89e-08
                          10        20        30
                  ....*....|....*....|....*....|....
gi 922336451  109 EGISPDIYSYNALIQIFCRMNKVEKAKKLFDSMS 142
Cdd:pfam12854   1 KGLKPDVVTYNTLINGLCRAGRVDEAFELLDEME 34
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 46-80 3.74e-08

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: 47.84  E-value: 3.74e-08
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 922336451   46 FTFSCIIDGLCRLKRTEEAFECFNEMVEWGVNPNA 80
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 116-149 1.34e-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: 46.29  E-value: 1.34e-07
                          10        20        30
                  ....*....|....*....|....*....|....
gi 922336451  116 YSYNALIQIFCRMNKVEKAKKLFDSMSKSGFNPD 149
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34
TPR COG0457
Tetratricopeptide (TPR) repeat [General function prediction only];
55-218 4.23e-07

Tetratricopeptide (TPR) repeat [General function prediction only];


Pssm-ID: 440225 [Multi-domain]  Cd Length: 245  Bit Score: 49.23  E-value: 4.23e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 922336451  55 LCRLKRTEEAFECFNEMVEwgVNPN-AIIYNILIRSLCSIGETTRSVKLLRRMQEegISP-DIYSYNALIQIFCRMNKVE 132
Cdd:COG0457   18 YRRLGRYEEAIEDYEKALE--LDPDdAEALYNLGLAYLRLGRYEEALADYEQALE--LDPdDAEALNNLGLALQALGRYE 93

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 922336451 133 KAKKLFDsmsKS-GFNPDNYTYSAFIA-ALSESGRLEEAKKMF-YSIEANGCSPDSYvCNLVIkALVRHDRVEEAQKIVE 209
Cdd:COG0457   94 EALEDYD---KAlELDPDDAEALYNLGlALLELGRYDEAIEAYeRALELDPDDADAL-YNLGI-ALEKLGRYEEALELLE 168


                 ....*....
gi 922336451 210 RCRQKGIAL 218
Cdd:COG0457  169 KLEAAALAA 177
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 4-221 7.05e-07

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 49.10  E-value: 7.05e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 922336451   4 RGFTPNLVTFNILINGHCKDGAIIKAREPLEMLlenrLKPDIFTFSCIIDGLCRLKRTEEAFECFNEMVEWGVNPNAIIY 83
Cdd:PLN03081 354 TGFPLDIVANTALVDLYSKWGRMEDARNVFDRM----PRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTF 429

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 922336451  84 nILIRSLCSI-GETTRSVKLLRRMQE-EGISPDIYSYNALIQIFCRMNKVEKAkklFDSMSKSGFNPDNYTYSAFIAALS 161
Cdd:PLN03081 430 -LAVLSACRYsGLSEQGWEIFQSMSEnHRIKPRAMHYACMIELLGREGLLDEA---YAMIRRAPFKPTVNMWAALLTACR 505

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 922336451 162 ESGRLEEAK---KMFYSIEANGCSpdSYVcnLVIKALVRHDRVEEAQKIVERCRQKGIALN--CT 221
Cdd:PLN03081 506 IHKNLELGRlaaEKLYGMGPEKLN--NYV--VLLNLYNSSGRQAEAAKVVETLKRKGLSMHpaCT 566
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 64-169 8.21e-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: 48.16  E-value: 8.21e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 922336451   64 AFECFNEMVEWGVNPNAIIYNILIrSLCSIGETT----------RSVKLLRRMQEEGISPDIYSYNALIQIFCRMNKVEK 133
Cdd:pfam17177  30 ALALYDAAKAEGVRLAQYHYNVLL-YLCSKAADAtdlkpqlaadRGFEVFEAMKAQGVSPNEATYTAVARLAAAKGDGDL 108

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 922336451  134 AKKLFDSMSKSGFNPDNYTYSAFIAALSESGRLEEA 169
Cdd:pfam17177 109 AFDLVKEMEAAGVSPRLRSYSPALHAYCEAGDADKA 144
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 101-159 9.66e-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: 44.66  E-value: 9.66e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 922336451  101 KLLRRMQEEGISPDIYSYNALIQIFCRMNKVEKAKKLFDSMSKSGFNPDNYTYSAFIAA 159
Cdd:pfam13812   1 SILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGV 59
PLN03077 PLN03077
Protein ECB2; Provisional
 9-185 2.34e-06

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 47.92  E-value: 2.34e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 922336451   9 NLVTFNILINGHCKDGAIIKAREPLEMLLENRLKPDIFTFSCIIDGLCRLKRTEEAFECFNEM-VEWGVNPNAIIYNILI 87
Cdd:PLN03077 553 DVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMeEKYSITPNLKHYACVV 632

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 922336451  88 RSLCSIGETTRSVKLLRRMQeegISPDIYSYNALIQIfCRMN-KVE----KAKKLFDsmsksgFNPDNYTYSAFIAAL-S 161
Cdd:PLN03077 633 DLLGRAGKLTEAYNFINKMP---ITPDPAVWGALLNA-CRIHrHVElgelAAQHIFE------LDPNSVGYYILLCNLyA 702

                        170       180
                 ....*....|....*....|....
gi 922336451 162 ESGRLEEAKKMFYSIEANGCSPDS 185
Cdd:PLN03077 703 DAGKWDEVARVRKTMRENGLTVDP 726
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 68-128 5.23e-06

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


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 42.73  E-value: 5.23e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 922336451   68 FNEMVEWGVNPNAIIYNILIRSLCSIGETTRSVKLLRRMQEEGISPDIYSYNALIQIFCRM 128
Cdd:pfam13812   3 LREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVIGGR 63
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 116-146 5.56e-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: 41.68  E-value: 5.56e-06
                          10        20        30
                  ....*....|....*....|....*....|.
gi 922336451  116 YSYNALIQIFCRMNKVEKAKKLFDSMSKSGF 146
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 148-197 5.71e-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: 42.35  E-value: 5.71e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 922336451  148 PDNYTYSAFIAALSESGRLEEAKKMFYSIEANGCSPDSYVCNLVIKALVR 197
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 46-76 7.29e-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: 41.68  E-value: 7.29e-06
                          10        20        30
                  ....*....|....*....|....*....|.
gi 922336451   46 FTFSCIIDGLCRLKRTEEAFECFNEMVEWGV 76
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 4-24 7.51e-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: 41.56  E-value: 7.51e-06
                          10        20
                  ....*....|....*....|.
gi 922336451    4 RGFTPNLVTFNILINGHCKDG 24
Cdd:pfam12854   1 KGLKPDVVTYNTLINGLCRAG 21
PLN03077 PLN03077
Protein ECB2; Provisional
 39-190 9.71e-06

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 46.00  E-value: 9.71e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 922336451  39 NRLKPDIFTFSCIIDGLCRLKRTEEAFECFNEMVEWGVNPNAIIYNILIRSLCSIGETTRSVKLLRRMQEE-GISPDIYS 117
Cdd:PLN03077 548 NSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKySITPNLKH 627

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 922336451 118 YNALIQIFCRMNKVEKAKKLFDSMSksgFNPDNYTYSAFIAALS-----ESGRLeeAKKMFYSIEANGCSPDSYVCNL 190
Cdd:PLN03077 628 YACVVDLLGRAGKLTEAYNFINKMP---ITPDPAVWGALLNACRihrhvELGEL--AAQHIFELDPNSVGYYILLCNL 700
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 74-106 1.11e-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: 1.11e-05
                          10        20        30
                  ....*....|....*....|....*....|...
gi 922336451   74 WGVNPNAIIYNILIRSLCSIGETTRSVKLLRRM 106
Cdd:pfam12854   1 KGLKPDVVTYNTLINGLCRAGRVDEAFELLDEM 33
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 81-115 1.50e-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: 40.90  E-value: 1.50e-05
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 922336451   81 IIYNILIRSLCSIGETTRSVKLLRRMQEEGISPDI 115
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 151-185 1.59e-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: 40.52  E-value: 1.59e-05
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 922336451  151 YTYSAFIAALSESGRLEEAKKMFYSIEANGCSPDS 185
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 52-194 9.41e-05

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 42.94  E-value: 9.41e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 922336451  52 IDGLCRLKRTEEAFECFnEMVEWG--VNPNAIIYNILIRSLCSIGETTRSVKLLRRMQEEGISPDIYSYNALIQIFCRMN 129
Cdd:PLN03081  94 IEKLVACGRHREALELF-EILEAGcpFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCG 172

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 922336451 130 KVEKAKKLFDSMsksgfnPDN--YTYSAFIAALSESGRLEEAKKMFYSIEANGCSPDSYVCNLVIKA 194
Cdd:PLN03081 173 MLIDARRLFDEM------PERnlASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRA 233
PLN03077 PLN03077
Protein ECB2; Provisional
 54-186 1.79e-04

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 42.14  E-value: 1.79e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 922336451  54 GLCRLKRTEEAFECFNEMVEWGVNPNAIIYNILIRsLCSigettrsvklLRRMQEEGISpdIYSY-------------NA 120
Cdd:PLN03077  60 ALCSHGQLEQALKLLESMQELRVPVDEDAYVALFR-LCE----------WKRAVEEGSR--VCSRalsshpslgvrlgNA 126

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 922336451 121 LIQIFCRMNKVEKAKKLFDSMSKSgfnpDNYTYSAFIAALSESGRLEEAKKMFYSIEANGCSPDSY 186
Cdd:PLN03077 127 MLSMFVRFGELVHAWYVFGKMPER----DLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVY 188
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 1-22 2.62e-04

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: 37.73  E-value: 2.62e-04
                          10        20
                  ....*....|....*....|..
gi 922336451    1 MQLRGFTPNLVTFNILINGHCK 22
Cdd:pfam13041  29 MKKRGVKPNVYTYTILINGLCK 50
PLN03077 PLN03077
Protein ECB2; Provisional
 4-179 3.85e-04

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 40.99  E-value: 3.85e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 922336451   4 RGFTPNLVTFNILINGHCKDGAIIKAreplEMLLENRLKPDIFTFSCIIDGLCRLKRTEEAFECFNEMVEWGVNPNAIIY 83
Cdd:PLN03077 317 TGFAVDVSVCNSLIQMYLSLGSWGEA----EKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITI 392

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 922336451  84 NILIRSLCSIGETTRSVKLLRRMQEEGISPDIYSYNALIQIFCRMNKVEKAKKLFDSMSksgfNPDNYTYSAFIAALSES 163
Cdd:PLN03077 393 ASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIP----EKDVISWTSIIAGLRLN 468

                        170       180
                 ....*....|....*....|
gi 922336451 164 GRLEEA----KKMFYSIEAN 179
Cdd:PLN03077 469 NRCFEAliffRQMLLTLKPN 488
PLN03077 PLN03077
Protein ECB2; Provisional
 7-204 9.88e-04

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 39.83  E-value: 9.88e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 922336451   7 TPNLVTFNILINGHCKDGAIIKAREPLEMLLENRLKPDIFTFSCIIDGLCRLKRTEEAFECFNEMVEWGVNPNAIIYNIL 86
Cdd:PLN03077 351 TKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANAL 430

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 922336451  87 IRSLCSIGETTRSVKLLRRMQEEgispDIYSYNALIQIFCRMNKVEKAKKLFDSMsKSGFNPDNYTYSAFIAALSESGRL 166
Cdd:PLN03077 431 IEMYSKCKCIDKALEVFHNIPEK----DVISWTSIIAGLRLNNRCFEALIFFRQM-LLTLKPNSVTLIAALSACARIGAL 505

                        170       180       190
                 ....*....|....*....|....*....|....*...
gi 922336451 167 EEAKKMFYSIEANGCSPDSYVCNLVIKALVRHDRVEEA 204
Cdd:PLN03077 506 MCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYA 543
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 81-111 1.60e-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: 1.60e-03
                          10        20        30
                  ....*....|....*....|....*....|.
gi 922336451   81 IIYNILIRSLCSIGETTRSVKLLRRMQEEGI 111
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 145-173 3.30e-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: 34.24  E-value: 3.30e-03
                          10        20
                  ....*....|....*....|....*....
gi 922336451  145 GFNPDNYTYSAFIAALSESGRLEEAKKMF 173
Cdd:pfam12854   2 GLKPDVVTYNTLINGLCRAGRVDEAFELL 30
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 136-196 3.96e-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: 34.64  E-value: 3.96e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 922336451  136 KLFDSMSKSGFNPDNYTYSAFIAALSESGRLEEAKKMFYSIEANGCSPDSYVCNLVIKALV 196
Cdd:pfam13812   1 SILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVIG 61
BepA COG4783
Outer membrane protein chaperone/metalloprotease BepA/YfgC, contains M48 and TPR domains [Cell ...
 88-214 4.57e-03

Outer membrane protein chaperone/metalloprotease BepA/YfgC, contains M48 and TPR domains [Cell wall/membrane/envelope biogenesis, Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 443813 [Multi-domain]  Cd Length: 139  Bit Score: 36.32  E-value: 4.57e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 922336451  88 RSLCSIGETTRSVKLLRRMQEEgiSPD-IYSYNALIQIFCRMNKVEKAKKLFD-SMSKsgfNPDNYTYSAFIA-ALSESG 164
Cdd:COG4783   12 QALLLAGDYDEAEALLEKALEL--DPDnPEAFALLGEILLQLGDLDEAIVLLHeALEL---DPDEPEARLNLGlALLKAG 86

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|.
gi 922336451 165 RLEEAKKMF-YSIEANGCSPDSYVcnLVIKALVRHDRVEEAQKIVERCRQK 214
Cdd:COG4783   87 DYDEALALLeKALKLDPEHPEAYL--RLARAYRALGRPDEAIAALEKALEL 135
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 151-181 5.28e-03

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


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 33.59  E-value: 5.28e-03
                          10        20        30
                  ....*....|....*....|....*....|.
gi 922336451  151 YTYSAFIAALSESGRLEEAKKMFYSIEANGC 181
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 114-204 5.54e-03

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 37.54  E-value: 5.54e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 922336451 114 DIYSYNALIQIFCRMNKVEKAKKLFDSMSKSGFNPDNYTYSAFIAALSESGRLEEAKKMFYSI-EANGCSpdsyvCNLVI 192
Cdd:PLN03081 122 PASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMpERNLAS-----WGTII 196

                         90
                 ....*....|..
gi 922336451 193 KALVRHDRVEEA 204
Cdd:PLN03081 197 GGLVDAGNYREA 208
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 41-87 5.83e-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: 34.26  E-value: 5.83e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 922336451   41 LKPDIFTFSCIIDGLCRLKRTEEAFECFNEMVEWGVNPNAIIYNILI 87
Cdd:pfam13812  11 IQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAIL 57
PilF COG3063
Type IV pilus assembly protein PilF/PilW [Cell motility, Extracellular structures];
127-214 6.20e-03

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


Pssm-ID: 442297 [Multi-domain]  Cd Length: 94  Bit Score: 35.15  E-value: 6.20e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 922336451 127 RMNKVEKAKKLFDSMSKsgFNPDN-YTYSAFIAALSESGRLEEAKKMFYSIEANGCSPDSYvCNLViKALVRHDRVEEAQ 205
Cdd:COG3063    4 KLGDLEEAEEYYEKALE--LDPDNaDALNNLGLLLLEQGRYDEAIALEKALKLDPNNAEAL-LNLA-ELLLELGDYDEAL 79


                 ....*....
gi 922336451 206 KIVERCRQK 214
Cdd:COG3063   80 AYLERALEL 88
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 1-52 8.57e-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: 33.87  E-value: 8.57e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 922336451    1 MQLRGFTPNLVTFNILINGHCKDGAIIKAREPLEMLLENRLKPDIFTFSCII 52
Cdd:pfam13812   6 MVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAIL 57
 
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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