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Conserved domains on  [gi|1811020201|ref|XP_032318439|]
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nuclear pore complex protein Nup153 isoform X3 [Camelus ferus]

Protein Classification

zinc finger Ran-binding domain-containing protein( domain architecture ID 13755470)

zinc finger Ran-binding domain-containing protein similar to Arabidopsis thaliana chloroplastic zinc finger protein VAR3, which is involved in C-to-U editing of chloroplastic RNA

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Nup153 pfam08604
Nucleoporin Nup153-like; This family contains both the nucleoporin Nup153 from human and ...
 114-612 0e+00

Nucleoporin Nup153-like; This family contains both the nucleoporin Nup153 from human and Nup154 from fission yeast. These have been demonstrated to be functionally equivalent.


:

Pssm-ID: 462533 [Multi-domain]  Cd Length: 507  Bit Score: 650.41  E-value: 0e+00
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020201  114 PSTTSTASNYPDVLTRPSLHRSHLNFSMLESPALHSQPSTSSAFPIGSSGFSLVKEIKDSTSQHDDDNISTTSGFSSRAS 193
Cdd:pfam08604    1 PSTSRSALNFQDVLTRPSLHRSHLNFTVLDSPALFCQPSTSTAFPIGSSGFSLVKEIKDSTSQHDDDNISTTSGFSSRAS 80

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020201  194 DKDIAVSKNTSVPPLWSPEAERSHSLSQHTATSSKKPAFNLSAFGALSPSLGNSSILKTSQLGDSPFYPGKTTYGGaAAA 273
Cdd:pfam08604   81 DKDIPVSKTVSLPLLWSPEAERSHSLSQHSASSSKKPAFNLSAFGTLSPSLGNSSVLNTSQLGDSPFYPGKTTYGG-AAA 159

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020201  274 VRQPKLRNTSYQAPVRRQMKAKQLNVQSYGVTSSTARRILQSLEKMSSPLADAKRIPSVFSSPLNS-------------- 339
Cdd:pfam08604  160 VRSSRVRGTPYQAPVRRQIKAKPANAQSYGVTSSTARRILQSLEKMSSPLADAKRIPSTVSSPLSSpldrsdlditnfqs 239

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020201  340 ----VDSQYPPVQRLMTPKPVSIATNRTVYFKPSLTPSGELRKTNQRIDKKHSTgYEKNVTPGKSRE-RESGLPYPNFSM 414
Cdd:pfam08604  240 krkkVDSQYPPVQKLVTPKAISVSGNRSVYFKPSLTPSGQSNKTSRRVDKDHRE-TEVRQSPEQAVEpSESSLSYPKFST 318

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020201  415 SAANGLSSGVGSGGGKMRRERTRFVASKP-QEEEEMEVPVLPKISLPITSSSLPTFSFSSSVITTSSPSSISPSQSLTNK 493
Cdd:pfam08604  319 PASNSLSSGGNGGGGKMRRERGRRPSSKPaEEDEVVEVPVLPKISLPISTASLPTFNFSSPTSSTSSSSPPSVTKSAENK 398

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020201  494 VQMTSPNSTGSPLFRFSSPIVKSTEADVLPP-SSIGFTFSVPVAKTAELSGSSGISEPStsssvsfiikqITAQDITTVN 572
Cdd:pfam08604  399 AQKQPPSTSGSPAFTFSSPIVKSTEASVPPPsPSIGFTFSVPVAKTAELSGSSGTSVVS-----------VVSTETTTVN 467

                          490       500       510       520
                   ....*....|....*....|....*....|....*....|
gi 1811020201  573 STSCKKKPDEDCEGPFTPAKTLKEGSVLDVLKSPGFTSPK 612
Cdd:pfam08604  468 STSNKKEEEEEFEGPFKPAKVLKQGSVLDILKSPGFASPK 507
Nup_retrotrp_bd pfam10599
Retro-transposon transporting motif; This is the highly conserved C-terminal motif ...
 1379-1465 1.04e-18

Retro-transposon transporting motif; This is the highly conserved C-terminal motif GRKIxxxxxRRKx of nucleoporins that plays a critical and unique role in the nuclear import of retro-transposons in both yeasts and higher organizms. It would appear that the arginine residues at positions 2 and 9-10 constitute a bipartite nuclear localization signal, with two basic peptide motifs separated by an interchangeable spacer sequence, that is crucial for the retro-transposon activity.


:

Pssm-ID: 371156  Cd Length: 86  Bit Score: 82.03  E-value: 1.04e-18
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020201 1379 PNSSSAFQFGSSTTSFNFTNNNPSGVFTFGANPSTPAASAQPSGSGGFPFNPSPAVFTVGSNGKNVFsssgtSVSGRKIK 1458
Cdd:pfam10599    5 PDPASVFGFGSSNTNFNFTNNNPSTPFGFGASPSTPQAANPPSAFTPPAFSQSPASFNVGSNGSNMF-----SVSGRKIA 79


                   ....*..
gi 1811020201 1459 TAVRRKK 1465
Cdd:pfam10599   80 QMRRRRR 86
zf-RanBP pfam00641
Zn-finger in Ran binding protein and others;
714-742 7.35e-10

Zn-finger in Ran binding protein and others;


:

Pssm-ID: 395516 [Multi-domain]  Cd Length: 30  Bit Score: 55.05  E-value: 7.35e-10
                           10        20
                   ....*....|....*....|....*....
gi 1811020201  714 AGTWDCDTCLVQNKPEAIKCVACETPKPG 742
Cdd:pfam00641    2 EGDWDCSKCLVQNFATSTKCVACQAPKPD 30
zf-RanBP pfam00641
Zn-finger in Ran binding protein and others;
842-871 3.80e-09

Zn-finger in Ran binding protein and others;


:

Pssm-ID: 395516 [Multi-domain]  Cd Length: 30  Bit Score: 53.12  E-value: 3.80e-09
                           10        20        30
                   ....*....|....*....|....*....|
gi 1811020201  842 PEGSWDCNVCLVENKADATKCVACESAKPG 871
Cdd:pfam00641    1 REGDWDCSKCLVQNFATSTKCVACQAPKPD 30
zf-RanBP pfam00641
Zn-finger in Ran binding protein and others;
786-813 8.97e-09

Zn-finger in Ran binding protein and others;


:

Pssm-ID: 395516 [Multi-domain]  Cd Length: 30  Bit Score: 51.97  E-value: 8.97e-09
                           10        20
                   ....*....|....*....|....*...
gi 1811020201  786 GSWECPVCCVSNNAEDNKCVSCMSEKPG 813
Cdd:pfam00641    3 GDWDCSKCLVQNFATSTKCVACQAPKPD 30
zf-RanBP pfam00641
Zn-finger in Ran binding protein and others;
652-678 1.30e-06

Zn-finger in Ran binding protein and others;


:

Pssm-ID: 395516 [Multi-domain]  Cd Length: 30  Bit Score: 46.19  E-value: 1.30e-06
                           10        20
                   ....*....|....*....|....*..
gi 1811020201  652 SWQCDTCLLQNKVTDDKCVACQATKLP 678
Cdd:pfam00641    4 DWDCSKCLVQNFATSTKCVACQAPKPD 30
PPE super family cl35037
PPE-repeat protein [Function unknown];
1251-1454 2.41e-06

PPE-repeat protein [Function unknown];


The actual alignment was detected with superfamily member COG5651:

Pssm-ID: 444372 [Multi-domain]  Cd Length: 385  Bit Score: 51.43  E-value: 2.41e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020201 1251 ATTSSSGTAVTPF------IFGPGASSN--NTATSGFNFGATTTSSSAGSSFVFGTGPSAPSASPAF---GANQTPTFGQ 1319
Cdd:COG5651    155 AAASAAAVALTPFtqppptITNPGGLLGaqNAGSGNTSSNPGFANLGLTGLNQVGIGGLNSGSGPIGlnsGPGNTGFAGT 234

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020201 1320 SQGASQPNLpGFGSMSSSAALFSAGSQPAPPTFGTVSSSSQPPVFGQQPGQSAFGSGTAPNSSSAFQFGSSTTSFNFTNN 1399
Cdd:COG5651    235 GAAAGAAAA-AAAAAAAAGAGASAALASLAATLLNASSLGLAATAASSAATNLGLAGSPLGLAGGGAGAAAATGLGLGAG 313

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 1811020201 1400 NPSGVFTFGANPSTPAASAQPSGSGGFPFNPSPAVFTVGSNGKNVFSSSGTSVSG 1454
Cdd:COG5651    314 GAAGAAGATGAGAALGAGAAAAAAGAAAGAGAAAAAAAGGAGGGGGGALGAGGGG 368
 
Name Accession Description Interval E-value
Nup153 pfam08604
Nucleoporin Nup153-like; This family contains both the nucleoporin Nup153 from human and ...
 114-612 0e+00

Nucleoporin Nup153-like; This family contains both the nucleoporin Nup153 from human and Nup154 from fission yeast. These have been demonstrated to be functionally equivalent.


Pssm-ID: 462533 [Multi-domain]  Cd Length: 507  Bit Score: 650.41  E-value: 0e+00
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020201  114 PSTTSTASNYPDVLTRPSLHRSHLNFSMLESPALHSQPSTSSAFPIGSSGFSLVKEIKDSTSQHDDDNISTTSGFSSRAS 193
Cdd:pfam08604    1 PSTSRSALNFQDVLTRPSLHRSHLNFTVLDSPALFCQPSTSTAFPIGSSGFSLVKEIKDSTSQHDDDNISTTSGFSSRAS 80

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020201  194 DKDIAVSKNTSVPPLWSPEAERSHSLSQHTATSSKKPAFNLSAFGALSPSLGNSSILKTSQLGDSPFYPGKTTYGGaAAA 273
Cdd:pfam08604   81 DKDIPVSKTVSLPLLWSPEAERSHSLSQHSASSSKKPAFNLSAFGTLSPSLGNSSVLNTSQLGDSPFYPGKTTYGG-AAA 159

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020201  274 VRQPKLRNTSYQAPVRRQMKAKQLNVQSYGVTSSTARRILQSLEKMSSPLADAKRIPSVFSSPLNS-------------- 339
Cdd:pfam08604  160 VRSSRVRGTPYQAPVRRQIKAKPANAQSYGVTSSTARRILQSLEKMSSPLADAKRIPSTVSSPLSSpldrsdlditnfqs 239

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020201  340 ----VDSQYPPVQRLMTPKPVSIATNRTVYFKPSLTPSGELRKTNQRIDKKHSTgYEKNVTPGKSRE-RESGLPYPNFSM 414
Cdd:pfam08604  240 krkkVDSQYPPVQKLVTPKAISVSGNRSVYFKPSLTPSGQSNKTSRRVDKDHRE-TEVRQSPEQAVEpSESSLSYPKFST 318

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020201  415 SAANGLSSGVGSGGGKMRRERTRFVASKP-QEEEEMEVPVLPKISLPITSSSLPTFSFSSSVITTSSPSSISPSQSLTNK 493
Cdd:pfam08604  319 PASNSLSSGGNGGGGKMRRERGRRPSSKPaEEDEVVEVPVLPKISLPISTASLPTFNFSSPTSSTSSSSPPSVTKSAENK 398

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020201  494 VQMTSPNSTGSPLFRFSSPIVKSTEADVLPP-SSIGFTFSVPVAKTAELSGSSGISEPStsssvsfiikqITAQDITTVN 572
Cdd:pfam08604  399 AQKQPPSTSGSPAFTFSSPIVKSTEASVPPPsPSIGFTFSVPVAKTAELSGSSGTSVVS-----------VVSTETTTVN 467

                          490       500       510       520
                   ....*....|....*....|....*....|....*....|
gi 1811020201  573 STSCKKKPDEDCEGPFTPAKTLKEGSVLDVLKSPGFTSPK 612
Cdd:pfam08604  468 STSNKKEEEEEFEGPFKPAKVLKQGSVLDILKSPGFASPK 507
Nup_retrotrp_bd pfam10599
Retro-transposon transporting motif; This is the highly conserved C-terminal motif ...
 1379-1465 1.04e-18

Retro-transposon transporting motif; This is the highly conserved C-terminal motif GRKIxxxxxRRKx of nucleoporins that plays a critical and unique role in the nuclear import of retro-transposons in both yeasts and higher organizms. It would appear that the arginine residues at positions 2 and 9-10 constitute a bipartite nuclear localization signal, with two basic peptide motifs separated by an interchangeable spacer sequence, that is crucial for the retro-transposon activity.


Pssm-ID: 371156  Cd Length: 86  Bit Score: 82.03  E-value: 1.04e-18
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020201 1379 PNSSSAFQFGSSTTSFNFTNNNPSGVFTFGANPSTPAASAQPSGSGGFPFNPSPAVFTVGSNGKNVFsssgtSVSGRKIK 1458
Cdd:pfam10599    5 PDPASVFGFGSSNTNFNFTNNNPSTPFGFGASPSTPQAANPPSAFTPPAFSQSPASFNVGSNGSNMF-----SVSGRKIA 79


                   ....*..
gi 1811020201 1459 TAVRRKK 1465
Cdd:pfam10599   80 QMRRRRR 86
zf-RanBP pfam00641
Zn-finger in Ran binding protein and others;
714-742 7.35e-10

Zn-finger in Ran binding protein and others;


Pssm-ID: 395516 [Multi-domain]  Cd Length: 30  Bit Score: 55.05  E-value: 7.35e-10
                           10        20
                   ....*....|....*....|....*....
gi 1811020201  714 AGTWDCDTCLVQNKPEAIKCVACETPKPG 742
Cdd:pfam00641    2 EGDWDCSKCLVQNFATSTKCVACQAPKPD 30
zf-RanBP pfam00641
Zn-finger in Ran binding protein and others;
842-871 3.80e-09

Zn-finger in Ran binding protein and others;


Pssm-ID: 395516 [Multi-domain]  Cd Length: 30  Bit Score: 53.12  E-value: 3.80e-09
                           10        20        30
                   ....*....|....*....|....*....|
gi 1811020201  842 PEGSWDCNVCLVENKADATKCVACESAKPG 871
Cdd:pfam00641    1 REGDWDCSKCLVQNFATSTKCVACQAPKPD 30
zf-RanBP pfam00641
Zn-finger in Ran binding protein and others;
786-813 8.97e-09

Zn-finger in Ran binding protein and others;


Pssm-ID: 395516 [Multi-domain]  Cd Length: 30  Bit Score: 51.97  E-value: 8.97e-09
                           10        20
                   ....*....|....*....|....*...
gi 1811020201  786 GSWECPVCCVSNNAEDNKCVSCMSEKPG 813
Cdd:pfam00641    3 GDWDCSKCLVQNFATSTKCVACQAPKPD 30
zf-RanBP pfam00641
Zn-finger in Ran binding protein and others;
652-678 1.30e-06

Zn-finger in Ran binding protein and others;


Pssm-ID: 395516 [Multi-domain]  Cd Length: 30  Bit Score: 46.19  E-value: 1.30e-06
                           10        20
                   ....*....|....*....|....*..
gi 1811020201  652 SWQCDTCLLQNKVTDDKCVACQATKLP 678
Cdd:pfam00641    4 DWDCSKCLVQNFATSTKCVACQAPKPD 30
PPE COG5651
PPE-repeat protein [Function unknown];
1251-1454 2.41e-06

PPE-repeat protein [Function unknown];


Pssm-ID: 444372 [Multi-domain]  Cd Length: 385  Bit Score: 51.43  E-value: 2.41e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020201 1251 ATTSSSGTAVTPF------IFGPGASSN--NTATSGFNFGATTTSSSAGSSFVFGTGPSAPSASPAF---GANQTPTFGQ 1319
Cdd:COG5651    155 AAASAAAVALTPFtqppptITNPGGLLGaqNAGSGNTSSNPGFANLGLTGLNQVGIGGLNSGSGPIGlnsGPGNTGFAGT 234

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020201 1320 SQGASQPNLpGFGSMSSSAALFSAGSQPAPPTFGTVSSSSQPPVFGQQPGQSAFGSGTAPNSSSAFQFGSSTTSFNFTNN 1399
Cdd:COG5651    235 GAAAGAAAA-AAAAAAAAGAGASAALASLAATLLNASSLGLAATAASSAATNLGLAGSPLGLAGGGAGAAAATGLGLGAG 313

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 1811020201 1400 NPSGVFTFGANPSTPAASAQPSGSGGFPFNPSPAVFTVGSNGKNVFSSSGTSVSG 1454
Cdd:COG5651    314 GAAGAAGATGAGAALGAGAAAAAAGAAAGAGAAAAAAAGGAGGGGGGALGAGGGG 368
ZnF_RBZ smart00547
Zinc finger domain; Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. ...
 715-739 4.34e-06

Zinc finger domain; Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP.


Pssm-ID: 197784 [Multi-domain]  Cd Length: 25  Bit Score: 44.62  E-value: 4.34e-06
                            10        20
                    ....*....|....*....|....*
gi 1811020201   715 GTWDCDTCLVQNKPEAIKCVACETP 739
Cdd:smart00547    1 GDWECPACTFLNFASRSKCFACGAP 25
ZnF_RBZ smart00547
Zinc finger domain; Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. ...
 844-866 1.49e-05

Zinc finger domain; Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP.


Pssm-ID: 197784 [Multi-domain]  Cd Length: 25  Bit Score: 43.08  E-value: 1.49e-05
                            10        20
                    ....*....|....*....|...
gi 1811020201   844 GSWDCNVCLVENKADATKCVACE 866
Cdd:smart00547    1 GDWECPACTFLNFASRSKCFACG 23
ser_rich_anae_1 NF033849
serine-rich protein; This serine-rich protein belongs to a family with large size (over 1000 ...
 1203-1398 9.32e-05

serine-rich protein; This serine-rich protein belongs to a family with large size (over 1000 amino acids), which a highly serine-rich central region that averages over 300 aa in length. Species encoding members of this family of proteins tend to be anaerobic bacteria, including Gram-positive bacteria of the human gut microbiome and Chloroflexi from marine sediments.


Pssm-ID: 468206 [Multi-domain]  Cd Length: 1122  Bit Score: 47.31  E-value: 9.32e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020201 1203 GSSTSTSSapvhAFVFGQASNPVSSSAFGNSAESSTSQSLLFSQ-ESKPATTSSSGTAVTPFIFGPGASSNNTATSGFNf 1281
Cdd:NF033849   316 GTSTTDSS----SHSQSSSYNVSSGTGVSSSHSDGTSQSTSISHsESSSESTGTSVGHSTSSSVSSSESSSRSSSSGVS- 390

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020201 1282 gatttsssagsSFVFGTGPSAPSASPAFGANQ-------TPTFGQSQGASQPNLPGFGSMSSSAALFSAGSqpappTFGT 1354
Cdd:NF033849   391 -----------GGFSGGIAGGGVTSEGLGASQggsegwgSGDSVQSVSQSYGSSSSTGTSSGHSDSSSHST-----SSGQ 454

                          170       180       190       200
                   ....*....|....*....|....*....|....*....|....
gi 1811020201 1355 VSSSSQPPVFGQQPGQSAfGSGTApNSSSAFQFGSSTTSFNFTN 1398
Cdd:NF033849   455 ADSVSQGTSWSEGTGTSQ-GQSVG-TSESWSTSQSETDSVGDST 496
ZnF_RBZ smart00547
Zinc finger domain; Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. ...
 786-807 3.75e-04

Zinc finger domain; Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP.


Pssm-ID: 197784 [Multi-domain]  Cd Length: 25  Bit Score: 38.84  E-value: 3.75e-04
                            10        20
                    ....*....|....*....|..
gi 1811020201   786 GSWECPVCCVSNNAEDNKCVSC 807
Cdd:smart00547    1 GDWECPACTFLNFASRSKCFAC 22
ZnF_RBZ smart00547
Zinc finger domain; Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. ...
 651-674 4.70e-04

Zinc finger domain; Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP.


Pssm-ID: 197784 [Multi-domain]  Cd Length: 25  Bit Score: 38.84  E-value: 4.70e-04
                            10        20
                    ....*....|....*....|....
gi 1811020201   651 SSWQCDTCLLQNKVTDDKCVACQA 674
Cdd:smart00547    1 GDWECPACTFLNFASRSKCFACGA 24
KREPA2 cd23959
Kinetoplastid RNA Editing Protein A2 (KREPA2); The KREPA2 (TbMP63) protein is a component of ...
 1202-1420 8.34e-03

Kinetoplastid RNA Editing Protein A2 (KREPA2); The KREPA2 (TbMP63) protein is a component of the parasitic protozoan's KREPA RNA editing catalytic complex (RECC). Kinetoplastid RNA editing (KRE) proteins occur as pairs or sets of related proteins in multiple complexes. KREPA complex is composed of six components (KREPA1-6), which share a conserved C-terminal region containing an oligonucleotide-binding (OB)-fold-like domain. KREPAs are responsible for the site-specific insertion and deletion of U nucleotides in the kinetoplastid mitochondria pre-messenger RNA. Apart from the conserved C-terminal OB-fold domain, KREPA1, KREPA2, and KREPA3 contain two conserved C2H2 zinc-finger domains. KREPA2 and kinetoplastid RNA editing ligase 1 (KREL1) are specific for ligation post-U-deletion and are paralogous to KREL2 and KREPA1 that are specific for ligation post-U-insertion. KREPA2, is critical for RECC stability and KREL1 integration into the complex.


Pssm-ID: 467780 [Multi-domain]  Cd Length: 424  Bit Score: 40.24  E-value: 8.34e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020201 1202 FGSSTSTSSAPVHAFVFGQASNPVSSSAFGNSAESSTSQ-------SLLFSQESKPATTSSSGTavtpfiFGPGASSNNT 1274
Cdd:cd23959     46 FAARPSDQEEPLYGAVSPEGENPFDGPGLVTASTVSDCYvgnanfyEVDMSDAFAMAPDESLGP------FRAARVPNPF 119

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020201 1275 ATSGFNFGATTTSSSAGSSFVfgtgpsAPSASPAFGANQTPTFGQSQGASQPNLPgfgSMSSSAALFSAGSQPAPPTFGT 1354
Cdd:cd23959    120 SASSSTQRETHKTAQVAPPKA------EPQTAPVTPFGQLPMFGQHPPPAKPLPA---AAAAQQSSASPGEVASPFASGT 190

                          170       180       190       200       210       220
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1811020201 1355 VSSSSQPPvfgqqPGQSAFGSGTAPNSSSAFQFGSSTTSfnftnnnPSGVFTFGANPSTPAASAQP 1420
Cdd:cd23959    191 VSASPFAT-----ATDTAPSSGAPDGFPAEASAPSPFAA-------PASAASFPAAPVANGEAATP 244
 
Name Accession Description Interval E-value
Nup153 pfam08604
Nucleoporin Nup153-like; This family contains both the nucleoporin Nup153 from human and ...
 114-612 0e+00

Nucleoporin Nup153-like; This family contains both the nucleoporin Nup153 from human and Nup154 from fission yeast. These have been demonstrated to be functionally equivalent.


Pssm-ID: 462533 [Multi-domain]  Cd Length: 507  Bit Score: 650.41  E-value: 0e+00
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020201  114 PSTTSTASNYPDVLTRPSLHRSHLNFSMLESPALHSQPSTSSAFPIGSSGFSLVKEIKDSTSQHDDDNISTTSGFSSRAS 193
Cdd:pfam08604    1 PSTSRSALNFQDVLTRPSLHRSHLNFTVLDSPALFCQPSTSTAFPIGSSGFSLVKEIKDSTSQHDDDNISTTSGFSSRAS 80

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020201  194 DKDIAVSKNTSVPPLWSPEAERSHSLSQHTATSSKKPAFNLSAFGALSPSLGNSSILKTSQLGDSPFYPGKTTYGGaAAA 273
Cdd:pfam08604   81 DKDIPVSKTVSLPLLWSPEAERSHSLSQHSASSSKKPAFNLSAFGTLSPSLGNSSVLNTSQLGDSPFYPGKTTYGG-AAA 159

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020201  274 VRQPKLRNTSYQAPVRRQMKAKQLNVQSYGVTSSTARRILQSLEKMSSPLADAKRIPSVFSSPLNS-------------- 339
Cdd:pfam08604  160 VRSSRVRGTPYQAPVRRQIKAKPANAQSYGVTSSTARRILQSLEKMSSPLADAKRIPSTVSSPLSSpldrsdlditnfqs 239

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020201  340 ----VDSQYPPVQRLMTPKPVSIATNRTVYFKPSLTPSGELRKTNQRIDKKHSTgYEKNVTPGKSRE-RESGLPYPNFSM 414
Cdd:pfam08604  240 krkkVDSQYPPVQKLVTPKAISVSGNRSVYFKPSLTPSGQSNKTSRRVDKDHRE-TEVRQSPEQAVEpSESSLSYPKFST 318

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020201  415 SAANGLSSGVGSGGGKMRRERTRFVASKP-QEEEEMEVPVLPKISLPITSSSLPTFSFSSSVITTSSPSSISPSQSLTNK 493
Cdd:pfam08604  319 PASNSLSSGGNGGGGKMRRERGRRPSSKPaEEDEVVEVPVLPKISLPISTASLPTFNFSSPTSSTSSSSPPSVTKSAENK 398

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020201  494 VQMTSPNSTGSPLFRFSSPIVKSTEADVLPP-SSIGFTFSVPVAKTAELSGSSGISEPStsssvsfiikqITAQDITTVN 572
Cdd:pfam08604  399 AQKQPPSTSGSPAFTFSSPIVKSTEASVPPPsPSIGFTFSVPVAKTAELSGSSGTSVVS-----------VVSTETTTVN 467

                          490       500       510       520
                   ....*....|....*....|....*....|....*....|
gi 1811020201  573 STSCKKKPDEDCEGPFTPAKTLKEGSVLDVLKSPGFTSPK 612
Cdd:pfam08604  468 STSNKKEEEEEFEGPFKPAKVLKQGSVLDILKSPGFASPK 507
Nup_retrotrp_bd pfam10599
Retro-transposon transporting motif; This is the highly conserved C-terminal motif ...
 1379-1465 1.04e-18

Retro-transposon transporting motif; This is the highly conserved C-terminal motif GRKIxxxxxRRKx of nucleoporins that plays a critical and unique role in the nuclear import of retro-transposons in both yeasts and higher organizms. It would appear that the arginine residues at positions 2 and 9-10 constitute a bipartite nuclear localization signal, with two basic peptide motifs separated by an interchangeable spacer sequence, that is crucial for the retro-transposon activity.


Pssm-ID: 371156  Cd Length: 86  Bit Score: 82.03  E-value: 1.04e-18
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020201 1379 PNSSSAFQFGSSTTSFNFTNNNPSGVFTFGANPSTPAASAQPSGSGGFPFNPSPAVFTVGSNGKNVFsssgtSVSGRKIK 1458
Cdd:pfam10599    5 PDPASVFGFGSSNTNFNFTNNNPSTPFGFGASPSTPQAANPPSAFTPPAFSQSPASFNVGSNGSNMF-----SVSGRKIA 79


                   ....*..
gi 1811020201 1459 TAVRRKK 1465
Cdd:pfam10599   80 QMRRRRR 86
zf-RanBP pfam00641
Zn-finger in Ran binding protein and others;
714-742 7.35e-10

Zn-finger in Ran binding protein and others;


Pssm-ID: 395516 [Multi-domain]  Cd Length: 30  Bit Score: 55.05  E-value: 7.35e-10
                           10        20
                   ....*....|....*....|....*....
gi 1811020201  714 AGTWDCDTCLVQNKPEAIKCVACETPKPG 742
Cdd:pfam00641    2 EGDWDCSKCLVQNFATSTKCVACQAPKPD 30
zf-RanBP pfam00641
Zn-finger in Ran binding protein and others;
842-871 3.80e-09

Zn-finger in Ran binding protein and others;


Pssm-ID: 395516 [Multi-domain]  Cd Length: 30  Bit Score: 53.12  E-value: 3.80e-09
                           10        20        30
                   ....*....|....*....|....*....|
gi 1811020201  842 PEGSWDCNVCLVENKADATKCVACESAKPG 871
Cdd:pfam00641    1 REGDWDCSKCLVQNFATSTKCVACQAPKPD 30
zf-RanBP pfam00641
Zn-finger in Ran binding protein and others;
786-813 8.97e-09

Zn-finger in Ran binding protein and others;


Pssm-ID: 395516 [Multi-domain]  Cd Length: 30  Bit Score: 51.97  E-value: 8.97e-09
                           10        20
                   ....*....|....*....|....*...
gi 1811020201  786 GSWECPVCCVSNNAEDNKCVSCMSEKPG 813
Cdd:pfam00641    3 GDWDCSKCLVQNFATSTKCVACQAPKPD 30
zf-RanBP pfam00641
Zn-finger in Ran binding protein and others;
652-678 1.30e-06

Zn-finger in Ran binding protein and others;


Pssm-ID: 395516 [Multi-domain]  Cd Length: 30  Bit Score: 46.19  E-value: 1.30e-06
                           10        20
                   ....*....|....*....|....*..
gi 1811020201  652 SWQCDTCLLQNKVTDDKCVACQATKLP 678
Cdd:pfam00641    4 DWDCSKCLVQNFATSTKCVACQAPKPD 30
PPE COG5651
PPE-repeat protein [Function unknown];
1251-1454 2.41e-06

PPE-repeat protein [Function unknown];


Pssm-ID: 444372 [Multi-domain]  Cd Length: 385  Bit Score: 51.43  E-value: 2.41e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020201 1251 ATTSSSGTAVTPF------IFGPGASSN--NTATSGFNFGATTTSSSAGSSFVFGTGPSAPSASPAF---GANQTPTFGQ 1319
Cdd:COG5651    155 AAASAAAVALTPFtqppptITNPGGLLGaqNAGSGNTSSNPGFANLGLTGLNQVGIGGLNSGSGPIGlnsGPGNTGFAGT 234

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020201 1320 SQGASQPNLpGFGSMSSSAALFSAGSQPAPPTFGTVSSSSQPPVFGQQPGQSAFGSGTAPNSSSAFQFGSSTTSFNFTNN 1399
Cdd:COG5651    235 GAAAGAAAA-AAAAAAAAGAGASAALASLAATLLNASSLGLAATAASSAATNLGLAGSPLGLAGGGAGAAAATGLGLGAG 313

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 1811020201 1400 NPSGVFTFGANPSTPAASAQPSGSGGFPFNPSPAVFTVGSNGKNVFSSSGTSVSG 1454
Cdd:COG5651    314 GAAGAAGATGAGAALGAGAAAAAAGAAAGAGAAAAAAAGGAGGGGGGALGAGGGG 368
ZnF_RBZ smart00547
Zinc finger domain; Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. ...
 715-739 4.34e-06

Zinc finger domain; Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP.


Pssm-ID: 197784 [Multi-domain]  Cd Length: 25  Bit Score: 44.62  E-value: 4.34e-06
                            10        20
                    ....*....|....*....|....*
gi 1811020201   715 GTWDCDTCLVQNKPEAIKCVACETP 739
Cdd:smart00547    1 GDWECPACTFLNFASRSKCFACGAP 25
ZnF_RBZ smart00547
Zinc finger domain; Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. ...
 844-866 1.49e-05

Zinc finger domain; Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP.


Pssm-ID: 197784 [Multi-domain]  Cd Length: 25  Bit Score: 43.08  E-value: 1.49e-05
                            10        20
                    ....*....|....*....|...
gi 1811020201   844 GSWDCNVCLVENKADATKCVACE 866
Cdd:smart00547    1 GDWECPACTFLNFASRSKCFACG 23
ser_rich_anae_1 NF033849
serine-rich protein; This serine-rich protein belongs to a family with large size (over 1000 ...
 1203-1398 9.32e-05

serine-rich protein; This serine-rich protein belongs to a family with large size (over 1000 amino acids), which a highly serine-rich central region that averages over 300 aa in length. Species encoding members of this family of proteins tend to be anaerobic bacteria, including Gram-positive bacteria of the human gut microbiome and Chloroflexi from marine sediments.


Pssm-ID: 468206 [Multi-domain]  Cd Length: 1122  Bit Score: 47.31  E-value: 9.32e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020201 1203 GSSTSTSSapvhAFVFGQASNPVSSSAFGNSAESSTSQSLLFSQ-ESKPATTSSSGTAVTPFIFGPGASSNNTATSGFNf 1281
Cdd:NF033849   316 GTSTTDSS----SHSQSSSYNVSSGTGVSSSHSDGTSQSTSISHsESSSESTGTSVGHSTSSSVSSSESSSRSSSSGVS- 390

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020201 1282 gatttsssagsSFVFGTGPSAPSASPAFGANQ-------TPTFGQSQGASQPNLPGFGSMSSSAALFSAGSqpappTFGT 1354
Cdd:NF033849   391 -----------GGFSGGIAGGGVTSEGLGASQggsegwgSGDSVQSVSQSYGSSSSTGTSSGHSDSSSHST-----SSGQ 454

                          170       180       190       200
                   ....*....|....*....|....*....|....*....|....
gi 1811020201 1355 VSSSSQPPVFGQQPGQSAfGSGTApNSSSAFQFGSSTTSFNFTN 1398
Cdd:NF033849   455 ADSVSQGTSWSEGTGTSQ-GQSVG-TSESWSTSQSETDSVGDST 496
PPE COG5651
PPE-repeat protein [Function unknown];
1155-1359 1.01e-04

PPE-repeat protein [Function unknown];


Pssm-ID: 444372 [Multi-domain]  Cd Length: 385  Bit Score: 46.42  E-value: 1.01e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020201 1155 QPAKPSFAFGAQTSTTADQ------------GPAKPVFSFLNNNSSNSSTPATSASGGLFGSSTSTSSAPVHAFVFGQAS 1222
Cdd:COG5651    173 TITNPGGLLGAQNAGSGNTssnpgfanlgltGLNQVGIGGLNSGSGPIGLNSGPGNTGFAGTGAAAGAAAAAAAAAAAAG 252

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020201 1223 NPVSSSAFGNSAESSTSQSLLFSQESKPATTSSSGTAVTPFIFGPGASSNNTATSGFNFGATTTSSSAgssfvFGTGPSA 1302
Cdd:COG5651    253 AGASAALASLAATLLNASSLGLAATAASSAATNLGLAGSPLGLAGGGAGAAAATGLGLGAGGAAGAAG-----ATGAGAA 327

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 1811020201 1303 PSASPAFGANQTPTFGQSQGASQPNLPGFGSMSSSAALFSAGSQPAPPTFGTVSSSS 1359
Cdd:COG5651    328 LGAGAAAAAAGAAAGAGAAAAAAAGGAGGGGGGALGAGGGGGSAGAAAGAASGGGAA 384
ZnF_RBZ smart00547
Zinc finger domain; Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. ...
 786-807 3.75e-04

Zinc finger domain; Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP.


Pssm-ID: 197784 [Multi-domain]  Cd Length: 25  Bit Score: 38.84  E-value: 3.75e-04
                            10        20
                    ....*....|....*....|..
gi 1811020201   786 GSWECPVCCVSNNAEDNKCVSC 807
Cdd:smart00547    1 GDWECPACTFLNFASRSKCFAC 22
ZnF_RBZ smart00547
Zinc finger domain; Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. ...
 651-674 4.70e-04

Zinc finger domain; Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP.


Pssm-ID: 197784 [Multi-domain]  Cd Length: 25  Bit Score: 38.84  E-value: 4.70e-04
                            10        20
                    ....*....|....*....|....
gi 1811020201   651 SSWQCDTCLLQNKVTDDKCVACQA 674
Cdd:smart00547    1 GDWECPACTFLNFASRSKCFACGA 24
Chi1 COG3469
Chitinase [Carbohydrate transport and metabolism];
1192-1406 7.43e-04

Chitinase [Carbohydrate transport and metabolism];


Pssm-ID: 442692 [Multi-domain]  Cd Length: 534  Bit Score: 43.97  E-value: 7.43e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020201 1192 TPATSASGGLFGSSTSTSSAPVHAFVFGQASNPVSSSAFGNSAESSTsqsllfsqeskpATTSSSGTAVTPFIFGPGASS 1271
Cdd:COG3469     18 TAVTLLGAAATAASVTLTAATATTVVSTTGSVVVAASGSAGSGTGTT------------AASSTAATSSTTSTTATATAA 85

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020201 1272 NNTATSGFNFGATTTSSSAGSSFVFGTGPSAPSASPAFGANQTPTFGQSQGASQPNLPGFGSM---SSSAALFSAGSQPA 1348
Cdd:COG3469     86 AAAATSTSATLVATSTASGANTGTSTVTTTSTGAGSVTSTTSSTAGSTTTSGASATSSAGSTTtttTVSGTETATGGTTT 165

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|....*...
gi 1811020201 1349 PPTFGTVSSSSQPPVFGQQPGQSAFGSGTAPNSSSafqfgSSTTSFNFTNNNPSGVFT 1406
Cdd:COG3469    166 TSTTTTTTSASTTPSATTTATATTASGATTPSATT-----TATTTGPPTPGLPKHVLV 218
KREPA2 cd23959
Kinetoplastid RNA Editing Protein A2 (KREPA2); The KREPA2 (TbMP63) protein is a component of ...
 1202-1420 8.34e-03

Kinetoplastid RNA Editing Protein A2 (KREPA2); The KREPA2 (TbMP63) protein is a component of the parasitic protozoan's KREPA RNA editing catalytic complex (RECC). Kinetoplastid RNA editing (KRE) proteins occur as pairs or sets of related proteins in multiple complexes. KREPA complex is composed of six components (KREPA1-6), which share a conserved C-terminal region containing an oligonucleotide-binding (OB)-fold-like domain. KREPAs are responsible for the site-specific insertion and deletion of U nucleotides in the kinetoplastid mitochondria pre-messenger RNA. Apart from the conserved C-terminal OB-fold domain, KREPA1, KREPA2, and KREPA3 contain two conserved C2H2 zinc-finger domains. KREPA2 and kinetoplastid RNA editing ligase 1 (KREL1) are specific for ligation post-U-deletion and are paralogous to KREL2 and KREPA1 that are specific for ligation post-U-insertion. KREPA2, is critical for RECC stability and KREL1 integration into the complex.


Pssm-ID: 467780 [Multi-domain]  Cd Length: 424  Bit Score: 40.24  E-value: 8.34e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020201 1202 FGSSTSTSSAPVHAFVFGQASNPVSSSAFGNSAESSTSQ-------SLLFSQESKPATTSSSGTavtpfiFGPGASSNNT 1274
Cdd:cd23959     46 FAARPSDQEEPLYGAVSPEGENPFDGPGLVTASTVSDCYvgnanfyEVDMSDAFAMAPDESLGP------FRAARVPNPF 119

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020201 1275 ATSGFNFGATTTSSSAGSSFVfgtgpsAPSASPAFGANQTPTFGQSQGASQPNLPgfgSMSSSAALFSAGSQPAPPTFGT 1354
Cdd:cd23959    120 SASSSTQRETHKTAQVAPPKA------EPQTAPVTPFGQLPMFGQHPPPAKPLPA---AAAAQQSSASPGEVASPFASGT 190

                          170       180       190       200       210       220
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1811020201 1355 VSSSSQPPvfgqqPGQSAFGSGTAPNSSSAFQFGSSTTSfnftnnnPSGVFTFGANPSTPAASAQP 1420
Cdd:cd23959    191 VSASPFAT-----ATDTAPSSGAPDGFPAEASAPSPFAA-------PASAASFPAAPVANGEAATP 244
 
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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