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Conserved domains on  [gi|3043668|dbj|BAA25498|]
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KIAA0572 protein, partial [Homo sapiens]

Protein Classification

SAC3_GANP and MCM3AP_GANP domain-containing protein( domain architecture ID 11752719)

protein containing domains RRM_MCM3A_like, SAC3_GANP, CID_GANP, and MCM3AP_GANP

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
MCM3AP_GANP pfam16769
MCM3AP domain of GANP; MCM3AP_GANP is the C-terminal domain of germinal centre-associated ...
1154-1868 0e+00

MCM3AP domain of GANP; MCM3AP_GANP is the C-terminal domain of germinal centre-associated proteins, GANPs in higher eukaryotes. GANP forms part of the TREX-2 complex which in higher eukaryotes requires the MCM3AP domain of GANP to facilitate its localization to the Nuclear pore complex and nuclear envelope. TREX-2 complex links transcription with nuclear messenger RNA export.


:

Pssm-ID: 465265  Cd Length: 717  Bit Score: 1345.85  E-value: 0e+00
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3043668    1154 AFPAAPCCVDVSDRLRALAPSAECPIAEENLARGLLDLGHAGRLGISCTRLRRLRNKTAHQMKVQHFYQQLLSDVAWASL 1233
Cdd:pfam16769    1 AFPAAPCCVDPRDKLKALAPSAECPIAKENLARGVVNLGHAGKLGVSCTRLRRLRNKTIHQMKVQYFYQQLLSDAAWTPL 80
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3043668    1234 DLPSLVAEHLPGRQEHVFWKLVLVLPDVEEQSPESCGRILANWLKVKFMGDEGSVDDTSSDAGGIQTLSLFNSLSSKGDQ 1313
Cdd:pfam16769   81 DLPSLVAEHLPGQQERIFWKLVLVLPDNEEQHPGDPNRILADWLKVKFMGDEGSEKDTSVQEGKIQTLALFNSLRTKGDR 160
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3043668    1314 MISVNVCIKVAHGALSDGAIDAVETQKDLLGASGLMLLLPPKMKSEDMAEEDVYWLSALLQLKQLLQAKPFQPALPLVVL 1393
Cdd:pfam16769  161 TISVNVCIKVAHGPLSDSALDATETQKDLLGTSGLILLLPPRVKSEDVAEEDVYWLSALLQLKQLLQAKPFQPALPLVVL 240
                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3043668    1394 VPSPGGDAVEKEVEDGLMLQDLVSAKLISDYTVTEIPDTINDLQGSTKVLQAVQWLVSHCPHSLDLCCQTLIQYVEDGIG 1473
Cdd:pfam16769  241 VPSQGEEAVEKEVEEGLMLQDLVSAKLISDYTVVEIPGSVNDLQGTEKVSQAVKWLVSHCPSSLDLCCQTLVQYVEDGLS 320
                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3043668    1474 HEFSGRFFHDRRERRLGGLASQEPGAIIELFNSVLQFLASVVSSEQLCDLSWPVTEFAEAGGSRLLPHLHWNAPEHLAWL 1553
Cdd:pfam16769  321 REFSDRFFHDRKERRLAGLPSQEPGAIIELYNSVLQFLADVVSSEQLCDLSWPVTEFAEPGGSKLLPHLQWNTPQHLAWL 400
                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3043668    1554 KQAVLGFQLPQMDLPPLGAPWLPVCSMVVQYASQIPSSRQTQPVLQSQVENLLHRTYCRWKSKSPSPVHGAGPSVMEIPW 1633
Cdd:pfam16769  401 KKAVLSFQLPQMDLPPLGAPWSPVCSMIFQYVSQIPSSRQTQPLLQSQVENLLSRTYRKWKDKELSASGEAGPSVSEIPW 480
                          490       500       510       520       530       540       550       560
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3043668    1634 DDLIALCINHKLRDWTPPRLPVTSEALSEDGQICVYFFKNDLKKYDVPLSWEQARLQTQKELQ-LREGRLAIKPFHPSAN 1712
Cdd:pfam16769  481 DDILALCINHKLRDWKPPRLPVTSEALSEDGQICVYFFKEHLKKFDPPSSWEQARLQTQKEIQeQSQGRSGIKSAHPSAK 560
                          570       580       590       600       610       620       630       640
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3043668    1713 NFPIPLLHMHRNWKRSTECAQEGRIPSTEDLMRGASAEELLAQCLSSSLLLEKEENKRFEDQLQQWLSEDSGAFTDLTSL 1792
Cdd:pfam16769  561 SFPQSLFHSRQKGARSPEAGKEGRLPSAEDLTHTASAEELLPQRLSSSLQLEKEESKRFEEQLQQWLSEDSEALLDSTSL 640
                          650       660       670       680       690       700       710
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 3043668    1793 PLYLPQTLVSLSHTIEPVMKTSVTTSPQSDMMREQLQ-LSEATGTCLGERLKHLERLIRSSREEEVASELHLSALLD 1868
Cdd:pfam16769  641 PLYLPQTLVSTPQAIEPTLSVSSASSEQSKRSQEQLQeSSEETPVSLSERLKHLERLIRASREEELACELHLSALLD 717
SAC3_GANP pfam03399
SAC3/GANP family; This family includes diverse proteins involved in large complexes. The ...
532-821 1.33e-149

SAC3/GANP family; This family includes diverse proteins involved in large complexes. The alignment contains one highly conserved negatively charged residue and one highly conserved positively charged residue that are probably important for the function of these proteins. The family includes the yeast nuclear export factor Sac3, and mammalian GANP/MCM3-associated proteins, which facilitate the nuclear localization of MCM3, a protein that associates with chromatin in the G1 phase of the cell-cycle.


:

Pssm-ID: 460911  Cd Length: 287  Bit Score: 461.99  E-value: 1.33e-149
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3043668     532 MCPEKERYMRETRSQLSVFEVV-PGTDQVDHAAAVKEYSRSSADQEEPLPHELRPLPVLSRTMDYLVTQIMDQKEGSLRD 610
Cdd:pfam03399    1 MCPEFERVRREVQNDLHRFEKEdPDTGKADPSKAVKEYSRSAAGQEEPLPSDLRPPPVLLKTLDYLLDEILDREDEPLPE 80
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3043668     611 WYDFVWNRTRGIRKDITQQHLCDPLTVSLIEKCTRFHIHCAHFMCEEPMSsFDAKINNENMTKCLQSLKEMYQDLRNKGV 690
Cdd:pfam03399   81 VHDFIWDRTRSIRQDFTIQNLSGPEAVDCLERIVRFHILSLHRLCEEPVE-FDPQQNLEQLQKCLQSLLEIYDDLRGKGI 159
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3043668     691 FCASEAEFQGYNVLLSLNKGDILREVQQFHPAVRNSSEVKFAVQAFAALNSNNFVRFFKLVQSASYLNACLLHCYFSQIR 770
Cdd:pfam03399  160 PCPNEAEFRAYYLLLNLGDPDILREVQQLPSEIRKSPEVQFALKLRRALQNNNYVRFFRLVRQVSYLMACLLERHFNEVR 239
                          250       260       270       280       290
                   ....*....|....*....|....*....|....*....|....*....|.
gi 3043668     771 KDALRALNFAYtvsTQRSTIFPLDGVVRMLLFRDCEEATDFLTCHGLTVSD 821
Cdd:pfam03399  240 RYALKALNRAY---SSKNKPFPLSDLARLLGFDDEEEAIEFCEAYGLEVSD 287
NupH_GANP super family cl25600
Nucleoporin homology of Germinal-centre associated nuclear protein; NupH_GANP is the ...
1-183 8.32e-110

Nucleoporin homology of Germinal-centre associated nuclear protein; NupH_GANP is the nucleoporin-homology domain at the N-terminus of human GANP or germinal-centre associated nuclear proteins. GANP is part of the TREX-2 complex that links transcription with nuclear messenger RNA export, and it associates with the mRNP particle through the interaction of the NupH_GANP with NXF1, the export factor. This attachment mediates efficient delivery of mRNPs to nuclear pore complexes.


The actual alignment was detected with superfamily member pfam16768:

Pssm-ID: 435572 [Multi-domain]  Cd Length: 292  Bit Score: 351.52  E-value: 8.32e-110
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3043668       1 GFSFKSPTSVGAFPSTSAFGQEAGEIVNSGFGKTEFSFKPLENAVFKPILGAESEPEKTQSQIASGFFTFSHPISSAPGG 80
Cdd:pfam16768  109 GFSFKSPTNLGAFPSTSTFGPESGEVASSGFGKTEFSFKPPENAVFRPIFGAESEPEKTQSQITSGFFTFSHPVSSGPGG 188
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3043668      81 LAPFSFPQVTSSSATTSNFTFSKPVSSNNSLSAFTPALSNQNVEEEKRGPKSIFGSSNNSFSSFPV-SSAVLGEPFQASK 159
Cdd:pfam16768  189 LAPFSFSQVTSSSATSSNFTFSKPVSSNNSSSAFAPALSSQNVEEEKRGPKSFFGSSNSSFTSFPNsSSGSLGEPFSVSK 268
                          170       180
                   ....*....|....*....|....
gi 3043668     160 AGVRQGCEEAVSQVEPLPSLMKGL 183
Cdd:pfam16768  269 TGVRQGCEEAVSQVEPLPSLMKGL 292
RRM_MCM3A_like cd12443
RNA recognition motif (RRM) found in 80 kDa MCM3-associated protein (Map80) and similar ...
327-398 2.97e-37

RNA recognition motif (RRM) found in 80 kDa MCM3-associated protein (Map80) and similar proteins; This subfamily corresponds to the RRM of Map80, also termed germinal center-associated nuclear protein (GANP), involved in the nuclear localization pathway of MCM3, a protein necessary for the initiation of DNA replication and also involves in controls that ensure DNA replication is initiated once per cell cycle. Map80 contains one RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain).


:

Pssm-ID: 409877 [Multi-domain]  Cd Length: 75  Bit Score: 134.75  E-value: 2.97e-37
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 3043668   327 TAIQCKNIPDYLNDRTILENHFGKIAKVQRIFTRRSKKLAVVHFFDHASAALARKKGKSL---HKDMAIFWHRKK 398
Cdd:cd12443    1 TAIVCKNIPEELNDKEILRRHFSKFGKVARVFCNPRKNLAIVHFKDHESAALAKKKGKLLskgGKPIEIFWSSKK 75
CID_GANP pfam16766
Binding region of GANP to ENY2; CID is a domain on higher eukaryotic germinal-cent associated ...
1056-1126 3.88e-35

Binding region of GANP to ENY2; CID is a domain on higher eukaryotic germinal-cent associated nuclear protein, or GANP, that binds to the transcription and mRNA export factor ENY2. The complex of these two proteins forms part of the TREX-2 complex that links transcription with nuclear messenger RNA export.


:

Pssm-ID: 465264 [Multi-domain]  Cd Length: 71  Bit Score: 128.67  E-value: 3.88e-35
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 3043668    1056 VLSELSQGLAVELMERVMMEFVRETCSQELKNAVETDQRVRVARCCEDVCAHLVDLFLVEEIFQTAKETLQ 1126
Cdd:pfam16766    1 FLAQLSQALCAELTEEVLAECVRETASAELKCAVETEQAARVARCSEDVCASLVDEFLEEEIFQTAKETLQ 71
 
Name Accession Description Interval E-value
MCM3AP_GANP pfam16769
MCM3AP domain of GANP; MCM3AP_GANP is the C-terminal domain of germinal centre-associated ...
1154-1868 0e+00

MCM3AP domain of GANP; MCM3AP_GANP is the C-terminal domain of germinal centre-associated proteins, GANPs in higher eukaryotes. GANP forms part of the TREX-2 complex which in higher eukaryotes requires the MCM3AP domain of GANP to facilitate its localization to the Nuclear pore complex and nuclear envelope. TREX-2 complex links transcription with nuclear messenger RNA export.


Pssm-ID: 465265  Cd Length: 717  Bit Score: 1345.85  E-value: 0e+00
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3043668    1154 AFPAAPCCVDVSDRLRALAPSAECPIAEENLARGLLDLGHAGRLGISCTRLRRLRNKTAHQMKVQHFYQQLLSDVAWASL 1233
Cdd:pfam16769    1 AFPAAPCCVDPRDKLKALAPSAECPIAKENLARGVVNLGHAGKLGVSCTRLRRLRNKTIHQMKVQYFYQQLLSDAAWTPL 80
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3043668    1234 DLPSLVAEHLPGRQEHVFWKLVLVLPDVEEQSPESCGRILANWLKVKFMGDEGSVDDTSSDAGGIQTLSLFNSLSSKGDQ 1313
Cdd:pfam16769   81 DLPSLVAEHLPGQQERIFWKLVLVLPDNEEQHPGDPNRILADWLKVKFMGDEGSEKDTSVQEGKIQTLALFNSLRTKGDR 160
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3043668    1314 MISVNVCIKVAHGALSDGAIDAVETQKDLLGASGLMLLLPPKMKSEDMAEEDVYWLSALLQLKQLLQAKPFQPALPLVVL 1393
Cdd:pfam16769  161 TISVNVCIKVAHGPLSDSALDATETQKDLLGTSGLILLLPPRVKSEDVAEEDVYWLSALLQLKQLLQAKPFQPALPLVVL 240
                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3043668    1394 VPSPGGDAVEKEVEDGLMLQDLVSAKLISDYTVTEIPDTINDLQGSTKVLQAVQWLVSHCPHSLDLCCQTLIQYVEDGIG 1473
Cdd:pfam16769  241 VPSQGEEAVEKEVEEGLMLQDLVSAKLISDYTVVEIPGSVNDLQGTEKVSQAVKWLVSHCPSSLDLCCQTLVQYVEDGLS 320
                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3043668    1474 HEFSGRFFHDRRERRLGGLASQEPGAIIELFNSVLQFLASVVSSEQLCDLSWPVTEFAEAGGSRLLPHLHWNAPEHLAWL 1553
Cdd:pfam16769  321 REFSDRFFHDRKERRLAGLPSQEPGAIIELYNSVLQFLADVVSSEQLCDLSWPVTEFAEPGGSKLLPHLQWNTPQHLAWL 400
                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3043668    1554 KQAVLGFQLPQMDLPPLGAPWLPVCSMVVQYASQIPSSRQTQPVLQSQVENLLHRTYCRWKSKSPSPVHGAGPSVMEIPW 1633
Cdd:pfam16769  401 KKAVLSFQLPQMDLPPLGAPWSPVCSMIFQYVSQIPSSRQTQPLLQSQVENLLSRTYRKWKDKELSASGEAGPSVSEIPW 480
                          490       500       510       520       530       540       550       560
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3043668    1634 DDLIALCINHKLRDWTPPRLPVTSEALSEDGQICVYFFKNDLKKYDVPLSWEQARLQTQKELQ-LREGRLAIKPFHPSAN 1712
Cdd:pfam16769  481 DDILALCINHKLRDWKPPRLPVTSEALSEDGQICVYFFKEHLKKFDPPSSWEQARLQTQKEIQeQSQGRSGIKSAHPSAK 560
                          570       580       590       600       610       620       630       640
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3043668    1713 NFPIPLLHMHRNWKRSTECAQEGRIPSTEDLMRGASAEELLAQCLSSSLLLEKEENKRFEDQLQQWLSEDSGAFTDLTSL 1792
Cdd:pfam16769  561 SFPQSLFHSRQKGARSPEAGKEGRLPSAEDLTHTASAEELLPQRLSSSLQLEKEESKRFEEQLQQWLSEDSEALLDSTSL 640
                          650       660       670       680       690       700       710
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 3043668    1793 PLYLPQTLVSLSHTIEPVMKTSVTTSPQSDMMREQLQ-LSEATGTCLGERLKHLERLIRSSREEEVASELHLSALLD 1868
Cdd:pfam16769  641 PLYLPQTLVSTPQAIEPTLSVSSASSEQSKRSQEQLQeSSEETPVSLSERLKHLERLIRASREEELACELHLSALLD 717
SAC3_GANP pfam03399
SAC3/GANP family; This family includes diverse proteins involved in large complexes. The ...
532-821 1.33e-149

SAC3/GANP family; This family includes diverse proteins involved in large complexes. The alignment contains one highly conserved negatively charged residue and one highly conserved positively charged residue that are probably important for the function of these proteins. The family includes the yeast nuclear export factor Sac3, and mammalian GANP/MCM3-associated proteins, which facilitate the nuclear localization of MCM3, a protein that associates with chromatin in the G1 phase of the cell-cycle.


Pssm-ID: 460911  Cd Length: 287  Bit Score: 461.99  E-value: 1.33e-149
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3043668     532 MCPEKERYMRETRSQLSVFEVV-PGTDQVDHAAAVKEYSRSSADQEEPLPHELRPLPVLSRTMDYLVTQIMDQKEGSLRD 610
Cdd:pfam03399    1 MCPEFERVRREVQNDLHRFEKEdPDTGKADPSKAVKEYSRSAAGQEEPLPSDLRPPPVLLKTLDYLLDEILDREDEPLPE 80
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3043668     611 WYDFVWNRTRGIRKDITQQHLCDPLTVSLIEKCTRFHIHCAHFMCEEPMSsFDAKINNENMTKCLQSLKEMYQDLRNKGV 690
Cdd:pfam03399   81 VHDFIWDRTRSIRQDFTIQNLSGPEAVDCLERIVRFHILSLHRLCEEPVE-FDPQQNLEQLQKCLQSLLEIYDDLRGKGI 159
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3043668     691 FCASEAEFQGYNVLLSLNKGDILREVQQFHPAVRNSSEVKFAVQAFAALNSNNFVRFFKLVQSASYLNACLLHCYFSQIR 770
Cdd:pfam03399  160 PCPNEAEFRAYYLLLNLGDPDILREVQQLPSEIRKSPEVQFALKLRRALQNNNYVRFFRLVRQVSYLMACLLERHFNEVR 239
                          250       260       270       280       290
                   ....*....|....*....|....*....|....*....|....*....|.
gi 3043668     771 KDALRALNFAYtvsTQRSTIFPLDGVVRMLLFRDCEEATDFLTCHGLTVSD 821
Cdd:pfam03399  240 RYALKALNRAY---SSKNKPFPLSDLARLLGFDDEEEAIEFCEAYGLEVSD 287
NupH_GANP pfam16768
Nucleoporin homology of Germinal-centre associated nuclear protein; NupH_GANP is the ...
1-183 8.32e-110

Nucleoporin homology of Germinal-centre associated nuclear protein; NupH_GANP is the nucleoporin-homology domain at the N-terminus of human GANP or germinal-centre associated nuclear proteins. GANP is part of the TREX-2 complex that links transcription with nuclear messenger RNA export, and it associates with the mRNP particle through the interaction of the NupH_GANP with NXF1, the export factor. This attachment mediates efficient delivery of mRNPs to nuclear pore complexes.


Pssm-ID: 435572 [Multi-domain]  Cd Length: 292  Bit Score: 351.52  E-value: 8.32e-110
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3043668       1 GFSFKSPTSVGAFPSTSAFGQEAGEIVNSGFGKTEFSFKPLENAVFKPILGAESEPEKTQSQIASGFFTFSHPISSAPGG 80
Cdd:pfam16768  109 GFSFKSPTNLGAFPSTSTFGPESGEVASSGFGKTEFSFKPPENAVFRPIFGAESEPEKTQSQITSGFFTFSHPVSSGPGG 188
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3043668      81 LAPFSFPQVTSSSATTSNFTFSKPVSSNNSLSAFTPALSNQNVEEEKRGPKSIFGSSNNSFSSFPV-SSAVLGEPFQASK 159
Cdd:pfam16768  189 LAPFSFSQVTSSSATSSNFTFSKPVSSNNSSSAFAPALSSQNVEEEKRGPKSFFGSSNSSFTSFPNsSSGSLGEPFSVSK 268
                          170       180
                   ....*....|....*....|....
gi 3043668     160 AGVRQGCEEAVSQVEPLPSLMKGL 183
Cdd:pfam16768  269 TGVRQGCEEAVSQVEPLPSLMKGL 292
SAC3 COG5079
Nuclear protein export factor [Intracellular trafficking and secretion / Cell division and ...
497-892 6.15e-57

Nuclear protein export factor [Intracellular trafficking and secretion / Cell division and chromosome partitioning];


Pssm-ID: 227411 [Multi-domain]  Cd Length: 646  Bit Score: 210.55  E-value: 6.15e-57
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3043668   497 EKYRLLDQRDRIMRQARvkrtDLDKARTFVGTCLDMCPEKERYMRETRSQLSVFEVVPGTDQVDHAAAVKEYSRSSADQE 576
Cdd:COG5079   49 KKLRAKERELLEAKSAN----ALPSAIVFVGTCMDMCPEFEREERVLQNDVSPYEANPNVKKASRTLAVKAYHRPAAGKH 124
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3043668   577 EPLPHELRPLPVLSRTMDYLVTQIMDQkegSLRDWYDFVWNRTRGIRKDITQQHLCDPLTVSLIEKCTRFHIHCAHFMCE 656
Cdd:COG5079  125 PELPSDVRPPEVLVKTIDYLVKLCAGD---QLIEMHRFVRDRTRAVRQDFTIQNEKGKDAVECHERIARFHILFLHLLHD 201
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3043668   657 EPmsSFDAKINNENMTKCLQSLKEMYQDLRNKGVFCASEAEFQGYNVLLSLNKGDILREVQQFHPAVRNSSEVKFAVQaF 736
Cdd:COG5079  202 HP--HFSKQQELEQLKKSLASLIELYDDGRAGKKECPNEAEFRAYAILASLGDPRYVAGIQGWPGGIFCDLPVQIALK-L 278
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3043668   737 AALNSNNF----------------VRFFKLVQSAS--YLNACLLHCYFSQIRKDALRALNFAYTVSTQRstiFPLDGVVR 798
Cdd:COG5079  279 MQLAQSNNfrllgrrnteacfnlyTRFFKLIQSPSvqYLMGCLLEKHNISIRGGALKAMEKEIESAHKN---IPFVDLSG 355
                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3043668   799 MLLFRDCEEATDFLTCHGLTVSDG-----CVELNRSAFLEPEGLSKTRKSVFITRKLTVSVGEIVNGGPLPPVPRhtpVC 873
Cdd:COG5079  356 ILDFEEKGEGEEFCKYYGLEIRIEdsvklPIVFMLSACIDYKKPTAILCTLLESRLQARRFADGINGGQDEDRDR---IA 432
                        410
                 ....*....|....*....
gi 3043668   874 SFNSQNKYIGESLAAELPV 892
Cdd:COG5079  433 GNTDFSKKMCIALYNKEPV 451
RRM_MCM3A_like cd12443
RNA recognition motif (RRM) found in 80 kDa MCM3-associated protein (Map80) and similar ...
327-398 2.97e-37

RNA recognition motif (RRM) found in 80 kDa MCM3-associated protein (Map80) and similar proteins; This subfamily corresponds to the RRM of Map80, also termed germinal center-associated nuclear protein (GANP), involved in the nuclear localization pathway of MCM3, a protein necessary for the initiation of DNA replication and also involves in controls that ensure DNA replication is initiated once per cell cycle. Map80 contains one RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain).


Pssm-ID: 409877 [Multi-domain]  Cd Length: 75  Bit Score: 134.75  E-value: 2.97e-37
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 3043668   327 TAIQCKNIPDYLNDRTILENHFGKIAKVQRIFTRRSKKLAVVHFFDHASAALARKKGKSL---HKDMAIFWHRKK 398
Cdd:cd12443    1 TAIVCKNIPEELNDKEILRRHFSKFGKVARVFCNPRKNLAIVHFKDHESAALAKKKGKLLskgGKPIEIFWSSKK 75
CID_GANP pfam16766
Binding region of GANP to ENY2; CID is a domain on higher eukaryotic germinal-cent associated ...
1056-1126 3.88e-35

Binding region of GANP to ENY2; CID is a domain on higher eukaryotic germinal-cent associated nuclear protein, or GANP, that binds to the transcription and mRNA export factor ENY2. The complex of these two proteins forms part of the TREX-2 complex that links transcription with nuclear messenger RNA export.


Pssm-ID: 465264 [Multi-domain]  Cd Length: 71  Bit Score: 128.67  E-value: 3.88e-35
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 3043668    1056 VLSELSQGLAVELMERVMMEFVRETCSQELKNAVETDQRVRVARCCEDVCAHLVDLFLVEEIFQTAKETLQ 1126
Cdd:pfam16766    1 FLAQLSQALCAELTEEVLAECVRETASAELKCAVETEQAARVARCSEDVCASLVDEFLEEEIFQTAKETLQ 71
RRM_1 pfam00076
RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); The RRM motif is probably diagnostic ...
331-382 7.76e-03

RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); The RRM motif is probably diagnostic of an RNA binding protein. RRMs are found in a variety of RNA binding proteins, including various hnRNP proteins, proteins implicated in regulation of alternative splicing, and protein components of snRNPs. The motif also appears in a few single stranded DNA binding proteins. The RRM structure consists of four strands and two helices arranged in an alpha/beta sandwich, with a third helix present during RNA binding in some cases The C-terminal beta strand (4th strand) and final helix are hard to align and have been omitted in the SEED alignment The LA proteins have an N terminal rrm which is included in the seed. There is a second region towards the C terminus that has some features characteriztic of a rrm but does not appear to have the important structural core of a rrm. The LA proteins are one of the main autoantigens in Systemic lupus erythematosus (SLE), an autoimmune disease.


Pssm-ID: 425453 [Multi-domain]  Cd Length: 70  Bit Score: 36.83  E-value: 7.76e-03
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 3043668     331 CKNIPDYLNDRTILEnHFGKIAKVQRI-----FTRRSKKLAVVHFFDHASAALARKK 382
Cdd:pfam00076    3 VGNLPPDTTEEDLKD-LFSKFGPIKSIrlvrdETGRSKGFAFVEFEDEEDAEKAIEA 58
RRM smart00360
RNA recognition motif;
332-382 7.87e-03

RNA recognition motif;


Pssm-ID: 214636 [Multi-domain]  Cd Length: 73  Bit Score: 36.80  E-value: 7.87e-03
                            10        20        30        40        50
                    ....*....|....*....|....*....|....*....|....*....|....*..
gi 3043668      332 KNIPDYLNDRTiLENHFGKIAKVQRIF------TRRSKKLAVVHFFDHASAALARKK 382
Cdd:smart00360    5 GNLPPDTTEEE-LRELFSKFGKVESVRlvrdkeTGKSKGFAFVEFESEEDAEKALEA 60
 
Name Accession Description Interval E-value
MCM3AP_GANP pfam16769
MCM3AP domain of GANP; MCM3AP_GANP is the C-terminal domain of germinal centre-associated ...
1154-1868 0e+00

MCM3AP domain of GANP; MCM3AP_GANP is the C-terminal domain of germinal centre-associated proteins, GANPs in higher eukaryotes. GANP forms part of the TREX-2 complex which in higher eukaryotes requires the MCM3AP domain of GANP to facilitate its localization to the Nuclear pore complex and nuclear envelope. TREX-2 complex links transcription with nuclear messenger RNA export.


Pssm-ID: 465265  Cd Length: 717  Bit Score: 1345.85  E-value: 0e+00
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3043668    1154 AFPAAPCCVDVSDRLRALAPSAECPIAEENLARGLLDLGHAGRLGISCTRLRRLRNKTAHQMKVQHFYQQLLSDVAWASL 1233
Cdd:pfam16769    1 AFPAAPCCVDPRDKLKALAPSAECPIAKENLARGVVNLGHAGKLGVSCTRLRRLRNKTIHQMKVQYFYQQLLSDAAWTPL 80
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3043668    1234 DLPSLVAEHLPGRQEHVFWKLVLVLPDVEEQSPESCGRILANWLKVKFMGDEGSVDDTSSDAGGIQTLSLFNSLSSKGDQ 1313
Cdd:pfam16769   81 DLPSLVAEHLPGQQERIFWKLVLVLPDNEEQHPGDPNRILADWLKVKFMGDEGSEKDTSVQEGKIQTLALFNSLRTKGDR 160
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3043668    1314 MISVNVCIKVAHGALSDGAIDAVETQKDLLGASGLMLLLPPKMKSEDMAEEDVYWLSALLQLKQLLQAKPFQPALPLVVL 1393
Cdd:pfam16769  161 TISVNVCIKVAHGPLSDSALDATETQKDLLGTSGLILLLPPRVKSEDVAEEDVYWLSALLQLKQLLQAKPFQPALPLVVL 240
                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3043668    1394 VPSPGGDAVEKEVEDGLMLQDLVSAKLISDYTVTEIPDTINDLQGSTKVLQAVQWLVSHCPHSLDLCCQTLIQYVEDGIG 1473
Cdd:pfam16769  241 VPSQGEEAVEKEVEEGLMLQDLVSAKLISDYTVVEIPGSVNDLQGTEKVSQAVKWLVSHCPSSLDLCCQTLVQYVEDGLS 320
                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3043668    1474 HEFSGRFFHDRRERRLGGLASQEPGAIIELFNSVLQFLASVVSSEQLCDLSWPVTEFAEAGGSRLLPHLHWNAPEHLAWL 1553
Cdd:pfam16769  321 REFSDRFFHDRKERRLAGLPSQEPGAIIELYNSVLQFLADVVSSEQLCDLSWPVTEFAEPGGSKLLPHLQWNTPQHLAWL 400
                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3043668    1554 KQAVLGFQLPQMDLPPLGAPWLPVCSMVVQYASQIPSSRQTQPVLQSQVENLLHRTYCRWKSKSPSPVHGAGPSVMEIPW 1633
Cdd:pfam16769  401 KKAVLSFQLPQMDLPPLGAPWSPVCSMIFQYVSQIPSSRQTQPLLQSQVENLLSRTYRKWKDKELSASGEAGPSVSEIPW 480
                          490       500       510       520       530       540       550       560
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3043668    1634 DDLIALCINHKLRDWTPPRLPVTSEALSEDGQICVYFFKNDLKKYDVPLSWEQARLQTQKELQ-LREGRLAIKPFHPSAN 1712
Cdd:pfam16769  481 DDILALCINHKLRDWKPPRLPVTSEALSEDGQICVYFFKEHLKKFDPPSSWEQARLQTQKEIQeQSQGRSGIKSAHPSAK 560
                          570       580       590       600       610       620       630       640
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3043668    1713 NFPIPLLHMHRNWKRSTECAQEGRIPSTEDLMRGASAEELLAQCLSSSLLLEKEENKRFEDQLQQWLSEDSGAFTDLTSL 1792
Cdd:pfam16769  561 SFPQSLFHSRQKGARSPEAGKEGRLPSAEDLTHTASAEELLPQRLSSSLQLEKEESKRFEEQLQQWLSEDSEALLDSTSL 640
                          650       660       670       680       690       700       710
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 3043668    1793 PLYLPQTLVSLSHTIEPVMKTSVTTSPQSDMMREQLQ-LSEATGTCLGERLKHLERLIRSSREEEVASELHLSALLD 1868
Cdd:pfam16769  641 PLYLPQTLVSTPQAIEPTLSVSSASSEQSKRSQEQLQeSSEETPVSLSERLKHLERLIRASREEELACELHLSALLD 717
SAC3_GANP pfam03399
SAC3/GANP family; This family includes diverse proteins involved in large complexes. The ...
532-821 1.33e-149

SAC3/GANP family; This family includes diverse proteins involved in large complexes. The alignment contains one highly conserved negatively charged residue and one highly conserved positively charged residue that are probably important for the function of these proteins. The family includes the yeast nuclear export factor Sac3, and mammalian GANP/MCM3-associated proteins, which facilitate the nuclear localization of MCM3, a protein that associates with chromatin in the G1 phase of the cell-cycle.


Pssm-ID: 460911  Cd Length: 287  Bit Score: 461.99  E-value: 1.33e-149
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3043668     532 MCPEKERYMRETRSQLSVFEVV-PGTDQVDHAAAVKEYSRSSADQEEPLPHELRPLPVLSRTMDYLVTQIMDQKEGSLRD 610
Cdd:pfam03399    1 MCPEFERVRREVQNDLHRFEKEdPDTGKADPSKAVKEYSRSAAGQEEPLPSDLRPPPVLLKTLDYLLDEILDREDEPLPE 80
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3043668     611 WYDFVWNRTRGIRKDITQQHLCDPLTVSLIEKCTRFHIHCAHFMCEEPMSsFDAKINNENMTKCLQSLKEMYQDLRNKGV 690
Cdd:pfam03399   81 VHDFIWDRTRSIRQDFTIQNLSGPEAVDCLERIVRFHILSLHRLCEEPVE-FDPQQNLEQLQKCLQSLLEIYDDLRGKGI 159
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3043668     691 FCASEAEFQGYNVLLSLNKGDILREVQQFHPAVRNSSEVKFAVQAFAALNSNNFVRFFKLVQSASYLNACLLHCYFSQIR 770
Cdd:pfam03399  160 PCPNEAEFRAYYLLLNLGDPDILREVQQLPSEIRKSPEVQFALKLRRALQNNNYVRFFRLVRQVSYLMACLLERHFNEVR 239
                          250       260       270       280       290
                   ....*....|....*....|....*....|....*....|....*....|.
gi 3043668     771 KDALRALNFAYtvsTQRSTIFPLDGVVRMLLFRDCEEATDFLTCHGLTVSD 821
Cdd:pfam03399  240 RYALKALNRAY---SSKNKPFPLSDLARLLGFDDEEEAIEFCEAYGLEVSD 287
NupH_GANP pfam16768
Nucleoporin homology of Germinal-centre associated nuclear protein; NupH_GANP is the ...
1-183 8.32e-110

Nucleoporin homology of Germinal-centre associated nuclear protein; NupH_GANP is the nucleoporin-homology domain at the N-terminus of human GANP or germinal-centre associated nuclear proteins. GANP is part of the TREX-2 complex that links transcription with nuclear messenger RNA export, and it associates with the mRNP particle through the interaction of the NupH_GANP with NXF1, the export factor. This attachment mediates efficient delivery of mRNPs to nuclear pore complexes.


Pssm-ID: 435572 [Multi-domain]  Cd Length: 292  Bit Score: 351.52  E-value: 8.32e-110
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3043668       1 GFSFKSPTSVGAFPSTSAFGQEAGEIVNSGFGKTEFSFKPLENAVFKPILGAESEPEKTQSQIASGFFTFSHPISSAPGG 80
Cdd:pfam16768  109 GFSFKSPTNLGAFPSTSTFGPESGEVASSGFGKTEFSFKPPENAVFRPIFGAESEPEKTQSQITSGFFTFSHPVSSGPGG 188
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3043668      81 LAPFSFPQVTSSSATTSNFTFSKPVSSNNSLSAFTPALSNQNVEEEKRGPKSIFGSSNNSFSSFPV-SSAVLGEPFQASK 159
Cdd:pfam16768  189 LAPFSFSQVTSSSATSSNFTFSKPVSSNNSSSAFAPALSSQNVEEEKRGPKSFFGSSNSSFTSFPNsSSGSLGEPFSVSK 268
                          170       180
                   ....*....|....*....|....
gi 3043668     160 AGVRQGCEEAVSQVEPLPSLMKGL 183
Cdd:pfam16768  269 TGVRQGCEEAVSQVEPLPSLMKGL 292
SAC3 COG5079
Nuclear protein export factor [Intracellular trafficking and secretion / Cell division and ...
497-892 6.15e-57

Nuclear protein export factor [Intracellular trafficking and secretion / Cell division and chromosome partitioning];


Pssm-ID: 227411 [Multi-domain]  Cd Length: 646  Bit Score: 210.55  E-value: 6.15e-57
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3043668   497 EKYRLLDQRDRIMRQARvkrtDLDKARTFVGTCLDMCPEKERYMRETRSQLSVFEVVPGTDQVDHAAAVKEYSRSSADQE 576
Cdd:COG5079   49 KKLRAKERELLEAKSAN----ALPSAIVFVGTCMDMCPEFEREERVLQNDVSPYEANPNVKKASRTLAVKAYHRPAAGKH 124
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3043668   577 EPLPHELRPLPVLSRTMDYLVTQIMDQkegSLRDWYDFVWNRTRGIRKDITQQHLCDPLTVSLIEKCTRFHIHCAHFMCE 656
Cdd:COG5079  125 PELPSDVRPPEVLVKTIDYLVKLCAGD---QLIEMHRFVRDRTRAVRQDFTIQNEKGKDAVECHERIARFHILFLHLLHD 201
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3043668   657 EPmsSFDAKINNENMTKCLQSLKEMYQDLRNKGVFCASEAEFQGYNVLLSLNKGDILREVQQFHPAVRNSSEVKFAVQaF 736
Cdd:COG5079  202 HP--HFSKQQELEQLKKSLASLIELYDDGRAGKKECPNEAEFRAYAILASLGDPRYVAGIQGWPGGIFCDLPVQIALK-L 278
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3043668   737 AALNSNNF----------------VRFFKLVQSAS--YLNACLLHCYFSQIRKDALRALNFAYTVSTQRstiFPLDGVVR 798
Cdd:COG5079  279 MQLAQSNNfrllgrrnteacfnlyTRFFKLIQSPSvqYLMGCLLEKHNISIRGGALKAMEKEIESAHKN---IPFVDLSG 355
                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 3043668   799 MLLFRDCEEATDFLTCHGLTVSDG-----CVELNRSAFLEPEGLSKTRKSVFITRKLTVSVGEIVNGGPLPPVPRhtpVC 873
Cdd:COG5079  356 ILDFEEKGEGEEFCKYYGLEIRIEdsvklPIVFMLSACIDYKKPTAILCTLLESRLQARRFADGINGGQDEDRDR---IA 432
                        410
                 ....*....|....*....
gi 3043668   874 SFNSQNKYIGESLAAELPV 892
Cdd:COG5079  433 GNTDFSKKMCIALYNKEPV 451
RRM_MCM3A_like cd12443
RNA recognition motif (RRM) found in 80 kDa MCM3-associated protein (Map80) and similar ...
327-398 2.97e-37

RNA recognition motif (RRM) found in 80 kDa MCM3-associated protein (Map80) and similar proteins; This subfamily corresponds to the RRM of Map80, also termed germinal center-associated nuclear protein (GANP), involved in the nuclear localization pathway of MCM3, a protein necessary for the initiation of DNA replication and also involves in controls that ensure DNA replication is initiated once per cell cycle. Map80 contains one RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain).


Pssm-ID: 409877 [Multi-domain]  Cd Length: 75  Bit Score: 134.75  E-value: 2.97e-37
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 3043668   327 TAIQCKNIPDYLNDRTILENHFGKIAKVQRIFTRRSKKLAVVHFFDHASAALARKKGKSL---HKDMAIFWHRKK 398
Cdd:cd12443    1 TAIVCKNIPEELNDKEILRRHFSKFGKVARVFCNPRKNLAIVHFKDHESAALAKKKGKLLskgGKPIEIFWSSKK 75
CID_GANP pfam16766
Binding region of GANP to ENY2; CID is a domain on higher eukaryotic germinal-cent associated ...
1056-1126 3.88e-35

Binding region of GANP to ENY2; CID is a domain on higher eukaryotic germinal-cent associated nuclear protein, or GANP, that binds to the transcription and mRNA export factor ENY2. The complex of these two proteins forms part of the TREX-2 complex that links transcription with nuclear messenger RNA export.


Pssm-ID: 465264 [Multi-domain]  Cd Length: 71  Bit Score: 128.67  E-value: 3.88e-35
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 3043668    1056 VLSELSQGLAVELMERVMMEFVRETCSQELKNAVETDQRVRVARCCEDVCAHLVDLFLVEEIFQTAKETLQ 1126
Cdd:pfam16766    1 FLAQLSQALCAELTEEVLAECVRETASAELKCAVETEQAARVARCSEDVCASLVDEFLEEEIFQTAKETLQ 71
RRM1_RBM26_like cd12257
RNA recognition motif 1 (RRM1) found in vertebrate RNA-binding protein 26 (RBM26) and similar ...
327-379 2.87e-04

RNA recognition motif 1 (RRM1) found in vertebrate RNA-binding protein 26 (RBM26) and similar proteins; This subfamily corresponds to the RRM1 of RBM26, and the RRM of RBM27. RBM26, also known as cutaneous T-cell lymphoma (CTCL) tumor antigen se70-2, represents a cutaneous lymphoma (CL)-associated antigen. It contains two RNA recognition motifs (RRMs), also known as RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). The RRMs may play some functional roles in RNA-binding or protein-protein interactions. RBM27 contains only one RRM; its biological function remains unclear.


Pssm-ID: 409702 [Multi-domain]  Cd Length: 72  Bit Score: 41.01  E-value: 2.87e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 3043668   327 TAIQCKNIPDYLNDRTILENHFGKIAKVQRIFTRRSKKLAVVHFFDHASAALA 379
Cdd:cd12257    2 TTLEVRNIPPELNNITKLREHFSKFGTIVNIQVNYNPESALVQFSTSEEANKA 54
RRM_XMAS2 cd12457
RNA recognition motif (RRM) found in X-linked male sterile 2 (Xmas-2) and similar proteins; ...
328-383 1.46e-03

RNA recognition motif (RRM) found in X-linked male sterile 2 (Xmas-2) and similar proteins; This subfamily corresponds to the RRM in Xmas-2, the Drosophila homolog of yeast Sac3p protein, together with E(y)2, the Drosophila homologue of yeast Sus1p protein, forming an endogenous complex that is required in the regulation of mRNA transport and also involved in the efficient transcription regulation of the heat-shock protein 70 (hsp70) loci. All family members are found in insects and contain an N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), followed by a PCI domain.


Pssm-ID: 409890 [Multi-domain]  Cd Length: 71  Bit Score: 38.86  E-value: 1.46e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 3043668   328 AIQCKNIPDYLNDRTILENHFGKIAKVQRIFTRRSKKLAVVHFFDHASAALARKKG 383
Cdd:cd12457    2 SITCTDVPEELLDKTAAKEYFRKFGKIKKITLRPKRRTCTVEYTNKEEAERALLNG 57
RRM_1 pfam00076
RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); The RRM motif is probably diagnostic ...
331-382 7.76e-03

RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); The RRM motif is probably diagnostic of an RNA binding protein. RRMs are found in a variety of RNA binding proteins, including various hnRNP proteins, proteins implicated in regulation of alternative splicing, and protein components of snRNPs. The motif also appears in a few single stranded DNA binding proteins. The RRM structure consists of four strands and two helices arranged in an alpha/beta sandwich, with a third helix present during RNA binding in some cases The C-terminal beta strand (4th strand) and final helix are hard to align and have been omitted in the SEED alignment The LA proteins have an N terminal rrm which is included in the seed. There is a second region towards the C terminus that has some features characteriztic of a rrm but does not appear to have the important structural core of a rrm. The LA proteins are one of the main autoantigens in Systemic lupus erythematosus (SLE), an autoimmune disease.


Pssm-ID: 425453 [Multi-domain]  Cd Length: 70  Bit Score: 36.83  E-value: 7.76e-03
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 3043668     331 CKNIPDYLNDRTILEnHFGKIAKVQRI-----FTRRSKKLAVVHFFDHASAALARKK 382
Cdd:pfam00076    3 VGNLPPDTTEEDLKD-LFSKFGPIKSIrlvrdETGRSKGFAFVEFEDEEDAEKAIEA 58
RRM smart00360
RNA recognition motif;
332-382 7.87e-03

RNA recognition motif;


Pssm-ID: 214636 [Multi-domain]  Cd Length: 73  Bit Score: 36.80  E-value: 7.87e-03
                            10        20        30        40        50
                    ....*....|....*....|....*....|....*....|....*....|....*..
gi 3043668      332 KNIPDYLNDRTiLENHFGKIAKVQRIF------TRRSKKLAVVHFFDHASAALARKK 382
Cdd:smart00360    5 GNLPPDTTEEE-LRELFSKFGKVESVRlvrdkeTGKSKGFAFVEFESEEDAEKALEA 60
 
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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