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Conserved domains on  [gi|20978539|sp|Q9U1H9|]
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RecName: Full=Nuclear RNA export factor 1; AltName: Full=Protein small bristles; AltName: Full=Protein tip-associating

Protein Classification

leucine-rich repeat domain-containing protein( domain architecture ID 11655182)

leucine-rich repeat (LRR) domain-containing protein may participate in protein-protein interactions

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
NTF2 cd00780
Nuclear transport factor 2 (NTF2) domain plays an important role in the trafficking of ...
 372-531 2.45e-24

Nuclear transport factor 2 (NTF2) domain plays an important role in the trafficking of macromolecules, ions and small molecules between the cytoplasm and nucleus. This bi-directional transport of macromolecules across the nuclear envelope requires many soluble factors that includes GDP-binding protein Ran (RanGDP). RanGDP is required for both import and export of proteins and poly(A) RNA. RanGDP also has been implicated in cell cycle control, specifically in mitotic spindle assembly. In interphase cells, RanGDP is predominately nuclear and thought to be GTP bound, but it is also present in the cytoplasm, probably in the GDP-bound state. NTF2 mediates the nuclear import of RanGDP. NTF2 binds to both RanGDP and FxFG repeat-containing nucleoporins.


:

Pssm-ID: 238403  Cd Length: 119  Bit Score: 98.12  E-value: 2.45e-24
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20978539 372 GAEVVRQFLDQYFRIFDsGNRQALLDAYHEKAMLSISMpsasqagrlnsfwkfnrnlrrllngeenrtRNLKYGRLACVS 451
Cdd:cd00780   2 AEDVAKAFVQQYYSIFD-NNREGLHRLYGDTSMLSREG------------------------------MKQVTGRDAIVE 50

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20978539 452 TLDEWP--KTQHDRrtFTVDLTIYNTSMMVFTVTGLFKELNDetnnpasmelyDVRHFARTYVVVPQNNGFCIRNETIFI 529
Cdd:cd00780  51 KLSSLPfqKTKHKI--TTVDSQPTPSGGVIVMVTGSLKLDEQ-----------PPRKFSQTFVLAPQNGGYFVLNDIFRF 117


                ..
gi 20978539 530 TN 531
Cdd:cd00780 118 VD 119
TAP_C smart00804
C-terminal domain of vertebrate Tap protein; The vertebrate Tap protein is a member of the NXF ...
 609-671 2.52e-24

C-terminal domain of vertebrate Tap protein; The vertebrate Tap protein is a member of the NXF family of shuttling transport receptors for the nuclear export of mRNA. Its most C-terminal domain is important for binding to FG repeat-containing nuclear pore proteins (FG-nucleoporins) and is sufficient to mediate shuttling. This domain forms a compact four-helix fold related to that of a UBA domain.


:

Pssm-ID: 197882  Cd Length: 63  Bit Score: 96.22  E-value: 2.52e-24
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 20978539    609 AVAPGAQDESTKMQMIEAMSAQSQMNVIWSRKCLEETNWDFNHAAFVFEKLFKENKIPPEAFM 671
Cdd:smart00804   1 PASPKPTLSPEQQEMVQAFSAQTGMNAEYSQMCLEDNNWDYERALKNFTELKSEGSIPPEAFA 63
Tap-RNA_bind super family cl07690
Tap, RNA-binding; Members of this family adopt a structure consisting of an alpha+beta ...
 113-191 4.28e-11

Tap, RNA-binding; Members of this family adopt a structure consisting of an alpha+beta sandwich with an antiparallel beta-sheet, arranged in a 2(beta-alpha-beta) motif. They are mainly found in mRNA export factors, and mediate the sequence nonspecific nuclear export of cellular mRNAs as well as the sequence-specific export of retroviral mRNAs bearing the constitutive transport element.


The actual alignment was detected with superfamily member pfam09162:

Pssm-ID: 462696  Cd Length: 80  Bit Score: 59.10  E-value: 4.28e-11
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 20978539   113 WYQVTLQNAQIYEKETLLSALLAAMSPhVFIPQYWRVERNCVIFFTDDYEAAERIQHLGKNGHLPDGYRLMPRVRSGIP 191
Cdd:pfam09162   1 WFKVTIPYGKKYDKKWLLNSIQSLCSV-PFTPVDFHYEKNRAVFFVEDASTASALKKVSRKITDEDGRKISIFVNPSAP 78
LRR super family cl34836
Leucine-rich repeat (LRR) protein [Transcription];
252-315 2.92e-07

Leucine-rich repeat (LRR) protein [Transcription];


The actual alignment was detected with superfamily member COG4886:

Pssm-ID: 443914 [Multi-domain]  Cd Length: 414  Bit Score: 53.40  E-value: 2.92e-07
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 20978539 252 NIPDLEALNLNDNSISSMEAFKGvekrLPNLKILYLGDNKIPSLAHLVVLRNLSilELVLKNNP 315
Cdd:COG4886 226 NLTNLETLDLSNNQLTDLPELGN----LTNLEELDLSNNQLTDLPPLANLTNLK--TLDLSNNQ 283
flgK super family cl35521
flagellar hook-associated protein FlgK; Validated
 548-613 2.84e-03

flagellar hook-associated protein FlgK; Validated


The actual alignment was detected with superfamily member PRK06945:

Pssm-ID: 235895 [Multi-domain]  Cd Length: 651  Bit Score: 40.77  E-value: 2.84e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 20978539  548 APGAMPSTSSAVTSPQAGAAAGLQGrlnalgVATGPVAILSGDPLAATAPV-NSGSAAISTTAVAPG 613
Cdd:PRK06945 402 LSGTMNAGDSFLVQPTRNAANGFSV------ATTDGSAIAAASPVRASAGStNTGTGAISQGSVSSG 462
 
Name Accession Description Interval E-value
NTF2 cd00780
Nuclear transport factor 2 (NTF2) domain plays an important role in the trafficking of ...
 372-531 2.45e-24

Nuclear transport factor 2 (NTF2) domain plays an important role in the trafficking of macromolecules, ions and small molecules between the cytoplasm and nucleus. This bi-directional transport of macromolecules across the nuclear envelope requires many soluble factors that includes GDP-binding protein Ran (RanGDP). RanGDP is required for both import and export of proteins and poly(A) RNA. RanGDP also has been implicated in cell cycle control, specifically in mitotic spindle assembly. In interphase cells, RanGDP is predominately nuclear and thought to be GTP bound, but it is also present in the cytoplasm, probably in the GDP-bound state. NTF2 mediates the nuclear import of RanGDP. NTF2 binds to both RanGDP and FxFG repeat-containing nucleoporins.


Pssm-ID: 238403  Cd Length: 119  Bit Score: 98.12  E-value: 2.45e-24
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20978539 372 GAEVVRQFLDQYFRIFDsGNRQALLDAYHEKAMLSISMpsasqagrlnsfwkfnrnlrrllngeenrtRNLKYGRLACVS 451
Cdd:cd00780   2 AEDVAKAFVQQYYSIFD-NNREGLHRLYGDTSMLSREG------------------------------MKQVTGRDAIVE 50

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20978539 452 TLDEWP--KTQHDRrtFTVDLTIYNTSMMVFTVTGLFKELNDetnnpasmelyDVRHFARTYVVVPQNNGFCIRNETIFI 529
Cdd:cd00780  51 KLSSLPfqKTKHKI--TTVDSQPTPSGGVIVMVTGSLKLDEQ-----------PPRKFSQTFVLAPQNGGYFVLNDIFRF 117


                ..
gi 20978539 530 TN 531
Cdd:cd00780 118 VD 119
TAP_C smart00804
C-terminal domain of vertebrate Tap protein; The vertebrate Tap protein is a member of the NXF ...
 609-671 2.52e-24

C-terminal domain of vertebrate Tap protein; The vertebrate Tap protein is a member of the NXF family of shuttling transport receptors for the nuclear export of mRNA. Its most C-terminal domain is important for binding to FG repeat-containing nuclear pore proteins (FG-nucleoporins) and is sufficient to mediate shuttling. This domain forms a compact four-helix fold related to that of a UBA domain.


Pssm-ID: 197882  Cd Length: 63  Bit Score: 96.22  E-value: 2.52e-24
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 20978539    609 AVAPGAQDESTKMQMIEAMSAQSQMNVIWSRKCLEETNWDFNHAAFVFEKLFKENKIPPEAFM 671
Cdd:smart00804   1 PASPKPTLSPEQQEMVQAFSAQTGMNAEYSQMCLEDNNWDYERALKNFTELKSEGSIPPEAFA 63
TAP_C pfam03943
TAP C-terminal domain; The vertebrate Tap protein is a member of the NXF family of shuttling ...
 622-670 6.09e-21

TAP C-terminal domain; The vertebrate Tap protein is a member of the NXF family of shuttling transport receptors for nuclear export of mRNA. Tap has a modular structure, and its most C-terminal domain is important for binding to FG repeat-containing nuclear pore proteins (FG-nucleoporins) and is sufficient to mediate nuclear shuttling. The structure of the C-terminal domain is composed of four helices. The structure is related to the UBA domain.


Pssm-ID: 461102  Cd Length: 49  Bit Score: 86.05  E-value: 6.09e-21
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 20978539   622 QMIEAMSAQSQMNVIWSRKCLEETNWDFNHAAFVFEKLFKENKIPPEAF 670
Cdd:pfam03943   1 EMVQQFSQQTGMNLEWSEKCLEQNNWDYERALQNFTELKAQGKIPPEAF 49
UBA_TAP-C cd14342
UBA-like domain found in nuclear RNA export factor NXF1, NXF2 and similar proteins; The NXF ...
 620-670 2.10e-20

UBA-like domain found in nuclear RNA export factor NXF1, NXF2 and similar proteins; The NXF family of mRNA nuclear export factors including vertebrate NXF1 (also called tip-associated protein or mRNA export factor TAP), NXF2 (also called cancer/testis antigen CT39 or TAP-like protein TAPL-2), Caenorhabditis elegans NXF1 (ceNXF1), Saccharomyces cerevisiae mRNA nuclear export factor Mex67p and similar proteins. NXF proteins can stimulate nuclear export of mRNAs and facilitate the export of unspliced viral mRNA containing the constitutive transport element. It is a multi-domain protein with a nuclear localization sequence (NLS), a non-canonical mRNA-binding domain, and four leucine-rich repeats (LLR) at the N-terminal region. Its C-terminal part contains a NTF2-like domain and a ubiquitin-associated (UBA)-like domain, joined by flexible Pro-rich linker. Caenorhabditis elegans NXF1 are essential for the nuclear export of poly(A)+mRNA. In budding yeast, Mex67p binds mRNAs through its adaptor Yra1/REF. It also interacts directly with Nab2, an essential shuttling mRNA-binding protein required for export. Moreover, Mex67p associates with both nuclear pore protein (nucleoporin) FG repeats and Hpr1, a component of the TREX/THO complex linking transcription and export.


Pssm-ID: 270527  Cd Length: 51  Bit Score: 84.94  E-value: 2.10e-20
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|.
gi 20978539 620 KMQMIEAMSAQSQMNVIWSRKCLEETNWDFNHAAFVFEKLFKENKIPPEAF 670
Cdd:cd14342   1 QQQMVQQLSAQTGMNLEWSQKCLEDNGWDYEKALANFEELKAQGKIPPEAF 51
Tap-RNA_bind pfam09162
Tap, RNA-binding; Members of this family adopt a structure consisting of an alpha+beta ...
 113-191 4.28e-11

Tap, RNA-binding; Members of this family adopt a structure consisting of an alpha+beta sandwich with an antiparallel beta-sheet, arranged in a 2(beta-alpha-beta) motif. They are mainly found in mRNA export factors, and mediate the sequence nonspecific nuclear export of cellular mRNAs as well as the sequence-specific export of retroviral mRNAs bearing the constitutive transport element.


Pssm-ID: 462696  Cd Length: 80  Bit Score: 59.10  E-value: 4.28e-11
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 20978539   113 WYQVTLQNAQIYEKETLLSALLAAMSPhVFIPQYWRVERNCVIFFTDDYEAAERIQHLGKNGHLPDGYRLMPRVRSGIP 191
Cdd:pfam09162   1 WFKVTIPYGKKYDKKWLLNSIQSLCSV-PFTPVDFHYEKNRAVFFVEDASTASALKKVSRKITDEDGRKISIFVNPSAP 78
LRR COG4886
Leucine-rich repeat (LRR) protein [Transcription];
252-315 2.92e-07

Leucine-rich repeat (LRR) protein [Transcription];


Pssm-ID: 443914 [Multi-domain]  Cd Length: 414  Bit Score: 53.40  E-value: 2.92e-07
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 20978539 252 NIPDLEALNLNDNSISSMEAFKGvekrLPNLKILYLGDNKIPSLAHLVVLRNLSilELVLKNNP 315
Cdd:COG4886 226 NLTNLETLDLSNNQLTDLPELGN----LTNLEELDLSNNQLTDLPPLANLTNLK--TLDLSNNQ 283
LRR_8 pfam13855
Leucine rich repeat;
256-315 4.57e-06

Leucine rich repeat;


Pssm-ID: 404697 [Multi-domain]  Cd Length: 61  Bit Score: 44.44  E-value: 4.57e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 20978539   256 LEALNLNDNSISSM--EAFKGvekrLPNLKILYLGDNKIPSLaHLVVLRNLSILE-LVLKNNP 315
Cdd:pfam13855   3 LRSLDLSNNRLTSLddGAFKG----LSNLKVLDLSNNLLTTL-SPGAFSGLPSLRyLDLSGNR 60
PPP1R42 cd21340
protein phosphatase 1 regulatory subunit 42; Protein phosphatase 1 regulatory subunit 42 ...
 259-314 2.72e-05

protein phosphatase 1 regulatory subunit 42; Protein phosphatase 1 regulatory subunit 42 (PPP1R42), also known as leucine-rich repeat-containing protein 67 (lrrc67) or testis leucine-rich repeat (TLRR) protein, plays a role in centrosome separation. PPP1R42 has been shown to interact with the well-conserved signaling protein phosphatase-1 (PP1) and thereby increasing PP1's activity, which counters centrosome separation. Inhibition of PPP1R42 expression increases the number of centrosomes per cell while its depletion reduces the activity of PP1 leading to activation of NEK2, the kinase responsible for phosphorylation of centrosomal linker proteins promoting centrosome separation.


Pssm-ID: 411060 [Multi-domain]  Cd Length: 220  Bit Score: 45.93  E-value: 2.72e-05
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*.
gi 20978539 259 LNLNDNSISSMEAFKgvekRLPNLKILYLGDNKIPSLAHLVVLRNLSilELVLKNN 314
Cdd:cd21340   7 LYLNDKNITKIDNLS----LCKNLKVLYLYDNKITKIENLEFLTNLT--HLYLQNN 56
flgK PRK06945
flagellar hook-associated protein FlgK; Validated
 548-613 2.84e-03

flagellar hook-associated protein FlgK; Validated


Pssm-ID: 235895 [Multi-domain]  Cd Length: 651  Bit Score: 40.77  E-value: 2.84e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 20978539  548 APGAMPSTSSAVTSPQAGAAAGLQGrlnalgVATGPVAILSGDPLAATAPV-NSGSAAISTTAVAPG 613
Cdd:PRK06945 402 LSGTMNAGDSFLVQPTRNAANGFSV------ATTDGSAIAAASPVRASAGStNTGTGAISQGSVSSG 462
 
Name Accession Description Interval E-value
NTF2 cd00780
Nuclear transport factor 2 (NTF2) domain plays an important role in the trafficking of ...
 372-531 2.45e-24

Nuclear transport factor 2 (NTF2) domain plays an important role in the trafficking of macromolecules, ions and small molecules between the cytoplasm and nucleus. This bi-directional transport of macromolecules across the nuclear envelope requires many soluble factors that includes GDP-binding protein Ran (RanGDP). RanGDP is required for both import and export of proteins and poly(A) RNA. RanGDP also has been implicated in cell cycle control, specifically in mitotic spindle assembly. In interphase cells, RanGDP is predominately nuclear and thought to be GTP bound, but it is also present in the cytoplasm, probably in the GDP-bound state. NTF2 mediates the nuclear import of RanGDP. NTF2 binds to both RanGDP and FxFG repeat-containing nucleoporins.


Pssm-ID: 238403  Cd Length: 119  Bit Score: 98.12  E-value: 2.45e-24
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20978539 372 GAEVVRQFLDQYFRIFDsGNRQALLDAYHEKAMLSISMpsasqagrlnsfwkfnrnlrrllngeenrtRNLKYGRLACVS 451
Cdd:cd00780   2 AEDVAKAFVQQYYSIFD-NNREGLHRLYGDTSMLSREG------------------------------MKQVTGRDAIVE 50

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20978539 452 TLDEWP--KTQHDRrtFTVDLTIYNTSMMVFTVTGLFKELNDetnnpasmelyDVRHFARTYVVVPQNNGFCIRNETIFI 529
Cdd:cd00780  51 KLSSLPfqKTKHKI--TTVDSQPTPSGGVIVMVTGSLKLDEQ-----------PPRKFSQTFVLAPQNGGYFVLNDIFRF 117


                ..
gi 20978539 530 TN 531
Cdd:cd00780 118 VD 119
TAP_C smart00804
C-terminal domain of vertebrate Tap protein; The vertebrate Tap protein is a member of the NXF ...
 609-671 2.52e-24

C-terminal domain of vertebrate Tap protein; The vertebrate Tap protein is a member of the NXF family of shuttling transport receptors for the nuclear export of mRNA. Its most C-terminal domain is important for binding to FG repeat-containing nuclear pore proteins (FG-nucleoporins) and is sufficient to mediate shuttling. This domain forms a compact four-helix fold related to that of a UBA domain.


Pssm-ID: 197882  Cd Length: 63  Bit Score: 96.22  E-value: 2.52e-24
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 20978539    609 AVAPGAQDESTKMQMIEAMSAQSQMNVIWSRKCLEETNWDFNHAAFVFEKLFKENKIPPEAFM 671
Cdd:smart00804   1 PASPKPTLSPEQQEMVQAFSAQTGMNAEYSQMCLEDNNWDYERALKNFTELKSEGSIPPEAFA 63
TAP_C pfam03943
TAP C-terminal domain; The vertebrate Tap protein is a member of the NXF family of shuttling ...
 622-670 6.09e-21

TAP C-terminal domain; The vertebrate Tap protein is a member of the NXF family of shuttling transport receptors for nuclear export of mRNA. Tap has a modular structure, and its most C-terminal domain is important for binding to FG repeat-containing nuclear pore proteins (FG-nucleoporins) and is sufficient to mediate nuclear shuttling. The structure of the C-terminal domain is composed of four helices. The structure is related to the UBA domain.


Pssm-ID: 461102  Cd Length: 49  Bit Score: 86.05  E-value: 6.09e-21
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 20978539   622 QMIEAMSAQSQMNVIWSRKCLEETNWDFNHAAFVFEKLFKENKIPPEAF 670
Cdd:pfam03943   1 EMVQQFSQQTGMNLEWSEKCLEQNNWDYERALQNFTELKAQGKIPPEAF 49
UBA_TAP-C cd14342
UBA-like domain found in nuclear RNA export factor NXF1, NXF2 and similar proteins; The NXF ...
 620-670 2.10e-20

UBA-like domain found in nuclear RNA export factor NXF1, NXF2 and similar proteins; The NXF family of mRNA nuclear export factors including vertebrate NXF1 (also called tip-associated protein or mRNA export factor TAP), NXF2 (also called cancer/testis antigen CT39 or TAP-like protein TAPL-2), Caenorhabditis elegans NXF1 (ceNXF1), Saccharomyces cerevisiae mRNA nuclear export factor Mex67p and similar proteins. NXF proteins can stimulate nuclear export of mRNAs and facilitate the export of unspliced viral mRNA containing the constitutive transport element. It is a multi-domain protein with a nuclear localization sequence (NLS), a non-canonical mRNA-binding domain, and four leucine-rich repeats (LLR) at the N-terminal region. Its C-terminal part contains a NTF2-like domain and a ubiquitin-associated (UBA)-like domain, joined by flexible Pro-rich linker. Caenorhabditis elegans NXF1 are essential for the nuclear export of poly(A)+mRNA. In budding yeast, Mex67p binds mRNAs through its adaptor Yra1/REF. It also interacts directly with Nab2, an essential shuttling mRNA-binding protein required for export. Moreover, Mex67p associates with both nuclear pore protein (nucleoporin) FG repeats and Hpr1, a component of the TREX/THO complex linking transcription and export.


Pssm-ID: 270527  Cd Length: 51  Bit Score: 84.94  E-value: 2.10e-20
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|.
gi 20978539 620 KMQMIEAMSAQSQMNVIWSRKCLEETNWDFNHAAFVFEKLFKENKIPPEAF 670
Cdd:cd14342   1 QQQMVQQLSAQTGMNLEWSQKCLEDNGWDYEKALANFEELKAQGKIPPEAF 51
NTF2_like cd00531
Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 ...
 376-529 4.40e-12

Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of divergent evolution wherein the proteins have many common structural details but diverge greatly in their function. For example, nuclear transport factor 2 (NTF2) mediates the nuclear import of RanGDP and binds to both RanGDP and FxFG repeat-containing nucleoporins while Ketosteroid isomerases catalyze the isomerization of delta-5-3-ketosteroid to delta-4-3-ketosteroid, by intramolecular transfer of the C4-beta proton to the C6-beta position. While the function of the beta sub-unit of the Ring hydroxylating dioxygenases is not known, Scytalone Dehydratases catalyzes two reactions in the biosynthetic pathway that produces fungal melanin. Members of the NTF2-like superfamily are widely distributed among bacteria, archaea and eukaryotes.


Pssm-ID: 238296 [Multi-domain]  Cd Length: 124  Bit Score: 63.69  E-value: 4.40e-12
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20978539 376 VRQFLDQYFRIFDSGNRQALLDAYHEKAMLSISMpsasqagrlnsfwkfnrnlrrllngeENRTRNLKYGRLAC---VST 452
Cdd:cd00531   1 AEQFLYRYARLLDAGDREWLALLYADDAYFEPPG--------------------------GDGLIYPDDGREAIedrVRR 54

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 20978539 453 LDEWPKTQHdRRTFTVDLT-IYNTSMMVFTVTGLFKELNDETNnpasmelyDVRHFARTYVVVPQNNGFCIRNETIFI 529
Cdd:cd00531  55 LPFGPSRTR-HLVSNVDVQpGDDGEGVVVSVFGVLRTRGDGEQ--------DVFAGGQTFVLRPQGGGGKIANRRFRL 123
Tap-RNA_bind pfam09162
Tap, RNA-binding; Members of this family adopt a structure consisting of an alpha+beta ...
 113-191 4.28e-11

Tap, RNA-binding; Members of this family adopt a structure consisting of an alpha+beta sandwich with an antiparallel beta-sheet, arranged in a 2(beta-alpha-beta) motif. They are mainly found in mRNA export factors, and mediate the sequence nonspecific nuclear export of cellular mRNAs as well as the sequence-specific export of retroviral mRNAs bearing the constitutive transport element.


Pssm-ID: 462696  Cd Length: 80  Bit Score: 59.10  E-value: 4.28e-11
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 20978539   113 WYQVTLQNAQIYEKETLLSALLAAMSPhVFIPQYWRVERNCVIFFTDDYEAAERIQHLGKNGHLPDGYRLMPRVRSGIP 191
Cdd:pfam09162   1 WFKVTIPYGKKYDKKWLLNSIQSLCSV-PFTPVDFHYEKNRAVFFVEDASTASALKKVSRKITDEDGRKISIFVNPSAP 78
LRR COG4886
Leucine-rich repeat (LRR) protein [Transcription];
252-315 2.92e-07

Leucine-rich repeat (LRR) protein [Transcription];


Pssm-ID: 443914 [Multi-domain]  Cd Length: 414  Bit Score: 53.40  E-value: 2.92e-07
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 20978539 252 NIPDLEALNLNDNSISSMEAFKGvekrLPNLKILYLGDNKIPSLAHLVVLRNLSilELVLKNNP 315
Cdd:COG4886 226 NLTNLETLDLSNNQLTDLPELGN----LTNLEELDLSNNQLTDLPPLANLTNLK--TLDLSNNQ 283
LRR_8 pfam13855
Leucine rich repeat;
256-315 4.57e-06

Leucine rich repeat;


Pssm-ID: 404697 [Multi-domain]  Cd Length: 61  Bit Score: 44.44  E-value: 4.57e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 20978539   256 LEALNLNDNSISSM--EAFKGvekrLPNLKILYLGDNKIPSLaHLVVLRNLSILE-LVLKNNP 315
Cdd:pfam13855   3 LRSLDLSNNRLTSLddGAFKG----LSNLKVLDLSNNLLTTL-SPGAFSGLPSLRyLDLSGNR 60
LRR COG4886
Leucine-rich repeat (LRR) protein [Transcription];
252-309 6.80e-06

Leucine-rich repeat (LRR) protein [Transcription];


Pssm-ID: 443914 [Multi-domain]  Cd Length: 414  Bit Score: 49.16  E-value: 6.80e-06
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*....
gi 20978539 252 NIPDLEALNLNDNSISSM-EAFKgvekRLPNLKILYLGDNKIPSLAHLVVLRNLSILEL 309
Cdd:COG4886 203 NLTNLEELDLSGNQLTDLpEPLA----NLTNLETLDLSNNQLTDLPELGNLTNLEELDL 257
LRR COG4886
Leucine-rich repeat (LRR) protein [Transcription];
252-306 2.02e-05

Leucine-rich repeat (LRR) protein [Transcription];


Pssm-ID: 443914 [Multi-domain]  Cd Length: 414  Bit Score: 47.62  E-value: 2.02e-05
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*....
gi 20978539 252 NIPDLEALNLNDNSISSMEAFKGvekRLPNLKILYLGDNKI----PSLAHLVVLRNLSI 306
Cdd:COG4886 134 NLTNLKELDLSNNQLTDLPEPLG---NLTNLKSLDLSNNQLtdlpEELGNLTNLKELDL 189
PPP1R42 cd21340
protein phosphatase 1 regulatory subunit 42; Protein phosphatase 1 regulatory subunit 42 ...
 259-314 2.72e-05

protein phosphatase 1 regulatory subunit 42; Protein phosphatase 1 regulatory subunit 42 (PPP1R42), also known as leucine-rich repeat-containing protein 67 (lrrc67) or testis leucine-rich repeat (TLRR) protein, plays a role in centrosome separation. PPP1R42 has been shown to interact with the well-conserved signaling protein phosphatase-1 (PP1) and thereby increasing PP1's activity, which counters centrosome separation. Inhibition of PPP1R42 expression increases the number of centrosomes per cell while its depletion reduces the activity of PP1 leading to activation of NEK2, the kinase responsible for phosphorylation of centrosomal linker proteins promoting centrosome separation.


Pssm-ID: 411060 [Multi-domain]  Cd Length: 220  Bit Score: 45.93  E-value: 2.72e-05
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*.
gi 20978539 259 LNLNDNSISSMEAFKgvekRLPNLKILYLGDNKIPSLAHLVVLRNLSilELVLKNN 314
Cdd:cd21340   7 LYLNDKNITKIDNLS----LCKNLKVLYLYDNKITKIENLEFLTNLT--HLYLQNN 56
LRR COG4886
Leucine-rich repeat (LRR) protein [Transcription];
252-341 3.07e-05

Leucine-rich repeat (LRR) protein [Transcription];


Pssm-ID: 443914 [Multi-domain]  Cd Length: 414  Bit Score: 46.85  E-value: 3.07e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20978539 252 NIPDLEALNLNDNSISSMEAFKGvekRLPNLKILYLGDNKIPSLAhlVVLRNLSILE-LVLKNNPCRSrykdsqqfISEV 330
Cdd:COG4886 111 NLTNLESLDLSGNQLTDLPEELA---NLTNLKELDLSNNQLTDLP--EPLGNLTNLKsLDLSNNQLTD--------LPEE 177

                        90
                ....*....|.
gi 20978539 331 RRKFPKLVKLD 341
Cdd:COG4886 178 LGNLTNLKELD 188
LRR COG4886
Leucine-rich repeat (LRR) protein [Transcription];
252-314 5.26e-05

Leucine-rich repeat (LRR) protein [Transcription];


Pssm-ID: 443914 [Multi-domain]  Cd Length: 414  Bit Score: 46.08  E-value: 5.26e-05
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 20978539 252 NIPDLEALNLNDNSISSM-EAFKGvekrLPNLKILYLGDNKIPSLAHlvVLRNLSILE-LVLKNN 314
Cdd:COG4886 157 NLTNLKSLDLSNNQLTDLpEELGN----LTNLKELDLSNNQITDLPE--PLGNLTNLEeLDLSGN 215
PPP1R42 cd21340
protein phosphatase 1 regulatory subunit 42; Protein phosphatase 1 regulatory subunit 42 ...
 254-309 9.15e-05

protein phosphatase 1 regulatory subunit 42; Protein phosphatase 1 regulatory subunit 42 (PPP1R42), also known as leucine-rich repeat-containing protein 67 (lrrc67) or testis leucine-rich repeat (TLRR) protein, plays a role in centrosome separation. PPP1R42 has been shown to interact with the well-conserved signaling protein phosphatase-1 (PP1) and thereby increasing PP1's activity, which counters centrosome separation. Inhibition of PPP1R42 expression increases the number of centrosomes per cell while its depletion reduces the activity of PP1 leading to activation of NEK2, the kinase responsible for phosphorylation of centrosomal linker proteins promoting centrosome separation.


Pssm-ID: 411060 [Multi-domain]  Cd Length: 220  Bit Score: 44.39  E-value: 9.15e-05
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*.
gi 20978539 254 PDLEALNLNDNSISSMEAFKGvekrLPNLKILYLGDNKIPSLAHLVVLRNLSILEL 309
Cdd:cd21340  24 KNLKVLYLYDNKITKIENLEF----LTNLTHLYLQNNQIEKIENLENLVNLKKLYL 75
PPP1R42 cd21340
protein phosphatase 1 regulatory subunit 42; Protein phosphatase 1 regulatory subunit 42 ...
 251-331 1.91e-04

protein phosphatase 1 regulatory subunit 42; Protein phosphatase 1 regulatory subunit 42 (PPP1R42), also known as leucine-rich repeat-containing protein 67 (lrrc67) or testis leucine-rich repeat (TLRR) protein, plays a role in centrosome separation. PPP1R42 has been shown to interact with the well-conserved signaling protein phosphatase-1 (PP1) and thereby increasing PP1's activity, which counters centrosome separation. Inhibition of PPP1R42 expression increases the number of centrosomes per cell while its depletion reduces the activity of PP1 leading to activation of NEK2, the kinase responsible for phosphorylation of centrosomal linker proteins promoting centrosome separation.


Pssm-ID: 411060 [Multi-domain]  Cd Length: 220  Bit Score: 43.24  E-value: 1.91e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20978539 251 DNIPDLEALNLNDNSISSMEAFKGvekrLPNLKILYLGDNKIPSLAHLVVLRNLSilELVLKNNpcrsRYKDSQQFISEV 330
Cdd:cd21340  43 EFLTNLTHLYLQNNQIEKIENLEN----LVNLKKLYLGGNRISVVEGLENLTNLE--ELHIENQ----RLPPGEKLTFDP 112


                .
gi 20978539 331 R 331
Cdd:cd21340 113 R 113
LRR_4 pfam12799
Leucine Rich repeats (2 copies); Leucine rich repeats are short sequence motifs present in a ...
 256-298 2.86e-04

Leucine Rich repeats (2 copies); Leucine rich repeats are short sequence motifs present in a number of proteins with diverse functions and cellular locations. These repeats are usually involved in protein-protein interactions. Each Leucine Rich Repeat is composed of a beta-alpha unit. These units form elongated non-globular structures. Leucine Rich Repeats are often flanked by cysteine rich domains.


Pssm-ID: 463713 [Multi-domain]  Cd Length: 44  Bit Score: 38.77  E-value: 2.86e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 20978539   256 LEALNLNDNSISSMEAFKGvekrLPNLKILYL-GDNKIPSLAHL 298
Cdd:pfam12799   3 LEVLDLSNNQITDIPPLAK----LPNLETLDLsGNNKITDLSDL 42
LRR_RI cd00116
Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 ...
 223-341 1.24e-03

Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond to structural units consisting of a beta strand (LxxLxLxxN/CxL conserved pattern) and an alpha helix. This alignment contains 12 strands corresponding to 11 full repeats, consistent with the extent observed in the subfamily acting as Ran GTPase Activating Proteins (RanGAP1).


Pssm-ID: 238064 [Multi-domain]  Cd Length: 319  Bit Score: 41.57  E-value: 1.24e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20978539 223 FHADPDLKQVfcpLFRQN-VMGAAIDIMCDNIPD---LEALNLNDNSISS--MEAFKGVEKRLPNLKILYLGDNKIPS-- 294
Cdd:cd00116 161 LRANRDLKEL---NLANNgIGDAGIRALAEGLKAncnLEVLDLNNNGLTDegASALAETLASLKSLEVLNLGDNNLTDag 237

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|.
gi 20978539 295 LAHLV---VLRNLSILELVLKNNP-CRSRYKDSQQFISEvrrkFPKLVKLD 341
Cdd:cd00116 238 AAALAsalLSPNISLLTLSLSCNDiTDDGAKDLAEVLAE----KESLLELD 284
LRR COG4886
Leucine-rich repeat (LRR) protein [Transcription];
252-397 1.78e-03

Leucine-rich repeat (LRR) protein [Transcription];


Pssm-ID: 443914 [Multi-domain]  Cd Length: 414  Bit Score: 41.07  E-value: 1.78e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20978539 252 NIPDLEALNLNDNSISSMEAfkgvEKRLPNLKILYLGDNKIPSLAhlvvLRNLSILELVLKNNPCRSRYKDSQQFISEVR 331
Cdd:COG4886 248 NLTNLEELDLSNNQLTDLPP----LANLTNLKTLDLSNNQLTDLK----LKELELLLGLNSLLLLLLLLNLLELLILLLL 319

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 20978539 332 RKFPKLVKLDGETLEPQITFDLSEQGRLLETKASYLCDVAGAEVVRQFLDQYFRIFDSGNRQALLD 397
Cdd:COG4886 320 LTTLLLLLLLLKGLLVTLTTLALSLSLLALLTLLLLLNLLSLLLTLLLTLGLLGLLEATLLTLALL 385
LRR_8 pfam13855
Leucine rich repeat;
254-292 2.64e-03

Leucine rich repeat;


Pssm-ID: 404697 [Multi-domain]  Cd Length: 61  Bit Score: 36.73  E-value: 2.64e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 20978539   254 PDLEALNLNDNSIS--SMEAFKGvekrLPNLKILYLGDNKI 292
Cdd:pfam13855  25 SNLKVLDLSNNLLTtlSPGAFSG----LPSLRYLDLSGNRL 61
flgK PRK06945
flagellar hook-associated protein FlgK; Validated
 548-613 2.84e-03

flagellar hook-associated protein FlgK; Validated


Pssm-ID: 235895 [Multi-domain]  Cd Length: 651  Bit Score: 40.77  E-value: 2.84e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 20978539  548 APGAMPSTSSAVTSPQAGAAAGLQGrlnalgVATGPVAILSGDPLAATAPV-NSGSAAISTTAVAPG 613
Cdd:PRK06945 402 LSGTMNAGDSFLVQPTRNAANGFSV------ATTDGSAIAAASPVRASAGStNTGTGAISQGSVSSG 462
LRR_4 pfam12799
Leucine Rich repeats (2 copies); Leucine rich repeats are short sequence motifs present in a ...
 280-315 8.82e-03

Leucine Rich repeats (2 copies); Leucine rich repeats are short sequence motifs present in a number of proteins with diverse functions and cellular locations. These repeats are usually involved in protein-protein interactions. Each Leucine Rich Repeat is composed of a beta-alpha unit. These units form elongated non-globular structures. Leucine Rich Repeats are often flanked by cysteine rich domains.


Pssm-ID: 463713 [Multi-domain]  Cd Length: 44  Bit Score: 34.53  E-value: 8.82e-03
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 20978539   280 PNLKILYLGDNKIPSLAHLVVLRNLSILELvLKNNP 315
Cdd:pfam12799   1 PNLEVLDLSNNQITDIPPLAKLPNLETLDL-SGNNK 35
 
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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