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Conserved domains on  [gi|568979469|ref|XP_006515843|]
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cytoplasmic dynein 2 intermediate chain 1 isoform X1 [Mus musculus]

Protein Classification

WD40 repeat domain-containing protein( domain architecture ID 1000017)

WD40 repeat domain-containing protein folds into a beta-propeller structure and functions as a scaffold, providing a platform for the interaction and assembly of several proteins into a signalosome; similar to a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly

CATH:  2.130.10.10
Gene Ontology:  GO:0005515
PubMed:  10322433|8090199|30069656|29026209
SCOP:  4002744

Graphical summary

 Zoom to residue level

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List of domain hits

 Name Accession Description Interval E-value
PTZ00121 super family cl31754
MAEBL; Provisional
 48-396 2.73e-11

MAEBL; Provisional


The actual alignment was detected with superfamily member PTZ00121:

Pssm-ID: 173412 [Multi-domain]  Cd Length: 2084  Bit Score: 68.24  E-value: 2.73e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469   48 KADDLRKHL----KVQSGSPKEEKKLREKKAHKDSESAAPEYREHKSRDPDREARHKEKTAERDLYTSTEHPRGERDRER 123
Cdd:PTZ00121 1432 KADEAKKKAeeakKADEAKKKAEEAKKAEEAKKKAEEAKKADEAKKKAEEAKKADEAKKKAEEAKKKADEAKKAAEAKKK 1511

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469  124 HKERRKDAKDREKDKLK---------------ERHRDQEAEKAHSRGKDREREKDRRARKEEIRQSMAyhdlLSRDMRGR 188
Cdd:PTZ00121 1512 ADEAKKAEEAKKADEAKkaeeakkadeakkaeEKKKADELKKAEELKKAEEKKKAEEAKKAEEDKNMA----LRKAEEAK 1587

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469  189 QMAEK----------VEKKASKIRTEERERRDEDSERIDEDRERRYRERKLQYGDSKEHPLSYWLYKEDGEKKHRKAKDA 258
Cdd:PTZ00121 1588 KAEEArieevmklyeEEKKMKAEEAKKAEEAKIKAEELKKAEEEKKKVEQLKKKEAEEKKKAEELKKAEEENKIKAAEEA 1667

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469  259 DREKRLREKSSMREKRERHAREKGSSLSDREVEDRH---------REKRHKEGLHYDDERRRSHADKKERSSKEEHKK-R 328
Cdd:PTZ00121 1668 KKAEEDKKKAEEAKKAEEDEKKAAEALKKEAEEAKKaeelkkkeaEEKKKAEELKKAEEENKIKAEEAKKEAEEDKKKaE 1747

                         330       340       350       360       370       380
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 568979469  329 ELKELEKEDNDLEATGPDEylpnleddfvdyEDDFEVCDGDDDSNNEHEAREKAEELPLAQKREIQEI 396
Cdd:PTZ00121 1748 EAKKDEEEKKKIAHLKKEE------------EKKAEEIRKEKEAVIEEELDEEDEKRRMEVDKKIKDI 1803
WD40 super family cl29593
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 673-961 2.56e-05

WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from its N-terminus and the WD dipeptide at its C-terminus and is 40 residues long, hence the name WD40; between GH and WD lies a conserved core; serves as a stable propeller-like platform to which proteins can bind either stably or reversibly; forms a propeller-like structure with several blades where each blade is composed of a four-stranded anti-parallel b-sheet; instances with few detectable copies are hypothesized to form larger structures by dimerization; each WD40 sequence repeat forms the first three strands of one blade and the last strand in the next blade; the last C-terminal WD40 repeat completes the blade structure of the first WD40 repeat to create the closed ring propeller-structure; residues on the top and bottom surface of the propeller are proposed to coordinate interactions with other proteins and/or small ligands; 7 copies of the repeat are present in this alignment.


The actual alignment was detected with superfamily member cd00200:

Pssm-ID: 475233 [Multi-domain]  Cd Length: 289  Bit Score: 47.33  E-value: 2.56e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469  673 ESKVTCCCFSPLKAFLLFAGTvHGSVVVWDLREDSRIHhyvrlsncfwafrtptfstdgilTSVNHRSPLQAI------E 746
Cdd:cd00200     9 TGGVTCVAFSPDGKLLATGSG-DGTIKVWDLETGELLR-----------------------TLKGHTGPVRDVaasadgT 64

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469  747 PVATSAYKKQSFVLSPFSTQE--EMAGLSFHIASLDetgvlnvWvvveLPKADI-SGSMSDlglipgGRIKLVHSTVIQL 823
Cdd:cd00200    65 YLASGSSDKTIRLWDLETGECvrTLTGHTSYVSSVA-------F----SPDGRIlSSSSRD------KTIKVWDVETGKC 127

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469  824 GNSL-SHKDSelwgstqTLSVKFLPSdpNHFVVGtdmGLISHSTRQdWRVSP----RVFKPEQHGVrpikvNVIDFSPfE 898
Cdd:cd00200   128 LTTLrGHTDW-------VNSVAFSPD--GTFVAS---SSQDGTIKL-WDLRTgkcvATLTGHTGEV-----NSVAFSP-D 188

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 568979469  899 ETVFLAGCSDGSIRLHQLTSERPIMQWdnstSGH--AVTSLQWSPTRpAVFLVQDDASRIYVWDL 961
Cdd:cd00200   189 GEKLLSSSSDGTIKLWDLSTGKCLGTL----RGHenGVNSVAFSPDG-YLLASGSEDGTIRVWDL 248
 
Name Accession Description Interval E-value
PTZ00121 PTZ00121
MAEBL; Provisional
 48-396 2.73e-11

MAEBL; Provisional


Pssm-ID: 173412 [Multi-domain]  Cd Length: 2084  Bit Score: 68.24  E-value: 2.73e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469   48 KADDLRKHL----KVQSGSPKEEKKLREKKAHKDSESAAPEYREHKSRDPDREARHKEKTAERDLYTSTEHPRGERDRER 123
Cdd:PTZ00121 1432 KADEAKKKAeeakKADEAKKKAEEAKKAEEAKKKAEEAKKADEAKKKAEEAKKADEAKKKAEEAKKKADEAKKAAEAKKK 1511

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469  124 HKERRKDAKDREKDKLK---------------ERHRDQEAEKAHSRGKDREREKDRRARKEEIRQSMAyhdlLSRDMRGR 188
Cdd:PTZ00121 1512 ADEAKKAEEAKKADEAKkaeeakkadeakkaeEKKKADELKKAEELKKAEEKKKAEEAKKAEEDKNMA----LRKAEEAK 1587

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469  189 QMAEK----------VEKKASKIRTEERERRDEDSERIDEDRERRYRERKLQYGDSKEHPLSYWLYKEDGEKKHRKAKDA 258
Cdd:PTZ00121 1588 KAEEArieevmklyeEEKKMKAEEAKKAEEAKIKAEELKKAEEEKKKVEQLKKKEAEEKKKAEELKKAEEENKIKAAEEA 1667

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469  259 DREKRLREKSSMREKRERHAREKGSSLSDREVEDRH---------REKRHKEGLHYDDERRRSHADKKERSSKEEHKK-R 328
Cdd:PTZ00121 1668 KKAEEDKKKAEEAKKAEEDEKKAAEALKKEAEEAKKaeelkkkeaEEKKKAEELKKAEEENKIKAEEAKKEAEEDKKKaE 1747

                         330       340       350       360       370       380
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 568979469  329 ELKELEKEDNDLEATGPDEylpnleddfvdyEDDFEVCDGDDDSNNEHEAREKAEELPLAQKREIQEI 396
Cdd:PTZ00121 1748 EAKKDEEEKKKIAHLKKEE------------EKKAEEIRKEKEAVIEEELDEEDEKRRMEVDKKIKDI 1803
SF-CC1 TIGR01622
splicing factor, CC1-like family; This model represents a subfamily of RNA splicing factors ...
 98-187 1.00e-05

splicing factor, CC1-like family; This model represents a subfamily of RNA splicing factors including the Pad-1 protein (N. crassa), CAPER (M. musculus) and CC1.3 (H.sapiens). These proteins are characterized by an N-terminal arginine-rich, low complexity domain followed by three (or in the case of 4 H. sapiens paralogs, two) RNA recognition domains (rrm: pfam00706). These splicing factors are closely related to the U2AF splicing factor family (TIGR01642). A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the seed.


Pssm-ID: 273721 [Multi-domain]  Cd Length: 494  Bit Score: 49.53  E-value: 1.00e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469    98 RHKEKTAERDLytstehprgERDRERHKERRKDaKDREKDKLKERHRDQEAEKAHSRGKDREREKDRRARKEEIRQSMAY 177
Cdd:TIGR01622    1 RYRDRERERLR---------DSSSAGDRDRRRD-KGRERSRDRSRDRERSRSRRRDRHRDRDYYRGRERRSRSRRPNRRY 70

                           90
                   ....*....|
gi 568979469   178 HDLLSRDMRG 187
Cdd:TIGR01622   71 RPREKRRRRG 80
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 673-961 2.56e-05

WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from its N-terminus and the WD dipeptide at its C-terminus and is 40 residues long, hence the name WD40; between GH and WD lies a conserved core; serves as a stable propeller-like platform to which proteins can bind either stably or reversibly; forms a propeller-like structure with several blades where each blade is composed of a four-stranded anti-parallel b-sheet; instances with few detectable copies are hypothesized to form larger structures by dimerization; each WD40 sequence repeat forms the first three strands of one blade and the last strand in the next blade; the last C-terminal WD40 repeat completes the blade structure of the first WD40 repeat to create the closed ring propeller-structure; residues on the top and bottom surface of the propeller are proposed to coordinate interactions with other proteins and/or small ligands; 7 copies of the repeat are present in this alignment.


Pssm-ID: 238121 [Multi-domain]  Cd Length: 289  Bit Score: 47.33  E-value: 2.56e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469  673 ESKVTCCCFSPLKAFLLFAGTvHGSVVVWDLREDSRIHhyvrlsncfwafrtptfstdgilTSVNHRSPLQAI------E 746
Cdd:cd00200     9 TGGVTCVAFSPDGKLLATGSG-DGTIKVWDLETGELLR-----------------------TLKGHTGPVRDVaasadgT 64

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469  747 PVATSAYKKQSFVLSPFSTQE--EMAGLSFHIASLDetgvlnvWvvveLPKADI-SGSMSDlglipgGRIKLVHSTVIQL 823
Cdd:cd00200    65 YLASGSSDKTIRLWDLETGECvrTLTGHTSYVSSVA-------F----SPDGRIlSSSSRD------KTIKVWDVETGKC 127

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469  824 GNSL-SHKDSelwgstqTLSVKFLPSdpNHFVVGtdmGLISHSTRQdWRVSP----RVFKPEQHGVrpikvNVIDFSPfE 898
Cdd:cd00200   128 LTTLrGHTDW-------VNSVAFSPD--GTFVAS---SSQDGTIKL-WDLRTgkcvATLTGHTGEV-----NSVAFSP-D 188

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 568979469  899 ETVFLAGCSDGSIRLHQLTSERPIMQWdnstSGH--AVTSLQWSPTRpAVFLVQDDASRIYVWDL 961
Cdd:cd00200   189 GEKLLSSSSDGTIKLWDLSTGKCLGTL----RGHenGVNSVAFSPDG-YLLASGSEDGTIRVWDL 248
SMC_N pfam02463
RecF/RecN/SMC N terminal domain; This domain is found at the N terminus of SMC proteins. The ...
 75-399 2.83e-05

RecF/RecN/SMC N terminal domain; This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination.


Pssm-ID: 426784 [Multi-domain]  Cd Length: 1161  Bit Score: 48.43  E-value: 2.83e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469    75 HKDSESAAPEYREHKSRdpdREARHKE-KTAERDLYTSTEHPRGERDRERHKERRKDAKDREKDKLKERHRDQ------- 146
Cdd:pfam02463  155 RLEIEEEAAGSRLKRKK---KEALKKLiEETENLAELIIDLEELKLQELKLKEQAKKALEYYQLKEKLELEEEyllyldy 231

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469   147 ---EAEKAHSRGK---DREREKDRRARKEEIRQSMAYHDLLSRDMRGRQMAEKVEK---KASKIRTEERERRDEDSERID 217
Cdd:pfam02463  232 lklNEERIDLLQEllrDEQEEIESSKQEIEKEEEKLAQVLKENKEEEKEKKLQEEElklLAKEEEELKSELLKLERRKVD 311

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469   218 EDRERRYRERKLQYGDSKEHPLSYWLYKEDGEKKHRKAKDADREKRLREKSSMREKRERHAREKGSSLSDREVEDRHREK 297
Cdd:pfam02463  312 DEEKLKESEKEKKKAEKELKKEKEEIEELEKELKELEIKREAEEEEEEELEKLQEKLEQLEEELLAKKKLESERLSSAAK 391

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469   298 RHKEGLHYDDERRRSHADKKERSSKEEH--KKRELKELEKEDNDLEATGPDEYLPNLEDDFVDYEDDFEVCDGDDDSNNE 375
Cdd:pfam02463  392 LKEEELELKSEEEKEAQLLLELARQLEDllKEEKKEELEILEEEEESIELKQGKLTEEKEELEKQELKLLKDELELKKSE 471

                          330       340
                   ....*....|....*....|....
gi 568979469   376 HEAREKAEELPLAQKREIQEIQKA 399
Cdd:pfam02463  472 DLLKETQLVKLQEQLELLLSRQKL 495
MAK16 COG5129
Nuclear protein with HMG-like acidic region [General function prediction only];
243-407 3.99e-04

Nuclear protein with HMG-like acidic region [General function prediction only];


Pssm-ID: 227458 [Multi-domain]  Cd Length: 303  Bit Score: 43.49  E-value: 3.99e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469  243 LYKEDGEKKHRKAKDADREKRLREKSSMREKRERH------AREKGSSLSDREVEDR---------HREKRHKEGLHYDD 307
Cdd:COG5129   126 LFKEHGEYMVRKPKMNRREKLRERKALNAAKFEKNiekelmLRLKSGIYGDTPLNVRehlwnkaatEREKRQDEKERYVE 205

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469  308 ERRRSHADKKERSSKEEHKKRELKELEK--EDNDLEATGPDEylpnleddfvDYEDDFEVCDGDDDSNNEHEAREKAEEL 385
Cdd:COG5129   206 EEEESDTELEAVTDDSEKEKTKKKDLEKwlGSDQSMETSESE----------EEESSESESDEDEDEDNKGKIRKRKTDD 275

                         170       180
                  ....*....|....*....|..
gi 568979469  386 PLAQKREIQEIQKAISAENERV 407
Cdd:COG5129   276 AKKSRKPHIHIEYEQERENEKI 297
 
Name Accession Description Interval E-value
PTZ00121 PTZ00121
MAEBL; Provisional
 48-396 2.73e-11

MAEBL; Provisional


Pssm-ID: 173412 [Multi-domain]  Cd Length: 2084  Bit Score: 68.24  E-value: 2.73e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469   48 KADDLRKHL----KVQSGSPKEEKKLREKKAHKDSESAAPEYREHKSRDPDREARHKEKTAERDLYTSTEHPRGERDRER 123
Cdd:PTZ00121 1432 KADEAKKKAeeakKADEAKKKAEEAKKAEEAKKKAEEAKKADEAKKKAEEAKKADEAKKKAEEAKKKADEAKKAAEAKKK 1511

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469  124 HKERRKDAKDREKDKLK---------------ERHRDQEAEKAHSRGKDREREKDRRARKEEIRQSMAyhdlLSRDMRGR 188
Cdd:PTZ00121 1512 ADEAKKAEEAKKADEAKkaeeakkadeakkaeEKKKADELKKAEELKKAEEKKKAEEAKKAEEDKNMA----LRKAEEAK 1587

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469  189 QMAEK----------VEKKASKIRTEERERRDEDSERIDEDRERRYRERKLQYGDSKEHPLSYWLYKEDGEKKHRKAKDA 258
Cdd:PTZ00121 1588 KAEEArieevmklyeEEKKMKAEEAKKAEEAKIKAEELKKAEEEKKKVEQLKKKEAEEKKKAEELKKAEEENKIKAAEEA 1667

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469  259 DREKRLREKSSMREKRERHAREKGSSLSDREVEDRH---------REKRHKEGLHYDDERRRSHADKKERSSKEEHKK-R 328
Cdd:PTZ00121 1668 KKAEEDKKKAEEAKKAEEDEKKAAEALKKEAEEAKKaeelkkkeaEEKKKAEELKKAEEENKIKAEEAKKEAEEDKKKaE 1747

                         330       340       350       360       370       380
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 568979469  329 ELKELEKEDNDLEATGPDEylpnleddfvdyEDDFEVCDGDDDSNNEHEAREKAEELPLAQKREIQEI 396
Cdd:PTZ00121 1748 EAKKDEEEKKKIAHLKKEE------------EKKAEEIRKEKEAVIEEELDEEDEKRRMEVDKKIKDI 1803
PTZ00121 PTZ00121
MAEBL; Provisional
 48-425 3.17e-10

MAEBL; Provisional


Pssm-ID: 173412 [Multi-domain]  Cd Length: 2084  Bit Score: 64.78  E-value: 3.17e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469   48 KADDLRKHL----KVQSGSPKEEKKLREKKAHKDSESAAPEYREHKSRDPDREARHKEKTAERDLYTSTEHPRGERDRER 123
Cdd:PTZ00121 1419 KADEAKKKAeekkKADEAKKKAEEAKKADEAKKKAEEAKKAEEAKKKAEEAKKADEAKKKAEEAKKADEAKKKAEEAKKK 1498

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469  124 HKERRKdaKDREKDKLKERHRDQEAEKAHSRGKDREREKDRRARK-EEIRQSMAYHDllSRDMRGRQMAEKVEKKASKir 202
Cdd:PTZ00121 1499 ADEAKK--AAEAKKKADEAKKAEEAKKADEAKKAEEAKKADEAKKaEEKKKADELKK--AEELKKAEEKKKAEEAKKA-- 1572

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469  203 teererrdedserideDRERRYRERKLQYGDSKEHPLSYWLYKEDGEKKHRKAKDADREKRLREKSSmREKRERHAREKG 282
Cdd:PTZ00121 1573 ----------------EEDKNMALRKAEEAKKAEEARIEEVMKLYEEEKKMKAEEAKKAEEAKIKAE-ELKKAEEEKKKV 1635

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469  283 SSLSDREVEdrhrEKRHKEGLHYDDERRRSHADKKERSSKEEHKK-RELKELEKEDNDLEATGPDEYLPNLEDDFVDYED 361
Cdd:PTZ00121 1636 EQLKKKEAE----EKKKAEELKKAEEENKIKAAEEAKKAEEDKKKaEEAKKAEEDEKKAAEALKKEAEEAKKAEELKKKE 1711

                         330       340       350       360       370       380
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 568979469  362 DFEVCDGDDDSNNEHEAREKAEELplaqKREIQEIQKaiSAENERVGELSLKMFQKQGWTEYTK 425
Cdd:PTZ00121 1712 AEEKKKAEELKKAEEENKIKAEEA----KKEAEEDKK--KAEEAKKDEEEKKKIAHLKKEEEKK 1769
PTZ00121 PTZ00121
MAEBL; Provisional
 48-409 1.13e-08

MAEBL; Provisional


Pssm-ID: 173412 [Multi-domain]  Cd Length: 2084  Bit Score: 59.77  E-value: 1.13e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469   48 KADDLRKhlKVQSGSPKEEKKLREKKAHKDSESAAPEYREHKSRDPDREARHK---------EKTAERD-LYTSTEHPRG 117
Cdd:PTZ00121 1303 KADEAKK--KAEEAKKADEAKKKAEEAKKKADAAKKKAEEAKKAAEAAKAEAEaaadeaeaaEEKAEAAeKKKEEAKKKA 1380

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469  118 ERDRERHKERRKdaKDREKDKLKERHRDQEAEKAHSRGKDREREKDRRArkEEIRQSmayhDLLSRDMRGRQMAEKVEKK 197
Cdd:PTZ00121 1381 DAAKKKAEEKKK--ADEAKKKAEEDKKKADELKKAAAAKKKADEAKKKA--EEKKKA----DEAKKKAEEAKKADEAKKK 1452

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469  198 ASKIRTEERERRDEDSERIDEDRERRYRERKlQYGDSKEHPLSYWLYKEDGEKKHRKAKDADREKRLREKSSMREKRERH 277
Cdd:PTZ00121 1453 AEEAKKAEEAKKKAEEAKKADEAKKKAEEAK-KADEAKKKAEEAKKKADEAKKAAEAKKKADEAKKAEEAKKADEAKKAE 1531

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469  278 AREKGSSLSDREVEDRHREKRHKEGLHYDDERRRSHADKKERSSKEEHKKR--ELKELEKEdndleatgpdeylpNLEDD 355
Cdd:PTZ00121 1532 EAKKADEAKKAEEKKKADELKKAEELKKAEEKKKAEEAKKAEEDKNMALRKaeEAKKAEEA--------------RIEEV 1597

                         330       340       350       360       370
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 568979469  356 FVDYEDdfEVCDGDDDSNNEHEAREKAEELPLAQK-REIQEIQKAISAENERVGE 409
Cdd:PTZ00121 1598 MKLYEE--EKKMKAEEAKKAEEAKIKAEELKKAEEeKKKVEQLKKKEAEEKKKAE 1650
PTZ00121 PTZ00121
MAEBL; Provisional
 74-426 3.15e-06

MAEBL; Provisional


Pssm-ID: 173412 [Multi-domain]  Cd Length: 2084  Bit Score: 51.68  E-value: 3.15e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469   74 AHKDSESAAPEYREHKSRDPDREARHKEKTAERDLYTSTEHPRGERDRERHKERRKDAKDR---------EKDKLKERHR 144
Cdd:PTZ00121 1092 ATEEAFGKAEEAKKTETGKAEEARKAEEAKKKAEDARKAEEARKAEDARKAEEARKAEDAKrveiarkaeDARKAEEARK 1171

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469  145 DQEAEKAHSRGKDREREKDRRARK-EEIRQSMAyhdllSRDMRGRQMAEKV-----EKKASKIRTEERERRDEDSERIDE 218
Cdd:PTZ00121 1172 AEDAKKAEAARKAEEVRKAEELRKaEDARKAEA-----ARKAEEERKAEEArkaedAKKAEAVKKAEEAKKDAEEAKKAE 1246

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469  219 DRERRYRERKLQYGDSKEHPLSYWLYKEDGEKKHRKAKDADREKRLREKSSMREKRERHarekgsslsdrEVEDRHREKR 298
Cdd:PTZ00121 1247 EERNNEEIRKFEEARMAHFARRQAAIKAEEARKADELKKAEEKKKADEAKKAEEKKKAD-----------EAKKKAEEAK 1315

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469  299 HKEGLHYDDERRRSHADKKERSSKEEHKKREL--KELEKEDNDLEATGPDEYLPNLEDDFVDYEDDfEVCDGDDDSNNEH 376
Cdd:PTZ00121 1316 KADEAKKKAEEAKKKADAAKKKAEEAKKAAEAakAEAEAAADEAEAAEEKAEAAEKKKEEAKKKAD-AAKKKAEEKKKAD 1394

                         330       340       350       360       370
                  ....*....|....*....|....*....|....*....|....*....|
gi 568979469  377 EAREKAEElplaQKREIQEIQKAiSAENERVGELSLKMFQKQGWTEYTKE 426
Cdd:PTZ00121 1395 EAKKKAEE----DKKKADELKKA-AAAKKKADEAKKKAEEKKKADEAKKK 1439
SF-CC1 TIGR01622
splicing factor, CC1-like family; This model represents a subfamily of RNA splicing factors ...
 98-187 1.00e-05

splicing factor, CC1-like family; This model represents a subfamily of RNA splicing factors including the Pad-1 protein (N. crassa), CAPER (M. musculus) and CC1.3 (H.sapiens). These proteins are characterized by an N-terminal arginine-rich, low complexity domain followed by three (or in the case of 4 H. sapiens paralogs, two) RNA recognition domains (rrm: pfam00706). These splicing factors are closely related to the U2AF splicing factor family (TIGR01642). A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the seed.


Pssm-ID: 273721 [Multi-domain]  Cd Length: 494  Bit Score: 49.53  E-value: 1.00e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469    98 RHKEKTAERDLytstehprgERDRERHKERRKDaKDREKDKLKERHRDQEAEKAHSRGKDREREKDRRARKEEIRQSMAY 177
Cdd:TIGR01622    1 RYRDRERERLR---------DSSSAGDRDRRRD-KGRERSRDRSRDRERSRSRRRDRHRDRDYYRGRERRSRSRRPNRRY 70

                           90
                   ....*....|
gi 568979469   178 HDLLSRDMRG 187
Cdd:TIGR01622   71 RPREKRRRRG 80
U2AF_lg TIGR01642
U2 snRNP auxilliary factor, large subunit, splicing factor; These splicing factors consist of ...
 89-174 1.01e-05

U2 snRNP auxilliary factor, large subunit, splicing factor; These splicing factors consist of an N-terminal arginine-rich low complexity domain followed by three tandem RNA recognition motifs (pfam00076). The well-characterized members of this family are auxilliary components of the U2 small nuclear ribonuclearprotein splicing factor (U2AF). These proteins are closely related to the CC1-like subfamily of splicing factors (TIGR01622). Members of this subfamily are found in plants, metazoa and fungi.


Pssm-ID: 273727 [Multi-domain]  Cd Length: 509  Bit Score: 49.51  E-value: 1.01e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469    89 KSRDPDREarhKEKTAERDLYTSTEHPRG-----ERDRERHKE-----RRKDAKDREKDKLKERHRDQEAEKAH--SRGK 156
Cdd:TIGR01642    1 RDEEPDRE---REKSRGRDRDRSSERPRRrsrdrSRFRDRHRRsrersYREDSRPRDRRRYDSRSPRSLRYSSVrrSRDR 77

                           90
                   ....*....|....*...
gi 568979469   157 DREREKDRRARKEEIRQS 174
Cdd:TIGR01642   78 PRRRSRSVRSIEQHRRRL 95
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 673-961 2.56e-05

WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from its N-terminus and the WD dipeptide at its C-terminus and is 40 residues long, hence the name WD40; between GH and WD lies a conserved core; serves as a stable propeller-like platform to which proteins can bind either stably or reversibly; forms a propeller-like structure with several blades where each blade is composed of a four-stranded anti-parallel b-sheet; instances with few detectable copies are hypothesized to form larger structures by dimerization; each WD40 sequence repeat forms the first three strands of one blade and the last strand in the next blade; the last C-terminal WD40 repeat completes the blade structure of the first WD40 repeat to create the closed ring propeller-structure; residues on the top and bottom surface of the propeller are proposed to coordinate interactions with other proteins and/or small ligands; 7 copies of the repeat are present in this alignment.


Pssm-ID: 238121 [Multi-domain]  Cd Length: 289  Bit Score: 47.33  E-value: 2.56e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469  673 ESKVTCCCFSPLKAFLLFAGTvHGSVVVWDLREDSRIHhyvrlsncfwafrtptfstdgilTSVNHRSPLQAI------E 746
Cdd:cd00200     9 TGGVTCVAFSPDGKLLATGSG-DGTIKVWDLETGELLR-----------------------TLKGHTGPVRDVaasadgT 64

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469  747 PVATSAYKKQSFVLSPFSTQE--EMAGLSFHIASLDetgvlnvWvvveLPKADI-SGSMSDlglipgGRIKLVHSTVIQL 823
Cdd:cd00200    65 YLASGSSDKTIRLWDLETGECvrTLTGHTSYVSSVA-------F----SPDGRIlSSSSRD------KTIKVWDVETGKC 127

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469  824 GNSL-SHKDSelwgstqTLSVKFLPSdpNHFVVGtdmGLISHSTRQdWRVSP----RVFKPEQHGVrpikvNVIDFSPfE 898
Cdd:cd00200   128 LTTLrGHTDW-------VNSVAFSPD--GTFVAS---SSQDGTIKL-WDLRTgkcvATLTGHTGEV-----NSVAFSP-D 188

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 568979469  899 ETVFLAGCSDGSIRLHQLTSERPIMQWdnstSGH--AVTSLQWSPTRpAVFLVQDDASRIYVWDL 961
Cdd:cd00200   189 GEKLLSSSSDGTIKLWDLSTGKCLGTL----RGHenGVNSVAFSPDG-YLLASGSEDGTIRVWDL 248
SMC_N pfam02463
RecF/RecN/SMC N terminal domain; This domain is found at the N terminus of SMC proteins. The ...
 75-399 2.83e-05

RecF/RecN/SMC N terminal domain; This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination.


Pssm-ID: 426784 [Multi-domain]  Cd Length: 1161  Bit Score: 48.43  E-value: 2.83e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469    75 HKDSESAAPEYREHKSRdpdREARHKE-KTAERDLYTSTEHPRGERDRERHKERRKDAKDREKDKLKERHRDQ------- 146
Cdd:pfam02463  155 RLEIEEEAAGSRLKRKK---KEALKKLiEETENLAELIIDLEELKLQELKLKEQAKKALEYYQLKEKLELEEEyllyldy 231

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469   147 ---EAEKAHSRGK---DREREKDRRARKEEIRQSMAYHDLLSRDMRGRQMAEKVEK---KASKIRTEERERRDEDSERID 217
Cdd:pfam02463  232 lklNEERIDLLQEllrDEQEEIESSKQEIEKEEEKLAQVLKENKEEEKEKKLQEEElklLAKEEEELKSELLKLERRKVD 311

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469   218 EDRERRYRERKLQYGDSKEHPLSYWLYKEDGEKKHRKAKDADREKRLREKSSMREKRERHAREKGSSLSDREVEDRHREK 297
Cdd:pfam02463  312 DEEKLKESEKEKKKAEKELKKEKEEIEELEKELKELEIKREAEEEEEEELEKLQEKLEQLEEELLAKKKLESERLSSAAK 391

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469   298 RHKEGLHYDDERRRSHADKKERSSKEEH--KKRELKELEKEDNDLEATGPDEYLPNLEDDFVDYEDDFEVCDGDDDSNNE 375
Cdd:pfam02463  392 LKEEELELKSEEEKEAQLLLELARQLEDllKEEKKEELEILEEEEESIELKQGKLTEEKEELEKQELKLLKDELELKKSE 471

                          330       340
                   ....*....|....*....|....
gi 568979469   376 HEAREKAEELPLAQKREIQEIQKA 399
Cdd:pfam02463  472 DLLKETQLVKLQEQLELLLSRQKL 495
U2AF_lg TIGR01642
U2 snRNP auxilliary factor, large subunit, splicing factor; These splicing factors consist of ...
 119-186 3.10e-05

U2 snRNP auxilliary factor, large subunit, splicing factor; These splicing factors consist of an N-terminal arginine-rich low complexity domain followed by three tandem RNA recognition motifs (pfam00076). The well-characterized members of this family are auxilliary components of the U2 small nuclear ribonuclearprotein splicing factor (U2AF). These proteins are closely related to the CC1-like subfamily of splicing factors (TIGR01622). Members of this subfamily are found in plants, metazoa and fungi.


Pssm-ID: 273727 [Multi-domain]  Cd Length: 509  Bit Score: 47.97  E-value: 3.10e-05
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 568979469   119 RDRERHKERrKDAKDREKDKLKERHRDQEAEKAHSRGKDREREKDRRARKEEIRQSMAYHDLLSRDMR 186
Cdd:TIGR01642    1 RDEEPDRER-EKSRGRDRDRSSERPRRRSRDRSRFRDRHRRSRERSYREDSRPRDRRRYDSRSPRSLR 67
PTZ00121 PTZ00121
MAEBL; Provisional
 96-425 3.18e-05

MAEBL; Provisional


Pssm-ID: 173412 [Multi-domain]  Cd Length: 2084  Bit Score: 48.21  E-value: 3.18e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469   96 EARHKEKTAERDLYTSTEHPRGERDRERHKERRKDAKDRekdKLKERHRDQEAEKAHSRGKDRE-REKDRRARK-EEIRQ 173
Cdd:PTZ00121 1174 DAKKAEAARKAEEVRKAEELRKAEDARKAEAARKAEEER---KAEEARKAEDAKKAEAVKKAEEaKKDAEEAKKaEEERN 1250

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469  174 SMAYHDLLSRDMRG---RQMAEKVE--------KKASKIRTEERERRDEDSERIDEDRERRYRERKLQYGDSK--EHPLS 240
Cdd:PTZ00121 1251 NEEIRKFEEARMAHfarRQAAIKAEearkadelKKAEEKKKADEAKKAEEKKKADEAKKKAEEAKKADEAKKKaeEAKKK 1330

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469  241 YWLYKEDGEKKHRKA--------KDADREKRLREKSSMREKRERHAREKGSSLSDREVEDRHRE---KRHKEGLHYDDER 309
Cdd:PTZ00121 1331 ADAAKKKAEEAKKAAeaakaeaeAAADEAEAAEEKAEAAEKKKEEAKKKADAAKKKAEEKKKADeakKKAEEDKKKADEL 1410

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469  310 RRSHADKK--ERSSKEEHKKRELKELEKEDNdlEATGPDEYLPNLEDDfvdyEDDFEVCDGDDDSNNEHEAREKAEElpl 387
Cdd:PTZ00121 1411 KKAAAAKKkaDEAKKKAEEKKKADEAKKKAE--EAKKADEAKKKAEEA----KKAEEAKKKAEEAKKADEAKKKAEE--- 1481

                         330       340       350
                  ....*....|....*....|....*....|....*...
gi 568979469  388 aqKREIQEIQKAISAENERVGELSLKMFQKQGWTEYTK 425
Cdd:PTZ00121 1482 --AKKADEAKKKAEEAKKKADEAKKAAEAKKKADEAKK 1517
DDRGK pfam09756
DDRGK domain; This is a family of proteins of approximately 300 residues, found in plants and ...
 245-359 1.84e-04

DDRGK domain; This is a family of proteins of approximately 300 residues, found in plants and vertebrates. They contain a highly conserved DDRGK motif.


Pssm-ID: 370664 [Multi-domain]  Cd Length: 188  Bit Score: 43.49  E-value: 1.84e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469   245 KEDGEKKHRKAKDADREKRLREKssmrEKRERHAREKGSSLSDREVEDRhREKRHKEGLHYDDERRRSHADKKERSSKEE 324
Cdd:pfam09756    1 KKLGAKKRAKLELKEAKRQQREA----EEEEREEREKLEEKREEEYKER-EEREEEAEKEKEEEERKQEEEQERKEQEEY 75

                           90       100       110
                   ....*....|....*....|....*....|....*
gi 568979469   325 HKKRELKELEKEDNDLEATgpdEYLPNLEDDFVDY 359
Cdd:pfam09756   76 EKLKSQFVVEEEGTDKLSA---EDESQLLEDFINY 107
MAK16 COG5129
Nuclear protein with HMG-like acidic region [General function prediction only];
243-407 3.99e-04

Nuclear protein with HMG-like acidic region [General function prediction only];


Pssm-ID: 227458 [Multi-domain]  Cd Length: 303  Bit Score: 43.49  E-value: 3.99e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469  243 LYKEDGEKKHRKAKDADREKRLREKSSMREKRERH------AREKGSSLSDREVEDR---------HREKRHKEGLHYDD 307
Cdd:COG5129   126 LFKEHGEYMVRKPKMNRREKLRERKALNAAKFEKNiekelmLRLKSGIYGDTPLNVRehlwnkaatEREKRQDEKERYVE 205

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469  308 ERRRSHADKKERSSKEEHKKRELKELEK--EDNDLEATGPDEylpnleddfvDYEDDFEVCDGDDDSNNEHEAREKAEEL 385
Cdd:COG5129   206 EEEESDTELEAVTDDSEKEKTKKKDLEKwlGSDQSMETSESE----------EEESSESESDEDEDEDNKGKIRKRKTDD 275

                         170       180
                  ....*....|....*....|..
gi 568979469  386 PLAQKREIQEIQKAISAENERV 407
Cdd:COG5129   276 AKKSRKPHIHIEYEQERENEKI 297
U2AF_lg TIGR01642
U2 snRNP auxilliary factor, large subunit, splicing factor; These splicing factors consist of ...
 259-328 5.80e-04

U2 snRNP auxilliary factor, large subunit, splicing factor; These splicing factors consist of an N-terminal arginine-rich low complexity domain followed by three tandem RNA recognition motifs (pfam00076). The well-characterized members of this family are auxilliary components of the U2 small nuclear ribonuclearprotein splicing factor (U2AF). These proteins are closely related to the CC1-like subfamily of splicing factors (TIGR01622). Members of this subfamily are found in plants, metazoa and fungi.


Pssm-ID: 273727 [Multi-domain]  Cd Length: 509  Bit Score: 43.73  E-value: 5.80e-04
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 568979469   259 DREK-RLREKSSMREK---RERHAREKGSSLSDReveDRHREKRHKEGLHYDDERRRSHADKKERSSKEEHKKR 328
Cdd:TIGR01642    2 DEEPdREREKSRGRDRdrsSERPRRRSRDRSRFR---DRHRRSRERSYREDSRPRDRRRYDSRSPRSLRYSSVR 72
Smc COG1196
Chromosome segregation ATPase Smc [Cell cycle control, cell division, chromosome partitioning]; ...
 96-392 7.13e-04

Chromosome segregation ATPase Smc [Cell cycle control, cell division, chromosome partitioning];


Pssm-ID: 440809 [Multi-domain]  Cd Length: 983  Bit Score: 43.77  E-value: 7.13e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469   96 EARHKEKTAERDLYTStEHPRGERDRERHKERRKDAKDR------EKDKLKERHRDQEAEKAHSRGKDREREKDRRARKE 169
Cdd:COG1196   280 ELELEEAQAEEYELLA-ELARLEQDIARLEERRRELEERleeleeELAELEEELEELEEELEELEEELEEAEEELEEAEA 358

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469  170 EIRQSMAYHDLLSRDMRGRQmAEKVEKKASKIRTEERERRDEDSERIDEDRERRYRERKLQYGDSKEHplsywlyKEDGE 249
Cdd:COG1196   359 ELAEAEEALLEAEAELAEAE-EELEELAEELLEALRAAAELAAQLEELEEAEEALLERLERLEEELEE-------LEEAL 430

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469  250 KKHRKAKDADREKRLREKSSMREKRERHAREKGSSLSDREVEDRHREKRHKEGLHYDDERRRSHADKKERSSkEEHKKRE 329
Cdd:COG1196   431 AELEEEEEEEEEALEEAAEEEAELEEEEEALLELLAELLEEAALLEAALAELLEELAEAAARLLLLLEAEAD-YEGFLEG 509

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 568979469  330 LKELEKEDNdleATGPDEYLPNLEDDFVDYEDDFEVCDGDDDSNNEHEAREKAEELPLAQKRE 392
Cdd:COG1196   510 VKAALLLAG---LRGLAGAVAVLIGVEAAYEAALEAALAAALQNIVVEDDEVAAAAIEYLKAA 569
SF-CC1 TIGR01622
splicing factor, CC1-like family; This model represents a subfamily of RNA splicing factors ...
 244-355 1.07e-03

splicing factor, CC1-like family; This model represents a subfamily of RNA splicing factors including the Pad-1 protein (N. crassa), CAPER (M. musculus) and CC1.3 (H.sapiens). These proteins are characterized by an N-terminal arginine-rich, low complexity domain followed by three (or in the case of 4 H. sapiens paralogs, two) RNA recognition domains (rrm: pfam00706). These splicing factors are closely related to the U2AF splicing factor family (TIGR01642). A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the seed.


Pssm-ID: 273721 [Multi-domain]  Cd Length: 494  Bit Score: 42.98  E-value: 1.07e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469   244 YKEDGEKKHRKAKDADREKRLREKSSMREKRERHAREKGSSLSDREVEDRHREKRHKEGLHYDDERRRSHADKKERSSKE 323
Cdd:TIGR01622    2 YRDRERERLRDSSSAGDRDRRRDKGRERSRDRSRDRERSRSRRRDRHRDRDYYRGRERRSRSRRPNRRYRPREKRRRRGD 81

                           90       100       110
                   ....*....|....*....|....*....|..
gi 568979469   324 EHKKRELKELEKEDNDLEATGPDEYLPNLEDD 355
Cdd:TIGR01622   82 SYRRRRDDRRSRREKPRARDGTPEPLTEDERD 113
DUF5401 pfam17380
Family of unknown function (DUF5401); This is a family of unknown function found in ...
 110-335 1.23e-03

Family of unknown function (DUF5401); This is a family of unknown function found in Chromadorea.


Pssm-ID: 375164 [Multi-domain]  Cd Length: 722  Bit Score: 42.80  E-value: 1.23e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469   110 TSTEHPRGERDRERHKERRKDAKDREKDKLKERHRDQEAEKA--------------HSR-GKDREREKDR---------- 164
Cdd:pfam17380  283 AVSERQQQEKFEKMEQERLRQEKEEKAREVERRRKLEEAEKArqaemdrqaaiyaeQERmAMERERELERirqeerkrel 362

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469   165 -RARKEEIRQSMAYHDLLSR-DMRGRQMAEKVE---------KKASKIRTEERERRDEDSERIDEDRERRYRERKLQYGD 233
Cdd:pfam17380  363 eRIRQEEIAMEISRMRELERlQMERQQKNERVRqeleaarkvKILEEERQRKIQQQKVEMEQIRAEQEEARQREVRRLEE 442

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469   234 SKEHPLSYwLYKEDGEKKHRKAK-DADREKRLREKSSM-REKRERH-AREKGSSLSDREVEDRHR----EKRHKEGLHYD 306
Cdd:pfam17380  443 ERAREMER-VRLEEQERQQQVERlRQQEEERKRKKLELeKEKRDRKrAEEQRRKILEKELEERKQamieEERKRKLLEKE 521

                          250       260
                   ....*....|....*....|....*....
gi 568979469   307 DERRRSHADKKERSSKEEHKKRELKELEK 335
Cdd:pfam17380  522 MEERQKAIYEEERRREAEEERRKQQEMEE 550
Caldesmon pfam02029
Caldesmon;
86-342 2.13e-03

Caldesmon;


Pssm-ID: 460421 [Multi-domain]  Cd Length: 495  Bit Score: 41.78  E-value: 2.13e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469    86 REHKSRDPDREARHKEKTAERDLYT-----------STEHPRGERDRERHKERR-----KDAKDREKDK----------- 138
Cdd:pfam02029   21 RQKEEEEPSGQVTESVEPNEHNSYEedselkpsgqgGLDEEEAFLDRTAKREERrqkrlQEALERQKEFdptiadekesv 100

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469   139 -LKERHRDQEAEKAHSRGKDREREKDRRARKEEIRQSMAYHDLLSRDmRGRQMAEKVEKKASKIRTEERERRDEDSERID 217
Cdd:pfam02029  101 aERKENNEEEENSSWEKEEKRDSRLGRYKEEETEIREKEYQENKWST-EVRQAEEEGEEEEDKSEEAEEVPTENFAKEEV 179

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469   218 EDRERR------------------YRERKLQYGDSKEHPLSYWLYKEDGEKKHRKAKDADREKRLREKSSMREKRERHA- 278
Cdd:pfam02029  180 KDEKIKkekkvkyeskvfldqkrgHPEVKSQNGEEEVTKLKVTTKRRQGGLSQSQEREEEAEVFLEAEQKLEELRRRRQe 259

                          250       260       270       280       290       300       310
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 568979469   279 --REKGSSLSDREVE--------DRHREKRHKEglhYDDERRRSHADKKERSSKEEHKKRELKElEKEDNDLEA 342
Cdd:pfam02029  260 keSEEFEKLRQKQQEaeleleelKKKREERRKL---LEEEEQRRKQEEAERKLREEEEKRRMKE-EIERRRAEA 329
PRK03918 PRK03918
DNA double-strand break repair ATPase Rad50;
245-410 2.48e-03

DNA double-strand break repair ATPase Rad50;


Pssm-ID: 235175 [Multi-domain]  Cd Length: 880  Bit Score: 41.97  E-value: 2.48e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469  245 KEDGEKKHRKAKDADREKRLREKSSMREKRERHAREKGSSLSDREVEDRHREKrHKEGLHYD-DERRRSHADKKERSSKE 323
Cdd:PRK03918  200 KELEEVLREINEISSELPELREELEKLEKEVKELEELKEEIEELEKELESLEG-SKRKLEEKiRELEERIEELKKEIEEL 278

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469  324 EHKKRELKELEKEDndleatgpDEY--LPNLEDDFVDYEDDFEVCDGDDDSNNEhEAREKAEELPlAQKREIQEIQKAIS 401
Cdd:PRK03918  279 EEKVKELKELKEKA--------EEYikLSEFYEEYLDELREIEKRLSRLEEEIN-GIEERIKELE-EKEERLEELKKKLK 348


                  ....*....
gi 568979469  402 AENERVGEL 410
Cdd:PRK03918  349 ELEKRLEEL 357
U2AF_lg TIGR01642
U2 snRNP auxilliary factor, large subunit, splicing factor; These splicing factors consist of ...
 118-180 4.78e-03

U2 snRNP auxilliary factor, large subunit, splicing factor; These splicing factors consist of an N-terminal arginine-rich low complexity domain followed by three tandem RNA recognition motifs (pfam00076). The well-characterized members of this family are auxilliary components of the U2 small nuclear ribonuclearprotein splicing factor (U2AF). These proteins are closely related to the CC1-like subfamily of splicing factors (TIGR01622). Members of this subfamily are found in plants, metazoa and fungi.


Pssm-ID: 273727 [Multi-domain]  Cd Length: 509  Bit Score: 40.65  E-value: 4.78e-03
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 568979469   118 ERDRERHKERRKDaKDREKDKLKERHRDQEAEKA-HSRGKDREREKDRRARKEEIRQSMAYHDL 180
Cdd:TIGR01642    4 EPDREREKSRGRD-RDRSSERPRRRSRDRSRFRDrHRRSRERSYREDSRPRDRRRYDSRSPRSL 66
U2AF_lg TIGR01642
U2 snRNP auxilliary factor, large subunit, splicing factor; These splicing factors consist of ...
 132-282 5.62e-03

U2 snRNP auxilliary factor, large subunit, splicing factor; These splicing factors consist of an N-terminal arginine-rich low complexity domain followed by three tandem RNA recognition motifs (pfam00076). The well-characterized members of this family are auxilliary components of the U2 small nuclear ribonuclearprotein splicing factor (U2AF). These proteins are closely related to the CC1-like subfamily of splicing factors (TIGR01622). Members of this subfamily are found in plants, metazoa and fungi.


Pssm-ID: 273727 [Multi-domain]  Cd Length: 509  Bit Score: 40.65  E-value: 5.62e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469   132 KDREKDKLKERHRDQEAEKAHSRGKDREREKDR-RARKEEIRQSMAYHDLLSRDMRgrqmaekvekkaskirteererrd 210
Cdd:TIGR01642    1 RDEEPDREREKSRGRDRDRSSERPRRRSRDRSRfRDRHRRSRERSYREDSRPRDRR------------------------ 56

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 568979469   211 edseridedrerryrerklQYGDSKEHPLSYWLYKEDGEKKHRKAKDADR----EKRLREKSSMREKRERHAREKG 282
Cdd:TIGR01642   57 -------------------RYDSRSPRSLRYSSVRRSRDRPRRRSRSVRSieqhRRRLRDRSPSNQWRKDDKKRSL 113
DUF5401 pfam17380
Family of unknown function (DUF5401); This is a family of unknown function found in ...
 125-345 8.17e-03

Family of unknown function (DUF5401); This is a family of unknown function found in Chromadorea.


Pssm-ID: 375164 [Multi-domain]  Cd Length: 722  Bit Score: 40.11  E-value: 8.17e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469   125 KERRKDAKDREKDKLKERHRDQEAEKAHSRGKDREREKD-RRARKEEIRQSMAYHDLlsRDMRGRQMAEKVEKKASKirt 203
Cdd:pfam17380  409 EERQRKIQQQKVEMEQIRAEQEEARQREVRRLEEERAREmERVRLEEQERQQQVERL--RQQEEERKRKKLELEKEK--- 483

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568979469   204 eererrdedseriDEDRERRYRERKLQYGDSKEHplsywlyKEDGEKKHRKAKDADREKRLREKSSMREKRERHAREKgs 283
Cdd:pfam17380  484 -------------RDRKRAEEQRRKILEKELEER-------KQAMIEEERKRKLLEKEMEERQKAIYEEERRREAEEE-- 541

                          170       180       190       200       210       220
                   ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 568979469   284 SLSDREVEDRHREKrhKEGLHYDDERRRSHADKKERsskeeHKKRELKELEKEDNDLEATGP 345
Cdd:pfam17380  542 RRKQQEMEERRRIQ--EQMRKATEERSRLEAMERER-----EMMRQIVESEKARAEYEATTP 596
 
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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