Citrus Sinensis ID: 048095

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-----
Protein Sequence
MKTRTNEIRGFNLKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNCELECKQQQLGLAQSEEDLLKNSLKNSIEHWSQKLNLTKEELSLLQKSIRECKGELDSKERQLAVVQKRIGECNNELQLKENELNLVKTVVEHCLQKLNLKKEELSLLQKSNGEWNGQLECGERQLELRLEPESGIKDCSQQIELKEKKLRQIQSSIEECEKELAIKERHISDYEEKLKAKEKLYDEIKKSIKELESAKKELEQPKSLTDNEETRLLSLQSMNNGRSLQLILNQHLQKHDLIFGQISQTLTKACDPALLVLDAMQGFYPPHSRKGDMEFDVSIIKRTCILLLEQLSNIAPDINPQVRDEAMKMAGEWKKKMGVIGENSLEVLGFLHLLAAYRLAPAFDGNELESLLDIVAHYRQTAKLRQSLGFADKVTVVPWSSIGMDQAENSRMNHGIGPAVFREQLQLQNYNKRPRMEPSTK
Secondary Structure (PSIPRED)
cccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHccccccccccccHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccHHHHHHHHHHHccccHHHHHHHHHHccccccccccccc
Secondary Structure Prediction (SSPRO)
cccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHcccccccccccccccHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHcccHHHccHHHHHHHcccHHHHHHHHccccHHHHHHHHHHHHcccccccccccc
Coil and Loop (DISEMBL)
mktrtneirgfnlkLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNCELECKQQQLGLAQSEEDLLKNSLKNSIEHWSQKLNLTKEELSLLQKSIRECKGELDSKERQLAVVQKRIGECNNELQLKENELNLVKTVVEHCLQKLNLKKEELSLLQKsngewngqlecgerqlelrlepesgikdCSQQIELKEKKLRQIQSSIEECEKELAIKERHISDYEEKLKAKEKLYDEIKKSIKELESAKKeleqpksltdnEETRLLSLQSMNNGRSLQLILNQHLQKHDLIFGQISQTLTKACDPALLVLDAmqgfypphsrkgdmefDVSIIKRTCILLLEQlsniapdinpqVRDEAMKMAGEWKKKMGVIGENSLEVLGFLHLLAAYrlapafdgneLESLLDIVAHYRQTAKLRQslgfadkvtvvpwssigmdqaensrmnhgigpaVFREQLQLqnynkrprmepstk
Flexible Loop (DISEMBL)
mktrtneirgfnlklqckeRQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNCELECKQQQLGLAQSEEDLLKNSLKNSIEHWSQKLNLTKEELSLLQKSIRECKGELDSKERQLAVVQKRIGECNNELQLKENELNLVKTVVEHCLQKLNLKKEELSLLQKSNGEWNGQLECGERQLELRLEPESGIKDCSQQIELKEKKLRQIQSSIEECEKELAIKERHISDYEEKLKAKEKLYDEIKKSIKELEsakkeleqpksltdneETRLLSLQSMNNGRSLQLILNQHLQKHDLIFGQISQTLTKACDPALLVLDAMQGFYPPHSRKGDMEFDVSIIKRTCILLLEQlsniapdinpqVRDEAMKMAGEWKKKMGVIGENSLEVLGFLHLLAAYRLAPAFDGNELESLLDIVAHYRQTAKLrqslgfadkVTVVPWSSIGMDQAENSRMNHGIGPAVFreqlqlqnynkrprmepstk
Low Complexity Region (SEG)
MKTRTNEIRGFNLKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNCELECKQQQLGLAQSEEDLLKNSLKNSIEHWSQKLNLTKEELSLLQKSIRECKGELDSKERQLAVVQKRIGecnnelqlkenelnlVKTVVEHClqklnlkkeelsllqksnGEWNGQLECGERQLELRLEPESGIKDCSQQIELKEKKLRQIQSSIEECEKELAIKERHISdyeeklkakeklydeIKKSIKELESAKKELEQPKSLTDNEETRLLSLQSMNNGRSLQLILNQHLQKHDLIFGQISQTLTKACDPALLVLDAMQGFYPPHSRKGDMEFDVSIIKRTCILLLEQLSNIAPDINPQVRDEAMKMAGEWKKKMGVIGENSLEVLGFLHLLAAYRLAPAFDGNELESLLDIVAHYRQTAKLRQSLGFADKVTVVPWSSIGMDQAENSRMNHGIGPAVFREQLQLQNYNKRPRMEPSTK
Disordered region (IsUnstruct)
********RGFNLKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNG****************************ELGLLQKRVGECNCELECKQQQL********************W*******************************LAVVQKRIGECNNELQLKENELNLVKTVVEHCLQKLNLKKEELSLL******WN**************************************************************************************************************SLQLILNQHLQKHDLIFGQISQTLTKACDPALLVLDAMQGFYPPHSRKGDMEFDVSIIKRTCILLLEQLSNIAPDINPQVRDEAMKMAGEWKKKMGVIGENSLEVLGFLHLLAAYRLAPAFDGNELESLLDIVAHYRQTAKLRQSLGFADKVTVVPWSSIGM*************************************
Disordered Region (DISOPRED)
****TNE****************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************RTCILLLEQ******************MAGEWK**M******SLEVLGFLHLLAAYRLAPAFDGNELESLLDIVAHYRQTAKLRQSLGFADKVTVVPWSSIGMDQAENSRMNHGIGPAVFREQLQLQN************
Disordered Region (DISEMBL)
MKTRTNEIRGFNLKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEK*********QSKEIELGLLQKRVGECNCELECKQQQLGLAQSEEDLLKNSLKNSIEHWSQKLNLTKEELSLLQKSIRECKGELDSKERQLAVVQKRIGECNNELQLKENELNLVKTVVEHCLQKLNLKKEELSLLQKSNGEWNGQLECGERQLELRLEPESGIKDCSQQIELKEKKLRQIQSSIEECEKELAIKERHISDYEEKLKAKEKLYDEIKKSIKELESAKKELEQPKSLTDNEETRLLSLQSMNNGRSLQLILNQHLQKHDLIFGQISQTLTKACDPALLVLDAMQGFYPPHSRKGDMEFDVSIIKRTCILLLEQLSNIAPDINPQVRDEAMKMAGEWKKKMGVIGENSLEVLGFLHLLAAYRLAPAFDGNELESLLDIVAHYRQTAKLRQSLGFADKVTVVPWSSIGMDQAENSRMNHGIGPAVFREQLQLQNYN**********
Disordered Region (DISPRO)
**TRTNEIRGFNLKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNCELECKQQQLGLAQSEEDLLKNSLKNSIEHWSQKLNLTKEELSLLQKSIRECKGELDSKERQLAVVQKRIGECNNELQLKENELNLVKTVVEHCLQKLNLKKEELSLLQKSNGEWNGQLECGERQLELRLEPESGIKDCSQQIELKEKKLRQIQSSIEECEKELAIKERHISDYEEKLKAKEKLYDEIKKSIKELESAKKELEQ*KSLTDNEETRLLSLQSMNNGRSLQLILNQHLQKHDLIFGQISQTLTKACDPALLVLDAMQGFYPPHSRKGDMEFDVSIIKRTCILLLEQLSNIAPDINPQVRDEAMKMAGEWKKKMGVIGENSLEVLGFLHLLAAYRLAPAFDGNELESLLDIVAHYRQTAKLRQSLGFADKVTVVPWSSIGMDQAENSRMNHGIGPAVFREQLQLQNYNK*********
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MKTRTNExxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxIEECNSELWCKEKELGLVQKRIRGCNGExxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxVGECNCELECKQQQLGLAQSEEDLLxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxLNLVKTVVEHCLQKLNLKKEELSLLQKSNGEWNGQLECGERQLELRLEPESGxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxKSLTDNEETRLLSLQSMNNGRSLQLILNQHLQKHDLIFGQISQTLTKACDPALLVLDAMQGFYPPHSRKGDMEFDVSIIKRTCILLLEQLSNIAPDINPQVRDEAMKMAGEWKKKMGVIGENSLEVLGFLHLLAAYRLAPAFDGNELESLLDIVAHYRQTAKLRQSLGFADKVTVVPWSSIGMDQAENSRMNHGIGPAVFREQLQLQNYNKRPRMEPSTK
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

No hits with e-value below 0.001 by BLAST

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	535
449466953	1145	PREDICTED: uncharacterized protein LOC10	0.928	0.434	0.297	2e-42
449524874	888	PREDICTED: uncharacterized LOC101218416,	0.928	0.559	0.297	4e-42
255542460	716	Protein FRIGIDA, putative [Ricinus commu	0.628	0.469	0.343	9e-42
224130844	1006	predicted protein [Populus trichocarpa]	0.820	0.436	0.311	2e-40
147767145	1701	hypothetical protein VITISV_031269 [Viti	0.285	0.089	0.503	2e-37
224130848	954	predicted protein [Populus trichocarpa]	0.749	0.420	0.326	4e-37
224130856	1033	predicted protein [Populus trichocarpa]	0.289	0.150	0.483	6e-36
224130872	168	predicted protein [Populus trichocarpa]	0.289	0.922	0.490	5e-34
297813019	1191	predicted protein [Arabidopsis lyrata su	0.902	0.405	0.307	7e-31
356541044	885	PREDICTED: uncharacterized protein LOC10	0.854	0.516	0.277	9e-31

>gi|449466953|ref|XP_004151190.1| PREDICTED: uncharacterized protein LOC101218416 [Cucumis sativus]

 Score =  179 bits (455), Expect = 2e-42,   Method: Compositional matrix adjust.
 Identities = 172/578 (29%), Positives = 286/578 (49%), Gaps = 81/578 (14%)

Query: 15  LQCKERQLRFLEKRIGESKGELALVQKEIEECNS-------ELWCKEKELGLVQKRIRGC 67
           ++ KE++L  + + I E   E  L +K +E   +       EL  KEK+   +Q  I+  
Sbjct: 175 MELKEQKLNGVMQLIEERLMECELKEKSVESIRALLRNHEEELAIKEKQFDAIQMAIKDS 234

Query: 68  NGELQS----------------KQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNC 111
           NGEL+                 K+  L  +EK I+    EL  KE E  ++  ++G  + 
Sbjct: 235 NGELKLKEKELETIQNMIATKWKEKRLDKIEKTIKVRTEELDLKEQEFDVMWSKLGALSE 294

Query: 112 ELECKQQQLGLAQSEEDLLKNSLKNSIEHWSQKLNLTKEELSLLQKSIRECKGELDSKER 171
           +L  K+ +L            S+K+ I+  S++L++ +++L   Q+SIR+C+  +     
Sbjct: 295 DLLSKESEL-----------ESIKSCIKEHSKELDVQEKQLDGTQQSIRDCQNAVMMLTN 343

Query: 172 QLAVVQKRIGECNNELQLKENELNLVK-TV--------------------VEHCLQKLNL 210
            ++ ++K I EC+ E +L+EN  + +K TV                    V+ CL+ L  
Sbjct: 344 YVSTIEKAIIECSKEWELEENHHHSLKETVDGNSNDFSSVVEQHGSISLTVDKCLEGLKS 403

Query: 211 KKEELSLLQKSNGEWNGQLECGERQLELRLEPESGIKDCSQQIELKE-KKLRQIQSS--- 266
           +KE  + L+K   E +  LE  E   + R+E E   KD    + LKE + L+    S   
Sbjct: 404 QKEHFNALRKFIEERSKYLENVENNFKRRME-ELNKKDEKVSLYLKEIESLKADMDSQIL 462

Query: 267 -IEECEKELAIKERHISDYEEKLKAKEKLYDEIKKSIKELESAKKELEQPKSL------- 318
            +E+  +EL +KE      +E+L++KEK  + ++  I++     K ++ P +L       
Sbjct: 463 LLEKDREELRLKEIQHKAPDEELESKEKEINLVRALIQKCNEKVKLIDDPNNLHLQVKTE 522

Query: 319 ------TDNEETRLLSLQSMNNGRSLQLILNQHLQKHDLIFGQISQTLTKACDPALLVLD 372
                   +  T      S  +G+ L  +L +HL+ HDL+  ++  TL  + DPA LVLD
Sbjct: 523 ESGCKPAGSSNTLHFPTGSALDGKLLLALLCEHLKLHDLVRAELMITLKASSDPAKLVLD 582

Query: 373 AMQGFYPPHSRKGDMEFDVSIIKRTCILLLEQLSNIAPDINPQVRDEAMKMAGEWKKKMG 432
           AM+ FYP H+   D + D   +KR CI L E L N +P I P +++EA+++AG WK K+ 
Sbjct: 583 AMRWFYPTHTESKDAKIDFYNVKRGCIFLSELLLNFSPKITPPLKEEALRLAGLWKAKLV 642

Query: 433 VIGENSLEVLGFLHLLAAYRLAPAFDGNELESLLDIVAHYRQTAKLRQSLGFADK---VT 489
           +  EN  EV+ FL L+A +RLA  F+  EL+ LL+ V+ Y+Q  +L ++LG  DK   V 
Sbjct: 643 MPVENHAEVVAFLLLVANFRLASNFNAGELQILLNSVSQYKQAFELSRALGIGDKSSEVN 702

Query: 490 VVPWSSIGMDQAENSRMNHGIGPAVFREQLQLQNYNKR 527
             P  S+     E  + N G+  +   EQL ++   KR
Sbjct: 703 ATPTPSL----VELEQPNEGLVFSSKNEQLSMEPNEKR 736

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449524874|ref|XP_004169446.1| PREDICTED: uncharacterized LOC101218416, partial [Cucumis sativus]

 Score =  179 bits (454), Expect = 4e-42,   Method: Compositional matrix adjust.
 Identities = 172/578 (29%), Positives = 286/578 (49%), Gaps = 81/578 (14%)

Query: 15  LQCKERQLRFLEKRIGESKGELALVQKEIEECNS-------ELWCKEKELGLVQKRIRGC 67
           ++ KE++L  + + I E   E  L +K +E   +       EL  KEK+   +Q  I+  
Sbjct: 175 MELKEQKLNGVMQLIEERLMECELKEKSVESIRALLRNHEEELAIKEKQFDAIQMAIKDS 234

Query: 68  NGELQS----------------KQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNC 111
           NGEL+                 K+  L  +EK I+    EL  KE E  ++  ++G  + 
Sbjct: 235 NGELKLKEKELETIQNMIATKWKEKRLDKIEKTIKVRTEELDLKEQEFDVMWSKLGALSE 294

Query: 112 ELECKQQQLGLAQSEEDLLKNSLKNSIEHWSQKLNLTKEELSLLQKSIRECKGELDSKER 171
           +L  K+ +L            S+K+ I+  S++L++ +++L   Q+SIR+C+  +     
Sbjct: 295 DLLSKESEL-----------ESIKSCIKEHSKELDVQEKQLDGTQQSIRDCQNAVMMLTN 343

Query: 172 QLAVVQKRIGECNNELQLKENELNLVK-TV--------------------VEHCLQKLNL 210
            ++ ++K I EC+ E +L+EN  + +K TV                    V+ CL+ L  
Sbjct: 344 YVSTIEKAIIECSKEWELEENHHHSLKETVDGNSNDFSSVVEQHGSISLTVDKCLEGLKS 403

Query: 211 KKEELSLLQKSNGEWNGQLECGERQLELRLEPESGIKDCSQQIELKE-KKLRQIQSS--- 266
           +KE  + L+K   E +  LE  E   + R+E E   KD    + LKE + L+    S   
Sbjct: 404 QKEHFNALRKFIEERSKYLENVENNFKRRME-ELNKKDEKVSLYLKEIESLKADMDSQIL 462

Query: 267 -IEECEKELAIKERHISDYEEKLKAKEKLYDEIKKSIKELESAKKELEQPKSL------- 318
            +E+  +EL +KE      +E+L++KEK  + ++  I++     K ++ P +L       
Sbjct: 463 LLEKDREELRLKEIQHKAPDEELESKEKEINLVRALIQKCNEKVKLIDDPNNLHLQVKTE 522

Query: 319 ------TDNEETRLLSLQSMNNGRSLQLILNQHLQKHDLIFGQISQTLTKACDPALLVLD 372
                   +  T      S  +G+ L  +L +HL+ HDL+  ++  TL  + DPA LVLD
Sbjct: 523 ESGCKPAGSSNTLHFPTGSALDGKLLLALLCEHLKLHDLVRAELMITLKASSDPAKLVLD 582

Query: 373 AMQGFYPPHSRKGDMEFDVSIIKRTCILLLEQLSNIAPDINPQVRDEAMKMAGEWKKKMG 432
           AM+ FYP H+   D + D   +KR CI L E L N +P I P +++EA+++AG WK K+ 
Sbjct: 583 AMRWFYPTHTESKDAKIDFYNVKRGCIFLSELLLNFSPKITPPLKEEALRLAGLWKAKLV 642

Query: 433 VIGENSLEVLGFLHLLAAYRLAPAFDGNELESLLDIVAHYRQTAKLRQSLGFADK---VT 489
           +  EN  EV+ FL L+A +RLA  F+  EL+ LL+ V+ Y+Q  +L ++LG  DK   V 
Sbjct: 643 MPVENHAEVVAFLLLVANFRLASNFNAGELQILLNSVSQYKQAFELSRALGIGDKSSEVN 702

Query: 490 VVPWSSIGMDQAENSRMNHGIGPAVFREQLQLQNYNKR 527
             P  S+     E  + N G+  +   EQL ++   KR
Sbjct: 703 ATPTPSL----VELEQPNEGLVFSSKNEQLSMEPNEKR 736

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255542460|ref|XP_002512293.1| Protein FRIGIDA, putative [Ricinus communis] gi|223548254|gb|EEF49745.1| Protein FRIGIDA, putative [Ricinus communis]

 Score =  177 bits (450), Expect = 9e-42,   Method: Compositional matrix adjust.
 Identities = 128/373 (34%), Positives = 212/373 (56%), Gaps = 37/373 (9%)

Query: 145 LNLTKEELSLLQKSIRECKGELDSKERQLAVVQKRIGECNNELQLKENELNLVKTVVEHC 204
           +++  EEL  + K+I +   E+  +E+ L +VQ+ +    +E++ +E E  L++      
Sbjct: 56  IDVRVEELHSIHKAIEQKLDEVKKREKDLELVQEAVKLRFSEVEEREKEFALIQK----- 110

Query: 205 LQKLNLKKEELSLLQKSNGEWNGQLECGERQLELRLEPESGIKDCSQQIELKEKKLRQIQ 264
            ++L+ +K E+  ++KS  E +      E +L    E ++ +   +  IE K  ++R   
Sbjct: 111 -KELHDRKREIEWIEKSGKELDSVRVEIEDKLRAVDEVDNRLTLFNHCIEEKADQVRLSV 169

Query: 265 SSIEECEKELAIKERHISDYEEKLKAKEKLY----DEIKKSIKELESAKKELEQ------ 314
           S ++  EKELA K+ ++ + E+KL+   K+     +EI K  KE+E  +K+LEQ      
Sbjct: 170 SKLKLKEKELAFKDENLKEKEKKLEEHCKVLRLKDEEIHKKFKEVELKEKQLEQRYREFE 229

Query: 315 ------------------PKSLTDNEETRLLSLQSMNNGRSLQLILNQHLQKHDLIFGQI 356
                             P+  T ++ +   ++    +G++LQ+ LN+  +  D I  ++
Sbjct: 230 ELKEKQKPSNNNTCVKIEPQITTPSDASLYFTVNM--DGKALQIFLNER-EYSDSIRDEV 286

Query: 357 SQTLTKACDPALLVLDAMQGFYPPHSRKGDMEFDVSIIKRTCILLLEQLSNIAPDINPQV 416
              L  + DPA  VLDAMQGFYPPH RKGDMEF   +++R+CILLLEQL  I+P+I+P V
Sbjct: 287 FIALGFSSDPAKFVLDAMQGFYPPHLRKGDMEFKAEVVRRSCILLLEQLMKISPEISPLV 346

Query: 417 RDEAMKMAGEWKKKMGVIGENSLEVLGFLHLLAAYRLAPAFDGNELESLLDIVAHYRQTA 476
           R+EA+K++  W  KM +  E+ LEVLGFL LLA+Y LA  FD +EL + L++V  +  + 
Sbjct: 347 RNEAIKLSFSWMTKMKIDAEHPLEVLGFLQLLASYGLASTFDADELLTQLEVVVQHSLSP 406

Query: 477 KLRQSLGFADKVT 489
            L  +LGFADK++
Sbjct: 407 GLFHALGFADKIS 419

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224130844|ref|XP_002328390.1| predicted protein [Populus trichocarpa] gi|222838105|gb|EEE76470.1| predicted protein [Populus trichocarpa]

 Score =  173 bits (438), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 157/504 (31%), Positives = 264/504 (52%), Gaps = 65/504 (12%)

Query: 15  LQCKERQLRFLEKRIGES-------KGELALVQKEIEECNSELWCKEKELGLVQKRIRGC 67
           L  +ER+L  ++K I ES       +  L  +   I+E   EL  KEK+   V+K I   
Sbjct: 290 LDSEERELSLIKKSIEESSKDFDSRQNHLGSISVLIDEYTEELEAKEKQHDAVKKSISVR 349

Query: 68  NGELQSKQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNCELECKQQQLG------ 121
           + EL+SK+ EL  +E  I+E +++LQ KE +L   ++ V  C  ++E K+++L       
Sbjct: 350 SAELKSKETELRSIEDSIKELSAKLQQKEEKLDSARQHVKHCARKIESKEEELNKIKGRM 409

Query: 122 ------LAQSEEDLLKNSLKNSIEHWSQKLNLTKEELSLLQKSIRECKGELDSKERQLAV 175
                 L   E +   N+++ SIE+ S++L   + +L  +Q SI EC+ EL + + Q   
Sbjct: 410 NTYVKELESREREF--NAIQLSIEYRSEELKGKERQLKSVQLSIGECEKELKAMKEQKNS 467

Query: 176 VQKRIGECNNELQLKENELNLVKTVVEHCLQKLNLKKEELSLLQKSNGEWNGQ------- 228
           +QK I EC+ ELQ KE  L L +  +  C   L LKK +L  +Q+S+ E N +       
Sbjct: 468 IQKLILECSEELQSKEKNLILARESLRECCDDLELKKVQLDSIQRSSHESNKKSEEKEKY 527

Query: 229 LECGERQLELRLEPESGIKDCS-----QQIELKEKKLRQIQSSIEECEKELAIKERHISD 283
           L   E+ L+ RL+   G+K+        +IELKE++LR +Q S+E+  KE+ +KE+ +  
Sbjct: 528 LNSLEKTLDERLK-NLGVKEMQFEERVNEIELKEQQLRLMQQSVEKYRKEVELKEQQL-- 584

Query: 284 YEEKLKAKEKLYDEIKKSIKELESAKKELEQPKSLTDNEETRLLSLQSMNNGRSLQLILN 343
                     L   ++  + + E+ +     PK  +    +      +  + RS   ++N
Sbjct: 585 ------GSNILSSHVR--VDQTENVR----NPKHAS----SSAFQFNATTSERS-SPVVN 627

Query: 344 QHLQKHDLIFGQISQTLTKACDPALLVLDAMQGFYPPHSRKGDMEFDVSIIKRTCILLLE 403
             + +HDL+   +S       +PA +VLD +Q +     +KG   FD S+  R  ++LLE
Sbjct: 628 VCVSEHDLMHHGVS------AEPAKVVLDIVQNW-----KKGVTGFDASV-NRDNVVLLE 675

Query: 404 QLSNIAPDINPQVRDEAMKMAGEWKKKMGVIGENSLEVLGFLHLLAAYRLAPAFDGNELE 463
           QL  ++P I+PQV++ A K+A  W+K + +  E+S+EVL FL  LA Y L   F  + + 
Sbjct: 676 QLMKVSPKISPQVKEAATKLAVLWEKNIRLETEDSMEVLMFLLFLAVYGLVSCFSRDRIL 735

Query: 464 SLLDIVAHYRQTAKLRQSLGFADK 487
            L+ ++A  +Q  ++ ++LGFADK
Sbjct: 736 RLVRVIAQQKQAPEIFKALGFADK 759

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147767145|emb|CAN75646.1| hypothetical protein VITISV_031269 [Vitis vinifera]

 Score =  164 bits (414), Expect = 2e-37,   Method: Compositional matrix adjust.
 Identities = 77/153 (50%), Positives = 107/153 (69%)

Query: 334 NGRSLQLILNQHLQKHDLIFGQISQTLTKACDPALLVLDAMQGFYPPHSRKGDMEFDVSI 393
           +GR+LQL LN++   H  +  ++   L  + DPA LVLDAM+GFYPPH + G +EF+ ++
Sbjct: 130 DGRNLQLFLNENADNHGRMGNEVFAALRMSADPAKLVLDAMEGFYPPHLKNGVVEFEGAV 189

Query: 394 IKRTCILLLEQLSNIAPDINPQVRDEAMKMAGEWKKKMGVIGENSLEVLGFLHLLAAYRL 453
           ++R+C+LLLEQL+ + P I PQVR+EA ++A EWK KMGV   +SLEVLGFL LL AYRL
Sbjct: 190 VRRSCVLLLEQLTRVGPPIRPQVREEAARLAHEWKAKMGVEVGDSLEVLGFLWLLGAYRL 249

Query: 454 APAFDGNELESLLDIVAHYRQTAKLRQSLGFAD 486
              FD NE+  L + V  +RQ  +L ++LG  D
Sbjct: 250 TSDFDKNEILKLFENVVQHRQANELARALGLTD 282

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224130848|ref|XP_002328391.1| predicted protein [Populus trichocarpa] gi|222838106|gb|EEE76471.1| predicted protein [Populus trichocarpa]

 Score =  162 bits (410), Expect = 4e-37,   Method: Compositional matrix adjust.
 Identities = 147/450 (32%), Positives = 247/450 (54%), Gaps = 49/450 (10%)

Query: 70  ELQSKQGELALVEKEIEESNSELQSKEI-------ELGLLQKRVGECNCELECKQQQLGL 122
           E++ +  E+ L ++++EES +EL  K+        E+GL  ++V E   E+  K ++LG 
Sbjct: 190 EVEERIKEIRLKDRKVEESLNELGFKDRKVEERIKEIGLKDRKVEERLKEIGFKDRKLG- 248

Query: 123 AQSEEDLLKNSLKNSIEHWSQKLNLTKEELSLLQKSIRECKGELDSKERQLAVVQKRIGE 182
               E L +  LK+ +     K      E+ L  + + E   E+ SK+R++    K +G 
Sbjct: 249 ----ERLKEVGLKDRMVEERLK------EVGLKDRKVEERLKEIGSKDRKVGERLKEVGW 298

Query: 183 CNNELQLKENELNLVKTVVEHCLQKLNLKK-------EELSLLQKSNGEWNGQLECGERQ 235
            +  ++ +  E+ L    VE  L+++ LK        +E++L++K+ G+ + ++E   R+
Sbjct: 299 KDRMVEERLKEVGLKDRKVEERLKEVGLKGREVEERVKEIALMEKNVGKRSEEVELNRRK 358

Query: 236 LE---LRLEPES-GIKDCSQQIELKEKKLRQIQSSIEECEKELAIKERHISDYEEKLKAK 291
           LE    +LE +S  +++  + +ELKEK L       E C +    K + I + + K K  
Sbjct: 359 LEEGFRKLELKSREVEEIIEGVELKEKILE------ERCRR-FDFKGKQIEEVQLKEKEL 411

Query: 292 EKLYDEIK-------KSIKELESAKKELEQPKSLTDNEETRLLSLQS------MNNGRSL 338
           E+   E++       + IKE E  +K++    +     ET   S+ +        +G++L
Sbjct: 412 EEKLREVEMENKKCLERIKEFELKEKQVADACNARVKSETVDYSMDANLHFSVKMDGKAL 471

Query: 339 QLILNQHLQKHDLIFGQISQTLTKACDPALLVLDAMQGFYPPHSRKGDMEFDVSIIKRTC 398
           Q++LN+  +  + +  ++S  L  + DPA LVLDAM+GF+PPH R+GD+EF   ++KR+C
Sbjct: 472 QILLNKRCKHDEKMKNEVSIALGLSSDPAKLVLDAMEGFHPPHLREGDVEFKEVVVKRSC 531

Query: 399 ILLLEQLSNIAPDINPQVRDEAMKMAGEWKKKMGVIGENSLEVLGFLHLLAAYRLAPAFD 458
            LLLEQL+ I+P I P VR EA K+A  W   M V G+++L+VLGF +LLAAY LA AFD
Sbjct: 532 NLLLEQLTKISPTIKPHVRKEATKLAFLWMIMMTVDGQHNLDVLGFFNLLAAYGLASAFD 591

Query: 459 GNELESLLDIVAHYRQTAKLRQSLGFADKV 488
            +EL S L I+A  +QT +  + L   DK+
Sbjct: 592 SDELISRLVIIARNKQTPEFLRVLELGDKI 621

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224130856|ref|XP_002328393.1| predicted protein [Populus trichocarpa] gi|222838108|gb|EEE76473.1| predicted protein [Populus trichocarpa]

 Score =  158 bits (400), Expect = 6e-36,   Method: Compositional matrix adjust.
 Identities = 75/155 (48%), Positives = 107/155 (69%)

Query: 334 NGRSLQLILNQHLQKHDLIFGQISQTLTKACDPALLVLDAMQGFYPPHSRKGDMEFDVSI 393
           +G++LQ++LN+  +  + +  ++S  L  + DPA LVLDAM+GFYPPH R+GD+EF   +
Sbjct: 537 DGKALQILLNKRCKHDEKMKNEVSIALGLSSDPAKLVLDAMEGFYPPHLREGDVEFKEVV 596

Query: 394 IKRTCILLLEQLSNIAPDINPQVRDEAMKMAGEWKKKMGVIGENSLEVLGFLHLLAAYRL 453
           +KR+C LLLEQL+ I+P I P VR EA K+A  W  KM V  +++L+V+GF +LLAAY L
Sbjct: 597 VKRSCNLLLEQLTKISPTIKPHVRKEATKLAFLWMTKMTVDDQHNLDVMGFFYLLAAYGL 656

Query: 454 APAFDGNELESLLDIVAHYRQTAKLRQSLGFADKV 488
           A AFD +EL S L I+A  RQ  +  + L   DK+
Sbjct: 657 ASAFDSDELISRLVIIARNRQIPEFLRVLELGDKI 691

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224130872|ref|XP_002328397.1| predicted protein [Populus trichocarpa] gi|222838112|gb|EEE76477.1| predicted protein [Populus trichocarpa]

 Score =  152 bits (383), Expect = 5e-34,   Method: Compositional matrix adjust.
 Identities = 76/155 (49%), Positives = 107/155 (69%)

Query: 334 NGRSLQLILNQHLQKHDLIFGQISQTLTKACDPALLVLDAMQGFYPPHSRKGDMEFDVSI 393
           +G++LQ++LN+  +  + +  ++S  L  + DPA LVLDAM+GFYPPH R+GD+EF   +
Sbjct: 2   DGKALQILLNKRCKHDEKMKNEVSIALGLSSDPAKLVLDAMEGFYPPHLREGDVEFKEVV 61

Query: 394 IKRTCILLLEQLSNIAPDINPQVRDEAMKMAGEWKKKMGVIGENSLEVLGFLHLLAAYRL 453
           +KR+C LLLEQL  I+P I P VR EA K+A  W  KM V G ++++VLGF +LLAAY L
Sbjct: 62  VKRSCNLLLEQLMKISPTIKPHVRKEATKLAFLWMTKMTVDGFHNMDVLGFFYLLAAYGL 121

Query: 454 APAFDGNELESLLDIVAHYRQTAKLRQSLGFADKV 488
           A AFD +EL S L I+A  +QT +  + L   DK+
Sbjct: 122 ASAFDSDELISRLVIIARNKQTPEFFRVLELGDKI 156

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297813019|ref|XP_002874393.1| predicted protein [Arabidopsis lyrata subsp. lyrata] gi|297320230|gb|EFH50652.1| predicted protein [Arabidopsis lyrata subsp. lyrata]

 Score =  141 bits (356), Expect = 7e-31,   Method: Compositional matrix adjust.
 Identities = 162/526 (30%), Positives = 269/526 (51%), Gaps = 43/526 (8%)

Query: 1   MKTRTNEIRGFNLKLQCKERQLR----FLEKRIGESKGELALV---QKEIEECNSELWCK 53
            +TR++E+     +++ K +QL      LE+R GE   E+  +   Q    E   E+  K
Sbjct: 286 FETRSSELIKTQCEVELKGKQLEQMDIDLERRRGEVSAEMEHLDKSQTHSRELAQEIKRK 345

Query: 54  EKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNC-- 111
            KEL  V  +I     +L+S + +LA  +K +E  +SEL SK+ EL  L   +   N   
Sbjct: 346 RKELTAVLDKIAEYGKQLESVEQQLASQQKLLETRSSELVSKKKELDGLSLDLDLANSLN 405

Query: 112 -ELE--CKQQQLGLAQSEE--DLLKN------SLKNSIEHWSQKLNLTKEELSLLQKSIR 160
            E+   CKQ +    + EE   L++       S+K  +E  S++L   +E  + + ++IR
Sbjct: 406 NEMRETCKQIKSKGRELEEIERLIQERSGHIESIKLLLEEHSEELASKEERHNEITEAIR 465

Query: 161 ECKGELDSKE--------------RQLAVVQKRIGECNNELQLKENELNLVKTVVEHCLQ 206
           +   E+ SKE              R+L   +KR+     E  +KE EL  VK     CLQ
Sbjct: 466 KLSSEIVSKEETIQQLSEKQLVKQRKLDSTEKRLENTTAEFVIKEKELGSVKDTYRECLQ 525

Query: 207 KLNLKKEELSLLQKSNGEWNGQLECGERQLELRLEPESGIKDCSQQIELKEKKLRQIQSS 266
              +K++EL  LQ+   +    L+  + +   +++ ++ + +  +++ LKEK++R     
Sbjct: 526 NWEIKEKELKSLQEEIKKIQDSLKDFQSKEAEQVKLKASLMEREKELGLKEKRIRARSEK 585

Query: 267 IEECEKELAIKERHISDYEEKLKAKEKLYDEIKKSIKELE-SAKKELEQPKSLTDNEETR 325
           IE  EK+L  +E  I   +E+LK+ E    ++ K +K+ E +AKK     +    +++  
Sbjct: 586 IELKEKKLDAREERIDKKDEQLKSTEL---KLAKCVKDYELNAKKLASFCQQNNPDQQVD 642

Query: 326 LLSLQSMNNGRSLQLILNQHLQKHDLIFGQISQTLTKACDPALLVLDAMQGFYPPHSRKG 385
           L+   S+ + ++LQL+L  HL+K D +   +   L  + DPA LVLD +QG    H R  
Sbjct: 643 LVRDASVCDEKTLQLLLRGHLKKCDQLHLDVLGALKASSDPAKLVLDTIQGL---HERMA 699

Query: 386 DMEFDVSIIKRTCILLLEQLSNIAPDINPQVRDEAMKMAGEWKKKMGVIGENSLEVLGFL 445
             + D   ++R+ I LLE L N++ +   +V+ EA+K A EWK    V  EN +EVLGFL
Sbjct: 700 VTKLDPDSVRRSSICLLECLMNMSQEPKTEVQVEAIKSATEWKNTTLVKAENPVEVLGFL 759

Query: 446 HLLAAYRLAPAFDGNELESLLDIVAHYRQTA-KLRQSLGFADKVTV 490
           H LAA+ LA  FD +++++L D  A  RQ A  L ++LG +    V
Sbjct: 760 HFLAAFSLAYTFDADKVQNLFD-AAFLRQYAPSLCEALGVSSLAPV 804

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356541044|ref|XP_003538993.1| PREDICTED: uncharacterized protein LOC100783311 [Glycine max]

 Score =  141 bits (355), Expect = 9e-31,   Method: Compositional matrix adjust.
 Identities = 146/527 (27%), Positives = 254/527 (48%), Gaps = 70/527 (13%)

Query: 9   RGFNLKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELG----LVQKRI 64
           R F  ++  KER+   + +++ E   EL  VQ+ I +C  +L    + +     + Q++ 
Sbjct: 28  RQFGREIDAKEREYDVVTRKVEERNRELESVQRRITDCEWKLDTVRRMITESDEVYQQKQ 87

Query: 65  RG---CNGELQSKQGELALVEKEIEESNSELQSKEIEL------GL-LQKRVGECNCELE 114
           RG    + EL  K+   +L+   I E   EL++K+ E       G+ L+ +V + N +L+
Sbjct: 88  RGIQDSDRELAEKEAHRSLIADMIREREQELRAKDAEFQQVLDEGMALKNKVAQLNDDLK 147

Query: 115 CKQQQLGLAQSE---EDLLKNSLKNSIEHWSQKLNLTKEELSLLQKSIRECKGELDSKER 171
            K+++L +       E   + ++K+      Q L    E  S  QK       EL+SK++
Sbjct: 148 TKKEELDVVTRSLINEQATETTIKSMRARIKQLLRQPYESESK-QKQFEGQAKELESKQK 206

Query: 172 QLAVVQKRIGECNNELQLKENELNLVKTVVEHCLQKLNLKKEELSLLQKSNGEWNGQLEC 231
                 K +     + + +  EL L + + E  +++L  ++++     K       +LE 
Sbjct: 207 HYERQVKELQSKQKQYEGRVKELKLNEKLYERKVRELGSREKQYETRMK-------ELES 259

Query: 232 GERQLELRL-EPESGIKDCSQQI-ELKEKKLRQIQSSIEECEKELAIKERHISDYEEK-- 287
            E+Q E R+ E ES  K   +++ EL   + + ++S IE   KE  I E  + D E K  
Sbjct: 260 NEKQCETRMKEVESNAKQYEKRVKELVSHERQYVKSVIELNSKEKQI-EGQMVDLESKKN 318

Query: 288 -------------------LKAKEKLYDEIKKSIKELE-------SAKKELEQPK----- 316
                              LK  E +  +I++ +K+LE       S++K  E+ K     
Sbjct: 319 QYEGLVKELESKEARCKVLLKELESIEKKIQEQMKDLEFKKNQCESSRKSFEEEKLSKQK 378

Query: 317 -----SLTDNEETRLLSLQSM---NNGRSLQLILNQHLQKHDLIFGQISQTLTKACDPAL 368
                  T+     L + Q+    +N ++L L +N  L+K++L+  Q+S  L    +P  
Sbjct: 379 SNDQQHFTNANSASLFNQQNFTGADNSKNLPLFINL-LEKYELMCSQVSDALQTFANPTK 437

Query: 369 LVLDAMQGFYPPHSRKGDMEFDVSIIKRTCILLLEQLSNIAPDINPQVRDEAMKMAGEWK 428
           LVLD ++GFY  HSR+G +E+D SI +R C LL+++L   +P I  +V+ EA+K+A +WK
Sbjct: 438 LVLDTIKGFYTSHSRQGLIEYDASISRRICNLLMDELKKSSPVIGIRVKQEAIKLATDWK 497

Query: 429 KKMGVIGENSLEVLGFLHLLAAYRLAPAFDGNELESLLDIVAHYRQT 475
             +    ++ LEVL F   +A Y +  +FD  EL+ LLDI+A   QT
Sbjct: 498 ANLVAGDKDCLEVLDFFKFVATYEIGSSFDAIELQRLLDIIALQYQT 544

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	535
TAIR|locus:2181241	1181	AT5G27220 "AT5G27220" [Arabido	0.867	0.392	0.265	5.3e-27
TAIR|locus:2181251	948	AT5G27230 [Arabidopsis thalian	0.338	0.190	0.307	2.5e-14
TAIR|locus:2826175	473	FRL2 "AT1G31814" [Arabidopsis	0.426	0.482	0.241	2.2e-11
TAIR|locus:2171327	470	FRL1 "FRIGIDA like 1" [Arabido	0.226	0.257	0.369	7.9e-11
TAIR|locus:1005716104	558	AT5G48385 "AT5G48385" [Arabido	0.250	0.240	0.346	1.3e-10
DICTYBASE|DDB_G0286985	1024	zipA "zipper-like domain-conta	0.332	0.173	0.217	3.2e-08
ZFIN|ZDB-GENE-030131-731	904	hmmr "hyaluronan-mediated moti	0.489	0.289	0.232	4.6e-08
WB|WBGene00010306	1133	F59A2.6 [Caenorhabditis elegan	0.570	0.269	0.233	4.7e-08
SGD|S000002764	944	SPC110 "Inner plaque spindle p	0.745	0.422	0.204	2.2e-07
MGI|MGI:2685018	848	Ccdc110 "coiled-coil domain co	0.282	0.178	0.240	1.8e-06

TAIR|locus:2181241 AT5G27220 "AT5G27220" [Arabidopsis thaliana (taxid:3702)]

 Score = 335 (123.0 bits), Expect = 5.3e-27, Sum P(2) = 5.3e-27
 Identities = 130/489 (26%), Positives = 223/489 (45%)

Query:    15 LQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSK 74
             L+  + + R L + I   + EL  V  +  E    +   E+EL L QK +   + EL SK
Sbjct:   328 LEKSQTRSRELAEEIERKRKELTAVLDKTAEYGKTIELVEEELALQQKLLDIRSSELVSK 387

Query:    75 QGEL-------ALVEK---EIEESNSELQSKEIELGLLQKRVGECNCELECKQQQLGLAQ 124
             + EL        LV     E++E+   ++SK  EL  +++ + E +   E  +  L    
Sbjct:   388 KKELDGLSLDLELVNSLNNELKETVQRIESKGKELEDMERLIQERSGHNESIKLLLE-EH 446

Query:   125 SEEDLLKNSLKNSIEHWSQKLNLTKEELSLLQKSIRECKGELDSKERQLAVVQKRIGXXX 184
             SEE  +K    N I    +KL+L   E+   +K+I++   +  SK+ +L   +K +    
Sbjct:   447 SEELAIKEERHNEIAEAVRKLSL---EIVSKEKTIQQLSEKQHSKQTKLDSTEKCLEETT 503

Query:   185 XXXXXXXXXXXXVKTVVEHCXXXXXXXXXXXXXXXXXXGEWNGQL-ECGERQLELRLEPE 243
                         VK     C                   +    L +   ++ EL    E
Sbjct:   504 AELVSKENELCSVKDTYRECLQNWEIKEKELKSFQEEVKKIQDSLKDFQSKEAELVKLKE 563

Query:   244 SGIKDCSQQIELKEKKLRQIQSSIEECEKELAIKERHISXXXXXXXXXXXXXXXIKKSIK 303
             S + +  +++ LK+K++      IE  +K+L  +E  +                + K +K
Sbjct:   564 S-LTEHEKELGLKKKQIHVRSEKIELKDKKLDAREERLDKKDEQLKSAEQK---LAKCVK 619

Query:   304 ELE-SAKKELEQPKSLTDNEETRLLSLQSMNNGRSLQLILNQHLQKHDLIFGQISQTLTK 362
             E E +AKK     +    +++  L+   S+ + ++LQL+L  HL+K D +   + + L  
Sbjct:   620 EYELNAKKLASFCQQNNPDQQVDLVRDASVCDEKTLQLLLRGHLKKCDQLHLDVLRALKA 679

Query:   363 ACDPALLVLDAMQGFYPPHSRKGDMEFDVSIIKRTCILLLEQLSNIAPDINPQVRDEAMK 422
             + DPA LVL+ +Q     H +    + D   ++R  I LLE L +++P+   +V+ EA+K
Sbjct:   680 SSDPAKLVLNTIQRL---HEKMAVTKLDPDSVRRGSICLLECLMDMSPEPKTEVQVEAIK 736

Query:   423 MAGEWKKKMGVIGENSLEVLGFLHLLAAYRLAPAFDGNELESLLDIVAHYRQTA-KLRQS 481
                EWK    V  EN +EVLGFLH L+A+ LA  FD +++++L D  A  RQ A  L ++
Sbjct:   737 SVTEWKNTTLVKAENPVEVLGFLHFLSAFSLAYTFDADKVQNLFD-AAFLRQYAPSLCEA 795

Query:   482 LGFADKVTV 490
             LG +    V
Sbjct:   796 LGVSSLAPV 804

GO:0003674 "molecular_function" evidence=ND

GO:0005737 "cytoplasm" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0005829 "cytosol" evidence=IDA

TAIR|locus:2181251 AT5G27230 [Arabidopsis thaliana (taxid:3702)]

 Score = 177 (67.4 bits), Expect = 2.5e-14, Sum P(2) = 2.5e-14
 Identities = 59/192 (30%), Positives = 87/192 (45%)

Query:   300 KSIKELESAKKELEQPKSLTDNEETRLLSLQSMNNGRSL-QLILNQHLQKHDLIFGQISQ 358
             K +KE   A  + +   +     ET+L  L        L +L+  Q L++ +     +S 
Sbjct:   516 KQVKE-SGADHQPDTIATHPSGTETKLNILSGSIKADMLRELVEKQPLKESE----DLSN 570

Query:   359 TLTKACDPALLVLDAMQGFYPPHSRKGDMEFDVSIIKRTCILLLEQLSNIAPDINPQVRD 418
              L    DPA L LD      P ++ +G  EF + I   +C LLL QL  + P I   V+ 
Sbjct:   571 ALKCTPDPAKLFLDTSMALCPTNT-EGGYEFKMLITSASCSLLLNQLKKLLPKIGHPVKG 629

Query:   419 EAMKMAGEWKKKMGVIGENSLEVLGFLHLLAAYRLAPAFDGNELESLLDIVAHYRQTAK- 477
             +A K+A  WK K+     + LEV+ FL  L  + +   F  ++L  LLD    Y QT   
Sbjct:   630 DAKKLAVYWKDKIAKSKRDQLEVICFLQFLGIFGIVSEFKADDLLGLLD--NSYWQTVSP 687

Query:   478 -LRQSLGFADKV 488
              L Q LG  D +
Sbjct:   688 DLCQFLGLDDAI 699

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2826175 FRL2 "AT1G31814" [Arabidopsis thaliana (taxid:3702)]

 Score = 186 (70.5 bits), Expect = 2.2e-11, P = 2.2e-11
 Identities = 57/236 (24%), Positives = 106/236 (44%)

Query:   252 QIELKEKKLRQIQSSIEECEKELAIKERHISXXXXXXXXXXXXXXXIKKSIKELESAKK- 310
             QI+ K++KL++    ++   + L     ++S                 +    + S+   
Sbjct:    13 QIDEKKQKLKKAFDDLQ-AHRSLLSPSFNLSWSEIDSHFSSLQSSLFNRLQSAVTSSNSG 71

Query:   311 ELEQPKSLTDNEETRLLSLQSM---NNGRSLQLILNQHLQKHDLIFGQISQTLTKACDPA 367
              +E P ++T         L+     N+G+ L   + ++ +K   I  ++   +  + +PA
Sbjct:    72 NIETPTAVTTETPVLWPELRKFCEKNDGKGLGNYMIENSRKRLSINEELPNAIRCSENPA 131

Query:   368 LLVLDAMQGFYPPHSRKGDMEFDVSIIKRTCILLLEQLSNIAPDINPQVRDEAMKMAGEW 427
              LVLDA++G Y   S           +KR  +LLLE L  I  ++   +R+ A  +A +W
Sbjct:   132 PLVLDAIEGSYHCSSPSSSSSARAIDVKRIFVLLLEALIEINANLTNDLRERARTIAYDW 191

Query:   428 KKKMGVIGENSLEVLGFLHLLAAYRLAPAFDGNELESLLDIVAHYRQTAKLRQSLG 483
             K     IG    E LGFLHL+AA+ L   F   E+   + +++ Y+Q   + + +G
Sbjct:   192 KPN---IGNKPSEALGFLHLVAAFELGSLFSTEEICDYIFLISKYKQATTICKKIG 244

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0010228 "vegetative to reproductive phase transition of meristem" evidence=IMP

TAIR|locus:2171327 FRL1 "FRIGIDA like 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 181 (68.8 bits), Expect = 7.9e-11, P = 7.9e-11
 Identities = 48/130 (36%), Positives = 70/130 (53%)

Query:   355 QISQTLTKACDPALLVLDAMQGF-YPPHSRKGDMEFDVSIIKRTCILLLEQLSNIAPDIN 413
             ++S  +  + D A +VLDA++G  Y P S  G   FDV   +R  +LL+E L  I  +I 
Sbjct:   130 EVSAAIRYSPDTASMVLDAIEGSNYTPSS-SG-RSFDV---RRVFVLLMEVLIEINANIT 184

Query:   414 PQVRDEAMKMAGEWKKKMGVIGENSLEVLGFLHLLAAYRLAPAFDGNELESLLDIVAHYR 473
                R+ A K+A  WK K+GV      E L FLHL+AA+ L   FD  EL   + ++A Y+
Sbjct:   185 VDTRNRAKKLAYHWKSKVGV---KPFEALVFLHLVAAFELGSEFDTEELSDYVFMIAKYK 241

Query:   474 QTAKLRQSLG 483
             Q   +   +G
Sbjct:   242 QATLVCNKIG 251

GO:0005634 "nucleus" evidence=ISM

GO:0005515 "protein binding" evidence=IPI

TAIR|locus:1005716104 AT5G48385 "AT5G48385" [Arabidopsis thaliana (taxid:3702)]

 Score = 185 (70.2 bits), Expect = 1.3e-10, Sum P(2) = 1.3e-10
 Identities = 52/150 (34%), Positives = 80/150 (53%)

Query:   355 QISQTLTKACDPALLVLDAMQGFYPPHSRKGDMEFDVSII--KRTCILLLEQLS------ 406
             +I      A +PA LVLD+++GFYP  +   D + D +++  +RTCI+L+E LS      
Sbjct:   204 EIPMAFRAAANPASLVLDSLEGFYPMEAPTADGKKDANLLGMRRTCIMLMECLSILLSGL 263

Query:   407 --N-IAPDINPQVRDEAMKMAGEWKK-----KMGVIGENSLEVLGFLHLLAAYRLAPAFD 458
               N +A  ++  V+  A  +A  W        M     NSLE   FL LLA + +   F 
Sbjct:   264 DRNCLAVVLSQNVKHRAKTIAEGWNPLLESLDMDACNGNSLEAHAFLQLLATFAIVADFK 323

Query:   459 GNELESLLDIVAHYRQTAKLRQSLGFADKV 488
              +EL  L+ +V+  RQ A+L +SLG A+K+
Sbjct:   324 EDELLKLIPMVSRRRQAAELCRSLGLAEKM 353

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

DICTYBASE|DDB_G0286985 zipA "zipper-like domain-containing protein" [Dictyostelium discoideum (taxid:44689)]

 Score = 162 (62.1 bits), Expect = 3.2e-08, P = 3.2e-08
 Identities = 40/184 (21%), Positives = 94/184 (51%)

Query:     3 TRTNEIRGFNLKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQK 62
             ++ +E++  + +L  K+ Q++ +E  +   K +L+   +E++    +L  K+++L     
Sbjct:   652 SKDSELKSKDEQLSNKDSQIKSIESDLQSVKDQLSSKDQELQSTKDQLSSKDEQLSNKDT 711

Query:    63 RIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNCELECKQQQLGL 122
             +I+    +LQS + +L+  ++E++ +  +L SK+ EL   + ++   + EL+  + QL  
Sbjct:   712 QIKSIESDLQSVKDQLSSKDQELQSTKDQLSSKDQELQSTKDQLSTKDQELQSAKDQLSC 771

Query:   123 AQSEEDLLK------NSLKNSIEHWSQKLNLTKEELSLLQKSIRECKGELDSKERQLAVV 176
               S  D L        S K+ +     +L   K++LS     ++  K +L SK+ +L  +
Sbjct:   772 QSSTTDQLSAKDTELQSTKDQLSSKDSELQSIKDQLSTKDSELQSSKDQLSSKDSELQSI 831

Query:   177 QKRI 180
             + ++
Sbjct:   832 KDQL 835

GO:0005615 "extracellular space" evidence=IDA

GO:0008150 "biological_process" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0003674 "molecular_function" evidence=ND

GO:0044351 "macropinocytosis" evidence=RCA

ZFIN|ZDB-GENE-030131-731 hmmr "hyaluronan-mediated motility receptor (RHAMM)" [Danio rerio (taxid:7955)]

 Score = 160 (61.4 bits), Expect = 4.6e-08, P = 4.6e-08
 Identities = 65/280 (23%), Positives = 125/280 (44%)

Query:     1 MKTRTNEIRGFNLKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELW-CKEKELGL 59
             + +   EI+   +KLQ K      +E+R+ +++  L+ V++++E+C +EL  C+E  L +
Sbjct:   268 LDSANEEIQDLRIKLQDKST----MERRVSDAQENLSEVEQKLEKCTAELQECQEA-LKV 322

Query:    60 VQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNCELECKQQQ 119
              +  ++    EL+  Q  L   EKEIE+   +LQ  +  L  L++R+ + + +LE +   
Sbjct:   323 KEDEVQRSKQELRDSQNALEEKEKEIEQHAQDLQESQSSLKELEERMKQGDRDLE-ESWS 381

Query:   120 LGLAQSEEDL--LKNSLKNSIEHWSQKLNLTKEELSLLQKSIRECKGELDSKERQLAVVQ 177
             L + Q E++L  +K  L+ + E   Q++ L  E  SLL+    + + E     RQ+  ++
Sbjct:   382 L-VRQQEQELARVKEVLRRTEEELDQRVALMGERCSLLEDERAKMQEE---GLRQVEELK 437

Query:   178 KRIGXXXXXXXXXXXXXXXVKTVVEHCXXXXXXXXXXXXXXXXXX--GEWNGQLECGERQ 235
               +                +K   EHC                           E   RQ
Sbjct:   438 AELCSLEESRKTETEAYEKLKE--EHCAVTKQLEEEKTHSGSLASLLERLRDDTEAERRQ 495

Query:   236 LELRLEPE-SGIKDCSQQIELKEKKLRQIQSSIEECEKEL 274
             L   LE     + +  +Q +  E+ ++Q+  + +  E+EL
Sbjct:   496 LGEELEDALEELVELEKQEQCSEEAIQQLTLNNQTLEQEL 535

GO:0005540 "hyaluronic acid binding" evidence=IEA

WB|WBGene00010306 F59A2.6 [Caenorhabditis elegans (taxid:6239)]

 Score = 161 (61.7 bits), Expect = 4.7e-08, P = 4.7e-08
 Identities = 80/343 (23%), Positives = 154/343 (44%)

Query:    16 QCKERQLRF--LEKRIGESKGELALVQKE-IEECNSELWCKEKELGLVQKRIRGCNGELQ 72
             +C+E  L+F   +K   E   +L+ +Q+E +E+C++ L  +  E   +++ I+    ++ 
Sbjct:    24 KCEELTLKFEQADKEKNEMVQQLSRLQQEMLEKCDA-LQAEVNEAKALREEIQAKYDDVT 82

Query:    73 SKQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNCELECKQQQLGLAQSEEDLLKN 132
              K      ++ E+EES   L+S        +K+  E   E E ++Q   LA++ E L  N
Sbjct:    83 QKAER---IQGELEESKKVLES--------EKQAFENEKEQEREEQ---LAKAMEKL--N 126

Query:   133 SLKNSIEHWSQKLNLTKEELSLLQKSIRECKGELDSKERQ-------LAVVQKRIGXXXX 185
             S +N ++  ++KL  ++EE+   + +I+E   +L+  E++       L  V K++     
Sbjct:   127 SEQNILDEVTKKLEQSEEEVLAARGAIQELTEKLEESEKETSTAKTELEAVSKKLDSSET 186

Query:   186 XXXXXXXXXXXVKTVVEHCXXXXXXXXXXXXXXXXXXGEWNGQLECGERQLELRLEPESG 245
                        +K  + +C                   +    +E  ++QL L     S 
Sbjct:   187 SLKEFSDMIEAMKIQLINCEKQKDEAVELLKQKLEEVEKNMSDVEV-QKQLLLE-STTSE 244

Query:   246 IKDCSQQIELKEKKLRQIQSSIEECEKELAIKERHISXXXXXXXXXXXXXXXIKKSIKEL 305
             +K  ++  E+ +K+L + QSSIE  +K+ A  ER++                I +  K++
Sbjct:   245 MKQHAEAAEIVKKQLEEAQSSIENLKKD-AENERNLKTALESDESSA-----ISEITKQM 298

Query:   306 ESAKKELEQPKSLTDNEETRLLSLQSMNNGRSLQLILNQHLQK 348
             E+AKKELE  +        ++  LQ ++N     +   Q LQK
Sbjct:   299 EAAKKELEASEKEKSELREQMDRLQKVHNAGQEDI---QKLQK 338

GO:0000042 "protein targeting to Golgi" evidence=IEA

SGD|S000002764 SPC110 "Inner plaque spindle pole body (SPB) component" [Saccharomyces cerevisiae (taxid:4932)]

 Score = 154 (59.3 bits), Expect = 2.2e-07, P = 2.2e-07
 Identities = 90/440 (20%), Positives = 183/440 (41%)

Query:    12 NLKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGEL 71
             +LKL+ KE +L+ L   + E K        ++E   +EL  +  EL  ++ +    + +L
Sbjct:   261 SLKLRSKEDELKNLMNELNELKSNAEEKDTQLEFKKNELRKRTNELNELKIKSDEMDLQL 320

Query:    72 QSKQGE-------LALVEKEIEESNSELQSKEIELGLLQKRVGECNCELECKQQQLGLAQ 124
             + KQ E       L  +E +  E+ S+  +KE EL +L+ ++ E   E+  K  QL   +
Sbjct:   321 KQKQNESKRLKDELNELETKFSENGSQSSAKENELKMLKNKIAELEEEISTKNSQLIAKE 380

Query:   125 SE-EDLLKN--SLKNSIEHWSQKLNLTKEELSL----LQKSIRECKGELDSKERQLAVVQ 177
              +   L+     L++ +     +L   +EEL      LQK IR  + E  SK+ ++  +Q
Sbjct:   381 GKLASLMAQLTQLESKLNQRDSQLGSREEELKKTNDKLQKDIRIAREETVSKDERIIDLQ 440

Query:   178 KRIGXXXXXXXXXXXXXXXVKTVVEHCXXXXXXXXXXXXXXXXXXGEWNGQLECGERQLE 237
             K++                 KT+ ++                         L+  + +  
Sbjct:   441 KKVKQLENDLFVIKKTHSESKTITDNELESKDKLIKIL----------ENDLKVAQEKYS 490

Query:   238 LRLEPESGIKDCSQQIELKEKKLRQIQSSIEECEKELAIKERHISXXXXXXXXXXXXXXX 297
              ++E E  +K+     ++ E KL   ++++ E    LA +   +                
Sbjct:   491 -KMEKE--LKEREFNYKISESKLEDEKTTLNEKISNLAAENSQLKNKIEDNSTATHH--- 544

Query:   298 IKKSI-KELESAKKELEQPKSLTDNEETRL--LSLQSMNNGRSLQLILNQHLQKHDLIFG 354
             +K++  K+LES +K++E+ K    + E ++  L ++   N   +    ++ +++ D    
Sbjct:   545 MKENYEKQLESLRKDIEEYKESAKDSEDKIEELKIRIAENSAKVSEKRSKDIKQKDEQIS 604

Query:   355 QISQTLTKACDP--ALL-VLDAMQ-GFYPPHSRKGDMEFDVSIIKRTCILLLEQLSNIAP 410
              ++Q L    D   +L  ++D  +  F    S + +++ D+++     IL LE     + 
Sbjct:   605 DLTQNLKLQEDEISSLKSIIDRYKKDFNQLKSEQSNIQHDLNLQ----ILNLENKLIESE 660

Query:   411 DINPQVRDEAMKMAGEWKKK 430
             D    +RD        WK+K
Sbjct:   661 DELKSLRDSQKIEIENWKRK 680

GO:0005816 "spindle pole body" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0000742 "karyogamy involved in conjugation with cellular fusion" evidence=IGI;IMP

GO:0005200 "structural constituent of cytoskeleton" evidence=IPI

GO:0005823 "central plaque of spindle pole body" evidence=IDA

GO:0005822 "inner plaque of spindle pole body" evidence=IDA

GO:0005856 "cytoskeleton" evidence=IEA

GO:0007020 "microtubule nucleation" evidence=IPI

GO:0005737 "cytoplasm" evidence=IEA

MGI|MGI:2685018 Ccdc110 "coiled-coil domain containing 110" [Mus musculus (taxid:10090)]

 Score = 118 (46.6 bits), Expect = 1.8e-06, Sum P(2) = 1.8e-06
 Identities = 39/162 (24%), Positives = 82/162 (50%)

Query:    14 KLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQS 73
             K++  E+QL+ L +     + +L+  ++E ++C  EL    K++      + G +  L+ 
Sbjct:   483 KVEAHEKQLKSLAEEKSALQSKLSKAEEENKDCLREL----KKIVSTYNVLGGQHKMLEE 538

Query:    74 KQGELALVEKEIEESNSELQSKE----IELGLLQKRVGECNCELECKQQQLGLAQSEEDL 129
             K  +L+L ++++ E+   L+SKE     ++ +LQ      N E+E  +  + L Q E ++
Sbjct:   539 KNSQLSLEKQQMLETIDHLKSKEHKSQSDMAVLQNENSRMNIEIEAMKTSMLLVQDEREM 598

Query:   130 LKNSLKNSIEHWSQ-KLNLTKEELSLLQKSIRE--CKGELDS 168
             L+      ++  S  + +L + +L +LQ   +E   K E +S
Sbjct:   599 LEKETYQLLKDKSTLESDLKESKLEILQLKEKERLIKAEQES 640

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=IEA

GO:0008150 "biological_process" evidence=ND

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: fgenesh4_pg.C_scaffold_70000144 hypothetical protein (1006 aa) (Populus trichocarpa)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	535
pfam07899	293	pfam07899, Frigida, Frigida-like protein	9e-39
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	4e-14
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	4e-14
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	9e-14
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	1e-12
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	6e-12
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	2e-10
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	5e-10
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	2e-09
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	3e-09
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	2e-08
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	4e-08
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	2e-06
COG4372	499	COG4372, COG4372, Uncharacterized protein conserve	2e-06
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	3e-06
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	2e-05
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	2e-05
COG0419	908	COG0419, SbcC, ATPase involved in DNA repair [DNA	2e-05
PRK01156	895	PRK01156, PRK01156, chromosome segregation protein	5e-05
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	7e-05
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	1e-04
COG5022	1463	COG5022, COG5022, Myosin heavy chain [Cytoskeleton	1e-04
COG0419	908	COG0419, SbcC, ATPase involved in DNA repair [DNA	2e-04
TIGR00606	1311	TIGR00606, rad50, rad50	2e-04
PRK12704	520	PRK12704, PRK12704, phosphodiesterase; Provisional	2e-04
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	3e-04
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	4e-04
COG4942	420	COG4942, COG4942, Membrane-bound metallopeptidase	5e-04
PLN02939	977	PLN02939, PLN02939, transferase, transferring glyc	6e-04
TIGR03319	514	TIGR03319, RNase_Y, ribonuclease Y	7e-04
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	9e-04
COG4372	499	COG4372, COG4372, Uncharacterized protein conserve	0.002
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	0.003
PRK00106	535	PRK00106, PRK00106, hypothetical protein; Provisio	0.003
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	0.004
pfam07888	546	pfam07888, CALCOCO1, Calcium binding and coiled-co	0.004

>gnl|CDD|219629 pfam07899, Frigida, Frigida-like protein

 Score =  143 bits (362), Expect = 9e-39
 Identities = 72/183 (39%), Positives = 106/183 (57%), Gaps = 5/183 (2%)

Query: 313 EQPKSLTDNEETRLLSLQSMNNGRSLQLILNQHLQKHDLIFGQISQTLTKACDPALLVLD 372
            +P S  +     L  L    + R L   + ++ ++   +  ++   L  A DPA LVLD
Sbjct: 2   SEPSSDEEGLNPELRRLCEKMDSRGLLKFVIENRKELASLREEVPAALRCAPDPAKLVLD 61

Query: 373 AMQGFYPPHSRKGDMEFDVSIIKRTCILLLEQLSNIAPDINPQVRDEAMKMAGEWKKKM- 431
           A++GFYPP S+ G  E  +  ++R+C+LLLEQL  + P I+P V++EA K+A EWK K+ 
Sbjct: 62  AIEGFYPPDSKGGK-EDKMVDVRRSCVLLLEQLVRVNPPISPDVKEEAKKLAVEWKAKLE 120

Query: 432 ---GVIGENSLEVLGFLHLLAAYRLAPAFDGNELESLLDIVAHYRQTAKLRQSLGFADKV 488
              GV    SLE LGFL LLAA+ L   FD +EL  L  +V+  +Q  +L +SLG ADK+
Sbjct: 121 EDGGVENGKSLEALGFLQLLAAFGLVSEFDQDELLKLFVMVSRRKQAPELCRSLGLADKM 180

Query: 489 TVV 491
             +
Sbjct: 181 PDL 183

This family is composed of plant proteins that are similar to FRIGIDA protein expressed by Arabidopsis thaliana. This protein is probably nuclear and is required for the regulation of flowering time in the late-flowering phenotype. It is known to increase RNA levels of flowering locus C. Allelic variation at the FRIGIDA locus is a major determinant of natural variation in flowering time. Length = 293

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 75.1 bits (185), Expect = 4e-14
 Identities = 74/310 (23%), Positives = 144/310 (46%), Gaps = 19/310 (6%)

Query: 5   TNEIRGFNLKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRI 64
             ++     +L+  +R+L  LE+ + + +  L  +++E+EE   EL   ++ L  +++ +
Sbjct: 708 RRQLEELERQLEELKRELAALEEELEQLQSRLEELEEELEELEEELEELQERLEELEEEL 767

Query: 65  RGCNGELQSKQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNCELECKQQQLGLAQ 124
                 L   + E+  +E++ +    EL+  E EL   ++R+     ELE  +Q+    +
Sbjct: 768 ESLEEALAKLKEEIEELEEKRQALQEELEELEEELEEAERRLDALERELESLEQRRERLE 827

Query: 125 SEEDLLKNSLKNSIEHWSQKLNLTKEELSLLQKSIRECKGELDSKERQLAVVQKRIGECN 184
            E       L+  IE   +KL+  +EEL  L+K + E K EL+  E +   ++  + E  
Sbjct: 828 QE----IEELEEEIEELEEKLDELEEELEELEKELEELKEELEELEAEKEELEDELKE-- 881

Query: 185 NELQLKENELNLVKTVVEHCLQKLNLKKEELSLLQKSNGEWNGQLECGERQLELRLEPES 244
             L+ ++ EL      +E  L +L  + E+L    +       +LE    +LE  LE E 
Sbjct: 882 --LEEEKEELEEELRELESELAELKEEIEKLRERLEELEAKLERLEVELPELEEELEEEY 939

Query: 245 GIKDCSQQIELKEKKLRQIQSSIEECEKELAIKERHISDYEEKLKAKEKLYDEIKKSIKE 304
                       E+++ +++  IE       +  R I +YEE     E+ Y+E+K   ++
Sbjct: 940 EDT----LETELEREIERLEEEIEALG---PVNLRAIEEYEE----VEERYEELKSQRED 988

Query: 305 LESAKKELEQ 314
           LE AK++L +
Sbjct: 989 LEEAKEKLLE 998

Length = 1163

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 75.1 bits (185), Expect = 4e-14
 Identities = 83/351 (23%), Positives = 170/351 (48%), Gaps = 23/351 (6%)

Query: 12  NLKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGEL 71
              L+  E+QL  LE++      E A   +E++    EL  +E EL L+  +++    EL
Sbjct: 192 EDLLEELEKQLEKLERQA-----EKAERYQELKA---EL--RELELALLLAKLKELRKEL 241

Query: 72  QSKQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNCELECKQ---QQLGLAQSEED 128
           +  + EL+ +E+E+EE   EL+  E E+  L+  + E   ELE  Q    +L     E +
Sbjct: 242 EELEEELSRLEEELEELQEELEEAEKEIEELKSELEELREELEELQEELLELKEEIEELE 301

Query: 129 LLKNSLKNSIEHWSQKLNLTKEELSLLQKSIRECKGELDSKERQLAVVQKRIGECNNELQ 188
              + L+  +E    +L   +E L  L++ I   K EL+ +E  L  +++ + E     +
Sbjct: 302 GEISLLRERLEELENELEELEERLEELKEKIEALKEELEERETLLEELEQLLAELEEAKE 361

Query: 189 LKENELNLVKTVVEHCLQKLNLKKEELSLLQKSNGEWNGQLECGERQLELRLEPESGIKD 248
             E +L+ +   +E   +     +EEL+ L+    E   +LE  +R++E     E  ++ 
Sbjct: 362 ELEEKLSALLEELE---ELFEALREELAELEAELAEIRNELEELKREIE---SLEERLER 415

Query: 249 CSQQIELKEKKLRQIQSSIEECEKELAIKERHISDYEEKLKAKEKLYDEIKKSIKELESA 308
            S+++E  +++L+++++ +EE + EL      + + EE+L+       E+++ + EL+  
Sbjct: 416 LSERLEDLKEELKELEAELEELQTELEELNEELEELEEQLEELRDRLKELERELAELQEE 475

Query: 309 KKELEQPKSLTDNEETRLLSLQSMNNGRSLQLILNQHLQKHDL-IFGQISQ 358
            + LE+  S   + E RL  L++          + + L+     ++G +++
Sbjct: 476 LQRLEKELS---SLEARLDRLEAEQRASQGVRAVLEALESGLPGVYGPVAE 523

Length = 1163

>gnl|CDD|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC, primarily archaeal type

 Score = 73.9 bits (182), Expect = 9e-14
 Identities = 78/319 (24%), Positives = 153/319 (47%), Gaps = 21/319 (6%)

Query: 21  QLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELAL 80
           +L+ L +R+   K EL+ +Q E+    + L    +EL    ++I     E++  + E   
Sbjct: 675 ELQRLRERLEGLKRELSSLQSELRRIENRLDELSQELSDASRKIGEIEKEIEQLEQEEEK 734

Query: 81  VEKEIEESNSELQSKEIELGLLQKRVGECNCELECKQQQLGLAQSEEDLLKNSLKNS-IE 139
           +++ +EE   +L S E E+  ++  + E    +E  ++ L   +   + L+  L +S I 
Sbjct: 735 LKERLEELEEDLSSLEQEIENVKSELKELEARIEELEEDLHKLEEALNDLEARLSHSRIP 794

Query: 140 HWSQKLNLTKEELSLLQKSIRECKGELDSKERQLAVVQKRIGECNNELQLKENELNLVKT 199
               +L+  +EE+S ++  +RE + +L+    +   ++K I     ELQ +  +L     
Sbjct: 795 EIQAELSKLEEEVSRIEARLREIEQKLNRLTLEKEYLEKEI----QELQEQRIDLKEQIK 850

Query: 200 VVEHCLQKLNLKKEELSLLQKSNGEWNGQLECGERQLELRLEPESGIKDCSQQIELKEKK 259
            +E  ++ LN KKEEL            + E  E +  LR + ES + D  ++ +  E +
Sbjct: 851 SIEKEIENLNGKKEEL------------EEELEELEAALR-DLESRLGDLKKERDELEAQ 897

Query: 260 LRQIQSSIEECEKELAIKERHISDYEEKLKAKEKLYDEIKKSIKELESAKKE---LEQPK 316
           LR+++  IEE E ++  K + +S+ + KL+A E+   EI+    E E   +E   LE  +
Sbjct: 898 LRELERKIEELEAQIEKKRKRLSELKAKLEALEEELSEIEDPKGEDEEIPEEELSLEDVQ 957

Query: 317 SLTDNEETRLLSLQSMNNG 335
           +     E  + +L+ +N  
Sbjct: 958 AELQRVEEEIRALEPVNML 976

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1164

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 70.5 bits (173), Expect = 1e-12
 Identities = 69/310 (22%), Positives = 143/310 (46%), Gaps = 12/310 (3%)

Query: 4   RTNEIRGFNLKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKR 63
           +  E++    +L   E QL  LE+ +   K EL  ++  +EE   +L   E++L  +++ 
Sbjct: 665 QKRELKELEEELAELEAQLEKLEEELKSLKNELRSLEDLLEELRRQLEELERQLEELKRE 724

Query: 64  IRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNCELECKQQQLGLA 123
           +     EL+  Q  L  +E+E+EE   EL+  +  L  L++ +      LE    +L   
Sbjct: 725 LAALEEELEQLQSRLEELEEELEELEEELEELQERLEELEEELE----SLEEALAKLKEE 780

Query: 124 QSEEDLLKNSLKNSIEHWSQKLNLTKEELSLLQKSIRECKGELDSKERQLAVVQKRIGEC 183
             E +  + +L+  +E   ++L   +  L  L++ +   +   +  E+++  +++ I E 
Sbjct: 781 IEELEEKRQALQEELEELEEELEEAERRLDALERELESLEQRRERLEQEIEELEEEIEEL 840

Query: 184 NNELQLKENELNLVKTVVEHCLQKLNLKKEELSLLQKSNGEWNGQLECGERQLELRLEPE 243
             +L   E EL  ++  +E   ++L   + E   L+    E   + E  E +L    E E
Sbjct: 841 EEKLDELEEELEELEKELEELKEELEELEAEKEELEDELKELEEEKEELEEELR---ELE 897

Query: 244 SGIKDCSQQIELKEKKLRQIQSSIEECEKELAIKERHISDYEEKLKAKEKLYDEIKKSIK 303
           S + +  ++IE   ++L ++++ +E  E EL   E  + +  E     + L  E+++ I+
Sbjct: 898 SELAELKEEIEKLRERLEELEAKLERLEVELPELEEELEEEYE-----DTLETELEREIE 952

Query: 304 ELESAKKELE 313
            LE   + L 
Sbjct: 953 RLEEEIEALG 962

Length = 1163

>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common bacterial type

 Score = 68.2 bits (167), Expect = 6e-12
 Identities = 80/327 (24%), Positives = 155/327 (47%), Gaps = 26/327 (7%)

Query: 12  NLKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGEL 71
           +L+ Q  E+  R+ E +    + ELAL+   +EE   EL   ++EL   ++ +     EL
Sbjct: 204 SLERQ-AEKAERYKELKAELRELELALLVLRLEELREELEELQEELKEAEEELEELTAEL 262

Query: 72  QSKQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNCELECKQQQLGLAQSEEDLLK 131
           Q  +        ++EE   E+   E E+  LQK +     E+   +QQ  + +     L+
Sbjct: 263 QELEE-------KLEELRLEVSELEEEIEELQKELYALANEISRLEQQKQILRERLANLE 315

Query: 132 NSLK---NSIEHWSQKLNLTKEELSLLQKSIRECKGELDSKERQLAVVQKRIGECNNELQ 188
             L+     +E    KL+   EEL+ L++ + E K EL+S E +L  ++  + E  + L+
Sbjct: 316 RQLEELEAQLEELESKLDELAEELAELEEKLEELKEELESLEAELEELEAELEELESRLE 375

Query: 189 LKENELNLVKTVVEHCLQKLNLKKEELSLLQKSNGEWNGQLECGERQLELRLEPESGIKD 248
             E +L  +++ V     ++     E+  L+        +LE    +LE R E      +
Sbjct: 376 ELEEQLETLRSKVAQLELQIASLNNEIERLEA-------RLE----RLEDRRERLQQEIE 424

Query: 249 CSQQIELKEKKLRQIQSSIEECEKELAIKERHISDYEEKLKAKEKLYDEIKKSIKELESA 308
                +L+E +L+++Q+ +EE E+EL   +  +   EE L+   +  +E +   + L++A
Sbjct: 425 -ELLKKLEEAELKELQAELEELEEELEELQEELERLEEALEELREELEEAE---QALDAA 480

Query: 309 KKELEQPKSLTDNEETRLLSLQSMNNG 335
           ++EL Q ++  D+ E    +L+  + G
Sbjct: 481 ERELAQLQARLDSLERLQENLEGFSEG 507

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1179

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 63.6 bits (155), Expect = 2e-10
 Identities = 73/314 (23%), Positives = 147/314 (46%), Gaps = 21/314 (6%)

Query: 7   EIRGFNLKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRG 66
           +++    +L+  E +L  LE+ + E + EL   +KEIEE  SEL    +EL  +Q+ +  
Sbjct: 233 KLKELRKELEELEEELSRLEEELEELQEELEEAEKEIEELKSELEELREELEELQEELLE 292

Query: 67  CNGELQSKQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNCELECKQQQLGLAQSE 126
              E++  +GE++L+ + +EE  +EL+  E  L  L++++     ELE ++  L   +  
Sbjct: 293 LKEEIEELEGEISLLRERLEELENELEELEERLEELKEKIEALKEELEERETLLEELEQL 352

Query: 127 EDLLK-------NSLKNSIEHWSQKLNLTKEELSLLQKSIRECKGELDSKERQLAVVQKR 179
              L+         L   +E   +     +EEL+ L+  + E + EL+  +R++  +++R
Sbjct: 353 LAELEEAKEELEEKLSALLEELEELFEALREELAELEAELAEIRNELEELKREIESLEER 412

Query: 180 IGECNNELQLKENELNLVKTVVEHCLQKLNLKKEELSLLQKSNGEWNGQLECGERQLELR 239
           +   +  L+  + EL  ++  +E    +L    EEL  L++   E   +L+  ER+L   
Sbjct: 413 LERLSERLEDLKEELKELEAELEELQTELEELNEELEELEEQLEELRDRLKELEREL--- 469

Query: 240 LEPESGIKDCSQQIELKEKKLRQIQSSIEECEKELAIKERHISDYEEKLKAKEKLYDEIK 299
                       +++ + ++L +  SS+E     L  ++R        L+A E     + 
Sbjct: 470 -----------AELQEELQRLEKELSSLEARLDRLEAEQRASQGVRAVLEALESGLPGVY 518

Query: 300 KSIKELESAKKELE 313
             + EL   K++ E
Sbjct: 519 GPVAELIKVKEKYE 532

Length = 1163

>gnl|CDD|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC, primarily archaeal type

 Score = 62.0 bits (151), Expect = 5e-10
 Identities = 71/311 (22%), Positives = 132/311 (42%), Gaps = 29/311 (9%)

Query: 7    EIRGFNLKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELG-----LVQ 61
            E      +L+  E  L  LE+ I   K EL  ++  IEE   +L   E+ L      L  
Sbjct: 731  EEEKLKERLEELEEDLSSLEQEIENVKSELKELEARIEELEEDLHKLEEALNDLEARLSH 790

Query: 62   KRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNCEL-ECKQQQL 120
             RI     EL   + E++ +E  + E   +L    +E   L+K + E   +  + K+Q  
Sbjct: 791  SRIPEIQAELSKLEEEVSRIEARLREIEQKLNRLTLEKEYLEKEIQELQEQRIDLKEQIK 850

Query: 121  GLAQSEEDLLKNSLKNSIEHWSQKLNLTKEELSLLQKSIRECKGELDSKERQLAVVQKRI 180
             + +  E+     L    E   ++L   +  L  L+  + + K E D  E QL  ++++I
Sbjct: 851  SIEKEIEN-----LNGKKEELEEELEELEAALRDLESRLGDLKKERDELEAQLRELERKI 905

Query: 181  GECNNELQLKENELNLVKTVVEHCLQKLNLKKEELSLLQKSNGEWNGQLECGERQLELRL 240
             E   +++ K   L+ +K        KL   +EELS           ++E  + + E   
Sbjct: 906  EELEAQIEKKRKRLSELKA-------KLEALEEELS-----------EIEDPKGEDEEIP 947

Query: 241  EPESGIKDCSQQIELKEKKLRQIQSSIEECEKELAIKERHISDYEEKLKAKEKLYDEIKK 300
            E E  ++D   +++  E+++R ++       +E     + + + +EK    E+    I +
Sbjct: 948  EEELSLEDVQAELQRVEEEIRALEPVNMLAIQEYEEVLKRLDELKEKRAKLEEERKAILE 1007

Query: 301  SIKELESAKKE 311
             I+E E  K+E
Sbjct: 1008 RIEEYEKKKRE 1018

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1164

>gnl|CDD|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC, primarily archaeal type

 Score = 60.1 bits (146), Expect = 2e-09
 Identities = 67/321 (20%), Positives = 140/321 (43%), Gaps = 26/321 (8%)

Query: 49  ELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGLLQKRVGE 108
           E +   KE   ++++      +L S + EL  + +EI E    L+  E  L  L K++ +
Sbjct: 224 EGYELLKEKEALERQKEAIERQLASLEEELEKLTEEISELEKRLEEIEQLLEELNKKIKD 283

Query: 109 CNCELECK-QQQLGLAQSEEDLLKNSLKNS---IEHWSQKLNLTKEELSLLQKSIRECKG 164
              E + + ++++G  ++E   L+ S+      +E   ++L   + E+  L   I E + 
Sbjct: 284 LGEEEQLRVKEKIGELEAEIASLERSIAEKERELEDAEERLAKLEAEIDKLLAEIEELER 343

Query: 165 ELDSKERQLAVVQKRIGECNNELQLKENELNLVKTVVEHCLQKLNLKKEELSLLQKSNGE 224
           E++ + ++   + +   E   EL+    EL  V         +L   +E+L  L++   E
Sbjct: 344 EIEEERKRRDKLTEEYAELKEELEDLRAELEEVDKEFAETRDELKDYREKLEKLKREINE 403

Query: 225 WNGQLECGERQLELRLEPESGIKDCSQQIELKEKKLRQIQSSIEECEKELAIKERHI--- 281
              +L+   R  E        + D +  I   E K+ +++   E+   E+  +E  +   
Sbjct: 404 LKRELD---RLQEELQRLSEELADLNAAIAGIEAKINELEEEKEDKALEIKKQEWKLEQL 460

Query: 282 ----SDYEEKLKAKEKLYDEIKKSIKELESAKKELEQPKSLTDNEETRLLSLQSMNNGRS 337
               S YE++L   ++ YD ++K   EL   ++EL +       E     S + +  GR+
Sbjct: 461 AADLSKYEQELYDLKEEYDRVEK---ELSKLQRELAEA------EAQARASEERVRGGRA 511

Query: 338 LQLILNQHLQKHDLIFGQISQ 358
           ++ +L   +Q    + G ++Q
Sbjct: 512 VEEVLKASIQG---VHGTVAQ 529

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1164

>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common bacterial type

 Score = 59.7 bits (145), Expect = 3e-09
 Identities = 70/314 (22%), Positives = 148/314 (47%), Gaps = 8/314 (2%)

Query: 9   RGFNLKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCN 68
              N  +  + R++  LE++I E + ++A ++K + E   EL   E+EL  ++K +   +
Sbjct: 666 AKTNSSILERRREIEELEEKIEELEEKIAELEKALAELRKELEELEEELEQLRKELEELS 725

Query: 69  GELQSKQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNCELECKQQQLGLAQSEED 128
            ++ + + +LA +E E+E+    +     EL  L+  + E    LE  +++L  A++E +
Sbjct: 726 RQISALRKDLARLEAEVEQLEERIAQLSKELTELEAEIEELEERLEEAEEELAEAEAEIE 785

Query: 129 LLK---NSLKNSIEHWSQKLNLTKEELSLLQKSIRECKGELDSKERQLAVVQKRIGECNN 185
            L+     LK  ++   + L+  + EL+LL +     +  L+S ER++A  ++R+ +   
Sbjct: 786 ELEAQIEQLKEELKALREALDELRAELTLLNEEAANLRERLESLERRIAATERRLEDLEE 845

Query: 186 ELQLKENELNLVKTVVEHCLQKLNLKKEELSLLQKSNGEWNGQLECGERQLEL----RLE 241
           +++    ++  +   +E   + +   + EL  L          L     +LE       E
Sbjct: 846 QIEELSEDIESLAAEIEELEELIEELESELEALLNERASLEEALALLRSELEELSEELRE 905

Query: 242 PESGIKDCSQQIELKEKKLRQIQSSIEECEKELA-IKERHISDYEEKLKAKEKLYDEIKK 300
            ES   +  +++E   +KL Q++  +E  E  +  ++ER   +Y   L+  E L ++I+ 
Sbjct: 906 LESKRSELRRELEELREKLAQLELRLEGLEVRIDNLQERLSEEYSLTLEEAEALENKIED 965

Query: 301 SIKELESAKKELEQ 314
             +E     K LE 
Sbjct: 966 DEEEARRRLKRLEN 979

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1179

>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common bacterial type

 Score = 57.0 bits (138), Expect = 2e-08
 Identities = 62/260 (23%), Positives = 123/260 (47%), Gaps = 6/260 (2%)

Query: 58  GLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNCELECKQ 117
           G++       N  +  ++ E+  +E++IEE   ++   E  L  L+K + E   ELE  +
Sbjct: 659 GVITGGSAKTNSSILERRREIEELEEKIEELEEKIAELEKALAELRKELEELEEELEQLR 718

Query: 118 QQLGLAQSEEDLLKNSLK---NSIEHWSQKLNLTKEELSLLQKSIRECKGELDSKERQLA 174
           ++L     +   L+  L      +E   +++    +EL+ L+  I E +  L+  E +LA
Sbjct: 719 KELEELSRQISALRKDLARLEAEVEQLEERIAQLSKELTELEAEIEELEERLEEAEEELA 778

Query: 175 VVQKRIGECNNELQLKENELNLVKTVVEHCLQKLNLKKEELSLLQKSNGEWNGQLECGER 234
             +  I E   +++  + EL  ++  ++    +L L  EE + L++       ++   ER
Sbjct: 779 EAEAEIEELEAQIEQLKEELKALREALDELRAELTLLNEEAANLRERLESLERRIAATER 838

Query: 235 QLELRLEPESGIKDCSQQIELKEKKLRQIQSSIEECEKELAIKERHISDYEEKLKAKEKL 294
           +LE   + E  I++ S+ IE    ++ +++  IEE E EL       +  EE L      
Sbjct: 839 RLE---DLEEQIEELSEDIESLAAEIEELEELIEELESELEALLNERASLEEALALLRSE 895

Query: 295 YDEIKKSIKELESAKKELEQ 314
            +E+ + ++ELES + EL +
Sbjct: 896 LEELSEELRELESKRSELRR 915

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1179

>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common bacterial type

 Score = 55.8 bits (135), Expect = 4e-08
 Identities = 46/193 (23%), Positives = 94/193 (48%), Gaps = 1/193 (0%)

Query: 12  NLKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGEL 71
             +L+  E +L  L + + E + +L  +++E+E   +EL   E EL  ++ R+     +L
Sbjct: 322 EAQLEELESKLDELAEELAELEEKLEELKEELESLEAELEELEAELEELESRLEELEEQL 381

Query: 72  QSKQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNCELECKQQQLGLAQSEEDLLK 131
           ++ + ++A +E +I   N+E++  E  L  L+ R      E+E   ++L  A+ +E   +
Sbjct: 382 ETLRSKVAQLELQIASLNNEIERLEARLERLEDRRERLQQEIEELLKKLEEAELKELQAE 441

Query: 132 NSLKNSIEHWSQK-LNLTKEELSLLQKSIRECKGELDSKERQLAVVQKRIGECNNELQLK 190
                      Q+ L   +E L  L++ + E +  LD+ ER+LA +Q R+       +  
Sbjct: 442 LEELEEELEELQEELERLEEALEELREELEEAEQALDAAERELAQLQARLDSLERLQENL 501

Query: 191 ENELNLVKTVVEH 203
           E     VK ++++
Sbjct: 502 EGFSEGVKALLKN 514

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1179

>gnl|CDD|235175 PRK03918, PRK03918, chromosome segregation protein; Provisional

 Score = 50.4 bits (121), Expect = 2e-06
 Identities = 64/297 (21%), Positives = 136/297 (45%), Gaps = 13/297 (4%)

Query: 25  LEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKE 84
           +E+ I E + EL  V +EI E +SEL    +EL  ++K ++    EL+  + E+  +EKE
Sbjct: 191 IEELIKEKEKELEEVLREINEISSELPELREELEKLEKEVK----ELEELKEEIEELEKE 246

Query: 85  IEESNSELQSKEIELGLLQKRVGECNCELECKQQQLGLAQS-----EEDLLKNSLKNSIE 139
           +E      +  E ++  L++R+ E   E+E  ++++   +      EE +  +       
Sbjct: 247 LESLEGSKRKLEEKIRELEERIEELKKEIEELEEKVKELKELKEKAEEYIKLSEFYEEYL 306

Query: 140 HWSQKLNLTKEELSLLQKSIRECKGELDSKERQLAVVQKRIGECNNELQLKENELNLVKT 199
              +++      L      I E   EL+ KE +L  ++K++ E    L+  E    L + 
Sbjct: 307 DELREIEKRLSRLEEEINGIEERIKELEEKEERLEELKKKLKELEKRLEELEERHELYEE 366

Query: 200 VVEHCLQKLNLKKEELSLLQKSNGEWNGQLECGERQLELRLEPESGIKDCSQQIELKEKK 259
                 +   LKK    L   +  +   +LE  E+  E   E  S I     +++ + K+
Sbjct: 367 AKAKKEELERLKKR---LTGLTPEKLEKELEELEKAKEEIEEEISKITARIGELKKEIKE 423

Query: 260 LRQIQSSIEECEKELAIKERHISDYEEKLKAKEKLYDEIKKSIKELESAKKELEQPK 316
           L++    +++ + +  +  R +++ E + +  E+   E+K+  KEL+  +++  + +
Sbjct: 424 LKKAIEELKKAKGKCPVCGRELTE-EHRKELLEEYTAELKRIEKELKEIEEKERKLR 479

Length = 880

>gnl|CDD|226809 COG4372, COG4372, Uncharacterized protein conserved in bacteria with the myosin-like domain [Function unknown]

 Score = 50.0 bits (119), Expect = 2e-06
 Identities = 47/231 (20%), Positives = 95/231 (41%), Gaps = 18/231 (7%)

Query: 56  ELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNCELEC 115
           +L  ++ ++R    EL + QGE    E E E + SELQ    E   +++ +      L  
Sbjct: 75  QLDDIRPQLRALRTELGTAQGEKRAAETEREAARSELQKARQEREAVRQELAAARQNLAK 134

Query: 116 KQQQLGLAQSEEDLLKNSLKNSIEHWSQKLNLTKEELSLLQKSIRECKGELDSKERQLAV 175
            QQ+L     +   L+  LK   E   ++L    + L   QK ++    +L S+   L +
Sbjct: 135 AQQELARLTKQAQDLQTRLKTLAEQR-RQLEAQAQSLQASQKQLQASATQLKSQVLDLKL 193

Query: 176 VQKRIGECNNELQLKENELNLVKTVVEHCLQKLNLKKEELSLLQKSNGEWNGQLECGERQ 235
              +I +    L  + N         +   ++L  +        ++  + + Q+    +Q
Sbjct: 194 RSAQIEQEAQNLATRANA-------AQARTEELARRAAAAQQTAQAIQQRDAQISQKAQQ 246

Query: 236 LELRLEPESGIKDCSQQIELKEKKLRQIQSSIEECEKELAIKERHISDYEE 286
           +  R E          QI  +E++L++++++    E+E+A  E +   Y  
Sbjct: 247 IAARAE----------QIRERERQLQRLETAQARLEQEVAQLEAYYQAYVR 287

Length = 499

>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common bacterial type

 Score = 49.7 bits (119), Expect = 3e-06
 Identities = 66/317 (20%), Positives = 135/317 (42%), Gaps = 44/317 (13%)

Query: 3    TRTNEIRGFNLKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQK 62
                 I   + +L   E ++  LE+R+ E++ ELA  + EIEE              ++ 
Sbjct: 744  QLEERIAQLSKELTELEAEIEELEERLEEAEEELAEAEAEIEE--------------LEA 789

Query: 63   RIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNCELECKQQQLGL 122
            +I     EL++ +  L  +  E+   N E  +    L  L++R+      LE  ++Q  +
Sbjct: 790  QIEQLKEELKALREALDELRAELTLLNEEAANLRERLESLERRIAATERRLEDLEEQ--I 847

Query: 123  AQSEEDLLK-----NSLKNSIEHWSQKLNLTKEELSLLQKSIRECKGELDSKERQLAVVQ 177
             +  ED+         L+  IE    +L     E + L++++   + EL+    +L  ++
Sbjct: 848  EELSEDIESLAAEIEELEELIEELESELEALLNERASLEEALALLRSELEELSEELRELE 907

Query: 178  KRIGECNNELQLKENELNLVKTVVEHCLQKLNLKKEELSLLQKSNGEWNGQLECGERQLE 237
             +  E   EL+    +L  ++  +E    +++  +E LS             E     LE
Sbjct: 908  SKRSELRRELEELREKLAQLELRLEGLEVRIDNLQERLS-------------EEYSLTLE 954

Query: 238  LRLEPESGIKDCSQQIELKEKKLRQIQSSIEECEKELAIKERHISDYEEKLKAKEKLYDE 297
                 E+ I+D  ++     ++L+++++ I+E      +    I +YEE     ++ YD 
Sbjct: 955  EAEALENKIEDDEEEA---RRRLKRLENKIKELG---PVNLAAIEEYEE----LKERYDF 1004

Query: 298  IKKSIKELESAKKELEQ 314
            +    ++L  AK+ LE+
Sbjct: 1005 LTAQKEDLTEAKETLEE 1021

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1179

>gnl|CDD|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC, primarily archaeal type

 Score = 47.0 bits (112), Expect = 2e-05
 Identities = 51/285 (17%), Positives = 113/285 (39%), Gaps = 50/285 (17%)

Query: 19  ERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGEL 78
           E QLR  +++IGE + E+A +++ I E   EL   E+ L  ++  I     E++  + E+
Sbjct: 287 EEQLRV-KEKIGELEAEIASLERSIAEKERELEDAEERLAKLEAEIDKLLAEIEELEREI 345

Query: 79  ALVEKEIEESNSELQSKEIELGLLQKRVGECNCELECKQQQLGLAQSEEDLLKNSLKNSI 138
               K  ++   E    + EL  L+  + E                         +    
Sbjct: 346 EEERKRRDKLTEEYAELKEELEDLRAELEE-------------------------VDKEF 380

Query: 139 EHWSQKLNLTKEELSLLQKSIRECKGELDSKERQLAVVQKRIGECNNELQLKENELNLVK 198
                +L   +E+L  L++ I E K ELD  + +L  + + + + N  +   E ++N ++
Sbjct: 381 AETRDELKDYREKLEKLKREINELKRELDRLQEELQRLSEELADLNAAIAGIEAKINELE 440

Query: 199 TVVEHCLQKLNLKKEELSLLQKSNGEWNGQLECGERQLELRLEPESGIKDCSQQIELKEK 258
              E    ++  ++ +L  L                           +    Q++   ++
Sbjct: 441 EEKEDKALEIKKQEWKLEQLAAD------------------------LSKYEQELYDLKE 476

Query: 259 KLRQIQSSIEECEKELAIKERHISDYEEKLKAKEKLYDEIKKSIK 303
           +  +++  + + ++ELA  E      EE+++    + + +K SI+
Sbjct: 477 EYDRVEKELSKLQRELAEAEAQARASEERVRGGRAVEEVLKASIQ 521

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1164

>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common bacterial type

 Score = 47.7 bits (114), Expect = 2e-05
 Identities = 54/268 (20%), Positives = 115/268 (42%), Gaps = 20/268 (7%)

Query: 1   MKTRTNEIRGFNLKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLV 60
           ++  T E++    KL+    ++  LE+ I E + EL  +  EI          E++  ++
Sbjct: 255 LEELTAELQELEEKLEELRLEVSELEEEIEELQKELYALANEISR-------LEQQKQIL 307

Query: 61  QKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNCELECKQQQL 120
           ++R+     +L+  + +L  +E +++E   EL   E +L  L++ +     ELE  + +L
Sbjct: 308 RERLANLERQLEELEAQLEELESKLDELAEELAELEEKLEELKEELESLEAELEELEAEL 367

Query: 121 GLAQSEEDLLKNSLKNSIEHWSQKLNLTKEELSLLQKSIRECKGELDSKERQLAVVQKRI 180
              +S        L+  +E    K+   + +++ L   I   +  L+  E +   +Q+ I
Sbjct: 368 EELES----RLEELEEQLETLRSKVAQLELQIASLNNEIERLEARLERLEDRRERLQQEI 423

Query: 181 GECNNELQLKENELNLVKTVVEHCLQKLNLKKEELSLLQKSNGEWNGQLECGERQLELRL 240
            E   +L+  E         ++    +L   +EEL  LQ+        LE    +LE   
Sbjct: 424 EELLKKLEEAE---------LKELQAELEELEEELEELQEELERLEEALEELREELEEAE 474

Query: 241 EPESGIKDCSQQIELKEKKLRQIQSSIE 268
           +     +    Q++ +   L ++Q ++E
Sbjct: 475 QALDAAERELAQLQARLDSLERLQENLE 502

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1179

>gnl|CDD|223496 COG0419, SbcC, ATPase involved in DNA repair [DNA replication, recombination, and repair]

 Score = 47.4 bits (113), Expect = 2e-05
 Identities = 67/305 (21%), Positives = 139/305 (45%), Gaps = 4/305 (1%)

Query: 13  LKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQ 72
            +L+ ++ +L  L+ R+ E +       K  EE   EL    +EL    +R+     E++
Sbjct: 242 AELEEEKERLEELKARLLEIESLELEALKIREEELRELERLLEELEEKIERLEELEREIE 301

Query: 73  SKQGELALV---EKEIEESNSELQSKEIELGLLQKRVGECNCELECKQQQLGLAQSEEDL 129
             + EL  +    +E+EE   +L+S E  L  L++++ +   ELE   ++        + 
Sbjct: 302 ELEEELEGLRALLEELEELLEKLKSLEERLEKLEEKLEKLESELEELAEEKNELAKLLEE 361

Query: 130 LKNSLKNSIEHWSQKLNLTKEELSLLQKSIRECKGELDSKERQLAVVQKRIGECNNELQL 189
               L+  +E   ++L    E L  L+++I+E K EL      L  +Q+ + E   EL+ 
Sbjct: 362 RLKELEERLEELEKELEKALERLKQLEEAIQELKEELAELSAALEEIQEELEELEKELEE 421

Query: 190 KENELNLVKTVVEHCLQKLNLKKEELSLLQKSNGEWNGQLECG-ERQLELRLEPESGIKD 248
            E EL  ++  ++   +++N  + +  ++ +  G       CG E   E   E     + 
Sbjct: 422 LERELEELEEEIKKLEEQINQLESKELMIAELAGAGEKCPVCGQELPEEHEKELLELYEL 481

Query: 249 CSQQIELKEKKLRQIQSSIEECEKELAIKERHISDYEEKLKAKEKLYDEIKKSIKELESA 308
             +++E +  + ++     EE E+          +  E L+ +E L +E+++ +++LE+ 
Sbjct: 482 ELEELEEELSREKEEAELREEIEELEKELRELEEELIELLELEEALKEELEEKLEKLENL 541

Query: 309 KKELE 313
            +ELE
Sbjct: 542 LEELE 546

Length = 908

>gnl|CDD|100796 PRK01156, PRK01156, chromosome segregation protein; Provisional

 Score = 46.0 bits (109), Expect = 5e-05
 Identities = 59/336 (17%), Positives = 130/336 (38%), Gaps = 35/336 (10%)

Query: 14  KLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQS 73
           KL+    +L  ++K+I + +   ++  KEIE  + E      +   ++  +     EL S
Sbjct: 191 KLKSSNLELENIKKQIADDEKSHSITLKEIERLSIEYNNAMDDYNNLKSALN----ELSS 246

Query: 74  KQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNCELECKQQQLGLAQSEEDLLKNS 133
            +      E EI+ + S+L  +  +     K + E + ++                    
Sbjct: 247 LEDMKNRYESEIKTAESDLSMELEKNNYY-KELEERHMKIINDP---VYKNRNYINDYFK 302

Query: 134 LKNSIEHWSQKLNLTKEELSLLQKSIRECKGELDSKERQLAVVQKRIGECNNEL-QLKEN 192
            KN IE+  Q L+    E++     I++    L          + R  + NN++ +L+  
Sbjct: 303 YKNDIENKKQILSNIDAEINKYHAIIKKLS-VLQKDYNDYIKKKSRYDDLNNQILELEGY 361

Query: 193 ELNLVKTVVEHCLQKLNLKKEELSLLQKSNG----EWNGQLECGERQLELRL-EPESGIK 247
           E++    +    ++ L  K EE S   +       E     E     ++  L E    ++
Sbjct: 362 EMDYNSYLKS--IESLKKKIEEYSKNIERMSAFISEILKIQEIDPDAIKKELNEINVKLQ 419

Query: 248 DCSQQIELKEKKLRQIQSSIEECEKELAIKERH------------------ISDYEEKLK 289
           D S ++    +++R ++ +++E  + + +                      I+ Y EK  
Sbjct: 420 DISSKVSSLNQRIRALRENLDELSRNMEMLNGQSVCPVCGTTLGEEKSNHIINHYNEKKS 479

Query: 290 AKEKLYDEIKKSIKELESAKKELEQPKSLTDNEETR 325
             E+   EI+  +K+++    +L++ K   ++EE  
Sbjct: 480 RLEEKIREIEIEVKDIDEKIVDLKKRKEYLESEEIN 515

Length = 895

>gnl|CDD|235175 PRK03918, PRK03918, chromosome segregation protein; Provisional

 Score = 45.4 bits (108), Expect = 7e-05
 Identities = 64/236 (27%), Positives = 115/236 (48%), Gaps = 20/236 (8%)

Query: 78  LALVEKEIEESNSELQSKEIELGLLQKRVGECNCELECKQQQLGLAQSEEDLLKNSLKNS 137
           L  V KEI+     L+        +++ + E   ELE   +++    SE   L+  L+  
Sbjct: 167 LGEVIKEIKRRIERLEKFIKRTENIEELIKEKEKELEEVLREINEISSELPELREELEK- 225

Query: 138 IEHWSQKLNLTKEELSLLQKSIRECKGELDSKERQLAVVQKRIGECNNELQLKENELNLV 197
           +E   ++L   KEE+  L+K +   +G     E ++  +++RI E      LK+    L 
Sbjct: 226 LEKEVKELEELKEEIEELEKELESLEGSKRKLEEKIRELEERIEE------LKKEIEELE 279

Query: 198 KTVVEHCLQKLNLKKEELSLLQKSNGEWNGQLECGERQLELRLEPESGIKDCSQQIELKE 257
           + V E  L++L  K EE   L +   E+  +L   E++L    E  +GI++  +++E KE
Sbjct: 280 EKVKE--LKELKEKAEEYIKLSEFYEEYLDELREIEKRLSRLEEEINGIEERIKELEEKE 337

Query: 258 KKLRQIQSSIEECEKELAIKERHISDYEEKLKAKEKLYDEIKKSIKELESAKKELE 313
           ++L +++  ++E EK L           E+L+ + +LY+E K   +ELE  KK L 
Sbjct: 338 ERLEELKKKLKELEKRL-----------EELEERHELYEEAKAKKEELERLKKRLT 382

Length = 880

>gnl|CDD|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC, primarily archaeal type

 Score = 44.7 bits (106), Expect = 1e-04
 Identities = 42/202 (20%), Positives = 87/202 (43%), Gaps = 4/202 (1%)

Query: 1   MKTRTNEIRGFNLKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLV 60
           ++     +     ++     ++  LE+ I E +     + +E  E   EL     EL  V
Sbjct: 317 LEDAEERLAKLEAEIDKLLAEIEELEREIEEERKRRDKLTEEYAELKEELEDLRAELEEV 376

Query: 61  QKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNCELECKQQQL 120
            K       EL+  + +L  +++EI E   EL   + EL  L + + + N  +   + + 
Sbjct: 377 DKEFAETRDELKDYREKLEKLKREINELKRELDRLQEELQRLSEELADLNAAIAGIEAK- 435

Query: 121 GLAQSEEDLLKNSLKNSIEHWSQKLNLTKEELSLLQKSIRECKGELDSKERQLAVVQKRI 180
            + + EE+    +L+  I+    KL     +LS  ++ + + K E D  E++L+ +Q+ +
Sbjct: 436 -INELEEEKEDKALE--IKKQEWKLEQLAADLSKYEQELYDLKEEYDRVEKELSKLQREL 492

Query: 181 GECNNELQLKENELNLVKTVVE 202
            E   + +  E  +   + V E
Sbjct: 493 AEAEAQARASEERVRGGRAVEE 514

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1164

>gnl|CDD|227355 COG5022, COG5022, Myosin heavy chain [Cytoskeleton]

 Score = 45.1 bits (107), Expect = 1e-04
 Identities = 52/277 (18%), Positives = 104/277 (37%), Gaps = 35/277 (12%)

Query: 55   KELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIE--LGLLQKR-----VG 107
            +      KRI+      Q  Q     + + ++         +++  L LL  R       
Sbjct: 762  RRYLQALKRIKKI----QVIQHGF-RLRRLVDYELKWRLFIKLQPLLSLLGSRKEYRSYL 816

Query: 108  ECNCELEC---KQQQLGLAQSEEDLLKN-SLKNSIEHWSQKLNLTKEELSLLQKS--IRE 161
             C  +L+    ++++L   +  E  LK   L        +     K+  SLL+K     +
Sbjct: 817  ACIIKLQKTIKREKKLRETEEVEFSLKAEVLIQKFGRSLKA----KKRFSLLKKETIYLQ 872

Query: 162  CKGELDSKERQLAVVQKRIGECNN----ELQLKENELNLVKTVVEHCLQKLNLKKEELSL 217
                ++  ERQL  ++  +   ++     L+L+   + L K++    ++ L  K E ++ 
Sbjct: 873  SAQRVELAERQLQELKIDVKSISSLKLVNLELESEIIELKKSLSSDLIENLEFKTELIAR 932

Query: 218  LQKSNGEWNGQLECGERQLELRLEPESGIKDCSQQIELKEKKLRQIQSSIEECEKELAIK 277
            L+K               LE     E        ++   E KL++     E+  K+  I 
Sbjct: 933  LKKLLNN---------IDLEEGPSIEYVKLPELNKLHEVESKLKETSEEYEDLLKKSTIL 983

Query: 278  ERHISDYEEKLKAKEKLYDEIKKSIKELESAKKELEQ 314
             R  +    +LK  +K   E+ K    L+ + K+L++
Sbjct: 984  VREGNKANSELKNFKKELAELSKQYGALQESTKQLKE 1020

Length = 1463

>gnl|CDD|223496 COG0419, SbcC, ATPase involved in DNA repair [DNA replication, recombination, and repair]

 Score = 44.4 bits (105), Expect = 2e-04
 Identities = 73/277 (26%), Positives = 135/277 (48%), Gaps = 8/277 (2%)

Query: 40  QKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIEL 99
           ++ +E    EL   E+EL   +K       E++  + EL  +E+E+ E     ++ + EL
Sbjct: 473 KELLELYELELEELEEEL-SREKEEAELREEIEELEKELRELEEELIELLELEEALKEEL 531

Query: 100 GLLQKRVGECNCELECKQQQLGLAQSEEDL-LKNSLKNSIEHWSQKLNLTKEELSLLQKS 158
               +++     ELE  +++L L Q +E+L         ++   ++L L         + 
Sbjct: 532 EEKLEKLENLLEELEELKEKLQLQQLKEELRQLEDRLQELKELLEELRL-LRTRKEELEE 590

Query: 159 IRECKGELDSKERQLAVVQKRIGECNNELQL--KENELNLVKTVVEHCLQKLNLKKEELS 216
           +RE   EL  K ++L     ++ E    L+L   ENEL   +  +E  L+KLNL+ E   
Sbjct: 591 LRERLKELKKKLKELEERLSQLEELLQSLELSEAENELEEAEEELESELEKLNLQAELEE 650

Query: 217 LLQKSNGEWNGQLECGE---RQLELRLEPESGIKDCSQQIELKEKKLRQIQSSIEECEKE 273
           LLQ +  E   ++E  E   R+   R+E E  +++  +++E  E++L Q++  +EE  K+
Sbjct: 651 LLQAALEELEEKVEELEAEIRRELQRIENEEQLEEKLEELEQLEEELEQLREELEELLKK 710

Query: 274 LAIKERHISDYEEKLKAKEKLYDEIKKSIKELESAKK 310
           L   E+ I + E +    E+L  E++K  K LE  ++
Sbjct: 711 LGEIEQLIEELESRKAELEELKKELEKLEKALELLEE 747

Length = 908

>gnl|CDD|129694 TIGR00606, rad50, rad50

 Score = 44.3 bits (104), Expect = 2e-04
 Identities = 60/330 (18%), Positives = 140/330 (42%), Gaps = 16/330 (4%)

Query: 6    NEIRGFNLKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIR 65
            +++R    KL+  E +L+  EKR  E  G     Q  I+        KEKE+  ++ +++
Sbjct: 702  SKLRLAPDKLKSTESELKKKEKRRDEMLGLAPGRQSIIDL-------KEKEIPELRNKLQ 754

Query: 66   GCNGELQSKQGELALVEKEIEESNSELQSKEI---ELGLLQKRVGEC-NCELECKQQQLG 121
              N ++Q  + ++   E  +     E +S ++   ++ ++++   E  + E +  QQ   
Sbjct: 755  KVNRDIQRLKNDIEEQETLLGTIMPEEESAKVCLTDVTIMERFQMELKDVERKIAQQAAK 814

Query: 122  LAQSEEDLLKNSLKNSIEHWSQKLNLTKEELSLLQKSIR---ECKGELDSKERQLAVVQK 178
            L  S+ D     +    +    +L+    ++ L +K I+   E    L SK  +L   + 
Sbjct: 815  LQGSDLDRTVQQVNQEKQEKQHELDTVVSKIELNRKLIQDQQEQIQHLKSKTNELKSEKL 874

Query: 179  RIGECNNELQLKENELNLVKTVVEHCLQKLNLKKEELS-LLQKSNGEWNGQLECGERQLE 237
            +IG      Q  E +L  + T V+  ++++   KE+ S L      +   + E    +  
Sbjct: 875  QIGTNLQRRQQFEEQLVELSTEVQSLIREIKDAKEQDSPLETFLEKDQQEKEELISSKET 934

Query: 238  LRLEPESGIKDCSQQIELKEKKLRQIQSSIEE-CEKELAIKERHISDYEEKLKAKEKLYD 296
               + +  + D  ++++     ++ I++ I++  +  L  KE  ++    +L+  EK  +
Sbjct: 935  SNKKAQDKVNDIKEKVKNIHGYMKDIENKIQDGKDDYLKQKETELNTVNAQLEECEKHQE 994

Query: 297  EIKKSIKELESAKKELEQPKSLTDNEETRL 326
            +I + ++ +       +  +    +  T  
Sbjct: 995  KINEDMRLMRQDIDTQKIQERWLQDNLTLR 1024

All proteins in this family for which functions are known are involvedin recombination, recombinational repair, and/or non-homologous end joining.They are components of an exonuclease complex with MRE11 homologs. This family is distantly related to the SbcC family of bacterial proteins.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). Length = 1311

>gnl|CDD|237177 PRK12704, PRK12704, phosphodiesterase; Provisional

 Score = 44.0 bits (105), Expect = 2e-04
 Identities = 27/105 (25%), Positives = 59/105 (56%), Gaps = 2/105 (1%)

Query: 229 LECGERQLELRLEPESGIKDCSQQIELKEKKLRQIQSSIEECEKELAIKERHISDYEEKL 288
           LE  E   +LR E E  +++   +++  EK+L Q + +++   + L  +E  +   E++L
Sbjct: 60  LEAKEEIHKLRNEFEKELRERRNELQKLEKRLLQKEENLDRKLELLEKREEELEKKEKEL 119

Query: 289 KAKEKLYDEIKKSIKEL-ESAKKELEQPKSLTDNEETRLLSLQSM 332
           + K++  ++ ++ ++EL E   +ELE+   LT  EE + + L+ +
Sbjct: 120 EQKQQELEKKEEELEELIEEQLQELERISGLT-AEEAKEILLEKV 163

Length = 520

>gnl|CDD|235175 PRK03918, PRK03918, chromosome segregation protein; Provisional

 Score = 43.1 bits (102), Expect = 3e-04
 Identities = 76/327 (23%), Positives = 149/327 (45%), Gaps = 35/327 (10%)

Query: 19  ERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRG-------CNGEL 71
           E++L  LEK     K E+     +I     EL  + KEL    + ++        C  EL
Sbjct: 390 EKELEELEKA----KEEIEEEISKITARIGELKKEIKELKKAIEELKKAKGKCPVCGREL 445

Query: 72  --QSKQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNCELECKQQQLGLAQSEEDL 129
             + ++  L     E++    EL+  E +   L+K + E    L+ K+ +L   +   + 
Sbjct: 446 TEEHRKELLEEYTAELKRIEKELKEIEEKERKLRKELRELEKVLK-KESELIKLKELAEQ 504

Query: 130 LKNSLKNSIEHWSQKLNLTKEELSLLQKSIRECKGELDSKERQL---AVVQKRIGECNNE 186
           LK   +   ++  ++L    EE   L++ + + KGE+ S +++L     ++K++ E   +
Sbjct: 505 LKELEEKLKKYNLEELEKKAEEYEKLKEKLIKLKGEIKSLKKELEKLEELKKKLAELEKK 564

Query: 187 LQLKENEL-NLVKTVVEHCLQKLNLKKEELSLLQKSNGEWNGQLECGERQLELRLEP--- 242
           L   E EL  L+K + E   + +   +E L  L+    E+  +L+  E++LE   +    
Sbjct: 565 LDELEEELAELLKELEELGFESVEELEERLKELEPFYNEYL-ELKDAEKELEREEKELKK 623

Query: 243 -ESGIKDCSQQIELKEKKLRQIQSSIEECEK------------ELAIKERHISDYEEKLK 289
            E  +    +++   EK+L +++  +EE EK            E     R ++    +L+
Sbjct: 624 LEEELDKAFEELAETEKRLEELRKELEELEKKYSEEEYEELREEYLELSRELAGLRAELE 683

Query: 290 AKEKLYDEIKKSIKELESAKKELEQPK 316
             EK  +EIKK++++L+   +E E+ K
Sbjct: 684 ELEKRREEIKKTLEKLKEELEEREKAK 710

Length = 880

>gnl|CDD|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC, primarily archaeal type

 Score = 43.1 bits (102), Expect = 4e-04
 Identities = 40/191 (20%), Positives = 84/191 (43%), Gaps = 3/191 (1%)

Query: 7   EIRGFNLKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRG 66
           +I     ++   ER +   E+ + +++  LA ++ EI++  +E+   E+E+   +KR   
Sbjct: 295 KIGELEAEIASLERSIAEKERELEDAEERLAKLEAEIDKLLAEIEELEREIEEERKRRDK 354

Query: 67  CNGELQSKQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNCELECKQQQLGLAQSE 126
              E    + EL  +  E+EE + E      EL   ++++ +   E+   +++L   Q E
Sbjct: 355 LTEEYAELKEELEDLRAELEEVDKEFAETRDELKDYREKLEKLKREINELKRELDRLQEE 414

Query: 127 EDLLKNS---LKNSIEHWSQKLNLTKEELSLLQKSIRECKGELDSKERQLAVVQKRIGEC 183
              L      L  +I     K+N  +EE       I++ + +L+     L+  ++ + + 
Sbjct: 415 LQRLSEELADLNAAIAGIEAKINELEEEKEDKALEIKKQEWKLEQLAADLSKYEQELYDL 474

Query: 184 NNELQLKENEL 194
             E    E EL
Sbjct: 475 KEEYDRVEKEL 485

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1164

>gnl|CDD|227278 COG4942, COG4942, Membrane-bound metallopeptidase [Cell division and chromosome partitioning]

 Score = 42.0 bits (99), Expect = 5e-04
 Identities = 22/96 (22%), Positives = 40/96 (41%), Gaps = 1/96 (1%)

Query: 251 QQIELKEKKLRQIQSSIEECEKELAIKERHISDYEEKLKAKEKLYDEIKKSIKELESAKK 310
           ++I   EKK+R+ Q    + EK+L   E  I+  E +L        +++K I +L +   
Sbjct: 45  KEIAALEKKIREQQDQRAKLEKQLKSLETEIASLEAQLIETADDLKKLRKQIADLNARLN 104

Query: 311 ELEQPKSLTDNEETRLLS-LQSMNNGRSLQLILNQH 345
            LE  +          L+ LQ         L+++  
Sbjct: 105 ALEVQEREQRRRLAEQLAALQRSGRNPPPALLVSPE 140

Length = 420

>gnl|CDD|215507 PLN02939, PLN02939, transferase, transferring glycosyl groups

 Score = 42.6 bits (100), Expect = 6e-04
 Identities = 58/266 (21%), Positives = 115/266 (43%), Gaps = 42/266 (15%)

Query: 70  ELQSKQGELALVEKEIEESNSEL----QSK---EIELGLLQKRVGECNCELECKQQQLGL 122
           E ++ QG++ ++E  + E+++ +    Q K   EI    L+K   E       +   +  
Sbjct: 164 EKEALQGKINILEMRLSETDARIKLAAQEKIHVEILEEQLEKLRNELLIRGATEGLCVHS 223

Query: 123 AQSEEDLLKN---SLKNSIEHWSQKLNLTKE----------ELSLLQKSIRECKGELDSK 169
              E D+LK     LK+ I+    +L    E          E SLL  S+RE + +    
Sbjct: 224 LSKELDVLKEENMLLKDDIQFLKAELIEVAETEERVFKLEKERSLLDASLRELESKFIVA 283

Query: 170 ERQLAVVQKRIGECNNELQLKENELNLVKTVVEHCLQKLNLKKEELSLLQKSNGEWNGQL 229
           +  ++ +     +C       E   NL     +  L +   + E+ +L+   N +   ++
Sbjct: 284 QEDVSKLSPLQYDC-----WWEKVENL-----QDLLDRATNQVEKAALVLDQNQDLRDKV 333

Query: 230 ECGERQLELRLEPESGIKDCSQQIELKEKKLRQIQSSIEECEKELAIKERHISDYEEKLK 289
           +    +LE  L+  +  K  S ++EL ++KL+ ++  ++  + E+     +I  Y+E +K
Sbjct: 334 D----KLEASLKEANVSKFSSYKVELLQQKLKLLEERLQASDHEI---HSYIQLYQESIK 386

Query: 290 AKEKLYDEIKKSIKELESAKKELEQP 315
                + +    +KE ES K+ LE P
Sbjct: 387 E----FQDTLSKLKE-ESKKRSLEHP 407

Length = 977

>gnl|CDD|188306 TIGR03319, RNase_Y, ribonuclease Y

 Score = 41.8 bits (99), Expect = 7e-04
 Identities = 31/107 (28%), Positives = 60/107 (56%), Gaps = 2/107 (1%)

Query: 229 LECGERQLELRLEPESGIKDCSQQIELKEKKLRQIQSSIEECEKELAIKERHISDYEEKL 288
           LE  E   +LR E E  +K+   +++  E++L Q + +++   + L  KE ++   E++L
Sbjct: 54  LEAKEEVHKLRAELERELKERRNELQRLERRLLQREETLDRKMESLDKKEENLEKKEKEL 113

Query: 289 KAKEKLYDEIKKSIKELESA-KKELEQPKSLTDNEETRLLSLQSMNN 334
             KEK  DE ++ ++EL +  ++ELE+   LT  EE + + L+ +  
Sbjct: 114 SNKEKNLDEKEEELEELIAEQREELERISGLT-QEEAKEILLEEVEE 159

Members of this family are RNase Y, an endoribonuclease. The member from Bacillus subtilis, YmdA, has been shown to be involved in turnover of yitJ riboswitch [Transcription, Degradation of RNA]. Length = 514

>gnl|CDD|235175 PRK03918, PRK03918, chromosome segregation protein; Provisional

 Score = 42.0 bits (99), Expect = 9e-04
 Identities = 79/350 (22%), Positives = 161/350 (46%), Gaps = 36/350 (10%)

Query: 14  KLQCKERQLRFLEKRIGESKGELALVQK---EIEECNSELWCKEKELGLVQKRIRGCNGE 70
           +L+   R++  +   + E + EL  ++K   E+EE   E+   EKEL  ++   R    +
Sbjct: 201 ELEEVLREINEISSELPELREELEKLEKEVKELEELKEEIEELEKELESLEGSKRKLEEK 260

Query: 71  LQSKQGELALVEKEIEESNS------ELQSKEIELGLLQKRVGECNCELECKQQQLGLAQ 124
           ++  +  +  ++KEIEE         EL+ K  E   L +   E   EL   +++L   +
Sbjct: 261 IRELEERIEELKKEIEELEEKVKELKELKEKAEEYIKLSEFYEEYLDELREIEKRLSRLE 320

Query: 125 SEEDLLKNSLKNSIEHWSQKLNLTKEELSLLQKSIRECKG------ELDSKERQLAVVQK 178
            E + ++  +K  +E   ++L   K++L  L+K + E +       E  +K+ +L  ++K
Sbjct: 321 EEINGIEERIKE-LEEKEERLEELKKKLKELEKRLEELEERHELYEEAKAKKEELERLKK 379

Query: 179 RIGECNNELQLKENELNLVKTVVEHCLQKLNLKKEELSLLQKSNGEWNGQLE-------- 230
           R+       +  E EL  ++   E   ++++     +  L+K   E    +E        
Sbjct: 380 RLT--GLTPEKLEKELEELEKAKEEIEEEISKITARIGELKKEIKELKKAIEELKKAKGK 437

Query: 231 ---CG-----ERQLELRLEPESGIKDCSQQIELKEKKLRQIQSSIEECEKELAIKERHIS 282
              CG     E + EL  E  + +K   ++++  E+K R+++  + E EK L  KE  + 
Sbjct: 438 CPVCGRELTEEHRKELLEEYTAELKRIEKELKEIEEKERKLRKELRELEKVLK-KESELI 496

Query: 283 DYEEKLKAKEKLYDEIKK-SIKELESAKKELEQPKSLTDNEETRLLSLQS 331
             +E  +  ++L +++KK +++ELE   +E E+ K      +  + SL+ 
Sbjct: 497 KLKELAEQLKELEEKLKKYNLEELEKKAEEYEKLKEKLIKLKGEIKSLKK 546

Length = 880

>gnl|CDD|226809 COG4372, COG4372, Uncharacterized protein conserved in bacteria with the myosin-like domain [Function unknown]

 Score = 40.8 bits (95), Expect = 0.002
 Identities = 46/252 (18%), Positives = 94/252 (37%), Gaps = 40/252 (15%)

Query: 112 ELECKQQQLGLAQSEEDLLKNSLKNSIEHWSQKLNLTKEELSLLQKSIRECKGELDSKER 171
           +L   + +LG AQ E    K + +   E    +L   ++E   +++ +   +  L   ++
Sbjct: 82  QLRALRTELGTAQGE----KRAAETEREAARSELQKARQEREAVRQELAAARQNLAKAQQ 137

Query: 172 QLAVVQKRIGECNNELQLKENELNLVKTVVEHCLQKLNLKKEELSLLQKSNGEWNGQLEC 231
           +LA + K+  +    L          KT+ E   ++L  + + L   QK       QL+ 
Sbjct: 138 ELARLTKQAQDLQTRL----------KTLAEQ-RRQLEAQAQSLQASQKQLQASATQLKS 186

Query: 232 GERQLELRLEPESGIKDCSQQIELKEKKLRQIQSSIEECEKELAIKERHISDYEEKLKAK 291
               L+LR          S QIE + + L    ++ +   +ELA +        + ++ +
Sbjct: 187 QVLDLKLR----------SAQIEQEAQNLATRANAAQARTEELARRAAAAQQTAQAIQQR 236

Query: 292 EKLYDEIKKS-------IKELESAKKELEQPKSLTDNEETRLLSLQSMNNGRSLQLILNQ 344
           +    +  +        I+E E   + LE  ++  + E  +L            Q  +  
Sbjct: 237 DAQISQKAQQIAARAEQIRERERQLQRLETAQARLEQEVAQL--------EAYYQAYVRL 288

Query: 345 HLQKHDLIFGQI 356
             Q      GQ+
Sbjct: 289 RQQAAATQRGQV 300

Length = 499

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 40.1 bits (94), Expect = 0.003
 Identities = 41/188 (21%), Positives = 80/188 (42%), Gaps = 2/188 (1%)

Query: 1   MKTRTNEIRGFNLKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLV 60
           +     EI     K Q  + +L  LE+ + E++  L  +++E+E         E+E+  +
Sbjct: 774 LAKLKEEIEELEEKRQALQEELEELEEELEEAERRLDALERELESLEQRRERLEQEIEEL 833

Query: 61  QKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNCELECKQQQL 120
           ++ I     +L   + EL  +EKE+EE   EL+  E E   L+  + E   E E  +++L
Sbjct: 834 EEEIEELEEKLDELEEELEELEKELEELKEELEELEAEKEELEDELKELEEEKEELEEEL 893

Query: 121 GLAQSEEDLLKNSLKNSIEHWSQKLNLTKEELSLLQKSIRECKGELDSKERQLAVVQKRI 180
              +SE   LK  ++   E   +     +     L +   E + E +        +++ I
Sbjct: 894 RELESELAELKEEIEKLRERLEELEAKLERLEVELPELEEELEEEYEDTLE--TELEREI 951

Query: 181 GECNNELQ 188
                E++
Sbjct: 952 ERLEEEIE 959

Length = 1163

>gnl|CDD|178867 PRK00106, PRK00106, hypothetical protein; Provisional

 Score = 39.9 bits (93), Expect = 0.003
 Identities = 30/107 (28%), Positives = 57/107 (53%), Gaps = 1/107 (0%)

Query: 229 LECGERQLELRLEPESGIKDCSQQIELKEKKLRQIQSSIEECEKELAIKERHISDYEEKL 288
           LE  E   + R E E   K   Q+++  E +L +  +S++  ++ L+ KE+ +   E+ L
Sbjct: 75  LEAKEEARKYREEIEQEFKSERQELKQIESRLTERATSLDRKDENLSSKEKTLESKEQSL 134

Query: 289 KAKEKLYDEIKKSIKELESAKK-ELEQPKSLTDNEETRLLSLQSMNN 334
             K K  DE ++ +++LE  KK ELE+  +L+  E   ++  ++ N 
Sbjct: 135 TDKSKHIDEREEQVEKLEEQKKAELERVAALSQAEAREIILAETENK 181

Length = 535

>gnl|CDD|235175 PRK03918, PRK03918, chromosome segregation protein; Provisional

 Score = 39.7 bits (93), Expect = 0.004
 Identities = 83/341 (24%), Positives = 158/341 (46%), Gaps = 33/341 (9%)

Query: 14  KLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQS 73
           +L+ KE +L  L+K++ E +  L  +++  E    E   K++EL  ++KR+ G   E   
Sbjct: 332 ELEEKEERLEELKKKLKELEKRLEELEERHELYE-EAKAKKEELERLKKRLTGLTPEKLE 390

Query: 74  KQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNCEL-ECKQQQLGLAQSEEDLLKN 132
           K  EL  +EK  EE   E+      +G L+K + E    + E K+ +        +L + 
Sbjct: 391 K--ELEELEKAKEEIEEEISKITARIGELKKEIKELKKAIEELKKAKGKCPVCGRELTEE 448

Query: 133 SLKNSIEHWSQKLNLTKEELSLLQKSIRECKGELDSKERQLAVVQKRIGECNNELQLKEN 192
             K  +E ++ +L   ++EL  +++  R+ + EL   E+ L    + I       QLKE 
Sbjct: 449 HRKELLEEYTAELKRIEKELKEIEEKERKLRKELRELEKVLKKESELIKLKELAEQLKEL 508

Query: 193 ELNLVKTVVEHCLQKLNLKKEELSLLQKSNGEWNGQLECGERQLELRLEPESGIKDCSQQ 252
           E  L K    + L++L  K EE   L++   +  G+++  +++LE   E +  + +  ++
Sbjct: 509 EEKLKK----YNLEELEKKAEEYEKLKEKLIKLKGEIKSLKKELEKLEELKKKLAELEKK 564

Query: 253 IELKEKKLRQIQ--------SSIEECEKEL----AIKERHI------SDYEEKLKAKEKL 294
           ++  E++L ++          S+EE E+ L         ++       + E + K  +KL
Sbjct: 565 LDELEEELAELLKELEELGFESVEELEERLKELEPFYNEYLELKDAEKELEREEKELKKL 624

Query: 295 YDEIKKSIKEL-------ESAKKELEQPKSLTDNEETRLLS 328
            +E+ K+ +EL       E  +KELE+ +     EE   L 
Sbjct: 625 EEELDKAFEELAETEKRLEELRKELEELEKKYSEEEYEELR 665

Length = 880

>gnl|CDD|116500 pfam07888, CALCOCO1, Calcium binding and coiled-coil domain (CALCOCO1) like

 Score = 39.6 bits (92), Expect = 0.004
 Identities = 62/297 (20%), Positives = 121/297 (40%), Gaps = 24/297 (8%)

Query: 19  ERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGEL 78
           E  LR   ++  E + +    Q   E  ++E      +    Q+RI     ++Q+   + 
Sbjct: 177 ETALRHSTEKTEELEEQHKEAQSSSESMSAERNALLAQRAENQQRILELEQDIQTLTQKK 236

Query: 79  ALVEKEIEESNSELQSKEIELGLLQKRVGECNCELECKQQQLGLAQSEEDLLKNSLKNSI 138
              ++ +E +       E   G L++R+ +   +   ++ +    Q E + L   L+   
Sbjct: 237 QENDRVLEGTQDIEAELERMKGELKQRLKKMTIQRRDEETERIDLQLENEQLHEDLRTLQ 296

Query: 139 EHWS---QKLNLTKEELSLLQKSIRECK-GELDSKERQLAVVQKRIGECNNELQLKENEL 194
           E      QK  L  EEL+ L  S+R+    EL     + A +  ++ + N  L+  +++ 
Sbjct: 297 ERLESSQQKAGLLGEELASL-GSLRDHTIAELHQSRLESAQMSLQLSQLNLALKEGQSQW 355

Query: 195 NLVKTVVEHCL-----QKLNLKKEELSLLQKSNGEWNGQLECGERQ-LELRLEPESGIKD 248
              +  +         +   L  E L L      E   Q E  +R+ LE+ L  E   KD
Sbjct: 356 AQERETLRQSAEADKDRIQKLSAELLKL------EEWLQEERSQREKLEVELGIE---KD 406

Query: 249 CSQ-QIELKEKKLRQIQSSIEECEKELAIKERHISDYEEKLKAKEKLYDEIKKSIKE 304
           C++ Q+    ++L +++S++   +KE   KE+   + +E L     L   + K   E
Sbjct: 407 CNRVQLSENRRELSELRSALRVLQKE---KEQLQEEKQELLDYIRVLELRLDKEADE 460

Proteins found in this family are similar to the coiled-coil transcriptional coactivator protein coexpressed by Mus musculus (CoCoA/CALCOCO1). This protein binds to a highly conserved N-terminal domain of p160 coactivators, such as GRIP1, and thus enhances transcriptional activation by a number of nuclear receptors. CALCOCO1 has a central coiled-coil region with three leucine zipper motifs, which is required for its interaction with GRIP1 and may regulate the autonomous transcriptional activation activity of the C-terminal region. Length = 546

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	535
PF07899	290	Frigida: Frigida-like protein; InterPro: IPR012474	100.0
TIGR02168	1179	SMC_prok_B chromosome segregation protein SMC, com	98.95
TIGR02169	1164	SMC_prok_A chromosome segregation protein SMC, pri	98.95
COG1196	1163	Smc Chromosome segregation ATPases [Cell division	98.87
TIGR02169	1164	SMC_prok_A chromosome segregation protein SMC, pri	98.72
TIGR02168	1179	SMC_prok_B chromosome segregation protein SMC, com	98.64
PRK02224	880	chromosome segregation protein; Provisional	98.45
PRK01156	895	chromosome segregation protein; Provisional	98.42
KOG0250	1074	consensus DNA repair protein RAD18 (SMC family pro	98.41
COG1196	1163	Smc Chromosome segregation ATPases [Cell division	98.37
PRK01156	895	chromosome segregation protein; Provisional	98.29
TIGR00606	1311	rad50 rad50. This family is based on the phylogeno	98.2
TIGR00606	1311	rad50 rad50. This family is based on the phylogeno	98.15
PRK04863	1486	mukB cell division protein MukB; Provisional	98.11
PF00261	237	Tropomyosin: Tropomyosin; InterPro: IPR000533 Trop	98.11
PF10174	775	Cast: RIM-binding protein of the cytomatrix active	98.11
KOG0161	1930	consensus Myosin class II heavy chain [Cytoskeleto	98.02
PRK03918	880	chromosome segregation protein; Provisional	98.01
KOG0161	1930	consensus Myosin class II heavy chain [Cytoskeleto	98.0
KOG0933	1174	consensus Structural maintenance of chromosome pro	97.98
PF00261	237	Tropomyosin: Tropomyosin; InterPro: IPR000533 Trop	97.97
KOG0250	1074	consensus DNA repair protein RAD18 (SMC family pro	97.94
KOG0933	1174	consensus Structural maintenance of chromosome pro	97.84
KOG0996	1293	consensus Structural maintenance of chromosome pro	97.77
KOG4674	1822	consensus Uncharacterized conserved coiled-coil pr	97.76
KOG0976	1265	consensus Rho/Rac1-interacting serine/threonine ki	97.71
KOG0996	1293	consensus Structural maintenance of chromosome pro	97.7
PRK11637	428	AmiB activator; Provisional	97.66
KOG0976	1265	consensus Rho/Rac1-interacting serine/threonine ki	97.62
PHA02562	562	46 endonuclease subunit; Provisional	97.61
PF07888	546	CALCOCO1: Calcium binding and coiled-coil domain (	97.59
KOG4674	1822	consensus Uncharacterized conserved coiled-coil pr	97.49
KOG0964	1200	consensus Structural maintenance of chromosome pro	97.46
KOG0995	581	consensus Centromere-associated protein HEC1 [Cell	97.39
PHA02562	562	46 endonuclease subunit; Provisional	97.3
COG1579	239	Zn-ribbon protein, possibly nucleic acid-binding [	97.24
PRK11637	428	AmiB activator; Provisional	97.21
PRK04778	569	septation ring formation regulator EzrA; Provision	97.1
KOG0977	546	consensus Nuclear envelope protein lamin, intermed	97.02
COG1579	239	Zn-ribbon protein, possibly nucleic acid-binding [	97.0
PF05483	786	SCP-1: Synaptonemal complex protein 1 (SCP-1); Int	96.92
PF00038	312	Filament: Intermediate filament protein; InterPro:	96.85
PF05667	594	DUF812: Protein of unknown function (DUF812); Inte	96.84
PF09728	309	Taxilin: Myosin-like coiled-coil protein; InterPro	96.82
PF05701	522	WEMBL: Weak chloroplast movement under blue light;	96.81
PF15619	194	Lebercilin: Ciliary protein causing Leber congenit	96.68
PF07888	546	CALCOCO1: Calcium binding and coiled-coil domain (	96.62
KOG0995	581	consensus Centromere-associated protein HEC1 [Cell	96.51
COG4942	420	Membrane-bound metallopeptidase [Cell division and	96.47
PF00038	312	Filament: Intermediate filament protein; InterPro:	96.45
PF10473	140	CENP-F_leu_zip: Leucine-rich repeats of kinetochor	96.43
PF05667	594	DUF812: Protein of unknown function (DUF812); Inte	96.4
KOG0612	1317	consensus Rho-associated, coiled-coil containing p	96.38
COG5185	622	HEC1 Protein involved in chromosome segregation, i	96.37
KOG0018	1141	consensus Structural maintenance of chromosome pro	96.34
PF12718	143	Tropomyosin_1: Tropomyosin like; InterPro: IPR0005	96.28
KOG1029	1118	consensus Endocytic adaptor protein intersectin [S	96.21
PF08317	325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	96.15
PF06160	560	EzrA: Septation ring formation regulator, EzrA ; I	96.15
PRK04778	569	septation ring formation regulator EzrA; Provision	96.07
COG1340	294	Uncharacterized archaeal coiled-coil protein [Func	96.06
KOG0018	1141	consensus Structural maintenance of chromosome pro	95.98
KOG0964	1200	consensus Structural maintenance of chromosome pro	95.88
PF09726	697	Macoilin: Transmembrane protein; InterPro: IPR0191	95.79
PF12128	1201	DUF3584: Protein of unknown function (DUF3584); In	95.73
KOG0994	1758	consensus Extracellular matrix glycoprotein Lamini	95.6
PF05701	522	WEMBL: Weak chloroplast movement under blue light;	95.31
KOG0980	980	consensus Actin-binding protein SLA2/Huntingtin-in	95.02
PF13870	177	DUF4201: Domain of unknown function (DUF4201)	94.63
PF15619	194	Lebercilin: Ciliary protein causing Leber congenit	94.39
PRK04863	1486	mukB cell division protein MukB; Provisional	94.28
PRK09039	343	hypothetical protein; Validated	94.23
KOG0946	970	consensus ER-Golgi vesicle-tethering protein p115	94.19
PF01576	859	Myosin_tail_1: Myosin tail; InterPro: IPR002928 Mu	94.1
TIGR03185	650	DNA_S_dndD DNA sulfur modification protein DndD. T	94.02
PF05911	769	DUF869: Plant protein of unknown function (DUF869)	93.7
PF05483	786	SCP-1: Synaptonemal complex protein 1 (SCP-1); Int	93.67
COG3883	265	Uncharacterized protein conserved in bacteria [Fun	93.5
PF10473	140	CENP-F_leu_zip: Leucine-rich repeats of kinetochor	93.39
COG5185	622	HEC1 Protein involved in chromosome segregation, i	93.34
PF08317	325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	93.24
smart00787	312	Spc7 Spc7 kinetochore protein. This domain is foun	93.22
PF11559	151	ADIP: Afadin- and alpha -actinin-Binding; InterPro	93.19
PF10146	230	zf-C4H2: Zinc finger-containing protein ; InterPro	93.15
COG3883	265	Uncharacterized protein conserved in bacteria [Fun	93.13
smart00787	312	Spc7 Spc7 kinetochore protein. This domain is foun	93.11
PRK09039	343	hypothetical protein; Validated	93.05
PF15290	305	Syntaphilin: Golgi-localised syntaxin-1-binding cl	93.02
PF12128	1201	DUF3584: Protein of unknown function (DUF3584); In	92.57
PF15070	617	GOLGA2L5: Putative golgin subfamily A member 2-lik	92.42
COG1340	294	Uncharacterized archaeal coiled-coil protein [Func	92.39
PF11559	151	ADIP: Afadin- and alpha -actinin-Binding; InterPro	92.29
PF09726	697	Macoilin: Transmembrane protein; InterPro: IPR0191	92.12
PF12325	120	TMF_TATA_bd: TATA element modulatory factor 1 TATA	91.96
KOG0994	1758	consensus Extracellular matrix glycoprotein Lamini	91.75
PF04849	306	HAP1_N: HAP1 N-terminal conserved region; InterPro	91.71
PF13851	201	GAS: Growth-arrest specific micro-tubule binding	91.7
KOG4643	1195	consensus Uncharacterized coiled-coil protein [Fun	91.57
COG0419	908	SbcC ATPase involved in DNA repair [DNA replicatio	91.53
PF10168	717	Nup88: Nuclear pore component; InterPro: IPR019321	91.46
PF04849	306	HAP1_N: HAP1 N-terminal conserved region; InterPro	91.37
KOG0979	1072	consensus Structural maintenance of chromosome pro	91.33
PF10146	230	zf-C4H2: Zinc finger-containing protein ; InterPro	91.18
PF01576	859	Myosin_tail_1: Myosin tail; InterPro: IPR002928 Mu	90.92
TIGR01843	423	type_I_hlyD type I secretion membrane fusion prote	90.59
KOG0962	1294	consensus DNA repair protein RAD50, ABC-type ATPas	90.57
PF06818	202	Fez1: Fez1; InterPro: IPR009638 This family repres	90.45
PF04111	314	APG6: Autophagy protein Apg6; InterPro: IPR007243	90.29
PF05911	769	DUF869: Plant protein of unknown function (DUF869)	90.18
KOG0971	1243	consensus Microtubule-associated protein dynactin	90.04
KOG0612	1317	consensus Rho-associated, coiled-coil containing p	89.88
TIGR03185	650	DNA_S_dndD DNA sulfur modification protein DndD. T	89.81
PF09755	310	DUF2046: Uncharacterized conserved protein H4 (DUF	89.45
PF07926	132	TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro:	89.37
PF11932	251	DUF3450: Protein of unknown function (DUF3450); In	89.28
PF04111	314	APG6: Autophagy protein Apg6; InterPro: IPR007243	89.0
KOG0977	546	consensus Nuclear envelope protein lamin, intermed	88.99
PF08614	194	ATG16: Autophagy protein 16 (ATG16); InterPro: IPR	88.76
KOG0971	1243	consensus Microtubule-associated protein dynactin	88.42
KOG0979	1072	consensus Structural maintenance of chromosome pro	88.42
KOG0963	629	consensus Transcription factor/CCAAT displacement	88.38
PF10186	302	Atg14: UV radiation resistance protein and autopha	88.3
PF10498	359	IFT57: Intra-flagellar transport protein 57 ; Inte	88.23
PF15070	617	GOLGA2L5: Putative golgin subfamily A member 2-lik	88.16
PF10481	307	CENP-F_N: Cenp-F N-terminal domain; InterPro: IPR0	88.12
PF07926	132	TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro:	87.54
PF05266	190	DUF724: Protein of unknown function (DUF724); Inte	87.05
TIGR02680	1353	conserved hypothetical protein TIGR02680. Members	86.64
PF09730	717	BicD: Microtubule-associated protein Bicaudal-D; I	86.6
PRK10884	206	SH3 domain-containing protein; Provisional	86.58
PF09730	717	BicD: Microtubule-associated protein Bicaudal-D; I	86.2
PF12329	74	TMF_DNA_bd: TATA element modulatory factor 1 DNA b	85.82
PF13851	201	GAS: Growth-arrest specific micro-tubule binding	85.76
PF10498	359	IFT57: Intra-flagellar transport protein 57 ; Inte	85.62
PF10168	717	Nup88: Nuclear pore component; InterPro: IPR019321	85.61
KOG0980	980	consensus Actin-binding protein SLA2/Huntingtin-in	85.57
PF14662	193	CCDC155: Coiled-coil region of CCDC155	85.55
KOG1003	205	consensus Actin filament-coating protein tropomyos	85.52
PF07106	169	TBPIP: Tat binding protein 1(TBP-1)-interacting pr	85.49
COG4026	290	Uncharacterized protein containing TOPRIM domain,	84.7
PF06160	560	EzrA: Septation ring formation regulator, EzrA ; I	84.34
COG4026	290	Uncharacterized protein containing TOPRIM domain,	84.13
COG2433	652	Uncharacterized conserved protein [Function unknow	84.11
PF02050	123	FliJ: Flagellar FliJ protein; InterPro: IPR012823	83.99
PRK10869	553	recombination and repair protein; Provisional	83.79
PF07889	126	DUF1664: Protein of unknown function (DUF1664); In	83.25
KOG0946	970	consensus ER-Golgi vesicle-tethering protein p115	83.09
TIGR01843	423	type_I_hlyD type I secretion membrane fusion prote	83.02
COG4372	499	Uncharacterized protein conserved in bacteria with	83.0
KOG4360	596	consensus Uncharacterized coiled coil protein [Fun	82.94
PF06008	264	Laminin_I: Laminin Domain I; InterPro: IPR009254 L	82.88
PF05557	722	MAD: Mitotic checkpoint protein; InterPro: IPR0086	82.72
PF11932	251	DUF3450: Protein of unknown function (DUF3450); In	82.68
KOG1029	1118	consensus Endocytic adaptor protein intersectin [S	82.65
KOG0288	459	consensus WD40 repeat protein TipD [General functi	82.51
COG3352	157	FlaC Putative archaeal flagellar protein C [Cell m	81.75
COG2433	652	Uncharacterized conserved protein [Function unknow	81.75
PF04012	221	PspA_IM30: PspA/IM30 family; InterPro: IPR007157 T	81.62
PRK10884	206	SH3 domain-containing protein; Provisional	81.36
PF05557	722	MAD: Mitotic checkpoint protein; InterPro: IPR0086	81.25
KOG4643	1195	consensus Uncharacterized coiled-coil protein [Fun	81.18
PF00769	246	ERM: Ezrin/radixin/moesin family; InterPro: IPR011	81.09
KOG4360	596	consensus Uncharacterized coiled coil protein [Fun	80.45
PF05266	190	DUF724: Protein of unknown function (DUF724); Inte	80.43
PRK11281	1113	hypothetical protein; Provisional	80.05

>PF07899 Frigida: Frigida-like protein; InterPro: IPR012474 This family is composed of plant proteins that are similar to FRIGIDA protein expressed by Arabidopsis thaliana (Mouse-ear cress) (Q9FDW0 from SWISSPROT)

Probab=100.00  E-value=6.4e-63  Score=502.97  Aligned_cols=204  Identities=38%  Similarity=0.588  Sum_probs=193.4

Q ss_pred             CCcchhhHHHHHhhhCChHHHHHHHHHhhcchhhhHHhHHHHhhhCCCchhHHHHHhcccCCCCCCCCCCcchhhHhHHH
Q 048095          318 LTDNEETRLLSLQSMNNGRSLQLILNQHLQKHDLIFGQISQTLTKACDPALLVLDAMQGFYPPHSRKGDMEFDVSIIKRT  397 (535)
Q Consensus       318 ~~~~~~~~L~~lC~~MD~~gL~~fv~~~~k~~~~lr~Ev~~AL~~A~DPAkLVLdai~~f~~~~~~~~~~~~~~~~~r~~  397 (535)
                      .++.++++|.++|++|||+||++||++|+++++++|+|+|+||++|||||+||||||+|||+++++. ++++++.++||+
T Consensus         7 ~~~~~~~~L~~lC~~MD~~gL~~fv~~~~k~~~~lr~Ev~~AL~~A~DPAkLVLdai~~f~~~~~~~-~~~~~~~~~r~~   85 (290)
T PF07899_consen    7 VEVKPRPELKSLCEKMDGKGLRKFVSENRKELASLREEVPAALRCAPDPAKLVLDAIEGFYPPGSKN-KKDSKLVDVRRA   85 (290)
T ss_pred             CCcchHHHHHHHHHHCCHHHHHHHHHHhhhhHHHHHHHHHHHHHcCCChHHHHHHHHHcccCCcccc-ccCcchhhHHHH
Confidence            3456899999999999999999999999999999999999999999999999999999999998765 556678899999


Q ss_pred             HHHHHhhhhhcCCCCChhHHHHHHHHHHHHHHhc-cccCCChHHHHHHHHHHHHhcCCCCCChHHHHHHHHHhhhhhhhH
Q 048095          398 CILLLEQLSNIAPDINPQVRDEAMKMAGEWKKKM-GVIGENSLEVLGFLHLLAAYRLAPAFDGNELESLLDIVAHYRQTA  476 (535)
Q Consensus       398 CilLLE~L~~~~p~i~~~vkeeA~~lA~~WK~~i-~~~~~~~lea~gFL~lla~fgi~s~Fd~del~~Lv~~va~~~~~~  476 (535)
                      ||+|||+|+.++|.++|+|+++|+++|.+||++| +.+++++++|||||||||+|||+++||.|||++||.+|++|+|||
T Consensus        86 cilLLE~L~~~~~~is~~vke~A~~lA~~WK~~l~~~~~~~~lea~gFL~lla~fgi~s~Fd~del~~Lv~~va~~~~a~  165 (290)
T PF07899_consen   86 CILLLEQLMRISPEISPEVKEEAKKLAEEWKSKLDGVNNENSLEALGFLQLLAAFGIVSEFDEDELLKLVVSVARRKQAP  165 (290)
T ss_pred             HHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHHHhcccCCCHHHHHHHHHHHHcCCccccCHHHHHHHHHHhcchHhhH
Confidence            9999999999999999999999999999999999 777789999999999999999999999999999999999999999


Q ss_pred             HHHHhcCCcccccchHHHhhhcC-chhhhhhhhhc------CchhHHhH-HhHh
Q 048095          477 KLRQSLGFADKVTVVPWSSIGMD-QAENSRMNHGI------GPAVFREQ-LQLQ  522 (535)
Q Consensus       477 ~L~~sLGL~~K~~diV~~LI~~g-qieAv~~~~~f------~p~~ll~~-~~~~  522 (535)
                      +||++|||++||||||++||++| ||+||+|||+|      +|+|||+. ++.+
T Consensus       166 ~L~~sLgl~~k~~d~V~~LI~~g~~ieAv~fi~~f~L~dkfpPv~lLk~yl~~~  219 (290)
T PF07899_consen  166 ELCRSLGLSDKMPDIVEKLIKKGKQIEAVRFIYAFGLVDKFPPVPLLKSYLEDS  219 (290)
T ss_pred             HHHHHcCchhhhHHHHHHHHHCCCccchHHHHHHHcCCCCCCCHHHHHHHHHHH
Confidence            99999999999999999999999 99999999975      69999999 6643

This protein is probably nuclear and is required for the regulation of flowering time in the late-flowering phenotype. It is known to increase RNA levels of flowering locus C. Allelic variation at the FRIGIDA locus is a major determinant of natural variation in flowering time [].

>TIGR02168 SMC_prok_B chromosome segregation protein SMC, common bacterial type

Probab=98.95  E-value=4.2e-06  Score=99.32  Aligned_cols=95  Identities=25%  Similarity=0.227  Sum_probs=59.4

Q ss_pred             hhhhhhhHHHHHHHHHHHHHHHHhHHHHHHHH------HHHHHHHHHHHHHHHHHHHH-----HHHHHHHhHHHHHHHHH
Q 048095            8 IRGFNLKLQCKERQLRFLEKRIGESKGELALV------QKEIEECNSELWCKEKELGL-----VQKRIRGCNGELQSKQG   76 (535)
Q Consensus         8 ~~~~~~KL~~te~dLerved~i~ElEkqle~L------aek~~Elk~EL~~LE~eLee-----LK~eIeE~e~eIe~~qk   76 (535)
                      +..+-.+++.|..+|.|+.|++.++..++..|      +.+|.++..++..++..+..     +...+......+..+..
T Consensus       167 ~~~~~~~~~~t~~nL~r~~d~l~el~~ql~~L~~q~~~a~~~~~~~~~~~~l~~~l~~~~~~~~~~~l~~~~~~~~~~~~  246 (1179)
T TIGR02168       167 ISKYKERRKETERKLERTRENLDRLEDILNELERQLKSLERQAEKAERYKELKAELRELELALLVLRLEELREELEELQE  246 (1179)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55677899999999999999999999999988      55677777777777665522     23334444444444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           77 ELALVEKEIEESNSELQSKEIELGLL  102 (535)
Q Consensus        77 eIe~le~eIee~e~El~~~eeEL~~l  102 (535)
                      .+..+..++...+.++.....++..+
T Consensus       247 ~~~~~~~~~~~~~~~~~~~~~~l~~l  272 (1179)
T TIGR02168       247 ELKEAEEELEELTAELQELEEKLEEL  272 (1179)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444444444433333333333333

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle.

>TIGR02169 SMC_prok_A chromosome segregation protein SMC, primarily archaeal type

Probab=98.95  E-value=5e-06  Score=99.02  Aligned_cols=101  Identities=20%  Similarity=0.177  Sum_probs=61.2

Q ss_pred             hhhhhhhHHHHHHHHHHHHHHHHhHHHHHHHH------HHHHHHHHHHHHHHHHHHH------------HHHHHHHHhHH
Q 048095            8 IRGFNLKLQCKERQLRFLEKRIGESKGELALV------QKEIEECNSELWCKEKELG------------LVQKRIRGCNG   69 (535)
Q Consensus         8 ~~~~~~KL~~te~dLerved~i~ElEkqle~L------aek~~Elk~EL~~LE~eLe------------eLK~eIeE~e~   69 (535)
                      +..|..++..+..+|.++.+.+.++..++..+      +.+|.+...++..++..+.            .+...+.....
T Consensus       165 ~~~~~~~~~~~~~~l~~~~~~l~el~~~~~~L~~q~~~l~~~~e~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  244 (1164)
T TIGR02169       165 VAEFDRKKEKALEELEEVEENIERLDLIIDEKRQQLERLRREREKAERYQALLKEKREYEGYELLKEKEALERQKEAIER  244 (1164)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            56778889999999999999999998888887      4445555555556655542            22334444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 048095           70 ELQSKQGELALVEKEIEESNSELQSKEIELGLLQKRVGE  108 (535)
Q Consensus        70 eIe~~qkeIe~le~eIee~e~El~~~eeEL~~lqk~l~E  108 (535)
                      ++...+..+..+..++...+.++.....++..++..++.
T Consensus       245 ~l~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~  283 (1164)
T TIGR02169       245 QLASLEEELEKLTEEISELEKRLEEIEQLLEELNKKIKD  283 (1164)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            444444444444444444444444444444444444444

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent.

>COG1196 Smc Chromosome segregation ATPases [Cell division and chromosome partitioning]

Probab=98.87  E-value=2e-05  Score=95.22  Aligned_cols=92  Identities=26%  Similarity=0.303  Sum_probs=60.0

Q ss_pred             hhhhhhhHHHHHHHHHHHHHHHHhHHHHHHHH------HHHHHHHHHHHHHHHHHH-----HHHHHHHHHhHHHHHHHHH
Q 048095            8 IRGFNLKLQCKERQLRFLEKRIGESKGELALV------QKEIEECNSELWCKEKEL-----GLVQKRIRGCNGELQSKQG   76 (535)
Q Consensus         8 ~~~~~~KL~~te~dLerved~i~ElEkqle~L------aek~~Elk~EL~~LE~eL-----eeLK~eIeE~e~eIe~~qk   76 (535)
                      .+.-..+|+.|..+|+++.+.+.+++.+++.|      +.+|..+..++..++..+     ..++.++..+...+...+.
T Consensus       174 ~~ea~~~L~~~~~nl~~~~~~~~el~~~l~~L~~q~~~a~~y~~l~~e~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~  253 (1163)
T COG1196         174 KEEAERKLERTEENLERLEDLLEELEKQLEKLERQAEKAERYQELKAELRELELALLLAKLKELRKELEELEEELSRLEE  253 (1163)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34556799999999999999999999999999      677888888888887776     3334444444444444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q 048095           77 ELALVEKEIEESNSELQSKEIEL   99 (535)
Q Consensus        77 eIe~le~eIee~e~El~~~eeEL   99 (535)
                      .+..+...+.....++.....++
T Consensus       254 ~~~~~~~~~~~~~~~i~~~~~~~  276 (1163)
T COG1196         254 ELEELQEELEEAEKEIEELKSEL  276 (1163)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444433333333333333333

>TIGR02169 SMC_prok_A chromosome segregation protein SMC, primarily archaeal type

Probab=98.72  E-value=0.0001  Score=87.97  Aligned_cols=28  Identities=18%  Similarity=0.114  Sum_probs=16.0

Q ss_pred             hhhhhhhHHHHHHHHHHHHHHHHhHHHH
Q 048095            8 IRGFNLKLQCKERQLRFLEKRIGESKGE   35 (535)
Q Consensus         8 ~~~~~~KL~~te~dLerved~i~ElEkq   35 (535)
                      +.....+|+.+...+.++.+.+.++..+
T Consensus       172 ~~~~~~~l~~~~~~l~el~~~~~~L~~q  199 (1164)
T TIGR02169       172 KEKALEELEEVEENIERLDLIIDEKRQQ  199 (1164)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444556666666666666666654433

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent.

>TIGR02168 SMC_prok_B chromosome segregation protein SMC, common bacterial type

Probab=98.64  E-value=0.00016  Score=85.97  Aligned_cols=99  Identities=28%  Similarity=0.344  Sum_probs=42.7

Q ss_pred             chhhhhhhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Q 048095            7 EIRGFNLKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIE   86 (535)
Q Consensus         7 ~~~~~~~KL~~te~dLerved~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIe   86 (535)
                      +|......++..+..+...+..+.++..++..+...+.++..++..+...+..+...+..+...+...+..+..+..++.
T Consensus       671 ~~~~l~~e~~~l~~~~~~l~~~l~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~e~~  750 (1179)
T TIGR02168       671 SILERRREIEELEEKIEELEEKIAELEKALAELRKELEELEEELEQLRKELEELSRQISALRKDLARLEAEVEQLEERIA  750 (1179)
T ss_pred             chhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444444444444444444444444444444444444444444444444444444444444444443


Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q 048095           87 ESNSELQSKEIELGLLQKR  105 (535)
Q Consensus        87 e~e~El~~~eeEL~~lqk~  105 (535)
                      .++.++.....++..+...
T Consensus       751 ~~~~~~~~~~~~~~~~~~~  769 (1179)
T TIGR02168       751 QLSKELTELEAEIEELEER  769 (1179)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle.

>PRK02224 chromosome segregation protein; Provisional

Probab=98.45  E-value=0.001  Score=77.98  Aligned_cols=40  Identities=23%  Similarity=0.260  Sum_probs=14.2

Q ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           18 KERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKEL   57 (535)
Q Consensus        18 te~dLerved~i~ElEkqle~Laek~~Elk~EL~~LE~eL   57 (535)
                      .+..+..+...+.++.+++..+...+.....++..++.++
T Consensus       354 le~~~~~l~~~~~~l~~~~~~~~~~l~~~~~~l~~l~~el  393 (880)
T PRK02224        354 LEERAEELREEAAELESELEEAREAVEDRREEIEELEEEI  393 (880)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333333333333333333333333

>PRK01156 chromosome segregation protein; Provisional

Probab=98.42  E-value=0.0055  Score=72.23  Aligned_cols=19  Identities=5%  Similarity=0.146  Sum_probs=9.0

Q ss_pred             HHHhhhCChHHHHHHHHHh
Q 048095          327 LSLQSMNNGRSLQLILNQH  345 (535)
Q Consensus       327 ~~lC~~MD~~gL~~fv~~~  345 (535)
                      ..+...++..|+..++..+
T Consensus       739 ~~~r~~l~k~~~~~~I~~~  757 (895)
T PRK01156        739 KRLREAFDKSGVPAMIRKS  757 (895)
T ss_pred             HHHHHHhhhccchHHHHHH
Confidence            3344455555554444433

>KOG0250 consensus DNA repair protein RAD18 (SMC family protein) [Replication, recombination and repair]

Probab=98.41  E-value=0.0014  Score=76.82  Aligned_cols=341  Identities=15%  Similarity=0.197  Sum_probs=176.3

Q ss_pred             hHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHhHHH-----HHHHHHHHHHHH
Q 048095           14 KLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELG------LVQKRIRGCNGE-----LQSKQGELALVE   82 (535)
Q Consensus        14 KL~~te~dLerved~i~ElEkqle~Laek~~Elk~EL~~LE~eLe------eLK~eIeE~e~e-----Ie~~qkeIe~le   82 (535)
                      .|++...++.++-+.+..-...+....+.+..+.+++.+.+..+.      .++..+..++.+     +-..+++++..+
T Consensus       208 ~L~qi~~~~~~~~~~~~~~~~~i~~~~e~i~~l~k~i~e~~e~~~~~~~~e~~~~~l~~Lk~k~~W~~V~~~~~ql~~~~  287 (1074)
T KOG0250|consen  208 QLEQITESYSEIMESLDHAKELIDLKEEEIKNLKKKIKEEEEKLDNLEQLEDLKENLEQLKAKMAWAWVNEVERQLNNQE  287 (1074)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345555555555555555555555555555555555555554443      334444444443     345667777777


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHhhhhhhhHHHHHhhhhhhhHHHHHHhhhhhHHHHHHHHHHHHHH
Q 048095           83 KEIEESNSELQSKEIELGLLQKRVGECNCELECKQQQLGLAQSEEDLLKNSLKNSIEHWSQKLNLTKEELSLLQKSIREC  162 (535)
Q Consensus        83 ~eIee~e~El~~~eeEL~~lqk~l~E~~~el~~k~~~~~~~~~~~~l~~~~~k~~v~~~~~~~~~~~~eL~~~~k~i~e~  162 (535)
                      ..|...+.........++..+..+++....+.+++.+.+..+.+-.-    .+-.++..-+++.....+-..+.-.+.++
T Consensus       288 ~~i~~~qek~~~l~~ki~~~~~k~~~~r~k~teiea~i~~~~~e~~~----~d~Ei~~~r~~~~~~~re~~~~~~~~~~~  363 (1074)
T KOG0250|consen  288 EEIKKKQEKVDTLQEKIEEKQGKIEEARQKLTEIEAKIGELKDEVDA----QDEEIEEARKDLDDLRREVNDLKEEIREI  363 (1074)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHhhhh----hhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            77888888888888888888888888887777777666644333221    22223344466666667777777778888


Q ss_pred             HhhhhHHHHHHHHHHHHHHHhhHHH-hHHHhhhhhHHHHHHHHHHHhhhHHHHHHHHHhhhcccchhhhhhhhhhhhhcC
Q 048095          163 KGELDSKERQLAVVQKRIGECNNEL-QLKENELNLVKTVVEHCLQKLNLKKEELSLLQKSNGEWNGQLECGERQLELRLE  241 (535)
Q Consensus       163 ~~EL~~Kek~le~~~k~~~~~~~~l-~~k~k~l~~~~~~~~~~~kele~k~~~~~~~~~~~~~~~~~~e~~e~~~~~~~e  241 (535)
                      +.......+.++.+.+.|+...+++ ++-..++..+...+              ++|..++..+.+.+.+.......+. 
T Consensus       364 ~n~i~~~k~~~d~l~k~I~~~~~~~~~~~~~~~~e~e~k~--------------~~L~~evek~e~~~~~L~~e~~~~~-  428 (1074)
T KOG0250|consen  364 ENSIRKLKKEVDRLEKQIADLEKQTNNELGSELEERENKL--------------EQLKKEVEKLEEQINSLREELNEVK-  428 (1074)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHH--------------HHHHHHHHHHHHHHHHHHHHHHHHH-
Confidence            8888888888888888887777776 33333333333333              3333333333222211111111000 


Q ss_pred             cccchhhhhHHHHHHHHHHHHHHHhHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCC--
Q 048095          242 PESGIKDCSQQIELKEKKLRQIQSSIEECEKELAIKERHISDYEEKLKAKEKLYDEIKKSIKELESAKKELEQPKSLT--  319 (535)
Q Consensus       242 ~~s~~~~~~~~~~~kek~~~~~~~~~e~~~kel~~ke~~i~~~e~el~~~~k~~~~~~k~~ke~el~ekq~e~~~~~~--  319 (535)
                        .+++.-..+.+.-+..+.-..++++-...++....++=.++-.-|-      ..+..-+.+++-+..++..|-.-|  
T Consensus       429 --~~~~~~~ee~~~i~~~i~~l~k~i~~~~~~l~~lk~~k~dkvs~FG------~~m~~lL~~I~r~~~~f~~~P~GPlG  500 (1074)
T KOG0250|consen  429 --EKAKEEEEEKEHIEGEILQLRKKIENISEELKDLKKTKTDKVSAFG------PNMPQLLRAIERRKRRFQTPPKGPLG  500 (1074)
T ss_pred             --HHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccchhhhcc------hhhHHHHHHHHHHHhcCCCCCCCCcc
Confidence              0111111222222223333344444444444433333222222211      012222334444444433322222  


Q ss_pred             ---cchhhHHHHHhhhCChHHHHHHHHHhhcchhhhHHhHHHHhhhCCCchhHHHHHhcccCCCC
Q 048095          320 ---DNEETRLLSLQSMNNGRSLQLILNQHLQKHDLIFGQISQTLTKACDPALLVLDAMQGFYPPH  381 (535)
Q Consensus       320 ---~~~~~~L~~lC~~MD~~gL~~fv~~~~k~~~~lr~Ev~~AL~~A~DPAkLVLdai~~f~~~~  381 (535)
                         .=+.+....+-+..=|..|..||+.+..|...||+=+-.+--.+-.|.-.|--....-|+.+
T Consensus       501 ~~Vtl~~~KWa~aIE~~L~n~lnaFiv~sh~D~~~Lr~i~~~~~~~~~~ptIvvs~~~~~~y~~~  565 (1074)
T KOG0250|consen  501 KYVTLKEPKWALAIERCLGNLLNAFIVTSHKDARILRAIMRRLKIPGNRPTIVVSSFTPFDYSVG  565 (1074)
T ss_pred             ceeEecCcHHHHHHHHHHHHhhhhheeCCHhhHHHHHHHHHHcCCCCCCCcEEEecCCccccccc
Confidence               01234555566777788899999998888888876444443333345444433333335444

>COG1196 Smc Chromosome segregation ATPases [Cell division and chromosome partitioning]

Probab=98.37  E-value=0.0026  Score=77.18  Aligned_cols=23  Identities=43%  Similarity=0.748  Sum_probs=13.2

Q ss_pred             CCChHHHHHHHHHHHHhcCCCCC
Q 048095          435 GENSLEVLGFLHLLAAYRLAPAF  457 (535)
Q Consensus       435 ~~~~lea~gFL~lla~fgi~s~F  457 (535)
                      |+-++-|++||.=+--|.=+|=+
T Consensus      1070 GEKsLtAlAllFAi~~~~PaPf~ 1092 (1163)
T COG1196        1070 GEKSLTALALLFAIQKYRPAPFY 1092 (1163)
T ss_pred             cHHHHHHHHHHHHHHhhCCCCee
Confidence            44567777776655555544443

>PRK01156 chromosome segregation protein; Provisional

Probab=98.29  E-value=0.0045  Score=72.98  Aligned_cols=24  Identities=17%  Similarity=0.397  Sum_probs=9.8

Q ss_pred             hhHHHHHHHHHHHHHHHhHHHHHH
Q 048095          249 CSQQIELKEKKLRQIQSSIEECEK  272 (535)
Q Consensus       249 ~~~~~~~kek~~~~~~~~~e~~~k  272 (535)
                      ...+|...++++....+.++...+
T Consensus       474 ~~~~i~~l~~~i~~l~~~~~~l~~  497 (895)
T PRK01156        474 YNEKKSRLEEKIREIEIEVKDIDE  497 (895)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333444444444444444433333

>TIGR00606 rad50 rad50

Probab=98.20  E-value=0.0039  Score=76.53  Aligned_cols=37  Identities=30%  Similarity=0.306  Sum_probs=23.3

Q ss_pred             chhhhhhhHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 048095            7 EIRGFNLKLQCKERQLRFLEKRIGESKGELALVQKEI   43 (535)
Q Consensus         7 ~~~~~~~KL~~te~dLerved~i~ElEkqle~Laek~   43 (535)
                      +|..+..++.+++.++..+.+.+.+++..+..+....
T Consensus       745 eip~l~~~l~~le~~l~~~~~~le~~~~~l~~~~~~~  781 (1311)
T TIGR00606       745 EIPELRNKLQKVNRDIQRLKNDIEEQETLLGTIMPEE  781 (1311)
T ss_pred             hchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH
Confidence            4555666666666666666666666666666664444

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>TIGR00606 rad50 rad50

Probab=98.15  E-value=0.006  Score=74.98  Aligned_cols=119  Identities=12%  Similarity=0.164  Sum_probs=50.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHhhhhhhhHH
Q 048095           48 SELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNCELECKQQQLGLAQSEE  127 (535)
Q Consensus        48 ~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El~~~eeEL~~lqk~l~E~~~el~~k~~~~~~~~~~~  127 (535)
                      .++..++..+..+...+.....++......+..+...++.+++ +......+..+..++..+.+.++..+.++....+. 
T Consensus       744 ~eip~l~~~l~~le~~l~~~~~~le~~~~~l~~~~~~~~~~es-L~~~v~~i~r~~~ei~~l~~qie~l~~~l~~~~~~-  821 (1311)
T TIGR00606       744 KEIPELRNKLQKVNRDIQRLKNDIEEQETLLGTIMPEEESAKV-CLTDVTIMERFQMELKDVERKIAQQAAKLQGSDLD-  821 (1311)
T ss_pred             hhchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccc-
Confidence            4444455555555444444444444444444444444444433 23333333344444444444444333333211110 


Q ss_pred             HHHhhhhhhhHHHHHHhhhhhHHHHHHHHHHHHHHHhhhhHHHHHHHHH
Q 048095          128 DLLKNSLKNSIEHWSQKLNLTKEELSLLQKSIRECKGELDSKERQLAVV  176 (535)
Q Consensus       128 ~l~~~~~k~~v~~~~~~~~~~~~eL~~~~k~i~e~~~EL~~Kek~le~~  176 (535)
                              .++.+...++.....++..++..+.....+....++++..+
T Consensus       822 --------~s~~ele~ei~~~~~el~~l~~~~e~l~~e~e~~~~eI~~L  862 (1311)
T TIGR00606       822 --------RTVQQVNQEKQEKQHELDTVVSKIELNRKLIQDQQEQIQHL  862 (1311)
T ss_pred             --------CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                    12223333344444444444444444444444444444444

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>PRK04863 mukB cell division protein MukB; Provisional

Probab=98.11  E-value=0.012  Score=72.92  Aligned_cols=186  Identities=15%  Similarity=0.148  Sum_probs=110.4

Q ss_pred             cchhhhhhhHHHHHHHHHHHHHHHHhHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 048095            6 NEIRGFNLKLQCKERQLRFLEKRIGESKGELALVQKE------IEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELA   79 (535)
Q Consensus         6 ~~~~~~~~KL~~te~dLerved~i~ElEkqle~Laek------~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe   79 (535)
                      ......-.+|..|+.+|.++.+++.+++.++..|..+      |.++..++.....++..+...+.++...+......+.
T Consensus       293 ~rk~eA~kkLe~tE~nL~rI~diL~ELe~rL~kLEkQaEkA~kyleL~ee~lr~q~ei~~l~~~LeELee~Lee~eeeLe  372 (1486)
T PRK04863        293 RELYTSRRQLAAEQYRLVEMARELAELNEAESDLEQDYQAASDHLNLVQTALRQQEKIERYQADLEELEERLEEQNEVVE  372 (1486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3456677899999999999999999999999999444      4444444333344555555666666666666666666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHhhhhhhhHHHHHhhhhhhhHHHHHHhhhhhH----HHHHHH
Q 048095           80 LVEKEIEESNSELQSKEIELGLLQKRVGECNCELECKQQQLGLAQSEEDLLKNSLKNSIEHWSQKLNLTK----EELSLL  155 (535)
Q Consensus        80 ~le~eIee~e~El~~~eeEL~~lqk~l~E~~~el~~k~~~~~~~~~~~~l~~~~~k~~v~~~~~~~~~~~----~eL~~~  155 (535)
                      .+...+...+.++..++.++..++..+.++...+...+.+.........     --..++.|+.-.....    ..+...
T Consensus       373 eleeeleeleeEleelEeeLeeLqeqLaelqqel~elQ~el~q~qq~i~-----~Le~~~~~~~~~~~SdEeLe~~LenF  447 (1486)
T PRK04863        373 EADEQQEENEARAEAAEEEVDELKSQLADYQQALDVQQTRAIQYQQAVQ-----ALERAKQLCGLPDLTADNAEDWLEEF  447 (1486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHhCCCCCCHHHHHHHHHHH
Confidence            6666666666666666666666655555555555433332211100000     0013445552111112    444455


Q ss_pred             HHHHHHHHhhhhHHHHHHHHHHHHHHHhhHHHhHHHhhhhh
Q 048095          156 QKSIRECKGELDSKERQLAVVQKRIGECNNELQLKENELNL  196 (535)
Q Consensus       156 ~k~i~e~~~EL~~Kek~le~~~k~~~~~~~~l~~k~k~l~~  196 (535)
                      ...+.+...++...+.++...+.....+.....+....-+.
T Consensus       448 ~aklee~e~qL~elE~kL~~lea~leql~~~~~~l~~~~Gk  488 (1486)
T PRK04863        448 QAKEQEATEELLSLEQKLSVAQAAHSQFEQAYQLVRKIAGE  488 (1486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCC
Confidence            55566666667777777777777777666666666666554

>PF00261 Tropomyosin: Tropomyosin; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells

Probab=98.11  E-value=0.00075  Score=67.75  Aligned_cols=55  Identities=20%  Similarity=0.389  Sum_probs=23.4

Q ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHHHHHHhhHHHhHHHhhhhhHHHHHHHHHHHh
Q 048095          154 LLQKSIRECKGELDSKERQLAVVQKRIGECNNELQLKENELNLVKTVVEHCLQKL  208 (535)
Q Consensus       154 ~~~k~i~e~~~EL~~Kek~le~~~k~~~~~~~~l~~k~k~l~~~~~~~~~~~kel  208 (535)
                      .+...+.+...-...-++.+..+++.|.....+|..-..++..++..+...+.+|
T Consensus       180 ~L~~~lkeaE~Rae~aE~~v~~Le~~id~le~eL~~~k~~~~~~~~eld~~l~el  234 (237)
T PF00261_consen  180 DLEEKLKEAENRAEFAERRVKKLEKEIDRLEDELEKEKEKYKKVQEELDQTLNEL  234 (237)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3333333333333333444444444444444444444444444444444444443

In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].; PDB: 2EFR_A 2Z5H_C 2Z5I_D 2D3E_B 2EFS_D 3U59_B 1C1G_C 1IHQ_A 3AZD_B 1MV4_B ....

>PF10174 Cast: RIM-binding protein of the cytomatrix active zone; InterPro: IPR019323 This entry represents a family of proteins that form part of the CAZ (cytomatrix at the active zone) complex which is involved in determining the site of synaptic vesicle fusion []

Probab=98.11  E-value=0.016  Score=67.38  Aligned_cols=28  Identities=25%  Similarity=0.311  Sum_probs=17.9

Q ss_pred             HHHHHHHHHHHHhhHHHhHHHhhhhhHH
Q 048095          171 RQLAVVQKRIGECNNELQLKENELNLVK  198 (535)
Q Consensus       171 k~le~~~k~~~~~~~~l~~k~k~l~~~~  198 (535)
                      .+++..++.+.....++++-++++....
T Consensus       465 Eele~~~~e~~~lk~~~~~LQ~eLsEk~  492 (775)
T PF10174_consen  465 EELETYQKELKELKAKLESLQKELSEKE  492 (775)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhHHHH
Confidence            3566666666666666666666665544

Located at the C terminus is a PDZ-binding motif that binds directly to RIM (a small G protein Rab-3A effector). These proteins also contain four coiled-coil domains [].

>KOG0161 consensus Myosin class II heavy chain [Cytoskeleton]

Probab=98.02  E-value=0.02  Score=71.74  Aligned_cols=80  Identities=24%  Similarity=0.298  Sum_probs=62.2

Q ss_pred             hhhhHHHHHHhhhhhHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhhHHHhHHHhhhhhHHHHHHHHHHHhhhHHH
Q 048095          134 LKNSIEHWSQKLNLTKEELSLLQKSIRECKGELDSKERQLAVVQKRIGECNNELQLKENELNLVKTVVEHCLQKLNLKKE  213 (535)
Q Consensus       134 ~k~~v~~~~~~~~~~~~eL~~~~k~i~e~~~EL~~Kek~le~~~k~~~~~~~~l~~k~k~l~~~~~~~~~~~kele~k~~  213 (535)
                      ++.++.++.+.+..+..++..+.-.+++-...+...++++..++..+....++|+.-........+....+..+++....
T Consensus      1060 ~~~~~~el~~~l~kke~El~~l~~k~e~e~~~~~~l~k~i~eL~~~i~el~e~le~er~~r~K~ek~r~dL~~ele~l~~ 1139 (1930)
T KOG0161|consen 1060 LKKQKEELDNQLKKKESELSQLQSKLEDEQAEVAQLQKQIKELEARIKELEEELEAERASRAKAERQRRDLSEELEELKE 1139 (1930)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34566677788888888888888888888888888888888888888888888888777777777777777777777763

>PRK03918 chromosome segregation protein; Provisional

Probab=98.01  E-value=0.039  Score=64.81  Aligned_cols=10  Identities=30%  Similarity=0.537  Sum_probs=3.6

Q ss_pred             HHHHHHHHHH
Q 048095          253 IELKEKKLRQ  262 (535)
Q Consensus       253 ~~~kek~~~~  262 (535)
                      +...+.++..
T Consensus       461 i~~l~~~~~~  470 (880)
T PRK03918        461 LKRIEKELKE  470 (880)
T ss_pred             HHHHHHHHHH
Confidence            3333333333

>KOG0161 consensus Myosin class II heavy chain [Cytoskeleton]

Probab=98.00  E-value=0.04  Score=69.18  Aligned_cols=41  Identities=20%  Similarity=0.194  Sum_probs=23.5

Q ss_pred             HHHHhhhhhHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHH
Q 048095          140 HWSQKLNLTKEELSLLQKSIRECKGELDSKERQLAVVQKRI  180 (535)
Q Consensus       140 ~~~~~~~~~~~eL~~~~k~i~e~~~EL~~Kek~le~~~k~~  180 (535)
                      ++..+++..+++..++.|.+....-.|...+.-++..++.-
T Consensus       996 ~l~~~l~~~eek~~~l~k~~~kle~~l~~le~~le~e~~~r 1036 (1930)
T KOG0161|consen  996 ELQDDLQAEEEKAKSLNKAKAKLEQQLDDLEVTLEREKRIR 1036 (1930)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55566666666666666666655555555555554444443

>KOG0933 consensus Structural maintenance of chromosome protein 2 (chromosome condensation complex Condensin, subunit E) [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning]

Probab=97.98  E-value=0.049  Score=63.70  Aligned_cols=39  Identities=26%  Similarity=0.586  Sum_probs=29.8

Q ss_pred             HHHHHhcccc--CCChHHHHHHHHHHHHhcCCCCCChHHHH
Q 048095          425 GEWKKKMGVI--GENSLEVLGFLHLLAAYRLAPAFDGNELE  463 (535)
Q Consensus       425 ~~WK~~i~~~--~~~~lea~gFL~lla~fgi~s~Fd~del~  463 (535)
                      .-||..+..=  |.-|+=|+.+.+-+-.|.=+|-|=-||+-
T Consensus      1074 ~iWKeSL~ELSGGQRSLVALsLIlamL~fkPAPlYILDEVD 1114 (1174)
T KOG0933|consen 1074 GIWKESLSELSGGQRSLVALSLILAMLKFKPAPLYILDEVD 1114 (1174)
T ss_pred             ccHHHHHHHhcCchHHHHHHHHHHHHHcCCCCceeehhhhH
Confidence            4699998633  33589999999999999988888666653

>PF00261 Tropomyosin: Tropomyosin; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells

Probab=97.97  E-value=0.011  Score=59.48  Aligned_cols=87  Identities=21%  Similarity=0.274  Sum_probs=41.2

Q ss_pred             hHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           14 KLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQ   93 (535)
Q Consensus        14 KL~~te~dLerved~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El~   93 (535)
                      |+..++.+|+...+.+...+..+.....+......++..+...+..+...+......+......+..++...++.+..+.
T Consensus         2 K~~~l~~eld~~~~~~~~~~~~l~~~~~~~~~aE~e~~~l~rri~~lE~~le~~eerL~~~~~kL~~~e~~~de~er~~k   81 (237)
T PF00261_consen    2 KIQQLKDELDEAEERLEEAEEKLKEAEKRAEKAEAEVASLQRRIQLLEEELERAEERLEEATEKLEEAEKRADESERARK   81 (237)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHCCCCHHHHHHHHHHHHHHHHCHHHH
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45555555555555555555555555555554444444444444444444444444444444444444444444444433


Q ss_pred             HHHHHHH
Q 048095           94 SKEIELG  100 (535)
Q Consensus        94 ~~eeEL~  100 (535)
                      .++....
T Consensus        82 ~lE~r~~   88 (237)
T PF00261_consen   82 VLENREQ   88 (237)
T ss_dssp             HHHHHHH
T ss_pred             HHHhHHH
Confidence            3333333

In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].; PDB: 2EFR_A 2Z5H_C 2Z5I_D 2D3E_B 2EFS_D 3U59_B 1C1G_C 1IHQ_A 3AZD_B 1MV4_B ....

>KOG0250 consensus DNA repair protein RAD18 (SMC family protein) [Replication, recombination and repair]

Probab=97.94  E-value=0.014  Score=68.82  Aligned_cols=149  Identities=15%  Similarity=0.212  Sum_probs=97.2

Q ss_pred             HHHHhhhhhHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhhHHHhHHHhhhhhHHHHHHHHHHHhhhHHHHHHHHH
Q 048095          140 HWSQKLNLTKEELSLLQKSIRECKGELDSKERQLAVVQKRIGECNNELQLKENELNLVKTVVEHCLQKLNLKKEELSLLQ  219 (535)
Q Consensus       140 ~~~~~~~~~~~eL~~~~k~i~e~~~EL~~Kek~le~~~k~~~~~~~~l~~k~k~l~~~~~~~~~~~kele~k~~~~~~~~  219 (535)
                      .+.+++..+.-..+++++.+.+....+...-.+.+.....++..-..|+.+..+...++..|+.+++...-.+..+..++
T Consensus       299 ~l~~ki~~~~~k~~~~r~k~teiea~i~~~~~e~~~~d~Ei~~~r~~~~~~~re~~~~~~~~~~~~n~i~~~k~~~d~l~  378 (1074)
T KOG0250|consen  299 TLQEKIEEKQGKIEEARQKLTEIEAKIGELKDEVDAQDEEIEEARKDLDDLRREVNDLKEEIREIENSIRKLKKEVDRLE  378 (1074)
T ss_pred             HHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44455555555556666555555555555555566666666666677788888888889999999999999999999998


Q ss_pred             hhhcccchhhhhhhhhhhhhcCcccchhhhhHHHHHHHHHHHHHHHhHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHH
Q 048095          220 KSNGEWNGQLECGERQLELRLEPESGIKDCSQQIELKEKKLRQIQSSIEECEKELAIKERHISDYEEKLKAKEKLYDE  297 (535)
Q Consensus       220 ~~~~~~~~~~e~~e~~~~~~~e~~s~~~~~~~~~~~kek~~~~~~~~~e~~~kel~~ke~~i~~~e~el~~~~k~~~~  297 (535)
                      +++..+.+..         -.+..+.+.+.+..++..++++..++..+..+..++....+.+..-++++...+..+..
T Consensus       379 k~I~~~~~~~---------~~~~~~~~~e~e~k~~~L~~evek~e~~~~~L~~e~~~~~~~~~~~~ee~~~i~~~i~~  447 (1074)
T KOG0250|consen  379 KQIADLEKQT---------NNELGSELEERENKLEQLKKEVEKLEEQINSLREELNEVKEKAKEEEEEKEHIEGEILQ  447 (1074)
T ss_pred             HHHHHHHHHH---------HhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            8877766532         11112334455556666677777777777777776666666666666666555544443

>KOG0933 consensus Structural maintenance of chromosome protein 2 (chromosome condensation complex Condensin, subunit E) [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning]

Probab=97.84  E-value=0.072  Score=62.42  Aligned_cols=44  Identities=25%  Similarity=0.369  Sum_probs=26.3

Q ss_pred             hHHHHHHHHHHHHHHHHhHHHHHHHH---HHHHHHHHHHHHHHHHHH
Q 048095           14 KLQCKERQLRFLEKRIGESKGELALV---QKEIEECNSELWCKEKEL   57 (535)
Q Consensus        14 KL~~te~dLerved~i~ElEkqle~L---aek~~Elk~EL~~LE~eL   57 (535)
                      +|.+.+..|.-+...+..++.+++++   +.++..++.++.-.--++
T Consensus       678 ~l~~~~~~~~~~q~el~~le~eL~~le~~~~kf~~l~~ql~l~~~~l  724 (1174)
T KOG0933|consen  678 KLKQAQKELRAIQKELEALERELKSLEAQSQKFRDLKQQLELKLHEL  724 (1174)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45566666666666666677666666   444555555555444444

>KOG0996 consensus Structural maintenance of chromosome protein 4 (chromosome condensation complex Condensin, subunit C) [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning]

Probab=97.77  E-value=0.046  Score=64.84  Aligned_cols=155  Identities=17%  Similarity=0.189  Sum_probs=87.5

Q ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHhhhhhhhHHHHHhhhhhhh
Q 048095           58 GLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNCELECKQQQLGLAQSEEDLLKNSLKNS  137 (535)
Q Consensus        58 eeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El~~~eeEL~~lqk~l~E~~~el~~k~~~~~~~~~~~~l~~~~~k~~  137 (535)
                      ..+.+.|..+..+++.....+..+++..+.....+.....++..++.....+..+|.       .++...+-.-..+...
T Consensus       408 K~~~~k~kKleke~ek~~~~~~e~e~~pe~~~~~i~~~~~ei~~L~~~~~~~~~~l~-------e~~~~l~~~t~~~~~e  480 (1293)
T KOG0996|consen  408 KRLTSKIKKLEKEIEKARRKKSELEKAPEKARIEIQKCQTEIEQLEELLEKEERELD-------EILDSLKQETEGIREE  480 (1293)
T ss_pred             HHHHHHHHHHHHHHHHHHhhHHHHHhCchhhHhHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHhhhhhhhHHH
Confidence            333333444444444444444444433333444444444444444444333333333       3333333222333334


Q ss_pred             HHHHHHhhhhhHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhhHHHhHHHhhhhhHHHHHHHHHHHhhhHHHHHHH
Q 048095          138 IEHWSQKLNLTKEELSLLQKSIRECKGELDSKERQLAVVQKRIGECNNELQLKENELNLVKTVVEHCLQKLNLKKEELSL  217 (535)
Q Consensus       138 v~~~~~~~~~~~~eL~~~~k~i~e~~~EL~~Kek~le~~~k~~~~~~~~l~~k~k~l~~~~~~~~~~~kele~k~~~~~~  217 (535)
                      +.....++..+-+++..++-.++-...||+......+...+.++.....|......+..-+..+.....+|.+.+.++++
T Consensus       481 ~~~~ekel~~~~~~~n~~~~e~~vaesel~~L~~~~~~~~~~~e~lk~~L~~~~~~~~e~~~~l~~~k~~l~~~k~e~~~  560 (1293)
T KOG0996|consen  481 IEKLEKELMPLLKQVNEARSELDVAESELDILLSRHETGLKKVEELKGKLLASSESLKEKKTELDDLKEELPSLKQELKE  560 (1293)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHH
Confidence            44556777777777778888888888888887777777777777777777777777776666677776677776655555


Q ss_pred             HH
Q 048095          218 LQ  219 (535)
Q Consensus       218 ~~  219 (535)
                      ..
T Consensus       561 ~~  562 (1293)
T KOG0996|consen  561 KE  562 (1293)
T ss_pred             HH
Confidence            55

>KOG4674 consensus Uncharacterized conserved coiled-coil protein [Function unknown]

Probab=97.76  E-value=0.1  Score=64.97  Aligned_cols=141  Identities=20%  Similarity=0.190  Sum_probs=63.7

Q ss_pred             HHHHHHHHHhhhhHHHHHHHHHHHHHHHhhHHHhHHHhhhhhHHHHHHHHHHHh----hhHHHHHHHHHhhhcccchhhh
Q 048095          155 LQKSIRECKGELDSKERQLAVVQKRIGECNNELQLKENELNLVKTVVEHCLQKL----NLKKEELSLLQKSNGEWNGQLE  230 (535)
Q Consensus       155 ~~k~i~e~~~EL~~Kek~le~~~k~~~~~~~~l~~k~k~l~~~~~~~~~~~kel----e~k~~~~~~~~~~~~~~~~~~e  230 (535)
                      .+....-.+-|....+.+...+...+....++|.+.+++.......+..|+.++    ..-.+.++++..++.++...++
T Consensus       176 ~q~k~~rl~QEksll~s~~~wL~~eL~~~~ekll~~~re~s~~~~~L~~~L~~~~~~~~~~q~~~~~l~q~~~eLs~~ie  255 (1822)
T KOG4674|consen  176 SQLKEERLEQEKSLLESENKWLSRELSKVNEKLLSLRREHSIEVEQLEEKLSDLKESLAELQEKNKSLKQQNEELSKKIE  255 (1822)
T ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333344444444444444444444445555554433333333332222    2222333444444444443333


Q ss_pred             hhhhhhh-hhcCcccchhhhhHHHHHHHHHHHHHHHhHHHHHHHHHHHHhhhhhHHHHHHHHHHHH
Q 048095          231 CGERQLE-LRLEPESGIKDCSQQIELKEKKLRQIQSSIEECEKELAIKERHISDYEEKLKAKEKLY  295 (535)
Q Consensus       231 ~~e~~~~-~~~e~~s~~~~~~~~~~~kek~~~~~~~~~e~~~kel~~ke~~i~~~e~el~~~~k~~  295 (535)
                      ++-..+- ++.--.+....|.+|+..+.+-+.++.+..++...++.--.+.|...++=++....++
T Consensus       256 ~~~~~ls~~k~t~~s~~~kf~~El~~q~kL~eL~ks~~ee~~~~~~el~~~i~~~~klled~~~~~  321 (1822)
T KOG4674|consen  256 SLNLELSKLKDTAESSEEKFEKELSTQKKLNELWKSKLEELSHEVAELQRAIEELEKLLEDASERN  321 (1822)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            3211111 1111122345677777777777777777777776666555445544444444433333

>KOG0976 consensus Rho/Rac1-interacting serine/threonine kinase Citron [Signal transduction mechanisms]

Probab=97.71  E-value=0.17  Score=58.07  Aligned_cols=31  Identities=26%  Similarity=0.297  Sum_probs=18.2

Q ss_pred             hhhhHHHHHHHHHHHHHHHhhHHHhHHHhhh
Q 048095          164 GELDSKERQLAVVQKRIGECNNELQLKENEL  194 (535)
Q Consensus       164 ~EL~~Kek~le~~~k~~~~~~~~l~~k~k~l  194 (535)
                      +++.-+++|++.|+--++..-.+++...|++
T Consensus       266 k~ieE~m~qlk~kns~L~~ElSqkeelVk~~  296 (1265)
T KOG0976|consen  266 KEIEEKMRQLKAKNSVLGDELSQKEELVKEL  296 (1265)
T ss_pred             HHHHHHHHHHHHHHHHHhhhhhHHHHHHHHH
Confidence            3444555566666666666666666665555

>KOG0996 consensus Structural maintenance of chromosome protein 4 (chromosome condensation complex Condensin, subunit C) [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning]

Probab=97.70  E-value=0.12  Score=61.63  Aligned_cols=56  Identities=9%  Similarity=0.142  Sum_probs=38.7

Q ss_pred             cccchhhhhHHHHHHHHHHHHHHHhHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHH
Q 048095          242 PESGIKDCSQQIELKEKKLRQIQSSIEECEKELAIKERHISDYEEKLKAKEKLYDE  297 (535)
Q Consensus       242 ~~s~~~~~~~~~~~kek~~~~~~~~~e~~~kel~~ke~~i~~~e~el~~~~k~~~~  297 (535)
                      ..++++-++.+++.....-..-.+.+++.++.|...+.++++..-.+.+....+.+
T Consensus       498 ~~~e~~vaesel~~L~~~~~~~~~~~e~lk~~L~~~~~~~~e~~~~l~~~k~~l~~  553 (1293)
T KOG0996|consen  498 ARSELDVAESELDILLSRHETGLKKVEELKGKLLASSESLKEKKTELDDLKEELPS  553 (1293)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence            34566677777777776666667778888888887777776666666666666544

>PRK11637 AmiB activator; Provisional

Probab=97.66  E-value=0.043  Score=59.64  Aligned_cols=90  Identities=12%  Similarity=0.169  Sum_probs=51.3

Q ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           16 QCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSK   95 (535)
Q Consensus        16 ~~te~dLerved~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El~~~   95 (535)
                      ++++.+|..++..|.++++++..++.+..+...++..++.+|..+...|...+.+|...+.+|..++.+|...+.++...
T Consensus        43 ~~~~~~l~~l~~qi~~~~~~i~~~~~~~~~~~~~l~~l~~qi~~~~~~i~~~~~~i~~~~~ei~~l~~eI~~~q~~l~~~  122 (428)
T PRK11637         43 SDNRDQLKSIQQDIAAKEKSVRQQQQQRASLLAQLKKQEEAISQASRKLRETQNTLNQLNKQIDELNASIAKLEQQQAAQ  122 (428)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34555566666666666666666555555565555555555555555555555555555555555555555555555555


Q ss_pred             HHHHHHHHHH
Q 048095           96 EIELGLLQKR  105 (535)
Q Consensus        96 eeEL~~lqk~  105 (535)
                      ...+...-..
T Consensus       123 ~~~l~~rlra  132 (428)
T PRK11637        123 ERLLAAQLDA  132 (428)
T ss_pred             HHHHHHHHHH
Confidence            5555444333

>KOG0976 consensus Rho/Rac1-interacting serine/threonine kinase Citron [Signal transduction mechanisms]

Probab=97.62  E-value=0.23  Score=57.15  Aligned_cols=208  Identities=18%  Similarity=0.230  Sum_probs=97.7

Q ss_pred             HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           27 KRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGLLQKRV  106 (535)
Q Consensus        27 d~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El~~~eeEL~~lqk~l  106 (535)
                      ....+++.++..+..++..++....+++.+++.++..|...+.++.....+|++..+++.....++.....+|...-+.+
T Consensus        92 rdv~llEddlk~~~sQiriLQn~c~~lE~ekq~lQ~ti~~~q~d~ke~etelE~~~srlh~le~eLsAk~~eIf~~~~~L  171 (1265)
T KOG0976|consen   92 RDVNLLEDDLKHHESQIRILQNKCLRLEMEKQKLQDTIQGAQDDKKENEIEIENLNSRLHKLEDELSAKAHDIFMIGEDL  171 (1265)
T ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHhhhhHHHHHHHHHH
Confidence            33444444455555555555555555555555555555555555555555555555555555555555555555555555


Q ss_pred             hhhhhhHHHHHHhhhhhhhHHHHHhhhhhhhHHHHHHhhhhhHH---HHHH---HHHHHHHHHhhh--------------
Q 048095          107 GECNCELECKQQQLGLAQSEEDLLKNSLKNSIEHWSQKLNLTKE---ELSL---LQKSIRECKGEL--------------  166 (535)
Q Consensus       107 ~E~~~el~~k~~~~~~~~~~~~l~~~~~k~~v~~~~~~~~~~~~---eL~~---~~k~i~e~~~EL--------------  166 (535)
                      ..-+.+|.+.+-+|.--..+-.-.++.+.-+++.+.+++-.+..   ++..   ....|-+.+.+|              
T Consensus       172 ~nk~~~lt~~~~q~~tkl~e~~~en~~le~k~~k~~e~~~~nD~~sle~~~~q~~tq~vl~ev~QLss~~q~ltp~rk~~  251 (1265)
T KOG0976|consen  172 HDKNEELNEFNMEFQTKLAEANREKKALEEKLEKFKEDLIEKDQKSLELHKDQENTQKVLKEVMQLSSQKQTLTPLRKTC  251 (1265)
T ss_pred             hhhhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhHhhhh
Confidence            55555555554444322211111112222222222222111110   0000   111111122222              


Q ss_pred             ---hHHHHHHHHHHHHHHHhhHHHhHHHhhhhhHHHHHHHHHHHhhhHHHHHHHHHhhhcccchhhhhhhhhhh
Q 048095          167 ---DSKERQLAVVQKRIGECNNELQLKENELNLVKTVVEHCLQKLNLKKEELSLLQKSNGEWNGQLECGERQLE  237 (535)
Q Consensus       167 ---~~Kek~le~~~k~~~~~~~~l~~k~k~l~~~~~~~~~~~kele~k~~~~~~~~~~~~~~~~~~e~~e~~~~  237 (535)
                         +-.-..|+..++.|++.+++++-+.--|+-...++...++++.   +++.-++.+.---.|-.+..-++|.
T Consensus       252 s~i~E~d~~lq~sak~ieE~m~qlk~kns~L~~ElSqkeelVk~~q---eeLd~lkqt~t~a~gdseqatkylh  322 (1265)
T KOG0976|consen  252 SMIEEQDMDLQASAKEIEEKMRQLKAKNSVLGDELSQKEELVKELQ---EELDTLKQTRTRADGDSEQATKYLH  322 (1265)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHH---HHHHHHHHHHHHhhccHHHHHHHHH
Confidence               2222367788888888888888888877777777666666554   2333333333333343444444444

>PHA02562 46 endonuclease subunit; Provisional

Probab=97.61  E-value=0.087  Score=58.65  Aligned_cols=10  Identities=50%  Similarity=0.810  Sum_probs=7.5

Q ss_pred             CCchhHHHHH
Q 048095          364 CDPALLVLDA  373 (535)
Q Consensus       364 ~DPAkLVLda  373 (535)
                      .+|.-++||=
T Consensus       495 ~~~~~lilDE  504 (562)
T PHA02562        495 VDTNLLILDE  504 (562)
T ss_pred             CCcCeEEEec
Confidence            5888888774

>PF07888 CALCOCO1: Calcium binding and coiled-coil domain (CALCOCO1) like; InterPro: IPR012852 Proteins found in this family are similar to the coiled-coil transcriptional coactivator protein expressed by Mus musculus (CoCoA, Q8CGU1 from SWISSPROT)

Probab=97.59  E-value=0.21  Score=55.87  Aligned_cols=94  Identities=15%  Similarity=0.214  Sum_probs=46.7

Q ss_pred             hhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           13 LKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSEL   92 (535)
Q Consensus        13 ~KL~~te~dLerved~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El   92 (535)
                      .+|+.+......+......++++...+..++..+..++.....+...++....++....+.+..+...+..+..+...++
T Consensus       143 ~qlE~~qkE~eeL~~~~~~Le~e~~~l~~~v~~l~~eL~~~~ee~e~L~~~~kel~~~~e~l~~E~~~L~~q~~e~~~ri  222 (546)
T PF07888_consen  143 NQLEECQKEKEELLKENEQLEEEVEQLREEVERLEAELEQEEEEMEQLKQQQKELTESSEELKEERESLKEQLAEARQRI  222 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444455554455555555555555555555555555555554455544444444444444444444444444444444


Q ss_pred             HHHHHHHHHHHHHH
Q 048095           93 QSKEIELGLLQKRV  106 (535)
Q Consensus        93 ~~~eeEL~~lqk~l  106 (535)
                      ..++..+..+.+..
T Consensus       223 ~~LEedi~~l~qk~  236 (546)
T PF07888_consen  223 RELEEDIKTLTQKE  236 (546)
T ss_pred             HHHHHHHHHHHHHH
Confidence            45554444444444

This protein binds to a highly conserved N-terminal domain of p160 coactivators, such as GRIP1 (Q61026 from SWISSPROT), and thus enhances transcriptional activation by a number of nuclear receptors. CoCoA has a central coiled-coil region with three leucine zipper motifs, which is required for its interaction with GRIP1 and may regulate the autonomous transcriptional activation activity of the C-terminal region [].

>KOG4674 consensus Uncharacterized conserved coiled-coil protein [Function unknown]

Probab=97.49  E-value=0.55  Score=58.76  Aligned_cols=37  Identities=22%  Similarity=0.381  Sum_probs=17.5

Q ss_pred             HhhhhhHHHHHHHHHH----HHHHHhhhhHHHHHHHHHHHH
Q 048095          143 QKLNLTKEELSLLQKS----IRECKGELDSKERQLAVVQKR  179 (535)
Q Consensus       143 ~~~~~~~~eL~~~~k~----i~e~~~EL~~Kek~le~~~k~  179 (535)
                      .++.....+|-+++..    +......|..+...+..++-.
T Consensus       199 ~eL~~~~ekll~~~re~s~~~~~L~~~L~~~~~~~~~~q~~  239 (1822)
T KOG4674|consen  199 RELSKVNEKLLSLRREHSIEVEQLEEKLSDLKESLAELQEK  239 (1822)
T ss_pred             HHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            5555555555555555    444444444444444443333

>KOG0964 consensus Structural maintenance of chromosome protein 3 (sister chromatid cohesion complex Cohesin, subunit SMC3) [Cell cycle control, cell division, chromosome partitioning]

Probab=97.46  E-value=0.25  Score=57.98  Aligned_cols=323  Identities=16%  Similarity=0.166  Sum_probs=140.0

Q ss_pred             hhhhHHHHHHHHHHHHHHHHhHHHHHHHHH------HHHHHHHHHHHHHHH-----HHHHHHHHHHHhHHHHHHHHHHHH
Q 048095           11 FNLKLQCKERQLRFLEKRIGESKGELALVQ------KEIEECNSELWCKEK-----ELGLVQKRIRGCNGELQSKQGELA   79 (535)
Q Consensus        11 ~~~KL~~te~dLerved~i~ElEkqle~La------ek~~Elk~EL~~LE~-----eLeeLK~eIeE~e~eIe~~qkeIe   79 (535)
                      -.+.++.|++--.-++..+..++..+.+|.      ..|.++..+-+.++=     ++.++..++..+.+.....-..-+
T Consensus       175 Slkim~ET~qK~ekI~ell~yieerLreLEeEKeeL~~Yqkldk~rr~lEYtiYdrEl~E~~~~l~~le~~r~~~~e~s~  254 (1200)
T KOG0964|consen  175 SLKIMEETKQKREKINELLKYIEERLRELEEEKEELEKYQKLDKERRSLEYTIYDRELNEINGELERLEEDRSSAPEESE  254 (1200)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhHhhhhhhhhhhHHHHHHHHHHHHHHHHhccchhhh
Confidence            345677777766666666666666666663      334444333333322     223333333333333333322222


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHhhhhhh-h--HHHHHhhhhhhhHHHHHHhhhhhHHHHHHHH
Q 048095           80 LVEKEIEESNSELQSKEIELGLLQKRVGECNCELECKQQQLGLAQ-S--EEDLLKNSLKNSIEHWSQKLNLTKEELSLLQ  156 (535)
Q Consensus        80 ~le~eIee~e~El~~~eeEL~~lqk~l~E~~~el~~k~~~~~~~~-~--~~~l~~~~~k~~v~~~~~~~~~~~~eL~~~~  156 (535)
                      .+...+.....++.....++..+...+.-+..+.+-.+..--+++ +  -.+|.-..++.+++.-.+.....-..|..+.
T Consensus       255 ~~~~~~~~~~d~~~~~~~~i~ele~~l~~l~~ekeq~~a~~t~~~k~kt~lel~~kdlq~~i~~n~q~r~~~l~~l~~~~  334 (1200)
T KOG0964|consen  255 QYIDALDKVEDESEDLKCEIKELENKLTNLREEKEQLKARETKISKKKTKLELKIKDLQDQITGNEQQRNLALHVLQKVK  334 (1200)
T ss_pred             hHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHhhhhhhhhhhHHHHHHHHH
Confidence            233333333333333333333333333333332222211111111 0  1122222333344433444444445566666


Q ss_pred             HHHHHHHhhhhHHHHHHHHH---HHHHHHhhHHHhHHHhhhhhHHHHHHHHHHHhhhHHHHHHHHHhhhcccchh-----
Q 048095          157 KSIRECKGELDSKERQLAVV---QKRIGECNNELQLKENELNLVKTVVEHCLQKLNLKKEELSLLQKSNGEWNGQ-----  228 (535)
Q Consensus       157 k~i~e~~~EL~~Kek~le~~---~k~~~~~~~~l~~k~k~l~~~~~~~~~~~kele~k~~~~~~~~~~~~~~~~~-----  228 (535)
                      -.|.+...||..-+..+.++   ++....+.+.|+.+.+.|-.-|    +..--|.||+.-=+||..+...+..-     
T Consensus       335 ~ki~e~~~EL~~I~Pky~~l~~ee~~~~~rl~~l~~~~~~l~~Kq----gr~sqFssk~eRDkwir~ei~~l~~~i~~~k  410 (1200)
T KOG0964|consen  335 DKIEEKKDELSKIEPKYNSLVDEEKRLKKRLAKLEQKQRDLLAKQ----GRYSQFSSKEERDKWIRSEIEKLKRGINDTK  410 (1200)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHhh----ccccccCcHHHHHHHHHHHHHHHHHHHhhhh
Confidence            66677777766666655544   3445555555555544442211    11233444444444554433333221     


Q ss_pred             ---------hhhhhhhhhhhcCcccchhhhhHHHHHHHHHHHHHHHhHHHHHHHHH---HHHhhhhhHHHHHHHHHHHHH
Q 048095          229 ---------LECGERQLELRLEPESGIKDCSQQIELKEKKLRQIQSSIEECEKELA---IKERHISDYEEKLKAKEKLYD  296 (535)
Q Consensus       229 ---------~e~~e~~~~~~~e~~s~~~~~~~~~~~kek~~~~~~~~~e~~~kel~---~ke~~i~~~e~el~~~~k~~~  296 (535)
                               ++.-+.+++-.+   +++++....|..-.-+++.|-..+-....+++   .+-+++=.-+..+++.     
T Consensus       411 e~e~~lq~e~~~~e~~l~~~~---e~i~~l~~si~e~~~r~~~~~~~~~~~k~~~del~~~Rk~lWREE~~l~~~-----  482 (1200)
T KOG0964|consen  411 EQENILQKEIEDLESELKEKL---EEIKELESSINETKGRMEEFDAENTELKRELDELQDKRKELWREEKKLRSL-----  482 (1200)
T ss_pred             hHHHHHHHHHHHHHHHHHHHH---HHHHHHHhhHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----
Confidence                     111111111111   12333333333333333333222222222211   2223333333333322     


Q ss_pred             HHHHHHHHHHHhhhhhccCCCCC-cchhhHHHHHhhhCChHHHHHHHHHhh
Q 048095          297 EIKKSIKELESAKKELEQPKSLT-DNEETRLLSLQSMNNGRSLQLILNQHL  346 (535)
Q Consensus       297 ~~~k~~ke~el~ekq~e~~~~~~-~~~~~~L~~lC~~MD~~gL~~fv~~~~  346 (535)
                       ....-.+++.+++++.+...-+ .|--...+.+|+..-..|...+|++..
T Consensus       483 -i~~~~~dl~~~~~~L~~~~~r~v~nGi~~v~~I~e~~k~ngv~G~v~eL~  532 (1200)
T KOG0964|consen  483 -IANLEEDLSRAEKNLRATMNRSVANGIDSVRKIKEELKPNGVFGTVYELI  532 (1200)
T ss_pred             -HHHHHHHHHHHHHHHHHhccchhhhhhHHHHHHHHHhcccccceehhhhh
Confidence             2222336778888887766422 344455666777777788888888765

>KOG0995 consensus Centromere-associated protein HEC1 [Cell cycle control, cell division, chromosome partitioning]

Probab=97.39  E-value=0.37  Score=53.83  Aligned_cols=41  Identities=24%  Similarity=0.217  Sum_probs=25.9

Q ss_pred             HhhhhhHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHh
Q 048095          143 QKLNLTKEELSLLQKSIRECKGELDSKERQLAVVQKRIGEC  183 (535)
Q Consensus       143 ~~~~~~~~eL~~~~k~i~e~~~EL~~Kek~le~~~k~~~~~  183 (535)
                      -++-+++++.-...-.++..+++++.+=.++++....|+.-
T Consensus       353 ~~~d~l~k~vw~~~l~~~~~f~~le~~~~~~~~l~~~i~l~  393 (581)
T KOG0995|consen  353 SELDRLSKEVWELKLEIEDFFKELEKKFIDLNSLIRRIKLG  393 (581)
T ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444555555555566666777777777777777766665

>PHA02562 46 endonuclease subunit; Provisional

Probab=97.30  E-value=0.14  Score=56.99  Aligned_cols=51  Identities=16%  Similarity=0.096  Sum_probs=22.2

Q ss_pred             HHHHHHHHhhHHHhHHHhhhhhHHHHHHHHHHHhhhHHHHHHHHHhhhccc
Q 048095          175 VVQKRIGECNNELQLKENELNLVKTVVEHCLQKLNLKKEELSLLQKSNGEW  225 (535)
Q Consensus       175 ~~~k~~~~~~~~l~~k~k~l~~~~~~~~~~~kele~k~~~~~~~~~~~~~~  225 (535)
                      .....+......+...+..+...+..+..+..+....+.++..++....+.
T Consensus       327 ~~~~~~~~~~~~i~el~~~i~~~~~~i~~~~~~~~~l~~ei~~l~~~~~~~  377 (562)
T PHA02562        327 EIMDEFNEQSKKLLELKNKISTNKQSLITLVDKAKKVKAAIEELQAEFVDN  377 (562)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhch
Confidence            333333333334444444444444444444444444444555554443333

>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]

Probab=97.24  E-value=0.1  Score=52.73  Aligned_cols=77  Identities=23%  Similarity=0.250  Sum_probs=59.4

Q ss_pred             hhhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 048095           12 NLKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEES   88 (535)
Q Consensus        12 ~~KL~~te~dLerved~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~   88 (535)
                      -.+|+....+++|++..+.+..+.++.+...+..++..+.+++..+..++.++...+.+|......+...+..+...
T Consensus         9 L~~iq~lD~e~~rl~~~~~~~~~~l~k~~~e~e~~~~~~~~~~~e~e~le~qv~~~e~ei~~~r~r~~~~e~kl~~v   85 (239)
T COG1579           9 LLAIQKLDLEKDRLEPRIKEIRKALKKAKAELEALNKALEALEIELEDLENQVSQLESEIQEIRERIKRAEEKLSAV   85 (239)
T ss_pred             HHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            34566777778888888888888888888888888888888888888888888888777777777777777666443

>PRK11637 AmiB activator; Provisional

Probab=97.21  E-value=0.44  Score=51.85  Aligned_cols=90  Identities=13%  Similarity=0.129  Sum_probs=49.2

Q ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           24 FLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGLLQ  103 (535)
Q Consensus        24 rved~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El~~~eeEL~~lq  103 (535)
                      .+.+.+.+++.+++.+..++.....++..++.++..+..+|......|...+.+|..++.+|...+.++...+.++...+
T Consensus        44 ~~~~~l~~l~~qi~~~~~~i~~~~~~~~~~~~~l~~l~~qi~~~~~~i~~~~~~i~~~~~ei~~l~~eI~~~q~~l~~~~  123 (428)
T PRK11637         44 DNRDQLKSIQQDIAAKEKSVRQQQQQRASLLAQLKKQEEAISQASRKLRETQNTLNQLNKQIDELNASIAKLEQQQAAQE  123 (428)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34555555555555555555555555555555555555555555555555555555555555555555555555555555


Q ss_pred             HHHhhhhhhH
Q 048095          104 KRVGECNCEL  113 (535)
Q Consensus       104 k~l~E~~~el  113 (535)
                      ..+....+..
T Consensus       124 ~~l~~rlra~  133 (428)
T PRK11637        124 RLLAAQLDAA  133 (428)
T ss_pred             HHHHHHHHHH
Confidence            5544444433

>PRK04778 septation ring formation regulator EzrA; Provisional

Probab=97.10  E-value=0.77  Score=51.95  Aligned_cols=54  Identities=17%  Similarity=0.118  Sum_probs=26.3

Q ss_pred             hhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           13 LKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRG   66 (535)
Q Consensus        13 ~KL~~te~dLerved~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE   66 (535)
                      ..+..+++.|+.++..+..+...++.|...-.+-+.++..+...++.+++.+..
T Consensus       105 ~~~~~~~~~l~~~e~~~~~i~~~l~~l~~~e~~nr~~v~~l~~~y~~~rk~ll~  158 (569)
T PRK04778        105 HEINEIESLLDLIEEDIEQILEELQELLESEEKNREEVEQLKDLYRELRKSLLA  158 (569)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            344445555555555555555555555444444444444444444444444433

>KOG0977 consensus Nuclear envelope protein lamin, intermediate filament superfamily [Cell cycle control, cell division, chromosome partitioning; Nuclear structure]

Probab=97.02  E-value=0.87  Score=51.11  Aligned_cols=102  Identities=26%  Similarity=0.262  Sum_probs=55.4

Q ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           20 RQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIEL   99 (535)
Q Consensus        20 ~dLerved~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El~~~eeEL   99 (535)
                      .+|..+...+.+..+....+...+..+..++..+...+....+.......++......+..+++++...+..+...+.++
T Consensus        92 ~El~~ar~~l~e~~~~ra~~e~ei~kl~~e~~elr~~~~~~~k~~~~~re~~~~~~~~l~~leAe~~~~krr~~~le~e~  171 (546)
T KOG0977|consen   92 AELATARKLLDETARERAKLEIEITKLREELKELRKKLEKAEKERRGAREKLDDYLSRLSELEAEINTLKRRIKALEDEL  171 (546)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhhhHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHH
Confidence            34444555555555555555555555555555555555555445555555555555555555555555555555555555


Q ss_pred             HHHHHHHhhhhhhHHHHHHhhh
Q 048095          100 GLLQKRVGECNCELECKQQQLG  121 (535)
Q Consensus       100 ~~lqk~l~E~~~el~~k~~~~~  121 (535)
                      ..+..+..-+..+|....+.+.
T Consensus       172 ~~Lk~en~rl~~~l~~~r~~ld  193 (546)
T KOG0977|consen  172 KRLKAENSRLREELARARKQLD  193 (546)
T ss_pred             HHHHHHhhhhHHHHHHHHHHHH
Confidence            5555555555555555554443

>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]

Probab=97.00  E-value=0.19  Score=50.88  Aligned_cols=72  Identities=22%  Similarity=0.263  Sum_probs=46.0

Q ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           29 IGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELG  100 (535)
Q Consensus        29 i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El~~~eeEL~  100 (535)
                      |..+..++..+..+..+....|.....+++.++..+...+.++..+++++..++.+|.+....+...+..+.
T Consensus        12 iq~lD~e~~rl~~~~~~~~~~l~k~~~e~e~~~~~~~~~~~e~e~le~qv~~~e~ei~~~r~r~~~~e~kl~   83 (239)
T COG1579          12 IQKLDLEKDRLEPRIKEIRKALKKAKAELEALNKALEALEIELEDLENQVSQLESEIQEIRERIKRAEEKLS   83 (239)
T ss_pred             HHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            446666666666666677777776666666666666666666666666666666666666655555555543

>PF05483 SCP-1: Synaptonemal complex protein 1 (SCP-1); InterPro: IPR008827 Synaptonemal complex protein 1 (SCP-1) is the major component of the transverse filaments of the synaptonemal complex

Probab=96.92  E-value=1.1  Score=50.94  Aligned_cols=107  Identities=15%  Similarity=0.128  Sum_probs=59.6

Q ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHhhhhhhhHHHHHhhhhhhhHHH
Q 048095           61 QKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNCELECKQQQLGLAQSEEDLLKNSLKNSIEH  140 (535)
Q Consensus        61 K~eIeE~e~eIe~~qkeIe~le~eIee~e~El~~~eeEL~~lqk~l~E~~~el~~k~~~~~~~~~~~~l~~~~~k~~v~~  140 (535)
                      ...|+++..........+..++..|..++.-+..-..++....+.+.-++.+|.-+--+++.- .  ++. +--...+++
T Consensus       334 e~~~Ee~nk~k~~~s~~v~e~qtti~~L~~lL~~Eqqr~~~~ed~lk~l~~eLqkks~eleEm-t--k~k-~~ke~elee  409 (786)
T PF05483_consen  334 EAQMEELNKAKAQHSFVVTELQTTICNLKELLTTEQQRLKKNEDQLKILTMELQKKSSELEEM-T--KQK-NNKEVELEE  409 (786)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhHHHHHH-H--HHh-hhhHHHHHH
Confidence            344555555555555556666777777777777777777778888888888887666555522 1  111 111122445


Q ss_pred             HHHhhhhhHHHHHHHHHHHHHHHhhhhHHHHH
Q 048095          141 WSQKLNLTKEELSLLQKSIRECKGELDSKERQ  172 (535)
Q Consensus       141 ~~~~~~~~~~eL~~~~k~i~e~~~EL~~Kek~  172 (535)
                      +...|..+.+ |--..+++..-..+|+..+.+
T Consensus       410 L~~~L~e~qk-ll~ekk~~eki~E~lq~~eqe  440 (786)
T PF05483_consen  410 LKKILAEKQK-LLDEKKQFEKIAEELQGTEQE  440 (786)
T ss_pred             HHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHH
Confidence            5555555553 333344455555555555443

Synaptonemal complexes are structures that are formed between homologous chromosomes during meiotic prophase [].; GO: 0007130 synaptonemal complex assembly, 0000795 synaptonemal complex

>PF00038 Filament: Intermediate filament protein; InterPro: IPR016044 Intermediate filaments (IF) [, , ] are proteins which are primordial components of the cytoskeleton and the nuclear envelope

Probab=96.85  E-value=0.73  Score=47.61  Aligned_cols=59  Identities=19%  Similarity=0.130  Sum_probs=25.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           46 CNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGLLQK  104 (535)
Q Consensus        46 lk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El~~~eeEL~~lqk  104 (535)
                      +..++..+...+.........++.++..+.+.+.......-++++.+..+..+|.++..
T Consensus        80 l~~e~~~~r~k~e~e~~~~~~le~el~~lrk~ld~~~~~r~~le~~i~~L~eEl~fl~~  138 (312)
T PF00038_consen   80 LKEELEDLRRKYEEELAERKDLEEELESLRKDLDEETLARVDLENQIQSLKEELEFLKQ  138 (312)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhHhHHHHHHHHHHHHHHHHHh
Confidence            33333333333333333333444444444444444444444455555555555555444

They generally form filamentous structures 8 to 14 nm wide. IF proteins are members of a very large multigene family of proteins which has been subdivided in five major subgroups: Type I: Acidic cytokeratins. Type II: Basic cytokeratins. Type III: Vimentin, desmin, glial fibrillary acidic protein (GFAP), peripherin, and plasticin. Type IV: Neurofilaments L, H and M, alpha-internexin and nestin. Type V: Nuclear lamins A, B1, B2 and C. All IF proteins are structurally similar in that they consist of: a central rod domain comprising some 300 to 350 residues which is arranged in coiled-coiled alpha-helices, with at least two short characteristic interruptions; a N-terminal non-helical domain (head) of variable length; and a C-terminal domain (tail) which is also non-helical, and which shows extreme length variation between different IF proteins. While IF proteins are evolutionary and structurally related, they have limited sequence homologies except in several regions of the rod domain. This entry represents the central rod domain found in IF proteins.; PDB: 3TNU_B 3KLT_D 1GK4_F 3TRT_A 3G1E_A 3UF1_C 1GK6_B 1GK7_A 3TYY_B 3V4W_A ....

>PF05667 DUF812: Protein of unknown function (DUF812); InterPro: IPR008530 This family consists of several eukaryotic proteins of unknown function

Probab=96.84  E-value=0.32  Score=55.37  Aligned_cols=200  Identities=16%  Similarity=0.190  Sum_probs=98.1

Q ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           18 KERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEI   97 (535)
Q Consensus        18 te~dLerved~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El~~~ee   97 (535)
                      .+.+|..+.+.+.++..++..+...+..+...+..+..++.+.+....+++.++....+.+..+    .+.+..+.+++.
T Consensus       326 ~~~el~~l~~~l~~l~~~i~~~~~~~~~l~~~~~q~~~e~~~~~~~~~~le~~~~l~~k~~~lL----~d~e~ni~kL~~  401 (594)
T PF05667_consen  326 QEQELEELQEQLDELESQIEELEAEIKMLKSSLKQLEEELEEKEAENEELEEELKLKKKTVELL----PDAEENIAKLQA  401 (594)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh----cCcHHHHHHHHH
Confidence            3444444444444444444444444444444444444444444444444444444443333222    222333344444


Q ss_pred             HHHHHHHHHhhhhhhHHHHHHhhhhhhhHHHHHhhhhhhhHHHHHHhhhhhHHHHHHHHHHHHHHHhhhhHHHHHHHHHH
Q 048095           98 ELGLLQKRVGECNCELECKQQQLGLAQSEEDLLKNSLKNSIEHWSQKLNLTKEELSLLQKSIRECKGELDSKERQLAVVQ  177 (535)
Q Consensus        98 EL~~lqk~l~E~~~el~~k~~~~~~~~~~~~l~~~~~k~~v~~~~~~~~~~~~eL~~~~k~i~e~~~EL~~Kek~le~~~  177 (535)
                      -++.....+.++..+-+..+..+-...-..+       ........+...+..++..++..+.+...|+..|+..+.-+.
T Consensus       402 ~v~~s~~rl~~L~~qWe~~R~pL~~e~r~lk-------~~~~~~~~e~~~~~~~ik~~r~~~k~~~~e~~~Kee~~~qL~  474 (594)
T PF05667_consen  402 LVEASEQRLVELAQQWEKHRAPLIEEYRRLK-------EKASNRESESKQKLQEIKELREEIKEIEEEIRQKEELYKQLV  474 (594)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH-------HHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444444555555555544433322211111       111122344555667888899999999999999988777766


Q ss_pred             HHHHHhhHHHhHHH---hhhhhHHHHHHHHHHHhhhHHHHHHHHHhhhcccchhh
Q 048095          178 KRIGECNNELQLKE---NELNLVKTVVEHCLQKLNLKKEELSLLQKSNGEWNGQL  229 (535)
Q Consensus       178 k~~~~~~~~l~~k~---k~l~~~~~~~~~~~kele~k~~~~~~~~~~~~~~~~~~  229 (535)
                      ..++...... ++.   .-.-.|..-|+.|=.++...-.+.+.||++..-+.|+|
T Consensus       475 ~e~e~~~k~~-~Rs~Yt~RIlEIv~NI~KQk~eI~KIl~DTr~lQkeiN~l~gkL  528 (594)
T PF05667_consen  475 KELEKLPKDV-NRSAYTRRILEIVKNIRKQKEEIEKILSDTRELQKEINSLTGKL  528 (594)
T ss_pred             HHHHhCCCCC-CHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6655544331 111   11122333344444444444445555565555555544

>PF09728 Taxilin: Myosin-like coiled-coil protein; InterPro: IPR019132 Taxilin contains an extraordinarily long coiled-coil domain in its C-terminal half and is ubiquitously expressed

Probab=96.82  E-value=0.85  Score=47.91  Aligned_cols=53  Identities=23%  Similarity=0.243  Sum_probs=36.5

Q ss_pred             HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 048095           27 KRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELA   79 (535)
Q Consensus        27 d~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe   79 (535)
                      ..+..-+..++.|..+|.++-.+...++.++...++....+..+....+.+..
T Consensus        15 ~~l~~~eeK~~~L~kk~~ell~e~k~~~k~~~~~~Kk~~~l~kek~~l~~E~~   67 (309)
T PF09728_consen   15 NKLSSPEEKLEALCKKYAELLEEMKRLQKQLKKLQKKQEQLQKEKDQLQSELS   67 (309)
T ss_pred             hcCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444556777778888888777777777777777776666666666666555

It is a novel binding partner of several syntaxin family members and is possibly involved in Ca(2+)-dependent exocytosis in neuroendocrine cells []. Gamma-taxilin, described as leucine zipper protein Factor Inhibiting ATF4-mediated Transcription (FIAT), localises to the nucleus in osteoblasts and dimerises with ATF4 to form inactive dimers, thus inhibiting ATF4-mediated transcription [].

>PF05701 WEMBL: Weak chloroplast movement under blue light; InterPro: IPR008545 This family consists of several plant proteins of unknown function

Probab=96.81  E-value=1.3  Score=49.79  Aligned_cols=59  Identities=22%  Similarity=0.174  Sum_probs=28.0

Q ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHH
Q 048095           58 GLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNCELECK  116 (535)
Q Consensus        58 eeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El~~~eeEL~~lqk~l~E~~~el~~k  116 (535)
                      ...+.++..++.++...-..-....+..++...........+..+...+..+...|.+.
T Consensus       133 ~~~k~EL~~lr~e~~~~~~~k~~A~~~aeea~~~a~~~~~kve~L~~Ei~~lke~l~~~  191 (522)
T PF05701_consen  133 DSVKQELEKLRQELASALDAKNAALKQAEEAVSAAEENEEKVEELSKEIIALKESLESA  191 (522)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344444444444444444444444444444444444444555555555555555444

Several sequences in this family are described as being myosin heavy chain-like.

>PF15619 Lebercilin: Ciliary protein causing Leber congenital amaurosis disease

Probab=96.68  E-value=0.73  Score=45.28  Aligned_cols=34  Identities=24%  Similarity=0.395  Sum_probs=23.3

Q ss_pred             HHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHH
Q 048095          149 KEELSLLQKSIRECKGELDSKERQLAVVQKRIGE  182 (535)
Q Consensus       149 ~~eL~~~~k~i~e~~~EL~~Kek~le~~~k~~~~  182 (535)
                      ..+|..+...+.+....+..-+++++..++.+.-
T Consensus       124 ~~kL~~~~~~l~~~~~ki~~Lek~leL~~k~~~r  157 (194)
T PF15619_consen  124 QRKLSQLEQKLQEKEKKIQELEKQLELENKSFRR  157 (194)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHH
Confidence            4677777777777777777777777776665443

>PF07888 CALCOCO1: Calcium binding and coiled-coil domain (CALCOCO1) like; InterPro: IPR012852 Proteins found in this family are similar to the coiled-coil transcriptional coactivator protein expressed by Mus musculus (CoCoA, Q8CGU1 from SWISSPROT)

Probab=96.62  E-value=1.7  Score=48.81  Aligned_cols=100  Identities=15%  Similarity=0.116  Sum_probs=72.4

Q ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           18 KERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEI   97 (535)
Q Consensus        18 te~dLerved~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El~~~ee   97 (535)
                      .+..|+.......++.+....|......+..++..++.+|...+.....+.............+..+...+..+......
T Consensus       141 lQ~qlE~~qkE~eeL~~~~~~Le~e~~~l~~~v~~l~~eL~~~~ee~e~L~~~~kel~~~~e~l~~E~~~L~~q~~e~~~  220 (546)
T PF07888_consen  141 LQNQLEECQKEKEELLKENEQLEEEVEQLREEVERLEAELEQEEEEMEQLKQQQKELTESSEELKEERESLKEQLAEARQ  220 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            46666777777777777777777777777777777777777777777777777777777777777777777777777777


Q ss_pred             HHHHHHHHHhhhhhhHHHHH
Q 048095           98 ELGLLQKRVGECNCELECKQ  117 (535)
Q Consensus        98 EL~~lqk~l~E~~~el~~k~  117 (535)
                      ++..+...+..+.......+
T Consensus       221 ri~~LEedi~~l~qk~~E~e  240 (546)
T PF07888_consen  221 RIRELEEDIKTLTQKEKEQE  240 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            77777766666655554333

This protein binds to a highly conserved N-terminal domain of p160 coactivators, such as GRIP1 (Q61026 from SWISSPROT), and thus enhances transcriptional activation by a number of nuclear receptors. CoCoA has a central coiled-coil region with three leucine zipper motifs, which is required for its interaction with GRIP1 and may regulate the autonomous transcriptional activation activity of the C-terminal region [].

>KOG0995 consensus Centromere-associated protein HEC1 [Cell cycle control, cell division, chromosome partitioning]

Probab=96.51  E-value=2  Score=48.21  Aligned_cols=63  Identities=13%  Similarity=0.137  Sum_probs=31.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           33 KGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSK   95 (535)
Q Consensus        33 Ekqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El~~~   95 (535)
                      ....+++.+++..++..+.....-...++.......+.++.+..+++..+.+++.++.+...+
T Consensus       258 ~~~~eslre~~~~L~~D~nK~~~y~~~~~~k~~~~~~~l~~l~~Eie~kEeE~e~lq~~~d~L  320 (581)
T KOG0995|consen  258 PGKEESLREKKARLQDDVNKFQAYVSQMKSKKQHMEKKLEMLKSEIEEKEEEIEKLQKENDEL  320 (581)
T ss_pred             cchHHHHHHHHHHHHhHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444555555565555555555555544444444444444444444444444444443333

>COG4942 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]

Probab=96.47  E-value=1.8  Score=47.17  Aligned_cols=73  Identities=18%  Similarity=0.256  Sum_probs=52.8

Q ss_pred             hhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Q 048095           13 LKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEI   85 (535)
Q Consensus        13 ~KL~~te~dLerved~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eI   85 (535)
                      .+|+++..+|.+++..|.+...+...|...+.++.+++..++.++.+....+...+..|......++.++.+-
T Consensus        38 ~~l~q~q~ei~~~~~~i~~~~~~~~kL~~~lk~~e~~i~~~~~ql~~s~~~l~~~~~~I~~~~~~l~~l~~q~  110 (420)
T COG4942          38 KQLKQIQKEIAALEKKIREQQDQRAKLEKQLKSLETEIASLEAQLIETADDLKKLRKQIADLNARLNALEVQE  110 (420)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHH
Confidence            5677788888888777777777777777777777777777777777666666666666666666666666554

>PF00038 Filament: Intermediate filament protein; InterPro: IPR016044 Intermediate filaments (IF) [, , ] are proteins which are primordial components of the cytoskeleton and the nuclear envelope

Probab=96.45  E-value=1.4  Score=45.62  Aligned_cols=46  Identities=15%  Similarity=0.170  Sum_probs=17.1

Q ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           58 GLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGLLQ  103 (535)
Q Consensus        58 eeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El~~~eeEL~~lq  103 (535)
                      ..++.+..........++.++..+...+++.......++.++..++
T Consensus        85 ~~~r~k~e~e~~~~~~le~el~~lrk~ld~~~~~r~~le~~i~~L~  130 (312)
T PF00038_consen   85 EDLRRKYEEELAERKDLEEELESLRKDLDEETLARVDLENQIQSLK  130 (312)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhHhHHHHHHHHHH
Confidence            3333333333333333333333333333333333333333333333

They generally form filamentous structures 8 to 14 nm wide. IF proteins are members of a very large multigene family of proteins which has been subdivided in five major subgroups: Type I: Acidic cytokeratins. Type II: Basic cytokeratins. Type III: Vimentin, desmin, glial fibrillary acidic protein (GFAP), peripherin, and plasticin. Type IV: Neurofilaments L, H and M, alpha-internexin and nestin. Type V: Nuclear lamins A, B1, B2 and C. All IF proteins are structurally similar in that they consist of: a central rod domain comprising some 300 to 350 residues which is arranged in coiled-coiled alpha-helices, with at least two short characteristic interruptions; a N-terminal non-helical domain (head) of variable length; and a C-terminal domain (tail) which is also non-helical, and which shows extreme length variation between different IF proteins. While IF proteins are evolutionary and structurally related, they have limited sequence homologies except in several regions of the rod domain. This entry represents the central rod domain found in IF proteins.; PDB: 3TNU_B 3KLT_D 1GK4_F 3TRT_A 3G1E_A 3UF1_C 1GK6_B 1GK7_A 3TYY_B 3V4W_A ....

>PF10473 CENP-F_leu_zip: Leucine-rich repeats of kinetochore protein Cenp-F/LEK1; InterPro: IPR019513 Cenp-F, a centromeric kinetochore, microtubule-binding protein consisting of two 1,600-amino acid-long coils, is essential for the full functioning of the mitotic checkpoint pathway [, ]

Probab=96.43  E-value=0.56  Score=43.85  Aligned_cols=109  Identities=22%  Similarity=0.207  Sum_probs=85.8

Q ss_pred             hhhhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           11 FNLKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNS   90 (535)
Q Consensus        11 ~~~KL~~te~dLerved~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~   90 (535)
                      ...+|..++..-+.++|.|..++..+...+........+..+..+.+..++.++..+...+..+..++..+..+...+..
T Consensus         8 v~~kLK~~~~e~dsle~~v~~LEreLe~~q~~~e~~~~daEn~k~eie~L~~el~~lt~el~~L~~EL~~l~sEk~~L~k   87 (140)
T PF10473_consen    8 VEEKLKESESEKDSLEDHVESLERELEMSQENKECLILDAENSKAEIETLEEELEELTSELNQLELELDTLRSEKENLDK   87 (140)
T ss_pred             HHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34578888888888888888888888888888888888888888888888888888888888888888888877777777


Q ss_pred             HHHHHHHHHHHHHHHHhhhhhhHHHHHHh
Q 048095           91 ELQSKEIELGLLQKRVGECNCELECKQQQ  119 (535)
Q Consensus        91 El~~~eeEL~~lqk~l~E~~~el~~k~~~  119 (535)
                      .+..+..+++.+.....++.+-|..++.+
T Consensus        88 ~lq~~q~kv~eLE~~~~~~~~~l~~~E~e  116 (140)
T PF10473_consen   88 ELQKKQEKVSELESLNSSLENLLQEKEQE  116 (140)
T ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            77777777777777777777777666644

There are several leucine-rich repeats along the sequence of LEK1 that are considered to be zippers, though they do not appear to be binding DNA directly in this instance []. ; GO: 0008134 transcription factor binding, 0042803 protein homodimerization activity, 0045502 dynein binding

>PF05667 DUF812: Protein of unknown function (DUF812); InterPro: IPR008530 This family consists of several eukaryotic proteins of unknown function

Probab=96.40  E-value=1.3  Score=50.44  Aligned_cols=160  Identities=21%  Similarity=0.226  Sum_probs=73.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHhh
Q 048095           41 KEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNCELECKQQQL  120 (535)
Q Consensus        41 ek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El~~~eeEL~~lqk~l~E~~~el~~k~~~~  120 (535)
                      ....+...++..+..+++.+...|.++..++..+...+..+..++.+.+.+....+.++.-..+.+     +|     ..
T Consensus       321 ~~~~~~~~el~~l~~~l~~l~~~i~~~~~~~~~l~~~~~q~~~e~~~~~~~~~~le~~~~l~~k~~-----~l-----L~  390 (594)
T PF05667_consen  321 DEQEEQEQELEELQEQLDELESQIEELEAEIKMLKSSLKQLEEELEEKEAENEELEEELKLKKKTV-----EL-----LP  390 (594)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HH-----hc
Confidence            344555555566666666666666666666666555555555555555555555554444322211     00     00


Q ss_pred             hhhhhHHHHHhhhhhhhHHHHHHhhhhhHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhhHHHhHHHhhhhhHHHH
Q 048095          121 GLAQSEEDLLKNSLKNSIEHWSQKLNLTKEELSLLQKSIRECKGELDSKERQLAVVQKRIGECNNELQLKENELNLVKTV  200 (535)
Q Consensus       121 ~~~~~~~~l~~~~~k~~v~~~~~~~~~~~~eL~~~~k~i~e~~~EL~~Kek~le~~~k~~~~~~~~l~~k~k~l~~~~~~  200 (535)
                      +...+..+     ++..|+.-.+.+.....+.+.++.-+.+-          +..+.........+...+-.++..++..
T Consensus       391 d~e~ni~k-----L~~~v~~s~~rl~~L~~qWe~~R~pL~~e----------~r~lk~~~~~~~~e~~~~~~~ik~~r~~  455 (594)
T PF05667_consen  391 DAEENIAK-----LQALVEASEQRLVELAQQWEKHRAPLIEE----------YRRLKEKASNRESESKQKLQEIKELREE  455 (594)
T ss_pred             CcHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHhHHHHH----------HHHHHHHHhhcchHHHHHHHHHHHHHHH
Confidence            11111122     22222222223332223333333322222          2222222223333444444555556666


Q ss_pred             HHHHHHHhhhHHHHHHHHHhhhccc
Q 048095          201 VEHCLQKLNLKKEELSLLQKSNGEW  225 (535)
Q Consensus       201 ~~~~~kele~k~~~~~~~~~~~~~~  225 (535)
                      ++....++..|+...++|...+..+
T Consensus       456 ~k~~~~e~~~Kee~~~qL~~e~e~~  480 (594)
T PF05667_consen  456 IKEIEEEIRQKEELYKQLVKELEKL  480 (594)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            7777777777776666666544433

>KOG0612 consensus Rho-associated, coiled-coil containing protein kinase [Signal transduction mechanisms]

Probab=96.38  E-value=3.7  Score=49.77  Aligned_cols=20  Identities=15%  Similarity=0.240  Sum_probs=8.2

Q ss_pred             HHHHHHHHHHHHHhhhhHHH
Q 048095          151 ELSLLQKSIRECKGELDSKE  170 (535)
Q Consensus       151 eL~~~~k~i~e~~~EL~~Ke  170 (535)
                      ...-+++...+++..+.+-+
T Consensus       561 ~~~kl~~~~~e~~~~iq~~~  580 (1317)
T KOG0612|consen  561 DAGKLRKHSKELSKQIQQEL  580 (1317)
T ss_pred             HHhhHhhhhhhhhHHHHHHh
Confidence            33334444444444444333

>COG5185 HEC1 Protein involved in chromosome segregation, interacts with SMC proteins [Cell division and chromosome partitioning]

Probab=96.37  E-value=2.1  Score=46.98  Aligned_cols=147  Identities=14%  Similarity=0.173  Sum_probs=71.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHH
Q 048095           35 ELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNCELE  114 (535)
Q Consensus        35 qle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El~~~eeEL~~lqk~l~E~~~el~  114 (535)
                      .++++.++|+.++.....++.-...++....+--+.++.++.+|+..+.+|+.++..+..+..++....           
T Consensus       296 ~i~~l~ek~r~l~~D~nk~~~~~~~mk~K~~~~~g~l~kl~~eie~kEeei~~L~~~~d~L~~q~~kq~-----------  364 (622)
T COG5185         296 KIKTLREKWRALKSDSNKYENYVNAMKQKSQEWPGKLEKLKSEIELKEEEIKALQSNIDELHKQLRKQG-----------  364 (622)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHhcC-----------
Confidence            334445555555555555555555555555555555555555555555444444444433333333211           


Q ss_pred             HHHHhhhhhhhHHHHHhhhhhhhHHHHHHhhhhhHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhhHHHhHHHhhh
Q 048095          115 CKQQQLGLAQSEEDLLKNSLKNSIEHWSQKLNLTKEELSLLQKSIRECKGELDSKERQLAVVQKRIGECNNELQLKENEL  194 (535)
Q Consensus       115 ~k~~~~~~~~~~~~l~~~~~k~~v~~~~~~~~~~~~eL~~~~k~i~e~~~EL~~Kek~le~~~k~~~~~~~~l~~k~k~l  194 (535)
                               +|-+.         ++....+.....++|+-+.=.+++..++.++.+.+....-+.++...-++.|---++
T Consensus       365 ---------Is~e~---------fe~mn~Ere~L~reL~~i~~~~~~L~k~V~~~~leaq~~~~slek~~~~~~sl~~~i  426 (622)
T COG5185         365 ---------ISTEQ---------FELMNQEREKLTRELDKINIQSDKLTKSVKSRKLEAQGIFKSLEKTLRQYDSLIQNI  426 (622)
T ss_pred             ---------CCHHH---------HHHHHHHHHHHHHHHHHhcchHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence                     11111         001112222233555555556666666666666666666666666666666666665


Q ss_pred             hhHHHHHHHHHHHhhh
Q 048095          195 NLVKTVVEHCLQKLNL  210 (535)
Q Consensus       195 ~~~~~~~~~~~kele~  210 (535)
                      .....+|.+-.+++..
T Consensus       427 ~~~~~~i~~~~nd~~l  442 (622)
T COG5185         427 TRSRSQIGHNVNDSSL  442 (622)
T ss_pred             cccHHHHhhcCCCCce
Confidence            5555555555554443

>KOG0018 consensus Structural maintenance of chromosome protein 1 (sister chromatid cohesion complex Cohesin, subunit SMC1) [Cell cycle control, cell division, chromosome partitioning]

Probab=96.34  E-value=2.2  Score=50.89  Aligned_cols=41  Identities=24%  Similarity=0.401  Sum_probs=30.1

Q ss_pred             CChHHHHHHHHHHHHhcCCCCCChHHHHHHHHHhhhhhhhH
Q 048095          436 ENSLEVLGFLHLLAAYRLAPAFDGNELESLLDIVAHYRQTA  476 (535)
Q Consensus       436 ~~~lea~gFL~lla~fgi~s~Fd~del~~Lv~~va~~~~~~  476 (535)
                      +..++|+|+|--+-+|.=+|-|=-||+-.-+....--+.|.
T Consensus      1056 EKTvAaLALLFaihsy~PaPFfvlDEiDAALDntNi~kvas 1096 (1141)
T KOG0018|consen 1056 EKTVAALALLFAIHSYKPAPFFVLDEIDAALDNTNIGKVAS 1096 (1141)
T ss_pred             HHHHHHHHHHHHhccCCCCCceehhhHHHHhhhccHHHHHH
Confidence            34789999999999999999998888765555444444443

>PF12718 Tropomyosin_1: Tropomyosin like; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells

Probab=96.28  E-value=0.66  Score=43.38  Aligned_cols=51  Identities=14%  Similarity=0.179  Sum_probs=19.4

Q ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Q 048095           21 QLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGEL   71 (535)
Q Consensus        21 dLerved~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eI   71 (535)
                      +.+...+...+++.++..+..+....-.+|..|...+..+..+++.+...+
T Consensus         8 E~d~a~~r~e~~e~~~K~le~~~~~~E~EI~sL~~K~~~lE~eld~~~~~l   58 (143)
T PF12718_consen    8 EADNAQDRAEELEAKVKQLEQENEQKEQEITSLQKKNQQLEEELDKLEEQL   58 (143)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333444444444444433333333333333333333333333333333

In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].

>KOG1029 consensus Endocytic adaptor protein intersectin [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=96.21  E-value=2  Score=49.71  Aligned_cols=84  Identities=23%  Similarity=0.193  Sum_probs=46.3

Q ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 048095           30 GESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGLLQKRVGEC  109 (535)
Q Consensus        30 ~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El~~~eeEL~~lqk~l~E~  109 (535)
                      .|+..|...-++.+--++.....++.+++.|+.++.++.+.+...+-.+......|+.....+...-.+++.++.++.|+
T Consensus       419 qem~~Qk~reqe~iv~~nak~~ql~~eletLn~k~qqls~kl~Dvr~~~tt~kt~ie~~~~q~e~~isei~qlqarikE~  498 (1118)
T KOG1029|consen  419 QEMLNQKNREQEWIVYLNAKKKQLQQELETLNFKLQQLSGKLQDVRVDITTQKTEIEEVTKQRELMISEIDQLQARIKEL  498 (1118)
T ss_pred             HHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhheeccchHHHHHHHhhhHHHHHHHHHHHHHHHHHHH
Confidence            33333333335555556666666777777777777766666666555555555555555444444444455555544444


Q ss_pred             hhhH
Q 048095          110 NCEL  113 (535)
Q Consensus       110 ~~el  113 (535)
                      ...|
T Consensus       499 q~kl  502 (1118)
T KOG1029|consen  499 QEKL  502 (1118)
T ss_pred             HHHH
Confidence            4443

>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association []

Probab=96.15  E-value=0.56  Score=49.38  Aligned_cols=111  Identities=19%  Similarity=0.229  Sum_probs=70.7

Q ss_pred             hhhhhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHhHHHHHHHHHHHHHHHHHH
Q 048095           10 GFNLKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLV----QKRIRGCNGELQSKQGELALVEKEI   85 (535)
Q Consensus        10 ~~~~KL~~te~dLerved~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeL----K~eIeE~e~eIe~~qkeIe~le~eI   85 (535)
                      +....+...+.|...+...+..+...+..+..++..+..++..+.....++    ..++...+.++.....+|+.....+
T Consensus       153 ~L~~~~~~L~~D~~~L~~~~~~l~~~~~~l~~~~~~L~~e~~~Lk~~~~e~~~~D~~eL~~lr~eL~~~~~~i~~~k~~l  232 (325)
T PF08317_consen  153 GLEENLELLQEDYAKLDKQLEQLDELLPKLRERKAELEEELENLKQLVEEIESCDQEELEALRQELAEQKEEIEAKKKEL  232 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344555556666666666666666666666777777777777766665444    5566666666666666666666666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHhh
Q 048095           86 EESNSELQSKEIELGLLQKRVGECNCELECKQQQL  120 (535)
Q Consensus        86 ee~e~El~~~eeEL~~lqk~l~E~~~el~~k~~~~  120 (535)
                      .+.+.++..+...+..+.....++..++...++..
T Consensus       233 ~el~~el~~l~~~i~~~~~~k~~l~~eI~e~~~~~  267 (325)
T PF08317_consen  233 AELQEELEELEEKIEELEEQKQELLAEIAEAEKIR  267 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            66666666666666666666666666665555333

>PF06160 EzrA: Septation ring formation regulator, EzrA ; InterPro: IPR010379 During the bacterial cell cycle, the tubulin-like cell-division protein FtsZ polymerises into a ring structure that establishes the location of the nascent division site

Probab=96.15  E-value=3.3  Score=46.93  Aligned_cols=54  Identities=20%  Similarity=0.161  Sum_probs=25.0

Q ss_pred             hhhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           12 NLKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIR   65 (535)
Q Consensus        12 ~~KL~~te~dLerved~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIe   65 (535)
                      ...+..++..|+.++..+..+...++.|...=.+-+.++..+...++.+++.+.
T Consensus       100 ~~~i~~~~~~l~~~e~~i~~i~~~l~~L~~~e~~nr~~i~~l~~~y~~lrk~ll  153 (560)
T PF06160_consen  100 KQAIKEIEEQLDEIEEDIKEILDELDELLESEEKNREEIEELKEKYRELRKELL  153 (560)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344455555555555555555555555543333344444444444444433333

EzrA modulates the frequency and position of FtsZ ring formation [].; GO: 0000921 septin ring assembly, 0005940 septin ring, 0016021 integral to membrane

>PRK04778 septation ring formation regulator EzrA; Provisional

Probab=96.07  E-value=3.6  Score=46.67  Aligned_cols=51  Identities=18%  Similarity=0.130  Sum_probs=31.1

Q ss_pred             chhhhhhhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095            7 EIRGFNLKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKEL   57 (535)
Q Consensus         7 ~~~~~~~KL~~te~dLerved~i~ElEkqle~Laek~~Elk~EL~~LE~eL   57 (535)
                      .|......|+.++.++..+.+.+.++...-..-...+.+++..|..+.+.+
T Consensus       106 ~~~~~~~~l~~~e~~~~~i~~~l~~l~~~e~~nr~~v~~l~~~y~~~rk~l  156 (569)
T PRK04778        106 EINEIESLLDLIEEDIEQILEELQELLESEEKNREEVEQLKDLYRELRKSL  156 (569)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344555566666666666666666666666666666666666666666555

>COG1340 Uncharacterized archaeal coiled-coil protein [Function unknown]

Probab=96.06  E-value=2.3  Score=44.33  Aligned_cols=92  Identities=13%  Similarity=0.150  Sum_probs=61.3

Q ss_pred             hhhhhhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 048095            9 RGFNLKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEES   88 (535)
Q Consensus         9 ~~~~~KL~~te~dLerved~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~   88 (535)
                      ..+-.|.+.+...+.++.....++..+...++.+.+++..++..+-.....++.+-.++..++..+...-..+-+.++.+
T Consensus         9 ~E~e~K~~~lk~~~~e~~ekR~El~~~~~~~~ekRdeln~kvrE~~e~~~elr~~rdeineev~elK~kR~ein~kl~eL   88 (294)
T COG1340           9 DELELKRKQLKEEIEELKEKRDELRKEASELAEKRDELNAKVRELREKAQELREERDEINEEVQELKEKRDEINAKLQEL   88 (294)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34556677777888888888888888888887777777777777777776666666666666666655555555555554


Q ss_pred             HHHHHHHHHHHH
Q 048095           89 NSELQSKEIELG  100 (535)
Q Consensus        89 e~El~~~eeEL~  100 (535)
                      -..........+
T Consensus        89 ~~~~~~l~e~~~  100 (294)
T COG1340          89 RKEYRELKEKRN  100 (294)
T ss_pred             HHHHHHHHHHhh
Confidence            444444444433

>KOG0018 consensus Structural maintenance of chromosome protein 1 (sister chromatid cohesion complex Cohesin, subunit SMC1) [Cell cycle control, cell division, chromosome partitioning]

Probab=95.98  E-value=5.3  Score=47.89  Aligned_cols=83  Identities=17%  Similarity=0.264  Sum_probs=51.2

Q ss_pred             HHHHHHHHHHHHHHHHHH-----HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHH
Q 048095           40 QKEIEECNSELWCKEKEL-----GLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNCELE  114 (535)
Q Consensus        40 aek~~Elk~EL~~LE~eL-----eeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El~~~eeEL~~lqk~l~E~~~el~  114 (535)
                      +++|..++.+...+...+     -.++..|.....++++.+.++..++...+....++.....+...+.+++...-.++.
T Consensus       200 aeky~~lkde~~~~q~e~~L~qLfhvE~~i~k~~~els~~~~ei~~~~~~~d~~e~ei~~~k~e~~ki~re~~~~Dk~i~  279 (1141)
T KOG0018|consen  200 AEKYQRLKDEKGKAQKEQFLWELFHVEACIEKANDELSRLNAEIPKLKERMDKKEREIRVRKKERGKIRRELQKVDKKIS  279 (1141)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhhhHhhhhHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            555666666666555554     222666666666666666666666666666666666666666666666666666666


Q ss_pred             HHHHhhhh
Q 048095          115 CKQQQLGL  122 (535)
Q Consensus       115 ~k~~~~~~  122 (535)
                      -++..+..
T Consensus       280 ~ke~~l~e  287 (1141)
T KOG0018|consen  280 EKEEKLAE  287 (1141)
T ss_pred             HHHHHHhh
Confidence            66655543

>KOG0964 consensus Structural maintenance of chromosome protein 3 (sister chromatid cohesion complex Cohesin, subunit SMC3) [Cell cycle control, cell division, chromosome partitioning]

Probab=95.88  E-value=4.3  Score=48.23  Aligned_cols=173  Identities=21%  Similarity=0.227  Sum_probs=78.6

Q ss_pred             hhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Q 048095           13 LKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSEL-------WCKEKELGLVQKRIRGCNGELQSKQGELALVEKEI   85 (535)
Q Consensus        13 ~KL~~te~dLerved~i~ElEkqle~Laek~~Elk~EL-------~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eI   85 (535)
                      -.|+.+..+..++...+.+++..+..|....+.+..+.       ..|+-++..+..+|.--...-...-..+..+...|
T Consensus       258 ~~~~~~~d~~~~~~~~i~ele~~l~~l~~ekeq~~a~~t~~~k~kt~lel~~kdlq~~i~~n~q~r~~~l~~l~~~~~ki  337 (1200)
T KOG0964|consen  258 DALDKVEDESEDLKCEIKELENKLTNLREEKEQLKARETKISKKKTKLELKIKDLQDQITGNEQQRNLALHVLQKVKDKI  337 (1200)
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHhhhhhhhhhhHHHHHHHHHHHH
Confidence            34555666666666677777777776655444444443       33333334444444443333334444444444555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhh---hhHHHHHHhhhhhhhHHHHHhhhhhhhHHHHH---HhhhhhHHHHHHHHHHH
Q 048095           86 EESNSELQSKEIELGLLQKRVGECN---CELECKQQQLGLAQSEEDLLKNSLKNSIEHWS---QKLNLTKEELSLLQKSI  159 (535)
Q Consensus        86 ee~e~El~~~eeEL~~lqk~l~E~~---~el~~k~~~~~~~~~~~~l~~~~~k~~v~~~~---~~~~~~~~eL~~~~k~i  159 (535)
                      .+.+.++....-....+.+.=.-+.   +.|+.+...+         .  .-+|.-..|+   +.=.|--.++..+.-.|
T Consensus       338 ~e~~~EL~~I~Pky~~l~~ee~~~~~rl~~l~~~~~~l---------~--~Kqgr~sqFssk~eRDkwir~ei~~l~~~i  406 (1200)
T KOG0964|consen  338 EEKKDELSKIEPKYNSLVDEEKRLKKRLAKLEQKQRDL---------L--AKQGRYSQFSSKEERDKWIRSEIEKLKRGI  406 (1200)
T ss_pred             HHHHHHHHHhhhHHHHHHhHHHHHHHHHHHHHHHHHHH---------H--HhhccccccCcHHHHHHHHHHHHHHHHHHH
Confidence            5555444444443333333211111   2222222111         0  0111111221   11223335555555555


Q ss_pred             HHHHhhhhHHHHHHHHHHHHHHHhhHHHhHHHhhhhh
Q 048095          160 RECKGELDSKERQLAVVQKRIGECNNELQLKENELNL  196 (535)
Q Consensus       160 ~e~~~EL~~Kek~le~~~k~~~~~~~~l~~k~k~l~~  196 (535)
                      .+-...-....++++.++..++...++.+.-+-.++.
T Consensus       407 ~~~ke~e~~lq~e~~~~e~~l~~~~e~i~~l~~si~e  443 (1200)
T KOG0964|consen  407 NDTKEQENILQKEIEDLESELKEKLEEIKELESSINE  443 (1200)
T ss_pred             hhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHhh
Confidence            5555555555556666665555555555544444443

>PF09726 Macoilin: Transmembrane protein; InterPro: IPR019130 This entry represents the multi-pass transmembrane protein Macoilin, which is highly conserved in eukaryotes

Probab=95.79  E-value=3.3  Score=48.15  Aligned_cols=77  Identities=17%  Similarity=0.166  Sum_probs=30.1

Q ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           24 FLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELG  100 (535)
Q Consensus        24 rved~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El~~~eeEL~  100 (535)
                      |++.++..+...+......=.+++.++..+...=..++.++..++.+.+.++..+..+....+.-+..+..++.+|.
T Consensus       422 rLE~dvkkLraeLq~~Rq~E~ELRsqis~l~~~Er~lk~eL~qlr~ene~Lq~Kl~~L~~aRq~DKq~l~~LEkrL~  498 (697)
T PF09726_consen  422 RLEADVKKLRAELQSSRQSEQELRSQISSLTNNERSLKSELSQLRQENEQLQNKLQNLVQARQQDKQSLQQLEKRLA  498 (697)
T ss_pred             HHHHHHHHHHHHHHhhhhhHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33434444444333333333333333333333223334444444444444444444444333333333333333333

; GO: 0016021 integral to membrane

>PF12128 DUF3584: Protein of unknown function (DUF3584); InterPro: IPR021979 This family consist of uncharacterised bacterial proteins

Probab=95.73  E-value=7.8  Score=47.88  Aligned_cols=32  Identities=13%  Similarity=0.259  Sum_probs=15.1

Q ss_pred             HHHHHHHhhhhh-cCCCCChhHHHHHHHHHHHH
Q 048095          396 RTCILLLEQLSN-IAPDINPQVRDEAMKMAGEW  427 (535)
Q Consensus       396 ~~CilLLE~L~~-~~p~i~~~vkeeA~~lA~~W  427 (535)
                      +.|+-.|+.++. +.|..-..+++.+.-+|..-
T Consensus       962 ~~~~~~l~~~~~~~~~~~~~~l~e~~~~~~~~i  994 (1201)
T PF12128_consen  962 RQWAPDLQELLDVLIPQQQQALIEQGRNIGNDI  994 (1201)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHH
Confidence            334444555543 23443444555555555543

>KOG0994 consensus Extracellular matrix glycoprotein Laminin subunit beta [Extracellular structures]

Probab=95.60  E-value=4  Score=49.21  Aligned_cols=125  Identities=12%  Similarity=0.132  Sum_probs=56.8

Q ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHhhhh-hhhHHHHHhhhhhhhHH
Q 048095           61 QKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNCELECKQQQLGL-AQSEEDLLKNSLKNSIE  139 (535)
Q Consensus        61 K~eIeE~e~eIe~~qkeIe~le~eIee~e~El~~~eeEL~~lqk~l~E~~~el~~k~~~~~~-~~~~~~l~~~~~k~~v~  139 (535)
                      +...+.+...++..+.....++.-|+.+...+....+-|...+..+.....-+.+.-..++. .-.++.|+.+..+.   
T Consensus      1562 ~~~ae~V~eaL~~Ad~Aq~~a~~ai~~a~~~~~~a~~~l~kv~~~t~~aE~~~~~a~q~~~eL~~~~e~lk~~~~qn--- 1638 (1758)
T KOG0994|consen 1562 KGQAEDVVEALEEADVAQGEAQDAIQGADRDIRLAQQLLAKVQEETAAAEKLATSATQQLGELETRMEELKHKAAQN--- 1638 (1758)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc---
Confidence            44444444444444444444444444444444444444444443333333333222222211 11333333333332   


Q ss_pred             HHHHhhhhhHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhhHHHhHH
Q 048095          140 HWSQKLNLTKEELSLLQKSIRECKGELDSKERQLAVVQKRIGECNNELQLK  190 (535)
Q Consensus       140 ~~~~~~~~~~~eL~~~~k~i~e~~~EL~~Kek~le~~~k~~~~~~~~l~~k  190 (535)
                        +.+-.--++.-.+++.+-.+....++-..+.++.+..+++.+++.-+..
T Consensus      1639 --s~~A~~a~~~a~sa~~~A~~a~q~~~~lq~~~~~~~~l~~~r~~g~~~a 1687 (1758)
T KOG0994|consen 1639 --SAEAKQAEKTAGSAKEQALSAEQGLEILQKYYELVDRLLEKRMEGSQAA 1687 (1758)
T ss_pred             --cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcchhH
Confidence              2222333455566666666666666666677777766666665544433

>PF05701 WEMBL: Weak chloroplast movement under blue light; InterPro: IPR008545 This family consists of several plant proteins of unknown function

Probab=95.31  E-value=6.5  Score=44.22  Aligned_cols=22  Identities=18%  Similarity=0.235  Sum_probs=9.6

Q ss_pred             HHHHHHHHHHHHHhHHHHHHHH
Q 048095           18 KERQLRFLEKRIGESKGELALV   39 (535)
Q Consensus        18 te~dLerved~i~ElEkqle~L   39 (535)
                      +=.+|..+.+.+..++.++...
T Consensus       128 ~~~eL~~~k~EL~~lr~e~~~~  149 (522)
T PF05701_consen  128 AVAELDSVKQELEKLRQELASA  149 (522)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444444444444444444

Several sequences in this family are described as being myosin heavy chain-like.

>KOG0980 consensus Actin-binding protein SLA2/Huntingtin-interacting protein Hip1 [Cytoskeleton]

Probab=95.02  E-value=7.1  Score=45.98  Aligned_cols=101  Identities=17%  Similarity=0.207  Sum_probs=57.1

Q ss_pred             hhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           13 LKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSEL   92 (535)
Q Consensus        13 ~KL~~te~dLerved~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El   92 (535)
                      ..|..+..+++...-.+.|.+++.-...++|...+..|..+...-.++.++...+..+++..       +..|.+.+.+.
T Consensus       396 aql~a~r~q~eka~~~~ee~e~~~l~~e~ry~klkek~t~l~~~h~~lL~K~~di~kQle~~-------~~s~~~~~~~~  468 (980)
T KOG0980|consen  396 AQLLASRTQLEKAQVLVEEAENKALAAENRYEKLKEKYTELRQEHADLLRKYDDIQKQLESA-------EQSIDDVEEEN  468 (980)
T ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHhHHHHHHHH
Confidence            34555555555555556666666666666666666666666555555555555554444444       44444555555


Q ss_pred             HHHHHHHHHHHHHHhhhhhhHHHHHHhh
Q 048095           93 QSKEIELGLLQKRVGECNCELECKQQQL  120 (535)
Q Consensus        93 ~~~eeEL~~lqk~l~E~~~el~~k~~~~  120 (535)
                      ..+...+..+++....+....++..+.+
T Consensus       469 ~~L~d~le~~~~~~~~~~~K~e~~~~~l  496 (980)
T KOG0980|consen  469 TNLNDQLEELQRAAGRAETKTESQAKAL  496 (980)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhHHHHHHH
Confidence            5555555566665555555555555433

>PF13870 DUF4201: Domain of unknown function (DUF4201)

Probab=94.63  E-value=4.4  Score=38.81  Aligned_cols=114  Identities=18%  Similarity=0.147  Sum_probs=65.7

Q ss_pred             CCccccchhhhhhhHHHHHHHHHHHHHHHHhHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 048095            1 MKTRTNEIRGFNLKLQCKERQLRFLEKRIGESKGELALV-QKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELA   79 (535)
Q Consensus         1 ~~~~~~~~~~~~~KL~~te~dLerved~i~ElEkqle~L-aek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe   79 (535)
                      |....|.|....+++......+.++...+...+.--+.| ...|..++-+-..+...|++-..++..++..+...-..+.
T Consensus         1 m~~k~~~i~~~Rl~~~~lk~~l~k~~~ql~~ke~lge~L~~iDFeqLkien~~l~~kIeERn~eL~~Lk~~~~~~v~~L~   80 (177)
T PF13870_consen    1 MRQKRNEISKLRLKNITLKHQLAKLEEQLRQKEELGEGLHLIDFEQLKIENQQLNEKIEERNKELLKLKKKIGKTVQILT   80 (177)
T ss_pred             CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            566778899999999999999999888888777655555 3455555555555555544444444444444444444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHH
Q 048095           80 LVEKEIEESNSELQSKEIELGLLQKRVGECNCELE  114 (535)
Q Consensus        80 ~le~eIee~e~El~~~eeEL~~lqk~l~E~~~el~  114 (535)
                      -....+.....+......+|......+..+..++.
T Consensus        81 h~keKl~~~~~~~~~l~~~l~~~~~~~~~~r~~l~  115 (177)
T PF13870_consen   81 HVKEKLHFLSEELERLKQELKDREEELAKLREELY  115 (177)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444444444444444444444444444444443

>PF15619 Lebercilin: Ciliary protein causing Leber congenital amaurosis disease

Probab=94.39  E-value=5.7  Score=39.10  Aligned_cols=44  Identities=23%  Similarity=0.333  Sum_probs=20.4

Q ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           61 QKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGLLQK  104 (535)
Q Consensus        61 K~eIeE~e~eIe~~qkeIe~le~eIee~e~El~~~eeEL~~lqk  104 (535)
                      ..+|-.+...+...+.....++..+.+...++......+..+++
T Consensus        67 ~eEvr~Lr~~LR~~q~~~r~~~~klk~~~~el~k~~~~l~~L~~  110 (194)
T PF15619_consen   67 NEEVRVLRERLRKSQEQERELERKLKDKDEELLKTKDELKHLKK  110 (194)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444444444444444444444444444444444444444433

>PRK04863 mukB cell division protein MukB; Provisional

Probab=94.28  E-value=21  Score=45.20  Aligned_cols=167  Identities=19%  Similarity=0.235  Sum_probs=87.5

Q ss_pred             hhhhhhhHHHHHHHHHHHHHHHHhHHHHHHHH-------------HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 048095            8 IRGFNLKLQCKERQLRFLEKRIGESKGELALV-------------QKEIEECNSELWCKEKELGLVQKRIRGCNGELQSK   74 (535)
Q Consensus         8 ~~~~~~KL~~te~dLerved~i~ElEkqle~L-------------aek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~   74 (535)
                      ++....+|......+..++..+..++++.+..             ..++..+...+..+...++.....+.+....+...
T Consensus       302 Le~tE~nL~rI~diL~ELe~rL~kLEkQaEkA~kyleL~ee~lr~q~ei~~l~~~LeELee~Lee~eeeLeeleeeleel  381 (1486)
T PRK04863        302 LAAEQYRLVEMARELAELNEAESDLEQDYQAASDHLNLVQTALRQQEKIERYQADLEELEERLEEQNEVVEEADEQQEEN  381 (1486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44555666666666666666666666655544             23344444455555555555555555555555555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhH---HHHHHhhhh-hhhHHHHHhhhhhhhHHHHHHhhhhhHH
Q 048095           75 QGELALVEKEIEESNSELQSKEIELGLLQKRVGECNCEL---ECKQQQLGL-AQSEEDLLKNSLKNSIEHWSQKLNLTKE  150 (535)
Q Consensus        75 qkeIe~le~eIee~e~El~~~eeEL~~lqk~l~E~~~el---~~k~~~~~~-~~~~~~l~~~~~k~~v~~~~~~~~~~~~  150 (535)
                      +.++..++.++..++.++......++..+..+..+...+   +..+...|. -++...|     +.-+..|......++.
T Consensus       382 eeEleelEeeLeeLqeqLaelqqel~elQ~el~q~qq~i~~Le~~~~~~~~~~~SdEeL-----e~~LenF~aklee~e~  456 (1486)
T PRK04863        382 EARAEAAEEEVDELKSQLADYQQALDVQQTRAIQYQQAVQALERAKQLCGLPDLTADNA-----EDWLEEFQAKEQEATE  456 (1486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCHHHH-----HHHHHHHHHHHHHHHH
Confidence            555555555555555555555555555555554444433   333333331 1344443     3334455555555555


Q ss_pred             HHHHHHHHHHHHHhhhhHHHHHHHHHHHH
Q 048095          151 ELSLLQKSIRECKGELDSKERQLAVVQKR  179 (535)
Q Consensus       151 eL~~~~k~i~e~~~EL~~Kek~le~~~k~  179 (535)
                      ++..+..........++.-.+.+.++...
T Consensus       457 qL~elE~kL~~lea~leql~~~~~~l~~~  485 (1486)
T PRK04863        457 ELLSLEQKLSVAQAAHSQFEQAYQLVRKI  485 (1486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55555555555555555555544444433

>PRK09039 hypothetical protein; Validated

Probab=94.23  E-value=8.7  Score=40.94  Aligned_cols=56  Identities=20%  Similarity=0.159  Sum_probs=26.9

Q ss_pred             chhhhhhhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095            7 EIRGFNLKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQK   62 (535)
Q Consensus         7 ~~~~~~~KL~~te~dLerved~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~   62 (535)
                      +|.|+..+|++.+..+..+-+.+.==......++..+.++..+|..++..-..+..
T Consensus        47 ~i~~~~~eL~~L~~qIa~L~e~L~le~~~~~~l~~~l~~l~~~l~~a~~~r~~Le~  102 (343)
T PRK09039         47 EISGKDSALDRLNSQIAELADLLSLERQGNQDLQDSVANLRASLSAAEAERSRLQA  102 (343)
T ss_pred             HHhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34555555555555555544444444444444444444444444444444444433

>KOG0946 consensus ER-Golgi vesicle-tethering protein p115 [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.19  E-value=15  Score=43.14  Aligned_cols=37  Identities=22%  Similarity=0.324  Sum_probs=16.8

Q ss_pred             HHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhhHHHh
Q 048095          152 LSLLQKSIRECKGELDSKERQLAVVQKRIGECNNELQ  188 (535)
Q Consensus       152 L~~~~k~i~e~~~EL~~Kek~le~~~k~~~~~~~~l~  188 (535)
                      |....++..+...++..-+.+...+.-.+..-++.++
T Consensus       801 l~e~~~~l~~~q~e~~~~keq~~t~~~~tsa~a~~le  837 (970)
T KOG0946|consen  801 LSEESTRLQELQSELTQLKEQIQTLLERTSAAADSLE  837 (970)
T ss_pred             hhhhhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhH
Confidence            4444444444445555555444444444444443333

>PF01576 Myosin_tail_1: Myosin tail; InterPro: IPR002928 Muscle contraction is caused by sliding between the thick and thin filaments of the myofibril

Probab=94.10  E-value=0.014  Score=68.85  Aligned_cols=34  Identities=21%  Similarity=0.203  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHh
Q 048095          150 EELSLLQKSIRECKGELDSKERQLAVVQKRIGEC  183 (535)
Q Consensus       150 ~eL~~~~k~i~e~~~EL~~Kek~le~~~k~~~~~  183 (535)
                      ..++........+...+..-.-++.-|.+.+...
T Consensus       278 eqleeE~e~k~~l~~qlsk~~~El~~~k~K~e~e  311 (859)
T PF01576_consen  278 EQLEEEEEAKSELERQLSKLNAELEQWKKKYEEE  311 (859)
T ss_dssp             ----------------------------------
T ss_pred             HHHhhhhhhHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            4444444444444444444455555565555553

Myosin is a major component of thick filaments and exists as a hexamer of 2 heavy chains [], 2 alkali light chains, and 2 regulatory light chains. The heavy chain can be subdivided into the N-terminal globular head and the C-terminal coiled-coil rod-like tail, although some forms have a globular region in their C-terminal. There are many cell-specific isoforms of myosin heavy chains, coded for by a multi-gene family []. Myosin interacts with actin to convert chemical energy, in the form of ATP, to mechanical energy []. The 3-D structure of the head portion of myosin has been determined [] and a model for actin-myosin complex has been constructed []. This family consists of the coiled-coil myosin heavy chain tail region. The coiled-coil is composed of the tail from two molecules of myosin. These can then assemble into the macromolecular thick filament []. The coiled-coil region provides the structural backbone of the thick filament [].; GO: 0003774 motor activity, 0016459 myosin complex; PDB: 2LNK_C 3ZWH_Q.

>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD

Probab=94.02  E-value=15  Score=42.41  Aligned_cols=44  Identities=27%  Similarity=0.280  Sum_probs=18.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Q 048095           40 QKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEK   83 (535)
Q Consensus        40 aek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~   83 (535)
                      ..++.++..++..+..+++.+..++..++.++...+..+..+..
T Consensus       208 ~~~~~~le~el~~l~~~~e~l~~~i~~l~~ele~a~~~l~~l~~  251 (650)
T TIGR03185       208 LSEIEALEAELKEQSEKYEDLAQEIAHLRNELEEAQRSLESLEK  251 (650)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444444444444444444444444444443333

This model describes the DndB protein encoded by an operon associated with a sulfur-containing modification to DNA. The operon is sporadically distributed in bacteria, much like some restriction enzyme operons. DndD is described as a putative ATPase. The small number of examples known so far include species from among the Firmicutes, Actinomycetes, Proteobacteria, and Cyanobacteria.

>PF05911 DUF869: Plant protein of unknown function (DUF869); InterPro: IPR008587 This family consists of a number of sequences found in plants

Probab=93.70  E-value=5.5  Score=46.84  Aligned_cols=93  Identities=25%  Similarity=0.267  Sum_probs=41.9

Q ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           22 LRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGL  101 (535)
Q Consensus        22 Lerved~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El~~~eeEL~~  101 (535)
                      |+.++..-.+++..+.....+++..+.++.+.+..|..++.++...+.--+....++......++.++......+.++..
T Consensus       598 lE~le~eK~~Le~~L~~~~d~lE~~~~qL~E~E~~L~eLq~eL~~~keS~s~~E~ql~~~~e~~e~le~~~~~~e~E~~~  677 (769)
T PF05911_consen  598 LEKLESEKEELEMELASCQDQLESLKNQLKESEQKLEELQSELESAKESNSLAETQLKAMKESYESLETRLKDLEAEAEE  677 (769)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHH
Confidence            33333333333333333344444444444444444444444444444444444444444444444444444445555555


Q ss_pred             HHHHHhhhhhhHH
Q 048095          102 LQKRVGECNCELE  114 (535)
Q Consensus       102 lqk~l~E~~~el~  114 (535)
                      ++..+..+..||+
T Consensus       678 l~~Ki~~Le~Ele  690 (769)
T PF05911_consen  678 LQSKISSLEEELE  690 (769)
T ss_pred             HHHHHHHHHHHHH
Confidence            5555555555554

The function of this family is unknown.

>PF05483 SCP-1: Synaptonemal complex protein 1 (SCP-1); InterPro: IPR008827 Synaptonemal complex protein 1 (SCP-1) is the major component of the transverse filaments of the synaptonemal complex

Probab=93.67  E-value=17  Score=41.97  Aligned_cols=268  Identities=18%  Similarity=0.215  Sum_probs=121.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHh
Q 048095           40 QKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNCELECKQQQ  119 (535)
Q Consensus        40 aek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El~~~eeEL~~lqk~l~E~~~el~~k~~~  119 (535)
                      +..+.++...+..|..-|..-..+....+.++.....++..--.++++.-.-....+.+|..+...+.+-..-|. .++.
T Consensus       348 s~~v~e~qtti~~L~~lL~~Eqqr~~~~ed~lk~l~~eLqkks~eleEmtk~k~~ke~eleeL~~~L~e~qkll~-ekk~  426 (786)
T PF05483_consen  348 SFVVTELQTTICNLKELLTTEQQRLKKNEDQLKILTMELQKKSSELEEMTKQKNNKEVELEELKKILAEKQKLLD-EKKQ  426 (786)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHH-HHHH
Confidence            444455555555555555444444455555555555555555555555444444445555555554444443222 1222


Q ss_pred             hhhhhhHHHHHhhhhhhhHHHHHHhhhhhHHHHHHHHHHHHHHHhhhhHHHHHHHHH---HHHHHHhhHHHhHHHhhhhh
Q 048095          120 LGLAQSEEDLLKNSLKNSIEHWSQKLNLTKEELSLLQKSIRECKGELDSKERQLAVV---QKRIGECNNELQLKENELNL  196 (535)
Q Consensus       120 ~~~~~~~~~l~~~~~k~~v~~~~~~~~~~~~eL~~~~k~i~e~~~EL~~Kek~le~~---~k~~~~~~~~l~~k~k~l~~  196 (535)
                      +....-+.+..+..+.+.+.-...+.|-.+.+|..+..+-..+...++....+++-.   +..+....+.|..-.+.+..
T Consensus       427 ~eki~E~lq~~eqel~~llq~~ekev~dLe~~l~~~~~~eq~yskQVeeLKtELE~EkLKN~ELt~~~nkLslEkk~laQ  506 (786)
T PF05483_consen  427 FEKIAEELQGTEQELTGLLQIREKEVHDLEIQLTTIKESEQHYSKQVEELKTELEQEKLKNTELTVNCNKLSLEKKQLAQ  506 (786)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333334444444445555556667776666666666666666655532   22333344444444444422


Q ss_pred             HHHH----HHH-HHHHhhhHHH------HHHHHHhhhcccchhhhhhhhhhh-hhcCcccch-------hhhhHHHHHHH
Q 048095          197 VKTV----VEH-CLQKLNLKKE------ELSLLQKSNGEWNGQLECGERQLE-LRLEPESGI-------KDCSQQIELKE  257 (535)
Q Consensus       197 ~~~~----~~~-~~kele~k~~------~~~~~~~~~~~~~~~~e~~e~~~~-~~~e~~s~~-------~~~~~~~~~ke  257 (535)
                      ....    ++. +.+--.+++.      +|.-|+.-..-+.-.+++--..+. -+-+.+++.       +....++.-+.
T Consensus       507 E~~~~~~elKk~qedi~~~k~qee~~~kqie~Lee~~~~Lrneles~~eel~~k~~Ev~~kl~ksEen~r~~e~e~~~k~  586 (786)
T PF05483_consen  507 ETSDMALELKKQQEDINNSKKQEEKMLKQIENLEETNTQLRNELESVKEELKQKGEEVKCKLDKSEENARSIECEILKKE  586 (786)
T ss_pred             HHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHhhHHHHHHHhhhH
Confidence            1111    000 0000011110      111111111111111222111110 000111111       12223455566


Q ss_pred             HHHHHHHHhHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHh
Q 048095          258 KKLRQIQSSIEECEKELAIKERHISDYEEKLKAKEKLYDEIKKSIKELESA  308 (535)
Q Consensus       258 k~~~~~~~~~e~~~kel~~ke~~i~~~e~el~~~~k~~~~~~k~~ke~el~  308 (535)
                      ++++.+.+.+-.+.++++-+.+.|+..+.+=++..++.-.-.+.+..++.+
T Consensus       587 kq~k~lenk~~~LrKqvEnk~K~ieeLqqeNk~LKKk~~aE~kq~~~~eik  637 (786)
T PF05483_consen  587 KQMKILENKCNNLRKQVENKNKNIEELQQENKALKKKITAESKQSNVYEIK  637 (786)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            777777777777777887777777777777777777664333333333333

Synaptonemal complexes are structures that are formed between homologous chromosomes during meiotic prophase [].; GO: 0007130 synaptonemal complex assembly, 0000795 synaptonemal complex

>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=93.50  E-value=10  Score=39.04  Aligned_cols=76  Identities=21%  Similarity=0.269  Sum_probs=39.5

Q ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           26 EKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGLLQK  104 (535)
Q Consensus        26 ed~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El~~~eeEL~~lqk  104 (535)
                      ++.|.++.++...++.+++.+..++..+..++...+.+|.+.+.+|..++.+|..+...|.+.+   ..+..+++.++.
T Consensus        37 ds~l~~~~~~~~~~q~ei~~L~~qi~~~~~k~~~~~~~i~~~~~eik~l~~eI~~~~~~I~~r~---~~l~~raRAmq~  112 (265)
T COG3883          37 DSKLSELQKEKKNIQNEIESLDNQIEEIQSKIDELQKEIDQSKAEIKKLQKEIAELKENIVERQ---ELLKKRARAMQV  112 (265)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHH
Confidence            4444444444444444555555555555555555555555555555555555555555555444   234555555554

>PF10473 CENP-F_leu_zip: Leucine-rich repeats of kinetochore protein Cenp-F/LEK1; InterPro: IPR019513 Cenp-F, a centromeric kinetochore, microtubule-binding protein consisting of two 1,600-amino acid-long coils, is essential for the full functioning of the mitotic checkpoint pathway [, ]

Probab=93.39  E-value=6.9  Score=36.65  Aligned_cols=89  Identities=20%  Similarity=0.215  Sum_probs=41.5

Q ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           17 CKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKE   96 (535)
Q Consensus        17 ~te~dLerved~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El~~~e   96 (535)
                      ++...|.|++..-+.++..+..|...+.........+..+.+..+..|..++.+++.+...++.+..++..+.++...+.
T Consensus         7 ~v~~kLK~~~~e~dsle~~v~~LEreLe~~q~~~e~~~~daEn~k~eie~L~~el~~lt~el~~L~~EL~~l~sEk~~L~   86 (140)
T PF10473_consen    7 HVEEKLKESESEKDSLEDHVESLERELEMSQENKECLILDAENSKAEIETLEEELEELTSELNQLELELDTLRSEKENLD   86 (140)
T ss_pred             HHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444444444444444444444444444444444444444444444444444444444444444444


Q ss_pred             HHHHHHHHH
Q 048095           97 IELGLLQKR  105 (535)
Q Consensus        97 eEL~~lqk~  105 (535)
                      ..+...+..
T Consensus        87 k~lq~~q~k   95 (140)
T PF10473_consen   87 KELQKKQEK   95 (140)
T ss_pred             HHHHHHHHH
Confidence            444444433

There are several leucine-rich repeats along the sequence of LEK1 that are considered to be zippers, though they do not appear to be binding DNA directly in this instance []. ; GO: 0008134 transcription factor binding, 0042803 protein homodimerization activity, 0045502 dynein binding

>COG5185 HEC1 Protein involved in chromosome segregation, interacts with SMC proteins [Cell division and chromosome partitioning]

Probab=93.34  E-value=16  Score=40.56  Aligned_cols=137  Identities=15%  Similarity=0.153  Sum_probs=62.0

Q ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHhhhhhhhHHHHHhhhhhhhHHH
Q 048095           61 QKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNCELECKQQQLGLAQSEEDLLKNSLKNSIEH  140 (535)
Q Consensus        61 K~eIeE~e~eIe~~qkeIe~le~eIee~e~El~~~eeEL~~lqk~l~E~~~el~~k~~~~~~~~~~~~l~~~~~k~~v~~  140 (535)
                      -..|.++..++..++...+.+++.....+...+..---+..++..+.....|+++.+    ...+.       ++.+|+.
T Consensus       294 s~~i~~l~ek~r~l~~D~nk~~~~~~~mk~K~~~~~g~l~kl~~eie~kEeei~~L~----~~~d~-------L~~q~~k  362 (622)
T COG5185         294 SQKIKTLREKWRALKSDSNKYENYVNAMKQKSQEWPGKLEKLKSEIELKEEEIKALQ----SNIDE-------LHKQLRK  362 (622)
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHHH----hhHHH-------HHHHHHh
Confidence            445555555555555555555555555555554444445554444433333333222    11111       1111110


Q ss_pred             HHHhhhhhHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhhHHHhHHHhhhhhHHHHHHHHHHHhhhHH
Q 048095          141 WSQKLNLTKEELSLLQKSIRECKGELDSKERQLAVVQKRIGECNNELQLKENELNLVKTVVEHCLQKLNLKK  212 (535)
Q Consensus       141 ~~~~~~~~~~eL~~~~k~i~e~~~EL~~Kek~le~~~k~~~~~~~~l~~k~k~l~~~~~~~~~~~kele~k~  212 (535)
                        ++  .-.++++..-..-.+.+.||.-.--+.+.+-+.|+.+.-+-+..=+.+...-.++++...++-.-.
T Consensus       363 --q~--Is~e~fe~mn~Ere~L~reL~~i~~~~~~L~k~V~~~~leaq~~~~slek~~~~~~sl~~~i~~~~  430 (622)
T COG5185         363 --QG--ISTEQFELMNQEREKLTRELDKINIQSDKLTKSVKSRKLEAQGIFKSLEKTLRQYDSLIQNITRSR  430 (622)
T ss_pred             --cC--CCHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhcccH
Confidence              00  112223333333344556666666666666666666655555544444443344455555444433

>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association []

Probab=93.24  E-value=12  Score=39.39  Aligned_cols=9  Identities=33%  Similarity=0.612  Sum_probs=3.2

Q ss_pred             HHHHHHHHH
Q 048095           34 GELALVQKE   42 (535)
Q Consensus        34 kqle~Laek   42 (535)
                      .++..|...
T Consensus       156 ~~~~~L~~D  164 (325)
T PF08317_consen  156 ENLELLQED  164 (325)
T ss_pred             HHHHHHHHH
Confidence            333333333

>smart00787 Spc7 Spc7 kinetochore protein

Probab=93.22  E-value=5.2  Score=42.18  Aligned_cols=41  Identities=12%  Similarity=0.122  Sum_probs=16.8

Q ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           15 LQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEK   55 (535)
Q Consensus        15 L~~te~dLerved~i~ElEkqle~Laek~~Elk~EL~~LE~   55 (535)
                      ++..+.|...+...+.-+..-+..+.+++..+..++..+..
T Consensus       153 ~~~l~~D~~~L~~~~~~l~~~~~~l~~~~~~L~~e~~~L~~  193 (312)
T smart00787      153 LEGLKEDYKLLMKELELLNSIKPKLRDRKDALEEELRQLKQ  193 (312)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333333334444444444444433

This domain is found in cell division proteins which are required for kinetochore-spindle association.

>PF11559 ADIP: Afadin- and alpha -actinin-Binding; InterPro: IPR021622 This family is found in mammals where it is localised at cell-cell adherens junctions [], and in Sch

Probab=93.19  E-value=3.8  Score=38.15  Aligned_cols=85  Identities=16%  Similarity=0.111  Sum_probs=35.4

Q ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           19 ERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIE   98 (535)
Q Consensus        19 e~dLerved~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El~~~eeE   98 (535)
                      ..+..+|-..|.++-...+.-....+.+...+..+..++..+...+..++.++...++++..++.....++..+......
T Consensus        30 ~~~~~~vin~i~~Ll~~~~r~~~~~e~l~~~~~~l~~d~~~l~~~~~rL~~~~~~~ere~~~~~~~~~~l~~~~~~~~~~  109 (151)
T PF11559_consen   30 EDNDVRVINCIYDLLQQRDRDMEQREDLSDKLRRLRSDIERLQNDVERLKEQLEELERELASAEEKERQLQKQLKSLEAK  109 (151)
T ss_pred             cccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444555555554444444444444444444444444444433333333333333333333333333333333333333


Q ss_pred             HHHHH
Q 048095           99 LGLLQ  103 (535)
Q Consensus        99 L~~lq  103 (535)
                      +...+
T Consensus       110 ~k~~k  114 (151)
T PF11559_consen  110 LKQEK  114 (151)
T ss_pred             HHHHH
Confidence            33333

pombe and other fungi where it anchors spindle-pole bodies to spindle microtubules []. It is a coiled-coil structure, and in pombe, it is required for anchoring the minus end of spindle microtubules to the centrosome equivalent, the spindle-pole body. The name ADIP derives from the family being composed of Afadin- and alpha -Actinin-Binding Proteins Localised at Cell-Cell Adherens Junctions.

>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=93.15  E-value=4.2  Score=41.05  Aligned_cols=76  Identities=18%  Similarity=0.140  Sum_probs=41.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 048095           37 ALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNCE  112 (535)
Q Consensus        37 e~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El~~~eeEL~~lqk~l~E~~~e  112 (535)
                      +....-+.++..+...|..+-...-.++..+..+|..++..|..++.+-+.....+..+..++..+...+++..++
T Consensus        28 e~ee~~L~e~~kE~~~L~~Er~~h~eeLrqI~~DIn~lE~iIkqa~~er~~~~~~i~r~~eey~~Lk~~in~~R~e  103 (230)
T PF10146_consen   28 ENEEKCLEEYRKEMEELLQERMAHVEELRQINQDINTLENIIKQAESERNKRQEKIQRLYEEYKPLKDEINELRKE  103 (230)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334445555555555555555555555555555555555555555555555555555556666666666655555

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.

>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=93.13  E-value=12  Score=38.63  Aligned_cols=72  Identities=14%  Similarity=0.148  Sum_probs=37.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 048095           40 QKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNC  111 (535)
Q Consensus        40 aek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El~~~eeEL~~lqk~l~E~~~  111 (535)
                      ...|.++..+...++.+|+.+..+|+++..++...+.++.....+|..++.++......|...+.-+...+|
T Consensus        37 ds~l~~~~~~~~~~q~ei~~L~~qi~~~~~k~~~~~~~i~~~~~eik~l~~eI~~~~~~I~~r~~~l~~raR  108 (265)
T COG3883          37 DSKLSELQKEKKNIQNEIESLDNQIEEIQSKIDELQKEIDQSKAEIKKLQKEIAELKENIVERQELLKKRAR  108 (265)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444555555555555555555555555555555555555555555555555555555555544444333

>smart00787 Spc7 Spc7 kinetochore protein

Probab=93.11  E-value=5.8  Score=41.80  Aligned_cols=46  Identities=17%  Similarity=0.048  Sum_probs=22.5

Q ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           21 QLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRG   66 (535)
Q Consensus        21 dLerved~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE   66 (535)
                      +++.+.....-+.+....+..-+..+......|..++..+++...+
T Consensus       152 ~~~~l~~D~~~L~~~~~~l~~~~~~l~~~~~~L~~e~~~L~~~~~e  197 (312)
T smart00787      152 NLEGLKEDYKLLMKELELLNSIKPKLRDRKDALEEELRQLKQLEDE  197 (312)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHH
Confidence            3444444444444444444555555555555555555555443333

This domain is found in cell division proteins which are required for kinetochore-spindle association.

>PRK09039 hypothetical protein; Validated

Probab=93.05  E-value=14  Score=39.33  Aligned_cols=20  Identities=15%  Similarity=0.159  Sum_probs=11.6

Q ss_pred             hCCCchhHHHHHhcccCCCC
Q 048095          362 KACDPALLVLDAMQGFYPPH  381 (535)
Q Consensus       362 ~A~DPAkLVLdai~~f~~~~  381 (535)
                      .-.+|.++.....+.+.|..
T Consensus       303 ~Gi~~~ri~~~G~G~~~Pi~  322 (343)
T PRK09039        303 LGVPADRLAAAGFGEFQPLD  322 (343)
T ss_pred             CCCCHHHeEEEEeCCcCcCC
Confidence            34667777665555555543

>PF15290 Syntaphilin: Golgi-localised syntaxin-1-binding clamp

Probab=93.02  E-value=2.4  Score=43.78  Aligned_cols=82  Identities=24%  Similarity=0.230  Sum_probs=59.6

Q ss_pred             chhhhhhhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Q 048095            7 EIRGFNLKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIE   86 (535)
Q Consensus         7 ~~~~~~~KL~~te~dLerved~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIe   86 (535)
                      -||-+..||..++.-|..-+.+|.|+..|+..+++.+-|=.=.-.+..-.|.+.+++|.+++.-|+.+...+....+-|+
T Consensus        69 ~iRHLkakLkes~~~l~dRetEI~eLksQL~RMrEDWIEEECHRVEAQLALKEARkEIkQLkQvieTmrssL~ekDkGiQ  148 (305)
T PF15290_consen   69 CIRHLKAKLKESENRLHDRETEIDELKSQLARMREDWIEEECHRVEAQLALKEARKEIKQLKQVIETMRSSLAEKDKGIQ  148 (305)
T ss_pred             HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhchhhhhHH
Confidence            48899999999999999999999999999999999885533333333444467777777777766666666655544444


Q ss_pred             HH
Q 048095           87 ES   88 (535)
Q Consensus        87 e~   88 (535)
                      .+
T Consensus       149 KY  150 (305)
T PF15290_consen  149 KY  150 (305)
T ss_pred             HH
Confidence            33

>PF12128 DUF3584: Protein of unknown function (DUF3584); InterPro: IPR021979 This family consist of uncharacterised bacterial proteins

Probab=92.57  E-value=34  Score=42.44  Aligned_cols=19  Identities=5%  Similarity=0.345  Sum_probs=7.7

Q ss_pred             CChhHHHHHHHHHHHHHHh
Q 048095          412 INPQVRDEAMKMAGEWKKK  430 (535)
Q Consensus       412 i~~~vkeeA~~lA~~WK~~  430 (535)
                      +...|..--+.|-.+-...
T Consensus      1004 ~~r~I~~~s~~l~~~v~~~ 1022 (1201)
T PF12128_consen 1004 FDRRIKSQSRRLSREVSED 1022 (1201)
T ss_pred             HhhHHHHHHHHHHHHHhhh
Confidence            3444444444444433333

>PF15070 GOLGA2L5: Putative golgin subfamily A member 2-like protein 5

Probab=92.42  E-value=25  Score=40.54  Aligned_cols=36  Identities=25%  Similarity=0.381  Sum_probs=24.2

Q ss_pred             hhhhHHHHHHhhhhhHHHHHHHHHHHHHHHhhhhHH
Q 048095          134 LKNSIEHWSQKLNLTKEELSLLQKSIRECKGELDSK  169 (535)
Q Consensus       134 ~k~~v~~~~~~~~~~~~eL~~~~k~i~e~~~EL~~K  169 (535)
                      ++..+..+.+.+..|..++.+++...+.+.+.|..-
T Consensus       207 l~~~l~~~~e~le~K~qE~~~Lq~q~dq~~~~Lqqy  242 (617)
T PF15070_consen  207 LQEKLHNLKEKLELKSQEAQSLQEQRDQYLGHLQQY  242 (617)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHH
Confidence            444455566777777777777777777777766644

>COG1340 Uncharacterized archaeal coiled-coil protein [Function unknown]

Probab=92.39  E-value=16  Score=38.24  Aligned_cols=95  Identities=19%  Similarity=0.161  Sum_probs=70.8

Q ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           15 LQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQS   94 (535)
Q Consensus        15 L~~te~dLerved~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El~~   94 (535)
                      ++.-+.-+.-+...+.++....+.+..+...+...-..+.....++...+.++..+...+..++..+...-.+.-.....
T Consensus         8 ~~E~e~K~~~lk~~~~e~~ekR~El~~~~~~~~ekRdeln~kvrE~~e~~~elr~~rdeineev~elK~kR~ein~kl~e   87 (294)
T COG1340           8 LDELELKRKQLKEEIEELKEKRDELRKEASELAEKRDELNAKVRELREKAQELREERDEINEEVQELKEKRDEINAKLQE   87 (294)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444455667777777777778888888888888888888888888888888888888888888777777777777


Q ss_pred             HHHHHHHHHHHHhhh
Q 048095           95 KEIELGLLQKRVGEC  109 (535)
Q Consensus        95 ~eeEL~~lqk~l~E~  109 (535)
                      +...+..+....+.+
T Consensus        88 L~~~~~~l~e~~~~~  102 (294)
T COG1340          88 LRKEYRELKEKRNEF  102 (294)
T ss_pred             HHHHHHHHHHHhhhh
Confidence            777777777776655

>PF11559 ADIP: Afadin- and alpha -actinin-Binding; InterPro: IPR021622 This family is found in mammals where it is localised at cell-cell adherens junctions [], and in Sch

Probab=92.29  E-value=9.6  Score=35.45  Aligned_cols=64  Identities=11%  Similarity=0.138  Sum_probs=25.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           40 QKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGLLQ  103 (535)
Q Consensus        40 aek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El~~~eeEL~~lq  103 (535)
                      -..++.-....+.+...+..+...+..+...++.++..++.++.++...+.....+...+....
T Consensus        44 l~~~~r~~~~~e~l~~~~~~l~~d~~~l~~~~~rL~~~~~~~ere~~~~~~~~~~l~~~~~~~~  107 (151)
T PF11559_consen   44 LQQRDRDMEQREDLSDKLRRLRSDIERLQNDVERLKEQLEELERELASAEEKERQLQKQLKSLE  107 (151)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333444444444444444444444444444444444444443333333333333333

pombe and other fungi where it anchors spindle-pole bodies to spindle microtubules []. It is a coiled-coil structure, and in pombe, it is required for anchoring the minus end of spindle microtubules to the centrosome equivalent, the spindle-pole body. The name ADIP derives from the family being composed of Afadin- and alpha -Actinin-Binding Proteins Localised at Cell-Cell Adherens Junctions.

>PF09726 Macoilin: Transmembrane protein; InterPro: IPR019130 This entry represents the multi-pass transmembrane protein Macoilin, which is highly conserved in eukaryotes

Probab=92.12  E-value=29  Score=40.60  Aligned_cols=56  Identities=23%  Similarity=0.210  Sum_probs=25.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           45 ECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELG  100 (535)
Q Consensus        45 Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El~~~eeEL~  100 (535)
                      .++.++..+..+-+.++.++..+....+.-...+..++.++.+....+..++.+|.
T Consensus       457 ~lk~eL~qlr~ene~Lq~Kl~~L~~aRq~DKq~l~~LEkrL~eE~~~R~~lEkQL~  512 (697)
T PF09726_consen  457 SLKSELSQLRQENEQLQNKLQNLVQARQQDKQSLQQLEKRLAEERRQRASLEKQLQ  512 (697)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444444444444444444444444444444444444444443

; GO: 0016021 integral to membrane

>PF12325 TMF_TATA_bd: TATA element modulatory factor 1 TATA binding; InterPro: IPR022091 This is the C-terminal conserved coiled coil region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes []

Probab=91.96  E-value=7.9  Score=35.31  Aligned_cols=58  Identities=21%  Similarity=0.355  Sum_probs=46.9

Q ss_pred             HHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhhHHHhHHHhhhhhHHHHHHHHHHHh
Q 048095          151 ELSLLQKSIRECKGELDSKERQLAVVQKRIGECNNELQLKENELNLVKTVVEHCLQKL  208 (535)
Q Consensus       151 eL~~~~k~i~e~~~EL~~Kek~le~~~k~~~~~~~~l~~k~k~l~~~~~~~~~~~kel  208 (535)
                      ++.+..+.+.....+++..+..++..=-++|+..++.+....-+.-+|..|+.+++.+
T Consensus        62 ~~~~~~~~~~~L~~el~~l~~ry~t~LellGEK~E~veEL~~Dv~DlK~myr~Qi~~l  119 (120)
T PF12325_consen   62 ELRALKKEVEELEQELEELQQRYQTLLELLGEKSEEVEELRADVQDLKEMYREQIDQL  119 (120)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3445555666667777888888899999999999999999988988999999998765

The proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMF1_TATA_bd is the most conserved part of the TMFs []. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant cells. The Rab6-binding domain appears to be the same region as this C-terminal family [].

>KOG0994 consensus Extracellular matrix glycoprotein Laminin subunit beta [Extracellular structures]

Probab=91.75  E-value=39  Score=41.36  Aligned_cols=33  Identities=15%  Similarity=0.307  Sum_probs=17.0

Q ss_pred             HHHHHHHhHHHHHHHHHHHHhhhhhHHHHHHHH
Q 048095          259 KLRQIQSSIEECEKELAIKERHISDYEEKLKAK  291 (535)
Q Consensus       259 ~~~~~~~~~e~~~kel~~ke~~i~~~e~el~~~  291 (535)
                      .++.+.-.++.-+..|+.+...|...+++++++
T Consensus      1711 ~l~dLe~~y~~~~~~L~~~~aeL~~Le~r~~~v 1743 (1758)
T KOG0994|consen 1711 RLKDLELEYLRNEQALEDKAAELAGLEKRVESV 1743 (1758)
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHhhhHHHHHHHH
Confidence            344444444444445555555555556665554

>PF04849 HAP1_N: HAP1 N-terminal conserved region; InterPro: IPR006933 This family is defined by an N-terminal conserved region found in several huntingtin-associated protein 1 (HAP1) homologues

Probab=91.71  E-value=20  Score=37.81  Aligned_cols=34  Identities=18%  Similarity=0.192  Sum_probs=18.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Q 048095           44 EECNSELWCKEKELGLVQKRIRGCNGELQSKQGE   77 (535)
Q Consensus        44 ~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qke   77 (535)
                      ..+..+...++..|......|.+++.++.....=
T Consensus        93 ~~L~~~~~~le~~L~~~~e~v~qLrHeL~~kdeL  126 (306)
T PF04849_consen   93 QDLSERNEALEEQLGAALEQVEQLRHELSMKDEL  126 (306)
T ss_pred             ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444555555555555555555555555544433

HAP1 binds to huntingtin in a polyglutamine repeat-length-dependent manner. However, its possible role in the pathogenesis of Huntingtons disease is unclear. This family also includes a similar N-terminal conserved region from hypothetical protein products of ALS2CR3 genes found in the human juvenile amyotrophic lateral sclerosis critical region 2q33-2q34 [].

>PF13851 GAS: Growth-arrest specific micro-tubule binding

Probab=91.70  E-value=15  Score=36.33  Aligned_cols=17  Identities=29%  Similarity=0.419  Sum_probs=6.7

Q ss_pred             HHHHHhhhhHHHHHHHH
Q 048095          159 IRECKGELDSKERQLAV  175 (535)
Q Consensus       159 i~e~~~EL~~Kek~le~  175 (535)
                      +......|+.++.||.+
T Consensus       152 l~~l~~~lE~keaqL~e  168 (201)
T PF13851_consen  152 LQALSEQLEKKEAQLNE  168 (201)
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            33333334444444433

>KOG4643 consensus Uncharacterized coiled-coil protein [Function unknown]

Probab=91.57  E-value=38  Score=40.84  Aligned_cols=82  Identities=13%  Similarity=0.158  Sum_probs=50.1

Q ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           20 RQLRFLEKRIGESKGELALVQKEIEECNSELWCKEK---------ELGLVQKRIRGCNGELQSKQGELALVEKEIEESNS   90 (535)
Q Consensus        20 ~dLerved~i~ElEkqle~Laek~~Elk~EL~~LE~---------eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~   90 (535)
                      .|++++.|.+.|++..-..|.+...=+..++..+.+         ++-.++.++..+..+....+.+++.+..++..++.
T Consensus       257 mDs~fykdRveelkedN~vLleekeMLeeQLq~lrarse~~tleseiiqlkqkl~dm~~erdtdr~kteeL~eEnstLq~  336 (1195)
T KOG4643|consen  257 MDSDFYKDRVEELKEDNRVLLEEKEMLEEQLQKLRARSEGATLESEIIQLKQKLDDMRSERDTDRHKTEELHEENSTLQV  336 (1195)
T ss_pred             hhhHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHH
Confidence            467788999999988877776666555555555444         44444555555555555555666666665555555


Q ss_pred             HHHHHHHHHHH
Q 048095           91 ELQSKEIELGL  101 (535)
Q Consensus        91 El~~~eeEL~~  101 (535)
                      ....+...+..
T Consensus       337 q~eqL~~~~el  347 (1195)
T KOG4643|consen  337 QKEQLDGQMEL  347 (1195)
T ss_pred             HHHHhhhhhhH
Confidence            54444444433

>COG0419 SbcC ATPase involved in DNA repair [DNA replication, recombination, and repair]

Probab=91.53  E-value=37  Score=40.69  Aligned_cols=32  Identities=19%  Similarity=0.267  Sum_probs=15.9

Q ss_pred             ChHHHHHHHHHhhhhhhhHHHHHhcCCcccccchH
Q 048095          458 DGNELESLLDIVAHYRQTAKLRQSLGFADKVTVVP  492 (535)
Q Consensus       458 d~del~~Lv~~va~~~~~~~L~~sLGL~~K~~diV  492 (535)
                      |.+-+..++..+-.....   .+.+|.+-++|.+.
T Consensus       855 D~e~l~~l~~~l~~i~~~---~~qiiIISH~eel~  886 (908)
T COG0419         855 DEERLEKLAEILEELLSD---GRQIIIISHVEELK  886 (908)
T ss_pred             CHHHHHHHHHHHHHHHhc---CCeEEEEeChHHHH
Confidence            555555554444332222   45566666666655

>PF10168 Nup88: Nuclear pore component; InterPro: IPR019321 Nup88 can be divided into two structural domains; the N-terminal two-thirds of the protein have no obvious structural motifs

Probab=91.46  E-value=19  Score=42.24  Aligned_cols=78  Identities=10%  Similarity=0.041  Sum_probs=43.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHhh
Q 048095           43 IEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNCELECKQQQL  120 (535)
Q Consensus        43 ~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El~~~eeEL~~lqk~l~E~~~el~~k~~~~  120 (535)
                      +.++...+..+..+.+..-.++.+++.++..++..-+.+..+++++......+.++++.+-+.++..--.|-..|+++
T Consensus       560 r~ei~~rv~~Lk~~~e~Ql~~L~~l~e~~~~l~~~ae~LaeR~e~a~d~Qe~L~~R~~~vl~~l~~~~P~LS~AEr~~  637 (717)
T PF10168_consen  560 REEIQRRVKLLKQQKEQQLKELQELQEERKSLRESAEKLAERYEEAKDKQEKLMKRVDRVLQLLNSQLPVLSEAEREF  637 (717)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHHH
Confidence            444555555555555555555555555555555555666666666666666666666666555544444444444333

It is, however, where it binds to Nup98; one of the components of the nuclear pore. The C-terminal end is a predicted coiled-coil domain []. Nup88 is over expressed in tumour cells [].

>PF04849 HAP1_N: HAP1 N-terminal conserved region; InterPro: IPR006933 This family is defined by an N-terminal conserved region found in several huntingtin-associated protein 1 (HAP1) homologues

Probab=91.37  E-value=5.6  Score=41.80  Aligned_cols=113  Identities=16%  Similarity=0.185  Sum_probs=48.6

Q ss_pred             hhhhhhhHHHHHHHHHHHHHHHHhHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Q 048095            8 IRGFNLKLQCKERQLRFLEKRIGESKGELALV----QKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEK   83 (535)
Q Consensus         8 ~~~~~~KL~~te~dLerved~i~ElEkqle~L----aek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~   83 (535)
                      +..+..||...+.+-..++.....+.....+.    +.-+..|..++.....++..+..++.....+....+.+|..+..
T Consensus       162 le~Lq~Klk~LEeEN~~LR~Ea~~L~~et~~~EekEqqLv~dcv~QL~~An~qia~LseELa~k~Ee~~rQQEEIt~Lls  241 (306)
T PF04849_consen  162 LEALQEKLKSLEEENEQLRSEASQLKTETDTYEEKEQQLVLDCVKQLSEANQQIASLSEELARKTEENRRQQEEITSLLS  241 (306)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55566666666666665555555554333333    11133344444444444444433333333333333333333333


Q ss_pred             HHHHHHH-------HHHHHHHHHHHHHHHHhhhhhhHHHHHHhh
Q 048095           84 EIEESNS-------ELQSKEIELGLLQKRVGECNCELECKQQQL  120 (535)
Q Consensus        84 eIee~e~-------El~~~eeEL~~lqk~l~E~~~el~~k~~~~  120 (535)
                      +|-+++.       +...+...|...+..=+.+..||..-+...
T Consensus       242 qivdlQ~r~k~~~~EnEeL~q~L~~ske~Q~~L~aEL~elqdkY  285 (306)
T PF04849_consen  242 QIVDLQQRCKQLAAENEELQQHLQASKESQRQLQAELQELQDKY  285 (306)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333       333333333333333344444444333333

HAP1 binds to huntingtin in a polyglutamine repeat-length-dependent manner. However, its possible role in the pathogenesis of Huntingtons disease is unclear. This family also includes a similar N-terminal conserved region from hypothetical protein products of ALS2CR3 genes found in the human juvenile amyotrophic lateral sclerosis critical region 2q33-2q34 [].

>KOG0979 consensus Structural maintenance of chromosome protein SMC5/Spr18, SMC superfamily [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=91.33  E-value=40  Score=40.64  Aligned_cols=53  Identities=19%  Similarity=0.255  Sum_probs=24.7

Q ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhH
Q 048095           61 QKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNCEL  113 (535)
Q Consensus        61 K~eIeE~e~eIe~~qkeIe~le~eIee~e~El~~~eeEL~~lqk~l~E~~~el  113 (535)
                      +......+.++..+.+.+..+...+.+++++......+++.++..+++....+
T Consensus       254 k~~~~r~k~~~r~l~k~~~pi~~~~eeLe~~~~et~~~~s~~~~~~~e~~~k~  306 (1072)
T KOG0979|consen  254 KQAKDRAKKELRKLEKEIKPIEDKKEELESEKKETRSKISQKQRELNEALAKV  306 (1072)
T ss_pred             HHHHHHHHHHHHHHHHhhhhhhhhhhhHHhHHHhHHHHHHHHHHHHHHHHHHH
Confidence            33333444444444444444444444455555555555555555554444433

>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=91.18  E-value=4.3  Score=41.00  Aligned_cols=39  Identities=15%  Similarity=0.166  Sum_probs=14.3

Q ss_pred             HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           64 IRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGLL  102 (535)
Q Consensus        64 IeE~e~eIe~~qkeIe~le~eIee~e~El~~~eeEL~~l  102 (535)
                      |+.++..|...+.+-+.....|.....+...+..+++.+
T Consensus        62 In~lE~iIkqa~~er~~~~~~i~r~~eey~~Lk~~in~~  100 (230)
T PF10146_consen   62 INTLENIIKQAESERNKRQEKIQRLYEEYKPLKDEINEL  100 (230)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333333333333333333333333333

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.

>PF01576 Myosin_tail_1: Myosin tail; InterPro: IPR002928 Muscle contraction is caused by sliding between the thick and thin filaments of the myofibril

Probab=90.92  E-value=0.068  Score=63.23  Aligned_cols=30  Identities=23%  Similarity=0.209  Sum_probs=0.0

Q ss_pred             hhhhhHHHHHHHHHHHHHHHHhHHHHHHHH
Q 048095           10 GFNLKLQCKERQLRFLEKRIGESKGELALV   39 (535)
Q Consensus        10 ~~~~KL~~te~dLerved~i~ElEkqle~L   39 (535)
                      .++.|++..+..+..+.....-+..++..|
T Consensus       191 El~~klee~er~~~el~~~k~kL~~E~~eL  220 (859)
T PF01576_consen  191 ELQAKLEESERQRNELTEQKAKLQSENSEL  220 (859)
T ss_dssp             ------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444433333333333333333

Myosin is a major component of thick filaments and exists as a hexamer of 2 heavy chains [], 2 alkali light chains, and 2 regulatory light chains. The heavy chain can be subdivided into the N-terminal globular head and the C-terminal coiled-coil rod-like tail, although some forms have a globular region in their C-terminal. There are many cell-specific isoforms of myosin heavy chains, coded for by a multi-gene family []. Myosin interacts with actin to convert chemical energy, in the form of ATP, to mechanical energy []. The 3-D structure of the head portion of myosin has been determined [] and a model for actin-myosin complex has been constructed []. This family consists of the coiled-coil myosin heavy chain tail region. The coiled-coil is composed of the tail from two molecules of myosin. These can then assemble into the macromolecular thick filament []. The coiled-coil region provides the structural backbone of the thick filament [].; GO: 0003774 motor activity, 0016459 myosin complex; PDB: 2LNK_C 3ZWH_Q.

>TIGR01843 type_I_hlyD type I secretion membrane fusion protein, HlyD family

Probab=90.59  E-value=26  Score=37.19  Aligned_cols=43  Identities=23%  Similarity=0.365  Sum_probs=16.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHH
Q 048095           74 KQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNCELECK  116 (535)
Q Consensus        74 ~qkeIe~le~eIee~e~El~~~eeEL~~lqk~l~E~~~el~~k  116 (535)
                      ++.++..++.++..++.++.....++...+..+......+...
T Consensus       142 ~~~~~~~l~~~i~~~~~~i~~~~~~l~~~~~~l~~~~~~~~~~  184 (423)
T TIGR01843       142 LRAQLELILAQIKQLEAELAGLQAQLQALRQQLEVISEELEAR  184 (423)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333333333443333333333333333

Type I secretion is an ABC transport process that exports proteins, without cleavage of any signal sequence, from the cytosol to extracellular medium across both inner and outer membranes. The secretion signal is found in the C-terminus of the transported protein. This model represents the adaptor protein between the ATP-binding cassette (ABC) protein of the inner membrane and the outer membrane protein, and is called the membrane fusion protein. This model selects a subfamily closely related to HlyD; it is defined narrowly and excludes, for example, colicin V secretion protein CvaA and multidrug efflux proteins.

>KOG0962 consensus DNA repair protein RAD50, ABC-type ATPase/SMC superfamily [Replication, recombination and repair]

Probab=90.57  E-value=53  Score=40.76  Aligned_cols=57  Identities=18%  Similarity=0.144  Sum_probs=36.1

Q ss_pred             HhhhhhHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhhHHHhHHHhhhhhHHHHHHHH
Q 048095          143 QKLNLTKEELSLLQKSIRECKGELDSKERQLAVVQKRIGECNNELQLKENELNLVKTVVEHC  204 (535)
Q Consensus       143 ~~~~~~~~eL~~~~k~i~e~~~EL~~Kek~le~~~k~~~~~~~~l~~k~k~l~~~~~~~~~~  204 (535)
                      +++..+...|.-+.+-+..|...-+..-+     .-.+..|.+.++++.+.+..++..++.+
T Consensus       941 ~~ine~~s~l~~~~~~~~~~~~~~~~~~~-----~~~l~~~~e~l~~~~~~~~~~~~~l~~~  997 (1294)
T KOG0962|consen  941 NDINEKVSLLHQIYKLNECFEQYGFDDLR-----IAQLSESEEHLEERDNEVNEIKQKIRNQ  997 (1294)
T ss_pred             HHHHHHHHHHHHHHHhHHHHHHHhhhhhc-----hHHHHHHHHHHHHHHHHHHHHHHHHHhH
Confidence            56666666666666655555444222222     4556667778888888888877766655

>PF06818 Fez1: Fez1; InterPro: IPR009638 This family represents the eukaryotic Fez1 protein

Probab=90.45  E-value=20  Score=35.62  Aligned_cols=99  Identities=20%  Similarity=0.280  Sum_probs=64.9

Q ss_pred             cccchhhhhhhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Q 048095            4 RTNEIRGFNLKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEK   83 (535)
Q Consensus         4 ~~~~~~~~~~KL~~te~dLerved~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~   83 (535)
                      ++++|-=....|.+...++.-=...|..+..++.............+..+...+..-.-+++.++.++.....+...+..
T Consensus         8 k~GEIsLLKqQLke~q~E~~~K~~Eiv~Lr~ql~e~~~~l~~~~~~~~~l~~~~~~K~~ELE~ce~ELqr~~~Ea~lLre   87 (202)
T PF06818_consen    8 KSGEISLLKQQLKESQAEVNQKDSEIVSLRAQLRELRAELRNKESQIQELQDSLRTKQLELEVCENELQRKKNEAELLRE   87 (202)
T ss_pred             hhhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhHhHHHhHHHHHHHhCHHHHhhh
Confidence            56777777778888888877777777777777777766666666666666666655555666666666666665555555


Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q 048095           84 EIEESNSELQSKEIELGLL  102 (535)
Q Consensus        84 eIee~e~El~~~eeEL~~l  102 (535)
                      .+..++.++..+...+...
T Consensus        88 kl~~le~El~~Lr~~l~~~  106 (202)
T PF06818_consen   88 KLGQLEAELAELREELACA  106 (202)
T ss_pred             hhhhhHHHHHHHHHHHHhh
Confidence            5555555555555555443

Fez1 contains a leucine-zipper region with similarity to the DNA-binding domain of the cAMP-responsive activating-transcription factor 5 []. There is evidence that Fez1 inhibits cancer cell growth through regulation of mitosis, and that its alterations result in abnormal cell growth []. Note that some family members contain more than one copy of this region.; GO: 0005737 cytoplasm, 0016020 membrane

>PF04111 APG6: Autophagy protein Apg6; InterPro: IPR007243 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells

Probab=90.29  E-value=7.7  Score=40.85  Aligned_cols=12  Identities=25%  Similarity=0.296  Sum_probs=7.2

Q ss_pred             hHHHHHHHHhhh
Q 048095          394 IKRTCILLLEQL  405 (535)
Q Consensus       394 ~r~~CilLLE~L  405 (535)
                      +-.||-++|-.|
T Consensus       290 WT~AlK~lLtnl  301 (314)
T PF04111_consen  290 WTKALKYLLTNL  301 (314)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            345676766655

In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. Apg6/Vps30p has two distinct functions in the autophagic process, either associated with the membrane or in a retrieval step of the carboxypeptidase Y sorting pathway [].; GO: 0006914 autophagy; PDB: 3Q8T_A 3VP7_A 4DDP_A.

>PF05911 DUF869: Plant protein of unknown function (DUF869); InterPro: IPR008587 This family consists of a number of sequences found in plants

Probab=90.18  E-value=29  Score=41.04  Aligned_cols=35  Identities=29%  Similarity=0.359  Sum_probs=12.4

Q ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           65 RGCNGELQSKQGELALVEKEIEESNSELQSKEIEL   99 (535)
Q Consensus        65 eE~e~eIe~~qkeIe~le~eIee~e~El~~~eeEL   99 (535)
                      ..+...+..++.+++....++.+.+..+..+..+|
T Consensus       606 ~~Le~~L~~~~d~lE~~~~qL~E~E~~L~eLq~eL  640 (769)
T PF05911_consen  606 EELEMELASCQDQLESLKNQLKESEQKLEELQSEL  640 (769)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333333333333333333

The function of this family is unknown.

>KOG0971 consensus Microtubule-associated protein dynactin DCTN1/Glued [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]

Probab=90.04  E-value=49  Score=39.55  Aligned_cols=53  Identities=13%  Similarity=0.241  Sum_probs=25.7

Q ss_pred             hhhcCcccchhhhhHHHHHHH------HHHHHHHHhH-HHHHHHHHHHHhhhhhHHHHHH
Q 048095          237 ELRLEPESGIKDCSQQIELKE------KKLRQIQSSI-EECEKELAIKERHISDYEEKLK  289 (535)
Q Consensus       237 ~~~~e~~s~~~~~~~~~~~ke------k~~~~~~~~~-e~~~kel~~ke~~i~~~e~el~  289 (535)
                      +...+.|++++..+.+++-.|      .|+.+.+... ..+.+++|.-..|+.+.++..+
T Consensus       455 dknlnlEekVklLeetv~dlEalee~~EQL~Esn~ele~DLreEld~~~g~~kel~~r~~  514 (1243)
T KOG0971|consen  455 DKNLNLEEKVKLLEETVGDLEALEEMNEQLQESNRELELDLREELDMAKGARKELQKRVE  514 (1243)
T ss_pred             hhccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            344555566666555444333      1333333322 2455556666566655555443

>KOG0612 consensus Rho-associated, coiled-coil containing protein kinase [Signal transduction mechanisms]

Probab=89.88  E-value=58  Score=40.11  Aligned_cols=8  Identities=13%  Similarity=-0.255  Sum_probs=3.4

Q ss_pred             HhhhCCCc
Q 048095          359 TLTKACDP  366 (535)
Q Consensus       359 AL~~A~DP  366 (535)
                      ....|..|
T Consensus       852 ~e~~~ek~  859 (1317)
T KOG0612|consen  852 REEIAEKN  859 (1317)
T ss_pred             hhhhhhcc
Confidence            33444444

>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD

Probab=89.81  E-value=44  Score=38.57  Aligned_cols=64  Identities=20%  Similarity=0.199  Sum_probs=30.1

Q ss_pred             HHHHHHHHhhhhHHHHHHHHHHHHHHHh--hHHHhHHHhhhhhHHHHHHHHHHHhhhHHHHHHHHH
Q 048095          156 QKSIRECKGELDSKERQLAVVQKRIGEC--NNELQLKENELNLVKTVVEHCLQKLNLKKEELSLLQ  219 (535)
Q Consensus       156 ~k~i~e~~~EL~~Kek~le~~~k~~~~~--~~~l~~k~k~l~~~~~~~~~~~kele~k~~~~~~~~  219 (535)
                      ++.+..+..++..-+.+++.++..+..-  .+.+....+++..+.+.+..|..++.....+++.+.
T Consensus       390 ~~~~~~~~~~~~~~e~el~~l~~~l~~~~~~e~i~~l~e~l~~l~~~l~~~~~~~~~~~~~~~~~~  455 (650)
T TIGR03185       390 QDAKSQLLKELRELEEELAEVDKKISTIPSEEQIAQLLEELGEAQNELFRSEAEIEELLRQLETLK  455 (650)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4445555555555555555555555432  234444444444444444444444444443333333

This model describes the DndB protein encoded by an operon associated with a sulfur-containing modification to DNA. The operon is sporadically distributed in bacteria, much like some restriction enzyme operons. DndD is described as a putative ATPase. The small number of examples known so far include species from among the Firmicutes, Actinomycetes, Proteobacteria, and Cyanobacteria.

>PF09755 DUF2046: Uncharacterized conserved protein H4 (DUF2046); InterPro: IPR019152 This is the conserved N-terminal 350 residues of a family of proteins of unknown function possibly containing a coiled-coil domain

Probab=89.45  E-value=31  Score=36.39  Aligned_cols=58  Identities=14%  Similarity=0.155  Sum_probs=39.4

Q ss_pred             hhhhccCCCCCcchhhHHHHHhhhCChHHHHHHHHHhhcchhhhHHhHHHHhhhCCCc
Q 048095          309 KKELEQPKSLTDNEETRLLSLQSMNNGRSLQLILNQHLQKHDLIFGQISQTLTKACDP  366 (535)
Q Consensus       309 ekq~e~~~~~~~~~~~~L~~lC~~MD~~gL~~fv~~~~k~~~~lr~Ev~~AL~~A~DP  366 (535)
                      +.++++|.|.|..|++....--.+-.+.++..+|..-+.+++.||..++.+=+.-.-|
T Consensus       198 q~~l~~~~s~~~s~~d~~~~~~~~Dt~e~~~shI~~Lr~EV~RLR~qL~~sq~e~~~k  255 (310)
T PF09755_consen  198 QEKLEQPVSAPPSPRDTVNVSEENDTAERLSSHIRSLRQEVSRLRQQLAASQQEHSEK  255 (310)
T ss_pred             HHHHccccCCCCCcchHHhhcccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3447778888888877543222233456777777777778889999988877655544

>PF07926 TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro: IPR012929 This domain is found in a number of proteins, including TPR protein (P12270 from SWISSPROT) and yeast myosin-like proteins 1 (MLP1, Q02455 from SWISSPROT) and 2 (MLP2, P40457 from SWISSPROT)

Probab=89.37  E-value=17  Score=33.27  Aligned_cols=89  Identities=19%  Similarity=0.200  Sum_probs=49.2

Q ss_pred             hhhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           12 NLKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSE   91 (535)
Q Consensus        12 ~~KL~~te~dLerved~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~E   91 (535)
                      ..++.....++.++...+.....++..+...+..........+..|+.--....+.-..|.....++..+...|..++..
T Consensus         2 ~~e~~~l~~e~~~~~~~~~~~~~~~~~~~~dl~~q~~~a~~Aq~~YE~El~~Ha~~~~~L~~lr~e~~~~~~~~~~l~~~   81 (132)
T PF07926_consen    2 ESELSSLQSELQRLKEQEEDAEEQLQSLREDLESQAKIAQEAQQKYERELVKHAEDIKELQQLREELQELQQEINELKAE   81 (132)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34566666677777777777777777776666666666666666664333333333344444444444444444444444


Q ss_pred             HHHHHHHHH
Q 048095           92 LQSKEIELG  100 (535)
Q Consensus        92 l~~~eeEL~  100 (535)
                      .......+.
T Consensus        82 ~~~a~~~l~   90 (132)
T PF07926_consen   82 AESAKAELE   90 (132)
T ss_pred             HHHHHHHHH
Confidence            444444443

These proteins share a number of features; for example, they all have coiled-coil regions and all three are associated with nuclear pores [, , ]. TPR is thought to be a component of nuclear pore complex- attached intranuclear filaments [], and is implicated in nuclear protein import []. Moreover, its N-terminal region is involved in the activation of oncogenic kinases, possibly by mediating the dimerisation of kinase domains or by targeting these kinases to the nuclear pore complex []. MLP1 and MLP2 are involved in the process of telomere length regulation, where they are thought to interact with proteins such as Tel1p and modulate their activity []. ; GO: 0006606 protein import into nucleus, 0005643 nuclear pore

>PF11932 DUF3450: Protein of unknown function (DUF3450); InterPro: IPR016866 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function

Probab=89.28  E-value=15  Score=37.21  Aligned_cols=76  Identities=17%  Similarity=0.158  Sum_probs=34.3

Q ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           16 QCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSE   91 (535)
Q Consensus        16 ~~te~dLerved~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~E   91 (535)
                      +++.+........-....+.++.+..+...+..+|..+..+++.++..+..++..+...+.++..++.+|++.+..
T Consensus        24 ~~~~~~~~~~~~~~~~sQ~~id~~~~e~~~L~~e~~~l~~e~e~L~~~~~~l~~~v~~q~~el~~L~~qi~~~~~~   99 (251)
T PF11932_consen   24 DQAQQVQQQWVQAAQQSQKRIDQWDDEKQELLAEYRQLEREIENLEVYNEQLERQVASQEQELASLEQQIEQIEET   99 (251)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333344444444444444444444444444444444444444444444444444444444444433

However, they are found in an operon along with components of a TonB transport system (typified by Vibrio cholerae TonB2 [], and are predicted to be localized to the periplasmic space. Caution: the low-complexity nature of these sequences produces spurious BLAST hits to chromosome segregation ATPases (which are much longer in length and contain canonical Walker motifs). Accordingly, some members are misidentified as such.

>PF04111 APG6: Autophagy protein Apg6; InterPro: IPR007243 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells

Probab=89.00  E-value=8.3  Score=40.63  Aligned_cols=6  Identities=33%  Similarity=0.512  Sum_probs=0.0

Q ss_pred             HHHHHH
Q 048095           15 LQCKER   20 (535)
Q Consensus        15 L~~te~   20 (535)
                      ++.+..
T Consensus        18 ~~~~~~   23 (314)
T PF04111_consen   18 LEQAEK   23 (314)
T ss_dssp             ------
T ss_pred             HHHHHH
Confidence            333333

In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. Apg6/Vps30p has two distinct functions in the autophagic process, either associated with the membrane or in a retrieval step of the carboxypeptidase Y sorting pathway [].; GO: 0006914 autophagy; PDB: 3Q8T_A 3VP7_A 4DDP_A.

>KOG0977 consensus Nuclear envelope protein lamin, intermediate filament superfamily [Cell cycle control, cell division, chromosome partitioning; Nuclear structure]

Probab=88.99  E-value=46  Score=37.77  Aligned_cols=105  Identities=18%  Similarity=0.181  Sum_probs=74.9

Q ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHH-HHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           17 CKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGEL-QSKQGELALVEKEIEESNSELQSK   95 (535)
Q Consensus        17 ~te~dLerved~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eI-e~~qkeIe~le~eIee~e~El~~~   95 (535)
                      .+...-.+=+..|.+++..+...-++.+-+..+=..|+.+|..++.....-.+.| ..+..++..+..-|++...+....
T Consensus        32 ~ir~sR~rEK~El~~LNDRLA~YIekVR~LEaqN~~L~~di~~lr~~~~~~ts~ik~~ye~El~~ar~~l~e~~~~ra~~  111 (546)
T KOG0977|consen   32 PIRDSREREKKELQELNDRLAVYIEKVRFLEAQNRKLEHDINLLRGVVGRETSGIKAKYEAELATARKLLDETARERAKL  111 (546)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCcchhHHhhhhHHHHHHHHHHHHHHHHHH
Confidence            3344444556777778888888888888888888888888887766655553333 345667777777777777777777


Q ss_pred             HHHHHHHHHHHhhhhhhHHHHHHhhh
Q 048095           96 EIELGLLQKRVGECNCELECKQQQLG  121 (535)
Q Consensus        96 eeEL~~lqk~l~E~~~el~~k~~~~~  121 (535)
                      +.++..+..++.++...++.+++...
T Consensus       112 e~ei~kl~~e~~elr~~~~~~~k~~~  137 (546)
T KOG0977|consen  112 EIEITKLREELKELRKKLEKAEKERR  137 (546)
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHh
Confidence            88888888888777777777766553

>PF08614 ATG16: Autophagy protein 16 (ATG16); InterPro: IPR013923 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells

Probab=88.76  E-value=3.2  Score=40.46  Aligned_cols=96  Identities=24%  Similarity=0.314  Sum_probs=34.2

Q ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           25 LEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGLLQK  104 (535)
Q Consensus        25 ved~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El~~~eeEL~~lqk  104 (535)
                      ..+.+..+...+..+...-.+....+..+...+..+...+.+....|..++..+..+..+|..+..++..+...+..+++
T Consensus        72 le~~~~~l~~ELael~r~~~el~~~L~~~~~~l~~l~~~~~~~~~~l~~l~~~~~~L~~~~~~l~~~l~ek~k~~e~l~D  151 (194)
T PF08614_consen   72 LEQKLAKLQEELAELYRSKGELAQQLVELNDELQELEKELSEKERRLAELEAELAQLEEKIKDLEEELKEKNKANEILQD  151 (194)
T ss_dssp             ------------------------------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cccccccccccccccccccccccccccccccccchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34445555555555555555555555566666666666666666666666666666666666666666666666666666


Q ss_pred             HHhhhhhhHHHHHHhh
Q 048095          105 RVGECNCELECKQQQL  120 (535)
Q Consensus       105 ~l~E~~~el~~k~~~~  120 (535)
                      .+..+.-++...+..+
T Consensus       152 E~~~L~l~~~~~e~k~  167 (194)
T PF08614_consen  152 ELQALQLQLNMLEEKL  167 (194)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            6666666665555444

In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. This entry represents auotphagy protein 16 (Apg16), which is required for the function of the Apg12p-Apg5p conjugate.; PDB: 3A7O_D 3A7P_B.

>KOG0971 consensus Microtubule-associated protein dynactin DCTN1/Glued [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]

Probab=88.42  E-value=64  Score=38.68  Aligned_cols=38  Identities=11%  Similarity=0.366  Sum_probs=22.5

Q ss_pred             hhhhHHHHHHHHHHHHHHHhHHHHHHHHHHHHhhhhhH
Q 048095          247 KDCSQQIELKEKKLRQIQSSIEECEKELAIKERHISDY  284 (535)
Q Consensus       247 ~~~~~~~~~kek~~~~~~~~~e~~~kel~~ke~~i~~~  284 (535)
                      .+...+|+...-.+++.+.+++--.+.+-.+..-|..+
T Consensus       493 ~DLreEld~~~g~~kel~~r~~aaqet~yDrdqTI~Kf  530 (1243)
T KOG0971|consen  493 LDLREELDMAKGARKELQKRVEAAQETVYDRDQTIKKF  530 (1243)
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHHHHHHhHHHHHHHH
Confidence            34555666666666666666666666655555544444

>KOG0979 consensus Structural maintenance of chromosome protein SMC5/Spr18, SMC superfamily [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=88.42  E-value=67  Score=38.87  Aligned_cols=66  Identities=15%  Similarity=0.111  Sum_probs=37.8

Q ss_pred             HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           28 RIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQ   93 (535)
Q Consensus        28 ~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El~   93 (535)
                      ...-++.++..+...|.-.+.+++.++.++.......++....+....+....+...+...+.+..
T Consensus       630 ~~~~~ee~~~~~~~~~~~~~~~~r~lee~~~k~~k~le~~~~~~~~~~~er~~~~~~~~~~~~r~~  695 (1072)
T KOG0979|consen  630 LDNRIEEEIQKLKAEIDIRSSTLRELEEKKQKERKELEEEQKKLKLLKRERTKLNSELKSYQQRKE  695 (1072)
T ss_pred             HHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            333444455555566666666666666666666666666666666666666655554444444333

>KOG0963 consensus Transcription factor/CCAAT displacement protein CDP1 [Transcription]

Probab=88.38  E-value=53  Score=37.67  Aligned_cols=47  Identities=26%  Similarity=0.290  Sum_probs=21.5

Q ss_pred             HHHHHHHHHHHhhHHHhHHHhhhhhHHHHHHHHHHHhhhHHHHHHHHH
Q 048095          172 QLAVVQKRIGECNNELQLKENELNLVKTVVEHCLQKLNLKKEELSLLQ  219 (535)
Q Consensus       172 ~le~~~k~~~~~~~~l~~k~k~l~~~~~~~~~~~kele~k~~~~~~~~  219 (535)
                      ..+.+...|.-..+++..+...+...++.++.. .+.+-.++++.-|.
T Consensus       311 e~e~~~~qI~~le~~l~~~~~~leel~~kL~~~-sDYeeIK~ELsiLk  357 (629)
T KOG0963|consen  311 EREKHKAQISALEKELKAKISELEELKEKLNSR-SDYEEIKKELSILK  357 (629)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-ccHHHHHHHHHHHH
Confidence            334444444444444444444444444444444 44444444444444

>PF10186 Atg14: UV radiation resistance protein and autophagy-related subunit 14; InterPro: IPR018791 Class III phosphatidylinositol 3-kinase (PI3-kinase) regulates multiple membrane trafficking

Probab=88.30  E-value=31  Score=34.90  Aligned_cols=8  Identities=38%  Similarity=0.380  Sum_probs=3.5

Q ss_pred             hHHHHhhh
Q 048095          355 QISQTLTK  362 (535)
Q Consensus       355 Ev~~AL~~  362 (535)
                      ++.+||..
T Consensus       196 ~isaALgy  203 (302)
T PF10186_consen  196 EISAALGY  203 (302)
T ss_pred             HHHHHHHH
Confidence            34444444

In yeast, two distinct PI3-kinase complexes are known: complex I (Vps34, Vps15, Vps30/Atg6, and Atg14) is involved in autophagy, and complex II (Vps34, Vps15, Vps30/Atg6, and Vps38) functions in the vacuolar protein sorting pathway. In mammals, the counterparts of Vps34, Vps15, and Vps30/Atg6 are Vps34, p150, and Beclin 1, respectively. Mammalian UV irradiation resistance-associated gene (UVRAG) has been identified as identical to yeast Vps38 []. The Atg14 (autophagy-related protein 14) proteins are hydrophilic proteins and have a coiled-coil motif at the N terminus region. Yeast cells with mutant Atg14 are defective not only in autophagy but also in sorting of carboxypeptidase Y (CPY), a vacuolar-soluble hydrolase, to the vacuole []. This entry represents Atg14 and UVRAG, which bind Beclin 1 to forms two distinct PI3-kinase complexes. This entry also includes Bakor (beclin-1-associated autophagy-related key regulator), also known as autophagy-related protein 14-like protein, which share sequence similarity to the yeast Atg14 protein []. Barkor positively regulates autophagy through its interaction with Beclin-1, with decreased levels of autophagosome formation observed when Barkor expression is eliminated []. Autophagy mediates the cellular response to nutrient deprivation, protein aggregation, and pathogen invasion in humans, and malfunction of autophagy has been implicated in multiple human diseases including cancer. ; GO: 0010508 positive regulation of autophagy

>PF10498 IFT57: Intra-flagellar transport protein 57 ; InterPro: IPR019530 Eukaryotic cilia and flagella are specialised organelles found at the periphery of cells of diverse organisms

Probab=88.23  E-value=18  Score=39.02  Aligned_cols=105  Identities=18%  Similarity=0.315  Sum_probs=61.7

Q ss_pred             cccchhhhhhhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Q 048095            4 RTNEIRGFNLKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEK   83 (535)
Q Consensus         4 ~~~~~~~~~~KL~~te~dLerved~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~   83 (535)
                      |+.. ++-..-|+++..-...+.....+...+++.+...+...-..+...|+-|   .++++..-.++...+.++..++.
T Consensus       212 ~~d~-kDWR~hleqm~~~~~~I~~~~~~~~~~L~kl~~~i~~~lekI~sREk~i---N~qle~l~~eYr~~~~~ls~~~~  287 (359)
T PF10498_consen  212 RADA-KDWRSHLEQMKQHKKSIESALPETKSQLDKLQQDISKTLEKIESREKYI---NNQLEPLIQEYRSAQDELSEVQE  287 (359)
T ss_pred             cCCc-chHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHhHHHHHHHHHHHHHHHHHHH
Confidence            3443 6667778888888888888888888888887777666666666666554   23444444455555555555555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 048095           84 EIEESNSELQSKEIELGLLQKRVGECNCE  112 (535)
Q Consensus        84 eIee~e~El~~~eeEL~~lqk~l~E~~~e  112 (535)
                      +.++..........+|..+...+...-.+
T Consensus       288 ~y~~~s~~V~~~t~~L~~IseeLe~vK~e  316 (359)
T PF10498_consen  288 KYKQASEGVSERTRELAEISEELEQVKQE  316 (359)
T ss_pred             HHHHHhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            55554444444444444444443333333

Intra-flagellar transport (IFT) is required for the assembly and maintenance of eukaryotic cilia and flagella, and consists of the bi-directional movement of large protein particles between the base and the distal tip of the organelle. IFT particles contain multiple copies of two distinct protein complexes, A and B, which contain at least 6 and 11 protein subunits. IFT57 is part of complex B but is not, however, required for the core subunits to stay associated []. This protein is known as Huntington-interacting protein-1 in humans.

>PF15070 GOLGA2L5: Putative golgin subfamily A member 2-like protein 5

Probab=88.16  E-value=56  Score=37.74  Aligned_cols=42  Identities=17%  Similarity=0.203  Sum_probs=31.2

Q ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           24 FLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIR   65 (535)
Q Consensus        24 rved~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIe   65 (535)
                      ...+.+..+..++.+|.++.......+..|+.+|..++.++.
T Consensus        26 ~~qqr~~qmseev~~L~eEk~~~~~~V~eLE~sL~eLk~q~~   67 (617)
T PF15070_consen   26 QWQQRMQQMSEEVRTLKEEKEHDISRVQELERSLSELKNQMA   67 (617)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            356777788888888888888888888888888866644443

>PF10481 CENP-F_N: Cenp-F N-terminal domain; InterPro: IPR018463 Mitosin or centromere-associated protein-F (Cenp-F) is found bound across the centromere as one of the proteins of the outer layer of the kinetochore []

Probab=88.12  E-value=26  Score=36.30  Aligned_cols=77  Identities=17%  Similarity=0.122  Sum_probs=58.1

Q ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           24 FLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELG  100 (535)
Q Consensus        24 rved~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El~~~eeEL~  100 (535)
                      ++-..|.|++.+++.|.......+=++..+++.|+.-++..++.+.++..+.++...+...-++++.....+.-+|.
T Consensus        15 ~aLqKIqelE~QldkLkKE~qQrQfQleSlEAaLqKQKqK~e~ek~e~s~LkREnq~l~e~c~~lek~rqKlshdlq   91 (307)
T PF10481_consen   15 RALQKIQELEQQLDKLKKERQQRQFQLESLEAALQKQKQKVEEEKNEYSALKRENQSLMESCENLEKTRQKLSHDLQ   91 (307)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhHHHHHHHHHHHHHHhhHHHh
Confidence            45567889999999998888888888999999988888888888888888877777666666655555444444433

Most of the kinetochore/centromere functions appear to depend upon binding of the C-terminal part of the molecule, whereas the N-terminal part, here, may be a cytoplasmic player in controlling the function of microtubules and dynein [].

>PF07926 TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro: IPR012929 This domain is found in a number of proteins, including TPR protein (P12270 from SWISSPROT) and yeast myosin-like proteins 1 (MLP1, Q02455 from SWISSPROT) and 2 (MLP2, P40457 from SWISSPROT)

Probab=87.54  E-value=23  Score=32.47  Aligned_cols=45  Identities=31%  Similarity=0.259  Sum_probs=22.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Q 048095           45 ECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESN   89 (535)
Q Consensus        45 Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e   89 (535)
                      +....+..+..++..++..|.+++.........+...+..+..-+
T Consensus        56 ~~~~~L~~lr~e~~~~~~~~~~l~~~~~~a~~~l~~~e~sw~~qk  100 (132)
T PF07926_consen   56 EDIKELQQLREELQELQQEINELKAEAESAKAELEESEASWEEQK  100 (132)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHH
Confidence            344444555555555555555555555555555555554444433

These proteins share a number of features; for example, they all have coiled-coil regions and all three are associated with nuclear pores [, , ]. TPR is thought to be a component of nuclear pore complex- attached intranuclear filaments [], and is implicated in nuclear protein import []. Moreover, its N-terminal region is involved in the activation of oncogenic kinases, possibly by mediating the dimerisation of kinase domains or by targeting these kinases to the nuclear pore complex []. MLP1 and MLP2 are involved in the process of telomere length regulation, where they are thought to interact with proteins such as Tel1p and modulate their activity []. ; GO: 0006606 protein import into nucleus, 0005643 nuclear pore

>PF05266 DUF724: Protein of unknown function (DUF724); InterPro: IPR007930 This family contains several uncharacterised proteins found exclusively in Arabidopsis thaliana

Probab=87.05  E-value=25  Score=34.51  Aligned_cols=83  Identities=12%  Similarity=0.162  Sum_probs=50.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHh
Q 048095           40 QKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNCELECKQQQ  119 (535)
Q Consensus        40 aek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El~~~eeEL~~lqk~l~E~~~el~~k~~~  119 (535)
                      ..++..+..+...++..+.+......+.+..|..++..|..++...............++..++..++.+..++.+.+.+
T Consensus       102 k~~~~~~~e~~k~le~~~~~~~~~~~~~e~~i~~Le~ki~el~~~~~~~~~~ke~~~~ei~~lks~~~~l~~~~~~~e~~  181 (190)
T PF05266_consen  102 KDDQEKLLEERKKLEKKIEEKEAELKELESEIKELEMKILELQRQAAKLKEKKEAKDKEISRLKSEAEALKEEIENAELE  181 (190)
T ss_pred             HHhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55555566666666666655544444445555555555555555555555556666677777777777777777776666


Q ss_pred             hhh
Q 048095          120 LGL  122 (535)
Q Consensus       120 ~~~  122 (535)
                      |..
T Consensus       182 F~~  184 (190)
T PF05266_consen  182 FQS  184 (190)
T ss_pred             HHH
Confidence            643

>TIGR02680 conserved hypothetical protein TIGR02680

Probab=86.64  E-value=1e+02  Score=39.00  Aligned_cols=25  Identities=8%  Similarity=-0.053  Sum_probs=14.0

Q ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHH
Q 048095           15 LQCKERQLRFLEKRIGESKGELALV   39 (535)
Q Consensus        15 L~~te~dLerved~i~ElEkqle~L   39 (535)
                      |...=.+++++++.+.+++..+..|
T Consensus       225 l~e~~~~~~~~~~~le~l~~~~~~l  249 (1353)
T TIGR02680       225 VADALEQLDEYRDELERLEALERAL  249 (1353)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444455556666666666555555

Members of this protein family belong to a conserved gene four-gene neighborhood found sporadically in a phylogenetically broad range of bacteria: Nocardia farcinica, Symbiobacterium thermophilum, and Streptomyces avermitilis (Actinobacteria), Geobacillus kaustophilus (Firmicutes), Azoarcus sp. EbN1 and Ralstonia solanacearum (Betaproteobacteria). Proteins in this family average over 1400 amino acids in length.

>PF09730 BicD: Microtubule-associated protein Bicaudal-D; InterPro: IPR018477 BicD proteins consist of three coiled-coiled domains and are involved in dynein-mediated minus end-directed transport from the Golgi apparatus to the endoplasmic reticulum (ER) []

Probab=86.60  E-value=62  Score=38.03  Aligned_cols=175  Identities=22%  Similarity=0.246  Sum_probs=95.6

Q ss_pred             ccchhhhhhhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHH-HHHH---------
Q 048095            5 TNEIRGFNLKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGE-LQSK---------   74 (535)
Q Consensus         5 ~~~~~~~~~KL~~te~dLerved~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~e-Ie~~---------   74 (535)
                      .++|..+..+|.+++.+-..+-..+.+...+++.-+..+.+....+..|-..+..+..-....+.. ....         
T Consensus       264 ~~EiqKL~qQL~qve~EK~~L~~~L~e~Q~qLe~a~~als~q~eki~~L~e~l~aL~~l~~~ke~~~~~d~~~~~~s~~d  343 (717)
T PF09730_consen  264 LSEIQKLKQQLLQVEREKSSLLSNLQESQKQLEHAQGALSEQQEKINRLTEQLDALRKLQEDKEQQSAEDSEKERDSHED  343 (717)
T ss_pred             hHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccchhhhhhhhcccccccccc
Confidence            456777777777777777777777777777777776666666666666666666664421111100 0000         


Q ss_pred             ----H---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHhhhhhhhHHHHHhhhhhhhHHHHHHhhhh
Q 048095           75 ----Q---GELALVEKEIEESNSELQSKEIELGLLQKRVGECNCELECKQQQLGLAQSEEDLLKNSLKNSIEHWSQKLNL  147 (535)
Q Consensus        75 ----q---keIe~le~eIee~e~El~~~eeEL~~lqk~l~E~~~el~~k~~~~~~~~~~~~l~~~~~k~~v~~~~~~~~~  147 (535)
                          .   ..++.++..+...-.+...+..+|+.+...++.+..                     ..+.....|..++..
T Consensus       344 ~~~ye~Di~~~eiLe~Ky~vav~Ev~~Lk~ELk~Lk~k~~~~~~---------------------~~~~ek~~~~~e~q~  402 (717)
T PF09730_consen  344 GDYYEVDINGLEILECKYKVAVSEVIQLKAELKALKSKYNELEE---------------------RYKQEKDRLESEVQN  402 (717)
T ss_pred             cchhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------------------HHHHHHHHHHHHHHH
Confidence                0   001112222222222222222222222222211111                     122222344444555


Q ss_pred             hHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhhHHHhHHHhhhhhHHHH
Q 048095          148 TKEELSLLQKSIRECKGELDSKERQLAVVQKRIGECNNELQLKENELNLVKTV  200 (535)
Q Consensus       148 ~~~eL~~~~k~i~e~~~EL~~Kek~le~~~k~~~~~~~~l~~k~k~l~~~~~~  200 (535)
                      ...++.+..+..++-...+..-+++|..+....+.....|.+-.-+|..+.+.
T Consensus       403 L~ekl~~lek~~re~qeri~~LE~ELr~l~~~A~E~q~~LnsAQDELvtfSEe  455 (717)
T PF09730_consen  403 LKEKLMSLEKSSREDQERISELEKELRALSKLAGESQGSLNSAQDELVTFSEE  455 (717)
T ss_pred             HHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Confidence            55667777777766666777778888888888888888888877777776665

Glycogen synthase kinase-3beta (GSK-3beta) is required for the binding of BICD to dynein but not to dynactin, acting to maintain the anchoring of microtubules to the centromere []. It appears that amino-acid residues 437-617 of BicD and the kinase activity of GSK-3 are necessary for the formation of a complex between BicD and GSK-3beta in intact cells [].; GO: 0006810 transport, 0005794 Golgi apparatus

>PRK10884 SH3 domain-containing protein; Provisional

Probab=86.58  E-value=13  Score=37.00  Aligned_cols=21  Identities=14%  Similarity=0.264  Sum_probs=9.1

Q ss_pred             hhHHHHHHHHHHHHHHHHhHH
Q 048095           13 LKLQCKERQLRFLEKRIGESK   33 (535)
Q Consensus        13 ~KL~~te~dLerved~i~ElE   33 (535)
                      .+|...+++|..+++.+.++.
T Consensus        93 ~rlp~le~el~~l~~~l~~~~  113 (206)
T PRK10884         93 TRVPDLENQVKTLTDKLNNID  113 (206)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444444444443

>PF09730 BicD: Microtubule-associated protein Bicaudal-D; InterPro: IPR018477 BicD proteins consist of three coiled-coiled domains and are involved in dynein-mediated minus end-directed transport from the Golgi apparatus to the endoplasmic reticulum (ER) []

Probab=86.20  E-value=77  Score=37.26  Aligned_cols=102  Identities=23%  Similarity=0.101  Sum_probs=70.1

Q ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           19 ERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIE   98 (535)
Q Consensus        19 e~dLerved~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El~~~eeE   98 (535)
                      ..-..+=+..+.|--..-..+..++.++..++..+...+...+.+.+.+......+....+.++.+...++.+++....+
T Consensus        12 ~~g~~~Ee~Ll~esa~~E~~~~~~i~~l~~elk~~~~~~~~~~~e~~rl~~~~~~~~~~~~~~e~~~~~lr~e~ke~K~r   91 (717)
T PF09730_consen   12 KDGEEREESLLQESASKEAYLQQRILELENELKQLRQELSNVQAENERLSQLNQELRKECEDLELERKRLREEIKEYKFR   91 (717)
T ss_pred             hcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34445556667777777777777777777777777777777777777777777777777777777777777777666666


Q ss_pred             HHHHHHHHhhhhhhHHHHHHhh
Q 048095           99 LGLLQKRVGECNCELECKQQQL  120 (535)
Q Consensus        99 L~~lqk~l~E~~~el~~k~~~~  120 (535)
                      =.++-.++.++..|-+|-+|..
T Consensus        92 E~rll~dyselEeENislQKqv  113 (717)
T PF09730_consen   92 EARLLQDYSELEEENISLQKQV  113 (717)
T ss_pred             HHHHhhhhHHHHHHHHHHHHHH
Confidence            6666666666666666666433

Glycogen synthase kinase-3beta (GSK-3beta) is required for the binding of BICD to dynein but not to dynactin, acting to maintain the anchoring of microtubules to the centromere []. It appears that amino-acid residues 437-617 of BicD and the kinase activity of GSK-3 are necessary for the formation of a complex between BicD and GSK-3beta in intact cells [].; GO: 0006810 transport, 0005794 Golgi apparatus

>PF12329 TMF_DNA_bd: TATA element modulatory factor 1 DNA binding; InterPro: IPR022092 This is the middle region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes that contains at its N-terminal section a number of leucine zippers that could potentially form coiled coil structures

Probab=85.82  E-value=9  Score=31.91  Aligned_cols=68  Identities=21%  Similarity=0.314  Sum_probs=42.0

Q ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           25 LEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSEL   92 (535)
Q Consensus        25 ved~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El   92 (535)
                      +.+.|.|-..++..|...-..+....-.....+..++..+.+.+..+..+...++..+.++..++..+
T Consensus         3 l~~~l~EKDe~Ia~L~eEGekLSk~el~~~~~IKKLr~~~~e~e~~~~~l~~~~~~~e~~~~~l~~~l   70 (74)
T PF12329_consen    3 LEKKLAEKDEQIAQLMEEGEKLSKKELKLNNTIKKLRAKIKELEKQIKELKKKLEELEKELESLEERL   70 (74)
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            44556666666666666666666666666666666666666666666666666666666666555443

The whole proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant [] cells.

>PF13851 GAS: Growth-arrest specific micro-tubule binding

Probab=85.76  E-value=39  Score=33.38  Aligned_cols=20  Identities=15%  Similarity=0.351  Sum_probs=10.6

Q ss_pred             HHHHHHHHHHHHHhhHHHhH
Q 048095          170 ERQLAVVQKRIGECNNELQL  189 (535)
Q Consensus       170 ek~le~~~k~~~~~~~~l~~  189 (535)
                      |+.+..+...++....+|.+
T Consensus       149 EkKl~~l~~~lE~keaqL~e  168 (201)
T PF13851_consen  149 EKKLQALSEQLEKKEAQLNE  168 (201)
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            44455555555555555553

>PF10498 IFT57: Intra-flagellar transport protein 57 ; InterPro: IPR019530 Eukaryotic cilia and flagella are specialised organelles found at the periphery of cells of diverse organisms

Probab=85.62  E-value=27  Score=37.58  Aligned_cols=53  Identities=23%  Similarity=0.370  Sum_probs=22.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           40 QKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSEL   92 (535)
Q Consensus        40 aek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El   92 (535)
                      ..++..+..+|......|.+++....+..+.+....+++..+..+++..+.++
T Consensus       265 N~qle~l~~eYr~~~~~ls~~~~~y~~~s~~V~~~t~~L~~IseeLe~vK~em  317 (359)
T PF10498_consen  265 NNQLEPLIQEYRSAQDELSEVQEKYKQASEGVSERTRELAEISEELEQVKQEM  317 (359)
T ss_pred             HHHhHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444444444444444444444444444444444444444333

Intra-flagellar transport (IFT) is required for the assembly and maintenance of eukaryotic cilia and flagella, and consists of the bi-directional movement of large protein particles between the base and the distal tip of the organelle. IFT particles contain multiple copies of two distinct protein complexes, A and B, which contain at least 6 and 11 protein subunits. IFT57 is part of complex B but is not, however, required for the core subunits to stay associated []. This protein is known as Huntington-interacting protein-1 in humans.

>PF10168 Nup88: Nuclear pore component; InterPro: IPR019321 Nup88 can be divided into two structural domains; the N-terminal two-thirds of the protein have no obvious structural motifs

Probab=85.61  E-value=83  Score=37.07  Aligned_cols=53  Identities=9%  Similarity=0.104  Sum_probs=28.1

Q ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           53 KEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGLLQKR  105 (535)
Q Consensus        53 LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El~~~eeEL~~lqk~  105 (535)
                      ...--.+++..+..++.+++..-.++..++++++.++..-..+.+++....+.
T Consensus       556 ~~~ar~ei~~rv~~Lk~~~e~Ql~~L~~l~e~~~~l~~~ae~LaeR~e~a~d~  608 (717)
T PF10168_consen  556 QDLAREEIQRRVKLLKQQKEQQLKELQELQEERKSLRESAEKLAERYEEAKDK  608 (717)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344555566666666666666666666666555554444444444444333

It is, however, where it binds to Nup98; one of the components of the nuclear pore. The C-terminal end is a predicted coiled-coil domain []. Nup88 is over expressed in tumour cells [].

>KOG0980 consensus Actin-binding protein SLA2/Huntingtin-interacting protein Hip1 [Cytoskeleton]

Probab=85.57  E-value=88  Score=37.37  Aligned_cols=58  Identities=17%  Similarity=0.269  Sum_probs=37.3

Q ss_pred             HhhhhhHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhhHHHhHHHhhhhhHHHH
Q 048095          143 QKLNLTKEELSLLQKSIRECKGELDSKERQLAVVQKRIGECNNELQLKENELNLVKTV  200 (535)
Q Consensus       143 ~~~~~~~~eL~~~~k~i~e~~~EL~~Kek~le~~~k~~~~~~~~l~~k~k~l~~~~~~  200 (535)
                      .++.--++++++.++++.+...+......+++.++..-..-....++..+.+.+.+..
T Consensus       445 ~K~~di~kQle~~~~s~~~~~~~~~~L~d~le~~~~~~~~~~~K~e~~~~~le~l~~E  502 (980)
T KOG0980|consen  445 RKYDDIQKQLESAEQSIDDVEEENTNLNDQLEELQRAAGRAETKTESQAKALESLRQE  502 (980)
T ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            5566666788888888876666666666666666666655555555555555554443

>PF14662 CCDC155: Coiled-coil region of CCDC155

Probab=85.55  E-value=39  Score=33.30  Aligned_cols=77  Identities=18%  Similarity=0.124  Sum_probs=44.2

Q ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           29 IGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALV---EKEIEESNSELQSKEIELGLLQKR  105 (535)
Q Consensus        29 i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~l---e~eIee~e~El~~~eeEL~~lqk~  105 (535)
                      |.+++..-..|+..+..++..+...+.-=..+..+|..+...+.+.+..+..+   ..++++++......+.+-+.+..+
T Consensus        10 v~dL~~~n~~L~~en~kL~~~ve~~ee~na~L~~e~~~L~~q~~s~Qqal~~aK~l~eEledLk~~~~~lEE~~~~L~aq   89 (193)
T PF14662_consen   10 VEDLQLNNQKLADENAKLQRSVETAEEGNAQLAEEITDLRKQLKSLQQALQKAKALEEELEDLKTLAKSLEEENRSLLAQ   89 (193)
T ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34445555556666666666666666655666666666666666666555555   555555555554444444444443

>KOG1003 consensus Actin filament-coating protein tropomyosin [Cytoskeleton]

Probab=85.52  E-value=40  Score=33.38  Aligned_cols=103  Identities=17%  Similarity=0.282  Sum_probs=55.7

Q ss_pred             cchhhhhhhHHHHHHHHHHHHHHHHhHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHHH-------HHHH
Q 048095            6 NEIRGFNLKLQCKERQLRFLEKRIGESKGELALVQK--------------EIEECNSELWCKEKELGLV-------QKRI   64 (535)
Q Consensus         6 ~~~~~~~~KL~~te~dLerved~i~ElEkqle~Lae--------------k~~Elk~EL~~LE~eLeeL-------K~eI   64 (535)
                      ..+...|.++...+.+|+|-++.+.....++.....              +-......+..++.++.+.       -+.-
T Consensus         4 ~~va~lnrri~~leeele~aqErl~~a~~KL~Eaeq~~dE~er~~Kv~enr~~kdEE~~e~~e~qLkEAk~iaE~adrK~   83 (205)
T KOG1003|consen    4 ADVAALNRRIQLLEEELDRAQERLATALQKLEEAEQAADESERGMKVIENRAQKLEEKMEAQEAQLKEAKHIAEKADRKY   83 (205)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            456677788888888888888887777777766622              3333334444444444322       2333


Q ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 048095           65 RGCNGELQSKQGELALVEKEIEESNSELQSKEIELGLLQKRVGE  108 (535)
Q Consensus        65 eE~e~eIe~~qkeIe~le~eIee~e~El~~~eeEL~~lqk~l~E  108 (535)
                      +++-..+.....+++..+...+...+....+..+++.+..++..
T Consensus        84 eEVarkL~iiE~dLE~~eeraE~~Es~~~eLeEe~~~~~~nlk~  127 (205)
T KOG1003|consen   84 EEVARKLVIIEGELERAEERAEAAESQSEELEEDLRILDSNLKS  127 (205)
T ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhHhHHHH
Confidence            34444444444444444444444444444555555544444433

>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences

Probab=85.49  E-value=13  Score=35.30  Aligned_cols=65  Identities=23%  Similarity=0.289  Sum_probs=36.8

Q ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHhHHHHHHHHHHHHHHHH
Q 048095           19 ERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKEL--GLVQKRIRGCNGELQSKQGELALVEK   83 (535)
Q Consensus        19 e~dLerved~i~ElEkqle~Laek~~Elk~EL~~LE~eL--eeLK~eIeE~e~eIe~~qkeIe~le~   83 (535)
                      ..++..+...|.++..++..+...+..+..++..+...+  .++...|.+++.++..++..+..+..
T Consensus        71 ~eel~~ld~ei~~L~~el~~l~~~~k~l~~eL~~L~~~~t~~el~~~i~~l~~e~~~l~~kL~~l~~  137 (169)
T PF07106_consen   71 PEELAELDAEIKELREELAELKKEVKSLEAELASLSSEPTNEELREEIEELEEEIEELEEKLEKLRS  137 (169)
T ss_pred             chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            344555555555555555555555555555555555555  45566666666665555555555554

TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].

>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]

Probab=84.70  E-value=11  Score=37.96  Aligned_cols=78  Identities=23%  Similarity=0.158  Sum_probs=39.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHH
Q 048095           40 QKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNCELECKQ  117 (535)
Q Consensus        40 aek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El~~~eeEL~~lqk~l~E~~~el~~k~  117 (535)
                      .+.|.+|+..+.++.++-+++..+..++++++...+..+..++.+...++..+....-+...+.+.+.++.-.+++-+
T Consensus       134 ke~~ee~kekl~E~~~EkeeL~~eleele~e~ee~~erlk~le~E~s~LeE~~~~l~~ev~~L~~r~~ELe~~~El~e  211 (290)
T COG4026         134 KEDYEELKEKLEELQKEKEELLKELEELEAEYEEVQERLKRLEVENSRLEEMLKKLPGEVYDLKKRWDELEPGVELPE  211 (290)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchhHHHHHHHHHHHhcccccchH
Confidence            344555555555555555555555555555555555555555555544444444444455555555555555444433

>PF06160 EzrA: Septation ring formation regulator, EzrA ; InterPro: IPR010379 During the bacterial cell cycle, the tubulin-like cell-division protein FtsZ polymerises into a ring structure that establishes the location of the nascent division site

Probab=84.34  E-value=81  Score=35.89  Aligned_cols=51  Identities=22%  Similarity=0.205  Sum_probs=29.9

Q ss_pred             chhhhhhhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095            7 EIRGFNLKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKEL   57 (535)
Q Consensus         7 ~~~~~~~KL~~te~dLerved~i~ElEkqle~Laek~~Elk~EL~~LE~eL   57 (535)
                      .|......|+.++.++.++.+.+.++...-..-...+.++...+..+.+.+
T Consensus       102 ~i~~~~~~l~~~e~~i~~i~~~l~~L~~~e~~nr~~i~~l~~~y~~lrk~l  152 (560)
T PF06160_consen  102 AIKEIEEQLDEIEEDIKEILDELDELLESEEKNREEIEELKEKYRELRKEL  152 (560)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345555566666666666666666666555555555555555555555555

EzrA modulates the frequency and position of FtsZ ring formation [].; GO: 0000921 septin ring assembly, 0005940 septin ring, 0016021 integral to membrane

>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]

Probab=84.13  E-value=12  Score=37.72  Aligned_cols=74  Identities=27%  Similarity=0.184  Sum_probs=37.7

Q ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           25 LEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIE   98 (535)
Q Consensus        25 ved~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El~~~eeE   98 (535)
                      +.....++..+++.++....++..++.+++.++++++.++..++.+.+.+...+..+..+...++.+...++..
T Consensus       133 ~ke~~ee~kekl~E~~~EkeeL~~eleele~e~ee~~erlk~le~E~s~LeE~~~~l~~ev~~L~~r~~ELe~~  206 (290)
T COG4026         133 LKEDYEELKEKLEELQKEKEELLKELEELEAEYEEVQERLKRLEVENSRLEEMLKKLPGEVYDLKKRWDELEPG  206 (290)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchhHHHHHHHHHHHhccc
Confidence            34444555555555555555555555555555555555555555555555555444444444444444444333

>COG2433 Uncharacterized conserved protein [Function unknown]

Probab=84.11  E-value=21  Score=40.72  Aligned_cols=18  Identities=28%  Similarity=0.342  Sum_probs=8.3

Q ss_pred             HHHHHHHHHHhhhhhhHH
Q 048095           97 IELGLLQKRVGECNCELE  114 (535)
Q Consensus        97 eEL~~lqk~l~E~~~el~  114 (535)
                      .+++.+...++.+.++|.
T Consensus       474 rei~~~~~~I~~L~~~L~  491 (652)
T COG2433         474 REIRARDRRIERLEKELE  491 (652)
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            334444444444444444

>PF02050 FliJ: Flagellar FliJ protein; InterPro: IPR012823 Many flagellar proteins are exported by a flagellum-specific export pathway

Probab=83.99  E-value=26  Score=29.92  Aligned_cols=48  Identities=21%  Similarity=0.273  Sum_probs=22.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHH
Q 048095           70 ELQSKQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNCELECKQ  117 (535)
Q Consensus        70 eIe~~qkeIe~le~eIee~e~El~~~eeEL~~lqk~l~E~~~el~~k~  117 (535)
                      .+.....-+..+...|...+..+.....++......+.+...+....+
T Consensus        46 ~~~~~~~~~~~l~~~i~~~~~~~~~~~~~~~~~r~~l~~a~~~~k~~e   93 (123)
T PF02050_consen   46 QLRNYQRYISALEQAIQQQQQELERLEQEVEQAREELQEARRERKKLE   93 (123)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333444444444444444444444444444444444444444444333

Attempts have been made to characterise the apparatus responsible for this process, by designing assays to screen for mutants with export defects []. Experiments involving filament removal from temperature-sensitive flagellar mutants of Salmonella typhimurium have shown that, while most mutants were able to regrow filaments, flhA, fliH, fliI and fliN mutants showed no or greatly reduced regrowth. This suggests that the corresponding gene products are involved in the process of flagellum-specific export. The sequences of fliH, fliI and the adjacent gene, fliJ, have been deduced. FliJ was shown to encode a protein of molecular mass 17,302 Da []. It is a membrane-associated protein that affects chemotactic events, mutations in FliJ result in failure to respond to chemotactic stimuli.; GO: 0003774 motor activity, 0001539 ciliary or flagellar motility, 0006935 chemotaxis, 0009288 bacterial-type flagellum, 0016020 membrane, 0044461 bacterial-type flagellum part; PDB: 3AJW_A.

>PRK10869 recombination and repair protein; Provisional

Probab=83.79  E-value=85  Score=35.69  Aligned_cols=28  Identities=14%  Similarity=0.124  Sum_probs=13.9

Q ss_pred             HHHhHHHhhhhhHHHHHHHHHHHhhhHH
Q 048095          185 NELQLKENELNLVKTVVEHCLQKLNLKK  212 (535)
Q Consensus       185 ~~l~~k~k~l~~~~~~~~~~~kele~k~  212 (535)
                      +.++..++++....+.+..+...|..++
T Consensus       341 ~~l~~Le~e~~~l~~~l~~~A~~LS~~R  368 (553)
T PRK10869        341 DDLETLALAVEKHHQQALETAQKLHQSR  368 (553)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444555555555555555

>PF07889 DUF1664: Protein of unknown function (DUF1664); InterPro: IPR012458 The members of this family are hypothetical plant proteins of unknown function

Probab=83.25  E-value=22  Score=32.78  Aligned_cols=76  Identities=16%  Similarity=0.173  Sum_probs=37.8

Q ss_pred             hhhhhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 048095           10 GFNLKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEES   88 (535)
Q Consensus        10 ~~~~KL~~te~dLerved~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~   88 (535)
                      ...+.|++.-.-|...++.+.   ..++.+-.++++..+-......++.+++..+..+..++...+..+..++.+|..+
T Consensus        47 ~v~kql~~vs~~l~~tKkhLs---qRId~vd~klDe~~ei~~~i~~eV~~v~~dv~~i~~dv~~v~~~V~~Le~ki~~i  122 (126)
T PF07889_consen   47 SVSKQLEQVSESLSSTKKHLS---QRIDRVDDKLDEQKEISKQIKDEVTEVREDVSQIGDDVDSVQQMVEGLEGKIDEI  122 (126)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH---HHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334455555555444444332   4444455555555544455555555555555555555555555555555554443

The region featured in this family is approximately 100 amino acids long.

>KOG0946 consensus ER-Golgi vesicle-tethering protein p115 [Intracellular trafficking, secretion, and vesicular transport]

Probab=83.09  E-value=1.1e+02  Score=36.41  Aligned_cols=16  Identities=25%  Similarity=0.358  Sum_probs=6.6

Q ss_pred             chhhhhhhHHHHHHHH
Q 048095            7 EIRGFNLKLQCKERQL   22 (535)
Q Consensus         7 ~~~~~~~KL~~te~dL   22 (535)
                      +.+|...|+-.-..+.
T Consensus       626 ele~~i~k~ls~~~ee  641 (970)
T KOG0946|consen  626 ELEGLIAKLLSSKTEE  641 (970)
T ss_pred             HHHHHHHHHhcCCCcc
Confidence            3444444444433333

>TIGR01843 type_I_hlyD type I secretion membrane fusion protein, HlyD family

Probab=83.02  E-value=68  Score=34.01  Aligned_cols=47  Identities=13%  Similarity=0.157  Sum_probs=22.1

Q ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           56 ELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGLL  102 (535)
Q Consensus        56 eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El~~~eeEL~~l  102 (535)
                      ....+..++...+.++...+.++..++..+...+..+.....++...
T Consensus       138 ~~~~~~~~~~~l~~~i~~~~~~i~~~~~~l~~~~~~l~~~~~~~~~~  184 (423)
T TIGR01843       138 RKSTLRAQLELILAQIKQLEAELAGLQAQLQALRQQLEVISEELEAR  184 (423)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344444444444444444444444444444444444444444444

Type I secretion is an ABC transport process that exports proteins, without cleavage of any signal sequence, from the cytosol to extracellular medium across both inner and outer membranes. The secretion signal is found in the C-terminus of the transported protein. This model represents the adaptor protein between the ATP-binding cassette (ABC) protein of the inner membrane and the outer membrane protein, and is called the membrane fusion protein. This model selects a subfamily closely related to HlyD; it is defined narrowly and excludes, for example, colicin V secretion protein CvaA and multidrug efflux proteins.

>COG4372 Uncharacterized protein conserved in bacteria with the myosin-like domain [Function unknown]

Probab=83.00  E-value=76  Score=34.59  Aligned_cols=36  Identities=17%  Similarity=0.152  Sum_probs=16.7

Q ss_pred             HHHhhhhHHHHHHHHHHHHHHHhhHHHhHHHhhhhh
Q 048095          161 ECKGELDSKERQLAVVQKRIGECNNELQLKENELNL  196 (535)
Q Consensus       161 e~~~EL~~Kek~le~~~k~~~~~~~~l~~k~k~l~~  196 (535)
                      ....+|+..-++.+-..+.+..+.|..++..++|..
T Consensus       186 ~~~~~L~~r~~~ieQ~~~~la~r~~a~q~r~~ela~  221 (499)
T COG4372         186 SQVLDLKLRSAQIEQEAQNLATRANAAQARTEELAR  221 (499)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333444444444444444444445555555555533

>KOG4360 consensus Uncharacterized coiled coil protein [Function unknown]

Probab=82.94  E-value=73  Score=35.87  Aligned_cols=179  Identities=15%  Similarity=0.148  Sum_probs=81.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHhhhhh
Q 048095           44 EECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNCELECKQQQLGLA  123 (535)
Q Consensus        44 ~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El~~~eeEL~~lqk~l~E~~~el~~k~~~~~~~  123 (535)
                      ....+++.....+...+-++|...+.++..+.-+.+.+..-+..+...-....-++..+++...|++-.+.-.+.++...
T Consensus       222 ~~kt~el~~q~Ee~skLlsql~d~qkk~k~~~~Ekeel~~~Lq~~~da~~ql~aE~~EleDkyAE~m~~~~EaeeELk~l  301 (596)
T KOG4360|consen  222 QSKTKELSRQQEENSKLLSQLVDLQKKIKYLRHEKEELDEHLQAYKDAQRQLTAELEELEDKYAECMQMLHEAEEELKCL  301 (596)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            33333333333333444444444444444444444444444444455555555555555555555555554444333221


Q ss_pred             --hhHHHHHhhhhhhhHHHHHHhhhhhHHHHHHHHH--HHHHHHhhhhHHHHHHHHHHHHHHHhhHHHhHHHhhhhhHHH
Q 048095          124 --QSEEDLLKNSLKNSIEHWSQKLNLTKEELSLLQK--SIRECKGELDSKERQLAVVQKRIGECNNELQLKENELNLVKT  199 (535)
Q Consensus       124 --~~~~~l~~~~~k~~v~~~~~~~~~~~~eL~~~~k--~i~e~~~EL~~Kek~le~~~k~~~~~~~~l~~k~k~l~~~~~  199 (535)
                        -+.-+++....-..--+|...=...++=-...++  ++++-...+.-++   |+-+++|=.|.+.+..-+.+....-+
T Consensus       302 rs~~~p~~~s~~~~~~~~~fp~~~~aae~i~lt~r~~~qldee~s~~~t~~---~~eq~~I~e~ve~i~~ts~q~a~l~~  378 (596)
T KOG4360|consen  302 RSCDAPKLISQEALSHGHHFPQLSLAAEKIELTMRKNLQLDEEASQLDTLE---DEEQKRIFETVEQINETSQQMAELPE  378 (596)
T ss_pred             ccCCCcchhHHHHHHhhhhCChhhHHHHHHHHhhhhhhccccccccCCccc---hHHHHHHHHHHHHHHHHHHHHHhccc
Confidence              1223333222221111232111111111111122  2223233333333   77889999998888888887766555


Q ss_pred             HHHHHHHHhhhHHHHHHHHHhhhccc
Q 048095          200 VVEHCLQKLNLKKEELSLLQKSNGEW  225 (535)
Q Consensus       200 ~~~~~~kele~k~~~~~~~~~~~~~~  225 (535)
                      ...-|...-++-...|.-++.+...+
T Consensus       379 ~l~i~~~ny~~~~~tv~~~~v~tp~l  404 (596)
T KOG4360|consen  379 VLVIPGSNYSSQQQTVARLQVQTPKL  404 (596)
T ss_pred             cccCCcchhhhhhhhhhhhhccchhH
Confidence            54445444444444555555544433

>PF06008 Laminin_I: Laminin Domain I; InterPro: IPR009254 Laminins are glycoproteins that are major constituents of the basement membrane of cells

Probab=82.88  E-value=58  Score=33.11  Aligned_cols=82  Identities=17%  Similarity=0.233  Sum_probs=42.6

Q ss_pred             cchhhhhhhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Q 048095            6 NEIRGFNLKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEI   85 (535)
Q Consensus         6 ~~~~~~~~KL~~te~dLerved~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eI   85 (535)
                      +.++++...+..+...+.-++..+..+...++.|..+..........+.............+...|......|..+...+
T Consensus        31 ~~L~~~~~~~~~~~~~~~~~e~~l~~L~~d~~~L~~k~~~~~~~~~~l~~~t~~t~~~a~~L~~~i~~l~~~i~~l~~~~  110 (264)
T PF06008_consen   31 NQLRSYRSKLNPQKQQLDPLEKELESLEQDVENLQEKATKVSRKAQQLNNNTERTLQRAQDLEQFIQNLQDNIQELIEQV  110 (264)
T ss_pred             HHHHHHhccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44455555555555555555555555555555555555555555555554444444444455555555555444444444


Q ss_pred             HH
Q 048095           86 EE   87 (535)
Q Consensus        86 ee   87 (535)
                      ..
T Consensus       111 ~~  112 (264)
T PF06008_consen  111 ES  112 (264)
T ss_pred             HH
Confidence            33

Laminins are trimeric molecules; laminin-1 is an alpha1 beta1 gamma1 trimer. It has been suggested that the domains I and II from laminin A, B1 and B2 may come together to form a triple helical coiled-coil structure []. Binding to cells via a high affinity receptor, laminin is thought to mediate the attachment, migration and organisation of cells into tissues during embryonic development by interacting with other extracellular matrix components.; GO: 0005102 receptor binding, 0030155 regulation of cell adhesion, 0030334 regulation of cell migration, 0045995 regulation of embryonic development, 0005606 laminin-1 complex

>PF05557 MAD: Mitotic checkpoint protein; InterPro: IPR008672 This family consists of several eukaryotic mitotic checkpoint (Mitotic arrest deficient or MAD) proteins

Probab=82.72  E-value=0.39  Score=55.78  Aligned_cols=27  Identities=4%  Similarity=-0.151  Sum_probs=18.5

Q ss_pred             CCcccccchHHHhhhc-Cchhhhhhhhh
Q 048095          483 GFADKVTVVPWSSIGM-DQAENSRMNHG  509 (535)
Q Consensus       483 GL~~K~~diV~~LI~~-gqieAv~~~~~  509 (535)
                      +|+..+++.|+.-|.. |+|+|+=-|.+
T Consensus       687 ~~~~~~~~~i~~~v~~~~siP~FLaalT  714 (722)
T PF05557_consen  687 EFSPELEDLIEFWVEERNSIPAFLAALT  714 (722)
T ss_dssp             CCHHCTHHHHHHHTTTS--HHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHcCCChhHHHHHHH
Confidence            5777889999977765 48998755543

The mitotic spindle checkpoint monitors proper attachment of the bipolar spindle to the kinetochores of aligned sister chromatids and causes a cell cycle arrest in prometaphase when failures occur. Multiple components of the mitotic spindle checkpoint have been identified in Saccharomyces cerevisiae and higher eukaryotes. In Saccharomyces cerevisiae, the existence of a Mad1-dependent complex containing Mad2, Mad3, Bub3 and Cdc20 has been demonstrated [].; PDB: 1GO4_F 4DZO_A.

>PF11932 DUF3450: Protein of unknown function (DUF3450); InterPro: IPR016866 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function

Probab=82.68  E-value=40  Score=34.02  Aligned_cols=74  Identities=14%  Similarity=0.079  Sum_probs=43.6

Q ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           19 ERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSEL   92 (535)
Q Consensus        19 e~dLerved~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El   92 (535)
                      ...++.+.+........-...+.++.....+-..+..++..+..+++.++.....++..+...+.++.+++..+
T Consensus        20 a~~~~~~~~~~~~~~~~~~~sQ~~id~~~~e~~~L~~e~~~l~~e~e~L~~~~~~l~~~v~~q~~el~~L~~qi   93 (251)
T PF11932_consen   20 AATLDQAQQVQQQWVQAAQQSQKRIDQWDDEKQELLAEYRQLEREIENLEVYNEQLERQVASQEQELASLEQQI   93 (251)
T ss_pred             hccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34455566666555555555566666666666666666666666666666655555555555555555554443

However, they are found in an operon along with components of a TonB transport system (typified by Vibrio cholerae TonB2 [], and are predicted to be localized to the periplasmic space. Caution: the low-complexity nature of these sequences produces spurious BLAST hits to chromosome segregation ATPases (which are much longer in length and contain canonical Walker motifs). Accordingly, some members are misidentified as such.

>KOG1029 consensus Endocytic adaptor protein intersectin [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=82.65  E-value=1.1e+02  Score=36.21  Aligned_cols=105  Identities=14%  Similarity=0.200  Sum_probs=55.3

Q ss_pred             HHHHHHHHHHHhhHHHhHHHhhhhhHHHHHHHHHHHhhhHHHHHHHHHhhhcccch---hhhhhhhhhh-hhcCcccchh
Q 048095          172 QLAVVQKRIGECNNELQLKENELNLVKTVVEHCLQKLNLKKEELSLLQKSNGEWNG---QLECGERQLE-LRLEPESGIK  247 (535)
Q Consensus       172 ~le~~~k~~~~~~~~l~~k~k~l~~~~~~~~~~~kele~k~~~~~~~~~~~~~~~~---~~e~~e~~~~-~~~e~~s~~~  247 (535)
                      .++++.+..+..+.+..-+.-.+...+..+-..+-|=.....++++-+...++-..   .|+..-...+ ++.-++++..
T Consensus       473 ~ie~~~~q~e~~isei~qlqarikE~q~kl~~l~~Ekq~l~~qlkq~q~a~~~~~~~~s~L~aa~~~ke~irq~ikdqld  552 (1118)
T KOG1029|consen  473 EIEEVTKQRELMISEIDQLQARIKELQEKLQKLAPEKQELNHQLKQKQSAHKETTQRKSELEAARRKKELIRQAIKDQLD  552 (1118)
T ss_pred             HHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHhhhhccCcchHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45555555555555444444444333333333333322333345555554444444   1222211122 3444455566


Q ss_pred             hhhHHHHHHHHHHHHHHHhHHHHHHHHHH
Q 048095          248 DCSQQIELKEKKLRQIQSSIEECEKELAI  276 (535)
Q Consensus       248 ~~~~~~~~kek~~~~~~~~~e~~~kel~~  276 (535)
                      +..+|.++|-.++..|++.++++...+-.
T Consensus       553 elskE~esk~~eidi~n~qlkelk~~~~~  581 (1118)
T KOG1029|consen  553 ELSKETESKLNEIDIFNNQLKELKEDVNS  581 (1118)
T ss_pred             HHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence            77778888888888888888888776543

>KOG0288 consensus WD40 repeat protein TipD [General function prediction only]

Probab=82.51  E-value=82  Score=34.59  Aligned_cols=93  Identities=17%  Similarity=0.114  Sum_probs=68.0

Q ss_pred             hhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           13 LKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSEL   92 (535)
Q Consensus        13 ~KL~~te~dLerved~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El   92 (535)
                      .+|-+.+..|..-+.....+..|...+...++.++..+..+|.+|+.|+.+...+..+.-+....-..+...+...++..
T Consensus        13 qr~~~~~~~laq~~k~~s~~~aq~~~~~a~~~ai~a~~~~~E~~l~~Lq~e~~~l~e~~v~~~a~~~~~t~~~~~~en~~   92 (459)
T KOG0288|consen   13 QRLIDLNTELAQCEKAQSRLSAQLVILRAESRAIKAKLQEKELELNRLQEENTQLNEERVREEATEKTLTVDVLIAENLR   92 (459)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45555666666666666777777777788888888889999999999988888888887777777777777777777666


Q ss_pred             HHHHHHHHHHHHH
Q 048095           93 QSKEIELGLLQKR  105 (535)
Q Consensus        93 ~~~eeEL~~lqk~  105 (535)
                      -....++..++.+
T Consensus        93 ~r~~~eir~~~~q  105 (459)
T KOG0288|consen   93 IRSLNEIRELREQ  105 (459)
T ss_pred             HHHHHHHHHHHHh
Confidence            6666666555443

>COG3352 FlaC Putative archaeal flagellar protein C [Cell motility and secretion]

Probab=81.75  E-value=13  Score=35.25  Aligned_cols=66  Identities=15%  Similarity=0.127  Sum_probs=42.8

Q ss_pred             hhhhhhhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHH
Q 048095            8 IRGFNLKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQS   73 (535)
Q Consensus         8 ~~~~~~KL~~te~dLerved~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~   73 (535)
                      |...+..+...+++|.++.+.+.-+.+++....+.+.++...|+.+...++.+-+.+.-...+...
T Consensus        46 id~imer~~~ieNdlg~~~~~~~g~kk~~~~~~eelerLe~~iKdl~~lye~Vs~d~Npf~s~~~q  111 (157)
T COG3352          46 IDAIMERMTDIENDLGKVKIEIEGQKKQLQDIKEELERLEENIKDLVSLYELVSRDFNPFMSKTPQ  111 (157)
T ss_pred             HHHHHHHHHHHHhhcccccccccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHhhhHH
Confidence            455556666667777776666666666666667777777777777766666666666555554433

>COG2433 Uncharacterized conserved protein [Function unknown]

Probab=81.75  E-value=31  Score=39.49  Aligned_cols=35  Identities=20%  Similarity=0.216  Sum_probs=13.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHH
Q 048095           42 EIEECNSELWCKEKELGLVQKRIRGCNGELQSKQG   76 (535)
Q Consensus        42 k~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qk   76 (535)
                      ..+.+..+...|+..+.+++..|+.++.+++...+
T Consensus       430 ~ve~l~~e~~~L~~~~ee~k~eie~L~~~l~~~~r  464 (652)
T COG2433         430 TVERLEEENSELKRELEELKREIEKLESELERFRR  464 (652)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333333333333333333

>PF04012 PspA_IM30: PspA/IM30 family; InterPro: IPR007157 This family includes PspA a protein that suppresses sigma54-dependent transcription

Probab=81.62  E-value=56  Score=32.11  Aligned_cols=47  Identities=17%  Similarity=0.204  Sum_probs=27.5

Q ss_pred             hhhhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           11 FNLKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKEL   57 (535)
Q Consensus        11 ~~~KL~~te~dLerved~i~ElEkqle~Laek~~Elk~EL~~LE~eL   57 (535)
                      ++.-+.+.+.+|..++..+..+-.....+..+|.++...+...+...
T Consensus        28 l~q~ird~e~~l~~a~~~~a~~~a~~~~le~~~~~~~~~~~~~~~~A   74 (221)
T PF04012_consen   28 LEQAIRDMEEQLRKARQALARVMANQKRLERKLDEAEEEAEKWEKQA   74 (221)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444455555555666666666666666666666666666666555

The PspA protein, a negative regulator of the Escherichia coli phage shock psp operon, is produced when virulence factors are exported through secretins in many Gram-negative pathogenic bacteria and its homologue in plants, VIPP1, plays a critical role in thylakoid biogenesis, essential for photosynthesis. Activation of transcription by the enhancer-dependent bacterial sigma54-containing RNA polymerase occurs through ATP hydrolysis-driven protein conformational changes enabled by activator proteins that belong to the large AAA(+) mechanochemical protein family. It has been shown that PspA directly and specifically acts upon and binds to the AAA(+) domain of the PspF transcription activator [].

>PRK10884 SH3 domain-containing protein; Provisional

Probab=81.36  E-value=30  Score=34.45  Aligned_cols=29  Identities=31%  Similarity=0.290  Sum_probs=11.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhhhhH
Q 048095           85 IEESNSELQSKEIELGLLQKRVGECNCEL  113 (535)
Q Consensus        85 Iee~e~El~~~eeEL~~lqk~l~E~~~el  113 (535)
                      +.+++.+...+..++..++..+..+..++
T Consensus       134 ~~~L~~~n~~L~~~l~~~~~~~~~l~~~~  162 (206)
T PRK10884        134 INGLKEENQKLKNQLIVAQKKVDAANLQL  162 (206)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333344444443333333333

>PF05557 MAD: Mitotic checkpoint protein; InterPro: IPR008672 This family consists of several eukaryotic mitotic checkpoint (Mitotic arrest deficient or MAD) proteins

Probab=81.25  E-value=6.1  Score=46.05  Aligned_cols=74  Identities=16%  Similarity=0.151  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhH
Q 048095           40 QKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNCEL  113 (535)
Q Consensus        40 aek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El~~~eeEL~~lqk~l~E~~~el  113 (535)
                      .+++..+..++..++..+..+..++......+..++..+......+..++..+.....+.+.+...+..+-.+.
T Consensus       356 ~ek~g~~~~~~~~l~~~~~~Le~e~~~l~~~~~~l~~~~~~~~~~~~RLerq~~L~~kE~d~LR~~L~syd~e~  429 (722)
T PF05557_consen  356 TEKLGSLQSELRELEEEIQELEQEKEQLLKEIEELEASLEALKKLIRRLERQKALATKERDYLRAQLKSYDKEE  429 (722)
T ss_dssp             --------------------------------------------------------------------------
T ss_pred             HHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Confidence            44455555555555555555555555555555555555555555555555555555555555555555555544

The mitotic spindle checkpoint monitors proper attachment of the bipolar spindle to the kinetochores of aligned sister chromatids and causes a cell cycle arrest in prometaphase when failures occur. Multiple components of the mitotic spindle checkpoint have been identified in Saccharomyces cerevisiae and higher eukaryotes. In Saccharomyces cerevisiae, the existence of a Mad1-dependent complex containing Mad2, Mad3, Bub3 and Cdc20 has been demonstrated [].; PDB: 1GO4_F 4DZO_A.

>KOG4643 consensus Uncharacterized coiled-coil protein [Function unknown]

Probab=81.18  E-value=1.4e+02  Score=36.36  Aligned_cols=32  Identities=22%  Similarity=0.306  Sum_probs=17.7

Q ss_pred             hhhhhhhHHHHHHHHHHHHHHHHhHHHHHHHH
Q 048095            8 IRGFNLKLQCKERQLRFLEKRIGESKGELALV   39 (535)
Q Consensus         8 ~~~~~~KL~~te~dLerved~i~ElEkqle~L   39 (535)
                      |+-+...|+..-.+|-+.+..|..++..++.+
T Consensus       186 ir~LrqElEEK~enll~lr~eLddleae~~kl  217 (1195)
T KOG4643|consen  186 IRTLRQELEEKFENLLRLRNELDDLEAEISKL  217 (1195)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444445555555555666666666665555

>PF00769 ERM: Ezrin/radixin/moesin family; InterPro: IPR011259 The ERM family consists of three closely-related proteins, ezrin, radixin and moesin []

Probab=81.09  E-value=67  Score=32.67  Aligned_cols=105  Identities=18%  Similarity=0.199  Sum_probs=42.9

Q ss_pred             hhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           13 LKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSEL   92 (535)
Q Consensus        13 ~KL~~te~dLerved~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El   92 (535)
                      .+|.+.+.+..+....+.+-+.....|..+......+-..|+..-.++...+..+.........+-..+..++.++...+
T Consensus        12 ~rL~q~eee~~~a~~~L~e~e~~a~~Leek~k~aeeea~~Le~k~~eaee~~~rL~~~~~~~~eEk~~Le~e~~e~~~~i   91 (246)
T PF00769_consen   12 ERLRQMEEEMRRAQEALEESEETAEELEEKLKQAEEEAEELEQKRQEAEEEKQRLEEEAEMQEEEKEQLEQELREAEAEI   91 (246)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------------HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34555555555555555555544445544444444444444444444444444444444444444444444444444444


Q ss_pred             HHHHHHHHHHHHHHhhhhhhHHHHH
Q 048095           93 QSKEIELGLLQKRVGECNCELECKQ  117 (535)
Q Consensus        93 ~~~eeEL~~lqk~l~E~~~el~~k~  117 (535)
                      ..+..+..........+..+|...+
T Consensus        92 ~~l~ee~~~ke~Ea~~lq~el~~ar  116 (246)
T PF00769_consen   92 ARLEEESERKEEEAEELQEELEEAR  116 (246)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444444444444444444444333

Ezrin was first identified as a constituent of microvilli [], radixin as a barbed, end-capping actin-modulating protein from isolated junctional fractions [], and moesin as a heparin binding protein []. A tumour suppressor molecule responsible for neurofibromatosis type 2 (NF2) is highly similar to ERM proteins and has been designated merlin (moesin-ezrin-radixin-like protein). ERM molecules contain 3 domains, an N-terminal globular domain; an extended alpha-helical domain; and a charged C-terminal domain []. Ezrin, radixin and merlin also contain a polyproline region between the helical and C-terminal domains. The N-terminal domain is highly conserved, and is also found in merlin, band 4.1 proteins and members of the band 4.1 superfamily. ERM proteins crosslink actin filaments with plasma membranes. They co-localise with CD44 at actin filament-plasma membrane interaction sites, associating with CD44 via their N-terminal domains and with actin filaments via their C-terminal domains [].; GO: 0008092 cytoskeletal protein binding, 0005737 cytoplasm, 0019898 extrinsic to membrane; PDB: 2I1J_A 2I1K_A 1E5W_A 1EF1_C.

>KOG4360 consensus Uncharacterized coiled coil protein [Function unknown]

Probab=80.45  E-value=48  Score=37.26  Aligned_cols=59  Identities=17%  Similarity=0.162  Sum_probs=22.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           43 IEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGL  101 (535)
Q Consensus        43 ~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El~~~eeEL~~  101 (535)
                      .+..+.++.....+|+....+......++..+-.+|-.+..+|..+..+......-|..
T Consensus       207 lrdtN~q~~s~~eel~~kt~el~~q~Ee~skLlsql~d~qkk~k~~~~Ekeel~~~Lq~  265 (596)
T KOG4360|consen  207 LRDTNTQARSGQEELQSKTKELSRQQEENSKLLSQLVDLQKKIKYLRHEKEELDEHLQA  265 (596)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333333333333333334444444444333333333333333

>PF05266 DUF724: Protein of unknown function (DUF724); InterPro: IPR007930 This family contains several uncharacterised proteins found exclusively in Arabidopsis thaliana

Probab=80.43  E-value=62  Score=31.81  Aligned_cols=85  Identities=20%  Similarity=0.130  Sum_probs=41.9

Q ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           23 RFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGLL  102 (535)
Q Consensus        23 erved~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El~~~eeEL~~l  102 (535)
                      -++.+....+-...+.+..++.+-..+...++..+.++...|.+++.....+...-+...++|...++....+.+++...
T Consensus        99 L~lk~~~~~~~e~~k~le~~~~~~~~~~~~~e~~i~~Le~ki~el~~~~~~~~~~ke~~~~ei~~lks~~~~l~~~~~~~  178 (190)
T PF05266_consen   99 LSLKDDQEKLLEERKKLEKKIEEKEAELKELESEIKELEMKILELQRQAAKLKEKKEAKDKEISRLKSEAEALKEEIENA  178 (190)
T ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33334334444444444444444444444555555555555555555554455455555555555555555555555555


Q ss_pred             HHHHh
Q 048095          103 QKRVG  107 (535)
Q Consensus       103 qk~l~  107 (535)
                      ...+.
T Consensus       179 e~~F~  183 (190)
T PF05266_consen  179 ELEFQ  183 (190)
T ss_pred             HHHHH
Confidence            44443

>PRK11281 hypothetical protein; Provisional

Probab=80.05  E-value=1.3e+02  Score=37.40  Aligned_cols=21  Identities=5%  Similarity=-0.064  Sum_probs=13.8

Q ss_pred             ccchHHHhhhcC-chhhhhhhh
Q 048095          488 VTVVPWSSIGMD-QAENSRMNH  508 (535)
Q Consensus       488 ~~diV~~LI~~g-qieAv~~~~  508 (535)
                      +|-+.-.|+-.| ++-|..++.
T Consensus       695 ~P~~l~~l~~~GY~yTa~~l~~  716 (1113)
T PRK11281        695 APIALIVLVVLGYYYTALRLIG  716 (1113)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            566666677777 566666553

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	535
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	6e-13
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	1e-12
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	4e-11
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	3e-05
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	5e-05
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	1e-04
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-09
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-07
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	5e-09
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	1e-07
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	2e-06
2ycu_A	995	Non muscle myosin 2C, alpha-actinin; motor protein	1e-04
2ycu_A	995	Non muscle myosin 2C, alpha-actinin; motor protein	8e-04
1g8x_A	1010	Myosin II heavy chain fused to alpha-actinin 3; mo	3e-04
1m1j_C	409	Fibrinogen gamma chain; coiled coils, disulfide ri	4e-04
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	7e-04

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 70.6 bits (173), Expect = 6e-13
 Identities = 55/303 (18%), Positives = 130/303 (42%), Gaps = 23/303 (7%)

Query: 13   LKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQ 72
            LK+  +E +++  ++ +  +K      + E++E   +     +E  L+Q++++       
Sbjct: 850  LKVTRQEEEMQAKDEELQRTKERQQKAEAELKELEQKHTQLCEEKNLLQEKLQAETELY- 908

Query: 73   SKQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNCELECKQQQLGLAQSEEDLLKN 132
                       E EE    L +K+ EL   ++ + E    +E ++++    Q+E    K 
Sbjct: 909  ----------AEAEEMRVRLAAKKQEL---EEILHEMEARIEEEEERSQQLQAE----KK 951

Query: 133  SLKNSIEHWSQKLNLTKEELSLLQKSIRECKGELDSKERQLAVVQKRIGECNNELQLKEN 192
             ++  +    ++L   +     LQ       G++   E  + +++ +  +   E +L E 
Sbjct: 952  KMQQQMLDLEEQLEEEEAARQKLQLEKVTADGKIKKMEDDILIMEDQNNKLTKERKLLEE 1011

Query: 193  ELNLVKTVVEHCLQKLNLKKEELSLLQKSNGEWNGQLECGERQLE-LRLEPESGIKDCSQ 251
             ++ + T     L +   K + L+ L+  +     +LE   ++ E  R E E   +    
Sbjct: 1012 RVSDLTTN----LAEEEEKAKNLTKLKNKHESMISELEVRLKKEEKSRQELEKIKRKLEG 1067

Query: 252  QIELKEKKLRQIQSSIEECEKELAIKERHISDYEEKLKAKEKLYDEIKKSIKELESAKKE 311
            +     +++ ++Q+ I E + +LA KE  +     +L+ +    +   K I+ELES   +
Sbjct: 1068 ESSDLHEQIAELQAQIAELKAQLAKKEEELQAALARLEDETSQKNNALKKIRELESHISD 1127

Query: 312  LEQ 314
            L++
Sbjct: 1128 LQE 1130

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 69.9 bits (171), Expect = 1e-12
 Identities = 62/344 (18%), Positives = 142/344 (41%), Gaps = 25/344 (7%)

Query: 1    MKTRTNEIRGFNLKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLV 60
            M+ +  E++    + Q  E +L+ LE++  +   E  L+Q++++         E+    +
Sbjct: 859  MQAKDEELQRTKERQQKAEAELKELEQKHTQLCEEKNLLQEKLQAETELYAEAEEMRVRL 918

Query: 61   QKRIRGCNGELQSKQGELALVEKEIEESNSELQSK----EIELGLLQKRVGECNCELECK 116
              + +    EL+    E+    +E EE + +LQ++    + ++  L++++ E     E  
Sbjct: 919  AAKKQ----ELEEILHEMEARIEEEEERSQQLQAEKKKMQQQMLDLEEQLEE----EEAA 970

Query: 117  QQQLGLAQSEEDLLKNSLKNSIEHWSQKLNLTKEELSLLQKSIRECKGELDSKERQLAVV 176
            +Q+L L +   D     +++ I     + N   +E  LL++ + +    L  +E +   +
Sbjct: 971  RQKLQLEKVTADGKIKKMEDDILIMEDQNNKLTKERKLLEERVSDLTTNLAEEEEKAKNL 1030

Query: 177  QKRIGECNNELQLKENELNLVKTVVEHCLQKLNLKKEELSLLQKSNGEWNGQLECGERQL 236
             K   +  + +   E  L   +   +   +     + E S L +   E   Q+   + QL
Sbjct: 1031 TKLKNKHESMISELEVRLKKEEKSRQELEKIKRKLEGESSDLHEQIAELQAQIAELKAQL 1090

Query: 237  ELRLEPESGIKDCSQQIELKEKKLRQIQSSIEECEKELAIKERHISDYEEKLKAKEKLYD 296
              + E E         ++    +L    S      K++   E HISD +E L++++   +
Sbjct: 1091 A-KKEEE---------LQAALARLEDETSQKNNALKKIRELESHISDLQEDLESEKAARN 1140

Query: 297  EIKKSIKELESAKKELEQPKSLTDNEETRLLSLQSMNNGRSLQL 340
            + +K  ++L    +ELE  K+  ++      + Q +        
Sbjct: 1141 KAEKQKRDLS---EELEALKTELEDTLDTTATQQELRGSDYKDD 1181

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 65.2 bits (159), Expect = 4e-11
 Identities = 53/279 (18%), Positives = 107/279 (38%), Gaps = 28/279 (10%)

Query: 19   ERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGEL 78
            E ++   E+R  + + E   +Q+++ +   +L  +E     +Q      +G+++  + ++
Sbjct: 933  EARIEEEEERSQQLQAEKKKMQQQMLDLEEQLEEEEAARQKLQLEKVTADGKIKKMEDDI 992

Query: 79   ALVEKEIEESNSELQSKEIELGLLQKRVGECNCELECKQQQLGLAQSEEDLLKNSLKNSI 138
             ++E +  +   E +  E  +  L   + E     E K + L         LKN  ++ I
Sbjct: 993  LIMEDQNNKLTKERKLLEERVSDLTTNLAE----EEEKAKNL-------TKLKNKHESMI 1041

Query: 139  EHWSQKLNLTKEELSLLQKSIRECKGELDSKERQLAVVQKRIGECNNELQLKENELNLVK 198
                 +L   ++    L+K  R+ +GE      Q+A +Q +I E   +L  KE EL    
Sbjct: 1042 SELEVRLKKEEKSRQELEKIKRKLEGESSDLHEQIAELQAQIAELKAQLAKKEEELQAAL 1101

Query: 199  TVVEHCLQKLNLKKEELSLLQKSNGEWNGQLECGERQLELRLEPESGIKDCSQQIELKEK 258
                    +L  +  + +   K   E    +      L+  LE E             EK
Sbjct: 1102 -------ARLEDETSQKNNALKKIRELESHIS----DLQEDLESE------KAARNKAEK 1144

Query: 259  KLRQIQSSIEECEKELAIKERHISDYEEKLKAKEKLYDE 297
            + R +   +E  + EL       +  +E   +  K  D+
Sbjct: 1145 QKRDLSEELEALKTELEDTLDTTATQQELRGSDYKDDDD 1183

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 46.0 bits (109), Expect = 3e-05
 Identities = 42/271 (15%), Positives = 107/271 (39%), Gaps = 31/271 (11%)

Query: 59   LVQKRIRGCNGELQSKQGELALVEKEIEES---NSELQSKEIELGLLQKRVGECNCELEC 115
             +Q  +R            L      + +      E+Q+K+ EL   ++R      + E 
Sbjct: 823  CIQYNVRSFMNVXHWPWMXLFFXIXPLLKVTRQEEEMQAKDEELQRTKERQ----QKAEA 878

Query: 116  KQQQLGLAQSEEDLLKNSLKNSIEHWSQKLNLTKEELSLLQKSIRECKGELDSKERQLAV 175
            + ++L    ++    KN L+  ++  ++     +E    L    +E +  L   E ++  
Sbjct: 879  ELKELEQKHTQLCEEKNLLQEKLQAETELYAEAEEMRVRLAAKKQELEEILHEMEARIEE 938

Query: 176  VQKRIGECNNELQLKENELNLVKTVVEHCLQKLNLKKEELSLLQKSNGEWNGQLECGERQ 235
             ++R  +   E +  + ++  ++       ++L  ++     LQ      +G++    ++
Sbjct: 939  EEERSQQLQAEKKKMQQQMLDLE-------EQLEEEEAARQKLQLEKVTADGKI----KK 987

Query: 236  LELRLEPESGIKDCSQQIELKEKKLRQIQSSIEECEKELAIKERHISDYEEKLKAKEKLY 295
            +E               I + E +  ++    +  E+ ++    ++++ EEK K   KL 
Sbjct: 988  ME-------------DDILIMEDQNNKLTKERKLLEERVSDLTTNLAEEEEKAKNLTKLK 1034

Query: 296  DEIKKSIKELESAKKELEQPKSLTDNEETRL 326
            ++ +  I ELE   K+ E+ +   +  + +L
Sbjct: 1035 NKHESMISELEVRLKKEEKSRQELEKIKRKL 1065

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 45.2 bits (107), Expect = 5e-05
 Identities = 28/180 (15%), Positives = 70/180 (38%), Gaps = 4/180 (2%)

Query: 156  QKSIRECKGELDSKERQLAVVQKRIGECNNELQLKENELNLVKTVVEHCLQKLNLKKEEL 215
            ++ ++    EL   + +    +  + E   +      E NL++  ++   +     +E  
Sbjct: 856  EEEMQAKDEELQRTKERQQKAEAELKELEQKHTQLCEEKNLLQEKLQAETELYAEAEEMR 915

Query: 216  SLLQKSNGEWNGQLECGERQLEL----RLEPESGIKDCSQQIELKEKKLRQIQSSIEECE 271
              L     E    L   E ++E       + ++  K   QQ+   E++L + +++ ++ +
Sbjct: 916  VRLAAKKQELEEILHEMEARIEEEEERSQQLQAEKKKMQQQMLDLEEQLEEEEAARQKLQ 975

Query: 272  KELAIKERHISDYEEKLKAKEKLYDEIKKSIKELESAKKELEQPKSLTDNEETRLLSLQS 331
             E    +  I   E+ +   E   +++ K  K LE    +L    +  + +   L  L++
Sbjct: 976  LEKVTADGKIKKMEDDILIMEDQNNKLTKERKLLEERVSDLTTNLAEEEEKAKNLTKLKN 1035

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 44.1 bits (104), Expect = 1e-04
 Identities = 24/126 (19%), Positives = 53/126 (42%)

Query: 19   ERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGEL 78
            E+  R LE    +   ++A +Q +I E  ++L  KE+EL     R+     +  +   ++
Sbjct: 1059 EKIKRKLEGESSDLHEQIAELQAQIAELKAQLAKKEEELQAALARLEDETSQKNNALKKI 1118

Query: 79   ALVEKEIEESNSELQSKEIELGLLQKRVGECNCELECKQQQLGLAQSEEDLLKNSLKNSI 138
              +E  I +   +L+S++      +K+  + + ELE  + +L          +    +  
Sbjct: 1119 RELESHISDLQEDLESEKAARNKAEKQKRDLSEELEALKTELEDTLDTTATQQELRGSDY 1178

Query: 139  EHWSQK 144
            +    K
Sbjct: 1179 KDDDDK 1184

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 59.9 bits (144), Expect = 2e-09
 Identities = 69/418 (16%), Positives = 130/418 (31%), Gaps = 90/418 (21%)

Query: 112 ELECKQQQLGLAQSEEDLLKNSLKNSIEHWSQKLNLTKEELSLLQKSIRECKGELDSKER 171
           + E  + Q       +D+L       ++++  K ++     S+L K   E    + SK+ 
Sbjct: 8   DFETGEHQY----QYKDILSVFEDAFVDNFDCK-DVQDMPKSILSK--EEIDHIIMSKDA 60

Query: 172 QLAVVQKRIGECNNELQLKENELNLVKTVVEHCLQKLN-------LKKE-------ELSL 217
                  R+        L   +  +V+  VE  L+  N       +K E           
Sbjct: 61  VSGT--LRLFWT-----LLSKQEEMVQKFVEEVLRI-NYKFLMSPIKTEQRQPSMMTRMY 112

Query: 218 LQKSNGEWNGQLECGERQLELRLEPESGIKDCSQQIELKEKK----------------LR 261
           +++ +  +N      +  +  RL+P   ++      EL+  K                L 
Sbjct: 113 IEQRDRLYNDNQVFAKYNVS-RLQPYLKLRQALL--ELRPAKNVLIDGVLGSGKTWVALD 169

Query: 262 QIQSSIEECEKELAI---KERHISDYEEKLKAKEKLYDEIKKSIKELESAKKELEQPKSL 318
              S   +C+ +  I     ++ +  E  L+  +KL  +I  +          ++     
Sbjct: 170 VCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHS 229

Query: 319 TDNEETRLLSLQSMNNGRSLQLILNQHLQKHDLI--FGQISQTL--TKACDPALLVLDAM 374
              E  RLL  +   N   L L+L  ++Q       F    + L  T+       V D +
Sbjct: 230 IQAELRRLLKSKPYEN--CL-LVLL-NVQNAKAWNAFNLSCKILLTTR--FKQ--VTDFL 281

Query: 375 QGFYPPHSRKGDME--FDVSIIKRTCILLL----EQLSNIAPDINPQVRDEAMKMAGE-- 426
                 H              +K   +  L    + L       NP+     + +  E  
Sbjct: 282 SAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPR----RLSIIAESI 337

Query: 427 ---------WK----KKMGVIGENSLEVLGFLHLLAAYRLAPAFDGNEL--ESLLDIV 469
                    WK     K+  I E+SL VL        +     F  +      LL ++
Sbjct: 338 RDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLI 395

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 53.7 bits (128), Expect = 1e-07
 Identities = 93/573 (16%), Positives = 186/573 (32%), Gaps = 137/573 (23%)

Query: 1   MKTRTNEIRGFNLKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEK----- 55
           M   T E      + Q K+    F +  +           K++++    +  KE+     
Sbjct: 7   MDFETGEH-----QYQYKDILSVFEDAFVDN------FDCKDVQDMPKSILSKEEIDHII 55

Query: 56  ELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNCELEC 115
                          L SKQ E+  V+K +EE    L+   I    L   +       E 
Sbjct: 56  MSKDAVSGTLRLFWTLLSKQEEM--VQKFVEEV---LR---INYKFLMSPIKT-----EQ 102

Query: 116 KQQQLGLAQSEEDLLKNSLKNSIEHWSQKLNLTKEELSLLQKSIRECKGELDSKER---- 171
           +Q  +      E   ++ L N  + ++ K N+++ +  L    +R+   EL   +     
Sbjct: 103 RQPSMMTRMYIEQ--RDRLYNDNQVFA-KYNVSRLQPYL---KLRQALLELRPAKNVLID 156

Query: 172 --------QLA--VVQKRIGECNNELQ---LKENELNLVKTVVEHCLQKLNLKKEELSLL 218
                    +A  V      +C  + +   L     N  +TV+E  LQKL  + +  +  
Sbjct: 157 GVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEM-LQKLLYQIDP-NWT 214

Query: 219 QKSNGEWNGQLECGERQLELRLEPESGIKDCSQQIELKEKK-----LRQIQSS--IE--- 268
            +S+   N +L     Q ELR           + ++ K  +     L  +Q++       
Sbjct: 215 SRSDHSSNIKLRIHSIQAELR-----------RLLKSKPYENCLLVLLNVQNAKAWNAFN 263

Query: 269 -ECEKELAI-KERHISDYEEKLKAKEKLYDEIKKSIKELES----AKKELEQPKSLTDNE 322
             C K L   + + ++D+           D    ++   E      K    +P+ L    
Sbjct: 264 LSC-KILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLP--R 320

Query: 323 ETRLLSLQSMNN-GRSLQ--LILNQHLQKHDLIFGQISQTLTKACDPALLVLDAMQGFYP 379
           E    + + ++    S++  L    + +  +         LT   + +L VL+      P
Sbjct: 321 EVLTTNPRRLSIIAESIRDGLATWDNWKHVNC------DKLTTIIESSLNVLE------P 368

Query: 380 PHSRKGDMEF-----DVSI-IKRTCILLLEQLSNIAPDINPQVRDEAMKMAGEWKKKMGV 433
              RK             I      ++  + + +    +  ++   ++    +  K+   
Sbjct: 369 AEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSL--VEKQPKE-ST 425

Query: 434 IGENSL--------EVLGFLH--LLAAYRLAPAFDGNELESL-LD------IVAHYRQTA 476
           I   S+        E    LH  ++  Y +   FD ++L    LD      I  H +   
Sbjct: 426 ISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIE 485

Query: 477 ---------KLRQSLGFAD-KV--TVVPWSSIG 497
                     +     F + K+      W++ G
Sbjct: 486 HPERMTLFRMVFLDFRFLEQKIRHDSTAWNASG 518

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus} Length = 1080

 Score = 58.2 bits (141), Expect = 5e-09
 Identities = 44/264 (16%), Positives = 108/264 (40%), Gaps = 18/264 (6%)

Query: 13   LKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWC----KEKELGLVQKRIRGCN 68
            + +Q  +R    + KR    +     +Q  +             +E +  ++QK +RG  
Sbjct: 820  IIIQKFQRMYV-VRKRYQCMRDATIALQALLRGYLVRNKYQMMLREHKSIIIQKHVRGWL 878

Query: 69   GELQSKQGELALVEKEIEESNSELQSKEIELGLLQKRVG---ECNCELECK----QQQLG 121
              +   +   A+V  +        + +  +L +  + V    + +  LE K    Q+++ 
Sbjct: 879  ARVHYHRTLKAIVYLQCCYRRMMAKRELKKLKIEARSVERYKKLHIGLENKIMQLQRKID 938

Query: 122  LAQSEEDLL---KNSLKNSIEHWSQKLNLTKEELSLLQKSIRECKGELDSKERQLAVVQK 178
                E   L    N+L+ +    ++KL    E L + ++  +     + S + ++A ++K
Sbjct: 939  EQNKEYKSLLEKMNNLEITYSTETEKLRSDVERLRMSEEEAKNATNRVLSLQEEIAKLRK 998

Query: 179  RIGECNNELQLKENELNLVKTVVEHCLQKLNLKKEELSLLQKSNGEWNGQLECGERQLEL 238
             + +   E +  E   +  K   E  + +L   KE+ +LL+    E N ++    +++  
Sbjct: 999  ELHQTQTEKKTIEEWADKYKHETEQLVSEL---KEQNTLLKTEKEELNRRIHDQAKEITE 1055

Query: 239  RLEPESGIKDCSQQIELKEKKLRQ 262
             +E +   +    +++L +++LR 
Sbjct: 1056 TMEKKLVEETKQLELDLNDERLRY 1079

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus} Length = 1080

 Score = 53.6 bits (129), Expect = 1e-07
 Identities = 43/308 (13%), Positives = 112/308 (36%), Gaps = 30/308 (9%)

Query: 8    IRGFNLKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGC 67
            +RG   +      +       I + +    + ++     ++ +         +Q  +RG 
Sbjct: 801  VRGHQARCYATFLRRTRAAIIIQKFQRMYVVRKRYQCMRDATIA--------LQALLRGY 852

Query: 68   NGELQSKQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNCELECKQQQLGLAQSEE 127
                + +   L   +  I + +       +      K +    C          +A+ E 
Sbjct: 853  LVRNKYQM-MLREHKSIIIQKHVRGWLARVHYHRTLKAIVYLQCCYRRM-----MAKREL 906

Query: 128  DLLKNSLKNSIEHWSQKLNLTKEELSLLQKSIRECKGELDSKERQLAVVQKRIGECNNEL 187
              LK   + S+E + +     + ++  LQ+ I E   E  S   ++  ++        +L
Sbjct: 907  KKLKIEAR-SVERYKKLHIGLENKIMQLQRKIDEQNKEYKSLLEKMNNLEITYSTETEKL 965

Query: 188  QLKENELNLVKTVVEHCLQKLNLKKEELSLLQKSNGEWNGQLECGERQLELRLEPESGIK 247
            +     L + +   ++   ++   +EE++ L+K       +L   + + +   E     K
Sbjct: 966  RSDVERLRMSEEEAKNATNRVLSLQEEIAKLRK-------ELHQTQTEKKTIEEWADKYK 1018

Query: 248  DCSQQIELKEKKLRQIQSSIEECEKELAIKERHISDYEEKLK--AKEKLYDEIKKSIKEL 305
                + E    +L++  + ++  ++EL    R I D  +++    ++KL +E K+   +L
Sbjct: 1019 ---HETEQLVSELKEQNTLLKTEKEEL---NRRIHDQAKEITETMEKKLVEETKQLELDL 1072

Query: 306  ESAKKELE 313
               +   +
Sbjct: 1073 NDERLRYQ 1080

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus} Length = 1080

 Score = 49.3 bits (118), Expect = 2e-06
 Identities = 31/224 (13%), Positives = 83/224 (37%), Gaps = 4/224 (1%)

Query: 127  EDLLKNSLKNSIEHWSQKLNLTKEELSLLQKSIR-ECKGELDSKERQLAVVQKRIGECNN 185
            + +L+      I+   +           L+  +  +C       +R+L  ++        
Sbjct: 859  QMMLREHKSIIIQKHVRGWLARVHYHRTLKAIVYLQCCYRRMMAKRELKKLKIEARSVER 918

Query: 186  ELQLKENELNLVKTVVEHCLQKLNLKKEELSLLQKSNGEWNGQLECGERQLELRLEPESG 245
              +L     N +  +     ++    K  L  +      ++ + E     +E     E  
Sbjct: 919  YKKLHIGLENKIMQLQRKIDEQNKEYKSLLEKMNNLEITYSTETEKLRSDVERLRMSEEE 978

Query: 246  IKDCSQQIELKEKKLRQIQSSIEECEKELAIKERHISDYEEKLKAKEKLYDEIKKSIKEL 305
             K+ + ++   ++++ +++  + + + E    E     Y+ +    E+L  E+K+    L
Sbjct: 979  AKNATNRVLSLQEEIAKLRKELHQTQTEKKTIEEWADKYKHET---EQLVSELKEQNTLL 1035

Query: 306  ESAKKELEQPKSLTDNEETRLLSLQSMNNGRSLQLILNQHLQKH 349
            ++ K+EL +       E T  +  + +   + L+L LN    ++
Sbjct: 1036 KTEKEELNRRIHDQAKEITETMEKKLVEETKQLELDLNDERLRY 1079

>2ycu_A Non muscle myosin 2C, alpha-actinin; motor protein; HET: AOV; 2.25A {Homo sapiens} PDB: 1br1_A* 1br4_A* 1br2_A* Length = 995

 Score = 43.5 bits (103), Expect = 1e-04
 Identities = 31/193 (16%), Positives = 59/193 (30%), Gaps = 15/193 (7%)

Query: 102 LQKRVGECNCELECKQQQLGLAQSEEDLLKNSLKNSIEHWSQKLNLTKEELSLLQKSIRE 161
           L+        +L   +++  +A +      N + ++     +      E L +  K  ++
Sbjct: 818 LEAIYNSLQTKLRLIKREPFVAPAGLTP--NEIDSTWSALEKAEQEHAEALRIELKRQKK 875

Query: 162 CKGELDSKERQLAVVQKRIGECNNELQLKENELNLVKTVVEHCLQKLNLKKEELSLLQKS 221
               L    R L  ++         + L  NE     T V+  L+ L     E   L+  
Sbjct: 876 IAVLLQKYNRILKKLENWATT--KSVYLGSNETGDSITAVQAKLKNLEAFDGECQSLEG- 932

Query: 222 NGEWNGQLECGERQLELRLEPESGIKDCSQQIELKEKKLRQIQSSIEECEKELAIKERHI 281
             + N  L     QL             +   EL E+K           +      +  +
Sbjct: 933 --QSNSDLLSILAQLTELNY--------NGVPELTERKDTFFAQQWTGVKSSAETYKNTL 982

Query: 282 SDYEEKLKAKEKL 294
               E+L+  E L
Sbjct: 983 LAELERLQKIEDL 995

>2ycu_A Non muscle myosin 2C, alpha-actinin; motor protein; HET: AOV; 2.25A {Homo sapiens} PDB: 1br1_A* 1br4_A* 1br2_A* Length = 995

 Score = 41.2 bits (97), Expect = 8e-04
 Identities = 21/217 (9%), Positives = 69/217 (31%), Gaps = 10/217 (4%)

Query: 143 QKLNLTKEELSLLQKSIRECKG----ELDSKERQLAVVQKRIGECNNELQLKENELNLVK 198
            +     + +  +Q  +   K     E   K ++++ ++        +L+L + E  +  
Sbjct: 781 LESRDFGDSIESVQSFMNAHKEYKKTEKPPKGQEVSELEAIYNSLQTKLRLIKREPFVAP 840

Query: 199 TVVEHCLQKLNLKKEELSLLQKSNGEWNGQLECGERQLELRLEPESGIKDCSQQIELKEK 258
                   +++     L   ++ + E        ++++ + L+  + I    +     + 
Sbjct: 841 --AGLTPNEIDSTWSALEKAEQEHAEALRIELKRQKKIAVLLQKYNRILKKLENWATTKS 898

Query: 259 KLRQIQSSIEECEKELAIKERHISDYEEKLKAKEKLYDEIKKSIKELESAK----KELEQ 314
                  + +      A  +   +   E    + +   ++   + +L         EL +
Sbjct: 899 VYLGSNETGDSITAVQAKLKNLEAFDGECQSLEGQSNSDLLSILAQLTELNYNGVPELTE 958

Query: 315 PKSLTDNEETRLLSLQSMNNGRSLQLILNQHLQKHDL 351
            K     ++   +   +     +L   L +  +  DL
Sbjct: 959 RKDTFFAQQWTGVKSSAETYKNTLLAELERLQKIEDL 995

>1g8x_A Myosin II heavy chain fused to alpha-actinin 3; motor, lever ARM, protein engineering, structural protein; HET: ADP; 2.80A {Dictyostelium discoideum} SCOP: k.1.1.1 Length = 1010

 Score = 42.7 bits (101), Expect = 3e-04
 Identities = 41/278 (14%), Positives = 87/278 (31%), Gaps = 17/278 (6%)

Query: 28   RIGESK-----GELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVE 82
            R G +K     G+LA     IEE   +      E        R           + +L  
Sbjct: 738  RFGITKIFFRAGQLA----RIEEAREQRL--GSEQTKSDYLKRANELVQWINDKQASLES 791

Query: 83   KEIEESNSELQS---KEIELGLLQKRVGECNCELECKQQQLGLAQSEEDLLKNSLKNSIE 139
            ++  +S   +QS      E    +K         E +     L      + +        
Sbjct: 792  RDFGDSIESVQSFMNAHKEYKKTEKPPKGQEV-SELEAIYNSLQTKLRLIKREPFVAPAG 850

Query: 140  HWSQKLNLTKEELSLLQKSIRECKGELDSKERQLAVVQKRIGECNNELQLKENELNLVKT 199
                +++ T   L   ++   E       +++++AV+ ++      +L+      ++   
Sbjct: 851  LTPNEIDSTWSALEKAEQEHAEALRIELKRQKKIAVLLQKYNRILKKLENWATTKSVYLG 910

Query: 200  VVEHCLQKLNLKKEELSLLQKSNGEWNGQLECGERQLELRLEPESGIKDCSQQIELKEKK 259
              E     +   + +L  L+  +GE    LE       L +  +    + +   EL E+K
Sbjct: 911  SNETG-DSITAVQAKLKNLEAFDGECQ-SLEGQSNSDLLSILAQLTELNYNGVPELTERK 968

Query: 260  LRQIQSSIEECEKELAIKERHISDYEEKLKAKEKLYDE 297
                       +      +  +    E+L+  E L+  
Sbjct: 969  DTFFAQQWTGVKSSAETYKNTLLAELERLQKIEDLHHH 1006

>1m1j_C Fibrinogen gamma chain; coiled coils, disulfide rings, fibrinogen, blood clotting; HET: NDG NAG; 2.70A {Gallus gallus} SCOP: d.171.1.1 h.1.8.1 PDB: 1ei3_C Length = 409

 Score = 41.8 bits (98), Expect = 4e-04
 Identities = 20/169 (11%), Positives = 51/169 (30%), Gaps = 13/169 (7%)

Query: 231 CGERQLELRLEPESGIKDCSQQIELKEKKLRQIQSSIEECEKELAIKERH-ISDYEEKLK 289
           CG      +            +IE   ++      SIE   + +            + ++
Sbjct: 23  CGIADFFNKYRLT--TDGELLEIEGLLQQATNSTGSIEYLIQHIKTIYPSEKQTLPQSIE 80

Query: 290 AKEKLYDEIKKSIKELESAKKELEQPKSLTDNEETRLLSLQSMNNGRSLQLILNQHLQKH 349
              +   +I + I   E+     E   ++    +  +++   +   +     L  H Q+ 
Sbjct: 81  QLTQKSKKIIEEIIRYENTILAHEN--TIQQLTDMHIMNSNKITQLKQKIAQLESHCQEP 138

Query: 350 DLIFGQISQTLTKACDPALLVLDAMQGFY---PPHSRKG-----DMEFD 390
                +I +T  + C           G Y   P  +++      +++  
Sbjct: 139 CKDTAEIQETTGRDCQDIANKGARKSGLYFIKPQKAKQSFLVYCEIDTY 187

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A* 3vkh_C* Length = 3245

 Score = 41.8 bits (98), Expect = 7e-04
 Identities = 30/168 (17%), Positives = 69/168 (41%), Gaps = 17/168 (10%)

Query: 143  QKLNLTKEELSLLQKSIRECKGELDSKERQLAVVQKRIGECNNELQLKENELNLVKTVVE 202
            +KL  T+ ++  LQ S+ +   ELD K  Q     K++ +        +    + +    
Sbjct: 1927 KKLRDTEAQVKDLQVSLAQKNRELDVKNEQANQKLKQMVQ-------DQQAAEIKQKDAR 1979

Query: 203  HCLQKLNLKKEELSLLQKSNGEWNGQLECGERQLELRLEPESGIKDCSQQIELKEKKLRQ 262
                +L+++ +E+++ +    +    LE  E    LR E    ++         + K  +
Sbjct: 1980 ELQVQLDVRNKEIAVQKV---KAYADLEKAEPTGPLREE----VEQLENAANELKLKQDE 2032

Query: 263  IQSSIEECEKELAIKERHISDYEEKLKAKEKLYDEIKKSIKELESAKK 310
            I ++I   EK +A  +    +Y   ++  E++  E  K   +++ +  
Sbjct: 2033 IVATITALEKSIATYKE---EYATLIRETEQIKTESSKVKNKVDRSIA 2077

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	535
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	98.91
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	98.79
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	98.54
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	98.43
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	97.58
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	97.45
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	95.68
2fxo_A	129	Myosin heavy chain, cardiac muscle beta isoform; c	94.86
3hnw_A	138	Uncharacterized protein; coiled-coil, structural g	93.97
2v71_A	189	Nuclear distribution protein NUDE-like 1; developm	93.6
2efr_A	155	General control protein GCN4 and tropomyosin 1 Al;	93.45
3u1c_A	101	Tropomyosin alpha-1 chain; anti-parallel coiled co	93.23
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	93.17
3u59_A	101	Tropomyosin beta chain; muscle contraction, actin,	92.97
3o0z_A	168	RHO-associated protein kinase 1; coiled-coil, tran	92.93
2v71_A	189	Nuclear distribution protein NUDE-like 1; developm	92.61
1l8d_A	112	DNA double-strand break repair RAD50 ATPase; zinc	92.61
3o0z_A	168	RHO-associated protein kinase 1; coiled-coil, tran	91.84
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	91.77
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	91.72
1ic2_A	81	Tropomyosin alpha chain, skeletal muscle; alpha-he	91.49
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	91.36
3ol1_A	119	Vimentin; structural genomics, PSI-2, protein stru	91.19
3hnw_A	138	Uncharacterized protein; coiled-coil, structural g	91.05
3ghg_A	562	Fibrinogen alpha chain; triple-stranded coiled coi	90.82
3u1c_A	101	Tropomyosin alpha-1 chain; anti-parallel coiled co	90.41
1ic2_A	81	Tropomyosin alpha chain, skeletal muscle; alpha-he	90.34
3tnu_B	129	Keratin, type II cytoskeletal 5; coiled-coil, stru	90.17
3u59_A	101	Tropomyosin beta chain; muscle contraction, actin,	89.37
3tnu_A	131	Keratin, type I cytoskeletal 14; coiled-coil, stru	89.33
2fxo_A	129	Myosin heavy chain, cardiac muscle beta isoform; c	88.51
3ghg_A	562	Fibrinogen alpha chain; triple-stranded coiled coi	88.24
3q8t_A	96	Beclin-1; autophagy, ATG14L uvrag, apoptosis; 1.90	88.2
1l8d_A	112	DNA double-strand break repair RAD50 ATPase; zinc	87.48
2jee_A	81	YIIU; FTSZ, septum, coiled-coil, cell division, ce	87.33
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	87.28
3swk_A	86	Vimentin; cytoskeleton, intermediate filament, alp	86.93
3swk_A	86	Vimentin; cytoskeleton, intermediate filament, alp	86.84
2b9c_A	147	Striated-muscle alpha tropomyosin; alpha-helix, co	86.7
1m1j_B	464	Fibrinogen beta chain; coiled coils, disulfide rin	85.23
3s4r_A	93	Vimentin; alpha-helix, cytoskeleton, intermediate	82.72
3ol1_A	119	Vimentin; structural genomics, PSI-2, protein stru	82.05
1deq_A	390	Fibrinogen (alpha chain); coiled-coil, blood clott	82.02
2v4h_A	110	NF-kappa-B essential modulator; transcription, met	80.18

>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1 PDB: 2tma_A 2w49_A 2w4u_A

Probab=98.91  E-value=3.9e-05  Score=73.23  Aligned_cols=106  Identities=16%  Similarity=0.234  Sum_probs=66.4

Q ss_pred             hhhhhhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 048095            9 RGFNLKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEES   88 (535)
Q Consensus         9 ~~~~~KL~~te~dLerved~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~   88 (535)
                      .++.+|+...+.+++.+...+.++...+..+...+..+...+..+...+..+...+......+...+..+..+...+..+
T Consensus         2 ~~~~~~~~~l~~~~~~~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (284)
T 1c1g_A            2 DAIKKKMQMLKLDKENALDRADEAEADKKAAEDRSKQLEDELVSLQKKLKATEDELDKYSEALKDAQEKLELAEKKATDA   81 (284)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45666777777777777777777777777776666666666666666666666666666666666666666555555555


Q ss_pred             HHHHHHHHHHHHHHHHHHhhhhhhHH
Q 048095           89 NSELQSKEIELGLLQKRVGECNCELE  114 (535)
Q Consensus        89 e~El~~~eeEL~~lqk~l~E~~~el~  114 (535)
                      ...+......+..+...+..+..++.
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~  107 (284)
T 1c1g_A           82 EADVASLNRRIQLFEEELDRAQERLA  107 (284)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55555555555555555544444443

>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1 PDB: 2tma_A 2w49_A 2w4u_A

Probab=98.79  E-value=0.0001  Score=70.25  Aligned_cols=103  Identities=17%  Similarity=0.163  Sum_probs=45.4

Q ss_pred             hhhhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           11 FNLKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNS   90 (535)
Q Consensus        11 ~~~KL~~te~dLerved~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~   90 (535)
                      +...++.....+..+...+..+...+..+...+..+...+..+...+..+...+......+......+..+...+.....
T Consensus        11 l~~~~~~~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   90 (284)
T 1c1g_A           11 LKLDKENALDRADEAEADKKAAEDRSKQLEDELVSLQKKLKATEDELDKYSEALKDAQEKLELAEKKATDAEADVASLNR   90 (284)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444444444444444444444444444444444444444444444444444444444444444444444


Q ss_pred             HHHHHHHHHHHHHHHHhhhhhhH
Q 048095           91 ELQSKEIELGLLQKRVGECNCEL  113 (535)
Q Consensus        91 El~~~eeEL~~lqk~l~E~~~el  113 (535)
                      .+.....++..+...+.++...+
T Consensus        91 ~~~~~~~~~~~~~~~~~~~~~~~  113 (284)
T 1c1g_A           91 RIQLFEEELDRAQERLATALQKL  113 (284)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444444444444444433333

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A

Probab=98.54  E-value=2e-07  Score=110.62  Aligned_cols=109  Identities=17%  Similarity=0.118  Sum_probs=60.3

Q ss_pred             cchhhhhhhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Q 048095            6 NEIRGFNLKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEI   85 (535)
Q Consensus         6 ~~~~~~~~KL~~te~dLerved~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eI   85 (535)
                      .+|+....+|..++.+|.++++.+.+++.++..+..+...+..++......+..+...+..+..++..++..+..++.++
T Consensus       857 ~El~~L~~eL~el~~~L~~le~~l~ele~~l~~Le~e~~~l~~~L~~e~~~l~~~e~~l~~l~~~~~~Le~~l~ele~el  936 (1184)
T 1i84_S          857 EEMQAKDEELQRTKERQQKAEAELKELEQKHTQLCEEKNLLQEKLQAETELYAEAEEMRVRLAAKKQELEEILHEMEARI  936 (1184)
T ss_dssp             HHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45677778888888888888888888888888887777777777666666665555555555555555555555555555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhhhHH
Q 048095           86 EESNSELQSKEIELGLLQKRVGECNCELE  114 (535)
Q Consensus        86 ee~e~El~~~eeEL~~lqk~l~E~~~el~  114 (535)
                      ++.+..+.....++..+...+.++..+++
T Consensus       937 ee~ee~l~el~~e~~~le~el~~L~~ele  965 (1184)
T 1i84_S          937 EEEEERSQQLQAEKKKMQQQMLDLEEQLE  965 (1184)
T ss_dssp             HHHHHC-----------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55555555544444444444444444443

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A

Probab=98.43  E-value=3.7e-07  Score=108.36  Aligned_cols=82  Identities=11%  Similarity=0.096  Sum_probs=33.1

Q ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           21 QLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELG  100 (535)
Q Consensus        21 dLerved~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El~~~eeEL~  100 (535)
                      ++...+..+.+++.++..+...+.++..++..++.++..+..++......+......+..+..++..++.++.....++.
T Consensus       858 El~~L~~eL~el~~~L~~le~~l~ele~~l~~Le~e~~~l~~~L~~e~~~l~~~e~~l~~l~~~~~~Le~~l~ele~ele  937 (1184)
T 1i84_S          858 EMQAKDEELQRTKERQQKAEAELKELEQKHTQLCEEKNLLQEKLQAETELYAEAEEMRVRLAAKKQELEEILHEMEARIE  937 (1184)
T ss_dssp             HCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344444444444444444444444444444444444444333333333333333333333333333333333333333


Q ss_pred             HH
Q 048095          101 LL  102 (535)
Q Consensus       101 ~l  102 (535)
                      ..
T Consensus       938 e~  939 (1184)
T 1i84_S          938 EE  939 (1184)
T ss_dssp             HH
T ss_pred             HH
Confidence            33

>3na7_A HP0958; flagellar biogenesis, flagellum export, C4 Zn-ribbon, coiled post-transcriptional, gene regulation, chaperone; HET: EPE; 2.20A {Helicobacter pylori}

Probab=97.58  E-value=0.0071  Score=59.86  Aligned_cols=26  Identities=12%  Similarity=-0.035  Sum_probs=9.8

Q ss_pred             HHHHHHHHHHHHhhHHHhHHHhhhhh
Q 048095          171 RQLAVVQKRIGECNNELQLKENELNL  196 (535)
Q Consensus       171 k~le~~~k~~~~~~~~l~~k~k~l~~  196 (535)
                      ..++.....+.....+|.....+++.
T Consensus       125 ~~l~~~~~~l~~~~~~l~~~~~~~~~  150 (256)
T 3na7_A          125 EKQEDLKKEMLELEKLALELESLVEN  150 (256)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333333333

>3na7_A HP0958; flagellar biogenesis, flagellum export, C4 Zn-ribbon, coiled post-transcriptional, gene regulation, chaperone; HET: EPE; 2.20A {Helicobacter pylori}

Probab=97.45  E-value=0.018  Score=56.99  Aligned_cols=55  Identities=11%  Similarity=0.146  Sum_probs=25.1

Q ss_pred             HHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhhHHHhHHHhhhhhHHHHHHHH
Q 048095          150 EELSLLQKSIRECKGELDSKERQLAVVQKRIGECNNELQLKENELNLVKTVVEHC  204 (535)
Q Consensus       150 ~eL~~~~k~i~e~~~EL~~Kek~le~~~k~~~~~~~~l~~k~k~l~~~~~~~~~~  204 (535)
                      +++....+.+..+..++.-....++..+..+......+.....++...+..+..-
T Consensus        97 kEie~~~~~i~~lE~eile~~e~ie~~~~~l~~~~~~l~~~~~~l~~~~~~~~~~  151 (256)
T 3na7_A           97 IEEDIAKERSNQANREIENLQNEIKRKSEKQEDLKKEMLELEKLALELESLVENE  151 (256)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444444444444444444444444444444444444444444444444433333

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=95.68  E-value=2.6  Score=54.84  Aligned_cols=17  Identities=24%  Similarity=0.429  Sum_probs=8.6

Q ss_pred             HHHHHHHHHHhhhhhcc
Q 048095          298 IKKSIKELESAKKELEQ  314 (535)
Q Consensus       298 ~~k~~ke~el~ekq~e~  314 (535)
                      +..++++-+.+++++++
T Consensus      2380 I~~kl~~a~~te~~I~~ 2396 (3245)
T 3vkg_A         2380 IALKVEETETVMQEISE 2396 (3245)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            44445555555555544

>2fxo_A Myosin heavy chain, cardiac muscle beta isoform; coiled coil (dimeric, parallel), familial hypertrophic cardiomyopathy, FHC-associated mutant E924K; 2.50A {Homo sapiens} SCOP: h.1.26.1 PDB: 2fxm_A

Probab=94.86  E-value=0.85  Score=40.48  Aligned_cols=35  Identities=17%  Similarity=0.084  Sum_probs=12.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           69 GELQSKQGELALVEKEIEESNSELQSKEIELGLLQ  103 (535)
Q Consensus        69 ~eIe~~qkeIe~le~eIee~e~El~~~eeEL~~lq  103 (535)
                      ..+..+...++..+.....+......++.+++.+.
T Consensus        83 ~~l~el~~rleeeee~~~~L~~~kkkle~e~~~Lk  117 (129)
T 2fxo_A           83 AKVKEMNKRLEDEEEMNAELTAKKRKLEDECSELK  117 (129)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333333333333333333

>3hnw_A Uncharacterized protein; coiled-coil, structural genomics, PSI-2, protein structure initiative, midwest center for structural genomics, MCSG; 2.20A {Eubacterium eligens}

Probab=93.97  E-value=0.5  Score=42.69  Aligned_cols=69  Identities=17%  Similarity=0.125  Sum_probs=53.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 048095           40 QKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGLLQKRVGE  108 (535)
Q Consensus        40 aek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El~~~eeEL~~lqk~l~E  108 (535)
                      +..|...+.++..++.++.++.+++..++.++...+..++.+..++.+++.++..+..++..++..+++
T Consensus        67 adEl~k~~~~~~~L~~~l~~~~kE~~~lK~el~~~~~k~e~~~~e~~~l~~~~~~l~~~~~~le~~~~~  135 (138)
T 3hnw_A           67 ADDYFKAKKMADSLSLDIENKDKEIYDLKHELIAAQIKAESSAKEIKELKSEINKYQKNIVKLETELND  135 (138)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            777888888888888888888888888888888888888888877777777777777777776655443

>2v71_A Nuclear distribution protein NUDE-like 1; developmental protein, nuclear protein, neurogenesis, cytosk LIS1 binding, differentiation; 2.24A {Rattus norvegicus}

Probab=93.60  E-value=5.1  Score=38.00  Aligned_cols=85  Identities=11%  Similarity=0.073  Sum_probs=39.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 048095           37 ALVQKEIEECNSELWCKEKELGLVQKRIRGCNGE----LQSKQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNCE  112 (535)
Q Consensus        37 e~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~e----Ie~~qkeIe~le~eIee~e~El~~~eeEL~~lqk~l~E~~~e  112 (535)
                      .....+...+...+..+..++...+........+    +..+++++..+......+...+..++..-+.+.......+.-
T Consensus        52 ~~~Ek~~~~L~~~~~~L~~E~e~~k~K~~~~~~e~~~~~~~Lq~el~~l~~~~~~l~~~ireLEq~NDdlEr~~R~~~~S  131 (189)
T 2v71_A           52 VQAEQRNRDLQADNQRLKYEVEALKEKLEHQYAQSYKQVSVLEDDLSQTRAIKEQLHKYVRELEQANDDLERAKRATIMS  131 (189)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHhh
Confidence            3334444444444444444444444444444333    444444444444444444444444444444444444444444


Q ss_pred             HHHHHHhhh
Q 048095          113 LECKQQQLG  121 (535)
Q Consensus       113 l~~k~~~~~  121 (535)
                      |+.-+..++
T Consensus       132 leD~e~kln  140 (189)
T 2v71_A          132 LEDFEQRLN  140 (189)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            444444443

>2efr_A General control protein GCN4 and tropomyosin 1 Al; destabilizing cluster, hydrophobic core, contractIle protein; 1.80A {Saccharomyces cerevisiae} PDB: 2efs_A 2d3e_A

Probab=93.45  E-value=4.6  Score=37.10  Aligned_cols=89  Identities=17%  Similarity=0.180  Sum_probs=47.7

Q ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           18 KERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEI   97 (535)
Q Consensus        18 te~dLerved~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El~~~ee   97 (535)
                      ++.+|+|.++.....+..+..|...+.-...-+..++..-.......+..+.+|..++..+-.++...+..+.....++.
T Consensus        26 ~E~dLEraEERae~aE~k~~eLEeeL~~v~~nlKsLE~seekasqrEd~yEeqIk~L~~kLKEAE~RAE~AERsv~kLEk  105 (155)
T 2efr_A           26 LKKLLERAEERAELSEGKSAELEEELKTVTNNLKSLEAQAEKYSQKEDKYEEEIKVLSDKLKEAETRAEFAERSVTKLEK  105 (155)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            56666666666666666666665555555555555555544444444445555555555554444444444444444444


Q ss_pred             HHHHHHHHH
Q 048095           98 ELGLLQKRV  106 (535)
Q Consensus        98 EL~~lqk~l  106 (535)
                      .++.+...+
T Consensus       106 ~id~lEd~L  114 (155)
T 2efr_A          106 SIDDLEDEL  114 (155)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            444444443

>3u1c_A Tropomyosin alpha-1 chain; anti-parallel coiled coil, contractIle protein; 1.80A {Gallus gallus} PDB: 3u1a_A

Probab=93.23  E-value=3.5  Score=35.06  Aligned_cols=67  Identities=12%  Similarity=0.131  Sum_probs=34.4

Q ss_pred             hhhhhhhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 048095            8 IRGFNLKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSK   74 (535)
Q Consensus         8 ~~~~~~KL~~te~dLerved~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~   74 (535)
                      +....+|+...+.+.+...|.....+.++.....+......++..|...++.+..+++..+..+...
T Consensus         4 MdaIKkKm~~lk~e~e~a~drae~~e~~~k~~e~~~~~~E~Ei~sL~kk~~~lE~eld~~ee~L~ea   70 (101)
T 3u1c_A            4 MDAIKKKMQMLKLDKENALDRAEQAEADKKAAEERSKQLEDDIVQLEKQLRVTEDSRDQVLEELHKS   70 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4455566666666666666666666666655555555544444444444433333333333333333

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=93.17  E-value=27  Score=45.89  Aligned_cols=11  Identities=27%  Similarity=0.682  Sum_probs=6.9

Q ss_pred             HHHHHHhcccc
Q 048095          424 AGEWKKKMGVI  434 (535)
Q Consensus       424 A~~WK~~i~~~  434 (535)
                      +..||.-+..+
T Consensus      2556 ~~~W~~~~~s~ 2566 (3245)
T 3vkg_A         2556 SSDWKQFFGKD 2566 (3245)
T ss_dssp             HHHHHHHTCSS
T ss_pred             HHHHHHHhccc
Confidence            35688877543

>3u59_A Tropomyosin beta chain; muscle contraction, actin, contractIle protein; 2.50A {Gallus gallus}

Probab=92.97  E-value=3.8  Score=34.72  Aligned_cols=75  Identities=12%  Similarity=0.125  Sum_probs=38.4

Q ss_pred             hhhhhhhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Q 048095            8 IRGFNLKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVE   82 (535)
Q Consensus         8 ~~~~~~KL~~te~dLerved~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le   82 (535)
                      +....+|+...+.+.+...|.....+.++.....+......++..+...+..+....+.....+...+..++..+
T Consensus         4 md~iKkKm~~lk~e~e~a~d~ae~~e~~~k~~e~~~~~~E~ei~sL~kKiq~lE~eld~~~e~l~~a~~kLe~~e   78 (101)
T 3u59_A            4 MEAIKKKMQMLKLDKENAIDRAEQAEADKKQAEDRCKQLEEEQQGLQKKLKGTEDEVEKYSESVKEAQEKLEQAE   78 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            445556666666666666666666666666555555555444444444444444444443333333333333333

>3o0z_A RHO-associated protein kinase 1; coiled-coil, transferase; HET: MSE; 2.33A {Homo sapiens}

Probab=92.93  E-value=5.9  Score=36.86  Aligned_cols=112  Identities=13%  Similarity=0.058  Sum_probs=54.4

Q ss_pred             hhhhhhhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHH-------HHHHHHhHHHHHH
Q 048095            8 IRGFNLKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWC-------KEKELGLV-------QKRIRGCNGELQS   73 (535)
Q Consensus         8 ~~~~~~KL~~te~dLerved~i~ElEkqle~Laek~~Elk~EL~~-------LE~eLeeL-------K~eIeE~e~eIe~   73 (535)
                      +.++|.+|.+--..=.|....-.|+......+.....++...+..       |+.++..+       ++.-..-...+..
T Consensus        15 L~E~n~kLk~EsE~~~rlkK~~tEl~k~~~~~E~~~rELq~~~~~L~~~k~~Leke~~~LQa~L~qEr~~r~q~se~~~e   94 (168)
T 3o0z_A           15 LEEANDLLRTESDTAVRLRKSHTEMSKSISQLESLNRELQERNRILENSKSQTDKDYYQLQAILEAERRDRGHDSEMIGD   94 (168)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            445666666665655666666666665555553333333333333       33333222       2222222233334


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHh
Q 048095           74 KQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNCELECKQQQ  119 (535)
Q Consensus        74 ~qkeIe~le~eIee~e~El~~~eeEL~~lqk~l~E~~~el~~k~~~  119 (535)
                      ++..+..+..+++...........+-+.+++.++.+.++-.+.+++
T Consensus        95 lq~ri~~L~~El~~~k~~~~k~~~e~r~L~Ekl~~lEKe~a~~eid  140 (168)
T 3o0z_A           95 LQARITSLQEEVKHLKHNLEKVEGERKEAQDMLNHSEKEKNNLEID  140 (168)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHH
Confidence            4444444445555555555555555555555555555555555544

>2v71_A Nuclear distribution protein NUDE-like 1; developmental protein, nuclear protein, neurogenesis, cytosk LIS1 binding, differentiation; 2.24A {Rattus norvegicus}

Probab=92.61  E-value=5.8  Score=37.59  Aligned_cols=9  Identities=44%  Similarity=0.553  Sum_probs=3.4

Q ss_pred             hHHHHHHhh
Q 048095          112 ELECKQQQL  120 (535)
Q Consensus       112 el~~k~~~~  120 (535)
                      +|+...-.+
T Consensus       113 eLEq~NDdl  121 (189)
T 2v71_A          113 ELEQANDDL  121 (189)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHhhHH
Confidence            333333333

>1l8d_A DNA double-strand break repair RAD50 ATPase; zinc finger, DNA repair, recombination, HOOK motif, replication; HET: DNA CIT; 2.20A {Pyrococcus furiosus} SCOP: h.4.12.1

Probab=92.61  E-value=2.9  Score=35.58  Aligned_cols=38  Identities=13%  Similarity=0.086  Sum_probs=19.4

Q ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           23 RFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLV   60 (535)
Q Consensus        23 erved~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeL   60 (535)
                      ..+.+.+.++...+..|...+..+..++..+...+..+
T Consensus         6 ~~~~~~~~~~~~~l~~L~~~~~~l~~~i~~l~~~l~~l   43 (112)
T 1l8d_A            6 EELETKKTTIEEERNEITQRIGELKNKIGDLKTAIEEL   43 (112)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            33444444555555555555555555555555555444

>3o0z_A RHO-associated protein kinase 1; coiled-coil, transferase; HET: MSE; 2.33A {Homo sapiens}

Probab=91.84  E-value=8.1  Score=35.92  Aligned_cols=73  Identities=15%  Similarity=0.093  Sum_probs=44.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHH
Q 048095           45 ECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNCELECKQ  117 (535)
Q Consensus        45 Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El~~~eeEL~~lqk~l~E~~~el~~k~  117 (535)
                      ++...+..++....++......+......++.++..+...+..-..........+..++..+..+.-||+.-.
T Consensus        38 El~k~~~~~E~~~rELq~~~~~L~~~k~~Leke~~~LQa~L~qEr~~r~q~se~~~elq~ri~~L~~El~~~k  110 (168)
T 3o0z_A           38 EMSKSISQLESLNRELQERNRILENSKSQTDKDYYQLQAILEAERRDRGHDSEMIGDLQARITSLQEEVKHLK  110 (168)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444455555555666666666666666666666666666666666666666666666666666664433

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=91.77  E-value=1.8  Score=46.72  Aligned_cols=24  Identities=17%  Similarity=0.238  Sum_probs=11.5

Q ss_pred             HHHHHHHHHHHhhhHHHHHHHHHh
Q 048095          197 VKTVVEHCLQKLNLKKEELSLLQK  220 (535)
Q Consensus       197 ~~~~~~~~~kele~k~~~~~~~~~  220 (535)
                      .++.+.+..++......++++++.
T Consensus       556 ~~~~~~~l~~e~~~~~~~~~~l~~  579 (597)
T 3oja_B          556 KRAKQAELRQETSLKRQKVKQLEA  579 (597)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHH
Confidence            333334444444445555555553

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=91.72  E-value=1.9  Score=46.58  Aligned_cols=17  Identities=18%  Similarity=0.049  Sum_probs=6.1

Q ss_pred             HHHHHHHHHHHHHHHHH
Q 048095           90 SELQSKEIELGLLQKRV  106 (535)
Q Consensus        90 ~El~~~eeEL~~lqk~l  106 (535)
                      .+....+..++..++.+
T Consensus       544 ~~~~~le~~~~~~~~~~  560 (597)
T 3oja_B          544 QENIALEKQLDNKRAKQ  560 (597)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             hhhHHHHHHHhhhhhHH
Confidence            33333333333333333

>1ic2_A Tropomyosin alpha chain, skeletal muscle; alpha-helical coiled coil, alanine, symmetry, axial stagger, BEND, contractIle protein; 2.00A {Gallus gallus} SCOP: h.1.5.1

Probab=91.49  E-value=2.5  Score=34.42  Aligned_cols=47  Identities=17%  Similarity=0.225  Sum_probs=19.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHH
Q 048095           70 ELQSKQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNCELECK  116 (535)
Q Consensus        70 eIe~~qkeIe~le~eIee~e~El~~~eeEL~~lqk~l~E~~~el~~k  116 (535)
                      .+.........++.+|..++..+...+.+++..+..+.+....|+..
T Consensus        28 ~l~~~e~~~~~~E~ev~~L~kKiq~lE~eld~~ee~l~~a~~kLeea   74 (81)
T 1ic2_A           28 DKKAAEERSKQLEDELVALQKKLKGTEDELDKYSESLKDAQEKLELA   74 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333444444444444444444444444444444444433

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus}

Probab=91.36  E-value=2.8  Score=49.45  Aligned_cols=16  Identities=19%  Similarity=0.306  Sum_probs=0.0

Q ss_pred             HhHHHHHHHHHHHHHH
Q 048095           30 GESKGELALVQKEIEE   45 (535)
Q Consensus        30 ~ElEkqle~Laek~~E   45 (535)
                      ..+++++..|+.++.+
T Consensus       924 ~~LE~kl~eLq~rL~~  939 (1080)
T 2dfs_A          924 IGLENKIMQLQRKIDE  939 (1080)
T ss_dssp             ----------------
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            3333334444333333

>3hnw_A Uncharacterized protein; coiled-coil, structural genomics, PSI-2, protein structure initiative, midwest center for structural genomics, MCSG; 2.20A {Eubacterium eligens}

Probab=91.05  E-value=2.4  Score=38.17  Aligned_cols=60  Identities=18%  Similarity=0.220  Sum_probs=25.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           47 NSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGLLQKRV  106 (535)
Q Consensus        47 k~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El~~~eeEL~~lqk~l  106 (535)
                      ..++-.+..++..+..++.+...++..+..++..+.-+++....++..+..++..++.++
T Consensus        67 adEl~k~~~~~~~L~~~l~~~~kE~~~lK~el~~~~~k~e~~~~e~~~l~~~~~~l~~~~  126 (138)
T 3hnw_A           67 ADDYFKAKKMADSLSLDIENKDKEIYDLKHELIAAQIKAESSAKEIKELKSEINKYQKNI  126 (138)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333444444444444444444444444444444444444444444444444444443333

>3ghg_A Fibrinogen alpha chain; triple-stranded coiled coil, beta sheets, alpha helices, AMY amyloidosis, blood coagulation, disease mutation, glycoprot phosphoprotein; HET: NAG NDG BMA MAN GAL SIA; 2.90A {Homo sapiens} PDB: 3h32_A* 2a45_G*

Probab=90.82  E-value=2.2  Score=46.08  Aligned_cols=27  Identities=7%  Similarity=0.106  Sum_probs=0.0

Q ss_pred             cCCCCCCh--HHHHHHHHHhhhhhhhHHH
Q 048095          452 RLAPAFDG--NELESLLDIVAHYRQTAKL  478 (535)
Q Consensus       452 gi~s~Fd~--del~~Lv~~va~~~~~~~L  478 (535)
                      |-..+|..  -+...+|...+..+..|.+
T Consensus       485 g~ld~~~~rhpd~~~ff~~~stg~~f~~~  513 (562)
T 3ghg_A          485 GTLDGFRHRHPDEAAFFDTASTGKTFPGF  513 (562)
T ss_dssp             -----------------------------
T ss_pred             cchhhhhhhCcchHhhccccccCcccccc
Confidence            66666633  5666677666665554433

>3u1c_A Tropomyosin alpha-1 chain; anti-parallel coiled coil, contractIle protein; 1.80A {Gallus gallus} PDB: 3u1a_A

Probab=90.41  E-value=7.5  Score=32.97  Aligned_cols=64  Identities=13%  Similarity=0.174  Sum_probs=28.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           32 SKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSK   95 (535)
Q Consensus        32 lEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El~~~   95 (535)
                      |.+.+..|....+.....+..++..+......-.....++.++++.+..++.+++.++..+...
T Consensus         7 IKkKm~~lk~e~e~a~drae~~e~~~k~~e~~~~~~E~Ei~sL~kk~~~lE~eld~~ee~L~ea   70 (101)
T 3u1c_A            7 IKKKMQMLKLDKENALDRAEQAEADKKAAEERSKQLEDDIVQLEKQLRVTEDSRDQVLEELHKS   70 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444444444444444444444444444444444444444444444444444444433333333

>1ic2_A Tropomyosin alpha chain, skeletal muscle; alpha-helical coiled coil, alanine, symmetry, axial stagger, BEND, contractIle protein; 2.00A {Gallus gallus} SCOP: h.1.5.1

Probab=90.34  E-value=3  Score=33.99  Aligned_cols=27  Identities=11%  Similarity=0.026  Sum_probs=11.4

Q ss_pred             hhHHHHHHHHHHHHHHHHhHHHHHHHH
Q 048095           13 LKLQCKERQLRFLEKRIGESKGELALV   39 (535)
Q Consensus        13 ~KL~~te~dLerved~i~ElEkqle~L   39 (535)
                      +|+...+.+.+...+.....+.++...
T Consensus         6 kKm~~lk~e~d~a~~~~~~~e~~l~~~   32 (81)
T 1ic2_A            6 KKMQMLKLDKENALDRAEQAEADKKAA   32 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444444444444433333

>3tnu_B Keratin, type II cytoskeletal 5; coiled-coil, structural support, cytosolic protein; 3.00A {Homo sapiens}

Probab=90.17  E-value=8.3  Score=33.91  Aligned_cols=69  Identities=16%  Similarity=0.262  Sum_probs=32.8

Q ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           21 QLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSEL   92 (535)
Q Consensus        21 dLerved~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El   92 (535)
                      +|......|.+++.++..|..++..+...-..|+..+.+.....   ...+...+..|..++.++...+.++
T Consensus        30 ~l~~~k~Ei~elrr~iq~L~~el~~l~~~~~~LE~~l~e~e~~~---~~~l~~~q~~i~~lE~eL~~~r~e~   98 (129)
T 3tnu_B           30 DLRNTKHEISEMNRMIQRLRAEIDNVKKQCANLQNAIADAEQRG---ELALKDARNKLAELEEALQKAKQDM   98 (129)
T ss_dssp             ----CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHhHHHHHHHH
Confidence            34445555555555555555555555555555555554443322   2233344444444444444444443

>3u59_A Tropomyosin beta chain; muscle contraction, actin, contractIle protein; 2.50A {Gallus gallus}

Probab=89.37  E-value=9  Score=32.35  Aligned_cols=57  Identities=19%  Similarity=0.175  Sum_probs=23.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 048095           32 SKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEES   88 (535)
Q Consensus        32 lEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~   88 (535)
                      |.+.+..|....+.....+..++.++......-.....++.++++.+..++..++.+
T Consensus         7 iKkKm~~lk~e~e~a~d~ae~~e~~~k~~e~~~~~~E~ei~sL~kKiq~lE~eld~~   63 (101)
T 3u59_A            7 IKKKMQMLKLDKENAIDRAEQAEADKKQAEDRCKQLEEEQQGLQKKLKGTEDEVEKY   63 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444444444444444444443333333334444433333333333333

>3tnu_A Keratin, type I cytoskeletal 14; coiled-coil, structural support, cytosolic protein; 3.00A {Homo sapiens}

Probab=89.33  E-value=8.5  Score=33.99  Aligned_cols=69  Identities=17%  Similarity=0.137  Sum_probs=28.6

Q ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           21 QLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSEL   92 (535)
Q Consensus        21 dLerved~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El   92 (535)
                      ++......|.+++.++..|..++..+...-..|+..+.+.....   ...+...+..|..++.++...+.++
T Consensus        32 ~l~~~k~Ei~elrr~iq~L~~el~~l~~~~~sLE~~l~e~e~~~---~~~l~~~q~~i~~lE~eL~~~r~em  100 (131)
T 3tnu_A           32 LVQSGKSEISELRRTMQNLEIELQSQLSMKASLENSLEETKGRY---CMQLAQIQEMIGSVEEQLAQLRCEM  100 (131)
T ss_dssp             ---------CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444555555555555555555555555555555554443322   2233334444444444444444443

>2fxo_A Myosin heavy chain, cardiac muscle beta isoform; coiled coil (dimeric, parallel), familial hypertrophic cardiomyopathy, FHC-associated mutant E924K; 2.50A {Homo sapiens} SCOP: h.1.26.1 PDB: 2fxm_A

Probab=88.51  E-value=12  Score=32.85  Aligned_cols=11  Identities=36%  Similarity=0.588  Sum_probs=4.6

Q ss_pred             hhHHHHHHhhh
Q 048095          111 CELECKQQQLG  121 (535)
Q Consensus       111 ~el~~k~~~~~  121 (535)
                      .+|....+.+.
T Consensus       100 ~~L~~~kkkle  110 (129)
T 2fxo_A          100 AELTAKKRKLE  110 (129)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            34444444443

>3ghg_A Fibrinogen alpha chain; triple-stranded coiled coil, beta sheets, alpha helices, AMY amyloidosis, blood coagulation, disease mutation, glycoprot phosphoprotein; HET: NAG NDG BMA MAN GAL SIA; 2.90A {Homo sapiens} PDB: 3h32_A* 2a45_G*

Probab=88.24  E-value=4.8  Score=43.52  Aligned_cols=31  Identities=23%  Similarity=0.077  Sum_probs=15.0

Q ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           26 EKRIGESKGELALVQKEIEECNSELWCKEKE   56 (535)
Q Consensus        26 ed~i~ElEkqle~Laek~~Elk~EL~~LE~e   56 (535)
                      ...|.++..+++.++..+.....-+..+...
T Consensus        63 tkrINELKnqLEdlsKnsKdseqy~k~~~E~   93 (562)
T 3ghg_A           63 TNRINKLKNSLFEYQKNNKDSHSLTTNIMEI   93 (562)
T ss_dssp             HHHHHHHHHHHTHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHhhchhHHHHHHHHHHH
Confidence            4455556666665544444444444333333

>3q8t_A Beclin-1; autophagy, ATG14L uvrag, apoptosis; 1.90A {Rattus norvegicus}

Probab=88.20  E-value=11  Score=31.79  Aligned_cols=56  Identities=9%  Similarity=0.114  Sum_probs=22.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           46 CNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGL  101 (535)
Q Consensus        46 lk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El~~~eeEL~~  101 (535)
                      +..++..++.+...+..+-...=.++.....++..+..+...+.+.+......|+.
T Consensus        37 l~~el~~le~E~~~L~~eE~~~w~eyn~~~~ql~e~~dE~~Sl~~q~~~~~~qLdk   92 (96)
T 3q8t_A           37 VAENLEKVQAEAERLDQEEAQYQREYSEFKRQQLELDDELKSVENQMRYAQMQLDK   92 (96)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333333334444444444444444444444444444433

>1l8d_A DNA double-strand break repair RAD50 ATPase; zinc finger, DNA repair, recombination, HOOK motif, replication; HET: DNA CIT; 2.20A {Pyrococcus furiosus} SCOP: h.4.12.1

Probab=87.48  E-value=8.8  Score=32.49  Aligned_cols=42  Identities=14%  Similarity=0.133  Sum_probs=23.3

Q ss_pred             hHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           14 KLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEK   55 (535)
Q Consensus        14 KL~~te~dLerved~i~ElEkqle~Laek~~Elk~EL~~LE~   55 (535)
                      .|+.++..++.+...+.++......+..++..+...+..++.
T Consensus         4 ~~~~~~~~~~~~~~~l~~L~~~~~~l~~~i~~l~~~l~~l~~   45 (112)
T 1l8d_A            4 LLEELETKKTTIEEERNEITQRIGELKNKIGDLKTAIEELKK   45 (112)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            445555555555555555555555555555555555555543

>2jee_A YIIU; FTSZ, septum, coiled-coil, cell division, cell cycle, hypothetical protein; 2.8A {Escherichia coli}

Probab=87.33  E-value=8.8  Score=31.56  Aligned_cols=69  Identities=12%  Similarity=0.133  Sum_probs=48.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           36 LALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGLLQK  104 (535)
Q Consensus        36 le~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El~~~eeEL~~lqk  104 (535)
                      ++.|..++......|.-+..++++++.+...+..+.+........+..+++.++.+......+|+.+=.
T Consensus         8 leqLE~KIq~avdtI~lLqmEieELKekN~~L~~e~~e~~~~~~~L~~en~qLk~E~~~wq~Rl~~LLg   76 (81)
T 2jee_A            8 FEKLEAKVQQAIDTITLLQMEIEELKEKNNSLSQEVQNAQHQREELERENNHLKEQQNGWQERLQALLG   76 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345566666666777777777777777777777777777777777777777777777777777765543

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus}

Probab=87.28  E-value=16  Score=43.02  Aligned_cols=51  Identities=20%  Similarity=0.231  Sum_probs=24.6

Q ss_pred             HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHH
Q 048095           64 IRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNCELE  114 (535)
Q Consensus        64 IeE~e~eIe~~qkeIe~le~eIee~e~El~~~eeEL~~lqk~l~E~~~el~  114 (535)
                      ....+..+..++.++..++.++.....+....++.++.++.++.+....|+
T Consensus       979 ~~~~~~~v~~L~~e~~~l~~~~~~~~ke~~~lee~~~~~~~~L~~kv~~L~ 1029 (1080)
T 2dfs_A          979 AKNATNRVLSLQEEIAKLRKELHQTQTEKKTIEEWADKYKHETEQLVSELK 1029 (1080)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333444455555555555555555555555555555544444443333333

>3swk_A Vimentin; cytoskeleton, intermediate filament, alpha-helix, structural; 1.70A {Homo sapiens}

Probab=86.93  E-value=9.1  Score=31.61  Aligned_cols=74  Identities=8%  Similarity=0.104  Sum_probs=31.7

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048095           31 ESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEESNSELQSKEIELGLLQK  104 (535)
Q Consensus        31 ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~e~El~~~eeEL~~lqk  104 (535)
                      ++..++..+...-..+..++..+...+..++...++.-..-...+.++..+.+.+.++-..+..++.++..++.
T Consensus         4 eLr~qi~~l~~e~~~l~~e~dn~~~~~edfk~KyE~E~~~R~~~E~d~~~LrkdvD~a~l~r~dLE~kvesL~e   77 (86)
T 3swk_A            4 ELRRQVDQLTNDKARVEVERDNLAEDIMRLREKLQEEMLQREEAENTLQSFRQDVDNASLARLDLERKVESLQE   77 (86)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444444444444444444444444444444444444444444444444444444444433

>3swk_A Vimentin; cytoskeleton, intermediate filament, alpha-helix, structural; 1.70A {Homo sapiens}

Probab=86.84  E-value=9.1  Score=31.61  Aligned_cols=79  Identities=10%  Similarity=0.095  Sum_probs=48.6

Q ss_pred             chhhhhhhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Q 048095            7 EIRGFNLKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEI   85 (535)
Q Consensus         7 ~~~~~~~KL~~te~dLerved~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eI   85 (535)
                      +|++...++++...+=.++.-.+.-.....+.+..+|+.=..--...+.++..+++.++...-....++.+++.+..+|
T Consensus         1 Ei~eLr~qi~~l~~e~~~l~~e~dn~~~~~edfk~KyE~E~~~R~~~E~d~~~LrkdvD~a~l~r~dLE~kvesL~eEl   79 (86)
T 3swk_A            1 EMRELRRQVDQLTNDKARVEVERDNLAEDIMRLREKLQEEMLQREEAENTLQSFRQDVDNASLARLDLERKVESLQEEI   79 (86)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            4667777777777777777777777666666666666665555555566665555555555544444444444444444

>2b9c_A Striated-muscle alpha tropomyosin; alpha-helix, coiled coil, alanine, axial stagger, radius, SIDE-chain packing, crystal packing; 2.30A {Rattus norvegicus} SCOP: h.1.5.1

Probab=86.70  E-value=18  Score=32.76  Aligned_cols=113  Identities=12%  Similarity=0.185  Sum_probs=79.1

Q ss_pred             hhhhhhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 048095            9 RGFNLKLQCKERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGELALVEKEIEES   88 (535)
Q Consensus         9 ~~~~~KL~~te~dLerved~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeIe~le~eIee~   88 (535)
                      .....+|..+..-|........+.+.-...|..+-..-...+..++.+|.+.+..-.+-...+....+.+..++..+...
T Consensus        13 er~eerl~~a~~kLeeaek~adE~eR~~k~lE~r~~~deEr~~~lE~qLkeak~~aeeadrKyeE~~RKl~~~E~dLera   92 (147)
T 2b9c_A           13 DRAQERLATALQKLEEAEKAADESERGMKVIESRAQKDEEKMEIQEIQLKEAKHIAEDADRKYEEVARKLVIIESDLERA   92 (147)
T ss_dssp             GGGGTTTTHHHHHHHHHHHHHHHHTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Confidence            34455677777777777777788777788887777777777888888887777666666666666666666666666666


Q ss_pred             HHHHHHHHHHHHHHHHHHhhhhhhHHHHHHhhh
Q 048095           89 NSELQSKEIELGLLQKRVGECNCELECKQQQLG  121 (535)
Q Consensus        89 e~El~~~eeEL~~lqk~l~E~~~el~~k~~~~~  121 (535)
                      .......+..+..+...+.....-|.|.+.--+
T Consensus        93 eeRae~aE~k~~eLEeeL~~~~~nlKsLE~~ee  125 (147)
T 2b9c_A           93 EERAELSEGKCAELEEELKTVTNNLKSLEDKVE  125 (147)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhHHhHH
Confidence            666666666666666666666666666654333

>1m1j_B Fibrinogen beta chain; coiled coils, disulfide rings, fibrinogen, blood clotting; HET: NDG NAG; 2.70A {Gallus gallus} SCOP: d.171.1.1 h.1.8.1 PDB: 1ei3_B*

Probab=85.23  E-value=24  Score=37.73  Aligned_cols=71  Identities=14%  Similarity=0.091  Sum_probs=34.7

Q ss_pred             hhhhhhhHHH-HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Q 048095            8 IRGFNLKLQC-KERQLRFLEKRIGESKGELALVQKEIEECNSELWCKEKELGLVQKRIRGCNGELQSKQGEL   78 (535)
Q Consensus         8 ~~~~~~KL~~-te~dLerved~i~ElEkqle~Laek~~Elk~EL~~LE~eLeeLK~eIeE~e~eIe~~qkeI   78 (535)
                      |.++-.+-+. ++.+|..+++.+.++.........-+..++..+...+.++......|.+....++..+..|
T Consensus        87 l~D~L~k~q~~V~~~LqeLe~~l~~lsn~Ts~~~~~i~~Iq~slk~~Q~Qi~en~n~~~~~~~~~e~~~~~i  158 (464)
T 1m1j_B           87 LQTTLLKQEKTVKPVLRDLKDRVAKFSDTSTTMYQYVNMIDNKLVKTQKQRKDNDIILSEYNTEMELHYNYI  158 (464)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhhhHhHHHHHHHHHHHHhhhhhHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHHHHHHH
Confidence            4444443333 4555666666666665544443334444555555555555544444444444444444333

>3s4r_A Vimentin; alpha-helix, cytoskeleton, intermediate filament, structural; 2.45A {Homo sapiens} PDB: 3ssu_A

Probab=82.72  E-value=20  Score=29.95  Aligned_cols=41  Identities=10%  Similarity=0.160  Sum_probs=30.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 048095           72 QSKQGELALVEKEIEESNSELQSKEIELGLLQKRVGECNCE  112 (535)
Q Consensus        72 e~~qkeIe~le~eIee~e~El~~~eeEL~~lqk~l~E~~~e  112 (535)
                      ..+...|..+...|.....+...+..+++.++..+..+..+
T Consensus        52 ~~ye~~i~~Lr~~i~~~~~ek~~l~~e~dnl~~~~~~~k~K   92 (93)
T 3s4r_A           52 DLYEEEMRELRRQVDQLTNDKARVEVERDNLAEDIMRLREK   92 (93)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            34577788888888888888888888888877776555443

>2v4h_A NF-kappa-B essential modulator; transcription, metal-binding, NEMO - IKK gamma - NFKB pathwa darpin, transcription regulation; 2.9A {Mus musculus}

Probab=80.18  E-value=28  Score=30.07  Aligned_cols=24  Identities=21%  Similarity=0.235  Sum_probs=9.9

Q ss_pred             hhhhhhhHHHHHHHHHHHHHHHHh
Q 048095            8 IRGFNLKLQCKERQLRFLEKRIGE   31 (535)
Q Consensus         8 ~~~~~~KL~~te~dLerved~i~E   31 (535)
                      |...+-+|...+.-|..-.+.+.+
T Consensus        26 i~~L~~~L~~AEeaL~~Kq~~ide   49 (110)
T 2v4h_A           26 LEDLRQQLQQAEEALVAKQELIDK   49 (110)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444444444444444443333333

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

No hit with probability above 80.00