Citrus Sinensis ID: 005229

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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-------540-------550-------560-------570-------580-------590-------600-------610-------620-------630-------640-------650-------660-------670-------680-------690-------700-------
Protein Sequence
MVSWRVEKIMGLGQKRIGEFNCELELKENELNSLSVSLNLKNKPSSAQEWINKCQAYQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLMLCETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLEQKLDSMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIPGKKEELISKGKTIAECSKEVELKKNQLNLIQDKSSLFQTRTIVYLKELKEKETHFDSLKKGLEDRLQDLELKEREFEKRVKEFELREKELDSIRKAVEDRSKNLLLQVKIKDPENLTSSGRYLQFLLNQHLQKHDSIFCKVFDTIKSARDPALLVLHAMSGFYPPHSREGDLEFDVSIVRRSCILLLEQLSTVEPEINAQVRDEAMKVAGEWKKKMRVAVENSLEVLGFLHLLAAYRLAPAFDREELESLLCIVAQHRQTPKLRRTLGFADKVPGLQCSTTAEGRSAPSMLVGTSAPLNQSVSSPMNLPQCSGMDPNSSTSSLVSQYSGAQPQLENQYKRLRRESPSTIAYTPQTPASDNLSRSSLATQYGPGVAHIGGQTQFGLLAGNVSRMHFRGVRQRPWGKWAAEIRDPKKAARIWLGTFDTAEAAALAYDEAALRFKGRKAKLNFPERVQANLTTHLH
Secondary Structure (PSIPRED)
ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHccccccccccccccHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHccccHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEHccccccccccccccccccHHHHHHHHHHHHHHccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHccccHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHcccccccccccccccHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHccccHHccHHHHHHHHcccccEEEEEEEEcccccccccccccccccccccccccccccccccccccccccccHHHHccccccHcccccccccccccccccccccccccccccccccccccccccccccEccEEEcccccEEEEEEccccccEEEEcccccHHHHHHHHHHHHHHHHcccEEEccccccccccccccc
Coil and Loop (DISEMBL)
MVSWRVEKIMGLGQKRIGEFNCELELKENELNSLSVslnlknkpssAQEWINKCQAYQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLMLCETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLEQKLDSMRKQQKKYFDDVELKKRELNEIRKYIEElnqdpaskdkELRFVQQSIEECskeipgkkeelISKGKTIAECSKEVELKKNQLNLIQDKSSLFQTRTIVYLKELKEKETHFDSLKKGLEDRLQDLELKEREFEKRVKEFELREKELDSIRKAVEDRSKNLLLQvkikdpenltssGRYLQFLLNQHLQKHDSIFCKVFDTIKSARDPALLVLHAmsgfypphsregdlefDVSIVRRSCILLLEqlstvepeiNAQVRDEAMKVAGEWKKKMRVAVENSLEVLGFLHLLAAYRLAPAFDREELESLLCIVAQHRqtpklrrtlgfadkvpglqcsttaegrsapsmlvgtsaplnqsvsspmnlpqcsgmdpnsstsslvsqysgaqpqlENQYKRLrrespstiaytpqtpasdnlsrsslatqygpgvahiggqtqfgllagnvsrmhfrgvrqrpwgkwaaeirDPKKAARIWLGTFDTAEAAALAYDEAALRFKgrkaklnfPERVQANLTTHLH
Flexible Loop (DISEMBL)
mvswrvekimglgqkrigeFNCELELKENELNSLSVSLNLKNKPSSAQEWINKCQAYQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKqlafkeskissMQTLIEEnegllkdkEKLYDEVKNSLMLCETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLeqkldsmrkqqkkyfddvelkkrELNEIRKYieelnqdpaskdkELRFVQQSIeecskeipgkkeelisKGKTIAECSKEVELKKNqlnliqdksslfqTRTIVYLKELkekethfdslkkgledrlqdlelkerefekrvkefelrekeldsirkavedrsknlllqvkikdpenltsSGRYLQFLLNQHLQKHDSIFCKVFDTIKSARDPALLVLHAMSGFYPPHSREGDLEFDVSIVRRSCILLLeqlstvepeinaqVRDEAMKVAGEWKKKMRVAVENSLEVLGFLHLLAAYRLAPAFDREELESLLCIVAQHRQTPKLRRTLGFADKVPGLQCSTTAEGRSAPSMLVGTSAPLNQSVSSPMNLPQCSGMDPNSSTSSLVSQYSGAQPQLENQYKRLRRESPstiaytpqtpasdnlsrSSLATQYGPGVAHIGGQTQFGLLAGNVSRMHFrgvrqrpwgkwaaeirdPKKAARIWLGTFDTAEAAALAYDEAALRFKGRKAKLNFPERVqanltthlh
Low Complexity Region (SEG)
MVSWRVEKIMGLGQKRIGefncelelkenelnslsvslnlknkpssAQEWINKCQAYQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLMlcetklecekkeleltQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLEQKLDSMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIPGKKEELISKGKTIAECSKEVELKKNQLNLIQDKSSLFQTRTIVYLKELKEKETHFDSLKKGLEDRLQDlelkerefekrvkefelrekelDSIRKAVEDRSKNLLLQVKIKDPENLTSSGRYLQFLLNQHLQKHDSIFCKVFDTIKSARDPALLVLHAMSGFYPPHSREGDLEFDVSIVRRSCILLLEQLSTVEPEINAQVRDEAMKVAGEWKKKMRVAVENSLEVLGFLHLLAAYRLAPAFDREELESLLCIVAQHRQTPKLRRTLGFADKVPGLQCSTTAEGRSAPSMLVGTSAPLNQSVSSPMNLPQCSGMDPNSSTSSLVSQYSGAQPQLENQYKRLRRESPSTIAYTPQTPASDNLSRSSLATQYGPGVAHIGGQTQFGLLAGNVSRMHFRGVRQRPWGKWAAEIRDPKKAARIWLGTFDTaeaaalaydeaalRFKGRKAKLNFPERVQANLTTHLH
Disordered region (IsUnstruct)
***WRVEKIMGLGQKRIGEFNCELELK********************QEWINKCQAYQKELRLWKNLIEECYDEVEL*********************************************LYDEVKNSLMLCETKLEC********************************************************************************************************************************NQLNLIQDKSSLFQTRTIVYLKELK******************************************************LLLQVKIKD*ENLTSSGRYLQFLLNQHLQKHDSIFCKVFDTIKSARDPALLVLHAMSGFYPPHSREGDLEFDVSIVRRSCILLLEQLSTVEPEINAQVRDEAMKVAGEWKKKMRVAVENSLEVLGFLHLLAAYRLAPAFDREELESLLCIVAQHRQTPKLRRTLGFADKVPG**********************************************************************************************YGPGVAHIGGQTQFGLLAGNVSRMHFRGVRQRPWGKWAAEIRDPKKAARIWLGTFDTAEAAALAYDEAALRFKGRKAKL***************
Disordered Region (DISOPRED)
**SWRV***************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************DPALLVLHAMS******************VRRSCILLLEQLS**************MKVAGEWKKKMRVAVENSLEVLGFLHLLAAYRLAPAFDREELESLLCIVAQHRQTPKLRRTLGFADKVPGLQC*****************APLNQSVSSPMNLPQCSGMDPNSST*****************************************************************************VRQRPWGKWAAEIRDPKKAARIWLGTFDTAEAAALAYDEAALRFKGRKAKLNF*************
Disordered Region (DISEMBL)
MVSWRVEKIMGLGQKRIGEFNCELELKENELNSLSVSLNLKNKPSSAQEWINKCQAYQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLMLCETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLEQKLDSMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIPGKKEELISKGKTIAECSKEVELKKNQLNLIQDKSSLFQTRTIVYLKELKEKETHFDSLKKGLEDRLQDLELKEREFEKRVKEFELREKELDSIRKAVEDRSKNLLLQVKIKDPENLTSSGRYLQFLLNQHLQKHDSIFCKVFDTIKSARDPALLVLHAMSGFYPPHSREGDLEFDVSIVRRSCILLLEQLSTVEPEINAQVRDEAMKVAGEWKKKMRVAVENSLEVLGFLHLLAAYRLAPAFDREELESLLCIVAQHRQTPKLRRTLGFADKVPGLQCSTTAEGRSAPSMLVGTSAPLNQSVSSPMNLPQC*********************QLENQYKRLRRESPSTIAYTPQTPASDNLSRSSLATQYGPGVAHIGGQTQFGLLAGNVSRMHFRGVRQRPWGKWAAEIRDPKKAARIWLGTFDTAEAAALAYDEAALRFKGRKAKLNFPERVQANLTTHLH
Disordered Region (DISPRO)
**SWRVEKIMGLGQKRIGEFNCELELKENELNSLSVSLNLKNKPSSAQEWINKCQAYQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLMLCETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLEQKLDSMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIPGKKEELISKGKTIAECSKEVELKKNQLNLIQDKSSLFQTRTIVYLKELKEKETHFDSLKKGLEDRLQDLELKEREFEKRVKEFELREKELDSIRKAVEDRSKNLLLQVKIKDPENLTSSGRYLQFLLNQHLQKHDSIFCKVFDTIKSARDPALLVLHAMSGFYPPHSREGDLEFDVSIVRRSCILLLEQLSTVEPEINAQVRDEAMKVAGEWKKKMRVAVENSLEVLGFLHLLAAYRLAPAFDREELESLLCIVAQHRQTPKLRRTLGFADKVPGLQCSTTAEGRSAPSMLVGTSAPLNQSVSSPMNLPQCSGM****************Q******Y***RRESPSTIAYTPQ*************************************RMHFRGVRQRPWGKWAAEIRDPKKAARIWLGTFDTAEAAALAYDEAALRFKGRKAKLNFPER**********
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
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TM Helix, Signal Peptide (MEMSAT_SVM)
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TM Helix, Signal Peptide (Phobius)
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Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MVSWRVEKIMGLGQKRIGEFNCELELKENELNSLSVSLNLKNKPSSAQEWINKCQAYQKELRLWKNLIEECYDExxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxLMLCETKxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxPASKDKELRFVQQSIEECSKEIPGKKEELISKGKTxxxxxxxxxxxxxxxxxxxxxSSLFQTRTIVYLKELKEKETHFDSLxxxxxxxxxxxxxxxxxxxxxxxxxxxxEKELDSIRKAVEDRSKNLLLQVKIKDPENLTSSGRYLQFLLNQHLQKHDSIFCKVFDTIKSARDPALLVLHAMSGFYPPHSREGDLEFDVSIVRRSCILLLEQLSTVEPEINAQVRDEAMKVAGEWKKKMRVAVENSLEVLGFLHLLAAYRLAPAFDREELESLLCIVAQHRQTPKLRRTLGFADKVPGLQCSTTAEGRSAPSMLVGTSAPLNQSVSSPMNLPQCSGMDPNSSTSSLVSQYSGAQPQLENQYKRLRRESPSTIAYTPQTPASDNLSRSSLATQYGPGVAHIGGQTQFGLLAGNVSRMHFRGVRQRPWGKWAAEIRDPKKAARIWLGTFDTAEAAALAYDEAALRFKGRKAKLNFPERVQANLTTHLH
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

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	707	2.2.26 [Sep-21-2011]
Q9FH54	248	Ethylene-responsive trans	yes	no	0.096	0.274	0.852	2e-30
Q9LYU3	212	Ethylene-responsive trans	no	no	0.097	0.325	0.840	2e-29
P93007	218	Ethylene-responsive trans	no	no	0.100	0.325	0.732	1e-26
Q9LY29	263	Ethylene-responsive trans	no	no	0.097	0.262	0.788	3e-22
O80339	225	Ethylene-responsive trans	no	no	0.114	0.36	0.580	2e-21
Q9FGF8	391	Ethylene-responsive trans	no	no	0.076	0.138	0.833	2e-21
Q40479	233	Ethylene-responsive trans	N/A	no	0.090	0.274	0.707	3e-21
Q9LW50	237	Ethylene-responsive trans	N/A	no	0.090	0.270	0.707	3e-21
O22259	171	Ethylene-responsive trans	no	no	0.080	0.333	0.736	7e-21
O80337	268	Ethylene-responsive trans	no	no	0.090	0.238	0.707	9e-21

>sp|Q9FH54|EF114_ARATH Ethylene-responsive transcription factor ERF114 OS=Arabidopsis thaliana GN=ERF114 PE=2 SV=1

 Score =  134 bits (338), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 58/68 (85%), Positives = 65/68 (95%)

Query: 632 GNVSRMHFRGVRQRPWGKWAAEIRDPKKAARIWLGTFDTAEAAALAYDEAALRFKGRKAK 691
           G++ R H+RGVRQRPWGKWAAEIRDPKKAAR+WLGTF+TAE+AALAYDEAAL+FKG KAK
Sbjct: 83  GDLRRRHYRGVRQRPWGKWAAEIRDPKKAARVWLGTFETAESAALAYDEAALKFKGSKAK 142

Query: 692 LNFPERVQ 699
           LNFPERVQ
Sbjct: 143 LNFPERVQ 150

Probably acts as a transcriptional activator. Binds to the GCC-box pathogenesis-related promoter element. May be involved in the regulation of gene expression by stress factors and by components of stress signal transduction pathways.
Arabidopsis thaliana (taxid: 3702)

>sp|Q9LYU3|EF113_ARATH Ethylene-responsive transcription factor ERF113 OS=Arabidopsis thaliana GN=ERF113 PE=2 SV=1

 Score =  131 bits (330), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 58/69 (84%), Positives = 62/69 (89%)

Query: 636 RMHFRGVRQRPWGKWAAEIRDPKKAARIWLGTFDTAEAAALAYDEAALRFKGRKAKLNFP 695
           R H+RGVRQRPWGKWAAEIRDPKKAAR+WLGTF+TAE AALAYD AAL+FKG KAKLNFP
Sbjct: 36  RRHYRGVRQRPWGKWAAEIRDPKKAARVWLGTFETAEEAALAYDRAALKFKGTKAKLNFP 95

Query: 696 ERVQANLTT 704
           ERVQ   TT
Sbjct: 96  ERVQGPTTT 104

Probably acts as a transcriptional activator. Binds to the GCC-box pathogenesis-related promoter element. May be involved in the regulation of gene expression by stress factors and by components of stress signal transduction pathways.

Arabidopsis thaliana (taxid: 3702)

>sp|P93007|EF112_ARATH Ethylene-responsive transcription factor ERF112 OS=Arabidopsis thaliana GN=ERF112 PE=2 SV=1

 Score =  122 bits (305), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 52/71 (73%), Positives = 60/71 (84%)

Query: 633 NVSRMHFRGVRQRPWGKWAAEIRDPKKAARIWLGTFDTAEAAALAYDEAALRFKGRKAKL 692
           N  + ++RGVRQRPWGKWAAEIRDP KAAR+WLGTFDTAE AALAYD+AA  F+G KAKL
Sbjct: 64  NSRQRNYRGVRQRPWGKWAAEIRDPNKAARVWLGTFDTAEEAALAYDKAAFEFRGHKAKL 123

Query: 693 NFPERVQANLT 703
           NFPE ++ N T
Sbjct: 124 NFPEHIRVNPT 134

Probably acts as a transcriptional activator. Binds to the GCC-box pathogenesis-related promoter element. May be involved in the regulation of gene expression by stress factors and by components of stress signal transduction pathways.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LY29|EF115_ARATH Ethylene-responsive transcription factor ERF115 OS=Arabidopsis thaliana GN=ERF115 PE=2 SV=1

 Score =  107 bits (267), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 56/71 (78%), Positives = 64/71 (90%), Gaps = 2/71 (2%)

Query: 636 RMHFRGVRQRPWGKWAAEIRDPKKAARIWLGTFDTAEAAALAYDEAALRFKGRKAKLNFP 695
           + H+RGVRQRPWGKWAAEIRDP+KAAR+WLGTF+TAEAAALAYD AAL+FKG KAKLNFP
Sbjct: 89  KRHYRGVRQRPWGKWAAEIRDPQKAARVWLGTFETAEAAALAYDNAALKFKGSKAKLNFP 148

Query: 696 ERVQ--ANLTT 704
           ER Q  +N +T
Sbjct: 149 ERAQLASNTST 159

Probably acts as a transcriptional activator. Binds to the GCC-box pathogenesis-related promoter element. May be involved in the regulation of gene expression by stress factors and by components of stress signal transduction pathways.

Arabidopsis thaliana (taxid: 3702)

>sp|O80339|ERF82_ARATH Ethylene-responsive transcription factor 3 OS=Arabidopsis thaliana GN=ERF3 PE=1 SV=1

 Score =  105 bits (261), Expect = 2e-21,   Method: Composition-based stats.
 Identities = 47/81 (58%), Positives = 58/81 (71%)

Query: 615 GPGVAHIGGQTQFGLLAGNVSRMHFRGVRQRPWGKWAAEIRDPKKAARIWLGTFDTAEAA 674
           G G + + G T    + G+V  + FRGVR+RPWG++AAEIRDP K AR+WLGTFD+AE A
Sbjct: 4   GRGSSAVAGPTVVAAINGSVKEIRFRGVRKRPWGRFAAEIRDPWKKARVWLGTFDSAEEA 63

Query: 675 ALAYDEAALRFKGRKAKLNFP 695
           A AYD AA   +G KAK NFP
Sbjct: 64  ARAYDSAARNLRGPKAKTNFP 84

Acts as a transcriptional repressor. Binds to the GCC-box pathogenesis-related promoter element. Involved in the regulation of gene expression by stress factors and by components of stress signal transduction pathways and could also regulate other AtERFs.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FGF8|ABR1_ARATH Ethylene-responsive transcription factor ABR1 OS=Arabidopsis thaliana GN=ABR1 PE=2 SV=1

 Score =  104 bits (260), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 45/54 (83%), Positives = 49/54 (90%)

Query: 646 PWGKWAAEIRDPKKAARIWLGTFDTAEAAALAYDEAALRFKGRKAKLNFPERVQ 699
           PWGKWAAEIRDP KAAR+WLGTFD AE+AA AYDEAALRF+G KAKLNFPE V+
Sbjct: 192 PWGKWAAEIRDPFKAARVWLGTFDNAESAARAYDEAALRFRGNKAKLNFPENVK 245

Negative regulator of the abscisic acid (ABA) signaling pathway involved in seed germination and in responses to stress conditions. Probably acts as a transcriptional activator. Binds to the GCC-box pathogenesis-related promoter element. May be involved in the regulation of gene expression by stress factors and by components of stress signal transduction pathways.

Arabidopsis thaliana (taxid: 3702)

>sp|Q40479|ERF2_TOBAC Ethylene-responsive transcription factor 2 OS=Nicotiana tabacum GN=ERF2 PE=2 SV=1

 Score =  103 bits (258), Expect = 3e-21,   Method: Compositional matrix adjust.
 Identities = 46/65 (70%), Positives = 54/65 (83%), Gaps = 1/65 (1%)

Query: 638 HFRGVRQRPWGKWAAEIRDP-KKAARIWLGTFDTAEAAALAYDEAALRFKGRKAKLNFPE 696
           H+RGVRQRPWGK+AAEIRDP K  AR+WLGT++TAE AALAYD+AA R +G KA LNFP 
Sbjct: 98  HYRGVRQRPWGKFAAEIRDPAKNGARVWLGTYETAEEAALAYDKAAYRMRGSKALLNFPH 157

Query: 697 RVQAN 701
           R+  N
Sbjct: 158 RIGLN 162

Acts as a transcriptional activator and may be involved in disease resistance pathways. Binds to the GCC-box pathogenesis-related promoter element. Involved in the regulation of gene expression by stress factors and by components of stress signal transduction pathways mediated by ethylene, that seems to depend on a protein kinase cascade, and to be influenced by methyl-jasmonate.

Nicotiana tabacum (taxid: 4097)

>sp|Q9LW50|ERF2_NICSY Ethylene-responsive transcription factor 2 OS=Nicotiana sylvestris GN=ERF2 PE=2 SV=1

 Score =  103 bits (258), Expect = 3e-21,   Method: Compositional matrix adjust.
 Identities = 46/65 (70%), Positives = 54/65 (83%), Gaps = 1/65 (1%)

Query: 638 HFRGVRQRPWGKWAAEIRDP-KKAARIWLGTFDTAEAAALAYDEAALRFKGRKAKLNFPE 696
           H+RGVRQRPWGK+AAEIRDP K  AR+WLGT++TAE AALAYD+AA R +G KA LNFP 
Sbjct: 102 HYRGVRQRPWGKFAAEIRDPAKNGARVWLGTYETAEEAALAYDKAAYRMRGSKALLNFPH 161

Query: 697 RVQAN 701
           R+  N
Sbjct: 162 RIGLN 166

Transcription factor that binds to the GCC-box pathogenesis-related promoter element. Involved in the regulation of gene expression by stress factors and by components of stress signal transduction pathways. Probably acts as a transcriptional activator.

Nicotiana sylvestris (taxid: 4096)

>sp|O22259|ERF71_ARATH Ethylene-responsive transcription factor ERF071 OS=Arabidopsis thaliana GN=ERF071 PE=2 SV=1

 Score =  103 bits (256), Expect = 7e-21,   Method: Compositional matrix adjust.
 Identities = 42/57 (73%), Positives = 49/57 (85%)

Query: 639 FRGVRQRPWGKWAAEIRDPKKAARIWLGTFDTAEAAALAYDEAALRFKGRKAKLNFP 695
           +RG+RQRPWGKWAAEIRDP K  R+WLGTF TA+ AA AYD AA++ +GRKAKLNFP
Sbjct: 50  YRGIRQRPWGKWAAEIRDPSKGVRVWLGTFKTADEAARAYDVAAIKIRGRKAKLNFP 106

Probably acts as a transcriptional activator. Binds to the GCC-box pathogenesis-related promoter element. May be involved in the regulation of gene expression by stress factors and by components of stress signal transduction pathways.

Arabidopsis thaliana (taxid: 3702)

>sp|O80337|EF100_ARATH Ethylene-responsive transcription factor 1A OS=Arabidopsis thaliana GN=ERF1A PE=1 SV=2

 Score =  102 bits (254), Expect = 9e-21,   Method: Compositional matrix adjust.
 Identities = 46/65 (70%), Positives = 53/65 (81%), Gaps = 1/65 (1%)

Query: 638 HFRGVRQRPWGKWAAEIRDP-KKAARIWLGTFDTAEAAALAYDEAALRFKGRKAKLNFPE 696
           H+RGVRQRPWGK+AAEIRDP K  AR+WLGTF+TAE AALAYD AA R +G +A LNFP 
Sbjct: 147 HYRGVRQRPWGKFAAEIRDPAKNGARVWLGTFETAEDAALAYDRAAFRMRGSRALLNFPL 206

Query: 697 RVQAN 701
           RV + 
Sbjct: 207 RVNSG 211

Acts as a transcriptional activator. Binds to the GCC-box pathogenesis-related promoter element. Involved in the regulation of gene expression by stress factors and by components of stress signal transduction pathways.

Arabidopsis thaliana (taxid: 3702)

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	707
224130844	1006	predicted protein [Populus trichocarpa]	0.629	0.442	0.329	8e-52
255542460	716	Protein FRIGIDA, putative [Ricinus commu	0.497	0.491	0.357	8e-45
224130856	1033	predicted protein [Populus trichocarpa]	0.628	0.429	0.314	2e-43
147767145	1701	hypothetical protein VITISV_031269 [Viti	0.380	0.158	0.383	3e-42
449466953	1145	PREDICTED: uncharacterized protein LOC10	0.646	0.399	0.283	2e-40
449524874	888	PREDICTED: uncharacterized LOC101218416,	0.678	0.540	0.293	3e-40
224130848	954	predicted protein [Populus trichocarpa]	0.712	0.528	0.297	5e-37
224130872	168	predicted protein [Populus trichocarpa]	0.231	0.976	0.481	2e-33
225425266	237	PREDICTED: ethylene-responsive transcrip	0.096	0.286	0.897	8e-30
356541044	885	PREDICTED: uncharacterized protein LOC10	0.718	0.574	0.269	9e-30

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

 Score =  211 bits (538), Expect = 8e-52,   Method: Compositional matrix adjust.
 Identities = 165/501 (32%), Positives = 282/501 (56%), Gaps = 56/501 (11%)

Query: 58  QKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLL 117
           +KEL   K LI+EC  E++  E+++   ++SIEE  K    +++ + S+  LI+E    L
Sbjct: 273 KKELDKTKELIQECVKELDSEERELSLIKKSIEESSKDFDSRQNHLGSISVLIDEYTEEL 332

Query: 118 KDKEKLYDEVKNSLMLCETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHE 177
           + KEK +D VK S+ +   +L+ ++ EL   + SIKELS +   +EEKL+  +  V+   
Sbjct: 333 EAKEKQHDAVKKSISVRSAELKSKETELRSIEDSIKELSAKLQQKEEKLDSARQHVKHCA 392

Query: 178 NEVESLEQKLDSMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIE 237
            ++ES E++L+ ++ +   Y  ++E ++RE N I+  IE  +++   K+++L+ VQ SI 
Sbjct: 393 RKIESKEEELNKIKGRMNTYVKELESREREFNAIQLSIEYRSEELKGKERQLKSVQLSIG 452

Query: 238 ECSKEIPGKKEELISKGKTIAECSKEVELKKNQLNLIQDKSSLFQTRTIVYLKELK---- 293
           EC KE+   KE+  S  K I ECS+E++ K+   NLI  + SL +    + LK+++    
Sbjct: 453 ECEKELKAMKEQKNSIQKLILECSEELQSKEK--NLILARESLRECCDDLELKKVQLDSI 510

Query: 294 ------------EKETHFDSLKKGLEDRLQDLELKEREFEKRVKEFELREKELDSIRKAV 341
                       EKE + +SL+K L++RL++L +KE +FE+RV E EL+E++L  ++++V
Sbjct: 511 QRSSHESNKKSEEKEKYLNSLEKTLDERLKNLGVKEMQFEERVNEIELKEQQLRLMQQSV 570

Query: 342 EDRSKNLLLQ------------VKIKDPENLT----SSGRYLQF----------LLNQHL 375
           E   K + L+            V++   EN+     +S    QF          ++N  +
Sbjct: 571 EKYRKEVELKEQQLGSNILSSHVRVDQTENVRNPKHASSSAFQFNATTSERSSPVVNVCV 630

Query: 376 QKHDSIFCKVFDTIKSARDPALLVLHAMSGFYPPHSREGDLEFDVSIVRRSCILLLEQLS 435
            +HD +   V      + +PA +VL  +  +     ++G   FD S V R  ++LLEQL 
Sbjct: 631 SEHDLMHHGV------SAEPAKVVLDIVQNW-----KKGVTGFDAS-VNRDNVVLLEQLM 678

Query: 436 TVEPEINAQVRDEAMKVAGEWKKKMRVAVENSLEVLGFLHLLAAYRLAPAFDREELESLL 495
            V P+I+ QV++ A K+A  W+K +R+  E+S+EVL FL  LA Y L   F R+ +  L+
Sbjct: 679 KVSPKISPQVKEAATKLAVLWEKNIRLETEDSMEVLMFLLFLAVYGLVSCFSRDRILRLV 738

Query: 496 CIVAQHRQTPKLRRTLGFADK 516
            ++AQ +Q P++ + LGFADK
Sbjct: 739 RVIAQQKQAPEIFKALGFADK 759

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

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 =  188 bits (478), Expect = 8e-45,   Method: Compositional matrix adjust.
 Identities = 146/408 (35%), Positives = 219/408 (53%), Gaps = 56/408 (13%)

Query: 150 SSIKELSMEFHSEEEKLELLQGKVRLHENEVESL----EQKLDSMRKQQKKYFDDVELKK 205
           SSI  L++++   E++ +     + +   E+ S+    EQKLD ++K++K    D+EL +
Sbjct: 33  SSILSLTLQWKHIEDQFDSTHNSIDVRVEELHSIHKAIEQKLDEVKKREK----DLELVQ 88

Query: 206 RELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIPGKKEEL--ISK-GKTIAECSK 262
             +      +EE       ++KE   +Q+      KE+  +K E+  I K GK +     
Sbjct: 89  EAVKLRFSEVEE-------REKEFALIQK------KELHDRKREIEWIEKSGKELDSVRV 135

Query: 263 EVELKKNQLNLIQDKSSLF---------QTRTIVYLKELKEKETHFDSLKKGLED----- 308
           E+E K   ++ + ++ +LF         Q R  V   +LKEKE  F       ++     
Sbjct: 136 EIEDKLRAVDEVDNRLTLFNHCIEEKADQVRLSVSKLKLKEKELAFKDENLKEKEKKLEE 195

Query: 309 RLQDLELKEREFEKRVKEFELREKELDSIRKAVED-----RSKNLLLQVKIKDPENLTSS 363
             + L LK+ E  K+ KE EL+EK+L+   +  E+     +  N    VKI +P+  T S
Sbjct: 196 HCKVLRLKDEEIHKKFKEVELKEKQLEQRYREFEELKEKQKPSNNNTCVKI-EPQITTPS 254

Query: 364 -----------GRYLQFLLNQHLQKHDSIFCKVFDTIKSARDPALLVLHAMSGFYPPHSR 412
                      G+ LQ  LN+  +  DSI  +VF  +  + DPA  VL AM GFYPPH R
Sbjct: 255 DASLYFTVNMDGKALQIFLNER-EYSDSIRDEVFIALGFSSDPAKFVLDAMQGFYPPHLR 313

Query: 413 EGDLEFDVSIVRRSCILLLEQLSTVEPEINAQVRDEAMKVAGEWKKKMRVAVENSLEVLG 472
           +GD+EF   +VRRSCILLLEQL  + PEI+  VR+EA+K++  W  KM++  E+ LEVLG
Sbjct: 314 KGDMEFKAEVVRRSCILLLEQLMKISPEISPLVRNEAIKLSFSWMTKMKIDAEHPLEVLG 373

Query: 473 FLHLLAAYRLAPAFDREELESLLCIVAQHRQTPKLRRTLGFADKVPGL 520
           FL LLA+Y LA  FD +EL + L +V QH  +P L   LGFADK+ G+
Sbjct: 374 FLQLLASYGLASTFDADELLTQLEVVVQHSLSPGLFHALGFADKISGI 421

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

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 =  183 bits (465), Expect = 2e-43,   Method: Compositional matrix adjust.
 Identities = 159/506 (31%), Positives = 260/506 (51%), Gaps = 62/506 (12%)

Query: 58  QKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLL 117
           QKE+ L    I++ ++E+EL+EK++ E Q+ +E + K++     ++ S + L+EE   L 
Sbjct: 208 QKEVELENKKIKKFFEELELKEKQLLEQQKEVELENKKIKKFFEELESKEKLVEERRLLK 267

Query: 118 KDKEKLYDEVKNSLMLCETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHE 177
           ++  K            E + E E KE+   Q  ++E   E   +E+K+E    +V L E
Sbjct: 268 EENSK------------EWRRELELKEINFGQQ-VRERYDEIELKEKKVEEEFREVALRE 314

Query: 178 NEVESLEQKLDSMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIE 237
             VE   ++++   ++ ++ F +V +K  E  E RK +E   ++   + KE+ F  + + 
Sbjct: 315 ERVEKRFREVEEKERRVRELFKEVRVKDDEFRERRKGVELKGREVEERIKEIGFKDRKVG 374

Query: 238 ECSKEIPGKK-------EELISKGKTIAECSKEVELKKNQLNLIQDKSSLFQTRTIVYLK 290
           E  KE+  K        +E+  KG+ + E  KE+ L +  +    ++  L + +     +
Sbjct: 375 ERLKEVGLKDRKAEERLKEVGLKGREVEERVKEIALMEKNVGKRSEEVELNRRKLEEGFR 434

Query: 291 ELKEKETHFDSLKKGLED-------RLQDLELKEREFEK--------------------- 322
           EL+ K    + + KG+E        R +  +LK ++ E+                     
Sbjct: 435 ELELKSREVEEIIKGVELKEKELEERCRGFDLKGKQIEEVQLKEKELEERLREVEMENKK 494

Query: 323 ---RVKEFELREKELDS-----IRKAVEDRSKNLLLQVKIKDPENLTSSGRYLQFLLNQH 374
              R+KEFEL+EK++       ++    D S +  L   +K        G+ LQ LLN+ 
Sbjct: 495 CLERIKEFELKEKQVADACNARVKSETVDYSMDANLHFSVK------MDGKALQILLNKR 548

Query: 375 LQKHDSIFCKVFDTIKSARDPALLVLHAMSGFYPPHSREGDLEFDVSIVRRSCILLLEQL 434
            +  + +  +V   +  + DPA LVL AM GFYPPH REGD+EF   +V+RSC LLLEQL
Sbjct: 549 CKHDEKMKNEVSIALGLSSDPAKLVLDAMEGFYPPHLREGDVEFKEVVVKRSCNLLLEQL 608

Query: 435 STVEPEINAQVRDEAMKVAGEWKKKMRVAVENSLEVLGFLHLLAAYRLAPAFDREELESL 494
           + + P I   VR EA K+A  W  KM V  +++L+V+GF +LLAAY LA AFD +EL S 
Sbjct: 609 TKISPTIKPHVRKEATKLAFLWMTKMTVDDQHNLDVMGFFYLLAAYGLASAFDSDELISR 668

Query: 495 LCIVAQHRQTPKLRRTLGFADKVPGL 520
           L I+A++RQ P+  R L   DK+PG 
Sbjct: 669 LVIIARNRQIPEFLRVLELGDKIPGF 694

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 =  179 bits (455), Expect = 3e-42,   Method: Compositional matrix adjust.
 Identities = 112/292 (38%), Positives = 161/292 (55%), Gaps = 23/292 (7%)

Query: 248 EELISKGKTIAECSKEVELKKNQLNLIQDKSSLFQTRTIVYLKELKEKETHFDSLKKGLE 307
           E+L S   ++A  + + E  +   +L+Q    L         + LK KE    SL+  L+
Sbjct: 26  EDLQSHSSSLASLTLQWEDLQTHFDLVQSSIEL-------QFERLKSKEIQLRSLEIALD 78

Query: 308 DRLQDLELKEREFEKRVKEFELREKELDSI--RKAVEDRSKNLLLQVKIKDPENLTSSGR 365
            R ++LELKE +  + +    ++ + L+ +     ++  S N  L+  +      T  GR
Sbjct: 79  RRAKELELKEWQLNRPIVPSGVKSEPLEDVPVNNGIDRFSSNANLRFCV------TMDGR 132

Query: 366 YLQFLLNQHLQKHDSIFCKVFDTIKSARDPALLVLHAMSGFYPPHSREGDLEFDVSIVRR 425
            LQ  LN++   H  +  +VF  ++ + DPA LVL AM GFYPPH + G +EF+ ++VRR
Sbjct: 133 NLQLFLNENADNHGRMGNEVFAALRMSADPAKLVLDAMEGFYPPHLKNGVVEFEGAVVRR 192

Query: 426 SCILLLEQLSTVEPEINAQVRDEAMKVAGEWKKKMRVAVENSLEVLGFLHLLAAYRLAPA 485
           SC+LLLEQL+ V P I  QVR+EA ++A EWK KM V V +SLEVLGFL LL AYRL   
Sbjct: 193 SCVLLLEQLTRVGPPIRPQVREEAARLAHEWKAKMGVEVGDSLEVLGFLWLLGAYRLTSD 252

Query: 486 FDREELESLLCIVAQHRQTPKLRRTLGFADKVPGLQCSTTAEGRSAPSMLVG 537
           FD+ E+  L   V QHRQ  +L R LG  D        ++A+    P ML G
Sbjct: 253 FDKNEILKLFENVVQHRQANELARALGLTD--------SSADCEPRPIMLKG 296

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  174 bits (441), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 157/554 (28%), Positives = 271/554 (48%), Gaps = 97/554 (17%)

Query: 68  IEECYDEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEV 127
           I++C   +EL+E+K+    + IEE+  +   KE  + S++ L+  +E  L  KEK +D +
Sbjct: 168 IDDCEHAMELKEQKLNGVMQLIEERLMECELKEKSVESIRALLRNHEEELAIKEKQFDAI 227

Query: 128 KNSLMLCETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLEQKL 187
           + ++     +L+ ++KELE  Q+ I         +E++L+ ++  +++   E++  EQ+ 
Sbjct: 228 QMAIKDSNGELKLKEKELETIQNMIAT-----KWKEKRLDKIEKTIKVRTEELDLKEQEF 282

Query: 188 DSMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIPGKK 247
           D M  +     +D+  K+ EL  I+  I+E +++   ++K+L   QQSI +C   +    
Sbjct: 283 DVMWSKLGALSEDLLSKESELESIKSCIKEHSKELDVQEKQLDGTQQSIRDCQNAVMMLT 342

Query: 248 EELISKGKTIAECSKEVELKKNQLNLIQ--------DKSSLFQTRTIVYL------KELK 293
             + +  K I ECSKE EL++N  + ++        D SS+ +    + L      + LK
Sbjct: 343 NYVSTIEKAIIECSKEWELEENHHHSLKETVDGNSNDFSSVVEQHGSISLTVDKCLEGLK 402

Query: 294 EKETHFDSLKKGLEDRLQDLELKEREFEKRVKEF-------------------------- 327
            ++ HF++L+K +E+R + LE  E  F++R++E                           
Sbjct: 403 SQKEHFNALRKFIEERSKYLENVENNFKRRMEELNKKDEKVSLYLKEIESLKADMDSQIL 462

Query: 328 -----------------------ELREKELDSIRKAVE---------DRSKNLLLQVKIK 355
                                  E +EKE++ +R  ++         D   NL LQVK +
Sbjct: 463 LLEKDREELRLKEIQHKAPDEELESKEKEINLVRALIQKCNEKVKLIDDPNNLHLQVKTE 522

Query: 356 D--------------PENLTSSGRYLQFLLNQHLQKHDSIFCKVFDTIKSARDPALLVLH 401
           +              P      G+ L  LL +HL+ HD +  ++  T+K++ DPA LVL 
Sbjct: 523 ESGCKPAGSSNTLHFPTGSALDGKLLLALLCEHLKLHDLVRAELMITLKASSDPAKLVLD 582

Query: 402 AMSGFYPPHSREGDLEFDVSIVRRSCILLLEQLSTVEPEINAQVRDEAMKVAGEWKKKMR 461
           AM  FYP H+   D + D   V+R CI L E L    P+I   +++EA+++AG WK K+ 
Sbjct: 583 AMRWFYPTHTESKDAKIDFYNVKRGCIFLSELLLNFSPKITPPLKEEALRLAGLWKAKLV 642

Query: 462 VAVENSLEVLGFLHLLAAYRLAPAFDREELESLLCIVAQHRQTPKLRRTLGFADKVPGLQ 521
           + VEN  EV+ FL L+A +RLA  F+  EL+ LL  V+Q++Q  +L R LG  DK     
Sbjct: 643 MPVENHAEVVAFLLLVANFRLASNFNAGELQILLNSVSQYKQAFELSRALGIGDK----- 697

Query: 522 CSTTAEGRSAPSML 535
            S+       PS++
Sbjct: 698 -SSEVNATPTPSLV 710

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 =  173 bits (438), Expect = 3e-40,   Method: Compositional matrix adjust.
 Identities = 170/580 (29%), Positives = 282/580 (48%), Gaps = 100/580 (17%)

Query: 68  IEECYDEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEV 127
           I++C   +EL+E+K+    + IEE+  +   KE  + S++ L+  +E  L  KEK +D +
Sbjct: 168 IDDCEHAMELKEQKLNGVMQLIEERLMECELKEKSVESIRALLRNHEEELAIKEKQFDAI 227

Query: 128 KNSLMLCETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLEQKL 187
           + ++     +L+ ++KELE  Q+ I         +E++L+ ++  +++   E++  EQ+ 
Sbjct: 228 QMAIKDSNGELKLKEKELETIQNMIAT-----KWKEKRLDKIEKTIKVRTEELDLKEQEF 282

Query: 188 DSMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIPGKK 247
           D M  +     +D+  K+ EL  I+  I+E +++   ++K+L   QQSI +C   +    
Sbjct: 283 DVMWSKLGALSEDLLSKESELESIKSCIKEHSKELDVQEKQLDGTQQSIRDCQNAVMMLT 342

Query: 248 EELISKGKTIAECSKEVELKKNQLNLIQ--------DKSSLFQTRTIVYL------KELK 293
             + +  K I ECSKE EL++N  + ++        D SS+ +    + L      + LK
Sbjct: 343 NYVSTIEKAIIECSKEWELEENHHHSLKETVDGNSNDFSSVVEQHGSISLTVDKCLEGLK 402

Query: 294 EKETHFDSLKKGLEDRLQDLELKEREFEKRVKEF-------------------------- 327
            ++ HF++L+K +E+R + LE  E  F++R++E                           
Sbjct: 403 SQKEHFNALRKFIEERSKYLENVENNFKRRMEELNKKDEKVSLYLKEIESLKADMDSQIL 462

Query: 328 -------ELR----------------EKELDSIRKAVE---------DRSKNLLLQVKIK 355
                  ELR                EKE++ +R  ++         D   NL LQVK +
Sbjct: 463 LLEKDREELRLKEIQHKAPDEELESKEKEINLVRALIQKCNEKVKLIDDPNNLHLQVKTE 522

Query: 356 D--------------PENLTSSGRYLQFLLNQHLQKHDSIFCKVFDTIKSARDPALLVLH 401
           +              P      G+ L  LL +HL+ HD +  ++  T+K++ DPA LVL 
Sbjct: 523 ESGCKPAGSSNTLHFPTGSALDGKLLLALLCEHLKLHDLVRAELMITLKASSDPAKLVLD 582

Query: 402 AMSGFYPPHSREGDLEFDVSIVRRSCILLLEQLSTVEPEINAQVRDEAMKVAGEWKKKMR 461
           AM  FYP H+   D + D   V+R CI L E L    P+I   +++EA+++AG WK K+ 
Sbjct: 583 AMRWFYPTHTESKDAKIDFYNVKRGCIFLSELLLNFSPKITPPLKEEALRLAGLWKAKLV 642

Query: 462 VAVENSLEVLGFLHLLAAYRLAPAFDREELESLLCIVAQHRQTPKLRRTLGFADKVPGLQ 521
           + VEN  EV+ FL L+A +RLA  F+  EL+ LL  V+Q++Q  +L R LG  DK     
Sbjct: 643 MPVENHAEVVAFLLLVANFRLASNFNAGELQILLNSVSQYKQAFELSRALGIGDK----- 697

Query: 522 CSTTAEGRSAPSMLVGTSAPLNQSVSSPMNLPQCSGMDPN 561
            S+       PS LV    P    V S  N  Q S M+PN
Sbjct: 698 -SSEVNATPTPS-LVELEQPNEGLVFSSKN-EQLS-MEPN 733

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

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 (411), Expect = 5e-37,   Method: Compositional matrix adjust.
 Identities = 165/555 (29%), Positives = 279/555 (50%), Gaps = 51/555 (9%)

Query: 11  GLGQKRIGEFNCELELKEN---------ELNSLSVSLNLKNKPSSAQEWINKCQAYQKEL 61
           G+ +KR+ E   E+ LK+          EL  ++    ++ +    +    K +   +E+
Sbjct: 76  GVKEKRVEELVNEVTLKDQDFKDWRRELELKEINFGQKVRERYDEIELKEKKVEEEFREV 135

Query: 62  RLWKNLIEECYDEVELREKKVGEAQRSI-------EEQEKQLAFKESKISSMQTLIEENE 114
            L +   E+ + E E  E++VGE  + +        E  K +  KE ++      +EE  
Sbjct: 136 ALREERAEKRFKEAEENERRVGELFKEVRVKDDEFREWRKGVELKEKELELKGREVEERI 195

Query: 115 GLLKDKEKLYDEVKNSLMLCETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVR 174
             ++ K++  +E  N L   + K+E   KE+ L    ++E   E   ++ KL     +V 
Sbjct: 196 KEIRLKDRKVEESLNELGFKDRKVEERIKEIGLKDRKVEERLKEIGFKDRKLGERLKEVG 255

Query: 175 LHENEVESLEQKLDSMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQ 234
           L +  VE   +++    ++ ++   ++  K R++ E  K +   ++    + KE+    +
Sbjct: 256 LKDRMVEERLKEVGLKDRKVEERLKEIGSKDRKVGERLKEVGWKDRMVEERLKEVGLKDR 315

Query: 235 SIEECSKEIPGKKEELISKGKTIA-------ECSKEVELKKNQL-----NLIQDKSSLFQ 282
            +EE  KE+  K  E+  + K IA       + S+EVEL + +L      L      + +
Sbjct: 316 KVEERLKEVGLKGREVEERVKEIALMEKNVGKRSEEVELNRRKLEEGFRKLELKSREVEE 375

Query: 283 TRTIVYLKE--LKEKETHFDSLKKGLED----------RLQDLELKEREFEKRVKEFELR 330
               V LKE  L+E+   FD   K +E+          +L+++E++ ++  +R+KEFEL+
Sbjct: 376 IIEGVELKEKILEERCRRFDFKGKQIEEVQLKEKELEEKLREVEMENKKCLERIKEFELK 435

Query: 331 EKELDS-----IRKAVEDRSKNLLLQVKIKDPENLTSSGRYLQFLLNQHLQKHDSIFCKV 385
           EK++       ++    D S +  L   +K        G+ LQ LLN+  +  + +  +V
Sbjct: 436 EKQVADACNARVKSETVDYSMDANLHFSVK------MDGKALQILLNKRCKHDEKMKNEV 489

Query: 386 FDTIKSARDPALLVLHAMSGFYPPHSREGDLEFDVSIVRRSCILLLEQLSTVEPEINAQV 445
              +  + DPA LVL AM GF+PPH REGD+EF   +V+RSC LLLEQL+ + P I   V
Sbjct: 490 SIALGLSSDPAKLVLDAMEGFHPPHLREGDVEFKEVVVKRSCNLLLEQLTKISPTIKPHV 549

Query: 446 RDEAMKVAGEWKKKMRVAVENSLEVLGFLHLLAAYRLAPAFDREELESLLCIVAQHRQTP 505
           R EA K+A  W   M V  +++L+VLGF +LLAAY LA AFD +EL S L I+A+++QTP
Sbjct: 550 RKEATKLAFLWMIMMTVDGQHNLDVLGFFNLLAAYGLASAFDSDELISRLVIIARNKQTP 609

Query: 506 KLRRTLGFADKVPGL 520
           +  R L   DK+PG 
Sbjct: 610 EFLRVLELGDKIPGF 624

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 =  150 bits (379), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 79/164 (48%), Positives = 106/164 (64%)

Query: 364 GRYLQFLLNQHLQKHDSIFCKVFDTIKSARDPALLVLHAMSGFYPPHSREGDLEFDVSIV 423
           G+ LQ LLN+  +  + +  +V   +  + DPA LVL AM GFYPPH REGD+EF   +V
Sbjct: 3   GKALQILLNKRCKHDEKMKNEVSIALGLSSDPAKLVLDAMEGFYPPHLREGDVEFKEVVV 62

Query: 424 RRSCILLLEQLSTVEPEINAQVRDEAMKVAGEWKKKMRVAVENSLEVLGFLHLLAAYRLA 483
           +RSC LLLEQL  + P I   VR EA K+A  W  KM V   ++++VLGF +LLAAY LA
Sbjct: 63  KRSCNLLLEQLMKISPTIKPHVRKEATKLAFLWMTKMTVDGFHNMDVLGFFYLLAAYGLA 122

Query: 484 PAFDREELESLLCIVAQHRQTPKLRRTLGFADKVPGLQCSTTAE 527
            AFD +EL S L I+A+++QTP+  R L   DK+P L   + A+
Sbjct: 123 SAFDSDELISRLVIIARNKQTPEFFRVLELGDKIPDLCVESIAK 166

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225425266|ref|XP_002267814.1| PREDICTED: ethylene-responsive transcription factor ERF113 [Vitis vinifera] gi|296085528|emb|CBI29260.3| unnamed protein product [Vitis vinifera]

 Score =  139 bits (349), Expect = 8e-30,   Method: Compositional matrix adjust.
 Identities = 61/68 (89%), Positives = 64/68 (94%)

Query: 632 GNVSRMHFRGVRQRPWGKWAAEIRDPKKAARIWLGTFDTAEAAALAYDEAALRFKGRKAK 691
           GNV R H+RGVRQRPWGKWAAEIRDPKKAAR+WLGTFDTAE AALAYD+AALRFKG KAK
Sbjct: 46  GNVRRRHYRGVRQRPWGKWAAEIRDPKKAARVWLGTFDTAEDAALAYDQAALRFKGTKAK 105

Query: 692 LNFPERVQ 699
           LNFPERVQ
Sbjct: 106 LNFPERVQ 113

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  138 bits (348), Expect = 9e-30,   Method: Compositional matrix adjust.
 Identities = 159/589 (26%), Positives = 281/589 (47%), Gaps = 81/589 (13%)

Query: 19  EFNCELELKENELNSLSVSLNLKNKP-SSAQEWINKCQAYQKELRLWKNLIEECYDEVEL 77
           +F  E++ KE E + ++  +  +N+   S Q  I  C+    +L   + +I E  DEV  
Sbjct: 29  QFGREIDAKEREYDVVTRKVEERNRELESVQRRITDCEW---KLDTVRRMITES-DEV-- 82

Query: 78  REKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEV-------KNS 130
                 + QR I++ +++LA KE+  S +  +I E E  L+ K+  + +V       KN 
Sbjct: 83  ----YQQKQRGIQDSDRELAEKEAHRSLIADMIREREQELRAKDAEFQQVLDEGMALKNK 138

Query: 131 LMLCETKLECEKKELELTQSS-----------------IKELSMEFHSEEEKLELLQGKV 173
           +      L+ +K+EL++   S                 IK+L  + +  E K +  +G+ 
Sbjct: 139 VAQLNDDLKTKKEELDVVTRSLINEQATETTIKSMRARIKQLLRQPYESESKQKQFEGQA 198

Query: 174 RLHENEVESLEQKLDSMRKQQKKYFDDV----------ELKKRELNEIRKYIEELNQDPA 223
           +  E++ +  E+++  ++ +QK+Y   V          E K REL    K  E   ++  
Sbjct: 199 KELESKQKHYERQVKELQSKQKQYEGRVKELKLNEKLYERKVRELGSREKQYETRMKELE 258

Query: 224 SKDKELRFVQQSIEECSKEIPGKKEELIS--------------KGKTIAECSKEVELKKN 269
           S +K+     + +E  +K+   + +EL+S              K K I     ++E KKN
Sbjct: 259 SNEKQCETRMKEVESNAKQYEKRVKELVSHERQYVKSVIELNSKEKQIEGQMVDLESKKN 318

Query: 270 QLNLIQDKSSLFQTRTIVYLKELKEKETHFDSLKKGLEDRLQDLELKEREFEKRVKEFE- 328
           Q   +  +    + R  V LKEL       +S++K ++++++DLE K+ + E   K FE 
Sbjct: 319 QYEGLVKELESKEARCKVLLKEL-------ESIEKKIQEQMKDLEFKKNQCESSRKSFEE 371

Query: 329 --LREKELDSIRKAVEDRSKNLLLQVKIKDPENLTSSGRYLQFLLNQHLQKHDSIFCKVF 386
             L +++ +  +      S +L  Q      +N     + L   +N  L+K++ +  +V 
Sbjct: 372 EKLSKQKSNDQQHFTNANSASLFNQQNFTGADN----SKNLPLFIN-LLEKYELMCSQVS 426

Query: 387 DTIKSARDPALLVLHAMSGFYPPHSREGDLEFDVSIVRRSCILLLEQLSTVEPEINAQVR 446
           D +++  +P  LVL  + GFY  HSR+G +E+D SI RR C LL+++L    P I  +V+
Sbjct: 427 DALQTFANPTKLVLDTIKGFYTSHSRQGLIEYDASISRRICNLLMDELKKSSPVIGIRVK 486

Query: 447 DEAMKVAGEWKKKMRVAVENSLEVLGFLHLLAAYRLAPAFDREELESLLCIVAQHRQTPK 506
            EA+K+A +WK  +    ++ LEVL F   +A Y +  +FD  EL+ LL I+A   QT +
Sbjct: 487 QEAIKLATDWKANLVAGDKDCLEVLDFFKFVATYEIGSSFDAIELQRLLDIIALQYQTLQ 546

Query: 507 LRRTLGFADKVPGLQCSTTAEGRSA--PSM-LVGTSAPLNQSVSSPMNL 552
               +G   +    Q S T +GR+   PS+  +  S  L+ S S P  L
Sbjct: 547 ---AIGKIKEPSDNQSSPTIDGRNLHFPSIKHINESVNLHTS-SDPAKL 591

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	707
TAIR|locus:2181241	1181	AT5G27220 "AT5G27220" [Arabido	0.728	0.436	0.255	1.9e-26
TAIR|locus:2156171	248	AT5G61890 [Arabidopsis thalian	0.096	0.274	0.676	1.7e-21
TAIR|locus:2183861	212	Rap2.6L "related to AP2 6l" [A	0.097	0.325	0.681	2.2e-21
TAIR|locus:2183304	263	AT5G07310 [Arabidopsis thalian	0.169	0.456	0.453	4.3e-20
TAIR|locus:2170101	220	ERF110 "ethylene response fact	0.090	0.290	0.625	6.2e-18
TAIR|locus:2176095	391	ABR1 "ABA REPRESSOR1" [Arabido	0.257	0.465	0.326	1.2e-17
TAIR|locus:2018635	192	RAP2.6 "related to AP2 6" [Ara	0.084	0.312	0.65	2.2e-17
TAIR|locus:2008021	225	ERF3 "ethylene responsive elem	0.114	0.36	0.469	1.1e-15
TAIR|locus:2197076	358	RAP2.12 "related to AP2 12" [A	0.149	0.296	0.415	3.6e-15
TAIR|locus:2061956	171	ERF71 "ethylene response facto	0.080	0.333	0.596	3.9e-15

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

 Score = 332 (121.9 bits), Expect = 1.9e-26, P = 1.9e-26
 Identities = 144/563 (25%), Positives = 239/563 (42%)

Query:    49 EWINKCQAYQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQLAFKESKI----S 104
             E + K Q   +EL      IE    E+     K  E  ++IE  E++LA ++  +    S
Sbjct:   326 EHLEKSQTRSRELA---EEIERKRKELTAVLDKTAEYGKTIELVEEELALQQKLLDIRSS 382

Query:   105 SMQTLIEENEGLLKDKEKLYDEVKNSLMXXXXXXXXXXXXXXXXQSSIKELSMEFHSEEE 164
              + +  +E +GL  D E L + + N L                 +  I+E S   H+E  
Sbjct:   383 ELVSKKKELDGLSLDLE-LVNSLNNELKETVQRIESKGKELEDMERLIQERSG--HNESI 439

Query:   165 KLELLQGKVRL-----HENEVESLEQKLD----SMRKQQKKYFDDVELKKRELNEIRKYI 215
             KL L +    L       NE+    +KL     S  K  ++  +    K+ +L+   K +
Sbjct:   440 KLLLEEHSEELAIKEERHNEIAEAVRKLSLEIVSKEKTIQQLSEKQHSKQTKLDSTEKCL 499

Query:   216 EELNQDPASKDKELRFVQQSIEECSKEIPGKKEELISKGKTIAECSKEV-ELKKNQLNLI 274
             EE   +  SK+ EL  V+ +  EC +    K++EL S  + + +    + + +  +  L+
Sbjct:   500 EETTAELVSKENELCSVKDTYRECLQNWEIKEKELKSFQEEVKKIQDSLKDFQSKEAELV 559

Query:   275 QDKSSLFQTRTIVYLKEL--KEKETHFDSLKKGLEDRLQDXXXXXXXXXXXXXXXXXXXX 332
             + K SL +     + KEL  K+K+ H  S K  L+D+  D                    
Sbjct:   560 KLKESLTE-----HEKELGLKKKQIHVRSEKIELKDKKLDAREERLDKKDEQLKSAEQKL 614

Query:   333 XXDSIRKAVEDRSKNLLLQVKIKDPE---NLTSSG-----RYLQFLLNQHLQKHDSIFCK 384
                   K  E  +K L    +  +P+   +L         + LQ LL  HL+K D +   
Sbjct:   615 A--KCVKEYELNAKKLASFCQQNNPDQQVDLVRDASVCDEKTLQLLLRGHLKKCDQLHLD 672

Query:   385 VFDTIKSARDPALLVLHAMSGFYPPHSREGDLEFDVSIVRRSCILLLEQLSTVEPEINAQ 444
             V   +K++ DPA LVL+ +      H +    + D   VRR  I LLE L  + PE   +
Sbjct:   673 VLRALKASSDPAKLVLNTIQRL---HEKMAVTKLDPDSVRRGSICLLECLMDMSPEPKTE 729

Query:   445 VRDEAMKVAGEWKKKMRVAVENSLEVLGFLHLLAAYRLAPAFDREELESLLCIVAQHRQT 504
             V+ EA+K   EWK    V  EN +EVLGFLH L+A+ LA  FD +++++L       +  
Sbjct:   730 VQVEAIKSVTEWKNTTLVKAENPVEVLGFLHFLSAFSLAYTFDADKVQNLFDAAFLRQYA 789

Query:   505 PKLRRTLGFADKVPG---LQCSTTAEGRSAPSMLVGTSAPLNQSVSSPMNLPQCSG---- 557
             P L   LG +   P    L      E +   + ++ +S   + +V   +           
Sbjct:   790 PSLCEALGVSSLAPVNNVLSLDDKPEQQPPEAPIINSSDSRSTNVQETIASSHLGNVDVL 849

Query:   558 MDPNSSTSSLVSQ-YSGAQPQLE 579
             +DP  STS   ++ ++G Q  ++
Sbjct:   850 LDPEGSTSFSPNEVFTGLQGMID 872

GO:0003674 "molecular_function" evidence=ND

GO:0005737 "cytoplasm" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0005829 "cytosol" evidence=IDA

TAIR|locus:2156171 AT5G61890 [Arabidopsis thaliana (taxid:3702)]

 Score = 260 (96.6 bits), Expect = 1.7e-21, P = 1.7e-21
 Identities = 46/68 (67%), Positives = 52/68 (76%)

Query:   632 GNVSRMHFRGVRQRPWGKWAAEIRDPKKAARIWLGTFDTXXXXXXXXXXXXXRFKGRKAK 691
             G++ R H+RGVRQRPWGKWAAEIRDPKKAAR+WLGTF+T             +FKG KAK
Sbjct:    83 GDLRRRHYRGVRQRPWGKWAAEIRDPKKAARVWLGTFETAESAALAYDEAALKFKGSKAK 142

Query:   692 LNFPERVQ 699
             LNFPERVQ
Sbjct:   143 LNFPERVQ 150

GO:0003677 "DNA binding" evidence=IEA;ISS

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=IEA;ISS

GO:0005634 "nucleus" evidence=ISM;ISS

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA;ISS

GO:0050832 "defense response to fungus" evidence=IEP

GO:0006865 "amino acid transport" evidence=RCA

TAIR|locus:2183861 Rap2.6L "related to AP2 6l" [Arabidopsis thaliana (taxid:3702)]

 Score = 259 (96.2 bits), Expect = 2.2e-21, P = 2.2e-21
 Identities = 47/69 (68%), Positives = 51/69 (73%)

Query:   636 RMHFRGVRQRPWGKWAAEIRDPKKAARIWLGTFDTXXXXXXXXXXXXXRFKGRKAKLNFP 695
             R H+RGVRQRPWGKWAAEIRDPKKAAR+WLGTF+T             +FKG KAKLNFP
Sbjct:    36 RRHYRGVRQRPWGKWAAEIRDPKKAARVWLGTFETAEEAALAYDRAALKFKGTKAKLNFP 95

Query:   696 ERVQANLTT 704
             ERVQ   TT
Sbjct:    96 ERVQGPTTT 104

GO:0003677 "DNA binding" evidence=IEA;ISS

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=IEA;ISS

GO:0005634 "nucleus" evidence=ISM;ISS

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA;ISS

GO:0009414 "response to water deprivation" evidence=IEP

GO:0009651 "response to salt stress" evidence=IMP

GO:0009723 "response to ethylene stimulus" evidence=IEP

GO:0009737 "response to abscisic acid stimulus" evidence=IEP

GO:0009751 "response to salicylic acid stimulus" evidence=IEP

GO:0009753 "response to jasmonic acid stimulus" evidence=IEP

GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=IDA

GO:0071497 "cellular response to freezing" evidence=IEP

GO:0009407 "toxin catabolic process" evidence=RCA

GO:0010260 "organ senescence" evidence=RCA

GO:0010583 "response to cyclopentenone" evidence=RCA

GO:0046482 "para-aminobenzoic acid metabolic process" evidence=RCA

TAIR|locus:2183304 AT5G07310 [Arabidopsis thaliana (taxid:3702)]

 Score = 247 (92.0 bits), Expect = 4.3e-20, P = 4.3e-20
 Identities = 58/128 (45%), Positives = 70/128 (54%)

Query:   580 NQYKRLRRESPSTIAYTPQTPASDNLSRSSLA-TQYGPGVAHIGGQTQFGLLAGNVSRMH 638
             +QY      S  T     Q+ + DN     +   Q  P       Q Q GLL     + H
Sbjct:    37 SQYDMRAMVSALTQVIGNQSSSHDNNQHQPVVYNQQDPNPPAPPTQDQ-GLLR----KRH 91

Query:   639 FRGVRQRPWGKWAAEIRDPKKAARIWLGTFDTXXXXXXXXXXXXXRFKGRKAKLNFPERV 698
             +RGVRQRPWGKWAAEIRDP+KAAR+WLGTF+T             +FKG KAKLNFPER 
Sbjct:    92 YRGVRQRPWGKWAAEIRDPQKAARVWLGTFETAEAAALAYDNAALKFKGSKAKLNFPERA 151

Query:   699 Q--ANLTT 704
             Q  +N +T
Sbjct:   152 QLASNTST 159

GO:0003677 "DNA binding" evidence=IEA;ISS

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=IEA;ISS

GO:0005634 "nucleus" evidence=ISM;ISS

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA;ISS

TAIR|locus:2170101 ERF110 "ethylene response factor 110" [Arabidopsis thaliana (taxid:3702)]

 Score = 227 (85.0 bits), Expect = 6.2e-18, P = 6.2e-18
 Identities = 40/64 (62%), Positives = 46/64 (71%)

Query:   636 RMHFRGVRQRPWGKWAAEIRDPKKAARIWLGTFDTXXXXXXXXXXXXXRFKGRKAKLNFP 695
             +  +RGVRQRPWGKWAAEIRDP +AAR+WLGTFDT             RF+G KAKLNFP
Sbjct:    74 KRRYRGVRQRPWGKWAAEIRDPHRAARVWLGTFDTAEAAARAYDEAALRFRGNKAKLNFP 133

Query:   696 ERVQ 699
             E V+
Sbjct:   134 EDVR 137

GO:0003677 "DNA binding" evidence=IEA;ISS

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=IEA;ISS

GO:0005634 "nucleus" evidence=ISM;ISS

GO:0006355 "regulation of transcription, DNA-dependent" evidence=ISS

GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=IMP

GO:0048510 "regulation of timing of transition from vegetative to reproductive phase" evidence=IMP

TAIR|locus:2176095 ABR1 "ABA REPRESSOR1" [Arabidopsis thaliana (taxid:3702)]

 Score = 241 (89.9 bits), Expect = 1.2e-17, P = 1.2e-17
 Identities = 62/190 (32%), Positives = 90/190 (47%)

Query:   518 PGLQCSTTAEGRSAPSMLVGTSAPLNQSVSSPMNLPQCSGMDPNSSTSSLVSQYSGAQPQ 577
             P    S+   G S    +    + L   V+  +   Q  G + +   +S  S  SG + +
Sbjct:    56 PSSSSSSLISGFSREMEMSAIVSALTHVVAGNVPQHQQGGGEGSGEGTSNSSSSSGQKRR 115

Query:   578 LENQY---KRLRRESPSTIAYTPQTPASDNLSRSSLATQYGPGVAH-----IGGQTQFGL 629
              E +    K ++  +  T+       +S +  R + +   GPG  +         ++   
Sbjct:   116 REVEEGGAKAVKAANTLTVDQYFSGGSSTSKVREASSNMSGPGPTYEYTTTATASSETSS 175

Query:   630 LAGNVSRMHFRGVRQRPWGKWAAEIRDPKKAARIWLGTFDTXXXXXXXXXXXXXRFKGRK 689
              +G+  R  +RGVRQRPWGKWAAEIRDP KAAR+WLGTFD              RF+G K
Sbjct:   176 FSGDQPRRRYRGVRQRPWGKWAAEIRDPFKAARVWLGTFDNAESAARAYDEAALRFRGNK 235

Query:   690 AKLNFPERVQ 699
             AKLNFPE V+
Sbjct:   236 AKLNFPENVK 245

GO:0003677 "DNA binding" evidence=IEA;ISS

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=IEA;ISS

GO:0005634 "nucleus" evidence=ISM;ISS

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA;ISS

GO:0006970 "response to osmotic stress" evidence=IEP

GO:0009737 "response to abscisic acid stimulus" evidence=IEP

GO:0009749 "response to glucose stimulus" evidence=IEP

GO:0009788 "negative regulation of abscisic acid mediated signaling pathway" evidence=IMP

GO:0050832 "defense response to fungus" evidence=IEP

TAIR|locus:2018635 RAP2.6 "related to AP2 6" [Arabidopsis thaliana (taxid:3702)]

 Score = 222 (83.2 bits), Expect = 2.2e-17, P = 2.2e-17
 Identities = 39/60 (65%), Positives = 43/60 (71%)

Query:   639 FRGVRQRPWGKWAAEIRDPKKAARIWLGTFDTXXXXXXXXXXXXXRFKGRKAKLNFPERV 698
             +RGVRQRPWGKWAAEIRDP KA R+WLGTF+T             RF+G KAKLNFPE V
Sbjct:    61 YRGVRQRPWGKWAAEIRDPHKATRVWLGTFETAEAAARAYDAAALRFRGSKAKLNFPENV 120

GO:0003677 "DNA binding" evidence=IEA;ISS;TAS

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=IEA;ISS;TAS

GO:0005634 "nucleus" evidence=ISM;ISS;IDA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA;ISS

GO:0009611 "response to wounding" evidence=IEP;RCA

GO:0006970 "response to osmotic stress" evidence=IEP

GO:0009409 "response to cold" evidence=IEP

GO:0009651 "response to salt stress" evidence=IEP;IMP

GO:0009737 "response to abscisic acid stimulus" evidence=IEP

GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=IMP;IDA

GO:0009414 "response to water deprivation" evidence=IEP

GO:0009751 "response to salicylic acid stimulus" evidence=IEP

GO:0009753 "response to jasmonic acid stimulus" evidence=IEP;RCA

GO:0034605 "cellular response to heat" evidence=IEP

GO:0009658 "chloroplast organization" evidence=IMP

GO:0009620 "response to fungus" evidence=RCA

GO:0009695 "jasmonic acid biosynthetic process" evidence=RCA

TAIR|locus:2008021 ERF3 "ethylene responsive element binding factor 3" [Arabidopsis thaliana (taxid:3702)]

 Score = 206 (77.6 bits), Expect = 1.1e-15, P = 1.1e-15
 Identities = 38/81 (46%), Positives = 49/81 (60%)

Query:   615 GPGVAHIGGQTQFGLLAGNVSRMHFRGVRQRPWGKWAAEIRDPKKAARIWLGTFDTXXXX 674
             G G + + G T    + G+V  + FRGVR+RPWG++AAEIRDP K AR+WLGTFD+    
Sbjct:     4 GRGSSAVAGPTVVAAINGSVKEIRFRGVRKRPWGRFAAEIRDPWKKARVWLGTFDSAEEA 63

Query:   675 XXXXXXXXXRFKGRKAKLNFP 695
                        +G KAK NFP
Sbjct:    64 ARAYDSAARNLRGPKAKTNFP 84

GO:0003677 "DNA binding" evidence=IEA;TAS

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=IEA;ISS;TAS

GO:0005634 "nucleus" evidence=ISM;IC

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA;IDA

GO:0010105 "negative regulation of ethylene mediated signaling pathway" evidence=TAS

GO:0045892 "negative regulation of transcription, DNA-dependent" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0009414 "response to water deprivation" evidence=RCA

GO:0009737 "response to abscisic acid stimulus" evidence=RCA

GO:0042538 "hyperosmotic salinity response" evidence=RCA

TAIR|locus:2197076 RAP2.12 "related to AP2 12" [Arabidopsis thaliana (taxid:3702)]

 Score = 218 (81.8 bits), Expect = 3.6e-15, P = 3.6e-15
 Identities = 47/113 (41%), Positives = 64/113 (56%)

Query:   590 PSTIAYTPQTPASDNLSRSSLATQYGPGVAHIGGQTQFGLLAGNVSRMHFRGVRQRPWGK 649
             P     TP+ PA   +S ++  + +G  V  + G  +    A    +  +RG+RQRPWGK
Sbjct:    82 PFVFTSTPK-PA---VSAAAEGSVFGKKVTGLDGDAEKS--ANRKRKNQYRGIRQRPWGK 135

Query:   650 WAAEIRDPKKAARIWLGTFDTXXXXXXXXXXXXXRFKGRKAKLNFPER-VQAN 701
             WAAEIRDP++ ARIWLGTF T             R +G KAK+NFPE  ++AN
Sbjct:   136 WAAEIRDPREGARIWLGTFKTAEEAARAYDAAARRIRGSKAKVNFPEENMKAN 188

GO:0003677 "DNA binding" evidence=IEA;TAS

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=IEA;ISS;TAS

GO:0005634 "nucleus" evidence=ISM;IC;IDA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA;ISS

GO:0001666 "response to hypoxia" evidence=IMP

GO:0005886 "plasma membrane" evidence=IDA

GO:0070483 "detection of hypoxia" evidence=IEP

TAIR|locus:2061956 ERF71 "ethylene response factor 71" [Arabidopsis thaliana (taxid:3702)]

 Score = 201 (75.8 bits), Expect = 3.9e-15, P = 3.9e-15
 Identities = 34/57 (59%), Positives = 39/57 (68%)

Query:   639 FRGVRQRPWGKWAAEIRDPKKAARIWLGTFDTXXXXXXXXXXXXXRFKGRKAKLNFP 695
             +RG+RQRPWGKWAAEIRDP K  R+WLGTF T             + +GRKAKLNFP
Sbjct:    50 YRGIRQRPWGKWAAEIRDPSKGVRVWLGTFKTADEAARAYDVAAIKIRGRKAKLNFP 106

GO:0003677 "DNA binding" evidence=IEA;ISS

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=IEA;ISS

GO:0005634 "nucleus" evidence=ISM;ISS;IDA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA;ISS

GO:0034059 "response to anoxia" evidence=IGI

---

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	707
pfam07899	293	pfam07899, Frigida, Frigida-like protein	1e-40
smart00380	64	smart00380, AP2, DNA-binding domain in plant prote	1e-34
cd00018	61	cd00018, AP2, DNA-binding domain found in transcri	4e-33
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	5e-16
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	3e-15
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	3e-14
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	4e-14
pfam00847	53	pfam00847, AP2, AP2 domain	3e-13
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	1e-11
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	1e-11
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	2e-11
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	4e-11
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	4e-10
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	2e-09
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	2e-09
COG0419	908	COG0419, SbcC, ATPase involved in DNA repair [DNA	2e-09
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	3e-09
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	4e-09
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	2e-08
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	2e-08
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	4e-08
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	7e-08
COG0419	908	COG0419, SbcC, ATPase involved in DNA repair [DNA	7e-08
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	8e-08
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	1e-07
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	2e-07
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	4e-07
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	5e-07
COG0419	908	COG0419, SbcC, ATPase involved in DNA repair [DNA	8e-07
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	1e-06
COG0419	908	COG0419, SbcC, ATPase involved in DNA repair [DNA	1e-06
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	2e-06
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	2e-06
pfam01496	707	pfam01496, V_ATPase_I, V-type ATPase 116kDa subuni	2e-06
COG1579	239	COG1579, COG1579, Zn-ribbon protein, possibly nucl	3e-06
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	4e-06
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	6e-06
PHA02562	562	PHA02562, 46, endonuclease subunit; Provisional	8e-06
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	9e-06
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	2e-05
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	3e-05
pfam13166	713	pfam13166, AAA_13, AAA domain	3e-05
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	7e-05
COG5185	622	COG5185, HEC1, Protein involved in chromosome segr	7e-05
COG0419	908	COG0419, SbcC, ATPase involved in DNA repair [DNA	9e-05
pfam13166	713	pfam13166, AAA_13, AAA domain	2e-04
TIGR00606	1311	TIGR00606, rad50, rad50	2e-04
pfam05483	787	pfam05483, SCP-1, Synaptonemal complex protein 1 (	3e-04
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	5e-04
pfam13166	713	pfam13166, AAA_13, AAA domain	6e-04
PRK12704	520	PRK12704, PRK12704, phosphodiesterase; Provisional	9e-04
COG5022	1463	COG5022, COG5022, Myosin heavy chain [Cytoskeleton	9e-04
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	0.002
PRK01156	895	PRK01156, PRK01156, chromosome segregation protein	0.002
PRK02224	880	PRK02224, PRK02224, chromosome segregation protein	0.002
pfam05667	536	pfam05667, DUF812, Protein of unknown function (DU	0.002
cd08915	342	cd08915, V_Alix_like, Protein-interacting V-domain	0.003
COG1579	239	COG1579, COG1579, Zn-ribbon protein, possibly nucl	0.004

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

 Score =  150 bits (380), Expect = 1e-40
 Identities = 73/161 (45%), Positives = 101/161 (62%), Gaps = 5/161 (3%)

Query: 364 GRYLQFLLNQHLQKHDSIFCKVFDTIKSARDPALLVLHAMSGFYPPHSREGDLEFDVSIV 423
            R L   + ++ ++  S+  +V   ++ A DPA LVL A+ GFYPP S+ G  E  +  V
Sbjct: 24  SRGLLKFVIENRKELASLREEVPAALRCAPDPAKLVLDAIEGFYPPDSKGGK-EDKMVDV 82

Query: 424 RRSCILLLEQLSTVEPEINAQVRDEAMKVAGEWKKKM----RVAVENSLEVLGFLHLLAA 479
           RRSC+LLLEQL  V P I+  V++EA K+A EWK K+     V    SLE LGFL LLAA
Sbjct: 83  RRSCVLLLEQLVRVNPPISPDVKEEAKKLAVEWKAKLEEDGGVENGKSLEALGFLQLLAA 142

Query: 480 YRLAPAFDREELESLLCIVAQHRQTPKLRRTLGFADKVPGL 520
           + L   FD++EL  L  +V++ +Q P+L R+LG ADK+P L
Sbjct: 143 FGLVSEFDQDELLKLFVMVSRRKQAPELCRSLGLADKMPDL 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|197689 smart00380, AP2, DNA-binding domain in plant proteins such as APETALA2 and EREBPs

 Score =  125 bits (315), Expect = 1e-34
 Identities = 43/59 (72%), Positives = 48/59 (81%)

Query: 638 HFRGVRQRPWGKWAAEIRDPKKAARIWLGTFDTAEAAALAYDEAALRFKGRKAKLNFPE 696
            +RGVRQRPWGKW AEIRDP K  R+WLGTFDTAE AA AYD AA +F+GR A+LNFP 
Sbjct: 1   KYRGVRQRPWGKWVAEIRDPSKGKRVWLGTFDTAEEAARAYDRAAFKFRGRSARLNFPN 59

Length = 64

>gnl|CDD|237985 cd00018, AP2, DNA-binding domain found in transcription regulators in plants such as APETALA2 and EREBP (ethylene responsive element binding protein)

 Score =  120 bits (304), Expect = 4e-33
 Identities = 42/59 (71%), Positives = 46/59 (77%)

Query: 638 HFRGVRQRPWGKWAAEIRDPKKAARIWLGTFDTAEAAALAYDEAALRFKGRKAKLNFPE 696
            +RGVRQRPWGKW AEIRDP    RIWLGTFDTAE AA AYD AAL+ +G  A LNFP+
Sbjct: 2   KYRGVRQRPWGKWVAEIRDPSGGRRIWLGTFDTAEEAARAYDRAALKLRGSSAVLNFPD 60

In EREBPs the domain specifically binds to the 11bp GCC box of the ethylene response element (ERE), a promotor element essential for ethylene responsiveness. EREBPs and the C-repeat binding factor CBF1, which is involved in stress response, contain a single copy of the AP2 domain. APETALA2-like proteins, which play a role in plant development contain two copies. Length = 61

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

 Score = 82.5 bits (204), Expect = 5e-16
 Identities = 67/287 (23%), Positives = 145/287 (50%), Gaps = 3/287 (1%)

Query: 76  ELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLMLCE 135
             +++++ E +  + E E QL   E ++ S++  +   E LL++  +  +E++  L   +
Sbjct: 663 LAQKRELKELEEELAELEAQLEKLEEELKSLKNELRSLEDLLEELRRQLEELERQLEELK 722

Query: 136 TKLECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLEQKLDSMRKQQK 195
            +L   ++ELE  QS ++EL  E    EE+LE LQ ++   E E+ESLE+ L  ++++ +
Sbjct: 723 RELAALEEELEQLQSRLEELEEELEELEEELEELQERLEELEEELESLEEALAKLKEEIE 782

Query: 196 KYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIPGKKEELISKGK 255
           +  +  +  + EL E+ + +EE  +   + ++EL  ++Q  E   +EI   +EE+    +
Sbjct: 783 ELEEKRQALQEELEELEEELEEAERRLDALERELESLEQRRERLEQEIEELEEEIEELEE 842

Query: 256 TIAECSKEVELKKNQLNLIQDKSSLFQTRTIVYLKELKEKETHFDSLKKGL---EDRLQD 312
            + E  +E+E  + +L  ++++    +        ELKE E   + L++ L   E  L +
Sbjct: 843 KLDELEEELEELEKELEELKEELEELEAEKEELEDELKELEEEKEELEEELRELESELAE 902

Query: 313 LELKEREFEKRVKEFELREKELDSIRKAVEDRSKNLLLQVKIKDPEN 359
           L+ +  +  +R++E E + + L+     +E+  +         + E 
Sbjct: 903 LKEEIEKLRERLEELEAKLERLEVELPELEEELEEEYEDTLETELER 949

Length = 1163

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

 Score = 79.8 bits (197), Expect = 3e-15
 Identities = 72/301 (23%), Positives = 153/301 (50%), Gaps = 15/301 (4%)

Query: 58  QKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEG-- 115
           + ELR  ++L+EE   ++E  E+++ E +R +   E++L   +S++  ++  +EE E   
Sbjct: 694 KNELRSLEDLLEELRRQLEELERQLEELKRELAALEEELEQLQSRLEELEEELEELEEEL 753

Query: 116 --LLKDKEKLYDEVKNSLMLCETKLECEKKELE----LTQSSIKELSMEFHSEEEKLELL 169
             L +  E+L +E+  SL     KL+ E +ELE      Q  ++EL  E    E +L+ L
Sbjct: 754 EELQERLEELEEEL-ESLEEALAKLKEEIEELEEKRQALQEELEELEEELEEAERRLDAL 812

Query: 170 QGKVRLHENEVESLEQKLDSMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPASKDKEL 229
           + ++   E   E LEQ+++ + ++ ++  + ++  + EL E+ K +EEL ++    + E 
Sbjct: 813 ERELESLEQRRERLEQEIEELEEEIEELEEKLDELEEELEELEKELEELKEELEELEAEK 872

Query: 230 RFVQQSIEECSKEIPGKKEELISKGKTIAECSKEVELKKNQLNLIQDKSSLFQTRTIVYL 289
             ++  ++E  +E    +EEL      +AE  +E+E  + +L  ++ K    +    +  
Sbjct: 873 EELEDELKELEEEKEELEEELRELESELAELKEEIEKLRERLEELEAKLERLEVE--LPE 930

Query: 290 KELKEKETHFDSLKKGLEDRLQDLELKEREFE----KRVKEFELREKELDSIRKAVEDRS 345
            E + +E + D+L+  LE  ++ LE +         + ++E+E  E+  + ++   ED  
Sbjct: 931 LEEELEEEYEDTLETELEREIERLEEEIEALGPVNLRAIEEYEEVEERYEELKSQREDLE 990

Query: 346 K 346
           +
Sbjct: 991 E 991

Length = 1163

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

 Score = 76.3 bits (188), Expect = 3e-14
 Identities = 58/276 (21%), Positives = 142/276 (51%), Gaps = 9/276 (3%)

Query: 86  QRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLMLCETKLECEKKEL 145
           +RS   Q+++L   E +++ ++  +E+ E  LK  +     +++ L     +LE  +++L
Sbjct: 659 KRSSLAQKRELKELEEELAELEAQLEKLEEELKSLKNELRSLEDLLEELRRQLEELERQL 718

Query: 146 ELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLEQKLDSMRKQQKKYFDDVELKK 205
           E  +  +  L  E    + +LE L+ ++   E E+E L+++L+ + ++ +   + +   K
Sbjct: 719 EELKRELAALEEELEQLQSRLEELEEELEELEEELEELQERLEELEEELESLEEALAKLK 778

Query: 206 RELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIPGKKEELISKGKTIAECSKEVE 265
            E+ E+ +  + L ++    ++EL   ++ ++   +E+   ++      + I E  +E+E
Sbjct: 779 EEIEELEEKRQALQEELEELEEELEEAERRLDALERELESLEQRRERLEQEIEELEEEIE 838

Query: 266 LKKNQLNLIQDKSSLFQTRTIVYLKELKEKETHFDSLKKGLEDRLQDLELKEREFEKRVK 325
             + +L+ ++++    +      L+ELKE+    ++ K+ LED L++LE ++ E E+ ++
Sbjct: 839 ELEEKLDELEEELEELEKE----LEELKEELEELEAEKEELEDELKELEEEKEELEEELR 894

Query: 326 EFE-----LREKELDSIRKAVEDRSKNLLLQVKIKD 356
           E E     L+E+      +  E  +K   L+V++ +
Sbjct: 895 ELESELAELKEEIEKLRERLEELEAKLERLEVELPE 930

Length = 1163

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

 Score = 75.9 bits (187), Expect = 4e-14
 Identities = 66/283 (23%), Positives = 130/283 (45%), Gaps = 11/283 (3%)

Query: 74  EVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLM- 132
           E     K+    +R  E  E+QLA  E ++  +   I E E  L++ E+L +E+   +  
Sbjct: 224 EGYELLKEKEALERQKEAIERQLASLEEELEKLTEEISELEKRLEEIEQLLEELNKKIKD 283

Query: 133 -------LCETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLEQ 185
                    + K+   + E+   + SI E   E    EE+L  L+ ++     E+E LE+
Sbjct: 284 LGEEEQLRVKEKIGELEAEIASLERSIAEKERELEDAEERLAKLEAEIDKLLAEIEELER 343

Query: 186 KLDSMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIPG 245
           +++  RK++ K  ++    K EL ++R  +EE++++ A    EL+  ++ +E+  +EI  
Sbjct: 344 EIEEERKRRDKLTEEYAELKEELEDLRAELEEVDKEFAETRDELKDYREKLEKLKREINE 403

Query: 246 KKEELISKGKTIAECSKEVELKKNQLNLIQDKSSLFQTRTIVYLKELKEKETHFDSLKKG 305
            K EL    + +   S+E+      +  I+ K +  +        E+K++E   + L   
Sbjct: 404 LKRELDRLQEELQRLSEELADLNAAIAGIEAKINELEEEKEDKALEIKKQEWKLEQLAAD 463

Query: 306 LED---RLQDLELKEREFEKRVKEFELREKELDSIRKAVEDRS 345
           L      L DL+ +    EK + + +    E ++  +A E+R 
Sbjct: 464 LSKYEQELYDLKEEYDRVEKELSKLQRELAEAEAQARASEERV 506

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|216148 pfam00847, AP2, AP2 domain

 Score = 64.2 bits (157), Expect = 3e-13
 Identities = 26/53 (49%), Positives = 31/53 (58%), Gaps = 4/53 (7%)

Query: 638 HFRGVRQRP-WGKWAAEIRDPK--KAARIWLGTFDTAEAAALAYDEAALRFKG 687
            ++GVR    WG+W AEIRDP   K  R  LGTF T EAA  A   A L+ +G
Sbjct: 2   GYKGVRYDKRWGRWVAEIRDPGEKKKKRFSLGTFGTEEAAR-AAIAARLKLRG 53

This 60 amino acid residue domain can bind to DNA and is found in transcription factor proteins. Length = 53

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

 Score = 68.2 bits (167), Expect = 1e-11
 Identities = 62/246 (25%), Positives = 130/246 (52%), Gaps = 12/246 (4%)

Query: 5   RVEKIMGLGQKRIGEFNCELELKENELNSLSVSLNLKNKPSSAQEWINKCQAYQKELRLW 64
            +E+ +   ++ + E   ELE  E E+  L   L    +         + +  Q+EL   
Sbjct: 243 ELEEELSRLEEELEELQEELEEAEKEIEELKSELEELRE---------ELEELQEELLEL 293

Query: 65  KNLIEECYDEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLY 124
           K  IEE   E+ L  +++ E +  +EE E++L   + KI +++  +EE E LL++ E+L 
Sbjct: 294 KEEIEELEGEISLLRERLEELENELEELEERLEELKEKIEALKEELEERETLLEELEQLL 353

Query: 125 DEVKNSLMLCETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLE 184
            E++ +    E KL    +ELE    +++E   E    E +L  ++ ++   + E+ESLE
Sbjct: 354 AELEEAKEELEEKLSALLEELEELFEALRE---ELAELEAELAEIRNELEELKREIESLE 410

Query: 185 QKLDSMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIP 244
           ++L+ + ++ +   ++++  + EL E++  +EELN++    +++L  ++  ++E  +E+ 
Sbjct: 411 ERLERLSERLEDLKEELKELEAELEELQTELEELNEELEELEEQLEELRDRLKELERELA 470

Query: 245 GKKEEL 250
             +EEL
Sbjct: 471 ELQEEL 476

Length = 1163

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

 Score = 67.8 bits (166), Expect = 1e-11
 Identities = 60/259 (23%), Positives = 123/259 (47%), Gaps = 10/259 (3%)

Query: 79  EKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLMLCETKL 138
           E+K+ E +  I E EK LA    ++  ++  +E+    L++  +    ++  L   E ++
Sbjct: 683 EEKIEELEEKIAELEKALAELRKELEELEEELEQLRKELEELSRQISALRKDLARLEAEV 742

Query: 139 ECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLEQK-------LDSMR 191
           E  ++ +      + EL  E    EE+LE  + ++   E E+E LE +       L ++R
Sbjct: 743 EQLEERIAQLSKELTELEAEIEELEERLEEAEEELAEAEAEIEELEAQIEQLKEELKALR 802

Query: 192 KQQKKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIPGKKEELI 251
           +   +   ++ L   E   +R+ +E L +  A+ ++ L  +++ IEE S++I     E+ 
Sbjct: 803 EALDELRAELTLLNEEAANLRERLESLERRIAATERRLEDLEEQIEELSEDIESLAAEIE 862

Query: 252 SKGKTIAECSKEVELKKNQLNLIQDKSSLFQTRTIVYLKELKEKETHFDSLKKGLE---D 308
              + I E   E+E   N+   +++  +L ++      +EL+E E+    L++ LE   +
Sbjct: 863 ELEELIEELESELEALLNERASLEEALALLRSELEELSEELRELESKRSELRRELEELRE 922

Query: 309 RLQDLELKEREFEKRVKEF 327
           +L  LEL+    E R+   
Sbjct: 923 KLAQLELRLEGLEVRIDNL 941

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 = 67.0 bits (164), Expect = 2e-11
 Identities = 69/322 (21%), Positives = 149/322 (46%), Gaps = 12/322 (3%)

Query: 82  VGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLMLCETKLECE 141
           V + +   EE E++L   E  +  ++ L+EE   L K  EKL  + + +    E K E  
Sbjct: 167 VSKYKERKEEAERKLERTEENLERLEDLLEE---LEKQLEKLERQAEKAERYQELKAELR 223

Query: 142 KKELELTQSSIKELSM-------EFHSEEEKLELLQGKVRLHENEVESLEQKLDSMRKQQ 194
           + EL L  + +KEL         E    EE+LE LQ ++   E E+E L+ +L+ +R++ 
Sbjct: 224 ELELALLLAKLKELRKELEELEEELSRLEEELEELQEELEEAEKEIEELKSELEELREEL 283

Query: 195 KKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIPGKKEELISKG 254
           ++  +++   K E+ E+   I  L +     + EL  +++ +EE  ++I   KEEL  + 
Sbjct: 284 EELQEELLELKEEIEELEGEISLLRERLEELENELEELEERLEELKEKIEALKEELEERE 343

Query: 255 KTIAECSKEVELKKNQLNLIQDKSSLFQTRTIVYLKELKEKETHFDSLKKGLEDRLQDLE 314
             + E  + +   +     +++K S          + L+E+    ++    + + L++L+
Sbjct: 344 TLLEELEQLLAELEEAKEELEEKLSALLEELEELFEALREELAELEAELAEIRNELEELK 403

Query: 315 LKEREFEKRVKEFELREKELDSIRKAVEDRSKNLLLQVKIKDPENLTSSGRYLQFLLNQH 374
            +    E+R++    R ++L    K +E   + L  +++  + E L      L+ L ++ 
Sbjct: 404 REIESLEERLERLSERLEDLKEELKELEAELEELQTELEELN-EELEELEEQLEELRDR- 461

Query: 375 LQKHDSIFCKVFDTIKSARDPA 396
           L++ +    ++ + ++      
Sbjct: 462 LKELERELAELQEELQRLEKEL 483

Length = 1163

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

 Score = 66.2 bits (162), Expect = 4e-11
 Identities = 71/343 (20%), Positives = 145/343 (42%), Gaps = 28/343 (8%)

Query: 39  NLKNKPSSAQEWINKCQAY-QKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQLA 97
           +L+ +   A+ +        + EL L    +EE  +E+E  ++++ EA+  +EE   +L 
Sbjct: 204 SLERQAEKAERYKELKAELRELELALLVLRLEELREELEELQEELKEAEEELEELTAELQ 263

Query: 98  FKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLMLCETKLECEKKELELTQSSIKELSM 157
             E K+  ++  + E E  +++ +K    + N +   E + +  ++ L   +  ++EL  
Sbjct: 264 ELEEKLEELRLEVSELEEEIEELQKELYALANEISRLEQQKQILRERLANLERQLEELEA 323

Query: 158 EFHSEEEKLELLQGKVRLHENEVESLEQKLDSMRKQQKKYFDDVELKKRELNEIRKYIEE 217
           +    E KL+ L  ++   E ++E L+++L+S+                EL E+   +EE
Sbjct: 324 QLEELESKLDELAEELAELEEKLEELKEELESLEA--------------ELEELEAELEE 369

Query: 218 LNQDPASKDKELRFVQQSIEECSKEIPGKKEELISKGKTIAECSKEVE-LKKNQLNLIQD 276
           L       +++L       E    ++   + ++ S    I      +E L+  +  L Q+
Sbjct: 370 LESRLEELEEQL-------ETLRSKVAQLELQIASLNNEIERLEARLERLEDRRERLQQE 422

Query: 277 KSSLFQTRTIVYLKELKEKETHFDSLKKGLEDRLQDLELKEREFEKRVKEFELREKELDS 336
              L +        ELKE +   + L++ LE+  ++LE  E   E+  +E E  E+ LD+
Sbjct: 423 IEELLKKLE---EAELKELQAELEELEEELEELQEELERLEEALEELREELEEAEQALDA 479

Query: 337 IRKAVEDRSKNLLLQVKIKDPENLTSSGRYLQFLLNQHLQKHD 379
             +  E       L    +  ENL      ++ LL        
Sbjct: 480 AER--ELAQLQARLDSLERLQENLEGFSEGVKALLKNQSGLSG 520

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 = 62.8 bits (153), Expect = 4e-10
 Identities = 72/294 (24%), Positives = 138/294 (46%), Gaps = 34/294 (11%)

Query: 65  KNLIEECYDEVELREKKVGEAQRSIEEQEKQLA------FKESKISSMQTLIEENEGLLK 118
           K L+EE   E++  EK++ E +    +  K+L        KES++  ++ L E+ + L +
Sbjct: 451 KELLEEYTAELKRIEKELKEIEEKERKLRKELRELEKVLKKESELIKLKELAEQLKELEE 510

Query: 119 DKEKLYDEVKNSLMLCETKLECEKKELELTQSSIKELSME---FHSEEEKLELLQGKVRL 175
             +K   E          +LE + +E E  +  + +L  E      E EKLE L+ K+  
Sbjct: 511 KLKKYNLE----------ELEKKAEEYEKLKEKLIKLKGEIKSLKKELEKLEELKKKLAE 560

Query: 176 HENEVESLEQKLDSMRKQ-QKKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQ 234
            E +++ LE++L  + K+ ++  F+ VE  +  L E+  +  E          EL+  ++
Sbjct: 561 LEKKLDELEEELAELLKELEELGFESVEELEERLKELEPFYNEYL--------ELKDAEK 612

Query: 235 SIEECSKEIPGKKEELISKGKTIAECSKEVELKKNQLNLIQDKSSLFQTRTIVYLKELKE 294
            +E   KE+   +EEL    + +AE  K +E  + +L  ++ K S  +       +EL+E
Sbjct: 613 ELEREEKELKKLEEELDKAFEELAETEKRLEELRKELEELEKKYSEEE------YEELRE 666

Query: 295 KETHFDSLKKGLEDRLQDLELKEREFEKRVKEFELREKELDSIRKAVEDRSKNL 348
           +         GL   L++LE +  E +K +++ +   +E +  +K +E   K L
Sbjct: 667 EYLELSRELAGLRAELEELEKRREEIKKTLEKLKEELEEREKAKKELEKLEKAL 720

Length = 880

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

 Score = 60.5 bits (147), Expect = 2e-09
 Identities = 67/301 (22%), Positives = 138/301 (45%), Gaps = 21/301 (6%)

Query: 48  QEWINKCQAYQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQ 107
           +E   + +  ++EL   +  +EE  +E+E  EK++ E +  +EE  ++L   + ++  ++
Sbjct: 235 KELRKELEELEEELSRLEEELEELQEELEEAEKEIEELKSELEELREELEELQEELLELK 294

Query: 108 TLIEENEGLLKDKEKLYDEVKNSLMLCETKLECEKKELELTQSSIKELSMEFHSEEEKLE 167
             IEE   L  +   L + ++      E +LE  ++ LE  +  I+ L  E    E  LE
Sbjct: 295 EEIEE---LEGEISLLRERLEEL----ENELEELEERLEELKEKIEALKEELEERETLLE 347

Query: 168 LLQGKVRLHENEVESLEQKLDSMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPASKDK 227
            L+  +   E   E LE+KL ++ ++ ++ F   E  + EL E+   + E+  +     +
Sbjct: 348 ELEQLLAELEEAKEELEEKLSALLEELEELF---EALREELAELEAELAEIRNELEELKR 404

Query: 228 ELRFVQQSIEECSKEIPGKKEELISKGKTIAECSKEVELKKNQLNLIQDKSSLFQTRTIV 287
           E+  +++ +E  S+ +   KEEL      + E   E+E    +L  ++++          
Sbjct: 405 EIESLEERLERLSERLEDLKEELKELEAELEELQTELEELNEELEELEEQ---------- 454

Query: 288 YLKELKEKETHFDSLKKGLEDRLQDLELKEREFEKRVKEFELREKELDSIRKAVEDRSKN 347
            L+EL+++    +     L++ LQ LE +    E R+   E  ++    +R  +E     
Sbjct: 455 -LEELRDRLKELERELAELQEELQRLEKELSSLEARLDRLEAEQRASQGVRAVLEALESG 513

Query: 348 L 348
           L
Sbjct: 514 L 514

Length = 1163

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

 Score = 60.5 bits (147), Expect = 2e-09
 Identities = 43/193 (22%), Positives = 95/193 (49%), Gaps = 1/193 (0%)

Query: 161 SEEEKLELLQGKVRLHENEVESLEQKLDSMRKQQKKYFDDVELKKRELNEIRKYIEELNQ 220
           SE  +L+ L+ ++   + E+ SL+ +L  +  +  +   ++    R++ EI K IE+L Q
Sbjct: 671 SEPAELQRLRERLEGLKRELSSLQSELRRIENRLDELSQELSDASRKIGEIEKEIEQLEQ 730

Query: 221 DPASKDKELRFVQQSIEECSKEIPGKKEELISKGKTIAECSKEVELKKNQLNLIQDKSSL 280
           +     + L  +++ +    +EI   K EL      I E  +++   +  LN ++ + S 
Sbjct: 731 EEEKLKERLEELEEDLSSLEQEIENVKSELKELEARIEELEEDLHKLEEALNDLEARLSH 790

Query: 281 FQTRTIV-YLKELKEKETHFDSLKKGLEDRLQDLELKEREFEKRVKEFELREKELDSIRK 339
            +   I   L +L+E+ +  ++  + +E +L  L L++   EK ++E + +  +L    K
Sbjct: 791 SRIPEIQAELSKLEEEVSRIEARLREIEQKLNRLTLEKEYLEKEIQELQEQRIDLKEQIK 850

Query: 340 AVEDRSKNLLLQV 352
           ++E   +NL  + 
Sbjct: 851 SIEKEIENLNGKK 863

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

 Score = 60.9 bits (148), Expect = 2e-09
 Identities = 70/379 (18%), Positives = 165/379 (43%), Gaps = 36/379 (9%)

Query: 14  QKRIGEFNCELELKENELNSLSVSLNLKNKPSSAQEWINKCQAYQKELRLWKNLIEEC-- 71
           Q+   E   E E++  E     +    +         +       + L++ +  + E   
Sbjct: 222 QEEQEEEELEQEIEALEERLAELEEEKERLEELKARLLEIESLELEALKIREEELRELER 281

Query: 72  -YDEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNS 130
             +E+E + +++ E +R IEE E++L    + +  ++ L+E+ + L +  EKL ++++  
Sbjct: 282 LLEELEEKIERLEELEREIEELEEELEGLRALLEELEELLEKLKSLEERLEKLEEKLEKL 341

Query: 131 LMLCE---TKLECEKKELELTQSSIKELSMEFHSE----EEKLELLQGKVRLHENEVESL 183
               E    +     K LE     ++E   E   E     E+L+ L+  ++  + E+  L
Sbjct: 342 ESELEELAEEKNELAKLLEERLKELEERLEELEKELEKALERLKQLEEAIQELKEELAEL 401

Query: 184 EQKLDSMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEE----- 238
              L+ ++++ ++   ++E  +REL E+ + I++L +     + +   + +         
Sbjct: 402 SAALEEIQEELEELEKELEELERELEELEEEIKKLEEQINQLESKELMIAELAGAGEKCP 461

Query: 239 -CSKEIPGKKEELISKG---------KTIAECSKEVELKKNQLNLIQDKSSLFQTRTI-- 286
            C +E+P + E+ + +          + ++   +E EL++    L ++   L +      
Sbjct: 462 VCGQELPEEHEKELLELYELELEELEEELSREKEEAELREEIEELEKELRELEEELIELL 521

Query: 287 ----VYLKELKEKETHFDSLKKGLED-----RLQDLELKEREFEKRVKEFELREKELDSI 337
                  +EL+EK    ++L + LE+     +LQ L+ + R+ E R++E +   +EL  +
Sbjct: 522 ELEEALKEELEEKLEKLENLLEELEELKEKLQLQQLKEELRQLEDRLQELKELLEELRLL 581

Query: 338 RKAVEDRSKNLLLQVKIKD 356
           R   E+  +      ++K 
Sbjct: 582 RTRKEELEELRERLKELKK 600

Length = 908

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

 Score = 60.5 bits (147), Expect = 3e-09
 Identities = 63/284 (22%), Positives = 126/284 (44%), Gaps = 23/284 (8%)

Query: 87  RSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKL------YDEVKNSLMLCETKLEC 140
            SI  Q K      +K    + LIEE  G+ K KE+        +  + +L   E  LE 
Sbjct: 138 YSIVSQGKVEEIINAKPEERRKLIEEAAGVSKYKERKEEAERKLERTEENLERLEDLLEE 197

Query: 141 EKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHE------------NEVESLEQKLD 188
            +K+LE  +    E +  +   + +L  L+  + L +             E+  LE++L+
Sbjct: 198 LEKQLEKLERQ-AEKAERYQELKAELRELELALLLAKLKELRKELEELEEELSRLEEELE 256

Query: 189 SMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIPGKKE 248
            ++++ ++   ++E  K EL E+R+ +EEL ++     +E+  ++  I    + +   + 
Sbjct: 257 ELQEELEEAEKEIEELKSELEELREELEELQEELLELKEEIEELEGEISLLRERLEELEN 316

Query: 249 ELISKGKTIAECSKEVELKKNQLNLIQDKSSLFQTRTIVYLKELKEKETHFDSLKKGLED 308
           EL    + + E  +++E  K +L   +      +       +  +E E    +L + LE+
Sbjct: 317 ELEELEERLEELKEKIEALKEELEERETLLEELEQLLAELEEAKEELEEKLSALLEELEE 376

Query: 309 RLQDL--ELKEREFEKRVKEFELR--EKELDSIRKAVEDRSKNL 348
             + L  EL E E E      EL   ++E++S+ + +E  S+ L
Sbjct: 377 LFEALREELAELEAELAEIRNELEELKREIESLEERLERLSERL 420

Length = 1163

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

 Score = 59.7 bits (145), Expect = 4e-09
 Identities = 80/351 (22%), Positives = 159/351 (45%), Gaps = 29/351 (8%)

Query: 14  QKRIGEFNCELELKENELNSLSVSLNLKNKPSSAQEWINKCQAYQKELRLWKNLIEECYD 73
           ++ I E   ELE    E+N +S        P   +E + K +   KEL   K  IEE   
Sbjct: 192 EELIKEKEKELEEVLREINEIS-----SELPELREE-LEKLEKEVKELEELKEEIEELEK 245

Query: 74  EVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLML 133
           E+E  E    + +  I E E+++   + +I  ++  ++E + L K+K + Y ++      
Sbjct: 246 ELESLEGSKRKLEEKIRELEERIEELKKEIEELEEKVKELKEL-KEKAEEYIKLSEFY-- 302

Query: 134 CETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLEQKLDSMRKQ 193
              +   E +E+E   S ++E         ++LE  + ++   + +++ LE++L+ + ++
Sbjct: 303 --EEYLDELREIEKRLSRLEEEINGIEERIKELEEKEERLEELKKKLKELEKRLEELEER 360

Query: 194 QKKYFDDVELKKRELNEIRKYIEELNQDPASKD-KELRFVQQSIEECSKEIPGKKEELIS 252
            + Y ++ + KK EL  ++K +  L  +   K+ +EL   ++ IEE   +I  +  EL  
Sbjct: 361 HELY-EEAKAKKEELERLKKRLTGLTPEKLEKELEELEKAKEEIEEEISKITARIGELKK 419

Query: 253 KGKTIAECSKEVELKKNQLNLIQDKSSLFQTRTIVYLKELKEKETHFDSLKKGLEDRLQD 312
           + K         ELKK    L + K      +  V  +EL E+  H   L +     L+ 
Sbjct: 420 EIK---------ELKKAIEELKKAKG-----KCPVCGRELTEE--HRKELLEEYTAELKR 463

Query: 313 LELKEREFEKRVKEFELREKELDSIRKAVEDRSKNLLLQVKIKDPENLTSS 363
           +E + +E E++ ++     +EL+ + K   +  K   L  ++K+ E     
Sbjct: 464 IEKELKEIEEKERKLRKELRELEKVLKKESELIKLKELAEQLKELEEKLKK 514

Length = 880

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

 Score = 57.8 bits (140), Expect = 2e-08
 Identities = 54/284 (19%), Positives = 123/284 (43%), Gaps = 34/284 (11%)

Query: 65  KNLIEECYDEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLY 124
           K  +     E+   E ++ E  + + +  +++   E +I  ++   E+ +  L++ E+  
Sbjct: 687 KRELSSLQSELRRIENRLDELSQELSDASRKIGEIEKEIEQLEQEEEKLKERLEELEEDL 746

Query: 125 DEVKNSLMLCETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLE 184
                     E ++E  K EL+  ++ I+EL  + H  EE L  L  + RL  + +  ++
Sbjct: 747 SS-------LEQEIENVKSELKELEARIEELEEDLHKLEEALNDL--EARLSHSRIPEIQ 797

Query: 185 QKLDSMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIP 244
            +L  + +              E++ I   + E+ Q       E  ++++ I+E  ++  
Sbjct: 798 AELSKLEE--------------EVSRIEARLREIEQKLNRLTLEKEYLEKEIQELQEQRI 843

Query: 245 GKKEELISKGKTIAECSKEVELKKNQLNLIQDKSSLFQTRTIVYLKELKEKETHFDSLKK 304
             KE++ S  K I   + + E  + +L  ++             L++L+ +       + 
Sbjct: 844 DLKEQIKSIEKEIENLNGKKEELEEELEELE-----------AALRDLESRLGDLKKERD 892

Query: 305 GLEDRLQDLELKEREFEKRVKEFELREKELDSIRKAVEDRSKNL 348
            LE +L++LE K  E E ++++   R  EL +  +A+E+    +
Sbjct: 893 ELEAQLRELERKIEELEAQIEKKRKRLSELKAKLEALEEELSEI 936

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|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain

 Score = 57.7 bits (139), Expect = 2e-08
 Identities = 53/287 (18%), Positives = 116/287 (40%), Gaps = 6/287 (2%)

Query: 76  ELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLMLCE 135
           +L E+    A+  I+ +E +L   + K  + + L         + E+      + L L E
Sbjct: 178 KLIEETENLAELIIDLEELKLQELKLKEQAKKALEYYQLKEKLELEEENLLYLDYLKLNE 237

Query: 136 TKLECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLEQKLDSMRKQQK 195
            +++  ++ L   Q  I+    E   EEE L  +  + +  E E +  E++L  + K+++
Sbjct: 238 ERIDLLQELLRDEQEEIESSKQELEKEEEILAQVLKENKEEEKEKKLQEEELKLLAKEEE 297

Query: 196 KYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIPGKKEELISKGK 255
           +   ++   +R   +  + ++E  ++    +KEL+  ++ IEE  KE+   + +  ++ +
Sbjct: 298 ELKSELLKLERRKVDDEEKLKESEKELKKLEKELKKEKEEIEELEKELKELEIKREAEEE 357

Query: 256 TIAECSKEVELKKNQLNLIQDK------SSLFQTRTIVYLKELKEKETHFDSLKKGLEDR 309
              +  K  E  +     +  K            +      ELK +E     L   L ++
Sbjct: 358 EEEQLEKLQEKLEQLEEELLAKKKLESERLSSAAKLKEEELELKNEEEKEAKLLLELSEQ 417

Query: 310 LQDLELKEREFEKRVKEFELREKELDSIRKAVEDRSKNLLLQVKIKD 356
            +DL  +E++ E ++ E      E    +   E           +KD
Sbjct: 418 EEDLLKEEKKEELKIVEELEESLETKQGKLTEEKEELEKQALKLLKD 464

This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination. Length = 1162

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

 Score = 56.3 bits (136), Expect = 4e-08
 Identities = 49/208 (23%), Positives = 98/208 (47%), Gaps = 11/208 (5%)

Query: 141 EKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLEQKLDSMRKQQKKYFDD 200
            K+     +  +KEL  E    E +LE L+ +++  +NE+ SLE  L+ +R+Q ++    
Sbjct: 658 NKRSSLAQKRELKELEEELAELEAQLEKLEEELKSLKNELRSLEDLLEELRRQLEELERQ 717

Query: 201 VELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIPGKKEELISKGKTIAEC 260
           +E  KREL  + + +E+L       ++EL  +++ +EE  + +   +EEL          
Sbjct: 718 LEELKRELAALEEELEQLQSRLEELEEELEELEEELEELQERLEELEEEL---------- 767

Query: 261 SKEVELKKNQLNLIQDKSSLFQTRTIVYLKELKEKETHFDSLKKGLEDRLQDLELKEREF 320
            + +E    +L    ++    +      L+EL+E+    +     LE  L+ LE +    
Sbjct: 768 -ESLEEALAKLKEEIEELEEKRQALQEELEELEEELEEAERRLDALERELESLEQRRERL 826

Query: 321 EKRVKEFELREKELDSIRKAVEDRSKNL 348
           E+ ++E E   +EL+     +E+  + L
Sbjct: 827 EQEIEELEEEIEELEEKLDELEEELEEL 854

Length = 1163

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

 Score = 55.8 bits (135), Expect = 7e-08
 Identities = 57/349 (16%), Positives = 145/349 (41%), Gaps = 32/349 (9%)

Query: 14   QKRIGEFNCELELKENELNSLSVSL-NLKNKPSSAQEWINKCQAYQKELRLWKNLIEECY 72
            +++I E   ++   E  L  L   L  L+ +    ++ +   +   +++   +  +    
Sbjct: 683  EEKIEELEEKIAELEKALAELRKELEELEEELEQLRKEL---EELSRQISALRKDLARLE 739

Query: 73   DEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLM 132
             EVE  E+++ +  + + E E ++   E ++   +  + E E  +++ E   +++K  L 
Sbjct: 740  AEVEQLEERIAQLSKELTELEAEIEELEERLEEAEEELAEAEAEIEELEAQIEQLKEELK 799

Query: 133  LCETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLEQKLDSMRK 192
                 L+  + EL L          E  +  E+LE L+ ++   E  +E LE++++ + +
Sbjct: 800  ALREALDELRAELTLLNE-------EAANLRERLESLERRIAATERRLEDLEEQIEELSE 852

Query: 193  QQKKYFDDVELKKRELNEIRKYIEEL-------NQDPASKDKELRFVQQSIEECSKEIPG 245
              +    ++E  +  + E+   +E L        +  A    EL  + + + E   +   
Sbjct: 853  DIESLAAEIEELEELIEELESELEALLNERASLEEALALLRSELEELSEELRELESKRSE 912

Query: 246  KKEELISKGKTIAECSKEVELKKNQLNLIQDKSSLFQTRTIVYLKELKEKETHFDSLKKG 305
             + EL    + +A+    +E  + +++ +Q++         + L+E +  E   +  ++ 
Sbjct: 913  LRRELEELREKLAQLELRLEGLEVRIDNLQER---LSEEYSLTLEEAEALENKIEDDEEE 969

Query: 306  LEDRLQDLELK-----------EREFEKRVKEFELREKELDSIRKAVED 343
               RL+ LE K             E+E+  + ++    + + + +A E 
Sbjct: 970  ARRRLKRLENKIKELGPVNLAAIEEYEELKERYDFLTAQKEDLTEAKET 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. 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 = 55.5 bits (134), Expect = 7e-08
 Identities = 53/262 (20%), Positives = 117/262 (44%), Gaps = 13/262 (4%)

Query: 73  DEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLM 132
           ++ E   + + E  +  + + ++L            L E  E +    E L +E+K    
Sbjct: 167 EKYEKLSELLKEVIKEAKAKIEELE---------GQLSELLEDIEDLLEALEEELKELKK 217

Query: 133 LCETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLEQKLDSMRK 192
           L E + E E++ELE    +++E   E   E+E+LE L+ ++   E+      +  +   +
Sbjct: 218 LEEIQEEQEEEELEQEIEALEERLAELEEEKERLEELKARLLEIESLELEALKIREEELR 277

Query: 193 QQKKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIPGKKEELIS 252
           + ++  +++E K   L E+ + IEEL ++       L  +++ +E+        ++    
Sbjct: 278 ELERLLEELEEKIERLEELEREIEELEEELEGLRALLEELEELLEKLKSLEERLEKLEEK 337

Query: 253 KGKTIAECSKEVELKKNQLNLIQDKSSLFQTRTIVYLKELKEKETHFDSLKKGLEDRLQD 312
             K  +E  +  E K     L++++    + R    L+EL+++        K LE+ +Q+
Sbjct: 338 LEKLESELEELAEEKNELAKLLEERLKELEER----LEELEKELEKALERLKQLEEAIQE 393

Query: 313 LELKEREFEKRVKEFELREKEL 334
           L+ +  E    ++E +   +EL
Sbjct: 394 LKEELAELSAALEEIQEELEEL 415

Length = 908

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

 Score = 55.5 bits (134), Expect = 8e-08
 Identities = 62/333 (18%), Positives = 161/333 (48%), Gaps = 23/333 (6%)

Query: 23   ELELKENELNSLSVSLNLKNKPSSAQEWINKCQAYQKELRLWKNLIEECYDEVELREKKV 82
            EL   EN L+ LS  L+  ++     E   + +  ++E    K  +EE  +++   E+++
Sbjct: 696  ELRRIENRLDELSQELSDASRKIGEIE--KEIEQLEQEEEKLKERLEELEEDLSSLEQEI 753

Query: 83   GEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLMLCETKLECEK 142
               +  ++E E ++   E  +  ++  + + E  L        E++  L   E ++   +
Sbjct: 754  ENVKSELKELEARIEELEEDLHKLEEALNDLEARLSHSR--IPEIQAELSKLEEEVSRIE 811

Query: 143  KELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLEQKLDSMRKQQKKYFDDVE 202
              L   +  +  L++E    E++++ LQ +    + +++S+E++++++  ++++  +++E
Sbjct: 812  ARLREIEQKLNRLTLEKEYLEKEIQELQEQRIDLKEQIKSIEKEIENLNGKKEELEEELE 871

Query: 203  LKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIPGKKEELISKGKTIAECSK 262
              +  L ++   + +L ++    + +LR +++ IEE   +I  KK + +S+ K   E  +
Sbjct: 872  ELEAALRDLESRLGDLKKERDELEAQLRELERKIEELEAQIE-KKRKRLSELKAKLEALE 930

Query: 263  EVELKKNQLNLIQDKSSLFQTRTIVYLKELKEKETHFDSLKKGLEDRLQDLE----LKER 318
            E EL + +    +D+    +  ++  ++   ++          +E+ ++ LE    L  +
Sbjct: 931  E-ELSEIEDPKGEDEEIPEEELSLEDVQAELQR----------VEEEIRALEPVNMLAIQ 979

Query: 319  EFE---KRVKEFELREKELDSIRKAVEDRSKNL 348
            E+E   KR+ E + +  +L+  RKA+ +R +  
Sbjct: 980  EYEEVLKRLDELKEKRAKLEEERKAILERIEEY 1012

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 = 55.1 bits (133), Expect = 1e-07
 Identities = 59/269 (21%), Positives = 120/269 (44%), Gaps = 18/269 (6%)

Query: 88  SIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLMLCETK---------- 137
           SI EQ K     E+K    + + EE  G+ K KE+  +  +    L  T+          
Sbjct: 139 SIIEQGKISEIIEAKPEERRAIFEEAAGISKYKERRKETERK---LERTRENLDRLEDIL 195

Query: 138 --LECEKKELELTQSSIKELSMEFHSEEEKLE--LLQGKVRLHENEVESLEQKLDSMRKQ 193
             LE + K LE  Q+   E   E  +E  +LE  LL  ++     E+E L+++L    ++
Sbjct: 196 NELERQLKSLER-QAEKAERYKELKAELRELELALLVLRLEELREELEELQEELKEAEEE 254

Query: 194 QKKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIPGKKEELISK 253
            ++   +++  + +L E+R  + EL ++     KEL  +   I    ++    +E L + 
Sbjct: 255 LEELTAELQELEEKLEELRLEVSELEEEIEELQKELYALANEISRLEQQKQILRERLANL 314

Query: 254 GKTIAECSKEVELKKNQLNLIQDKSSLFQTRTIVYLKELKEKETHFDSLKKGLEDRLQDL 313
            + + E   ++E  +++L+ + ++ +  + +     +EL+  E   + L+  LE+    L
Sbjct: 315 ERQLEELEAQLEELESKLDELAEELAELEEKLEELKEELESLEAELEELEAELEELESRL 374

Query: 314 ELKEREFEKRVKEFELREKELDSIRKAVE 342
           E  E + E    +    E ++ S+   +E
Sbjct: 375 EELEEQLETLRSKVAQLELQIASLNNEIE 403

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 = 53.9 bits (130), Expect = 2e-07
 Identities = 44/200 (22%), Positives = 93/200 (46%), Gaps = 4/200 (2%)

Query: 146 ELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLEQKLDSMRKQQKKYFDDVELKK 205
             T SSI E   E    EEK+E L+ K+   E  +  L ++L+ + ++ ++   ++E   
Sbjct: 666 AKTNSSILERRREIEELEEKIEELEEKIAELEKALAELRKELEELEEELEQLRKELEELS 725

Query: 206 RELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIPGKKEELISKGKTIAECSKEVE 265
           R+++ +RK +  L  +    ++ +  + + + E   EI   +E L    + +AE   E E
Sbjct: 726 RQISALRKDLARLEAEVEQLEERIAQLSKELTELEAEIEELEERLEEAEEELAEA--EAE 783

Query: 266 LKKNQLNLIQDKSSLFQTRTIV--YLKELKEKETHFDSLKKGLEDRLQDLELKEREFEKR 323
           +++ +  + Q K  L   R  +     EL        +L++ LE   + +   ER  E  
Sbjct: 784 IEELEAQIEQLKEELKALREALDELRAELTLLNEEAANLRERLESLERRIAATERRLEDL 843

Query: 324 VKEFELREKELDSIRKAVED 343
            ++ E   ++++S+   +E+
Sbjct: 844 EEQIEELSEDIESLAAEIEE 863

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 = 53.1 bits (128), Expect = 4e-07
 Identities = 63/306 (20%), Positives = 139/306 (45%), Gaps = 16/306 (5%)

Query: 14   QKRIGEFNCELELKENELNSLSVSLNLKNKPSSAQEWINKCQAYQKELRLWKNLIEECYD 73
            ++   +    LE  E +L+SL   +  +N  S  +E   + +  +++L   +  + +   
Sbjct: 729  EQEEEKLKERLEELEEDLSSLEQEI--ENVKSELKELEARIEELEEDLHKLEEALNDLEA 786

Query: 74   EVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLML 133
               L   ++ E Q  + + E++++  E+++  ++  +       +  EK   E++   + 
Sbjct: 787  R--LSHSRIPEIQAELSKLEEEVSRIEARLREIEQKLNRLTLEKEYLEKEIQELQEQRID 844

Query: 134  CETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLEQKLDSMRKQ 193
             + +++  +KE+E      +EL       EE+LE L+  +R  E+ +  L+++ D +  Q
Sbjct: 845  LKEQIKSIEKEIENLNGKKEEL-------EEELEELEAALRDLESRLGDLKKERDELEAQ 897

Query: 194  QKKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIPGKKEELISK 253
             ++    +E  + ++ + RK + EL     + ++EL      IE+   E     EE +S 
Sbjct: 898  LRELERKIEELEAQIEKKRKRLSELKAKLEALEEEL----SEIEDPKGEDEEIPEEELSL 953

Query: 254  GKTIAECSKEVELKKNQLNLIQDKSSLFQTRTIVYLKELKEKETHFDSLKKGLEDRLQDL 313
                AE  + VE +   L  +   +       +  L ELKEK    +  +K + +R+++ 
Sbjct: 954  EDVQAEL-QRVEEEIRALEPVNMLAIQEYEEVLKRLDELKEKRAKLEEERKAILERIEEY 1012

Query: 314  ELKERE 319
            E K+RE
Sbjct: 1013 EKKKRE 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|235175 PRK03918, PRK03918, chromosome segregation protein; Provisional

 Score = 52.8 bits (127), Expect = 5e-07
 Identities = 58/252 (23%), Positives = 120/252 (47%), Gaps = 25/252 (9%)

Query: 80  KKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLMLCETKLE 139
           +++ +     E+ +++L   + +I S++  +E+ E L K   +L  ++     L E   E
Sbjct: 518 EELEKKAEEYEKLKEKLIKLKGEIKSLKKELEKLEELKKKLAELEKKLDE---LEEELAE 574

Query: 140 CEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLEQKLDSMRKQQKKYFD 199
             K+  EL   S++EL      E E       +++  E E+E  E++L  + ++  K F+
Sbjct: 575 LLKELEELGFESVEELEERL-KELEPFYNEYLELKDAEKELEREEKELKKLEEELDKAFE 633

Query: 200 DVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIPGKKEELISKGKTIAE 259
           ++   ++ L E+RK +EEL +     ++E   +++   E S+E+ G + EL    K   E
Sbjct: 634 ELAETEKRLEELRKELEELEKK--YSEEEYEELREEYLELSRELAGLRAELEELEKRREE 691

Query: 260 CSKEVELKKNQLNLIQDKSSLFQTRTIVYLKELKEKETHFDSLKKGLEDRLQDLELKERE 319
             K +E  K +                  L+E ++ +   + L+K LE R+++L  K ++
Sbjct: 692 IKKTLEKLKEE------------------LEEREKAKKELEKLEKALE-RVEELREKVKK 732

Query: 320 FEKRVKEFELRE 331
           ++  +KE  L +
Sbjct: 733 YKALLKERALSK 744

Length = 880

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

 Score = 52.1 bits (125), Expect = 8e-07
 Identities = 76/362 (20%), Positives = 155/362 (42%), Gaps = 41/362 (11%)

Query: 14  QKRIGEFNCELELKENELNSLSVSL-NLKNKPSSAQEWINKCQAYQKELRLWKNLIEECY 72
            +R+ E   E+E  E EL  L   L  L+      +    + +  +++L   ++ +EE  
Sbjct: 290 IERLEELEREIEELEEELEGLRALLEELEELLEKLKSLEERLEKLEEKLEKLESELEELA 349

Query: 73  DEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDK----EKLYDEVK 128
           +E     K + E  + +EE+ ++L  +  K       +EE    LK++        +E++
Sbjct: 350 EEKNELAKLLEERLKELEERLEELEKELEKALERLKQLEEAIQELKEELAELSAALEEIQ 409

Query: 129 NSLMLCETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQ------------GKVRLH 176
             L   E +LE  ++ELE  +  IK+L  + +  E K  ++             G+    
Sbjct: 410 EELEELEKELEELERELEELEEEIKKLEEQINQLESKELMIAELAGAGEKCPVCGQELPE 469

Query: 177 ENEVESLEQKLDSMRKQQKKYFDDVELKKR--ELNEIRKYIEELNQDPASKDKELRFVQQ 234
           E+E E LE     + + +++   + E  +   E+ E+ K + EL ++     +    +++
Sbjct: 470 EHEKELLELYELELEELEEELSREKEEAELREEIEELEKELRELEEELIELLELEEALKE 529

Query: 235 SIEECSKEIPGKKEELI------------SKGKTIAECSKEVELKKNQLNLIQDKSSLFQ 282
            +EE  +++    EEL              + + + +  +E++    +L L++ +     
Sbjct: 530 ELEEKLEKLENLLEELEELKEKLQLQQLKEELRQLEDRLQELKELLEELRLLRTRKEE-- 587

Query: 283 TRTIVYLKELKEKETHFDSLKKGLEDRLQDLE--LKEREFEKRVKEFELREKELDSIRKA 340
                 L+EL+E+        K LE+RL  LE  L+  E  +   E E  E+EL+S  + 
Sbjct: 588 ------LEELRERLKELKKKLKELEERLSQLEELLQSLELSEAENELEEAEEELESELEK 641

Query: 341 VE 342
           + 
Sbjct: 642 LN 643

Length = 908

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

 Score = 51.6 bits (124), Expect = 1e-06
 Identities = 61/286 (21%), Positives = 134/286 (46%), Gaps = 32/286 (11%)

Query: 65  KNLIEECYDEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQT----LIEENEGLLKDK 120
              I+   + +E   K+    +  I+E+EK+L     +I+ + +    L EE E L K+ 
Sbjct: 171 IKEIKRRIERLEKFIKRTENIEELIKEKEKELEEVLREINEISSELPELREELEKLEKEV 230

Query: 121 EKLYDEVKNSLMLCETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEV 180
           ++L +E+K  +   E +LE  +      +  I+EL       ++++E L+ KV+    E+
Sbjct: 231 KEL-EELKEEIEELEKELESLEGSKRKLEEKIRELEERIEELKKEIEELEEKVK----EL 285

Query: 181 ESLEQK------LDSMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQ 234
           + L++K      L    ++      ++E +   L E    IEE  ++   K++ L     
Sbjct: 286 KELKEKAEEYIKLSEFYEEYLDELREIEKRLSRLEEEINGIEERIKELEEKEERLE---- 341

Query: 235 SIEECSKEIPGKKEELISKGKTIAECSKEVELKKNQLNLIQDKSSLFQTRTIVYLKELKE 294
            +++  KE+  + EEL    +   E  +E + KK +L  ++ +       T +  ++L++
Sbjct: 342 ELKKKLKELEKRLEEL----EERHELYEEAKAKKEELERLKKR------LTGLTPEKLEK 391

Query: 295 KETHFDSLKKGLEDRLQDLELKEREFEKRVKEFELREKELDSIRKA 340
           +    +  K+ +E+ +  +  +  E +K +KE    +K ++ ++KA
Sbjct: 392 ELEELEKAKEEIEEEISKITARIGELKKEIKE---LKKAIEELKKA 434

Length = 880

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

 Score = 51.7 bits (124), Expect = 1e-06
 Identities = 75/346 (21%), Positives = 152/346 (43%), Gaps = 15/346 (4%)

Query: 5   RVEKIMGLGQKRIGEFNCELELKENELNSLSVSLNLKNKP-SSAQEWINKCQAYQKELRL 63
            +++ +      + E   ELE  E EL  L   L    +     +E IN+ ++ +  +  
Sbjct: 393 ELKEELAELSAALEEIQEELEELEKELEELERELEELEEEIKKLEEQINQLESKELMIAE 452

Query: 64  WKNLIEECYD-EVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEK 122
                E+C     EL E+   E     E + ++L  + S+      L EE E L K+  +
Sbjct: 453 LAGAGEKCPVCGQELPEEHEKELLELYELELEELEEELSREKEEAELREEIEELEKELRE 512

Query: 123 LYDEVKNSLMLCETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVES 182
           L +E+   L       E  K+ELE     ++ L  E    +EKL+L Q  ++    ++E 
Sbjct: 513 LEEELIELL----ELEEALKEELEEKLEKLENLLEELEELKEKLQLQQ--LKEELRQLED 566

Query: 183 LEQKLDSMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKE 242
             Q+L    K+  +    +  +K EL E+R+ ++EL +     ++ L  +++ ++    E
Sbjct: 567 RLQEL----KELLEELRLLRTRKEELEELRERLKELKKKLKELEERLSQLEELLQSL--E 620

Query: 243 IPGKKEELISKGKTIAECSKEVELKKNQLNLIQDKSSLFQTRTIVYLKELKEKETHFDSL 302
           +   + EL    + +    +++ L+     L+Q      + +      E++ +    ++ 
Sbjct: 621 LSEAENELEEAEEELESELEKLNLQAELEELLQAALEELEEKVEELEAEIRRELQRIENE 680

Query: 303 KKGLEDRLQDLELKEREFEKRVKEFELREKELDSIRKAVEDRSKNL 348
           ++ LE++L++LE  E E E+  +E E   K+L  I + +E+     
Sbjct: 681 EQ-LEEKLEELEQLEEELEQLREELEELLKKLGEIEQLIEELESRK 725

Length = 908

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

 Score = 50.8 bits (122), Expect = 2e-06
 Identities = 70/298 (23%), Positives = 139/298 (46%), Gaps = 21/298 (7%)

Query: 51  INKCQAYQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLI 110
           + + +   +E        EE  DE+   EK++   +  I   E+++   E K   ++ L 
Sbjct: 285 LKELKEKAEEYIKLSEFYEEYLDELREIEKRLSRLEEEINGIEERIKELEEKEERLEELK 344

Query: 111 EENEGLLKDKEKLYDEVKNSLMLCETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQ 170
           ++ + L K  E+L +  +        K E E+ +  LT  + ++L  E    E+  E ++
Sbjct: 345 KKLKELEKRLEELEERHELYEEAKAKKEELERLKKRLTGLTPEKLEKELEELEKAKEEIE 404

Query: 171 GKVRLHENEVESLEQKLDSMRK---QQKKYFDDVELKKRELNE------IRKYIEELN-- 219
            ++      +  L++++  ++K   + KK      +  REL E      + +Y  EL   
Sbjct: 405 EEISKITARIGELKKEIKELKKAIEELKKAKGKCPVCGRELTEEHRKELLEEYTAELKRI 464

Query: 220 -QDPASKDKELRFVQQSIEECSKEIPGKKEELISKGKTIAECSKEVELKKNQLNL--IQD 276
            ++    +++ R +++ + E  K +  KKE  + K K +AE  KE+E K  + NL  ++ 
Sbjct: 465 EKELKEIEEKERKLRKELRELEKVL--KKESELIKLKELAEQLKELEEKLKKYNLEELEK 522

Query: 277 KSSLFQTRTIVYLKELKEKETHFDSLKKGLEDRLQDLELKEREFEKRVKEFELREKEL 334
           K+  ++       ++L + +    SLKK LE +L++L+ K  E EK++ E E    EL
Sbjct: 523 KAEEYEK----LKEKLIKLKGEIKSLKKELE-KLEELKKKLAELEKKLDELEEELAEL 575

Length = 880

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

 Score = 50.8 bits (122), Expect = 2e-06
 Identities = 58/226 (25%), Positives = 114/226 (50%), Gaps = 20/226 (8%)

Query: 117 LKDKEKLYDEVKNSLMLCETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLH 176
           L D E  Y  +   +   + ++E  +K ++ T  +I+EL  E   +E++LE +  ++   
Sbjct: 157 LDDYENAYKNLGEVIKEIKRRIERLEKFIKRT-ENIEELIKE---KEKELEEVLREINEI 212

Query: 177 ENEVESLEQKLDSMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSI 236
            +E+  L ++L+ + K+ K+     E  K E+ E+ K +E L       ++++R +++ I
Sbjct: 213 SSELPELREELEKLEKEVKEL----EELKEEIEELEKELESLEGSKRKLEEKIRELEERI 268

Query: 237 EECSKEIPGKKEELISKGKTIAECSKEVELKKNQLNLIQDKSSLFQTRTIVYLKELKEKE 296
           EE  KEI    EEL  K K + E  ++ E           K S F    +  L+E++++ 
Sbjct: 269 EELKKEI----EELEEKVKELKELKEKAEEYI--------KLSEFYEEYLDELREIEKRL 316

Query: 297 THFDSLKKGLEDRLQDLELKEREFEKRVKEFELREKELDSIRKAVE 342
           +  +    G+E+R+++LE KE   E+  K+ +  EK L+ + +  E
Sbjct: 317 SRLEEEINGIEERIKELEEKEERLEELKKKLKELEKRLEELEERHE 362

Length = 880

>gnl|CDD|216531 pfam01496, V_ATPase_I, V-type ATPase 116kDa subunit family

 Score = 50.8 bits (122), Expect = 2e-06
 Identities = 59/309 (19%), Positives = 116/309 (37%), Gaps = 50/309 (16%)

Query: 68  IEECYDEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLK-DKEKLYDE 126
           I +  ++V   ++K     R  +E E++L   ESKI  +   +++  G       K + +
Sbjct: 12  IRDLNEDVSAFQRKFVNEVRRCDEVERKLRKLESKIKKLGIPLKDTGGKPDVPPSKEFLD 71

Query: 127 VKNSLMLCETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLEQK 186
           ++  +      LE E KE+E    S+++   E +  EE L +L       + E   L++ 
Sbjct: 72  LEEEI----LDLEAEIKEVEENLESLEK---EINELEEWLNVL-------DEEKSFLDEN 117

Query: 187 LDSMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPA-------SKDKELRFVQQSIEEC 239
           L+ + +      D   L+  E  ++      +N++          +       Q  IEE 
Sbjct: 118 LEELSELSNLDIDFKYLRGAEGLKLGFVAGVINREKLEAFERELWRACRGYIRQAEIEEP 177

Query: 240 SKEIPGK--------KEELISKGKTIAECSKEVELKKNQLN-LIQDKSSLFQTRTIVYLK 290
            ++ P K         +E + K K I +          +      +  S    R     +
Sbjct: 178 LED-PKKTVFIIFFVGKEDLDKVKKILDSFGFELYDVPETEGERSELISKVNKRIEELQR 236

Query: 291 ELKEKETHFDSLKKGLEDRLQDLELKER-EFEKRVKEFELR---------------EKEL 334
            L++ E+H + +   + D L  L   E+   EK V E                    K+L
Sbjct: 237 VLEQTESHLEKVLVKIADEL--LAWDEQVSKEKAVYETLNLFNYDTKTLIAEGWVPAKDL 294

Query: 335 DSIRKAVED 343
           + ++ A+E+
Sbjct: 295 EKLKAALEN 303

This family consists of the 116kDa V-type ATPase (vacuolar (H+)-ATPases) subunits, as well as V-type ATP synthase subunit i. The V-type ATPases family are proton pumps that acidify intracellular compartments in eukaryotic cells for example yeast central vacuoles, clathrin-coated and synaptic vesicles. They have important roles in membrane trafficking processes. The 116kDa subunit (subunit a) in the V-type ATPase is part of the V0 functional domain responsible for proton transport. The a subunit is a transmembrane glycoprotein with multiple putative transmembrane helices it has a hydrophilic amino terminal and a hydrophobic carboxy terminal. It has roles in proton transport and assembly of the V-type ATPase complex. This subunit is encoded by two homologous gene in yeast VPH1 and STV1. Length = 707

>gnl|CDD|224495 COG1579, COG1579, Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]

 Score = 48.5 bits (116), Expect = 3e-06
 Identities = 31/133 (23%), Positives = 65/133 (48%), Gaps = 5/133 (3%)

Query: 135 ETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLEQKLDSMRKQQ 194
           E +++  +K L+  ++ ++ L+    + E +LE L+ +V   E+E++ + +++    ++ 
Sbjct: 23  EPRIKEIRKALKKAKAELEALNKALEALEIELEDLENQVSQLESEIQEIRERIKRAEEKL 82

Query: 195 KKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIPGKKEELISKG 254
               D+     REL  +   I+   +   S + EL  + + IE+  KEI   KE L    
Sbjct: 83  SAVKDE-----RELRALNIEIQIAKERINSLEDELAELMEEIEKLEKEIEDLKERLERLE 137

Query: 255 KTIAECSKEVELK 267
           K +AE    +E +
Sbjct: 138 KNLAEAEARLEEE 150

Length = 239

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

 Score = 49.7 bits (119), Expect = 4e-06
 Identities = 79/348 (22%), Positives = 157/348 (45%), Gaps = 45/348 (12%)

Query: 15  KRIGEFNCELELKENELNSLSVSLNLKNKPSSAQEWINKCQAYQKELRLWKNLIEECYDE 74
           +R+ E   +L+  E  L  L     L  +  + +E + + +     L   K  +E+  +E
Sbjct: 338 ERLEELKKKLKELEKRLEELEERHELYEEAKAKKEELERLKKRLTGLTPEK--LEKELEE 395

Query: 75  VELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEK-------LYDEV 127
           +E  ++++ E    I  +  +L   + +I  ++  IEE   L K K K       L +E 
Sbjct: 396 LEKAKEEIEEEISKITARIGEL---KKEIKELKKAIEE---LKKAKGKCPVCGRELTEEH 449

Query: 128 KNSLMLCET-KLECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHE--NEVESLE 184
           +  L+   T +L+  +KEL+  +   ++L  E    E+ L+     ++L E   +++ LE
Sbjct: 450 RKELLEEYTAELKRIEKELKEIEEKERKLRKELRELEKVLKKESELIKLKELAEQLKELE 509

Query: 185 QKLDSMRKQQ-KKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEI 243
           +KL     ++ +K  ++ E  K +L +++  I+ L ++   K +EL+     +E+   E+
Sbjct: 510 EKLKKYNLEELEKKAEEYEKLKEKLIKLKGEIKSLKKE-LEKLEELKKKLAELEKKLDEL 568

Query: 244 PGKKEELISKGKTIA-ECSKEVELKKNQLNLIQDKSSLFQTRTIVYLKELKEKETHFDSL 302
             +  EL+ + + +  E  +E+E +                     LKEL+     +  L
Sbjct: 569 EEELAELLKELEELGFESVEELEER---------------------LKELEPFYNEYLEL 607

Query: 303 K---KGLEDRLQDLELKEREFEKRVKEFELREKELDSIRKAVEDRSKN 347
           K   K LE   ++L+  E E +K  +E    EK L+ +RK +E+  K 
Sbjct: 608 KDAEKELEREEKELKKLEEELDKAFEELAETEKRLEELRKELEELEKK 655

Length = 880

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

 Score = 49.7 bits (119), Expect = 6e-06
 Identities = 53/239 (22%), Positives = 109/239 (45%), Gaps = 15/239 (6%)

Query: 125 DEVKNSLMLC-ETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESL 183
               NS +L    ++E  ++++E  +  I EL        ++LE L+ ++     E+E L
Sbjct: 665 SAKTNSSILERRREIEELEEKIEELEEKIAELEKALAELRKELEELEEELEQLRKELEEL 724

Query: 184 EQKLDSMRKQ-------QKKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSI 236
            +++ ++RK         ++  + +    +EL E+   IEEL +     ++EL   +  I
Sbjct: 725 SRQISALRKDLARLEAEVEQLEERIAQLSKELTELEAEIEELEERLEEAEEELAEAEAEI 784

Query: 237 EECSKEIPGKKEELISKGKTIAECSKEVEL-------KKNQLNLIQDKSSLFQTRTIVYL 289
           EE   +I   KEEL +  + + E   E+ L        + +L  ++ + +  + R     
Sbjct: 785 EELEAQIEQLKEELKALREALDELRAELTLLNEEAANLRERLESLERRIAATERRLEDLE 844

Query: 290 KELKEKETHFDSLKKGLEDRLQDLELKEREFEKRVKEFELREKELDSIRKAVEDRSKNL 348
           ++++E     +SL   +E+  + +E  E E E  + E    E+ L  +R  +E+ S+ L
Sbjct: 845 EQIEELSEDIESLAAEIEELEELIEELESELEALLNERASLEEALALLRSELEELSEEL 903

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|222878 PHA02562, 46, endonuclease subunit; Provisional

 Score = 48.5 bits (116), Expect = 8e-06
 Identities = 41/237 (17%), Positives = 90/237 (37%), Gaps = 42/237 (17%)

Query: 81  KVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGL----LKDKEKLYDE-------VKN 129
           K+ E  + I+  + ++   + +I +    IEE        +  K+  YDE       +K 
Sbjct: 175 KIRELNQQIQTLDMKIDHIQQQIKTYNKNIEEQRKKNGENIARKQNKYDELVEEAKTIKA 234

Query: 130 SLMLCETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHE------------ 177
            +     +L     ++E   +++ +L+      + K+E  Q  ++++E            
Sbjct: 235 EIEELTDELLNLVMDIEDPSAALNKLNTAAAKIKSKIEQFQKVIKMYEKGGVCPTCTQQI 294

Query: 178 ----NEVESLEQKLDSMRKQQKKYFDDV-ELKKRE---------LNEIRKYIEELNQDPA 223
               + +  ++ KL  ++   +K    + EL++           L E++  I    Q   
Sbjct: 295 SEGPDRITKIKDKLKELQHSLEKLDTAIDELEEIMDEFNEQSKKLLELKNKISTNKQSLI 354

Query: 224 SKDKELRFVQQSIEECSKEIPGKKEELI----SKGKTIAECSKEVELKKNQLNLIQD 276
           +   + + V+ +IEE   E     EEL        K +   S E+  +K    ++ D
Sbjct: 355 TLVDKAKKVKAAIEELQAEFVDNAEELAKLQDELDKIVKTKS-ELVKEKYHRGIVTD 410

Length = 562

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

 Score = 48.9 bits (117), Expect = 9e-06
 Identities = 62/292 (21%), Positives = 119/292 (40%), Gaps = 25/292 (8%)

Query: 68  IEECYDEVELREKKVGEAQRSIEEQEKQLA------FKESKISSMQTLIEENEG--LLKD 119
            E+  +E+E  E+ +      I+E+ +QL        K  +  ++     E EG  LLK+
Sbjct: 172 KEKALEELEEVEENIERLDLIIDEKRQQLERLRREREKAERYQALLKEKREYEGYELLKE 231

Query: 120 KEKLYDEVKNSLMLCETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVR-LHEN 178
           KE L  + +      E +L   ++ELE     I EL       E+ LE L  K++ L E 
Sbjct: 232 KEALERQKEA----IERQLASLEEELEKLTEEISELEKRLEEIEQLLEELNKKIKDLGEE 287

Query: 179 EVESLEQKLDSMRKQQKKYFDDVELKKREL----NEIRKYIEELNQDPASKDKELRFVQQ 234
           E   +++K+  +  +       +  K+REL      + K   E++        E+  +++
Sbjct: 288 EQLRVKEKIGELEAEIASLERSIAEKERELEDAEERLAKLEAEID----KLLAEIEELER 343

Query: 235 SIEECSKEIPGKKEELISKGKTIAECSKEVELKKNQLNLIQDKSSLFQTRTIVYLKELKE 294
            IEE  K      EE     + + +   E+E    +    +D+   ++ +    L++LK 
Sbjct: 344 EIEEERKRRDKLTEEYAELKEELEDLRAELEEVDKEFAETRDELKDYREK----LEKLKR 399

Query: 295 KETHFDSLKKGLEDRLQDLELKEREFEKRVKEFELREKELDSIRKAVEDRSK 346
           +          L++ LQ L  +  +    +   E +  EL+  ++      K
Sbjct: 400 EINELKRELDRLQEELQRLSEELADLNAAIAGIEAKINELEEEKEDKALEIK 451

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|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain

 Score = 47.7 bits (113), Expect = 2e-05
 Identities = 64/296 (21%), Positives = 112/296 (37%), Gaps = 17/296 (5%)

Query: 55  QAYQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENE 114
              Q+ LR  +  IE    E+E  E+ + +  +  +E+EK+   +E ++  +    EE +
Sbjct: 241 DLLQELLRDEQEEIESSKQELEKEEEILAQVLKENKEEEKEKKLQEEELKLLAKEEEELK 300

Query: 115 GLLKDKEKLYDEVKNSLMLCETKLECEKKELELTQSSIKELSME----------FHSEEE 164
             L   E+   + +  L   E +L+  +KEL+  +  I+EL  E             EEE
Sbjct: 301 SELLKLERRKVDDEEKLKESEKELKKLEKELKKEKEEIEELEKELKELEIKREAEEEEEE 360

Query: 165 KLELLQGKVRLHENEVESLEQKLDSMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPAS 224
           +LE LQ K+   E E+ + ++          K     E +    NE  K  + L +    
Sbjct: 361 QLEKLQEKLEQLEEELLAKKKLESERLSSAAK---LKEEELELKNEEEKEAKLLLELSEQ 417

Query: 225 KDKELRFVQQSIEECSKEIPGKKEELISKGKTIAECSKEVELKKNQLNLIQDKSSLFQTR 284
           ++  L+  ++   +  +E+    E    K     E  ++  LK  +  L   KS      
Sbjct: 418 EEDLLKEEKKEELKIVEELEESLETKQGKLTEEKEELEKQALKLLKDKLELKKSEDLLKE 477

Query: 285 TIVYLKELKEKETHFDSLKKGLEDRLQDLELKEREFEKRVKEFELREKELDSIRKA 340
           T    K +K  E     L +   +     E K RE    +         L  I  A
Sbjct: 478 T----KLVKLLEQLELLLLRQKLEEASQKESKAREGLAVLLALIKDGVGLRIISAA 529

This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination. Length = 1162

>gnl|CDD|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain

 Score = 47.3 bits (112), Expect = 3e-05
 Identities = 58/355 (16%), Positives = 126/355 (35%), Gaps = 21/355 (5%)

Query: 17  IGEFNCELELKENELNSLSVSLNLKNKPSSAQEWINKCQAYQKELRLWKNLIEECYDEVE 76
                 + + KE     +  + NL       +E         K     K  +E    + +
Sbjct: 163 AAGSREKRKKKERLKKLIEETENLAELIIDLEELKL---QELKLKEQAKKALEYYQLKEK 219

Query: 77  LREKKVGEAQRSIE-EQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLMLCE 135
           L  ++            E+++   +  +   Q  IE ++  L+ +E++  +V       E
Sbjct: 220 LELEEENLLYLDYLKLNEERIDLLQELLRDEQEEIESSKQELEKEEEILAQVLKENKEEE 279

Query: 136 TKLECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLEQKLDSMRKQQK 195
            + + +++EL+L     +EL  E    E +    + K++  E E+          +K +K
Sbjct: 280 KEKKLQEEELKLLAKEEEELKSELLKLERRKVDDEEKLKESEKEL----------KKLEK 329

Query: 196 KY----FDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIE---ECSKEIPGKKE 248
           +      +  EL+K       K   E  ++   +  + +  Q   E   +   E      
Sbjct: 330 ELKKEKEEIEELEKELKELEIKREAEEEEEEQLEKLQEKLEQLEEELLAKKKLESERLSS 389

Query: 249 ELISKGKTIAECSKEVELKKNQLNLIQDKSSLFQTRTIVYLKELKEKETHFDSLKKGLED 308
               K + +   ++E +  K  L L + +  L +      LK ++E E   ++ +  L +
Sbjct: 390 AAKLKEEELELKNEEEKEAKLLLELSEQEEDLLKEEKKEELKIVEELEESLETKQGKLTE 449

Query: 309 RLQDLELKEREFEKRVKEFELREKELDSIRKAVEDRSKNLLLQVKIKDPENLTSS 363
             ++LE +  +  K   E +  E  L   +         LLL  +  +  +   S
Sbjct: 450 EKEELEKQALKLLKDKLELKKSEDLLKETKLVKLLEQLELLLLRQKLEEASQKES 504

This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination. Length = 1162

>gnl|CDD|221952 pfam13166, AAA_13, AAA domain

 Score = 46.9 bits (112), Expect = 3e-05
 Identities = 36/197 (18%), Positives = 83/197 (42%), Gaps = 27/197 (13%)

Query: 73  DEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKL---YDEVKN 129
           +E +   +++ E     E   ++      ++ S+    +EN     D E+L    + ++ 
Sbjct: 278 EEYQELIEQLEELIDKYESHIEKAL---EELESILDTEKENSEFKLDVEELKALLEALEE 334

Query: 130 SLMLCETKLECEKKEL--ELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLEQKL 187
            L     KLE + K+    +   SI +L    +   + +  L   +R H  ++++L+++ 
Sbjct: 335 ILEKNLQKLEEKLKDPSTSIELESITDLIESINDIIDAINEL---IREHNEKIDNLKKEK 391

Query: 188 DSMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIPGKK 247
           +  +K+   +                 + EL +D  +  KE + ++++I    KEI   +
Sbjct: 392 NKAKKKLWLH----------------LVAELKEDIDAYQKEKKGLEKAINSLEKEIKQLE 435

Query: 248 EELISKGKTIAECSKEV 264
            E+ +  K I E  K++
Sbjct: 436 AEIKALEKEIKELEKQL 452

This family of domains contain a P-loop motif that is characteristic of the AAA superfamily. Many of the proteins in this family are conjugative transfer proteins. This family includes the PrrC protein that is thought to be the active component of the anticodon nuclease. Length = 713

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

 Score = 45.8 bits (109), Expect = 7e-05
 Identities = 37/211 (17%), Positives = 99/211 (46%), Gaps = 5/211 (2%)

Query: 141 EKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLEQKLDSMRKQQKKYFDD 200
           E  EL+  +  ++ L  E  S + +L  ++ ++     E+    +K+  + K+ ++   +
Sbjct: 672 EPAELQRLRERLEGLKRELSSLQSELRRIENRLDELSQELSDASRKIGEIEKEIEQLEQE 731

Query: 201 VELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIPGKKEELISKGKTIAEC 260
            E  K  L E+ + +  L Q+  +   EL+ ++  IEE  +++   +E L      ++  
Sbjct: 732 EEKLKERLEELEEDLSSLEQEIENVKSELKELEARIEELEEDLHKLEEALNDLEARLSH- 790

Query: 261 SKEVELKKNQLNLIQDKSSLFQTRTI---VYLKELKEKETHFDSLKKGLEDRLQDLELKE 317
              +   + +L+ ++++ S  + R       L  L  ++ + +   + L+++  DL+ + 
Sbjct: 791 -SRIPEIQAELSKLEEEVSRIEARLREIEQKLNRLTLEKEYLEKEIQELQEQRIDLKEQI 849

Query: 318 REFEKRVKEFELREKELDSIRKAVEDRSKNL 348
           +  EK ++    +++EL+   + +E   ++L
Sbjct: 850 KSIEKEIENLNGKKEELEEELEELEAALRDL 880

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|227512 COG5185, HEC1, Protein involved in chromosome segregation, interacts with SMC proteins [Cell division and chromosome partitioning]

 Score = 45.7 bits (108), Expect = 7e-05
 Identities = 64/353 (18%), Positives = 133/353 (37%), Gaps = 46/353 (13%)

Query: 83  GEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLMLCETKLECEK 142
            E      EQE +L F++     +  +  +   L    + LY++++ ++ + +      +
Sbjct: 247 LEDNYEPSEQELKLGFEKF----VHIINTDIANLKTQNDNLYEKIQEAMKISQKIKTLRE 302

Query: 143 KELELT------QSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLEQKLDSMRKQQKK 196
           K   L       ++ +  +  +      KLE L+ ++ L E E+++L+  +D + KQ +K
Sbjct: 303 KWRALKSDSNKYENYVNAMKQKSQEWPGKLEKLKSEIELKEEEIKALQSNIDELHKQLRK 362

Query: 197 Y---FDDVELKK-------RELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIPGK 246
                +  EL         REL++I    ++L +   S+  E + + +S+E+  ++    
Sbjct: 363 QGISTEQFELMNQEREKLTRELDKINIQSDKLTKSVKSRKLEAQGIFKSLEKTLRQYDSL 422

Query: 247 KEELISKGKTIAECSKEVELKKNQ-----------------LNLIQDKSSLF----QTRT 285
            + +      I     +  LK N                  +  + D+        + ++
Sbjct: 423 IQNITRSRSQIGHNVNDSSLKINIEQLFPKGSGINESIKKSILELNDEIQERIKTEENKS 482

Query: 286 IVYLKELKEKE---THFDSLKKGLEDRLQDLELKEREFEKRVKEFELREKELDSIRKAVE 342
           I   +++K  +        + + LE  L +    + E  K   E EL  + ++  +   E
Sbjct: 483 ITLEEDIKNLKHDINELTQILEKLELELSEA-NSKFELSKEENERELVAQRIEIEKLEKE 541

Query: 343 DRSKNLLLQVKIKDPENLTSSGRY-LQFLLNQHLQKHDSIFCKVFDTIKSARD 394
               NLL +  I D E L  S    L  L     +K   I  +V   I     
Sbjct: 542 LNDLNLLSKTSILDAEQLVQSTEIKLDELKVDLNRKRYKIHKQVIHVIDITSK 594

Length = 622

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

 Score = 45.5 bits (108), Expect = 9e-05
 Identities = 45/208 (21%), Positives = 97/208 (46%), Gaps = 5/208 (2%)

Query: 12  LGQKRIGEFNCELELKENELNSLSVSLNLKNKPSSAQEWINKCQA-YQKELRLWKNLIEE 70
           L  +++ E   +LE +  EL  L   L L        E + +     +K+L+  +  + +
Sbjct: 552 LQLQQLKEELRQLEDRLQELKELLEELRLLRTRKEELEELRERLKELKKKLKELEERLSQ 611

Query: 71  CYDEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNS 130
              E  L+  ++ EA+  +EE E++L  +  K++    L E  +  L++ E+  +E++  
Sbjct: 612 L--EELLQSLELSEAENELEEAEEELESELEKLNLQAELEELLQAALEELEEKVEELEAE 669

Query: 131 LMLCETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLEQKLDSM 190
           +     ++E E++  E     +++L  E     E+LE L  K+   E  +E LE +   +
Sbjct: 670 IRRELQRIENEEQLEEK-LEELEQLEEELEQLREELEELLKKLGEIEQLIEELESRKAEL 728

Query: 191 RKQQKKYFDDVELKKRELNEIRKYIEEL 218
            + +K+  + +E     L E+R+ + + 
Sbjct: 729 EELKKEL-EKLEKALELLEELREKLGKA 755

Length = 908

>gnl|CDD|221952 pfam13166, AAA_13, AAA domain

 Score = 44.2 bits (105), Expect = 2e-04
 Identities = 53/214 (24%), Positives = 93/214 (43%), Gaps = 21/214 (9%)

Query: 146 ELTQSSIKEL----SMEFHSEEEKLELLQGKVRLH-ENEVESLEQKLDSMRKQQKKYFDD 200
            +T+    EL      E+    E+LE L  K   H E  +E LE  +    K+  ++  D
Sbjct: 263 TITEERKAELEAHFDEEYQELIEQLEELIDKYESHIEKALEELE-SILDTEKENSEFKLD 321

Query: 201 VELKKRELNEIRKYIEELNQDPASKDKEL--RFVQQSIEECSKEIPGKKEELISKGKTIA 258
           VE  K  L  + + +E+  Q    K K+       +SI +  + I    + + +  + I 
Sbjct: 322 VEELKALLEALEEILEKNLQKLEEKLKDPSTSIELESITDLIESI---NDIIDAINELIR 378

Query: 259 ECSKEVELKKNQLNLIQDKSSLFQTRTIVYLKELKEKETHFDSLKKGLEDRLQDLELKER 318
           E +++++  K + N  + K  L        + ELKE    +   KKGLE  +  LE + +
Sbjct: 379 EHNEKIDNLKKEKNKAKKKLWLH------LVAELKEDIDAYQKEKKGLEKAINSLEKEIK 432

Query: 319 EFEKRVKEFELR----EKELDSIRKAVEDRSKNL 348
           + E  +K  E      EK+L +I    ++ +K L
Sbjct: 433 QLEAEIKALEKEIKELEKQLTNIEPTADEINKLL 466

This family of domains contain a P-loop motif that is characteristic of the AAA superfamily. Many of the proteins in this family are conjugative transfer proteins. This family includes the PrrC protein that is thought to be the active component of the anticodon nuclease. Length = 713

>gnl|CDD|129694 TIGR00606, rad50, rad50

 Score = 44.7 bits (105), Expect = 2e-04
 Identities = 49/268 (18%), Positives = 103/268 (38%), Gaps = 25/268 (9%)

Query: 79  EKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLMLCETKL 138
           + K+  A   ++  E +L  KE +   M  L    + ++  KEK   E++N L      +
Sbjct: 701 QSKLRLAPDKLKSTESELKKKEKRRDEMLGLAPGRQSIIDLKEKEIPELRNKLQKVNRDI 760

Query: 139 ECEKKELELTQSSIKELSMEFHSEEEKL------ELLQGKVRLHENEVESLEQKLDSM-- 190
           +  K ++E  ++ +  +  E  S +  L      E  Q +++  E ++     KL     
Sbjct: 761 QRLKNDIEEQETLLGTIMPEEESAKVCLTDVTIMERFQMELKDVERKIAQQAAKLQGSDL 820

Query: 191 -----RKQQKKYFDDVELKK--RELNEIRKYIEELN---QDPASKDKELRFVQQSIEECS 240
                +  Q+K     EL     ++   RK I++     Q   SK  EL+  +  I    
Sbjct: 821 DRTVQQVNQEKQEKQHELDTVVSKIELNRKLIQDQQEQIQHLKSKTNELKSEKLQIGTNL 880

Query: 241 KEIPGKKEELISKGKTIAECSKEVELKKNQLNLIQDKSSLFQTRTIVYLKELKEKETHFD 300
           +     +E+L+     +    +E++  K Q + ++      Q      +   +       
Sbjct: 881 QRRQQFEEQLVELSTEVQSLIREIKDAKEQDSPLETFLEKDQQEKEELISSKETS----- 935

Query: 301 SLKKGLEDRLQDLELKEREFEKRVKEFE 328
              K  +D++ D++ K +     +K+ E
Sbjct: 936 --NKKAQDKVNDIKEKVKNIHGYMKDIE 961

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|114219 pfam05483, SCP-1, Synaptonemal complex protein 1 (SCP-1)

 Score = 43.9 bits (103), Expect = 3e-04
 Identities = 61/263 (23%), Positives = 122/263 (46%), Gaps = 21/263 (7%)

Query: 86  QRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLMLCETKLECEKKEL 145
           Q+ +E+ E QL     ++    + +EE      +KE   +E+K  L   E  L+ EKK+ 
Sbjct: 369 QQRLEKNEDQLKIITMELQKKSSELEEMTKFKNNKEVELEELKKILAEDEKLLD-EKKQF 427

Query: 146 ELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLEQKLDSMRKQQKKYFDDVELKK 205
           E     +K        E+E + LLQ +    E E+  LE +L +++  ++ Y  +VE  K
Sbjct: 428 EKIAEELK------GKEQELIFLLQAR----EKEIHDLEIQLTAIKTSEEHYLKEVEDLK 477

Query: 206 RELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIPGKKEELISKGKTIAECSKEVE 265
            EL + +    EL         E + + Q   + + E+   +E++I+       C K+ E
Sbjct: 478 TELEKEKLKNIELTAHCDKLLLENKELTQEASDMTLELKKHQEDIIN-------CKKQEE 530

Query: 266 LKKNQLNLIQDKSSLFQTRTIVYLKELKEKETHFDSLKKGLEDRLQDLELKEREFEKRVK 325
               Q+  +++K    +       +E  +K    D +K  L+   ++    E E  K+ K
Sbjct: 531 RMLKQIENLEEKEMNLRDELESVREEFIQKG---DEVKCKLDKSEENARSIEYEVLKKEK 587

Query: 326 EFELREKELDSIRKAVEDRSKNL 348
           + ++ E + ++++K +E+++KN+
Sbjct: 588 QMKILENKCNNLKKQIENKNKNI 610

Synaptonemal complex protein 1 (SCP-1) is the major component of the transverse filaments of the synaptonemal complex. Synaptonemal complexes are structures that are formed between homologous chromosomes during meiotic prophase. Length = 787

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

 Score = 43.1 bits (102), Expect = 5e-04
 Identities = 29/155 (18%), Positives = 70/155 (45%), Gaps = 15/155 (9%)

Query: 205 KRELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIPGKKEELISKGKTIAECSKEV 264
            +E+    + +E+  +   + ++ ++  ++ +EE  +EI     EL    + + +  KEV
Sbjct: 171 IKEIKRRIERLEKFIKRTENIEELIKEKEKELEEVLREINEISSELPELREELEKLEKEV 230

Query: 265 ELKKNQLNLIQDKSSLFQTRTIVYLKELKEKETHFDSLKKGLEDRLQDLELKEREFEKRV 324
           +  +     I+               EL+++    +  K+ LE+++++LE +  E +K +
Sbjct: 231 KELEELKEEIE---------------ELEKELESLEGSKRKLEEKIRELEERIEELKKEI 275

Query: 325 KEFELREKELDSIRKAVEDRSKNLLLQVKIKDPEN 359
           +E E + KEL  +++  E+  K      +  D   
Sbjct: 276 EELEEKVKELKELKEKAEEYIKLSEFYEEYLDELR 310

Length = 880

>gnl|CDD|221952 pfam13166, AAA_13, AAA domain

 Score = 42.7 bits (101), Expect = 6e-04
 Identities = 66/316 (20%), Positives = 132/316 (41%), Gaps = 42/316 (13%)

Query: 84  EAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLMLCETKLECEKK 143
           E +  IEE +K+L   E KI  ++  IE+ E   ++ EK  ++  +       K      
Sbjct: 92  EIEAQIEELKKELKKLEEKIEQLEAEIEKKE---EELEKAKNKFLDKAWKKLAKKYDSNL 148

Query: 144 ELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLEQKLDSMRKQQ-------KK 196
              L   + K+   E   +E K  +L     L   E+++  + L S  K +         
Sbjct: 149 SEALKGLNYKKNFKEKLLKELKSVILNASSLLSLEELKAKIKTLFSSNKPELALLTLSVI 208

Query: 197 YFDDVE----LKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIPGKKEELIS 252
            FD++E    L+K  +      I EL  +  + D    +V++ +            E   
Sbjct: 209 DFDEIEQAEILEKSIIGSSDVPISELINNLGNSD----WVKEGL------------EYHE 252

Query: 253 KGKTIAECSKEV-ELKKNQLN-LIQDKSSLFQTRTIVYLKELKEK-ETHFDSLKKGLEDR 309
           +G T   C + + E +K +L     ++      +    L+EL +K E+H +   + LE  
Sbjct: 253 EGDTCPFCQQTITEERKAELEAHFDEEYQELIEQ----LEELIDKYESHIEKALEELESI 308

Query: 310 LQDLELKEREFEKRVKEFELR----EKELDSIRKAVEDRSKNLLLQVKIKDPENLTSSGR 365
           L D E +  EF+  V+E +      E+ L+   + +E++ K+    ++++   +L  S  
Sbjct: 309 L-DTEKENSEFKLDVEELKALLEALEEILEKNLQKLEEKLKDPSTSIELESITDLIESIN 367

Query: 366 YLQFLLNQHLQKHDSI 381
            +   +N+ +++H+  
Sbjct: 368 DIIDAINELIREHNEK 383

This family of domains contain a P-loop motif that is characteristic of the AAA superfamily. Many of the proteins in this family are conjugative transfer proteins. This family includes the PrrC protein that is thought to be the active component of the anticodon nuclease. Length = 713

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

 Score = 42.1 bits (100), Expect = 9e-04
 Identities = 27/95 (28%), Positives = 49/95 (51%), Gaps = 4/95 (4%)

Query: 255 KTIAECSKEVE-LKKNQLNLIQDKSSLFQTRTIVYLKELKEKETHFDSLKKGLEDRLQDL 313
           + + E  KE E +KK  L   +++          + KEL+E+      L+K L  + ++L
Sbjct: 42  RILEEAKKEAEAIKKEALLEAKEE---IHKLRNEFEKELRERRNELQKLEKRLLQKEENL 98

Query: 314 ELKEREFEKRVKEFELREKELDSIRKAVEDRSKNL 348
           + K    EKR +E E +EKEL+  ++ +E + + L
Sbjct: 99  DRKLELLEKREEELEKKEKELEQKQQELEKKEEEL 133

Length = 520

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

 Score = 42.4 bits (100), Expect = 9e-04
 Identities = 49/298 (16%), Positives = 109/298 (36%), Gaps = 40/298 (13%)

Query: 27   KENELNSLSVSLNLKNKPSSAQEWINKCQAYQKELRLWKNL------IEECYDEVELREK 80
                +  L  ++  + K    +E     +A     +  ++L           + + L+  
Sbjct: 815  YLACIIKLQKTIKREKKLRETEEVEFSLKAEVLIQKFGRSLKAKKRFSLLKKETIYLQSA 874

Query: 81   -KVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLMLCE--TK 137
             +V  A+R +  QE ++  K      +  L  E+E +   K    D ++N     E   +
Sbjct: 875  QRVELAERQL--QELKIDVKSISSLKLVNLELESEIIELKKSLSSDLIENLEFKTELIAR 932

Query: 138  LECEKKELEL-------------------TQSSIKELSMEFHSEEEKLELLQGKVRLHEN 178
            L+     ++L                    +S +KE S E+    +K  +L  +     +
Sbjct: 933  LKKLLNNIDLEEGPSIEYVKLPELNKLHEVESKLKETSEEYEDLLKKSTILVREGNKANS 992

Query: 179  EVESLEQKLDSMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEE 238
            E+++ +++L  + KQ       ++   ++L E+   + EL         E   +      
Sbjct: 993  ELKNFKKELAELSKQY----GALQESTKQLKELPVEVAELQSASKIISSESTELSI---- 1044

Query: 239  CSKEIPGKKEELISKGKTIAECSKEVELKKNQLNLIQDKSSLFQTRTIVYLKELKEKE 296
              K +   K  L+ +   +    K ++L++ + +L+ DK       T   LK +  K+
Sbjct: 1045 -LKPLQKLKGLLLLENNQLQARYKALKLRR-ENSLLDDKQLYQLESTENLLKTINVKD 1100

Length = 1463

>gnl|CDD|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain

 Score = 41.1 bits (96), Expect = 0.002
 Identities = 49/260 (18%), Positives = 113/260 (43%), Gaps = 1/260 (0%)

Query: 19   EFNCELELKENELNSLSVSLNLKNKPSSAQEWINKCQAYQKELRLWKNLIEECYDEVELR 78
                +++ KE E     +    + +  S      K  A ++E      + EE  ++++ +
Sbjct: 741  LLEQKIKEKEEEEEKSRLKKEEEEEEKSELSLKEKELAEEEEKTEKLKVEEEKEEKLKAQ 800

Query: 79   EKKVGEAQRSIEEQEKQLAFKESKISSMQ-TLIEENEGLLKDKEKLYDEVKNSLMLCETK 137
            E+++   +  ++E+ + L  ++  I   +    EE E L  + ++     K +    E  
Sbjct: 801  EEELRALEEELKEEAELLEEEQLLIEQEEKIKEEELEELALELKEEQKLEKLAEEELERL 860

Query: 138  LECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLEQKLDSMRKQQKKY 197
             E   KE  L +  +KE  +E    +++LE  + K +  + E+E   QK + + +++ + 
Sbjct: 861  EEEITKEELLQELLLKEEELEEQKLKDELESKEEKEKEEKKELEEESQKDNLLEEKENEI 920

Query: 198  FDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIPGKKEELISKGKTI 257
             + +  +   L +     EEL  + A + ++    ++  EE +K +   KEEL +     
Sbjct: 921  EERIAEEAIILLKYESEPEELLLEEADEKEKEEDNKEEEEERNKRLLLAKEELGNVNLMA 980

Query: 258  AECSKEVELKKNQLNLIQDK 277
                +E E + N+  L +++
Sbjct: 981  IAEFEEKEERYNKDELKKER 1000

This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination. Length = 1162

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

 Score = 41.4 bits (97), Expect = 0.002
 Identities = 45/224 (20%), Positives = 84/224 (37%), Gaps = 34/224 (15%)

Query: 79  EKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVK------NSLM 132
           E+K+  +   +E  +KQ+A  E   S     IE       +    Y+ +K      +SL 
Sbjct: 189 EEKLKSSNLELENIKKQIADDEKSHSITLKEIERLSIEYNNAMDDYNNLKSALNELSSLE 248

Query: 133 LCETKLECEKKELELTQSSIKELSMEFHSEEEKL-ELLQGKVRLHENEV----------E 181
             + + E E K  E   S   E +  +   EE+  +++   V  + N +          E
Sbjct: 249 DMKNRYESEIKTAESDLSMELEKNNYYKELEERHMKIINDPVYKNRNYINDYFKYKNDIE 308

Query: 182 SLEQKLDSMRKQQKKY-------------FDDVELKKRELNEIRKYIEELNQDPASKDKE 228
           + +Q L ++  +  KY             ++D   KK   +++   I EL       +  
Sbjct: 309 NKKQILSNIDAEINKYHAIIKKLSVLQKDYNDYIKKKSRYDDLNNQILELEGYEMDYNSY 368

Query: 229 LRFVQQSIEECSKEIPGKKEELISKGKTIAECSKEVELKKNQLN 272
           L+    SIE   K+I    + +      I+E  K  E+  + + 
Sbjct: 369 LK----SIESLKKKIEEYSKNIERMSAFISEILKIQEIDPDAIK 408

Length = 895

>gnl|CDD|179385 PRK02224, PRK02224, chromosome segregation protein; Provisional

 Score = 41.2 bits (97), Expect = 0.002
 Identities = 58/342 (16%), Positives = 128/342 (37%), Gaps = 72/342 (21%)

Query: 68  IEECYDEVELREKKVGEAQRSIEEQEKQLAFKE---------------------SKISSM 106
           +EE  + VE R +++ E +  IEE  ++                           + + +
Sbjct: 372 LEEAREAVEDRREEIEELEEEIEELRERFGDAPVDLGNAEDFLEELREERDELREREAEL 431

Query: 107 QTLIEENEGLLKDKEKLYDE---------VKNSLMLCET--------KLECEKKELELTQ 149
           +  +      +++ E L +          V+ S  +           +LE E ++LE   
Sbjct: 432 EATLRTARERVEEAEALLEAGKCPECGQPVEGSPHVETIEEDRERVEELEAELEDLEEEV 491

Query: 150 SSI----------KELSMEFHSEEEKLELLQGKVRLHENEVESLEQKLDSMRKQQKKYFD 199
             +           E        EE+ E L+  +      +E   ++ + +R++  +   
Sbjct: 492 EEVEERLERAEDLVEAEDRIERLEERREDLEELIAERRETIEEKRERAEELRERAAELEA 551

Query: 200 DVELKKRELNEIRKYIEE-------LNQDPASKDKE------LRFVQQSIEECSKEIPGK 246
           + E K+    E  +  EE       LN   A   +       +R +  +I +   EI   
Sbjct: 552 EAEEKREAAAEAEEEAEEAREEVAELNSKLAELKERIESLERIRTLLAAIADAEDEI--- 608

Query: 247 KEELISKGKTIAECSKEVELKKNQLNLIQD-KSSLFQTRTIVYLKELKEKETHFDSLKKG 305
            E L  K + +AE + E   ++ +L   ++ K  L        ++E +E +   +   + 
Sbjct: 609 -ERLREKREALAELNDE---RRERLAEKRERKRELEAEFDEARIEEAREDKERAEEYLEQ 664

Query: 306 LEDRLQDLELKEREFEKRVKEFELREKELDSIR---KAVEDR 344
           +E++L +L  +  + +  +   E   +EL+ +R   +A+E+R
Sbjct: 665 VEEKLDELREERDDLQAEIGAVENELEELEELRERREALENR 706

Length = 880

>gnl|CDD|218681 pfam05667, DUF812, Protein of unknown function (DUF812)

 Score = 40.5 bits (95), Expect = 0.002
 Identities = 32/176 (18%), Positives = 77/176 (43%), Gaps = 15/176 (8%)

Query: 73  DEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLM 132
           D  + RE ++   Q  I+E E  +    S+I ++ + I++    L    +  +E++    
Sbjct: 263 DRTKEREAELEALQEQIDELESSIEEVLSEIKALASKIKQVNEELTTVRQENEELEEEYK 322

Query: 133 LCETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHE----NEVESLEQKLD 188
           + +  +E     L   ++++ +L     +  E+L  L  +   H     +E  SL++K  
Sbjct: 323 IKKRTVEL----LPDAENNVAKLQALVVASSERLLELAQQWEAHRTPLIDEYRSLKEKNR 378

Query: 189 SMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIP 244
           +   + ++  D+++       ++R  IEEL  +  +K++  + +    E   K + 
Sbjct: 379 NKEDETQRQLDEIK-------KLRNKIEELESELQTKEQLYKQLLDEYENAPKSVS 427

This family consists of several eukaryotic proteins of unknown function. Length = 536

>gnl|CDD|185746 cd08915, V_Alix_like, Protein-interacting V-domain of mammalian Alix and related domains

 Score = 40.4 bits (95), Expect = 0.003
 Identities = 59/338 (17%), Positives = 127/338 (37%), Gaps = 52/338 (15%)

Query: 20  FNCELELKENELNSLSVSLNLK------NKPSSAQEWINKCQAY--QKELRLWKNLIEEC 71
               +E     LNS     NL        KP +  + I   Q    +  L   +   +E 
Sbjct: 23  IVEPIEALNKLLNSFLAERNLPASIDDLQKPENLPDSIQHSQEIIEEGGLDNIEQSFKEL 82

Query: 72  YDEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKD-KEKL------Y 124
               +  E+ + E +  +EE+  +     +K  +++     ++   K+  EK+       
Sbjct: 83  SKLRQNVEELLQECEELLEEEAAEDDQLRAKFGTLRWRRPSSDEAAKELYEKVTKLRGYL 142

Query: 125 DEVKNSLMLCETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLE 184
           ++  NS        E     L L     KEL     S    L+    +V    + +  L 
Sbjct: 143 EQASNSDNEVLQCYESIDPNLVLLCGGYKELKAFIPSPYPALD---PEVSEVVSSLRPLL 199

Query: 185 QKLDSMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPASK------------DKELRFV 232
            ++  + K+++++  ++E+K R  + + K I E  ++  ++            DK+L +V
Sbjct: 200 NEVSELEKERERFISELEIKSRNNDILPKLITEYKKNGTTEFEDLFEEHLKKFDKDLTYV 259

Query: 233 QQSIEECSKEIPGKKEELISKGKTIAECSKEVELKKNQLNLIQDKSSLFQTRTIVYLKEL 292
           +++ +        K+ ELI          KE++    + + +++ +     R    L++L
Sbjct: 260 EKTKK--------KQIELI----------KEIDAANQEFSQVKNSNDSLDPREE-ALQDL 300

Query: 293 KEKETHFDSLKKGLEDRL---QDLELKEREFEKRVKEF 327
           +     +  LK+ L +      DL  K     +  ++F
Sbjct: 301 EASYKKYLELKENLNEGSKFYNDLIEKVNRLLEECEDF 338

This superfamily contains the V-shaped (V) domain of mammalian Alix (apoptosis-linked gene-2 interacting protein X), His-Domain type N23 protein tyrosine phosphatase (HD-PTP, also known as PTPN23), Bro1 and Rim20 (also known as PalA) from Saccharomyces cerevisiae, and related domains. Alix, HD-PTP, Bro1, and Rim20 all interact with the ESCRT (Endosomal Sorting Complexes Required for Transport) system. Alix, also known as apoptosis-linked gene-2 interacting protein 1 (AIP1), participates in membrane remodeling processes during the budding of enveloped viruses, vesicle budding inside late endosomal multivesicular bodies (MVBs), and the abscission reactions of mammalian cell division. It also functions in apoptosis. HD-PTP functions in cell migration and endosomal trafficking, Bro1 in endosomal trafficking, and Rim20 in the response to the external pH via the Rim101 pathway. The Alix V-domain contains a binding site, partially conserved in this superfamily, for the retroviral late assembly (L) domain YPXnL motif. The Alix V-domain is also a dimerization domain. Members of this superfamily have an N-terminal Bro1-like domain, which binds components of the ESCRT-III complex. The Bro1-like domains of Alix and HD-PTP can also bind human immunodeficiency virus type 1 (HIV-1) nucleocapsid. Many members, including Alix, HD-PTP, and Bro1, also have a proline-rich region (PRR), which binds multiple partners in Alix, including Tsg101 (tumor susceptibility gene 101, a component of ESCRT-1) and the apoptotic protein ALG-2. The C-terminal portion (V-domain and PRR) of Bro1 interacts with Doa4, a ubiquitin thiolesterase needed to remove ubiquitin from MVB cargoes; it interacts with a YPxL motif in Doa4s catalytic domain to stimulate its deubiquitination activity. Rim20 may bind the ESCRT-III subunit Snf7, bringing the protease Rim13 (a YPxL-containing transcription factor) into proximity with Rim101, and promoting the proteolytic activation of Rim101. HD-PTP is encoded by the PTPN23 gene, a tumor suppressor gene candidate often absent in human kidney, breast, lung, and cervical tumors. HD-PTP has a C-terminal catalytically inactive tyrosine phosphatase domain. Length = 342

>gnl|CDD|224495 COG1579, COG1579, Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]

 Score = 39.3 bits (92), Expect = 0.004
 Identities = 32/152 (21%), Positives = 69/152 (45%), Gaps = 5/152 (3%)

Query: 102 KISSMQTLIEENEGLLKDKEKLYDEVKNSLMLCETKLECEKKELELTQSSIKELSMEFHS 161
           +   ++  I+E    LK  +   + +  +L   E +LE  + ++   +S I+E+      
Sbjct: 18  EKDRLEPRIKEIRKALKKAKAELEALNKALEALEIELEDLENQVSQLESEIQEIR----E 73

Query: 162 EEEKLELLQGKVRLHENEVESLEQKLDSMRKQQKKYFDDVELKKRELNEIRKYIEELNQD 221
             ++ E     V+  E E+ +L  ++   +++     D++     E+ ++ K IE+L + 
Sbjct: 74  RIKRAEEKLSAVK-DERELRALNIEIQIAKERINSLEDELAELMEEIEKLEKEIEDLKER 132

Query: 222 PASKDKELRFVQQSIEECSKEIPGKKEELISK 253
               +K L   +  +EE   EI  + +EL SK
Sbjct: 133 LERLEKNLAEAEARLEEEVAEIREEGQELSSK 164

Length = 239

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	707
PF07899	290	Frigida: Frigida-like protein; InterPro: IPR012474	100.0
COG1196	1163	Smc Chromosome segregation ATPases [Cell division	99.83
cd00018	61	AP2 DNA-binding domain found in transcription regu	99.79
KOG0933	1174	consensus Structural maintenance of chromosome pro	99.77
smart00380	64	AP2 DNA-binding domain in plant proteins such as A	99.77
TIGR02169	1164	SMC_prok_A chromosome segregation protein SMC, pri	99.71
TIGR02168	1179	SMC_prok_B chromosome segregation protein SMC, com	99.63
KOG0018	1141	consensus Structural maintenance of chromosome pro	99.54
TIGR02169	1164	SMC_prok_A chromosome segregation protein SMC, pri	99.47
TIGR02168	1179	SMC_prok_B chromosome segregation protein SMC, com	99.41
KOG0996	1293	consensus Structural maintenance of chromosome pro	99.38
KOG0964	1200	consensus Structural maintenance of chromosome pro	99.37
COG1196	1163	Smc Chromosome segregation ATPases [Cell division	99.27
PHA00280	121	putative NHN endonuclease	99.26
TIGR00606	1311	rad50 rad50. This family is based on the phylogeno	99.25
KOG0161	1930	consensus Myosin class II heavy chain [Cytoskeleto	99.24
KOG0161	1930	consensus Myosin class II heavy chain [Cytoskeleto	99.2
PF07888	546	CALCOCO1: Calcium binding and coiled-coil domain (	99.17
KOG0250	1074	consensus DNA repair protein RAD18 (SMC family pro	99.16
PRK03918	880	chromosome segregation protein; Provisional	99.12
PRK03918	880	chromosome segregation protein; Provisional	99.11
PRK01156	895	chromosome segregation protein; Provisional	99.09
TIGR00606	1311	rad50 rad50. This family is based on the phylogeno	99.09
PF10174	775	Cast: RIM-binding protein of the cytomatrix active	99.07
KOG0250	1074	consensus DNA repair protein RAD18 (SMC family pro	99.07
PF00261	237	Tropomyosin: Tropomyosin; InterPro: IPR000533 Trop	99.07
KOG0996	1293	consensus Structural maintenance of chromosome pro	99.04
PF10174	775	Cast: RIM-binding protein of the cytomatrix active	99.03
PF07888	546	CALCOCO1: Calcium binding and coiled-coil domain (	99.03
PRK04778	569	septation ring formation regulator EzrA; Provision	99.01
KOG0933	1174	consensus Structural maintenance of chromosome pro	98.92
KOG4674	1822	consensus Uncharacterized conserved coiled-coil pr	98.9
PF00847	56	AP2: AP2 domain; InterPro: IPR001471 Pathogenesis-	98.87
KOG0964	1200	consensus Structural maintenance of chromosome pro	98.86
PF05701	522	WEMBL: Weak chloroplast movement under blue light;	98.81
PF00038	312	Filament: Intermediate filament protein; InterPro:	98.81
KOG0971	1243	consensus Microtubule-associated protein dynactin	98.81
PF05701	522	WEMBL: Weak chloroplast movement under blue light;	98.8
KOG4643	1195	consensus Uncharacterized coiled-coil protein [Fun	98.79
KOG0976	1265	consensus Rho/Rac1-interacting serine/threonine ki	98.79
KOG0976	1265	consensus Rho/Rac1-interacting serine/threonine ki	98.79
KOG0995	581	consensus Centromere-associated protein HEC1 [Cell	98.78
KOG0971	1243	consensus Microtubule-associated protein dynactin	98.78
KOG4674	1822	consensus Uncharacterized conserved coiled-coil pr	98.76
KOG0977	546	consensus Nuclear envelope protein lamin, intermed	98.75
PRK04778	569	septation ring formation regulator EzrA; Provision	98.72
KOG0995	581	consensus Centromere-associated protein HEC1 [Cell	98.67
PHA02562	562	46 endonuclease subunit; Provisional	98.63
COG1340	294	Uncharacterized archaeal coiled-coil protein [Func	98.62
PHA02562	562	46 endonuclease subunit; Provisional	98.62
KOG1029	1118	consensus Endocytic adaptor protein intersectin [S	98.58
PF00038	312	Filament: Intermediate filament protein; InterPro:	98.57
PRK04863	1486	mukB cell division protein MukB; Provisional	98.57
PF05667	594	DUF812: Protein of unknown function (DUF812); Inte	98.57
KOG4643	1195	consensus Uncharacterized coiled-coil protein [Fun	98.56
KOG0612	1317	consensus Rho-associated, coiled-coil containing p	98.55
PF05483	786	SCP-1: Synaptonemal complex protein 1 (SCP-1); Int	98.54
KOG1029	1118	consensus Endocytic adaptor protein intersectin [S	98.54
PF12128	1201	DUF3584: Protein of unknown function (DUF3584); In	98.52
KOG0977	546	consensus Nuclear envelope protein lamin, intermed	98.49
PF12128	1201	DUF3584: Protein of unknown function (DUF3584); In	98.49
PRK04863	1486	mukB cell division protein MukB; Provisional	98.49
PF06160	560	EzrA: Septation ring formation regulator, EzrA ; I	98.47
COG1340	294	Uncharacterized archaeal coiled-coil protein [Func	98.47
KOG0018	1141	consensus Structural maintenance of chromosome pro	98.42
COG0419	908	SbcC ATPase involved in DNA repair [DNA replicatio	98.42
PF15070	617	GOLGA2L5: Putative golgin subfamily A member 2-lik	98.41
PRK11637	428	AmiB activator; Provisional	98.41
COG0419	908	SbcC ATPase involved in DNA repair [DNA replicatio	98.39
PF14915	305	CCDC144C: CCDC144C protein coiled-coil region	98.35
KOG4673	961	consensus Transcription factor TMF, TATA element m	98.33
KOG0612	1317	consensus Rho-associated, coiled-coil containing p	98.33
KOG0994	1758	consensus Extracellular matrix glycoprotein Lamini	98.32
PF05483	786	SCP-1: Synaptonemal complex protein 1 (SCP-1); Int	98.28
PF15070	617	GOLGA2L5: Putative golgin subfamily A member 2-lik	98.26
PF06160	560	EzrA: Septation ring formation regulator, EzrA ; I	98.26
PF09726	697	Macoilin: Transmembrane protein; InterPro: IPR0191	98.24
KOG0946	970	consensus ER-Golgi vesicle-tethering protein p115	98.24
KOG1003	205	consensus Actin filament-coating protein tropomyos	98.23
KOG4673	961	consensus Transcription factor TMF, TATA element m	98.22
PF09728	309	Taxilin: Myosin-like coiled-coil protein; InterPro	98.21
COG5185	622	HEC1 Protein involved in chromosome segregation, i	98.18
TIGR03185	650	DNA_S_dndD DNA sulfur modification protein DndD. T	98.16
KOG1003	205	consensus Actin filament-coating protein tropomyos	98.16
PF01576	859	Myosin_tail_1: Myosin tail; InterPro: IPR002928 Mu	98.16
COG4372	499	Uncharacterized protein conserved in bacteria with	98.16
PF05667	594	DUF812: Protein of unknown function (DUF812); Inte	98.13
COG4942	420	Membrane-bound metallopeptidase [Cell division and	98.1
KOG0963	629	consensus Transcription factor/CCAAT displacement	98.1
KOG0946	970	consensus ER-Golgi vesicle-tethering protein p115	98.07
PF09730	717	BicD: Microtubule-associated protein Bicaudal-D; I	98.07
COG1579	239	Zn-ribbon protein, possibly nucleic acid-binding [	98.06
COG4372	499	Uncharacterized protein conserved in bacteria with	98.04
PF12718	143	Tropomyosin_1: Tropomyosin like; InterPro: IPR0005	98.0
PF09730	717	BicD: Microtubule-associated protein Bicaudal-D; I	97.96
PF12718	143	Tropomyosin_1: Tropomyosin like; InterPro: IPR0005	97.93
PF15619	194	Lebercilin: Ciliary protein causing Leber congenit	97.91
KOG4809	654	consensus Rab6 GTPase-interacting protein involved	97.9
KOG4809	654	consensus Rab6 GTPase-interacting protein involved	97.9
COG4477	570	EzrA Negative regulator of septation ring formatio	97.85
TIGR03185	650	DNA_S_dndD DNA sulfur modification protein DndD. T	97.85
KOG0963	629	consensus Transcription factor/CCAAT displacement	97.85
KOG0980	980	consensus Actin-binding protein SLA2/Huntingtin-in	97.82
PF15619	194	Lebercilin: Ciliary protein causing Leber congenit	97.82
PF14662	193	CCDC155: Coiled-coil region of CCDC155	97.77
KOG0999	772	consensus Microtubule-associated protein Bicaudal-	97.77
KOG0980	980	consensus Actin-binding protein SLA2/Huntingtin-in	97.76
COG4942	420	Membrane-bound metallopeptidase [Cell division and	97.75
KOG0979	1072	consensus Structural maintenance of chromosome pro	97.75
PF14915	305	CCDC144C: CCDC144C protein coiled-coil region	97.72
PF04849	306	HAP1_N: HAP1 N-terminal conserved region; InterPro	97.71
COG3883	265	Uncharacterized protein conserved in bacteria [Fun	97.66
PF05010	207	TACC: Transforming acidic coiled-coil-containing p	97.65
KOG0979	1072	consensus Structural maintenance of chromosome pro	97.63
PF04849	306	HAP1_N: HAP1 N-terminal conserved region; InterPro	97.6
KOG0962	1294	consensus DNA repair protein RAD50, ABC-type ATPas	97.57
PF05557	722	MAD: Mitotic checkpoint protein; InterPro: IPR0086	97.53
PRK09039	343	hypothetical protein; Validated	97.53
TIGR02680	1353	conserved hypothetical protein TIGR02680. Members	97.5
TIGR02680	1353	conserved hypothetical protein TIGR02680. Members	97.48
PRK11281	1113	hypothetical protein; Provisional	97.46
COG5185	622	HEC1 Protein involved in chromosome segregation, i	97.44
COG4477	570	EzrA Negative regulator of septation ring formatio	97.42
PF09787	511	Golgin_A5: Golgin subfamily A member 5; InterPro:	97.42
KOG0962	1294	consensus DNA repair protein RAD50, ABC-type ATPas	97.41
PF05622	713	HOOK: HOOK protein; InterPro: IPR008636 This famil	97.4
KOG4593	716	consensus Mitotic checkpoint protein MAD1 [Cell cy	97.39
PF05010	207	TACC: Transforming acidic coiled-coil-containing p	97.37
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	97.35
PF05557	722	MAD: Mitotic checkpoint protein; InterPro: IPR0086	97.34
PRK09039	343	hypothetical protein; Validated	97.34
PF09789	319	DUF2353: Uncharacterized coiled-coil protein (DUF2	97.33
PRK10246	1047	exonuclease subunit SbcC; Provisional	97.32
PRK11281	1113	hypothetical protein; Provisional	97.32
PRK10929	1109	putative mechanosensitive channel protein; Provisi	97.32
PF05911	769	DUF869: Plant protein of unknown function (DUF869)	97.28
PF13514	1111	AAA_27: AAA domain	97.23
KOG1937	521	consensus Uncharacterized conserved protein [Funct	97.22
PF08317	325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	97.21
PF05622	713	HOOK: HOOK protein; InterPro: IPR008636 This famil	97.2
PF09789	319	DUF2353: Uncharacterized coiled-coil protein (DUF2	97.2
PF09728	309	Taxilin: Myosin-like coiled-coil protein; InterPro	97.19
KOG0999	772	consensus Microtubule-associated protein Bicaudal-	97.17
PF15066	527	CAGE1: Cancer-associated gene protein 1 family	97.08
PF09755	310	DUF2046: Uncharacterized conserved protein H4 (DUF	97.06
KOG1937	521	consensus Uncharacterized conserved protein [Funct	96.96
PF05911	769	DUF869: Plant protein of unknown function (DUF869)	96.94
PRK10246	1047	exonuclease subunit SbcC; Provisional	96.93
PRK10929	1109	putative mechanosensitive channel protein; Provisi	96.93
PF06818	202	Fez1: Fez1; InterPro: IPR009638 This family repres	96.9
PF13870	177	DUF4201: Domain of unknown function (DUF4201)	96.86
PF15066	527	CAGE1: Cancer-associated gene protein 1 family	96.81
smart00787	312	Spc7 Spc7 kinetochore protein. This domain is foun	96.8
TIGR01843	423	type_I_hlyD type I secretion membrane fusion prote	96.79
TIGR01843	423	type_I_hlyD type I secretion membrane fusion prote	96.77
PF13851	201	GAS: Growth-arrest specific micro-tubule binding	96.75
PF09787	511	Golgin_A5: Golgin subfamily A member 5; InterPro:	96.74
TIGR00634	563	recN DNA repair protein RecN. All proteins in this	96.73
PF10481	307	CENP-F_N: Cenp-F N-terminal domain; InterPro: IPR0	96.62
PF07111	739	HCR: Alpha helical coiled-coil rod protein (HCR);	96.59
TIGR00634	563	recN DNA repair protein RecN. All proteins in this	96.59
KOG0243	1041	consensus Kinesin-like protein [Cytoskeleton]	96.56
KOG4360	596	consensus Uncharacterized coiled coil protein [Fun	96.54
PF10481	307	CENP-F_N: Cenp-F N-terminal domain; InterPro: IPR0	96.52
TIGR01005	754	eps_transp_fam exopolysaccharide transport protein	96.46
KOG1899	861	consensus LAR transmembrane tyrosine phosphatase-i	96.43
PF06818	202	Fez1: Fez1; InterPro: IPR009638 This family repres	96.39
PF13851	201	GAS: Growth-arrest specific micro-tubule binding	96.39
KOG0982	502	consensus Centrosomal protein Nuf [Cell cycle cont	96.37
PF07926	132	TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro:	96.36
TIGR03007	498	pepcterm_ChnLen polysaccharide chain length determ	96.35
TIGR03007	498	pepcterm_ChnLen polysaccharide chain length determ	96.34
PRK10869	553	recombination and repair protein; Provisional	96.28
PF10168	717	Nup88: Nuclear pore component; InterPro: IPR019321	96.23
KOG0243	1041	consensus Kinesin-like protein [Cytoskeleton]	96.22
KOG4593	716	consensus Mitotic checkpoint protein MAD1 [Cell cy	96.2
PF07926	132	TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro:	96.19
TIGR01005	754	eps_transp_fam exopolysaccharide transport protein	96.08
KOG1899	861	consensus LAR transmembrane tyrosine phosphatase-i	96.03
PF13166	712	AAA_13: AAA domain	95.98
KOG0982	502	consensus Centrosomal protein Nuf [Cell cycle cont	95.97
PF10168	717	Nup88: Nuclear pore component; InterPro: IPR019321	95.93
PRK10869	553	recombination and repair protein; Provisional	95.83
KOG0249	916	consensus LAR-interacting protein and related prot	95.8
PF15397	258	DUF4618: Domain of unknown function (DUF4618)	95.76
PF13514	1111	AAA_27: AAA domain	95.72
PF13166	712	AAA_13: AAA domain	95.72
KOG4360	596	consensus Uncharacterized coiled coil protein [Fun	95.69
PF09755	310	DUF2046: Uncharacterized conserved protein H4 (DUF	95.68
TIGR03017	444	EpsF chain length determinant protein EpsF. Sequen	95.42
PF04111	314	APG6: Autophagy protein Apg6; InterPro: IPR007243	95.42
PF04111	314	APG6: Autophagy protein Apg6; InterPro: IPR007243	95.38
TIGR01000	457	bacteriocin_acc bacteriocin secretion accessory pr	95.37
KOG2991	330	consensus Splicing regulator [RNA processing and m	95.31
PF12325	120	TMF_TATA_bd: TATA element modulatory factor 1 TATA	95.3
KOG1850	391	consensus Myosin-like coiled-coil protein [Cytoske	95.19
COG2433	652	Uncharacterized conserved protein [Function unknow	95.14
KOG4438	446	consensus Centromere-associated protein NUF2 [Cell	95.02
PF13870	177	DUF4201: Domain of unknown function (DUF4201)	95.01
PF07111	739	HCR: Alpha helical coiled-coil rod protein (HCR);	95.01
PF10498	359	IFT57: Intra-flagellar transport protein 57 ; Inte	94.66
COG2433	652	Uncharacterized conserved protein [Function unknow	94.65
TIGR03017	444	EpsF chain length determinant protein EpsF. Sequen	94.54
KOG0249	916	consensus LAR-interacting protein and related prot	94.49
PF10498	359	IFT57: Intra-flagellar transport protein 57 ; Inte	94.49
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	94.34
PF12777	344	MT: Microtubule-binding stalk of dynein motor; Int	94.29
KOG4438	446	consensus Centromere-associated protein NUF2 [Cell	94.24
PF15254	861	CCDC14: Coiled-coil domain-containing protein 14	94.21
PF03148	384	Tektin: Tektin family; InterPro: IPR000435 Tektin	94.17
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	94.13
PF10146	230	zf-C4H2: Zinc finger-containing protein ; InterPro	94.07
PF10186	302	Atg14: UV radiation resistance protein and autopha	94.06
COG4026	290	Uncharacterized protein containing TOPRIM domain,	94.03
PF04012	221	PspA_IM30: PspA/IM30 family; InterPro: IPR007157 T	94.01
PF04912	388	Dynamitin: Dynamitin ; InterPro: IPR006996 Dynamit	93.96
PF11559	151	ADIP: Afadin- and alpha -actinin-Binding; InterPro	93.61
KOG2196	254	consensus Nuclear porin [Nuclear structure]	93.57
PF14073	178	Cep57_CLD: Centrosome localisation domain of Cep57	93.55
PF12777	344	MT: Microtubule-binding stalk of dynein motor; Int	93.32
PLN02939	977	transferase, transferring glycosyl groups	93.28
PF14992	280	TMCO5: TMCO5 family	93.23
KOG0244	913	consensus Kinesin-like protein [Cytoskeleton]	93.22
KOG0239	670	consensus Kinesin (KAR3 subfamily) [Cytoskeleton]	93.2
KOG4677	554	consensus Golgi integral membrane protein [Intrace	93.16
COG4717	984	Uncharacterized conserved protein [Function unknow	93.01
KOG4302	660	consensus Microtubule-associated protein essential	92.94
KOG0239	670	consensus Kinesin (KAR3 subfamily) [Cytoskeleton]	92.91
PF11559	151	ADIP: Afadin- and alpha -actinin-Binding; InterPro	92.87
PRK12704	520	phosphodiesterase; Provisional	92.86
TIGR03319	514	YmdA_YtgF conserved hypothetical protein YmdA/YtgF	92.75
PF06705	247	SF-assemblin: SF-assemblin/beta giardin	92.69
PF10234	267	Cluap1: Clusterin-associated protein-1; InterPro:	92.41
KOG1853	333	consensus LIS1-interacting protein NUDE [Cytoskele	92.2
PF05384	159	DegS: Sensor protein DegS; InterPro: IPR008595 Thi	92.16
PF14073	178	Cep57_CLD: Centrosome localisation domain of Cep57	91.88
PF03148	384	Tektin: Tektin family; InterPro: IPR000435 Tektin	91.67
PF15290	305	Syntaphilin: Golgi-localised syntaxin-1-binding cl	91.66
KOG2991	330	consensus Splicing regulator [RNA processing and m	91.52
PF15254	861	CCDC14: Coiled-coil domain-containing protein 14	90.97
PF04912	388	Dynamitin: Dynamitin ; InterPro: IPR006996 Dynamit	90.86
PLN03229	762	acetyl-coenzyme A carboxylase carboxyl transferase	90.72
COG3096	1480	MukB Uncharacterized protein involved in chromosom	90.65
KOG2129	552	consensus Uncharacterized conserved protein H4 [Fu	90.59
TIGR02977	219	phageshock_pspA phage shock protein A. Members of	90.47
COG5283	1213	Phage-related tail protein [Function unknown]	90.46
PF09738	302	DUF2051: Double stranded RNA binding protein (DUF2	90.24
COG4717	984	Uncharacterized conserved protein [Function unknow	90.23
KOG2129	552	consensus Uncharacterized conserved protein H4 [Fu	90.19
PF10212	518	TTKRSYEDQ: Predicted coiled-coil domain-containing	90.19
PF15294	278	Leu_zip: Leucine zipper	90.16
PF11932	251	DUF3450: Protein of unknown function (DUF3450); In	89.91
KOG0992	613	consensus Uncharacterized conserved protein [Funct	89.82
PF05276	239	SH3BP5: SH3 domain-binding protein 5 (SH3BP5); Int	89.71
KOG0972	384	consensus Huntingtin interacting protein 1 (Hip1)	89.69
PF05335	188	DUF745: Protein of unknown function (DUF745); Inte	89.68
PRK10698	222	phage shock protein PspA; Provisional	89.42
PF04012	221	PspA_IM30: PspA/IM30 family; InterPro: IPR007157 T	89.41
PF15290	305	Syntaphilin: Golgi-localised syntaxin-1-binding cl	89.34
PF10234	267	Cluap1: Clusterin-associated protein-1; InterPro:	89.25
PLN02939	977	transferase, transferring glycosyl groups	89.11
PF14992	280	TMCO5: TMCO5 family	88.83
PRK00106	535	hypothetical protein; Provisional	88.73
PF04949	159	Transcrip_act: Transcriptional activator; InterPro	88.44
KOG4572	1424	consensus Predicted DNA-binding transcription fact	88.4
KOG0240	607	consensus Kinesin (SMY1 subfamily) [Cytoskeleton]	88.21
PF04949	159	Transcrip_act: Transcriptional activator; InterPro	87.8
KOG4460	741	consensus Nuclear pore complex, Nup88/rNup84 compo	87.76
PRK12704	520	phosphodiesterase; Provisional	87.62
PF05266	190	DUF724: Protein of unknown function (DUF724); Inte	87.45
PF15450	531	DUF4631: Domain of unknown function (DUF4631)	87.32
KOG4460	741	consensus Nuclear pore complex, Nup88/rNup84 compo	87.21
PF12329	74	TMF_DNA_bd: TATA element modulatory factor 1 DNA b	87.14
KOG4603	201	consensus TBP-1 interacting protein [Signal transd	86.94
PF09738	302	DUF2051: Double stranded RNA binding protein (DUF2	86.93
COG3074	79	Uncharacterized protein conserved in bacteria [Fun	86.84
KOG1850	391	consensus Myosin-like coiled-coil protein [Cytoske	86.72
KOG1924	1102	consensus RhoA GTPase effector DIA/Diaphanous [Sig	86.41
PF05266	190	DUF724: Protein of unknown function (DUF724); Inte	86.26
PF02994	370	Transposase_22: L1 transposable element; InterPro:	86.23
KOG3647	338	consensus Predicted coiled-coil protein [General f	85.96
KOG3091	508	consensus Nuclear pore complex, p54 component (sc	85.71
PRK15422	79	septal ring assembly protein ZapB; Provisional	85.7
PF15450	531	DUF4631: Domain of unknown function (DUF4631)	85.45
COG0497	557	RecN ATPase involved in DNA repair [DNA replicatio	85.08
TIGR02338	110	gimC_beta prefoldin, beta subunit, archaeal. Chape	84.95
PF10212	518	TTKRSYEDQ: Predicted coiled-coil domain-containing	84.92
PRK09841	726	cryptic autophosphorylating protein tyrosine kinas	84.91
KOG1853	333	consensus LIS1-interacting protein NUDE [Cytoskele	84.5
PRK09841	726	cryptic autophosphorylating protein tyrosine kinas	84.49
COG1382	119	GimC Prefoldin, chaperonin cofactor [Posttranslati	84.35
COG3074	79	Uncharacterized protein conserved in bacteria [Fun	83.78
PRK11519	719	tyrosine kinase; Provisional	83.64
PF03999	619	MAP65_ASE1: Microtubule associated protein (MAP65/	83.64
PF12252	1439	SidE: Dot/Icm substrate protein; InterPro: IPR0210	83.64
COG1842	225	PspA Phage shock protein A (IM30), suppresses sigm	83.18
KOG3091	508	consensus Nuclear pore complex, p54 component (sc	83.16
KOG1962	216	consensus B-cell receptor-associated protein and r	83.15
PRK11519	719	tyrosine kinase; Provisional	82.43
KOG2196	254	consensus Nuclear porin [Nuclear structure]	82.22
KOG2264	907	consensus Exostosin EXT1L [Signal transduction mec	81.73
KOG2751	447	consensus Beclin-like protein [Signal transduction	81.7
KOG2264	907	consensus Exostosin EXT1L [Signal transduction mec	81.55
PRK15422	79	septal ring assembly protein ZapB; Provisional	81.53
cd00632	105	Prefoldin_beta Prefoldin beta; Prefoldin is a hexa	81.4
PF07106	169	TBPIP: Tat binding protein 1(TBP-1)-interacting pr	81.27
PF03999	619	MAP65_ASE1: Microtubule associated protein (MAP65/	81.14
PF14197	69	Cep57_CLD_2: Centrosome localisation domain of PPC	81.13
KOG3215	222	consensus Uncharacterized conserved protein [Funct	81.02
KOG2751	447	consensus Beclin-like protein [Signal transduction	80.79
TIGR01010	362	BexC_CtrB_KpsE polysaccharide export inner-membran	80.66
PF07106	169	TBPIP: Tat binding protein 1(TBP-1)-interacting pr	80.55
cd00176	213	SPEC Spectrin repeats, found in several proteins i	80.52
COG1842	225	PspA Phage shock protein A (IM30), suppresses sigm	80.43
COG0497	557	RecN ATPase involved in DNA repair [DNA replicatio	80.27

>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=2.5e-56  Score=462.13  Aligned_cols=196  Identities=38%  Similarity=0.578  Sum_probs=189.7

Q ss_pred             CcccCCchhHHHHHHhhhccchhhhhhhHHHHhhcCCchhhHHHhhhCCCCCCCCCCCcccchhhhHHHHHHHHhhhhcc
Q 005229          358 ENLTSSGRYLQFLLNQHLQKHDSIFCKVFDTIKSARDPALLVLHAMSGFYPPHSREGDLEFDVSIVRRSCILLLEQLSTV  437 (707)
Q Consensus       358 ~~~~~~~~~l~~~~~~~~~~~~~~~~e~~~al~~a~dpa~lVLd~~~~~~~~~~~~~~~~~~~~~~r~~c~~lle~l~~~  437 (707)
                      .|..|||+||+.||++|.++..++|+|+|+||++|||||+||||+|+|||+++.+. +++.++.++||+||+|||+|+.+
T Consensus        18 lC~~MD~~gL~~fv~~~~k~~~~lr~Ev~~AL~~A~DPAkLVLdai~~f~~~~~~~-~~~~~~~~~r~~cilLLE~L~~~   96 (290)
T PF07899_consen   18 LCEKMDGKGLRKFVSENRKELASLREEVPAALRCAPDPAKLVLDAIEGFYPPGSKN-KKDSKLVDVRRACILLLEQLMRI   96 (290)
T ss_pred             HHHHCCHHHHHHHHHHhhhhHHHHHHHHHHHHHcCCChHHHHHHHHHcccCCcccc-ccCcchhhHHHHHHHHHHHHhhc
Confidence            35579999999999999999999999999999999999999999999999998877 66788999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHHHHHhh-hhcccCcHHHHHHHHHHhhhCCCCCCCHHHHHHHHHHhhhcchhhHHHhhhCCccc
Q 005229          438 EPEINAQVRDEAMKVAGEWKKKM-RVAVENSLEVLGFLHLLAAYRLAPAFDREELESLLCIVAQHRQTPKLRRTLGFADK  516 (707)
Q Consensus       438 ~~~~~~~v~~~A~~~A~~Wk~~~-~~~~~~~l~a~~fl~~l~~fgi~~~f~~~el~~l~~~~~~~~~~~~l~~~lgl~~k  516 (707)
                      +|.++|+|+++|+++|.+||++| +.+++++++||||||||++|||+++||.|||++||..|++|+|+|+||++|||++|
T Consensus        97 ~~~is~~vke~A~~lA~~WK~~l~~~~~~~~lea~gFL~lla~fgi~s~Fd~del~~Lv~~va~~~~a~~L~~sLgl~~k  176 (290)
T PF07899_consen   97 SPEISPEVKEEAKKLAEEWKSKLDGVNNENSLEALGFLQLLAAFGIVSEFDEDELLKLVVSVARRKQAPELCRSLGLSDK  176 (290)
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHhcccCCCHHHHHHHHHHHHcCCccccCHHHHHHHHHHhcchHhhHHHHHHcCchhh
Confidence            99999999999999999999999 77788999999999999999999999999999999999999999999999999999


Q ss_pred             hhhhHHHHhhcCCcccccccccccCCCCCCCCCCCCCC
Q 005229          517 VPGLQCSTTAEGRSAPSMLVGTSAPLNQSVSSPMNLPQ  554 (707)
Q Consensus       517 ~~~~i~~li~~g~~~~a~~~~~~~~l~~~~~p~~~~~s  554 (707)
                      |||||++||++|+||+||+|.+.|+|.++|||++.+++
T Consensus       177 ~~d~V~~LI~~g~~ieAv~fi~~f~L~dkfpPv~lLk~  214 (290)
T PF07899_consen  177 MPDIVEKLIKKGKQIEAVRFIYAFGLVDKFPPVPLLKS  214 (290)
T ss_pred             hHHHHHHHHHCCCccchHHHHHHHcCCCCCCCHHHHHH
Confidence            99999999999999999999999999999999999886

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 [].

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

Probab=99.83  E-value=4.3e-18  Score=210.56  Aligned_cols=157  Identities=20%  Similarity=0.236  Sum_probs=120.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhHHHhHHHHHHHHHH----HHhhhhhhhhhccC----CCCCcccCCchhHHHHHH
Q 005229          301 SLKKGLEDRLQDLELKEREFEKRVKEFELREKELDSIRKA----VEDRSKNLLLQVKI----KDPENLTSSGRYLQFLLN  372 (707)
Q Consensus       301 ~le~~L~~~~~eL~~~e~~~~~~~~E~e~~e~~l~~~~~~----~~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~  372 (707)
                      .++..+.....++..++++|..++.+|+.++.+++.+...    ..++......+..+    ...|+.+++.      |+
T Consensus       946 ~~~~~i~~le~~i~~lg~VN~~Aiee~e~~~~r~~~l~~~~~dl~~a~~~l~~~i~~~d~~~~~~f~~~f~~------In 1019 (1163)
T COG1196         946 ELEREIERLEEEIEALGPVNLRAIEEYEEVEERYEELKSQREDLEEAKEKLLEVIEELDKEKRERFKETFDK------IN 1019 (1163)
T ss_pred             HHHHHHHHHHHHHHhccCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HH
Confidence            5788888889999999999999999999999999998774    34444444444433    2233434443      77


Q ss_pred             hhhccchhhhhhhHHHHhhcCCchhhHHHhhhCCCCCCCCCCCcccchhhhHHHHHHHHhhhhccCCCCCHHHHHHHHHH
Q 005229          373 QHLQKHDSIFCKVFDTIKSARDPALLVLHAMSGFYPPHSREGDLEFDVSIVRRSCILLLEQLSTVEPEINAQVRDEAMKV  452 (707)
Q Consensus       373 ~~~~~~~~~~~e~~~al~~a~dpa~lVLd~~~~~~~~~~~~~~~~~~~~~~r~~c~~lle~l~~~~~~~~~~v~~~A~~~  452 (707)
                      .+|+.   ++..+.+.     +-|.|+|+-..+||..|......|.+..+.+      |..|                  
T Consensus      1020 ~~F~~---if~~L~~G-----G~a~L~l~~~dd~l~~Giei~a~ppgK~~~~------l~~L------------------ 1067 (1163)
T COG1196        1020 ENFSE---IFKELFGG-----GTAELELTEPDDPLTAGIEISARPPGKKLQS------LSLL------------------ 1067 (1163)
T ss_pred             HHHHH---HHHHhCCC-----CeeEEEeCCCCchhhcCcEEEEECCCCCccc------hhhc------------------
Confidence            77776   67777663     5899999999988877765555555554444      5566                  


Q ss_pred             HHHHHHhhhhcccCcHHHHHHHHHHhhhCCCCCCCHHHHHHHHHHhhhcchh
Q 005229          453 AGEWKKKMRVAVENSLEVLGFLHLLAAYRLAPAFDREELESLLCIVAQHRQT  504 (707)
Q Consensus       453 A~~Wk~~~~~~~~~~l~a~~fl~~l~~fgi~~~f~~~el~~l~~~~~~~~~~  504 (707)
                               +||+.+|.|++||+.|..|.++|+|=.|||...++.+...+.+
T Consensus      1068 ---------SGGEKsLtAlAllFAi~~~~PaPf~vLDEVDAaLD~~Nv~r~~ 1110 (1163)
T COG1196        1068 ---------SGGEKSLTALALLFAIQKYRPAPFYVLDEVDAALDDANVERVA 1110 (1163)
T ss_pred             ---------CCcHHHHHHHHHHHHHHhhCCCCeeeeccchhhccHHHHHHHH
Confidence                     9999999999999999999999999999999998888765543

>cd00018 AP2 DNA-binding domain found in transcription regulators in plants such as APETALA2 and EREBP (ethylene responsive element binding protein)

Probab=99.79  E-value=2e-19  Score=143.97  Aligned_cols=61  Identities=69%  Similarity=1.230  Sum_probs=57.8

Q ss_pred             ccceeeeEcCCCceEEEEecCCCCcccccCCCCcHHHHHHHHHHHHHHccCCCCCCCCCCc
Q 005229          637 MHFRGVRQRPWGKWAAEIRDPKKAARIWLGTFDTAEAAALAYDEAALRFKGRKAKLNFPER  697 (707)
Q Consensus       637 s~~rGV~~~~~g~w~a~i~~~~~~~~~~lG~f~t~e~Aa~ayd~aa~~~~g~~~~~nfp~~  697 (707)
                      |+|+||+++++|+|+|+|+++..|+++|||+|+|+|+||.|||.+++.+||.++.+|||++
T Consensus         1 s~~~GV~~~~~gkw~A~I~~~~~gk~~~lG~f~t~eeAa~Ayd~a~~~~~g~~a~~Nf~~~   61 (61)
T cd00018           1 SKYRGVRQRPWGKWVAEIRDPSGGRRIWLGTFDTAEEAARAYDRAALKLRGSSAVLNFPDS   61 (61)
T ss_pred             CCccCEEECCCCcEEEEEEeCCCCceEccCCCCCHHHHHHHHHHHHHHhcCCccccCCCCC
Confidence            6899998888899999999997777999999999999999999999999999999999985

In EREBPs the domain specifically binds to the 11bp GCC box of the ethylene response element (ERE), a promotor element essential for ethylene responsiveness. EREBPs and the C-repeat binding factor CBF1, which is involved in stress response, contain a single copy of the AP2 domain. APETALA2-like proteins, which play a role in plant development contain two copies.

>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=99.77  E-value=8.8e-15  Score=165.75  Aligned_cols=236  Identities=17%  Similarity=0.190  Sum_probs=224.4

Q ss_pred             hhhHHHHHHHHhhhHhhHHHHHHHhhcCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229           14 QKRIGEFNCELELKENELNSLSVSLNLKNKPSSAQEWINKCQAYQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQE   93 (707)
Q Consensus        14 ~~~~~~~~~eL~l~e~eL~~~~~el~~~~~~l~~~l~~~~~~~~~~el~~l~~~i~e~~~e~~~~~~ei~~le~~i~e~~   93 (707)
                      ...+..++.+|+++.|+|.+++.++..++...    +...+..+.+++.+++.+|.+...-++.....+..|++++.+..
T Consensus       707 ~~kf~~l~~ql~l~~~~l~l~~~r~~~~e~~~----~~~~~~~~~e~v~e~~~~Ike~~~~~k~~~~~i~~lE~~~~d~~  782 (1174)
T KOG0933|consen  707 SQKFRDLKQQLELKLHELALLEKRLEQNEFHK----LLDDLKELLEEVEESEQQIKEKERALKKCEDKISTLEKKMKDAK  782 (1174)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhcChHhh----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhh
Confidence            44567789999999999999999999999999    89999999999999999999999999999999999999999998


Q ss_pred             HH----HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHH
Q 005229           94 KQ----LAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLMLCETKLECEKKELELTQSSIKELSMEFHSEEEKLELL  169 (707)
Q Consensus        94 ~e----l~ele~ei~~l~~~i~e~~~~l~~~e~e~~~l~~ele~le~el~~~~~Ele~~e~~i~~l~~ele~~e~~l~~l  169 (707)
                      .+    +.+++++|+.++..+++....++..+.+++.++.+.++++.++...+.++...+..+..+..++..++..+...
T Consensus       783 ~~re~rlkdl~keik~~k~~~e~~~~~~ek~~~e~e~l~lE~e~l~~e~~~~k~~l~~~~~~~~~l~~e~~~l~~kv~~~  862 (1174)
T KOG0933|consen  783 ANRERRLKDLEKEIKTAKQRAEESSKELEKRENEYERLQLEHEELEKEISSLKQQLEQLEKQISSLKSELGNLEAKVDKV  862 (1174)
T ss_pred             hhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH
Confidence            76    99999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChhhHHHhHHHHHHHHHHHhhhchhhHHh
Q 005229          170 QGKVRLHENEVESLEQKLDSMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIPGKKEE  249 (707)
Q Consensus       170 e~el~~~~~eL~~~e~el~~~~~ei~el~~ele~k~~e~~e~~~ei~~l~~eie~~~~el~~~~~~le~l~~El~~l~~E  249 (707)
                      +..+..+..+|.+..+.+..++.++..+....+....++.....+++++++++..+..+.....++++.+.++++=+..|
T Consensus       863 ~~~~~~~~~el~~~k~k~~~~dt~i~~~~~~~e~~~~e~~~~~l~~kkle~e~~~~~~e~~~~~k~v~~l~~k~~wi~~e  942 (1174)
T KOG0933|consen  863 EKDVKKAQAELKDQKAKQRDIDTEISGLLTSQEKCLSEKSDGELERKKLEHEVTKLESEKANARKEVEKLLKKHEWIGDE  942 (1174)
T ss_pred             HhHHHHHHHHHHHHHHHHHhhhHHHhhhhhHHHHHHHHhhcccchHHHHHhHHHHhhhhHHHHHHHHHHHHHhccchhHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999987765


Q ss_pred             hhhh
Q 005229          250 LISK  253 (707)
Q Consensus       250 le~l  253 (707)
                      ..-+
T Consensus       943 k~~f  946 (1174)
T KOG0933|consen  943 KRLF  946 (1174)
T ss_pred             HHhh
Confidence            4433

>smart00380 AP2 DNA-binding domain in plant proteins such as APETALA2 and EREBPs

Probab=99.77  E-value=7.5e-19  Score=141.85  Aligned_cols=63  Identities=68%  Similarity=1.271  Sum_probs=59.7

Q ss_pred             cceeeeEcCCCceEEEEecCCCCcccccCCCCcHHHHHHHHHHHHHHccCCCCCCCCCCcccc
Q 005229          638 HFRGVRQRPWGKWAAEIRDPKKAARIWLGTFDTAEAAALAYDEAALRFKGRKAKLNFPERVQA  700 (707)
Q Consensus       638 ~~rGV~~~~~g~w~a~i~~~~~~~~~~lG~f~t~e~Aa~ayd~aa~~~~g~~~~~nfp~~~~~  700 (707)
                      +|+||+++++|+|.|+|+++..|+++|||+|+|+|+||.|||.|++.+||.++.+|||.+.|+
T Consensus         1 ~~kGV~~~~~gkw~A~I~~~~~~k~~~lG~f~t~eeAa~Ayd~a~~~~~g~~a~~Nf~~~~y~   63 (64)
T smart00380        1 KYRGVRQRPWGKWVAEIRDPSKGKRVWLGTFDTAEEAARAYDRAAFKFRGRSARLNFPNSLYD   63 (64)
T ss_pred             CEeeEEeCCCCeEEEEEEecCCCcEEecCCCCCHHHHHHHHHHHHHHhcCCccccCCCCccCC
Confidence            499998888999999999987788999999999999999999999999999999999999886

>TIGR02169 SMC_prok_A chromosome segregation protein SMC, primarily archaeal type

Probab=99.71  E-value=1.1e-14  Score=182.39  Aligned_cols=158  Identities=18%  Similarity=0.243  Sum_probs=95.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhHHHHHHHHHH----HHhhhhhhhhhccC----CCCCcccCCchhHHHH
Q 005229          299 FDSLKKGLEDRLQDLELKEREFEKRVKEFELREKELDSIRKA----VEDRSKNLLLQVKI----KDPENLTSSGRYLQFL  370 (707)
Q Consensus       299 ~~~le~~L~~~~~eL~~~e~~~~~~~~E~e~~e~~l~~~~~~----~~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~  370 (707)
                      ...+...+.....+|...++++..++.+|+.+..++..+...    ...+......+..+    ...|+.+++.      
T Consensus       953 ~~~l~~~l~~l~~~i~~l~~vN~~Ai~~~~~~~~~~~~l~~q~~dl~~~~~~l~~~i~~l~~~~~~~f~~~f~~------ 1026 (1164)
T TIGR02169       953 LEDVQAELQRVEEEIRALEPVNMLAIQEYEEVLKRLDELKEKRAKLEEERKAILERIEEYEKKKREVFMEAFEA------ 1026 (1164)
T ss_pred             HHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------
Confidence            456777888888888999999999999999988888887663    33333333332222    1122222222      


Q ss_pred             HHhhhccchhhhhhhHHHHhhcCCchhhHHHhhhCCCCCCCCCCCcccchhhhHHHHHHHHhhhhccCCCCCHHHHHHHH
Q 005229          371 LNQHLQKHDSIFCKVFDTIKSARDPALLVLHAMSGFYPPHSREGDLEFDVSIVRRSCILLLEQLSTVEPEINAQVRDEAM  450 (707)
Q Consensus       371 ~~~~~~~~~~~~~e~~~al~~a~dpa~lVLd~~~~~~~~~~~~~~~~~~~~~~r~~c~~lle~l~~~~~~~~~~v~~~A~  450 (707)
                      |+.+|..   ++..+.      -+-|.|+|+...++|..+......+.+....+      +..|                
T Consensus      1027 ~~~~f~~---~~~~l~------~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~l---------------- 1075 (1164)
T TIGR02169      1027 INENFNE---IFAELS------GGTGELILENPDDPFAGGLELSAKPKGKPVQR------LEAM---------------- 1075 (1164)
T ss_pred             HHHHHHH---HHHHHh------CCeEEEEecCCCCcccCCeEEEEEcCCCCCCc------chhc----------------
Confidence            4555544   444444      25577777654555433221111111100000      1222                


Q ss_pred             HHHHHHHHhhhhcccCcHHHHHHHHHHhhhCCCCCCCHHHHHHHHHHhhhcchh
Q 005229          451 KVAGEWKKKMRVAVENSLEVLGFLHLLAAYRLAPAFDREELESLLCIVAQHRQT  504 (707)
Q Consensus       451 ~~A~~Wk~~~~~~~~~~l~a~~fl~~l~~fgi~~~f~~~el~~l~~~~~~~~~~  504 (707)
                                 +||+.++-+++|++.+..|..+|.+=.||++..++.+...+.+
T Consensus      1076 -----------Sgge~~~~~la~~~~~~~~~~~~~~~lDE~~~~ld~~~~~~~~ 1118 (1164)
T TIGR02169      1076 -----------SGGEKSLTALSFIFAIQRYKPSPFYAFDEVDMFLDGVNVERVA 1118 (1164)
T ss_pred             -----------CcchHHHHHHHHHHHHHhcCCCCcEEecccccccCHHHHHHHH
Confidence                       7778899999999999888999998888888777777654433

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=99.63  E-value=6.8e-13  Score=166.39  Aligned_cols=34  Identities=24%  Similarity=0.284  Sum_probs=19.8

Q ss_pred             hcccCcHHHHHHHHHHhhhCCCCCCCHHHHHHHH
Q 005229          462 VAVENSLEVLGFLHLLAAYRLAPAFDREELESLL  495 (707)
Q Consensus       462 ~~~~~~l~a~~fl~~l~~fgi~~~f~~~el~~l~  495 (707)
                      ++|...+-++++++.+..++.++.+=.||...-+
T Consensus      1091 S~g~~~~~~l~~~~~~~~~~~~~~~~lDE~~~~l 1124 (1179)
T TIGR02168      1091 SGGEKALTALALLFAIFKVKPAPFCILDEVDAPL 1124 (1179)
T ss_pred             CccHHHHHHHHHHHHHHccCCCCeEEecCccccc
Confidence            4555566777777665556666655555544333

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.

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

Probab=99.54  E-value=1.4e-11  Score=141.42  Aligned_cols=167  Identities=15%  Similarity=0.180  Sum_probs=110.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhHHHHHHHHHHHH-hhhhhhhhhc---cC----CCCCcccCC
Q 005229          292 LKEKETHFDSLKKGLEDRLQDLELKEREFEKRVKEFELREKELDSIRKAVE-DRSKNLLLQV---KI----KDPENLTSS  363 (707)
Q Consensus       292 ~~el~~~~~~le~~L~~~~~eL~~~e~~~~~~~~E~e~~e~~l~~~~~~~~-~~~~~~~~~~---~~----~~~~~~~~~  363 (707)
                      +++|...+. +++.|++....|+.. ..|+.+..-|+.++  +...-..++ .|..+-.+..   .+    ..-|+..++
T Consensus       925 y~~L~~~y~-L~~kl~e~~~~l~~~-~Pn~kA~~~~d~v~--~~~~~~EfE~ark~ak~ak~~F~~VK~~R~~~F~~~F~ 1000 (1141)
T KOG0018|consen  925 YSGLPREYK-LQQKLEEKQSVLNRI-APNLKALERLDEVR--FQEINEEFEAARKEAKKAKNAFNKVKKKRYERFMACFE 1000 (1141)
T ss_pred             cccccHHHH-HHHHHHHHHHHHHHh-CcchHHHhhhhhHH--HHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444555555 888888888888888 77888888887776  444333333 2322221111   11    112222233


Q ss_pred             chhHHHHHHhhhccchhhhhhhHHHHhhcCCchhhHHHhhhCCCCCCCCCCCcccchhhhHHHHHHHHhhhhccCCCCCH
Q 005229          364 GRYLQFLLNQHLQKHDSIFCKVFDTIKSARDPALLVLHAMSGFYPPHSREGDLEFDVSIVRRSCILLLEQLSTVEPEINA  443 (707)
Q Consensus       364 ~~~l~~~~~~~~~~~~~~~~e~~~al~~a~dpa~lVLd~~~~~~~~~~~~~~~~~~~~~~r~~c~~lle~l~~~~~~~~~  443 (707)
                      .      |+.+..   .|..++.    .+..-|-|+||..++||..|..-...+.+....-      |+.|         
T Consensus      1001 ~------va~~Id---~IYK~Lt----nt~g~AyL~~en~~EPyl~GIky~~~pP~KRFr~------m~~L--------- 1052 (1141)
T KOG0018|consen 1001 H------VADNID---RIYKELT----NTEGQAYLGLENPEEPYLDGIKYHCMPPGKRFRP------MDNL--------- 1052 (1141)
T ss_pred             H------HHHHHH---HHHHHhc----ccccceeecCCCCCcchhcCccccccCCccccCc------hhhc---------
Confidence            2      555543   4777777    4448899999999999987665433333333222      6666         


Q ss_pred             HHHHHHHHHHHHHHHhhhhcccCcHHHHHHHHHHhhhCCCCCCCHHHHHHHHHHhhhcchhhHHH
Q 005229          444 QVRDEAMKVAGEWKKKMRVAVENSLEVLGFLHLLAAYRLAPAFDREELESLLCIVAQHRQTPKLR  508 (707)
Q Consensus       444 ~v~~~A~~~A~~Wk~~~~~~~~~~l~a~~fl~~l~~fgi~~~f~~~el~~l~~~~~~~~~~~~l~  508 (707)
                                        +||+..+.|||+|+.+-+|.++|+|=.|||+.-++...--+.|.=+|
T Consensus      1053 ------------------SGGEKTvAaLALLFaihsy~PaPFfvlDEiDAALDntNi~kvasyIr 1099 (1141)
T KOG0018|consen 1053 ------------------SGGEKTVAALALLFAIHSYKPAPFFVLDEIDAALDNTNIGKVASYIR 1099 (1141)
T ss_pred             ------------------CccHHHHHHHHHHHHhccCCCCCceehhhHHHHhhhccHHHHHHHHh
Confidence                              88899999999999999999999999999998887776666655444

>TIGR02169 SMC_prok_A chromosome segregation protein SMC, primarily archaeal type

Probab=99.47  E-value=5.2e-10  Score=140.46  Aligned_cols=57  Identities=19%  Similarity=0.166  Sum_probs=23.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHH
Q 005229           55 QAYQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIE  111 (707)
Q Consensus        55 ~~~~~el~~l~~~i~e~~~e~~~~~~ei~~le~~i~e~~~el~ele~ei~~l~~~i~  111 (707)
                      .....++..+...+..+..++..+..++..++.++......+..++..+..++..+.
T Consensus       226 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~  282 (1164)
T TIGR02169       226 YELLKEKEALERQKEAIERQLASLEEELEKLTEEISELEKRLEEIEQLLEELNKKIK  282 (1164)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333444444444444444444444444444444444444444444444333333

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=99.41  E-value=1.5e-09  Score=136.50  Aligned_cols=244  Identities=18%  Similarity=0.214  Sum_probs=121.2

Q ss_pred             HhhhhhhHHHHHHHHhhhHhhHHHHHH--HhhcCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229           10 MGLGQKRIGEFNCELELKENELNSLSV--SLNLKNKPSSAQEWINKCQAYQKELRLWKNLIEECYDEVELREKKVGEAQR   87 (707)
Q Consensus        10 ~~~~~~~~~~~~~eL~l~e~eL~~~~~--el~~~~~~l~~~l~~~~~~~~~~el~~l~~~i~e~~~e~~~~~~ei~~le~   87 (707)
                      +..+.+.+.++..++.-++.+.+.+++  ++...+..++..+...++..+..++..+...+..+..++..+..++..++.
T Consensus       181 L~r~~d~l~el~~ql~~L~~q~~~a~~~~~~~~~~~~l~~~l~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~  260 (1179)
T TIGR02168       181 LERTRENLDRLEDILNELERQLKSLERQAEKAERYKELKAELRELELALLVLRLEELREELEELQEELKEAEEELEELTA  260 (1179)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444444444432  222223333334444555555566666666666666666666666666666


Q ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHH
Q 005229           88 SIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLMLCETKLECEKKELELTQSSIKELSMEFHSEEEKLE  167 (707)
Q Consensus        88 ~i~e~~~el~ele~ei~~l~~~i~e~~~~l~~~e~e~~~l~~ele~le~el~~~~~Ele~~e~~i~~l~~ele~~e~~l~  167 (707)
                      ++..++..+..+...+..++..+..+...+...+..+..+..++..++.++..+..++..+...+..+..++.....++.
T Consensus       261 ~~~~~~~~l~~l~~~~~~~~~~~~~l~~~i~~~~~~i~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~l~  340 (1179)
T TIGR02168       261 ELQELEEKLEELRLEVSELEEEIEELQKELYALANEISRLEQQKQILRERLANLERQLEELEAQLEELESKLDELAEELA  340 (1179)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            66666666655555555555555555555555555555555555555555555555555555555555555444444455


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChhhHHHhHHHHHHHHHHHhhhchhhH
Q 005229          168 LLQGKVRLHENEVESLEQKLDSMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIPGKK  247 (707)
Q Consensus       168 ~le~el~~~~~eL~~~e~el~~~~~ei~el~~ele~k~~e~~e~~~ei~~l~~eie~~~~el~~~~~~le~l~~El~~l~  247 (707)
                      .+..++..+...+...+..+......+..+...+...+.++..+..++..+..++..+...+..+..++..+..++..+.
T Consensus       341 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~l~  420 (1179)
T TIGR02168       341 ELEEKLEELKEELESLEAELEELEAELEELESRLEELEEQLETLRSKVAQLELQIASLNNEIERLEARLERLEDRRERLQ  420 (1179)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55555555555444444444444444444444444444444444444444444444444444444444444444444444


Q ss_pred             Hhhhhh
Q 005229          248 EELISK  253 (707)
Q Consensus       248 ~Ele~l  253 (707)
                      .++..+
T Consensus       421 ~~~~~~  426 (1179)
T TIGR02168       421 QEIEEL  426 (1179)
T ss_pred             HHHHHH
Confidence            333333

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.

>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=99.38  E-value=1e-09  Score=127.37  Aligned_cols=389  Identities=15%  Similarity=0.194  Sum_probs=210.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Q 005229           58 QKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQ---LAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLMLC  134 (707)
Q Consensus        58 ~~el~~l~~~i~e~~~e~~~~~~ei~~le~~i~e~~~e---l~ele~ei~~l~~~i~e~~~~l~~~e~e~~~l~~ele~l  134 (707)
                      .-.+..+...+..+-..+..+..+|..+++.+.....+   +.++++.|+.++++++++... ..+...+..++..++.+
T Consensus       819 ~~~l~~~~~~~k~~~~~~~~l~~~i~~~E~~~~k~~~d~~~l~~~~~~ie~l~kE~e~~qe~-~~Kk~~i~~lq~~i~~i  897 (1293)
T KOG0996|consen  819 ENRLEKLTASVKRLAELIEYLESQIAELEAAVLKKVVDKKRLKELEEQIEELKKEVEELQEK-AAKKARIKELQNKIDEI  897 (1293)
T ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCcHHHHHHHHHHHHHHHHHHHHHHHh-hhHHHHHHHHHHHHHHh
Confidence            33333333334444444444444444444443222221   555556666666666666311 11133334444444333


Q ss_pred             HH-HHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229          135 ET-KLECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLEQKLDSMRKQQKKYFDDVELKKRELNEIRK  213 (707)
Q Consensus       135 e~-el~~~~~Ele~~e~~i~~l~~ele~~e~~l~~le~el~~~~~eL~~~e~el~~~~~ei~el~~ele~k~~e~~e~~~  213 (707)
                      -. .+...+.+++....+++.+..++....-.+......+..++..+.+++.++....++++.+..++...+....+++.
T Consensus       898 ~~e~~q~qk~kv~~~~~~~~~l~~~i~k~~~~i~~s~~~i~k~q~~l~~le~~~~~~e~e~~~L~e~~~~~~~k~~E~~~  977 (1293)
T KOG0996|consen  898 GGEKVQAQKDKVEKINEQLDKLEADIAKLTVAIKTSDRNIAKAQKKLSELEREIEDTEKELDDLTEELKGLEEKAAELEK  977 (1293)
T ss_pred             hchhhHHhHHHHHHHHHHHHHHHHHHHHhHHHHhcCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHH
Confidence            22 23334445555555555555555555555666666677777777777777777777777777777777777788888


Q ss_pred             HHHHHhcChhhHHHhHHHHHHHHHHHhhhchhhHHhhhhhhhhHHHHHHHHHHHHHhhhHHHHhhhhhhhHHHH-H----
Q 005229          214 YIEELNQDPASKDKELRFVQQSIEECSKEIPGKKEELISKGKTIAECSKEVELKKNQLNLIQDKSSLFQTRTIV-Y----  288 (707)
Q Consensus       214 ei~~l~~eie~~~~el~~~~~~le~l~~El~~l~~Ele~l~~~l~e~~~~le~k~~ele~l~~~le~le~~~~~-~----  288 (707)
                      ++.+...-+..+...+..+.+.++.+.+....++.++-.++..++....++...+......+..+..+.-|... .    
T Consensus       978 ~~~e~~~~~~E~k~~~~~~k~~~e~i~k~~~~lk~~rId~~~K~e~~~~~l~e~~~~~~~~~k~~~~l~~~~~tE~~~~~ 1057 (1293)
T KOG0996|consen  978 EYKEAEESLKEIKKELRDLKSELENIKKSENELKAERIDIENKLEAINGELNEIESKIKQPEKELKKLSLCNMTETRPQI 1057 (1293)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHhhhhhHHHhhCccccccchhhcccc
Confidence            88888888888888888888888888888877777544478888888888887777777776666655444210 0    


Q ss_pred             ---HHhHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHhhHHHh----HHHHHHHHHHHHhhhhhhhhhccC----C
Q 005229          289 ---LKELKEKETHF--DSLKKGLEDRLQDLELKEREFEKRVKEFELR----EKELDSIRKAVEDRSKNLLLQVKI----K  355 (707)
Q Consensus       289 ---~~~~~el~~~~--~~le~~L~~~~~eL~~~e~~~~~~~~E~e~~----e~~l~~~~~~~~~~~~~~~~~~~~----~  355 (707)
                         ....++++...  ..+-..|.-....++.+..+.-..+.+|..+    .++...+..+...|+.--..-..+    -
T Consensus      1058 ~~~~~~~Eeleae~~~~~i~e~i~~lE~~~~~l~~vd~~~i~eY~~k~~~y~~rv~~l~~~t~kr~~~re~l~~Lrk~Rl 1137 (1293)
T KOG0996|consen 1058 ELDVESPEELEAEMLEDNINEKIALLEKRVEELREVDLGVIAEYAKKVELYLKRVAELEKFTQKRDEHREKLEELRKRRL 1137 (1293)
T ss_pred             ccccCChHHHHhhhcHhhHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence               11122222222  1122233334444444434455566777544    444444555554444421110000    0


Q ss_pred             CCCcccCCchhHHHHHHhhhccchhhhhhhHHHHhhcCCchhhHHHhhhCCCCCCCCCCCcccchhhhHHHHHHHHhhhh
Q 005229          356 DPENLTSSGRYLQFLLNQHLQKHDSIFCKVFDTIKSARDPALLVLHAMSGFYPPHSREGDLEFDVSIVRRSCILLLEQLS  435 (707)
Q Consensus       356 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~e~~~al~~a~dpa~lVLd~~~~~~~~~~~~~~~~~~~~~~r~~c~~lle~l~  435 (707)
                      +.|   |.|   ..||..++++   ++.=+...     +-|.|=|=-=-+||..|..-...                   
T Consensus      1138 dEF---m~g---f~~Is~kLke---mYQmIT~G-----GdAeLElVDslDPFseGV~FSVr------------------- 1184 (1293)
T KOG0996|consen 1138 DEF---MAG---FNIISMKLKE---MYQMITLG-----GDAELELVDSLDPFSEGVMFSVR------------------- 1184 (1293)
T ss_pred             HHH---HHH---HHHHHHHHHH---HHHHHhcC-----CcceeEeeccCCCcccCceEEee-------------------
Confidence            111   222   2234444443   21111111     22222111112334333221111                   


Q ss_pred             ccCCCCCHHHHHHHHHHHHHHHHhhh-hcccCcHHHHHHHHHHhhhCCCCCCCHHHHHHHH
Q 005229          436 TVEPEINAQVRDEAMKVAGEWKKKMR-VAVENSLEVLGFLHLLAAYRLAPAFDREELESLL  495 (707)
Q Consensus       436 ~~~~~~~~~v~~~A~~~A~~Wk~~~~-~~~~~~l~a~~fl~~l~~fgi~~~f~~~el~~l~  495 (707)
                        +|             -..||.--. +||+..|-.|||.+.|--|.+.|.|=-|||+.-+
T Consensus      1185 --Pp-------------KKSWK~I~NLSGGEKTLSSLALVFALH~YkPTPlYVMDEIDAAL 1230 (1293)
T KOG0996|consen 1185 --PP-------------KKSWKNISNLSGGEKTLSSLALVFALHHYKPTPLYVMDEIDAAL 1230 (1293)
T ss_pred             --Cc-------------hhhhhhcccCCcchhHHHHHHHHHHHHccCCCCceehhhHHHhh
Confidence              11             145775433 6778999999999999999999999999997543

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

Probab=99.37  E-value=8.9e-09  Score=117.34  Aligned_cols=54  Identities=19%  Similarity=0.214  Sum_probs=45.8

Q ss_pred             hcccCcHHHHHHHHHHhhhCCCCCCCHHHHHHHHHHhhhcchhhHHHhhhCCccchhhhHHHHhhcCC
Q 005229          462 VAVENSLEVLGFLHLLAAYRLAPAFDREELESLLCIVAQHRQTPKLRRTLGFADKVPGLQCSTTAEGR  529 (707)
Q Consensus       462 ~~~~~~l~a~~fl~~l~~fgi~~~f~~~el~~l~~~~~~~~~~~~l~~~lgl~~k~~~~i~~li~~g~  529 (707)
                      +||..++-|+++++.|+.-.++|+|=.|||+.-++  +++|.|+            .++|..|-.+.|
T Consensus      1099 SGGQKsvvALaLIFaIQrcDPAPFYlfDEIDAaLD--aQyR~aV------------a~lIkelS~~aQ 1152 (1200)
T KOG0964|consen 1099 SGGQKSVVALALIFAIQRCDPAPFYLFDEIDAALD--AQYRTAV------------ADLIKELSDSAQ 1152 (1200)
T ss_pred             cCchHHHHHHHHHHHHHhcCCcchhhHhHHhhhcc--HHHHHHH------------HHHHHHHhhccc
Confidence            78889999999999999999999999999987666  5666665            588888877733

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

Probab=99.27  E-value=3.5e-08  Score=123.04  Aligned_cols=272  Identities=21%  Similarity=0.243  Sum_probs=151.6

Q ss_pred             HhhhhhhHHHHHHHHhhhHhhHHHHH--HHhhcCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229           10 MGLGQKRIGEFNCELELKENELNSLS--VSLNLKNKPSSAQEWINKCQAYQKELRLWKNLIEECYDEVELREKKVGEAQR   87 (707)
Q Consensus        10 ~~~~~~~~~~~~~eL~l~e~eL~~~~--~el~~~~~~l~~~l~~~~~~~~~~el~~l~~~i~e~~~e~~~~~~ei~~le~   87 (707)
                      ++.++..+.++.++++-++.+-+.+.  ..+......++..++..++..+..++..+.+.+..+..++..+..++...+.
T Consensus       188 l~~~~~~~~el~~~l~~L~~q~~~a~~y~~l~~e~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~  267 (1163)
T COG1196         188 LERLEDLLEELEKQLEKLERQAEKAERYQELKAELRELELALLLAKLKELRKELEELEEELSRLEEELEELQEELEEAEK  267 (1163)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344444444444444444443332  2333344445555567777777777777777777777777777777777777


Q ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHH
Q 005229           88 SIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLMLCETKLECEKKELELTQSSIKELSMEFHSEEEKLE  167 (707)
Q Consensus        88 ~i~e~~~el~ele~ei~~l~~~i~e~~~~l~~~e~e~~~l~~ele~le~el~~~~~Ele~~e~~i~~l~~ele~~e~~l~  167 (707)
                      .|..++.++.++..++..++...-.....+..++.++..+..+++.+..++......+...+..+......+...+....
T Consensus       268 ~i~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~le~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  347 (1163)
T COG1196         268 EIEELKSELEELREELEELQEELLELKEEIEELEGEISLLRERLEELENELEELEERLEELKEKIEALKEELEERETLLE  347 (1163)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHH
Confidence            77777777777777777776666666666777777777777777777777666666666666666666666555433333


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChhhHHHhHHHHHHHHHHHhhhchhhH
Q 005229          168 LLQGKVRLHENEVESLEQKLDSMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIPGKK  247 (707)
Q Consensus       168 ~le~el~~~~~eL~~~e~el~~~~~ei~el~~ele~k~~e~~e~~~ei~~l~~eie~~~~el~~~~~~le~l~~El~~l~  247 (707)
                      .+......+...+...+..+..   ..+.....++.+++++..+..++..+.+++..++.+++.++.+++.+...+..+.
T Consensus       348 e~~~~~~~~~~~~~e~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~i~~l~~~~~~~~~~~~~~~  424 (1163)
T COG1196         348 ELEQLLAELEEAKEELEEKLSA---LLEELEELFEALREELAELEAELAEIRNELEELKREIESLEERLERLSERLEDLK  424 (1163)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH---HhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333331   1222333334444444444444555555555555555555555555555555555


Q ss_pred             HhhhhhhhhHHHHHHHHHHHHHhhhHHHHhhhhhhhH
Q 005229          248 EELISKGKTIAECSKEVELKKNQLNLIQDKSSLFQTR  284 (707)
Q Consensus       248 ~Ele~l~~~l~e~~~~le~k~~ele~l~~~le~le~~  284 (707)
                      .++..+..++.....+++..+.++..++..++.+...
T Consensus       425 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  461 (1163)
T COG1196         425 EELKELEAELEELQTELEELNEELEELEEQLEELRDR  461 (1163)
T ss_pred             HHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHH
Confidence            5555555555444444454544444444444444444

>PHA00280 putative NHN endonuclease

Probab=99.26  E-value=7.2e-12  Score=112.57  Aligned_cols=62  Identities=15%  Similarity=0.268  Sum_probs=53.2

Q ss_pred             ccccCCCCCccceeee-EcCCCceEEEEecCCCCcccccCCCCcHHHHHHHHHHHHHHccCCCCCC
Q 005229          628 GLLAGNVSRMHFRGVR-QRPWGKWAAEIRDPKKAARIWLGTFDTAEAAALAYDEAALRFKGRKAKL  692 (707)
Q Consensus       628 ~~~~~~~~~s~~rGV~-~~~~g~w~a~i~~~~~~~~~~lG~f~t~e~Aa~ayd~aa~~~~g~~~~~  692 (707)
                      .....+.++|||+||+ ....|||+|+|+..++  +++||+|+|+|+|+.||+ ++..+||.||..
T Consensus        58 N~~~~~~N~SG~kGV~~~k~~~kw~A~I~~~gK--~~~lG~f~~~e~A~~a~~-~~~~lhGeFa~~  120 (121)
T PHA00280         58 NMKTPKSNTSGLKGLSWSKEREMWRGTVTAEGK--QHNFRSRDLLEVVAWIYR-TRRELHGQFARF  120 (121)
T ss_pred             ccCCCCCCCCCCCeeEEecCCCeEEEEEEECCE--EEEcCCCCCHHHHHHHHH-HHHHHhhccccC
Confidence            3345667899999994 5678999999987776  999999999999999997 788999998864

>TIGR00606 rad50 rad50

Probab=99.25  E-value=1.5e-07  Score=118.78  Aligned_cols=33  Identities=12%  Similarity=0.172  Sum_probs=18.9

Q ss_pred             HHHHHhhhhhhHHHHHHHHhhhHhhHHHHHHHh
Q 005229            6 VEKIMGLGQKRIGEFNCELELKENELNSLSVSL   38 (707)
Q Consensus         6 ~~~~~~~~~~~~~~~~~eL~l~e~eL~~~~~el   38 (707)
                      +++.+..+..++..+..+++..+..+..+..++
T Consensus       749 l~~~l~~le~~l~~~~~~le~~~~~l~~~~~~~  781 (1311)
T TIGR00606       749 LRNKLQKVNRDIQRLKNDIEEQETLLGTIMPEE  781 (1311)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH
Confidence            455555555666666666666655555555544

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

>KOG0161 consensus Myosin class II heavy chain [Cytoskeleton]

Probab=99.24  E-value=2e-07  Score=116.53  Aligned_cols=71  Identities=21%  Similarity=0.281  Sum_probs=30.2

Q ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229          119 DKEKLYDEVKNSLMLCETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLEQKLDS  189 (707)
Q Consensus       119 ~~e~e~~~l~~ele~le~el~~~~~Ele~~e~~i~~l~~ele~~e~~l~~le~el~~~~~eL~~~e~el~~  189 (707)
                      ..+..+..+..++..++..+..+..+-...+..+..+...+...++++..+......++..|.+++..+..
T Consensus       961 ~~e~~~~~l~~e~~~~~e~~~kL~kekk~lEe~~~~l~~~l~~~eek~~~l~k~~~kle~~l~~le~~le~ 1031 (1930)
T KOG0161|consen  961 AAENKLKNLEEEINSLDENISKLSKEKKELEERIRELQDDLQAEEEKAKSLNKAKAKLEQQLDDLEVTLER 1031 (1930)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333344444444444444444444444444444444444444444444444444444444

>KOG0161 consensus Myosin class II heavy chain [Cytoskeleton]

Probab=99.20  E-value=2.2e-07  Score=116.26  Aligned_cols=90  Identities=18%  Similarity=0.338  Sum_probs=43.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChhhHHHhHHHHHHHHHHHhhhchhhHHhhhhhhhhHHHHHHH
Q 005229          184 EQKLDSMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIPGKKEELISKGKTIAECSKE  263 (707)
Q Consensus       184 e~el~~~~~ei~el~~ele~k~~e~~e~~~ei~~l~~eie~~~~el~~~~~~le~l~~El~~l~~Ele~l~~~l~e~~~~  263 (707)
                      +..+..+.....++...+..++.++..+..++......+..++..+..++..+..+..+++.-+..+...++....+..+
T Consensus      1054 ~e~~~~~~~~~~el~~~l~kke~El~~l~~k~e~e~~~~~~l~k~i~eL~~~i~el~e~le~er~~r~K~ek~r~dL~~e 1133 (1930)
T KOG0161|consen 1054 QESIEELKKQKEELDNQLKKKESELSQLQSKLEDEQAEVAQLQKQIKELEARIKELEEELEAERASRAKAERQRRDLSEE 1133 (1930)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333334444444444444455555555555554444444444444444444444444444444444444444444444


Q ss_pred             HHHHHHhhhH
Q 005229          264 VELKKNQLNL  273 (707)
Q Consensus       264 le~k~~ele~  273 (707)
                      +++++.++++
T Consensus      1134 le~l~~~Lee 1143 (1930)
T KOG0161|consen 1134 LEELKEELEE 1143 (1930)
T ss_pred             HHHHHHHHHH
Confidence            4444444443

>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=99.17  E-value=8.5e-07  Score=98.53  Aligned_cols=88  Identities=15%  Similarity=0.183  Sum_probs=41.0

Q ss_pred             hHHhhhhhhhhHHHHHHHHHHHHHhhhHHHHhhhhhhhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 005229          246 KKEELISKGKTIAECSKEVELKKNQLNLIQDKSSLFQTRTIVYLKELKEKETHFDSLKKGLEDRLQDLELKEREFEKRVK  325 (707)
Q Consensus       246 l~~Ele~l~~~l~e~~~~le~k~~ele~l~~~le~le~~~~~~~~~~~el~~~~~~le~~L~~~~~eL~~~e~~~~~~~~  325 (707)
                      .+.+++.+..++..+.+.+...+.+-..++.++.....|..   .++.+....+..++..|.-...+-+.+.........
T Consensus       369 ~k~~ie~L~~el~~~e~~lqEer~E~qkL~~ql~ke~D~n~---vqlsE~~rel~Elks~lrv~qkEKEql~~EkQeL~~  445 (546)
T PF07888_consen  369 DKDEIEKLSRELQMLEEHLQEERMERQKLEKQLGKEKDCNR---VQLSENRRELQELKSSLRVAQKEKEQLQEEKQELLE  445 (546)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33445555555555555555555555556655555444421   234444444555555444444333333333333333


Q ss_pred             hHHHhHHHHHH
Q 005229          326 EFELREKELDS  336 (707)
Q Consensus       326 E~e~~e~~l~~  336 (707)
                      .+..++.+++.
T Consensus       446 yi~~Le~r~~~  456 (546)
T PF07888_consen  446 YIERLEQRLDK  456 (546)
T ss_pred             HHHHHHHHHHH
Confidence            33344444433

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 [].

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

Probab=99.16  E-value=3.9e-07  Score=106.54  Aligned_cols=265  Identities=17%  Similarity=0.269  Sum_probs=105.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH
Q 005229           53 KCQAYQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLM  132 (707)
Q Consensus        53 ~~~~~~~el~~l~~~i~e~~~e~~~~~~ei~~le~~i~e~~~el~ele~ei~~l~~~i~e~~~~l~~~e~e~~~l~~ele  132 (707)
                      .++.+..-+..+-..++.....+....++|..+++++.+.+..+..++. ++.+...+..+...+.         =.-.-
T Consensus       208 ~L~qi~~~~~~~~~~~~~~~~~i~~~~e~i~~l~k~i~e~~e~~~~~~~-~e~~~~~l~~Lk~k~~---------W~~V~  277 (1074)
T KOG0250|consen  208 QLEQITESYSEIMESLDHAKELIDLKEEEIKNLKKKIKEEEEKLDNLEQ-LEDLKENLEQLKAKMA---------WAWVN  277 (1074)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHH---------HHHHH
Confidence            3455555555555555555566666666666666555555544332221 1112222222211110         00011


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229          133 LCETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLEQKLDSMRKQQKKYFDDVELKKRELNEIR  212 (707)
Q Consensus       133 ~le~el~~~~~Ele~~e~~i~~l~~ele~~e~~l~~le~el~~~~~eL~~~e~el~~~~~ei~el~~ele~k~~e~~e~~  212 (707)
                      ....++..+...+...+..+..+..+++.....+.+++..+.+++.++..+..+.+..+.+++...+.+..+..++.+.+
T Consensus       278 ~~~~ql~~~~~~i~~~qek~~~l~~ki~~~~~k~~~~r~k~teiea~i~~~~~e~~~~d~Ei~~~r~~~~~~~re~~~~~  357 (1074)
T KOG0250|consen  278 EVERQLNNQEEEIKKKQEKVDTLQEKIEEKQGKIEEARQKLTEIEAKIGELKDEVDAQDEEIEEARKDLDDLRREVNDLK  357 (1074)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHH
Confidence            11222222222222222222222222222222233333333334444444444444444444444444444444444444


Q ss_pred             HHHHHHhcChhhHHHhHHHHHHHHHHHhhhc-hhhHHhhhhhhhhHHHHHHHHHHHHHhhhHHHHhhhhhhhHHHHHHHh
Q 005229          213 KYIEELNQDPASKDKELRFVQQSIEECSKEI-PGKKEELISKGKTIAECSKEVELKKNQLNLIQDKSSLFQTRTIVYLKE  291 (707)
Q Consensus       213 ~ei~~l~~eie~~~~el~~~~~~le~l~~El-~~l~~Ele~l~~~l~e~~~~le~k~~ele~l~~~le~le~~~~~~~~~  291 (707)
                      .++....+.+...+..+..+++.+..+.++. ..+..++.+.+.+++.+.++++..+..+..+..++..+......-..+
T Consensus       358 ~~~~~~~n~i~~~k~~~d~l~k~I~~~~~~~~~~~~~~~~e~e~k~~~L~~evek~e~~~~~L~~e~~~~~~~~~~~~ee  437 (1074)
T KOG0250|consen  358 EEIREIENSIRKLKKEVDRLEKQIADLEKQTNNELGSELEERENKLEQLKKEVEKLEEQINSLREELNEVKEKAKEEEEE  437 (1074)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHH
Confidence            3333333333333333333333333333333 333333333333333333333333333333333333332222222222


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhH
Q 005229          292 LKEKETHFDSLKKGLEDRLQDLELKEREFEKRVKEF  327 (707)
Q Consensus       292 ~~el~~~~~~le~~L~~~~~eL~~~e~~~~~~~~E~  327 (707)
                      ...++..+..+.+.|+....+|+.+......++.-|
T Consensus       438 ~~~i~~~i~~l~k~i~~~~~~l~~lk~~k~dkvs~F  473 (1074)
T KOG0250|consen  438 KEHIEGEILQLRKKIENISEELKDLKKTKTDKVSAF  473 (1074)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhcccchhhhc
Confidence            233333455566666666666666666555555544

>PRK03918 chromosome segregation protein; Provisional

Probab=99.12  E-value=1.8e-06  Score=105.62  Aligned_cols=24  Identities=29%  Similarity=0.288  Sum_probs=10.2

Q ss_pred             hhHHHHHHHHhhhHhhHHHHHHHh
Q 005229           15 KRIGEFNCELELKENELNSLSVSL   38 (707)
Q Consensus        15 ~~~~~~~~eL~l~e~eL~~~~~el   38 (707)
                      .++..+..++..++.++..++..+
T Consensus       200 ~~~~~l~~ei~~l~~e~~~l~~~~  223 (880)
T PRK03918        200 KELEEVLREINEISSELPELREEL  223 (880)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333344444444444444444333

>PRK03918 chromosome segregation protein; Provisional

Probab=99.11  E-value=2e-06  Score=105.13  Aligned_cols=6  Identities=33%  Similarity=0.235  Sum_probs=2.4

Q ss_pred             HHHHHH
Q 005229          468 LEVLGF  473 (707)
Q Consensus       468 l~a~~f  473 (707)
                      .-++||
T Consensus       796 ~~~la~  801 (880)
T PRK03918        796 ALGLAF  801 (880)
T ss_pred             HHHHHH
Confidence            334444

>PRK01156 chromosome segregation protein; Provisional

Probab=99.09  E-value=2.6e-06  Score=104.33  Aligned_cols=8  Identities=13%  Similarity=0.235  Sum_probs=3.1

Q ss_pred             CCCHHHHH
Q 005229          485 AFDREELE  492 (707)
Q Consensus       485 ~f~~~el~  492 (707)
                      .+|.+...
T Consensus       837 ~lD~~~~~  844 (895)
T PRK01156        837 FLDEDRRT  844 (895)
T ss_pred             cCCHHHHH
Confidence            33444333

>TIGR00606 rad50 rad50

Probab=99.09  E-value=1.1e-06  Score=111.24  Aligned_cols=28  Identities=18%  Similarity=0.316  Sum_probs=11.4

Q ss_pred             HHHHHhhhhhhHHHHHHHHhhhHhhHHH
Q 005229            6 VEKIMGLGQKRIGEFNCELELKENELNS   33 (707)
Q Consensus         6 ~~~~~~~~~~~~~~~~~eL~l~e~eL~~   33 (707)
                      ++..+.........+...++..+..++.
T Consensus       700 L~~~~~~~p~~~~~~~~~~~~~~~~~e~  727 (1311)
T TIGR00606       700 LQSKLRLAPDKLKSTESELKKKEKRRDE  727 (1311)
T ss_pred             HHHHHhcchhhHHHHHHHHHHHHHHHHH
Confidence            3334444333344444444444444333

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

>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=99.07  E-value=3.3e-06  Score=98.77  Aligned_cols=182  Identities=15%  Similarity=0.184  Sum_probs=88.3

Q ss_pred             HHHHHHhhhhhhHHHHHHHHhhhHhhHHHHHHHhhcCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229            5 RVEKIMGLGQKRIGEFNCELELKENELNSLSVSLNLKNKPSSAQEWINKCQAYQKELRLWKNLIEECYDEVELREKKVGE   84 (707)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~eL~l~e~eL~~~~~el~~~~~~l~~~l~~~~~~~~~~el~~l~~~i~e~~~e~~~~~~ei~~   84 (707)
                      .+++-|+.-...+..+.+.+..++.++..++.++.......  .-+...++.++......+++++.+..++.....++..
T Consensus       228 alq~~ie~Kd~ki~~lEr~l~~le~Ei~~L~~~~~~~~~~r--~~~~k~le~~~s~~~~mK~k~d~~~~eL~rk~~E~~~  305 (775)
T PF10174_consen  228 ALQTVIEEKDTKIASLERMLRDLEDEIYRLRSRGELSEADR--DRLDKQLEVYKSHSLAMKSKMDRLKLELSRKKSELEA  305 (775)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccch--HHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            35666777777777787777778888877777665444432  1133344444444444444444444444444444444


Q ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHH
Q 005229           85 AQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLMLCETKLECEKKELELTQSSIKELSMEFHSEEE  164 (707)
Q Consensus        85 le~~i~e~~~el~ele~ei~~l~~~i~e~~~~l~~~e~e~~~l~~ele~le~el~~~~~Ele~~e~~i~~l~~ele~~e~  164 (707)
                      +...+.............|..++..+...+.....++.+...+..+++.....+......+...+.....+..++..+..
T Consensus       306 ~qt~l~~~~~~~~d~r~hi~~lkesl~~ke~~~~~Lqsdve~Lr~rle~k~~~l~kk~~~~~~~qeE~~~~~~Ei~~l~d  385 (775)
T PF10174_consen  306 LQTRLETLEEQDSDMRQHIEVLKESLRAKEQEAEMLQSDVEALRFRLEEKNSQLEKKQAQIEKLQEEKSRLQGEIEDLRD  385 (775)
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444444444444444444444444444444444444444444444444444444444444444444443344333333


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q 005229          165 KLELLQGKVRLHENEVESLEQKLD  188 (707)
Q Consensus       165 ~l~~le~el~~~~~eL~~~e~el~  188 (707)
                      .++..+.++..+..+|++++..+.
T Consensus       386 ~~d~~e~ki~~Lq~kie~Lee~l~  409 (775)
T PF10174_consen  386 MLDKKERKINVLQKKIENLEEQLR  409 (775)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333333333333

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 [].

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

Probab=99.07  E-value=7e-06  Score=96.34  Aligned_cols=54  Identities=17%  Similarity=0.116  Sum_probs=40.6

Q ss_pred             hcccCcHHHHHHHHHHhhhCCCCCCCHHHHHHHHHHhhhcchhhHHHhhhCCccchhhhHHHHhhcC
Q 005229          462 VAVENSLEVLGFLHLLAAYRLAPAFDREELESLLCIVAQHRQTPKLRRTLGFADKVPGLQCSTTAEG  528 (707)
Q Consensus       462 ~~~~~~l~a~~fl~~l~~fgi~~~f~~~el~~l~~~~~~~~~~~~l~~~lgl~~k~~~~i~~li~~g  528 (707)
                      +||+.|+...+||+-|----=.|+.-.||.+=|.++|.+. .+..            -+|+...+.|
T Consensus       991 SGGERSFsTv~lllsLW~~me~Pfr~LDEFDVFMD~vNRK-i~~d------------lLv~~a~~~~ 1044 (1074)
T KOG0250|consen  991 SGGERSFSTVCLLLSLWEVMECPFRALDEFDVFMDMVNRK-ISMD------------LLVDFAKKKG 1044 (1074)
T ss_pred             CcccchHHHHHHHHHHhHhhcCchhhhhHHHHHHHHHHHH-HHHH------------HHHHHHHhhc
Confidence            6778999999999988877777888888888777777764 3332            3566666777

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

Probab=99.07  E-value=1e-07  Score=97.71  Aligned_cols=212  Identities=17%  Similarity=0.237  Sum_probs=108.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Q 005229           55 QAYQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLMLC  134 (707)
Q Consensus        55 ~~~~~el~~l~~~i~e~~~e~~~~~~ei~~le~~i~e~~~el~ele~ei~~l~~~i~e~~~~l~~~e~e~~~l~~ele~l  134 (707)
                      ......+............++..+..+|..++.++......|.....++..+.+...+....++.++.........++.+
T Consensus        18 ~~~~~~l~~~~~~~~~aE~e~~~l~rri~~lE~~le~~eerL~~~~~kL~~~e~~~de~er~~k~lE~r~~~~eeri~~l   97 (237)
T PF00261_consen   18 EEAEEKLKEAEKRAEKAEAEVASLQRRIQLLEEELERAEERLEEATEKLEEAEKRADESERARKVLENREQSDEERIEEL   97 (237)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHCCCCHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            33333344444444444444444444444444444444444555555555555555555555555555555555555555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229          135 ETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLEQKLDSMRKQQKKYFDDVELKKRELNEIRKY  214 (707)
Q Consensus       135 e~el~~~~~Ele~~e~~i~~l~~ele~~e~~l~~le~el~~~~~eL~~~e~el~~~~~ei~el~~ele~k~~e~~e~~~e  214 (707)
                      +..+..+....+.......++...+..++..+...+..+..++.++..++.+|......+..+.............++..
T Consensus        98 E~~l~ea~~~~ee~e~k~~E~~rkl~~~E~~Le~aEeR~e~~E~ki~eLE~el~~~~~~lk~lE~~~~~~~~re~~~e~~  177 (237)
T PF00261_consen   98 EQQLKEAKRRAEEAERKYEEVERKLKVLEQELERAEERAEAAESKIKELEEELKSVGNNLKSLEASEEKASEREDEYEEK  177 (237)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhchhHHHHHHHHHHHHHHHHHhhhhhhhhhHHHHHHHHH
Confidence            55555555555555555555555544444455555555555555555555555555554544444444444445555555


Q ss_pred             HHHHhcChhhHHHhHHHHHHHHHHHhhhchhhHHhhhhhhhhHHHHHHHHHH
Q 005229          215 IEELNQDPASKDKELRFVQQSIEECSKEIPGKKEELISKGKTIAECSKEVEL  266 (707)
Q Consensus       215 i~~l~~eie~~~~el~~~~~~le~l~~El~~l~~Ele~l~~~l~e~~~~le~  266 (707)
                      |..+..++.......+.++..+..|+.++..++.++...+..+..+..+++.
T Consensus       178 i~~L~~~lkeaE~Rae~aE~~v~~Le~~id~le~eL~~~k~~~~~~~~eld~  229 (237)
T PF00261_consen  178 IRDLEEKLKEAENRAEFAERRVKKLEKEIDRLEDELEKEKEKYKKVQEELDQ  229 (237)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5555555555555555555555555555555555555555444444444443

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 ....

>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=99.04  E-value=4.7e-06  Score=97.68  Aligned_cols=92  Identities=21%  Similarity=0.308  Sum_probs=39.0

Q ss_pred             hhHHhhhhhhhhHHHHHHHHHHHHHhhhHHHHhhhhhhhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229          245 GKKEELISKGKTIAECSKEVELKKNQLNLIQDKSSLFQTRTIVYLKELKEKETHFDSLKKGLEDRLQDLELKEREFEKRV  324 (707)
Q Consensus       245 ~l~~Ele~l~~~l~e~~~~le~k~~ele~l~~~le~le~~~~~~~~~~~el~~~~~~le~~L~~~~~eL~~~e~~~~~~~  324 (707)
                      +...++..+++++.....++-..+.++...++++..|..+.......+.++...+......+.+....+.++..++....
T Consensus       476 ~~~~e~~~~ekel~~~~~~~n~~~~e~~vaesel~~L~~~~~~~~~~~e~lk~~L~~~~~~~~e~~~~l~~~k~~l~~~k  555 (1293)
T KOG0996|consen  476 GIREEIEKLEKELMPLLKQVNEARSELDVAESELDILLSRHETGLKKVEELKGKLLASSESLKEKKTELDDLKEELPSLK  555 (1293)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHH
Confidence            33333444444444444444444444444444444444443333444444444444444444444444444444444444


Q ss_pred             hhHHHhHHHHHH
Q 005229          325 KEFELREKELDS  336 (707)
Q Consensus       325 ~E~e~~e~~l~~  336 (707)
                      .|+...++.++.
T Consensus       556 ~e~~~~~k~l~~  567 (1293)
T KOG0996|consen  556 QELKEKEKELPK  567 (1293)
T ss_pred             HHHHHHHHhHHH
Confidence            444333333333

>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=99.03  E-value=6.3e-06  Score=96.46  Aligned_cols=151  Identities=15%  Similarity=0.239  Sum_probs=71.5

Q ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHH
Q 005229           87 RSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLMLCETKLECEKKELELTQSSIKELSMEFHSEEEKL  166 (707)
Q Consensus        87 ~~i~e~~~el~ele~ei~~l~~~i~e~~~~l~~~e~e~~~l~~ele~le~el~~~~~Ele~~e~~i~~l~~ele~~e~~l  166 (707)
                      ++++.++.....++.++..+.-.+.....++..++..+..+......+...++.++..+...+.....+..+++.+..++
T Consensus       273 k~le~~~s~~~~mK~k~d~~~~eL~rk~~E~~~~qt~l~~~~~~~~d~r~hi~~lkesl~~ke~~~~~Lqsdve~Lr~rl  352 (775)
T PF10174_consen  273 KQLEVYKSHSLAMKSKMDRLKLELSRKKSELEALQTRLETLEEQDSDMRQHIEVLKESLRAKEQEAEMLQSDVEALRFRL  352 (775)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Confidence            33444443333333334444444444443444444444433333333344444444444444444444444444444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChhhHHHhHHHHHHHHH
Q 005229          167 ELLQGKVRLHENEVESLEQKLDSMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIE  237 (707)
Q Consensus       167 ~~le~el~~~~~eL~~~e~el~~~~~ei~el~~ele~k~~e~~e~~~ei~~l~~eie~~~~el~~~~~~le  237 (707)
                      +.....+......+...+.++.....+|.++...++.++.++..+..+|..++..+......+.....++.
T Consensus       353 e~k~~~l~kk~~~~~~~qeE~~~~~~Ei~~l~d~~d~~e~ki~~Lq~kie~Lee~l~ekd~ql~~~k~Rl~  423 (775)
T PF10174_consen  353 EEKNSQLEKKQAQIEKLQEEKSRLQGEIEDLRDMLDKKERKINVLQKKIENLEEQLREKDRQLDEEKERLS  423 (775)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            44455555555555555555555555555555555555555555555555555555555555555544444

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 [].

>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=99.03  E-value=3.9e-06  Score=93.31  Aligned_cols=38  Identities=13%  Similarity=0.081  Sum_probs=13.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229           55 QAYQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQ   92 (707)
Q Consensus        55 ~~~~~el~~l~~~i~e~~~e~~~~~~ei~~le~~i~e~   92 (707)
                      ..++.++....+....+..+.+.+......+..+...+
T Consensus       174 ~~l~~eL~~~~ee~e~L~~~~kel~~~~e~l~~E~~~L  211 (546)
T PF07888_consen  174 ERLEAELEQEEEEMEQLKQQQKELTESSEELKEERESL  211 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333333333333333333333

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 [].

>PRK04778 septation ring formation regulator EzrA; Provisional

Probab=99.01  E-value=5.5e-06  Score=95.82  Aligned_cols=45  Identities=13%  Similarity=0.172  Sum_probs=39.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-hHHHhHHHHHHHHHHH
Q 005229          296 ETHFDSLKKGLEDRLQDLELKEREFEKRVK-EFELREKELDSIRKAV  341 (707)
Q Consensus       296 ~~~~~~le~~L~~~~~eL~~~e~~~~~~~~-E~e~~e~~l~~~~~~~  341 (707)
                      ...|..+...|.....+|+. ++.++.++. +|+....+++.+....
T Consensus       447 ~~~~~~~~~~i~~l~~~L~~-g~VNm~ai~~e~~e~~~~~~~L~~q~  492 (569)
T PRK04778        447 LEMFFEVSDEIEALAEELEE-KPINMEAVNRLLEEATEDVETLEEET  492 (569)
T ss_pred             HHHHHHHHHHHHHHHHHhcc-CCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            34688889999999999999 999999999 9999988888887743

>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=98.92  E-value=1.4e-05  Score=92.41  Aligned_cols=41  Identities=22%  Similarity=0.461  Sum_probs=36.4

Q ss_pred             HHHHhhh--hcccCcHHHHHHHHHHhhhCCCCCCCHHHHHHHH
Q 005229          455 EWKKKMR--VAVENSLEVLGFLHLLAAYRLAPAFDREELESLL  495 (707)
Q Consensus       455 ~Wk~~~~--~~~~~~l~a~~fl~~l~~fgi~~~f~~~el~~l~  495 (707)
                      -||..+.  +||..||-||.+++.+-.|.++|.|=.|||+.-+
T Consensus      1075 iWKeSL~ELSGGQRSLVALsLIlamL~fkPAPlYILDEVDAAL 1117 (1174)
T KOG0933|consen 1075 IWKESLSELSGGQRSLVALSLILAMLKFKPAPLYILDEVDAAL 1117 (1174)
T ss_pred             cHHHHHHHhcCchHHHHHHHHHHHHHcCCCCceeehhhhHHhh
Confidence            5999986  6777999999999999999999999999998543

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

Probab=98.90  E-value=8.6e-06  Score=100.69  Aligned_cols=161  Identities=13%  Similarity=0.189  Sum_probs=92.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChhhHHHhHHHHHHHHHHHhh
Q 005229          166 LELLQGKVRLHENEVESLEQKLDS----MRKQQKKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEECSK  241 (707)
Q Consensus       166 l~~le~el~~~~~eL~~~e~el~~----~~~ei~el~~ele~k~~e~~e~~~ei~~l~~eie~~~~el~~~~~~le~l~~  241 (707)
                      +.+++.++..+..++..+..++..    +..+..++..++..++.++..+...+.+....+..+++++.....-....+.
T Consensus       967 ~tslE~~ls~L~~~~~~l~~e~~~~~k~~e~~~~~~~~e~~sl~ne~~~~~~~~s~~~~~~~~~k~dl~~~~~~~~~a~~ 1046 (1822)
T KOG4674|consen  967 ITSLEEELSELEKEIENLREELELSTKGKEDKLLDLSREISSLQNELKSLLKAASQANEQIEDLQNDLKTETEQLRKAQS 1046 (1822)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhccccchhhhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444333322    3344566666677777777777777777777777777777666555555555


Q ss_pred             hchhhHHhhhhhhhhHHHHHHHHHHHHHhhhHHHHhhhhhhhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229          242 EIPGKKEELISKGKTIAECSKEVELKKNQLNLIQDKSSLFQTRTIVYLKELKEKETHFDSLKKGLEDRLQDLELKEREFE  321 (707)
Q Consensus       242 El~~l~~Ele~l~~~l~e~~~~le~k~~ele~l~~~le~le~~~~~~~~~~~el~~~~~~le~~L~~~~~eL~~~e~~~~  321 (707)
                      .++.--.++......+..+..+......++..+........+-...+...|.+.+.-+...-.....+...|......+.
T Consensus      1047 ~Ye~el~~ha~~~q~l~kl~ee~~~~~~e~~~Lk~~~~~~~~~l~e~~~~w~E~~~~Leqe~~~~~~~~~~L~~qNslLh 1126 (1822)
T KOG4674|consen 1047 KYESELVQHADLTQKLIKLREEFAKCNDELLKLKKSRESRHALLSEQERDWSEKEDALEQEVNELKKRIESLEKQNSLLH 1126 (1822)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHhHHhhcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55555555555556666666666666666666666666666655566667777666555444444444444444444444


Q ss_pred             HHHhh
Q 005229          322 KRVKE  326 (707)
Q Consensus       322 ~~~~E  326 (707)
                      ..+.+
T Consensus      1127 ~qie~ 1131 (1822)
T KOG4674|consen 1127 DQFEE 1131 (1822)
T ss_pred             HHHHH
Confidence            44433

>PF00847 AP2: AP2 domain; InterPro: IPR001471 Pathogenesis-related genes transcriptional activator binds to the GCC-box pathogenesis-related promoter element and activates the plant's defence genes

Probab=98.87  E-value=3.1e-09  Score=83.43  Aligned_cols=52  Identities=33%  Similarity=0.462  Sum_probs=44.4

Q ss_pred             ccceeeeE-cCCCceEEEEecCC---CCcccccCCCCcHHHHHHHHHHHHHHccCC
Q 005229          637 MHFRGVRQ-RPWGKWAAEIRDPK---KAARIWLGTFDTAEAAALAYDEAALRFKGR  688 (707)
Q Consensus       637 s~~rGV~~-~~~g~w~a~i~~~~---~~~~~~lG~f~t~e~Aa~ayd~aa~~~~g~  688 (707)
                      |+|+||++ +..|+|+|+|+++.   +++++++|+|+++++|+.||+.++..++|.
T Consensus         1 s~~~GV~~~~~~~~W~a~i~~~~~~g~~k~f~~g~fg~~~eA~~~a~~~r~~~~~e   56 (56)
T PF00847_consen    1 SGYKGVSWDKRRGRWRAQIRVWSENGKRKRFSVGKFGFEEEAKRAAIEARKELEGE   56 (56)
T ss_dssp             SSSTTEEEETTTTEEEEEEEECCCTTEEEEEEECCCCCHHHHHHHHHHHHHHCTS-
T ss_pred             CCcEEEEEcCCCCEEEEEEEEcccCcccEEEeCccCCCHHHHHHHHHHHHHHhcCC
Confidence            68999954 56799999998842   137999999999999999999999999874

Ethylene, chemically the simplest plant hormone, participates in a number of stress responses and developmental processes: e.g., fruit ripening, inhibition of stem and root elongation, promotion of seed germination and flowering, senescence of leaves and flowers, and sex determination []. DNA sequence elements that confer ethylene responsiveness have been shown to contain two 11bp GCC boxes, which are necessary and sufficient for transcriptional control by ethylene. Ethylene responsive element binding proteins (EREBPs) have now been identified in a variety of plants. The proteins share a similar domain of around 59 amino acids, which interacts directly with the GCC box in the ERE.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 3IGM_A 3GCC_A 1GCC_A 2GCC_A.

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

Probab=98.86  E-value=1.8e-05  Score=91.13  Aligned_cols=90  Identities=16%  Similarity=0.116  Sum_probs=36.4

Q ss_pred             ChhhHHHhHHHHHHHHHHHhhhchhhHHhhhhhhhhHHHHH-------HHHHHHHHhhhHHHHhhhhhhhHHHHHHHhHH
Q 005229          221 DPASKDKELRFVQQSIEECSKEIPGKKEELISKGKTIAECS-------KEVELKKNQLNLIQDKSSLFQTRTIVYLKELK  293 (707)
Q Consensus       221 eie~~~~el~~~~~~le~l~~El~~l~~Ele~l~~~l~e~~-------~~le~k~~ele~l~~~le~le~~~~~~~~~~~  293 (707)
                      +|..+..-+.+.......++.++..++.++..+.+++.++.       .+++..-.++-.+....+.+..++..++.+=+
T Consensus       398 ei~~l~~~i~~~ke~e~~lq~e~~~~e~~l~~~~e~i~~l~~si~e~~~r~~~~~~~~~~~k~~~del~~~Rk~lWREE~  477 (1200)
T KOG0964|consen  398 EIEKLKRGINDTKEQENILQKEIEDLESELKEKLEEIKELESSINETKGRMEEFDAENTELKRELDELQDKRKELWREEK  477 (1200)
T ss_pred             HHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333444444444444444444444444444444433333       33334433444444444444444333333333


Q ss_pred             HHHHHHHHHHHHHHHHH
Q 005229          294 EKETHFDSLKKGLEDRL  310 (707)
Q Consensus       294 el~~~~~~le~~L~~~~  310 (707)
                      .+...+.+++..|..-.
T Consensus       478 ~l~~~i~~~~~dl~~~~  494 (1200)
T KOG0964|consen  478 KLRSLIANLEEDLSRAE  494 (1200)
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            33334444444443333

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

Probab=98.81  E-value=0.00016  Score=82.67  Aligned_cols=26  Identities=31%  Similarity=0.360  Sum_probs=11.7

Q ss_pred             HHHHHHHHhhhHhhHHHHHHHhhcCC
Q 005229           17 IGEFNCELELKENELNSLSVSLNLKN   42 (707)
Q Consensus        17 ~~~~~~eL~l~e~eL~~~~~el~~~~   42 (707)
                      ....+.+|...+.++..++.++...+
T Consensus        29 ~~~~e~eL~~~qeel~~~k~~l~~~E   54 (522)
T PF05701_consen   29 VKEKETELEKAQEELAKLKEQLEAAE   54 (522)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344444444444444444444433

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

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

Probab=98.81  E-value=0.00015  Score=77.75  Aligned_cols=107  Identities=17%  Similarity=0.146  Sum_probs=50.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHH
Q 005229           55 QAYQKELRLWKNLIEECYDEVELREKKVGEAQRSI-EEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLML  133 (707)
Q Consensus        55 ~~~~~el~~l~~~i~e~~~e~~~~~~ei~~le~~i-~e~~~el~ele~ei~~l~~~i~e~~~~l~~~e~e~~~l~~ele~  133 (707)
                      ..+...+..+.+++..++.+-..++.+|..+.... ......-...+.++..+...|.....+...++-+...+..+++.
T Consensus         7 ~~LNdRla~YIekVr~LE~~N~~Le~~i~~~~~~~~~~~~~~~~~ye~el~~lr~~id~~~~eka~l~~e~~~l~~e~~~   86 (312)
T PF00038_consen    7 QSLNDRLASYIEKVRFLEQENKRLESEIEELREKKGEEVSRIKEMYEEELRELRRQIDDLSKEKARLELEIDNLKEELED   86 (312)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHhcccccCcccccchhhHHHHhHHhhhhHHHHhhHHhhhhhhHHHHHHH
Confidence            44555555555555555555555555555544442 11111233445555555555555555555555555555555555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 005229          134 CETKLECEKKELELTQSSIKELSMEFHS  161 (707)
Q Consensus       134 le~el~~~~~Ele~~e~~i~~l~~ele~  161 (707)
                      +..+++........++..+..+++.++.
T Consensus        87 ~r~k~e~e~~~~~~le~el~~lrk~ld~  114 (312)
T PF00038_consen   87 LRRKYEEELAERKDLEEELESLRKDLDE  114 (312)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhhhhhhh
Confidence            5555555555555555555544444433

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 ....

>KOG0971 consensus Microtubule-associated protein dynactin DCTN1/Glued [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]

Probab=98.81  E-value=7.2e-05  Score=85.45  Aligned_cols=66  Identities=18%  Similarity=0.269  Sum_probs=28.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChhhHHHhHHHHH
Q 005229          168 LLQGKVRLHENEVESLEQKLDSMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQ  233 (707)
Q Consensus       168 ~le~el~~~~~eL~~~e~el~~~~~ei~el~~ele~k~~e~~e~~~ei~~l~~eie~~~~el~~~~  233 (707)
                      .++..-..++.-|-.++.-...-......+.++++.+..++.++...-+.+..+++..+..+.+++
T Consensus       372 qlEqqN~rLKdalVrLRDlsA~ek~d~qK~~kelE~k~sE~~eL~r~kE~Lsr~~d~aEs~iadlk  437 (1243)
T KOG0971|consen  372 QLEQQNARLKDALVRLRDLSASEKQDHQKLQKELEKKNSELEELRRQKERLSRELDQAESTIADLK  437 (1243)
T ss_pred             HHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333333333333334444455555555555544444444444444444444443

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

Probab=98.80  E-value=0.00022  Score=81.64  Aligned_cols=24  Identities=21%  Similarity=0.278  Sum_probs=11.3

Q ss_pred             HHHHHhhhhhhHHHHHHHHhhhHh
Q 005229            6 VEKIMGLGQKRIGEFNCELELKEN   29 (707)
Q Consensus         6 ~~~~~~~~~~~~~~~~~eL~l~e~   29 (707)
                      .+.++...+.++..++.++..++.
T Consensus        32 ~e~eL~~~qeel~~~k~~l~~~E~   55 (522)
T PF05701_consen   32 KETELEKAQEELAKLKEQLEAAER   55 (522)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444555555554444444443

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

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

Probab=98.79  E-value=0.00037  Score=80.88  Aligned_cols=93  Identities=14%  Similarity=-0.027  Sum_probs=59.6

Q ss_pred             chHHHHHHHhhhhhhHHHHHHHHhhhHhhHHHHHHHhhcCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229            2 VSWRVEKIMGLGQKRIGEFNCELELKENELNSLSVSLNLKNKPSSAQEWINKCQAYQKELRLWKNLIEECYDEVELREKK   81 (707)
Q Consensus         2 ~~~~~~~~~~~~~~~~~~~~~eL~l~e~eL~~~~~el~~~~~~l~~~l~~~~~~~~~~el~~l~~~i~e~~~e~~~~~~e   81 (707)
                      =+.++..++.++...-.-+..+-++++.+|+-++.+-..-.-+..|.-+..++..++.+......++.++..+...++..
T Consensus       258 Ds~fykdRveelkedN~vLleekeMLeeQLq~lrarse~~tleseiiqlkqkl~dm~~erdtdr~kteeL~eEnstLq~q  337 (1195)
T KOG4643|consen  258 DSDFYKDRVEELKEDNRVLLEEKEMLEEQLQKLRARSEGATLESEIIQLKQKLDDMRSERDTDRHKTEELHEENSTLQVQ  337 (1195)
T ss_pred             hhHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHH
Confidence            35567788888888888888899999999888877665522223344444555556666666666666666555555555


Q ss_pred             HHHHHHHHHHHHH
Q 005229           82 VGEAQRSIEEQEK   94 (707)
Q Consensus        82 i~~le~~i~e~~~   94 (707)
                      -..|...++-...
T Consensus       338 ~eqL~~~~ellq~  350 (1195)
T KOG4643|consen  338 KEQLDGQMELLQI  350 (1195)
T ss_pred             HHHhhhhhhHhhh
Confidence            5555555554443

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

Probab=98.79  E-value=0.00031  Score=79.36  Aligned_cols=77  Identities=13%  Similarity=0.095  Sum_probs=44.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229           51 INKCQAYQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEV  127 (707)
Q Consensus        51 ~~~~~~~~~el~~l~~~i~e~~~e~~~~~~ei~~le~~i~e~~~el~ele~ei~~l~~~i~e~~~~l~~~e~e~~~l  127 (707)
                      ......+++++..++.+|..++..+..++.+...++.-|..+..++.+-+-+|+.....+..++.+|..+..++..+
T Consensus        91 Rrdv~llEddlk~~~sQiriLQn~c~~lE~ekq~lQ~ti~~~q~d~ke~etelE~~~srlh~le~eLsAk~~eIf~~  167 (1265)
T KOG0976|consen   91 RRDVNLLEDDLKHHESQIRILQNKCLRLEMEKQKLQDTIQGAQDDKKENEIEIENLNSRLHKLEDELSAKAHDIFMI  167 (1265)
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHhhhhHHHHHH
Confidence            34445556666666666666666666666666666666666666666666555555555555555554444444433

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

Probab=98.79  E-value=0.00023  Score=80.39  Aligned_cols=112  Identities=10%  Similarity=0.056  Sum_probs=51.0

Q ss_pred             HHHHHHHhhhhhhHHHHHHHHhhhHhhHHHHHHHhhcCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229            4 WRVEKIMGLGQKRIGEFNCELELKENELNSLSVSLNLKNKPSSAQEWINKCQAYQKELRLWKNLIEECYDEVELREKKVG   83 (707)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~eL~l~e~eL~~~~~el~~~~~~l~~~l~~~~~~~~~~el~~l~~~i~e~~~e~~~~~~ei~   83 (707)
                      -.++..+.+.+.++..+|+.+..++.++..++.-+......+  .....++++...++..++..+.....+|..+-+.+.
T Consensus        95 ~llEddlk~~~sQiriLQn~c~~lE~ekq~lQ~ti~~~q~d~--ke~etelE~~~srlh~le~eLsAk~~eIf~~~~~L~  172 (1265)
T KOG0976|consen   95 NLLEDDLKHHESQIRILQNKCLRLEMEKQKLQDTIQGAQDDK--KENEIEIENLNSRLHKLEDELSAKAHDIFMIGEDLH  172 (1265)
T ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHhhHHHHHHHHHHHhhhhHHHHHHHHHHh
Confidence            345555555555555555555555555554443333222221  112223344444444444444444444444444444


Q ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Q 005229           84 EAQRSIEEQEKQLAFKESKISSMQTLIEENEGLL  117 (707)
Q Consensus        84 ~le~~i~e~~~el~ele~ei~~l~~~i~e~~~~l  117 (707)
                      ..-..+.+++.++..+-.+....++.+..+.+.+
T Consensus       173 nk~~~lt~~~~q~~tkl~e~~~en~~le~k~~k~  206 (1265)
T KOG0976|consen  173 DKNEELNEFNMEFQTKLAEANREKKALEEKLEKF  206 (1265)
T ss_pred             hhhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444445555554444444444444444443333

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

Probab=98.78  E-value=7.2e-05  Score=82.56  Aligned_cols=255  Identities=18%  Similarity=0.215  Sum_probs=130.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHH
Q 005229           71 CYDEVELREKKVGEAQRSIEEQEKQ---LAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLMLCETKLECEKKELEL  147 (707)
Q Consensus        71 ~~~e~~~~~~ei~~le~~i~e~~~e---l~ele~ei~~l~~~i~e~~~~l~~~e~e~~~l~~ele~le~el~~~~~Ele~  147 (707)
                      ...++..+++....|...|++....   ++.++++...++..+..+..-+..++...+.....++.+..+++....|++.
T Consensus       233 i~~~ie~l~~~n~~l~e~i~e~ek~~~~~eslre~~~~L~~D~nK~~~y~~~~~~k~~~~~~~l~~l~~Eie~kEeE~e~  312 (581)
T KOG0995|consen  233 IANEIEDLKKTNRELEEMINEREKDPGKEESLREKKARLQDDVNKFQAYVSQMKSKKQHMEKKLEMLKSEIEEKEEEIEK  312 (581)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhcCcchHHHHHHHHHHHHhHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4456666666666666666655443   6777777777777777777777777777777777777777777777777777


Q ss_pred             HHHHHHHHHHhhhhHH---HHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229          148 TQSSIKELSMEFHSEE---EKLEL-------LQGKVRLHENEVESLEQKLDSMRKQQKKYFDDVELKKRELNEIRKYIEE  217 (707)
Q Consensus       148 ~e~~i~~l~~ele~~e---~~l~~-------le~el~~~~~eL~~~e~el~~~~~ei~el~~ele~k~~e~~e~~~ei~~  217 (707)
                      ++...++|++.++-..   +.+..       +.+.+..++.+++.+.+++-..+.+++...++++.+=..++.+..+|.-
T Consensus       313 lq~~~d~Lk~~Ie~Q~iS~~dve~mn~Er~~l~r~l~~i~~~~d~l~k~vw~~~l~~~~~f~~le~~~~~~~~l~~~i~l  392 (581)
T KOG0995|consen  313 LQKENDELKKQIELQGISGEDVERMNLERNKLKRELNKIQSELDRLSKEVWELKLEIEDFFKELEKKFIDLNSLIRRIKL  392 (581)
T ss_pred             HHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            7777777766543222   33333       4444444444444444444444444444444444433333333333332


Q ss_pred             H----hcChh-----------hH-HHhHHHHHHHHHHHhhhchhhHHhhhhhhhhHHHHHHHHHHHHHhhhHHHHhhhhh
Q 005229          218 L----NQDPA-----------SK-DKELRFVQQSIEECSKEIPGKKEELISKGKTIAECSKEVELKKNQLNLIQDKSSLF  281 (707)
Q Consensus       218 l----~~eie-----------~~-~~el~~~~~~le~l~~El~~l~~Ele~l~~~l~e~~~~le~k~~ele~l~~~le~l  281 (707)
                      .    ...++           .+ ..-.-.+...+..+..++.....++..+++.+......++++...+..++.++...
T Consensus       393 ~~~~~~~n~~~~pe~~~~~~~d~k~~V~~~l~el~~ei~~~~~~~~~~~~tLq~~~~~~~~~i~E~~~~l~~~~~el~~~  472 (581)
T KOG0995|consen  393 GIAENSKNLERNPERAATNGVDLKSYVKPLLKELLDEISEELHEAENELETLQEHFSNKASTIEEKIQILGEIELELKKA  472 (581)
T ss_pred             HHHHHhccCCcCCccCccccccchhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            2    00000           00 01111233334444444445555555555555555555555555555554444444


Q ss_pred             hhHHHH----HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 005229          282 QTRTIV----YLKELKEKETHFDSLKKGLEDRLQDLELKEREFEKRVK  325 (707)
Q Consensus       282 e~~~~~----~~~~~~el~~~~~~le~~L~~~~~eL~~~e~~~~~~~~  325 (707)
                      .+....    -..+|..-..|++.++.+|......+.......+..++
T Consensus       473 ~~~~~~~k~e~eee~~k~~~E~e~le~~l~~l~l~~~~~m~~a~~~v~  520 (581)
T KOG0995|consen  473 ESKYELKKEEAEEEWKKCRKEIEKLEEELLNLKLVLNTSMKEAEELVK  520 (581)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333221    13345555556666666655544444444444443333

>KOG0971 consensus Microtubule-associated protein dynactin DCTN1/Glued [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]

Probab=98.78  E-value=1.4e-05  Score=90.94  Aligned_cols=248  Identities=16%  Similarity=0.139  Sum_probs=129.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229           50 WINKCQAYQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKN  129 (707)
Q Consensus        50 ~~~~~~~~~~el~~l~~~i~e~~~e~~~~~~ei~~le~~i~e~~~el~ele~ei~~l~~~i~e~~~~l~~~e~e~~~l~~  129 (707)
                      ++.+...++++|.......++.+.-.+....++.++...|+=..-+-+-.+.+-+.++.+++.+...+++++-+++.+..
T Consensus       274 im~qqa~Lqrel~raR~e~keaqe~ke~~k~emad~ad~iEmaTldKEmAEERaesLQ~eve~lkEr~deletdlEILKa  353 (1243)
T KOG0971|consen  274 IMEQQADLQRELKRARKEAKEAQEAKERYKEEMADTADAIEMATLDKEMAEERAESLQQEVEALKERVDELETDLEILKA  353 (1243)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44555666667766666666666666666666666666555544443444444444555555555555555555544444


Q ss_pred             hH---------------HHHHHHHHHHHHHH-------HHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229          130 SL---------------MLCETKLECEKKEL-------ELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLEQKL  187 (707)
Q Consensus       130 el---------------e~le~el~~~~~El-------e~~e~~i~~l~~ele~~e~~l~~le~el~~~~~eL~~~e~el  187 (707)
                      |+               .+++.....+++-+       ...+.....+.++++.+..++.+++..-+.+..+++..+..+
T Consensus       354 EmeekG~~~~~~ss~qfkqlEqqN~rLKdalVrLRDlsA~ek~d~qK~~kelE~k~sE~~eL~r~kE~Lsr~~d~aEs~i  433 (1243)
T KOG0971|consen  354 EMEEKGSDGQAASSYQFKQLEQQNARLKDALVRLRDLSASEKQDHQKLQKELEKKNSELEELRRQKERLSRELDQAESTI  433 (1243)
T ss_pred             HHHhcCCCCcccchHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            43               23333333333332       233334444555555555555555555555555555555555


Q ss_pred             HHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHhcChhhHHHhHHHHHHHHHHHhhhchhhHHhhhhhhhhHHHHHHHH
Q 005229          188 DSMRKQQKK---YFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIPGKKEELISKGKTIAECSKEV  264 (707)
Q Consensus       188 ~~~~~ei~e---l~~ele~k~~e~~e~~~ei~~l~~eie~~~~el~~~~~~le~l~~El~~l~~Ele~l~~~l~e~~~~l  264 (707)
                      .+++++++-   -+.-++.+-...-+++.++..++.+|..++.--+--++-.+.-...-..+++||+.+...+.++.+++
T Consensus       434 adlkEQVDAAlGAE~MV~qLtdknlnlEekVklLeetv~dlEalee~~EQL~Esn~ele~DLreEld~~~g~~kel~~r~  513 (1243)
T KOG0971|consen  434 ADLKEQVDAALGAEEMVEQLTDKNLNLEEKVKLLEETVGDLEALEEMNEQLQESNRELELDLREELDMAKGARKELQKRV  513 (1243)
T ss_pred             HHHHHHHHHhhcHHHHHHHHHhhccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            555555432   11222333344444445555555554444332222222222222222356677777777777777777


Q ss_pred             HHHHHhhhHHHHhhhhhhhHHHHHHHhHHHHHH
Q 005229          265 ELKKNQLNLIQDKSSLFQTRTIVYLKELKEKET  297 (707)
Q Consensus       265 e~k~~ele~l~~~le~le~~~~~~~~~~~el~~  297 (707)
                      ++....+-+...-|.-+...+..+..++.++.+
T Consensus       514 ~aaqet~yDrdqTI~KfRelva~Lqdqlqe~~d  546 (1243)
T KOG0971|consen  514 EAAQETVYDRDQTIKKFRELVAHLQDQLQELTD  546 (1243)
T ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            777766666666666666665556656555555

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

Probab=98.76  E-value=0.00039  Score=86.56  Aligned_cols=243  Identities=14%  Similarity=0.151  Sum_probs=108.1

Q ss_pred             HHHHHHHhhhhhhHHHHHHHHhhhHhhHHHHHHHhhcCCCCC---ch--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229            4 WRVEKIMGLGQKRIGEFNCELELKENELNSLSVSLNLKNKPS---SA--QEWINKCQAYQKELRLWKNLIEECYDEVELR   78 (707)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~eL~l~e~eL~~~~~el~~~~~~l---~~--~l~~~~~~~~~~el~~l~~~i~e~~~e~~~~   78 (707)
                      ..+++++..+..++..+..+-...+.+++.+...+.......   ..  .-....+..+...-.++.++-+.+...+...
T Consensus        55 ~~~ekK~~~l~q~~~~~~~q~~~~~~e~s~l~~~L~~~~~~~~~l~~~~~~~~~~~~~l~~~~se~~~qkr~l~~~le~~  134 (1822)
T KOG4674|consen   55 SELEKKILRLEQRLSDLSRQAKLLRNELSDLRNELEQLSSERSNLSWEIDALKLENSQLRRAKSELQEQKRQLMELLERQ  134 (1822)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            356778888888888888888888888888888887554443   10  1111112222222222222222222222222


Q ss_pred             HHHHHHHHHHHHHH-------HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 005229           79 EKKVGEAQRSIEEQ-------EKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLMLCETKLECEKKELELTQSS  151 (707)
Q Consensus        79 ~~ei~~le~~i~e~-------~~el~ele~ei~~l~~~i~e~~~~l~~~e~e~~~l~~ele~le~el~~~~~Ele~~e~~  151 (707)
                      ..+|..+..++..+       ...+.+++..+..++..--..+.....++.++..+..+..-+..++....+++......
T Consensus       135 ~~ele~l~~~n~~l~~ql~ss~~~~~e~e~r~~e~~s~~vs~q~k~~rl~QEksll~s~~~wL~~eL~~~~ekll~~~re  214 (1822)
T KOG4674|consen  135 KAELEALESENKDLNDQLKSSTKTLSELEARLQETQSEDVSSQLKEERLEQEKSLLESENKWLSRELSKVNEKLLSLRRE  214 (1822)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhh
Confidence            22222222222222       22233333333333333333333334444444444444444444444444444444444


Q ss_pred             ----HHHHHHhhhhHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHH
Q 005229          152 ----IKELSMEFHSEE-------EKLELLQGKVRLHENEVESLEQKLDSMRKQ----QKKYFDDVELKKRELNEIRKYIE  216 (707)
Q Consensus       152 ----i~~l~~ele~~e-------~~l~~le~el~~~~~eL~~~e~el~~~~~e----i~el~~ele~k~~e~~e~~~ei~  216 (707)
                          +..++..+.++.       ..+..+.+...++...|.++..++..+.+.    ...+.+++..+.+-..-......
T Consensus       215 ~s~~~~~L~~~L~~~~~~~~~~q~~~~~l~q~~~eLs~~ie~~~~~ls~~k~t~~s~~~kf~~El~~q~kL~eL~ks~~e  294 (1822)
T KOG4674|consen  215 HSIEVEQLEEKLSDLKESLAELQEKNKSLKQQNEELSKKIESLNLELSKLKDTAESSEEKFEKELSTQKKLNELWKSKLE  294 (1822)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                333333333333       333333333334444444444444333332    23444444444444444444445


Q ss_pred             HHhcChhhHHHhHHHHHHHHHHHhhhchhh
Q 005229          217 ELNQDPASKDKELRFVQQSIEECSKEIPGK  246 (707)
Q Consensus       217 ~l~~eie~~~~el~~~~~~le~l~~El~~l  246 (707)
                      .+.+++..+...+..+.+-++.....+...
T Consensus       295 e~~~~~~el~~~i~~~~klled~~~~~~e~  324 (1822)
T KOG4674|consen  295 ELSHEVAELQRAIEELEKLLEDASERNKEN  324 (1822)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhHHH
Confidence            555555555555555544444444444433

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

Probab=98.75  E-value=8.7e-05  Score=82.82  Aligned_cols=309  Identities=15%  Similarity=0.164  Sum_probs=171.9

Q ss_pred             HHHHHhhhhhhHHHHHHHHhhhHhhHHHHHHHhhcCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229            6 VEKIMGLGQKRIGEFNCELELKENELNSLSVSLNLKNKPSSAQEWINKCQAYQKELRLWKNLIEECYDEVELREKKVGEA   85 (707)
Q Consensus         6 ~~~~~~~~~~~~~~~~~eL~l~e~eL~~~~~el~~~~~~l~~~l~~~~~~~~~~el~~l~~~i~e~~~e~~~~~~ei~~l   85 (707)
                      |+..+..-=++..-+..+=..++|+|..++......-..+        ..-+..++..+...+++...+...++.+|..+
T Consensus        47 LNDRLA~YIekVR~LEaqN~~L~~di~~lr~~~~~~ts~i--------k~~ye~El~~ar~~l~e~~~~ra~~e~ei~kl  118 (546)
T KOG0977|consen   47 LNDRLAVYIEKVRFLEAQNRKLEHDINLLRGVVGRETSGI--------KAKYEAELATARKLLDETARERAKLEIEITKL  118 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCcch--------hHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            4444444445566677778888899999988888776665        23467778888888888888888888888888


Q ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHH
Q 005229           86 QRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLMLCETKLECEKKELELTQSSIKELSMEFHSEEEK  165 (707)
Q Consensus        86 e~~i~e~~~el~ele~ei~~l~~~i~e~~~~l~~~e~e~~~l~~ele~le~el~~~~~Ele~~e~~i~~l~~ele~~e~~  165 (707)
                      ..++.+++..+...++........+......+..++.++..+.-.+..++.++..+..+...+...|..+...++.----
T Consensus       119 ~~e~~elr~~~~~~~k~~~~~re~~~~~~~~l~~leAe~~~~krr~~~le~e~~~Lk~en~rl~~~l~~~r~~ld~Etll  198 (546)
T KOG0977|consen  119 REELKELRKKLEKAEKERRGAREKLDDYLSRLSELEAEINTLKRRIKALEDELKRLKAENSRLREELARARKQLDDETLL  198 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHhhhHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHH
Confidence            88888888888888888888777787777777777777777777777777777777777777777777766654332211


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HH--HHHHHHHHHHHHHHHHHhcChhhHHHhHHHHHHHHHHH
Q 005229          166 LELLQGKVRLHENEVESLEQKLDSMRKQQKKYFD----DV--ELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEEC  239 (707)
Q Consensus       166 l~~le~el~~~~~eL~~~e~el~~~~~ei~el~~----el--e~k~~e~~e~~~ei~~l~~eie~~~~el~~~~~~le~l  239 (707)
                      ....+..+..+..+|.-+...   .+.+|.+...    +.  ...+--.+++...|.++..+.+..   ....++.++..
T Consensus       199 r~d~~n~~q~Lleel~f~~~~---h~~eI~e~~~~~~rd~t~~~r~~F~~eL~~Ai~eiRaqye~~---~~~nR~diE~~  272 (546)
T KOG0977|consen  199 RVDLQNRVQTLLEELAFLKRI---HKQEIEEERRKARRDTTADNREYFKNELALAIREIRAQYEAI---SRQNRKDIESW  272 (546)
T ss_pred             HHHHHhHHHHHHHHHHHHHhc---cHHHHHHHHHHHhhcccccchHHHHHHHHHHHHHHHHHHHHH---HHHhHHHHHHH
Confidence            122222222222222222211   1122211111    11  000111122222222222221111   11111111111


Q ss_pred             -hhhchhhHHhhhhhhhhHHHHHHHHHHHHHhhhHHHHhhhhhhhHHHHHHHhHHHHHHH----HHHHHHHHHHHHHHHH
Q 005229          240 -SKEIPGKKEELISKGKTIAECSKEVELKKNQLNLIQDKSSLFQTRTIVYLKELKEKETH----FDSLKKGLEDRLQDLE  314 (707)
Q Consensus       240 -~~El~~l~~Ele~l~~~l~e~~~~le~k~~ele~l~~~le~le~~~~~~~~~~~el~~~----~~~le~~L~~~~~eL~  314 (707)
                       ..++...+..-+...........++...+..+..+..++..++++...+...+..|...    -...++.|..+..++.
T Consensus       273 Y~~kI~~i~~~~~~~~~~~~~~rEEl~~~R~~i~~Lr~klselE~~n~~L~~~I~dL~~ql~e~~r~~e~~L~~kd~~i~  352 (546)
T KOG0977|consen  273 YKRKIQEIRTSAERANVEQNYAREELRRIRSRISGLRAKLSELESRNSALEKRIEDLEYQLDEDQRSFEQALNDKDAEIA  352 (546)
T ss_pred             HHHHHHHHHhhhccccchhHHHHHHHHHHHhcccchhhhhccccccChhHHHHHHHHHhhhhhhhhhhhhhhhhHHHHHH
Confidence             11112222111122223444455566666666666666666666655555555554443    3345666667777777


Q ss_pred             HHHHHHHHHHhhHH
Q 005229          315 LKEREFEKRVKEFE  328 (707)
Q Consensus       315 ~~e~~~~~~~~E~e  328 (707)
                      .+..++.....||+
T Consensus       353 ~mReec~~l~~Elq  366 (546)
T KOG0977|consen  353 KMREECQQLSVELQ  366 (546)
T ss_pred             HHHHHHHHHHHHHH
Confidence            77777666666664

>PRK04778 septation ring formation regulator EzrA; Provisional

Probab=98.72  E-value=0.00012  Score=84.89  Aligned_cols=343  Identities=17%  Similarity=0.163  Sum_probs=173.0

Q ss_pred             HHHHHhhhhhhHHHHHHHHhhhHhhHHHHHHHhhcCCCCCc--hHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHH
Q 005229            6 VEKIMGLGQKRIGEFNCELELKENELNSLSVSLNLKNKPSS--AQEWINKCQAYQKELRLWKNLIE-----ECYDEVELR   78 (707)
Q Consensus         6 ~~~~~~~~~~~~~~~~~eL~l~e~eL~~~~~el~~~~~~l~--~~l~~~~~~~~~~el~~l~~~i~-----e~~~e~~~~   78 (707)
                      +...++.+...-.....++.-+...+..+++.+......+.  +..+..++..+...+........     +...-+..+
T Consensus       124 i~~~l~~l~~~e~~nr~~v~~l~~~y~~~rk~ll~~~~~~G~a~~~le~~l~~~e~~f~~f~~l~~~Gd~~~A~e~l~~l  203 (569)
T PRK04778        124 ILEELQELLESEEKNREEVEQLKDLYRELRKSLLANRFSFGPALDELEKQLENLEEEFSQFVELTESGDYVEAREILDQL  203 (569)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHH
Confidence            44555666666666777888888888888888888777742  22233333333333333322211     112333444


Q ss_pred             HHHHHHHHHHHHHHHHHHH-----------HHHHhHHHHHHH---H--HHHHHHHHHHHHHHHHH-----HHhHHHHHHH
Q 005229           79 EKKVGEAQRSIEEQEKQLA-----------FKESKISSMQTL---I--EENEGLLKDKEKLYDEV-----KNSLMLCETK  137 (707)
Q Consensus        79 ~~ei~~le~~i~e~~~el~-----------ele~ei~~l~~~---i--~e~~~~l~~~e~e~~~l-----~~ele~le~e  137 (707)
                      ..++..++..|+.+=.-+.           ++..-+..+...   +  ..+...+..+++.+...     ..+++..+..
T Consensus       204 ~~~~~~l~~~~~~iP~l~~~~~~~~P~ql~el~~gy~~m~~~gy~~~~~~i~~~i~~l~~~i~~~~~~l~~l~l~~~~~~  283 (569)
T PRK04778        204 EEELAALEQIMEEIPELLKELQTELPDQLQELKAGYRELVEEGYHLDHLDIEKEIQDLKEQIDENLALLEELDLDEAEEK  283 (569)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHcCCCCCCCChHHHHHHHHHHHHHHHHHHHhcChHHHHHH
Confidence            4444444444444322222           222221111110   0  00122222222222221     1123333333


Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHH
Q 005229          138 LECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLEQKLDSMRKQ----------QKKYFDDVELKKRE  207 (707)
Q Consensus       138 l~~~~~Ele~~e~~i~~l~~ele~~e~~l~~le~el~~~~~eL~~~e~el~~~~~e----------i~el~~ele~k~~e  207 (707)
                      ++.+.++|+.+-..+..-..-....+.....+...+..+......+..++..++..          +..+.++++.+.+.
T Consensus       284 ~~~i~~~Id~Lyd~lekE~~A~~~vek~~~~l~~~l~~~~e~~~~l~~Ei~~l~~sY~l~~~e~~~~~~lekeL~~Le~~  363 (569)
T PRK04778        284 NEEIQERIDQLYDILEREVKARKYVEKNSDTLPDFLEHAKEQNKELKEEIDRVKQSYTLNESELESVRQLEKQLESLEKQ  363 (569)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHccccCchhHHHHHHHHHHHHHHHHH
Confidence            33333333333333322222222222334444444444444444444444444444          44455555555555


Q ss_pred             HHHHHHHHHHHhcChhhHHHhHHHHHHHHHHHhhhchhhHHhhhhhhhhHHHHHHHHHHHHHhhhHHHHhhhh--hhhHH
Q 005229          208 LNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIPGKKEELISKGKTIAECSKEVELKKNQLNLIQDKSSL--FQTRT  285 (707)
Q Consensus       208 ~~e~~~ei~~l~~eie~~~~el~~~~~~le~l~~El~~l~~Ele~l~~~l~e~~~~le~k~~ele~l~~~le~--le~~~  285 (707)
                      +..+...+..........+..+..+.+.++.+.++...+...+..+.+.-..+...+...+..+..+.+.+..  +-+--
T Consensus       364 ~~~~~~~i~~~~~~ysel~e~leel~e~leeie~eq~ei~e~l~~Lrk~E~eAr~kL~~~~~~L~~ikr~l~k~~lpgip  443 (569)
T PRK04778        364 YDEITERIAEQEIAYSELQEELEEILKQLEEIEKEQEKLSEMLQGLRKDELEAREKLERYRNKLHEIKRYLEKSNLPGLP  443 (569)
T ss_pred             HHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCc
Confidence            5555555555555555555555555555555555555555556666655555556666655555555554443  12222


Q ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhHHHHHHHHHHHHhhhhhh
Q 005229          286 IVYLKELKEKETHFDSLKKGLEDRLQDLELKEREFEKRVKEFELREKELDSIRKAVEDRSKNL  348 (707)
Q Consensus       286 ~~~~~~~~el~~~~~~le~~L~~~~~eL~~~e~~~~~~~~E~e~~e~~l~~~~~~~~~~~~~~  348 (707)
                      ..+..-+.....++..+...|...-=.|.+....+......++....+..++.+....-...+
T Consensus       444 ~~y~~~~~~~~~~i~~l~~~L~~g~VNm~ai~~e~~e~~~~~~~L~~q~~dL~~~a~~lE~~I  506 (569)
T PRK04778        444 EDYLEMFFEVSDEIEALAEELEEKPINMEAVNRLLEEATEDVETLEEETEELVENATLTEQLI  506 (569)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345556778888888888888886667888888888888888877777777766544444433

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

Probab=98.67  E-value=0.0014  Score=72.56  Aligned_cols=64  Identities=17%  Similarity=0.225  Sum_probs=36.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Q 005229           49 EWINKCQAYQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEE  112 (707)
Q Consensus        49 l~~~~~~~~~~el~~l~~~i~e~~~e~~~~~~ei~~le~~i~e~~~el~ele~ei~~l~~~i~e  112 (707)
                      .+.+++..++.+++.++..+.++........+.++.+..+|++...+++.++++...+++.|+.
T Consensus       263 slre~~~~L~~D~nK~~~y~~~~~~k~~~~~~~l~~l~~Eie~kEeE~e~lq~~~d~Lk~~Ie~  326 (581)
T KOG0995|consen  263 SLREKKARLQDDVNKFQAYVSQMKSKKQHMEKKLEMLKSEIEEKEEEIEKLQKENDELKKQIEL  326 (581)
T ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3555566666666666666666666666555555555555555555555555555555555443

>PHA02562 46 endonuclease subunit; Provisional

Probab=98.63  E-value=4.1e-05  Score=88.90  Aligned_cols=10  Identities=40%  Similarity=0.600  Sum_probs=5.7

Q ss_pred             CCchhhHHHh
Q 005229          393 RDPALLVLHA  402 (707)
Q Consensus       393 ~dpa~lVLd~  402 (707)
                      .+|.-|+||=
T Consensus       495 ~~~~~lilDE  504 (562)
T PHA02562        495 VDTNLLILDE  504 (562)
T ss_pred             CCcCeEEEec
Confidence            3566666654

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

Probab=98.62  E-value=0.00045  Score=71.25  Aligned_cols=92  Identities=22%  Similarity=0.303  Sum_probs=58.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhcChhhHHHhHHHHHHHHHHHhhhchhhHHhhhhhhhhHHHHHHHHHHHHHhhh
Q 005229          193 QQKKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIPGKKEELISKGKTIAECSKEVELKKNQLN  272 (707)
Q Consensus       193 ei~el~~ele~k~~e~~e~~~ei~~l~~eie~~~~el~~~~~~le~l~~El~~l~~Ele~l~~~l~e~~~~le~k~~ele  272 (707)
                      .+.++..++..+..+..++..+|..+.+++..+.+++..+-++.+.+.++..++..++-.....+.++..++...++++.
T Consensus       159 ~~~el~aei~~lk~~~~e~~eki~~la~eaqe~he~m~k~~~~~De~Rkeade~he~~ve~~~~~~e~~ee~~~~~~elr  238 (294)
T COG1340         159 KLKELKAEIDELKKKAREIHEKIQELANEAQEYHEEMIKLFEEADELRKEADELHEEFVELSKKIDELHEEFRNLQNELR  238 (294)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Confidence            34555566666666666666666666666666666666666666666666666666666666666666666666666666


Q ss_pred             HHHHhhhhhhhH
Q 005229          273 LIQDKSSLFQTR  284 (707)
Q Consensus       273 ~l~~~le~le~~  284 (707)
                      .+...+..+...
T Consensus       239 e~~k~ik~l~~~  250 (294)
T COG1340         239 ELEKKIKALRAK  250 (294)
T ss_pred             HHHHHHHHHHHH
Confidence            666666555443

>PHA02562 46 endonuclease subunit; Provisional

Probab=98.62  E-value=2.8e-05  Score=90.33  Aligned_cols=55  Identities=15%  Similarity=0.160  Sum_probs=20.2

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 005229          130 SLMLCETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLE  184 (707)
Q Consensus       130 ele~le~el~~~~~Ele~~e~~i~~l~~ele~~e~~l~~le~el~~~~~eL~~~e  184 (707)
                      +++.+..+...+..++..++..+.++...+...++.+..++..+..++.++...+
T Consensus       221 e~~~l~~~~~~l~~~l~~l~~~i~~l~~~i~~~~~~L~~l~~~~~~~~~~l~~~~  275 (562)
T PHA02562        221 KYDELVEEAKTIKAEIEELTDELLNLVMDIEDPSAALNKLNTAAAKIKSKIEQFQ  275 (562)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333333333333333333333333333333333333333

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

Probab=98.58  E-value=0.00037  Score=78.61  Aligned_cols=111  Identities=15%  Similarity=0.218  Sum_probs=53.8

Q ss_pred             HHHHHHHHHHHHHHHHHHH--HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 005229          107 QTLIEENEGLLKDKEKLYD--EVKNSLMLCETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLE  184 (707)
Q Consensus       107 ~~~i~e~~~~l~~~e~e~~--~l~~ele~le~el~~~~~Ele~~e~~i~~l~~ele~~e~~l~~le~el~~~~~eL~~~e  184 (707)
                      +++|+..+..-++++...+  --+.+..++..+....++.+-....+...+..+++.+..++..+.+.+..+.-.+...+
T Consensus       392 kkeie~rEaar~ElEkqRqlewErar~qem~~Qk~reqe~iv~~nak~~ql~~eletLn~k~qqls~kl~Dvr~~~tt~k  471 (1118)
T KOG1029|consen  392 KKEIERREAAREELEKQRQLEWERARRQEMLNQKNREQEWIVYLNAKKKQLQQELETLNFKLQQLSGKLQDVRVDITTQK  471 (1118)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhheeccchHH
Confidence            3344444444444443332  11223344444444555555555555556666655555555555555555555555555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229          185 QKLDSMRKQQKKYFDDVELKKRELNEIRKYIEE  217 (707)
Q Consensus       185 ~el~~~~~ei~el~~ele~k~~e~~e~~~ei~~  217 (707)
                      .+++.+.+.++-...++..+..++.+.+..+..
T Consensus       472 t~ie~~~~q~e~~isei~qlqarikE~q~kl~~  504 (1118)
T KOG1029|consen  472 TEIEEVTKQRELMISEIDQLQARIKELQEKLQK  504 (1118)
T ss_pred             HHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            555555555544444444444444444444433

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

Probab=98.57  E-value=0.00069  Score=72.63  Aligned_cols=60  Identities=15%  Similarity=0.259  Sum_probs=29.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 005229           55 QAYQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENE  114 (707)
Q Consensus        55 ~~~~~el~~l~~~i~e~~~e~~~~~~ei~~le~~i~e~~~el~ele~ei~~l~~~i~e~~  114 (707)
                      ..+..++..+...|+.+..+...+.-++..+..++..++..+.........+...+..+.
T Consensus        50 ~~ye~el~~lr~~id~~~~eka~l~~e~~~l~~e~~~~r~k~e~e~~~~~~le~el~~lr  109 (312)
T PF00038_consen   50 EMYEEELRELRRQIDDLSKEKARLELEIDNLKEELEDLRRKYEEELAERKDLEEELESLR  109 (312)
T ss_dssp             HHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cchhhHHHHhHHhhhhHHHHhhHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence            344555555555555555555555555555555555555444444444444444444333

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 ....

>PRK04863 mukB cell division protein MukB; Provisional

Probab=98.57  E-value=0.00031  Score=88.43  Aligned_cols=40  Identities=18%  Similarity=0.220  Sum_probs=23.8

Q ss_pred             hhHHhhhhhhhhHHHHHHHHHHHHHhhhHHHHhhhhhhhH
Q 005229          245 GKKEELISKGKTIAECSKEVELKKNQLNLIQDKSSLFQTR  284 (707)
Q Consensus       245 ~l~~Ele~l~~~l~e~~~~le~k~~ele~l~~~le~le~~  284 (707)
                      ..+.+++.+..............+.+.+.+..++..+...
T Consensus       562 ~~~~~~~~~~~~~~~~~~~~~~~r~~~~qL~~~i~~l~~~  601 (1486)
T PRK04863        562 ELEARLESLSESVSEARERRMALRQQLEQLQARIQRLAAR  601 (1486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3444555555666666666666666666666666665554

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

Probab=98.57  E-value=0.00039  Score=79.83  Aligned_cols=210  Identities=20%  Similarity=0.208  Sum_probs=129.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 005229           63 LWKNLIEECYDEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLMLCETKLECEK  142 (707)
Q Consensus        63 ~l~~~i~e~~~e~~~~~~ei~~le~~i~e~~~el~ele~ei~~l~~~i~e~~~~l~~~e~e~~~l~~ele~le~el~~~~  142 (707)
                      .....+.+++.++..+..++..++.++..+...+.++..++...+....+++.+++-.+..+..    +...+..+..++
T Consensus       325 ~~~~el~~l~~~l~~l~~~i~~~~~~~~~l~~~~~q~~~e~~~~~~~~~~le~~~~l~~k~~~l----L~d~e~ni~kL~  400 (594)
T PF05667_consen  325 EQEQELEELQEQLDELESQIEELEAEIKMLKSSLKQLEEELEEKEAENEELEEELKLKKKTVEL----LPDAEENIAKLQ  400 (594)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----hcCcHHHHHHHH
Confidence            3333444444444444444444444444444444444444444444444444444433333222    233445556666


Q ss_pred             HHHHHHHHHHHHHHHhhhhHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229          143 KELELTQSSIKELSMEFHSEE----EKLELLQGKVRLHENEVESLEQKLDSMRKQQKKYFDDVELKKRELNEIRKYIEEL  218 (707)
Q Consensus       143 ~Ele~~e~~i~~l~~ele~~e----~~l~~le~el~~~~~eL~~~e~el~~~~~ei~el~~ele~k~~e~~e~~~ei~~l  218 (707)
                      .-++....++.++..+.+..+    +++..++........+...+-.++..+..+++.+..++..+++.+..+..+++.+
T Consensus       401 ~~v~~s~~rl~~L~~qWe~~R~pL~~e~r~lk~~~~~~~~e~~~~~~~ik~~r~~~k~~~~e~~~Kee~~~qL~~e~e~~  480 (594)
T PF05667_consen  401 ALVEASEQRLVELAQQWEKHRAPLIEEYRRLKEKASNRESESKQKLQEIKELREEIKEIEEEIRQKEELYKQLVKELEKL  480 (594)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            666666666666666655544    3355555555555556666667777777778888888888888888888888777


Q ss_pred             hcChhhHHHhHHHHHHHHHHHhhhchhhHHhhhhhhhhHHHHHHHHHHHHHhhhHHHHhhhhh
Q 005229          219 NQDPASKDKELRFVQQSIEECSKEIPGKKEELISKGKTIAECSKEVELKKNQLNLIQDKSSLF  281 (707)
Q Consensus       219 ~~eie~~~~el~~~~~~le~l~~El~~l~~Ele~l~~~l~e~~~~le~k~~ele~l~~~le~l  281 (707)
                      .+.+.     ......++-++.+.+...+.+|..+-.....++++|..+...+++...-...+
T Consensus       481 ~k~~~-----Rs~Yt~RIlEIv~NI~KQk~eI~KIl~DTr~lQkeiN~l~gkL~RtF~v~dEl  538 (594)
T PF05667_consen  481 PKDVN-----RSAYTRRILEIVKNIRKQKEEIEKILSDTRELQKEINSLTGKLDRTFTVTDEL  538 (594)
T ss_pred             CCCCC-----HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Confidence            77753     45566778888888888888888888888888888888888877666555553

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

Probab=98.56  E-value=0.0019  Score=75.35  Aligned_cols=25  Identities=20%  Similarity=0.294  Sum_probs=12.9

Q ss_pred             hhHHHHHHHHhhhHhhHHHHHHHhh
Q 005229           15 KRIGEFNCELELKENELNSLSVSLN   39 (707)
Q Consensus        15 ~~~~~~~~eL~l~e~eL~~~~~el~   39 (707)
                      +...++..+|+.++.+++.+++++.
T Consensus       198 enll~lr~eLddleae~~klrqe~~  222 (1195)
T KOG4643|consen  198 ENLLRLRNELDDLEAEISKLRQEIE  222 (1195)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334455555555555555554443

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

Probab=98.55  E-value=0.00075  Score=80.20  Aligned_cols=18  Identities=28%  Similarity=0.411  Sum_probs=9.0

Q ss_pred             CHHHHHHH-HHHHHHHHHh
Q 005229          442 NAQVRDEA-MKVAGEWKKK  459 (707)
Q Consensus       442 ~~~v~~~A-~~~A~~Wk~~  459 (707)
                      ..+|+..| ++||...+.+
T Consensus       980 e~~v~~aa~~kl~eif~r~  998 (1317)
T KOG0612|consen  980 ERDVKHAAVNKLAEIFNRK  998 (1317)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            34454444 3466655554

>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=98.54  E-value=0.0031  Score=70.95  Aligned_cols=65  Identities=17%  Similarity=0.196  Sum_probs=37.7

Q ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 005229           96 LAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLMLCETKLECEKKELELTQSSIKELSMEFH  160 (707)
Q Consensus        96 l~ele~ei~~l~~~i~e~~~~l~~~e~e~~~l~~ele~le~el~~~~~Ele~~e~~i~~l~~ele  160 (707)
                      +.+++..+..++..+..-..+++..+..+..+.+++.....+++++...-...+-.+..+...+.
T Consensus       351 v~e~qtti~~L~~lL~~Eqqr~~~~ed~lk~l~~eLqkks~eleEmtk~k~~ke~eleeL~~~L~  415 (786)
T PF05483_consen  351 VTELQTTICNLKELLTTEQQRLKKNEDQLKILTMELQKKSSELEEMTKQKNNKEVELEELKKILA  415 (786)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence            55555556666666666666666666666666666666666666555544444444444444443

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

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

Probab=98.54  E-value=0.00031  Score=79.27  Aligned_cols=26  Identities=27%  Similarity=0.583  Sum_probs=18.2

Q ss_pred             eeEc-CCCceEEEEecCCCCcccccCCCC
Q 005229          642 VRQR-PWGKWAAEIRDPKKAARIWLGTFD  669 (707)
Q Consensus       642 V~~~-~~g~w~a~i~~~~~~~~~~lG~f~  669 (707)
                      ++.+ ..|+|..++-..|+  +.-+|-|+
T Consensus      1006 IrkKn~sGWWeGELqarGk--krq~GWFP 1032 (1118)
T KOG1029|consen 1006 IRKKNASGWWEGELQARGK--KRQIGWFP 1032 (1118)
T ss_pred             EEecCCCccchhhHhhcCC--cccccccc
Confidence            3544 56999999966666  54557776

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

Probab=98.52  E-value=0.011  Score=74.68  Aligned_cols=31  Identities=13%  Similarity=0.195  Sum_probs=15.1

Q ss_pred             HHHHHHhhhhccC-CCCCHHHHHHHHHHHHHH
Q 005229          426 SCILLLEQLSTVE-PEINAQVRDEAMKVAGEW  456 (707)
Q Consensus       426 ~c~~lle~l~~~~-~~~~~~v~~~A~~~A~~W  456 (707)
                      .|+-.|+.++.+. |..-..+++...-++..-
T Consensus       963 ~~~~~l~~~~~~~~~~~~~~l~e~~~~~~~~i  994 (1201)
T PF12128_consen  963 QWAPDLQELLDVLIPQQQQALIEQGRNIGNDI  994 (1201)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHH
Confidence            3444456655442 333334555655555543

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

Probab=98.49  E-value=0.00029  Score=78.77  Aligned_cols=98  Identities=17%  Similarity=0.183  Sum_probs=51.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229           56 AYQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQL--------AFKESKISSMQTLIEENEGLLKDKEKLYDEV  127 (707)
Q Consensus        56 ~~~~el~~l~~~i~e~~~e~~~~~~ei~~le~~i~e~~~el--------~ele~ei~~l~~~i~e~~~~l~~~e~e~~~l  127 (707)
                      .-+++|..|++.+...-+++..++.+-..|+.+|..++.-.        .-.+.++..+.+.|++........+.++..+
T Consensus        39 rEK~El~~LNDRLA~YIekVR~LEaqN~~L~~di~~lr~~~~~~ts~ik~~ye~El~~ar~~l~e~~~~ra~~e~ei~kl  118 (546)
T KOG0977|consen   39 REKKELQELNDRLAVYIEKVRFLEAQNRKLEHDINLLRGVVGRETSGIKAKYEAELATARKLLDETARERAKLEIEITKL  118 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCcchhHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            34566677777777777777777777777777777766552        2233444444444444444444444444444


Q ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHH
Q 005229          128 KNSLMLCETKLECEKKELELTQSSIK  153 (707)
Q Consensus       128 ~~ele~le~el~~~~~Ele~~e~~i~  153 (707)
                      ..+++.+...+....+.....+..+.
T Consensus       119 ~~e~~elr~~~~~~~k~~~~~re~~~  144 (546)
T KOG0977|consen  119 REELKELRKKLEKAEKERRGAREKLD  144 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHhhhHHHHH
Confidence            44444444444444444433333333

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

Probab=98.49  E-value=0.013  Score=74.03  Aligned_cols=50  Identities=16%  Similarity=0.153  Sum_probs=30.2

Q ss_pred             HHHHHHHHHHhhhcchh--hHHHhhhCCccchhhhHHHHhhcCCcccccccccc
Q 005229          488 REELESLLCIVAQHRQT--PKLRRTLGFADKVPGLQCSTTAEGRSAPSMLVGTS  539 (707)
Q Consensus       488 ~~el~~l~~~~~~~~~~--~~l~~~lgl~~k~~~~i~~li~~g~~~~a~~~~~~  539 (707)
                      ...++.++.......+.  -+.++  .++..+.+++.+|-.-.+.|..+...-+
T Consensus       965 ~~~l~~~~~~~~~~~~~~l~e~~~--~~~~~i~~f~~~l~~~~r~I~~~s~~l~ 1016 (1201)
T PF12128_consen  965 APDLQELLDVLIPQQQQALIEQGR--NIGNDISNFYGVLEDFDRRIKSQSRRLS 1016 (1201)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHH--HHHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            34455555555433333  34444  3466778888888888888887655443

>PRK04863 mukB cell division protein MukB; Provisional

Probab=98.49  E-value=0.0014  Score=82.73  Aligned_cols=45  Identities=16%  Similarity=0.212  Sum_probs=24.9

Q ss_pred             eEcCCCceEEEEecCCCCcccc----cCCCCcHHHHHHHHH--HHHHHccCCCC
Q 005229          643 RQRPWGKWAAEIRDPKKAARIW----LGTFDTAEAAALAYD--EAALRFKGRKA  690 (707)
Q Consensus       643 ~~~~~g~w~a~i~~~~~~~~~~----lG~f~t~e~Aa~ayd--~aa~~~~g~~~  690 (707)
                      =+|.|=.+.++++.++   ..|    .|+-.+-|-...+|-  .|++.||+..+
T Consensus      1340 DyR~~~~f~~~~~~g~---~~~~~~~~~~lSgGE~~~~~~~~l~a~l~~~~~~~ 1390 (1486)
T PRK04863       1340 DYRNYLELEVEVNRGA---DGWLRAESGALSTGEAIGTGMSILVMVVQSWEEES 1390 (1486)
T ss_pred             ccccceEEEEEEecCC---cceeecCCCCCCcchhHHHHHHHHHHHHHHhhhcc
Confidence            3556667778875422   233    456666554444433  46677886543

>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=98.47  E-value=0.0052  Score=71.07  Aligned_cols=111  Identities=14%  Similarity=0.164  Sum_probs=57.5

Q ss_pred             HHHHhhhhhhHHHHH-HHHhhhHhhHHHHHHHhhcCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229            7 EKIMGLGQKRIGEFN-CELELKENELNSLSVSLNLKNKPSSAQEWINKCQAYQKELRLWKNLIEECYDEVELREKKVGEA   85 (707)
Q Consensus         7 ~~~~~~~~~~~~~~~-~eL~l~e~eL~~~~~el~~~~~~l~~~l~~~~~~~~~~el~~l~~~i~e~~~e~~~~~~ei~~l   85 (707)
                      .+..+....+|.++. ..+...+..|..++..+..           .++...+..+..+.+.+..+..++..+...+..|
T Consensus        59 ~~~fe~w~~~w~~i~~~~~~~ie~~L~~ae~~~~~-----------~rf~ka~~~i~~~~~~l~~~e~~i~~i~~~l~~L  127 (560)
T PF06160_consen   59 EEKFEEWRQKWDEIVTKQLPEIEEQLFEAEEYADK-----------YRFKKAKQAIKEIEEQLDEIEEDIKEILDELDEL  127 (560)
T ss_pred             HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHhc-----------ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444555555555555 5555555555555433222           2234445555555555555555555555555555


Q ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHH-----------HHHHHHHHHHHHHHHHHH
Q 005229           86 QRSIEEQEKQLAFKESKISSMQTLI-----------EENEGLLKDKEKLYDEVK  128 (707)
Q Consensus        86 e~~i~e~~~el~ele~ei~~l~~~i-----------~e~~~~l~~~e~e~~~l~  128 (707)
                      ...-+.-+..+..+......+++.+           ..++..+..++..|....
T Consensus       128 ~~~e~~nr~~i~~l~~~y~~lrk~ll~~~~~~G~a~~~Le~~L~~ie~~F~~f~  181 (560)
T PF06160_consen  128 LESEEKNREEIEELKEKYRELRKELLAHSFSYGPAIEELEKQLENIEEEFSEFE  181 (560)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhchhHHHHHHHHHHHHHHHHHHH
Confidence            5555555555555555555555443           344445555555554443

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

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

Probab=98.47  E-value=0.0025  Score=65.90  Aligned_cols=56  Identities=9%  Similarity=0.092  Sum_probs=24.8

Q ss_pred             HHHhHHHHHHHHHHHhhhchhhHHhhhhhhhhHHHHHHHHHHHHHhhhHHHHhhhh
Q 005229          225 KDKELRFVQQSIEECSKEIPGKKEELISKGKTIAECSKEVELKKNQLNLIQDKSSL  280 (707)
Q Consensus       225 ~~~el~~~~~~le~l~~El~~l~~Ele~l~~~l~e~~~~le~k~~ele~l~~~le~  280 (707)
                      +..++..+......+-.++..+..+.++...++..+.++.+..+.+.+.+-..+..
T Consensus       163 l~aei~~lk~~~~e~~eki~~la~eaqe~he~m~k~~~~~De~Rkeade~he~~ve  218 (294)
T COG1340         163 LKAEIDELKKKAREIHEKIQELANEAQEYHEEMIKLFEEADELRKEADELHEEFVE  218 (294)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333444444444444444444444444444445555555444444444433333

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

Probab=98.42  E-value=0.00031  Score=82.42  Aligned_cols=10  Identities=10%  Similarity=0.019  Sum_probs=4.0

Q ss_pred             HHhhcCCccc
Q 005229          523 STTAEGRSAP  532 (707)
Q Consensus       523 ~li~~g~~~~  532 (707)
                      .|-+=+++|.
T Consensus       871 ~~tkl~~~i~  880 (1141)
T KOG0018|consen  871 ELTKLDKEIT  880 (1141)
T ss_pred             HHHHHhhhhh
Confidence            3333344443

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

Probab=98.42  E-value=0.01  Score=73.01  Aligned_cols=59  Identities=24%  Similarity=0.201  Sum_probs=35.8

Q ss_pred             hcccCcHHHHHHHHHHh----hhC-C--------CCCCCHHHHHHHHHHhhhcchhhHHHhhhCCccchhhhHHH
Q 005229          462 VAVENSLEVLGFLHLLA----AYR-L--------APAFDREELESLLCIVAQHRQTPKLRRTLGFADKVPGLQCS  523 (707)
Q Consensus       462 ~~~~~~l~a~~fl~~l~----~fg-i--------~~~f~~~el~~l~~~~~~~~~~~~l~~~lgl~~k~~~~i~~  523 (707)
                      +||+.-+.+++|=+.|+    .++ |        -...|.+-+..|+..+-.....   .+.+|.+-+++.+.+.
T Consensus       817 SGGE~~~~sLalrLALs~~~~~~~~l~~l~LDEpf~~LD~e~l~~l~~~l~~i~~~---~~qiiIISH~eel~e~  888 (908)
T COG0419         817 SGGERFLASLALRLALSDLLQGRARLELLFLDEPFGTLDEERLEKLAEILEELLSD---GRQIIIISHVEELKER  888 (908)
T ss_pred             CchHHHHHHHHHHHHHHHHHhcccCCCeeEeeCCCCCCCHHHHHHHHHHHHHHHhc---CCeEEEEeChHHHHHh
Confidence            55555555555444444    332 2        2344777777777766544433   6778888888888865

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

Probab=98.41  E-value=0.0011  Score=76.41  Aligned_cols=38  Identities=8%  Similarity=-0.010  Sum_probs=23.7

Q ss_pred             HHHHHHhhhhhhHHHHHHHHhhhHhhHHHHHHHhhcCC
Q 005229            5 RVEKIMGLGQKRIGEFNCELELKENELNSLSVSLNLKN   42 (707)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~eL~l~e~eL~~~~~el~~~~   42 (707)
                      .+..++..+.++.......+..+++.|..++..+....
T Consensus        33 qmseev~~L~eEk~~~~~~V~eLE~sL~eLk~q~~~~~   70 (617)
T PF15070_consen   33 QMSEEVRTLKEEKEHDISRVQELERSLSELKNQMAEPP   70 (617)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccC
Confidence            45556666666666666666666666666666555433

>PRK11637 AmiB activator; Provisional

Probab=98.41  E-value=0.00025  Score=79.48  Aligned_cols=8  Identities=13%  Similarity=0.297  Sum_probs=3.9

Q ss_pred             ccceeeeE
Q 005229          637 MHFRGVRQ  644 (707)
Q Consensus       637 s~~rGV~~  644 (707)
                      .-|-+||+
T Consensus       408 ~l~fei~~  415 (428)
T PRK11637        408 SLYFEIRR  415 (428)
T ss_pred             eEEEEEEE
Confidence            34555554

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

Probab=98.39  E-value=0.016  Score=71.23  Aligned_cols=16  Identities=38%  Similarity=0.474  Sum_probs=6.1

Q ss_pred             hHHHHHHHHHHHHHHH
Q 005229          291 ELKEKETHFDSLKKGL  306 (707)
Q Consensus       291 ~~~el~~~~~~le~~L  306 (707)
                      .|+++...+..++..+
T Consensus       601 ~~~~l~~~~~~l~~~~  616 (908)
T COG0419         601 KLKELEERLSQLEELL  616 (908)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            3444444333333333

>PF14915 CCDC144C: CCDC144C protein coiled-coil region

Probab=98.35  E-value=0.0052  Score=63.19  Aligned_cols=199  Identities=12%  Similarity=0.058  Sum_probs=115.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH--
Q 005229           74 EVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLMLCETKLECEKKELELTQSS--  151 (707)
Q Consensus        74 e~~~~~~ei~~le~~i~e~~~el~ele~ei~~l~~~i~e~~~~l~~~e~e~~~l~~ele~le~el~~~~~Ele~~e~~--  151 (707)
                      -+..+..++..|..+-..+...|+.-+..-+.+..+|+++...|...-.+...-+..-..++-......++--.++..  
T Consensus        57 Ti~qy~~QLn~L~aENt~L~SkLe~EKq~kerLEtEiES~rsRLaaAi~d~dqsq~skrdlelafqr~rdEw~~lqdkmn  136 (305)
T PF14915_consen   57 TIFQYNGQLNVLKAENTMLNSKLEKEKQNKERLETEIESYRSRLAAAIQDHDQSQTSKRDLELAFQRARDEWVRLQDKMN  136 (305)
T ss_pred             HHHHHhhhHHHHHHHHHHHhHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhHHHHHhhHHHHHHHHHHHhhHHHHHHHHhc
Confidence            444455555555555555555555555555555555666555555555554443333333333333333333333322  


Q ss_pred             --HHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChhhHHHhH
Q 005229          152 --IKELSMEFHSEEEKLELLQGKVRLHENEVESLEQKLDSMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPASKDKEL  229 (707)
Q Consensus       152 --i~~l~~ele~~e~~l~~le~el~~~~~eL~~~e~el~~~~~ei~el~~ele~k~~e~~e~~~ei~~l~~eie~~~~el  229 (707)
                        +..+....+.+..++...+..+..++.++-.....|.+.---++..+.++...+-.+.+++.-+..-+..+..+-...
T Consensus       137 ~d~S~lkd~ne~LsQqLskaesK~nsLe~elh~trdaLrEKtL~lE~~QrdL~Qtq~q~KE~e~m~qne~~kv~k~~~Kq  216 (305)
T PF14915_consen  137 SDVSNLKDNNEILSQQLSKAESKFNSLEIELHHTRDALREKTLALESVQRDLSQTQCQIKEIEHMYQNEQDKVNKYIGKQ  216 (305)
T ss_pred             chHHhHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence              223333333334445555555555555555555555555555666777777777777777777777777888888888


Q ss_pred             HHHHHHHHHHhhhchhhHHhhhhhhhhHHHHHHHHHHHHHhhh
Q 005229          230 RFVQQSIEECSKEIPGKKEELISKGKTIAECSKEVELKKNQLN  272 (707)
Q Consensus       230 ~~~~~~le~l~~El~~l~~Ele~l~~~l~e~~~~le~k~~ele  272 (707)
                      +.++.++-+++.+..-|+++++...+......+-+-..+..+.
T Consensus       217 es~eERL~QlqsEN~LLrQQLddA~~K~~~kek~ViniQ~~f~  259 (305)
T PF14915_consen  217 ESLEERLSQLQSENMLLRQQLDDAHNKADNKEKTVINIQDQFQ  259 (305)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHH
Confidence            8888888888888888888777666665555555555554443

>KOG4673 consensus Transcription factor TMF, TATA element modulatory factor [Transcription]

Probab=98.33  E-value=0.0054  Score=68.75  Aligned_cols=159  Identities=11%  Similarity=0.092  Sum_probs=70.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH--HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Q 005229           75 VELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENE--GLLKDKEKLYDEVKNSLMLCETKLECEKKELELTQSSI  152 (707)
Q Consensus        75 ~~~~~~ei~~le~~i~e~~~el~ele~ei~~l~~~i~e~~--~~l~~~e~e~~~l~~ele~le~el~~~~~Ele~~e~~i  152 (707)
                      ......++..+++++.-.-++-..+..+++.+++.+...-  ..|.++...+..+..+-+.+.++.-.....|..+..++
T Consensus       404 ~~e~~QRva~lEkKvqa~~kERDalr~e~kslk~ela~~l~~DeLaEkdE~I~~lm~EGEkLSK~ql~qs~iIkKLRAk~  483 (961)
T KOG4673|consen  404 REEYHQRVATLEKKVQALTKERDALRREQKSLKKELAAALLKDELAEKDEIINQLMAEGEKLSKKQLAQSAIIKKLRAKI  483 (961)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHh
Confidence            3344444555555555444444444444444433332221  12334444444444444444444444444444444444


Q ss_pred             HHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChhhHHHhHHHH
Q 005229          153 KELSMEFHSEEEKLELLQGKVRLHENEVESLEQKLDSMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFV  232 (707)
Q Consensus       153 ~~l~~ele~~e~~l~~le~el~~~~~eL~~~e~el~~~~~ei~el~~ele~k~~e~~e~~~ei~~l~~eie~~~~el~~~  232 (707)
                      ++...-++..-+.+..++.+...++.-+..++.--....+-|..++.+++...+.+.+.+..+..++.+.-..+..++.+
T Consensus       484 ke~etl~~K~ge~i~~L~sE~~~lk~il~~Kee~Ek~~~E~I~k~~ae~~rq~~~~~~sr~~~~~le~~~~a~qat~d~a  563 (961)
T KOG4673|consen  484 KEAETLEEKKGELITKLQSEENKLKSILRDKEETEKLLQETIEKHQAELTRQKDYYSNSRALAAALEAQALAEQATNDEA  563 (961)
T ss_pred             hhhhHHHHHhhhHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhh
Confidence            33322222222344445555554444444444333334444555555555555555555555555444444444444443


Q ss_pred             H
Q 005229          233 Q  233 (707)
Q Consensus       233 ~  233 (707)
                      .
T Consensus       564 ~  564 (961)
T KOG4673|consen  564 R  564 (961)
T ss_pred             h
Confidence            3

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

Probab=98.33  E-value=0.0032  Score=75.10  Aligned_cols=25  Identities=24%  Similarity=0.377  Sum_probs=9.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229          169 LQGKVRLHENEVESLEQKLDSMRKQ  193 (707)
Q Consensus       169 le~el~~~~~eL~~~e~el~~~~~e  193 (707)
                      +.+.+..+++++..+++.+.....+
T Consensus       621 ~~e~~~~l~~~i~sL~~~~~~~~~~  645 (1317)
T KOG0612|consen  621 ISEIIAELKEEISSLEETLKAGKKE  645 (1317)
T ss_pred             HHHHHHHHHhHHHHHHHHHHhhhhH
Confidence            3333333344444444333333333

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

Probab=98.32  E-value=0.0037  Score=73.52  Aligned_cols=7  Identities=29%  Similarity=0.197  Sum_probs=2.5

Q ss_pred             HHhhhHh
Q 005229           23 ELELKEN   29 (707)
Q Consensus        23 eL~l~e~   29 (707)
                      +|.-+..
T Consensus      1423 ~l~~~~a 1429 (1758)
T KOG0994|consen 1423 QLRSKLA 1429 (1758)
T ss_pred             HHHHHHH
Confidence            3333333

>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=98.28  E-value=0.015  Score=65.56  Aligned_cols=38  Identities=18%  Similarity=0.105  Sum_probs=24.5

Q ss_pred             HHHhhhhhhHHHHHHHHhhhHhhHHHHHHHhhcCCCCC
Q 005229            8 KIMGLGQKRIGEFNCELELKENELNSLSVSLNLKNKPS   45 (707)
Q Consensus         8 ~~~~~~~~~~~~~~~eL~l~e~eL~~~~~el~~~~~~l   45 (707)
                      +..+.+..+.-....++..++..|+.-++-|....+++
T Consensus        85 ~EaEKIk~WKv~vesd~~qKErkLqenrk~IEaqrKaI  122 (786)
T PF05483_consen   85 KEAEKIKKWKVQVESDLKQKERKLQENRKIIEAQRKAI  122 (786)
T ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444555555666677777777777777777666664

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

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

Probab=98.26  E-value=0.0066  Score=70.26  Aligned_cols=22  Identities=14%  Similarity=0.155  Sum_probs=10.5

Q ss_pred             HHHHhHHHHHHHHHHHHHHHHH
Q 005229           98 FKESKISSMQTLIEENEGLLKD  119 (707)
Q Consensus        98 ele~ei~~l~~~i~e~~~~l~~  119 (707)
                      .+..++..+.++++.+...+..
T Consensus        84 ~Lq~E~~~L~kElE~L~~qlqa  105 (617)
T PF15070_consen   84 QLQAEAEHLRKELESLEEQLQA  105 (617)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            3444445555555555444433

>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=98.26  E-value=0.021  Score=66.18  Aligned_cols=28  Identities=11%  Similarity=0.296  Sum_probs=13.0

Q ss_pred             HHHHHHHHHHHHHhhHHHhHHHHHHHHH
Q 005229          312 DLELKEREFEKRVKEFELREKELDSIRK  339 (707)
Q Consensus       312 eL~~~e~~~~~~~~E~e~~e~~l~~~~~  339 (707)
                      .|......+..+....+.......++.+
T Consensus       466 nm~~v~~~l~~a~~~v~~L~~~t~~li~  493 (560)
T PF06160_consen  466 NMDEVNKQLEEAEDDVETLEEKTEELID  493 (560)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444455444444444444444444

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

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

Probab=98.24  E-value=0.00062  Score=79.75  Aligned_cols=21  Identities=14%  Similarity=0.072  Sum_probs=8.2

Q ss_pred             ChhhHHHhHHHHHHHHHHHhh
Q 005229          221 DPASKDKELRFVQQSIEECSK  241 (707)
Q Consensus       221 eie~~~~el~~~~~~le~l~~  241 (707)
                      +.+.+...+..++.+-..|+.
T Consensus       588 ~~e~L~~aL~amqdk~~~LE~  608 (697)
T PF09726_consen  588 DTEVLMSALSAMQDKNQHLEN  608 (697)
T ss_pred             hHHHHHHHHHHHHHHHHHHHH
Confidence            333344444444433333333

; GO: 0016021 integral to membrane

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

Probab=98.24  E-value=0.0011  Score=75.57  Aligned_cols=68  Identities=12%  Similarity=0.183  Sum_probs=26.3

Q ss_pred             HHHHHHHHHHHHHHhcChhhHHHhHHHHHHHHHHHhhhchhhHHhhhhhhhhHHHHHHHHHHHHHhhh
Q 005229          205 KRELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIPGKKEELISKGKTIAECSKEVELKKNQLN  272 (707)
Q Consensus       205 ~~e~~e~~~ei~~l~~eie~~~~el~~~~~~le~l~~El~~l~~Ele~l~~~l~e~~~~le~k~~ele  272 (707)
                      ...+.+...++..++.++..+-..+...-..++.....-..+-++...++.++..+..++....+.+.
T Consensus       805 ~~~l~~~q~e~~~~keq~~t~~~~tsa~a~~le~m~~~~~~la~e~~~ieq~ls~l~~~~k~~~nli~  872 (970)
T KOG0946|consen  805 STRLQELQSELTQLKEQIQTLLERTSAAADSLESMGSTEKNLANELKLIEQKLSNLQEKIKFGNNLIK  872 (970)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHhhccccchhhHHHHHHHHHHHHHHHhhhhhhHHH
Confidence            33333333444444333333333333333333333333333333333333333333333333333333

>KOG1003 consensus Actin filament-coating protein tropomyosin [Cytoskeleton]

Probab=98.23  E-value=0.0016  Score=62.71  Aligned_cols=99  Identities=20%  Similarity=0.327  Sum_probs=37.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH
Q 005229           53 KCQAYQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLM  132 (707)
Q Consensus        53 ~~~~~~~el~~l~~~i~e~~~e~~~~~~ei~~le~~i~e~~~el~ele~ei~~l~~~i~e~~~~l~~~e~e~~~l~~ele  132 (707)
                      ++..++.++...+........++.........-++.+..+......++.+++.+...+.+....-......+..+.-.|-
T Consensus        12 ri~~leeele~aqErl~~a~~KL~Eaeq~~dE~er~~Kv~enr~~kdEE~~e~~e~qLkEAk~iaE~adrK~eEVarkL~   91 (205)
T KOG1003|consen   12 RIQLLEEELDRAQERLATALQKLEEAEQAADESERGMKVIENRAQKLEEKMEAQEAQLKEAKHIAEKADRKYEEVARKLV   91 (205)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333333333333333333333333333333333333333333333333333333333333333


Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q 005229          133 LCETKLECEKKELELTQSS  151 (707)
Q Consensus       133 ~le~el~~~~~Ele~~e~~  151 (707)
                      .++.+++......+..+..
T Consensus        92 iiE~dLE~~eeraE~~Es~  110 (205)
T KOG1003|consen   92 IIEGELERAEERAEAAESQ  110 (205)
T ss_pred             HHHhHHHHHHHHHHHHHHH
Confidence            3344433333333333333

>KOG4673 consensus Transcription factor TMF, TATA element modulatory factor [Transcription]

Probab=98.22  E-value=0.005  Score=69.06  Aligned_cols=161  Identities=11%  Similarity=0.070  Sum_probs=71.5

Q ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHH
Q 005229           90 EEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLMLCETKLECEKKELELTQSSIKELSMEFHSEEEKLELL  169 (707)
Q Consensus        90 ~e~~~el~ele~ei~~l~~~i~e~~~~l~~~e~e~~~l~~ele~le~el~~~~~Ele~~e~~i~~l~~ele~~e~~l~~l  169 (707)
                      .++...+..+++++..+-++-..+..+++.+.++....-.     ..++.+..+.|..+...=..+.++.......+..+
T Consensus       405 ~e~~QRva~lEkKvqa~~kERDalr~e~kslk~ela~~l~-----~DeLaEkdE~I~~lm~EGEkLSK~ql~qs~iIkKL  479 (961)
T KOG4673|consen  405 EEYHQRVATLEKKVQALTKERDALRREQKSLKKELAAALL-----KDELAEKDEIINQLMAEGEKLSKKQLAQSAIIKKL  479 (961)
T ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhhh-----hHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence            3444445555555555555555555444444433321111     12222223333333333233333322222334444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChhhHHHhHHHHHHHHHHHhhhchhhHHh
Q 005229          170 QGKVRLHENEVESLEQKLDSMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIPGKKEE  249 (707)
Q Consensus       170 e~el~~~~~eL~~~e~el~~~~~ei~el~~ele~k~~e~~e~~~ei~~l~~eie~~~~el~~~~~~le~l~~El~~l~~E  249 (707)
                      +.++.+.+.-++.+-..+..+..+.+.+..-+..++.--......|.++..++.+....+...+.....++..+...+.-
T Consensus       480 RAk~ke~etl~~K~ge~i~~L~sE~~~lk~il~~Kee~Ek~~~E~I~k~~ae~~rq~~~~~~sr~~~~~le~~~~a~qat  559 (961)
T KOG4673|consen  480 RAKIKEAETLEEKKGELITKLQSEENKLKSILRDKEETEKLLQETIEKHQAELTRQKDYYSNSRALAAALEAQALAEQAT  559 (961)
T ss_pred             HHHhhhhhHHHHHhhhHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHh
Confidence            44433333333333344444555555555445444444444555555555555555555555555555555554444444


Q ss_pred             hhhhhh
Q 005229          250 LISKGK  255 (707)
Q Consensus       250 le~l~~  255 (707)
                      ..+...
T Consensus       560 ~d~a~~  565 (961)
T KOG4673|consen  560 NDEARS  565 (961)
T ss_pred             hhhhhh
Confidence            444333

>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=98.21  E-value=0.012  Score=62.69  Aligned_cols=98  Identities=11%  Similarity=0.091  Sum_probs=41.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHH-HHHHHHHHHHHHHHHHHHHHHHHHhHHH
Q 005229           55 QAYQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQLAFKESKISS-MQTLIEENEGLLKDKEKLYDEVKNSLML  133 (707)
Q Consensus        55 ~~~~~el~~l~~~i~e~~~e~~~~~~ei~~le~~i~e~~~el~ele~ei~~-l~~~i~e~~~~l~~~e~e~~~l~~ele~  133 (707)
                      ..+..++.........++.-+..++++-..+..+......+-+....++.. .+..|.++...++........+..+-..
T Consensus        60 ~~l~~E~~k~~~~k~KLE~LCRELQk~Nk~lkeE~~~~~~eee~kR~el~~kFq~~L~dIq~~~ee~~~~~~k~~~eN~~  139 (309)
T PF09728_consen   60 DQLQSELSKAILAKSKLESLCRELQKQNKKLKEESKRRAREEEEKRKELSEKFQATLKDIQAQMEEQSERNIKLREENEE  139 (309)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccchhHHHHHHHHH
Confidence            444444444444444444444444444444443333333333333333222 4444444444444444333334444444


Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q 005229          134 CETKLECEKKELELTQSSI  152 (707)
Q Consensus       134 le~el~~~~~Ele~~e~~i  152 (707)
                      +..++..+.++.+..+..+
T Consensus       140 L~eKlK~l~eQye~rE~~~  158 (309)
T PF09728_consen  140 LREKLKSLIEQYELREEHF  158 (309)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            4445555544444444333

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 [].

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

Probab=98.18  E-value=0.012  Score=63.61  Aligned_cols=137  Identities=11%  Similarity=0.121  Sum_probs=82.5

Q ss_pred             hhHHHHHHHHhhhHhhHHHHHHHhhcCCCC-CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229           15 KRIGEFNCELELKENELNSLSVSLNLKNKP-SSAQEWINKCQAYQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQE   93 (707)
Q Consensus        15 ~~~~~~~~eL~l~e~eL~~~~~el~~~~~~-l~~~l~~~~~~~~~~el~~l~~~i~e~~~e~~~~~~ei~~le~~i~e~~   93 (707)
                      ..+..+.++++.++.+...+...+.+-.+- ..+..+.+++.+++.+...+++....+..+....-..++.+..+|+..+
T Consensus       264 ~~~~~i~~~i~~lk~~n~~l~e~i~ea~k~s~~i~~l~ek~r~l~~D~nk~~~~~~~mk~K~~~~~g~l~kl~~eie~kE  343 (622)
T COG5185         264 KFVHIINTDIANLKTQNDNLYEKIQEAMKISQKIKTLREKWRALKSDSNKYENYVNAMKQKSQEWPGKLEKLKSEIELKE  343 (622)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHH
Confidence            334445555555555555554444443332 2355667888888888888888888888888888888888877777777


Q ss_pred             HHHHHHHHhHHHHHHHHHHHH---HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 005229           94 KQLAFKESKISSMQTLIEENE---GLLKDKEKLYDEVKNSLMLCETKLECEKKELELTQSS  151 (707)
Q Consensus        94 ~el~ele~ei~~l~~~i~e~~---~~l~~~e~e~~~l~~ele~le~el~~~~~Ele~~e~~  151 (707)
                      .+|..++..+..+...+....   .+.+.+-.+...+-.+++.+.-+.+.+.+.+-..+-.
T Consensus       344 eei~~L~~~~d~L~~q~~kq~Is~e~fe~mn~Ere~L~reL~~i~~~~~~L~k~V~~~~le  404 (622)
T COG5185         344 EEIKALQSNIDELHKQLRKQGISTEQFELMNQEREKLTRELDKINIQSDKLTKSVKSRKLE  404 (622)
T ss_pred             HHHHHHHhhHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHhHHHH
Confidence            777777777777776665542   2223333344444444444444444444444443333

>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD

Probab=98.16  E-value=0.012  Score=69.55  Aligned_cols=69  Identities=20%  Similarity=0.253  Sum_probs=40.2

Q ss_pred             HhhhHhhHHHHHHHhhcCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229           24 LELKENELNSLSVSLNLKNKPSSAQEWINKCQAYQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQ   95 (707)
Q Consensus        24 L~l~e~eL~~~~~el~~~~~~l~~~l~~~~~~~~~~el~~l~~~i~e~~~e~~~~~~ei~~le~~i~e~~~e   95 (707)
                      ++.+..+|..+..+......   ..-+..+++.++.++..+...+..+..++..++.++..++.++.++...
T Consensus       184 ~~~L~~dl~~~~~~~~~~~~---~~~~~~~~~~le~el~~l~~~~e~l~~~i~~l~~ele~a~~~l~~l~~~  252 (650)
T TIGR03185       184 IDRLAGDLTNVLRRRKKSEL---PSSILSEIEALEAELKEQSEKYEDLAQEIAHLRNELEEAQRSLESLEKK  252 (650)
T ss_pred             HHHHHHHHHHHHHHHHhccc---chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44455555555444333221   2335566666666666666666666666666666666666666666554

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.

>KOG1003 consensus Actin filament-coating protein tropomyosin [Cytoskeleton]

Probab=98.16  E-value=0.0037  Score=60.19  Aligned_cols=194  Identities=17%  Similarity=0.222  Sum_probs=94.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Q 005229           74 EVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLMLCETKLECEKKELELTQSSIK  153 (707)
Q Consensus        74 e~~~~~~ei~~le~~i~e~~~el~ele~ei~~l~~~i~e~~~~l~~~e~e~~~l~~ele~le~el~~~~~Ele~~e~~i~  153 (707)
                      ++..+..+|..++.+...+...+.....++....+.-.+-...++.+++.......+++.++..+...+.--+.......
T Consensus         5 ~va~lnrri~~leeele~aqErl~~a~~KL~Eaeq~~dE~er~~Kv~enr~~kdEE~~e~~e~qLkEAk~iaE~adrK~e   84 (205)
T KOG1003|consen    5 DVAALNRRIQLLEEELDRAQERLATALQKLEEAEQAADESERGMKVIENRAQKLEEKMEAQEAQLKEAKHIAEKADRKYE   84 (205)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444555555555555555555555555555555555555555555555555555555555555444444443434


Q ss_pred             HHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChhhHHHhHHHHH
Q 005229          154 ELSMEFHSEEEKLELLQGKVRLHENEVESLEQKLDSMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQ  233 (707)
Q Consensus       154 ~l~~ele~~e~~l~~le~el~~~~~eL~~~e~el~~~~~ei~el~~ele~k~~e~~e~~~ei~~l~~eie~~~~el~~~~  233 (707)
                      +....|--++..+.........-++.+..+..++.-+..-++.+...-+.........+..|..+..++......-+..+
T Consensus        85 EVarkL~iiE~dLE~~eeraE~~Es~~~eLeEe~~~~~~nlk~l~~~ee~~~q~~d~~e~~ik~ltdKLkEaE~rAE~aE  164 (205)
T KOG1003|consen   85 EVARKLVIIEGELERAEERAEAAESQSEELEEDLRILDSNLKSLSAKEEKLEQKEEKYEEELKELTDKLKEAETRAEFAE  164 (205)
T ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhHhHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhhhhhhHHHHH
Confidence            43333333333333333333333333344333333333334444333344444444445555555555555555555555


Q ss_pred             HHHHHHhhhchhhHHhhhhhhhhHHHHHHHHHHH
Q 005229          234 QSIEECSKEIPGKKEELISKGKTIAECSKEVELK  267 (707)
Q Consensus       234 ~~le~l~~El~~l~~Ele~l~~~l~e~~~~le~k  267 (707)
                      ..+..|+++...++..+...+..+......|+..
T Consensus       165 RsVakLeke~DdlE~kl~~~k~ky~~~~~eLD~~  198 (205)
T KOG1003|consen  165 RRVAKLEKERDDLEEKLEEAKEKYEEAKKELDET  198 (205)
T ss_pred             HHHHHHcccHHHHHHhhHHHHHHHHHHHHHHHHH
Confidence            5555566666666655555555555555555544

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

Probab=98.16  E-value=4e-07  Score=109.43  Aligned_cols=13  Identities=15%  Similarity=0.112  Sum_probs=0.0

Q ss_pred             HHHhhhhhhHHHH
Q 005229            8 KIMGLGQKRIGEF   20 (707)
Q Consensus         8 ~~~~~~~~~~~~~   20 (707)
                      .+++.++.....+
T Consensus       138 eqle~lqk~k~~l  150 (859)
T PF01576_consen  138 EQLEQLQKQKAKL  150 (859)
T ss_dssp             -------------
T ss_pred             HHHHHHHHHHHHH
Confidence            3333333333333

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.

>COG4372 Uncharacterized protein conserved in bacteria with the myosin-like domain [Function unknown]

Probab=98.16  E-value=0.0035  Score=65.96  Aligned_cols=98  Identities=12%  Similarity=0.191  Sum_probs=51.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 005229           81 KVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLMLCETKLECEKKELELTQSSIKELSMEFH  160 (707)
Q Consensus        81 ei~~le~~i~e~~~el~ele~ei~~l~~~i~e~~~~l~~~e~e~~~l~~ele~le~el~~~~~Ele~~e~~i~~l~~ele  160 (707)
                      ++.+|..++...+.++...+.+......+-+....++.....+.+.++.++..+...+.....++..+.+.-..++.++.
T Consensus        75 qlddi~~qlr~~rtel~~a~~~k~~~e~er~~~~~El~~~r~e~~~v~~~~~~a~~n~~kAqQ~lar~t~Q~q~lqtrl~  154 (499)
T COG4372          75 QLDDIRPQLRALRTELGTAQGEKRAAETEREAARSELQKARQEREAVRQELAAARQNLAKAQQELARLTKQAQDLQTRLK  154 (499)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444555555555555555555555555555555555555555566666666666666666666665555555555544


Q ss_pred             hHHHHHHHHHHHHHHHHH
Q 005229          161 SEEEKLELLQGKVRLHEN  178 (707)
Q Consensus       161 ~~e~~l~~le~el~~~~~  178 (707)
                      .+-++...+..+...+..
T Consensus       155 ~l~~qr~ql~aq~qsl~a  172 (499)
T COG4372         155 TLAEQRRQLEAQAQSLQA  172 (499)
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            443333333333333333

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

Probab=98.13  E-value=0.0073  Score=69.58  Aligned_cols=84  Identities=17%  Similarity=0.278  Sum_probs=41.1

Q ss_pred             HHHHHHHHHHHHHHHHHHhcChhhHHHhHHHHHHHHHHHhhhch--hhHHhhhhhhhhHHHHHHHHHHHHHhhhHHHHhh
Q 005229          201 VELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIP--GKKEELISKGKTIAECSKEVELKKNQLNLIQDKS  278 (707)
Q Consensus       201 le~k~~e~~e~~~ei~~l~~eie~~~~el~~~~~~le~l~~El~--~l~~Ele~l~~~l~e~~~~le~k~~ele~l~~~l  278 (707)
                      ...+-.++..+..+++.+..++..++..+..+..+++.+-+...  .+-..|=++-+.|.....+|+..-.+-..++.++
T Consensus       442 ~~~~~~~ik~~r~~~k~~~~e~~~Kee~~~qL~~e~e~~~k~~~Rs~Yt~RIlEIv~NI~KQk~eI~KIl~DTr~lQkei  521 (594)
T PF05667_consen  442 SKQKLQEIKELREEIKEIEEEIRQKEELYKQLVKELEKLPKDVNRSAYTRRILEIVKNIRKQKEEIEKILSDTRELQKEI  521 (594)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344444444555555444444444444444444444444422  1223344444555555555555555555666666


Q ss_pred             hhhhhH
Q 005229          279 SLFQTR  284 (707)
Q Consensus       279 e~le~~  284 (707)
                      ..+.++
T Consensus       522 N~l~gk  527 (594)
T PF05667_consen  522 NSLTGK  527 (594)
T ss_pred             HHHHHH
Confidence            666555

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

Probab=98.10  E-value=0.006  Score=66.27  Aligned_cols=66  Identities=21%  Similarity=0.224  Sum_probs=28.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Q 005229           55 QAYQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDK  120 (707)
Q Consensus        55 ~~~~~el~~l~~~i~e~~~e~~~~~~ei~~le~~i~e~~~el~ele~ei~~l~~~i~e~~~~l~~~  120 (707)
                      ...+.++..++.+|.....+...++++|..++.+|......+.+....+..+.+.|......+..+
T Consensus        41 ~q~q~ei~~~~~~i~~~~~~~~kL~~~lk~~e~~i~~~~~ql~~s~~~l~~~~~~I~~~~~~l~~l  106 (420)
T COG4942          41 KQIQKEIAALEKKIREQQDQRAKLEKQLKSLETEIASLEAQLIETADDLKKLRKQIADLNARLNAL  106 (420)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHH
Confidence            344444444444444444444444444444444444444444444444444444444443333333

>KOG0963 consensus Transcription factor/CCAAT displacement protein CDP1 [Transcription]

Probab=98.10  E-value=0.035  Score=62.51  Aligned_cols=43  Identities=23%  Similarity=0.480  Sum_probs=23.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhHHHHHHHHH
Q 005229          296 ETHFDSLKKGLEDRLQDLELKEREFEKRVKEFELREKELDSIRK  339 (707)
Q Consensus       296 ~~~~~~le~~L~~~~~eL~~~e~~~~~~~~E~e~~e~~l~~~~~  339 (707)
                      ...+..+++.+......|+.+...+... ..|+..++++.-+..
T Consensus       316 ~~qI~~le~~l~~~~~~leel~~kL~~~-sDYeeIK~ELsiLk~  358 (629)
T KOG0963|consen  316 KAQISALEKELKAKISELEELKEKLNSR-SDYEEIKKELSILKA  358 (629)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhh-ccHHHHHHHHHHHHH
Confidence            3345555666666666666655555544 556666555555444

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

Probab=98.07  E-value=0.0023  Score=73.18  Aligned_cols=238  Identities=13%  Similarity=0.120  Sum_probs=105.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 005229           72 YDEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLMLCETKLECEKKELELTQSS  151 (707)
Q Consensus        72 ~~e~~~~~~ei~~le~~i~e~~~el~ele~ei~~l~~~i~e~~~~l~~~e~e~~~l~~ele~le~el~~~~~Ele~~e~~  151 (707)
                      +..-+...+..+.+...+..++..+.++...++.+++...+++.+.+.++.+++....+..+++.+..-++.++......
T Consensus       642 e~~~~~~~k~~e~l~~~~~kyK~lI~~lD~~~e~lkQ~~~~l~~e~eeL~~~vq~~~s~hsql~~q~~~Lk~qLg~~~~~  721 (970)
T KOG0946|consen  642 EEQTQLAEKYHEELDDIQQKYKGLIRELDYQIENLKQMEKELQVENEELEEEVQDFISEHSQLKDQLDLLKNQLGIISSK  721 (970)
T ss_pred             chhhHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccc
Confidence            33444555556666666666666666666666666665555555555555555555555555555555555554422222


Q ss_pred             HHHHHHh---hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChhhHHHh
Q 005229          152 IKELSME---FHSEEEKLELLQGKVRLHENEVESLEQKLDSMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPASKDKE  228 (707)
Q Consensus       152 i~~l~~e---le~~e~~l~~le~el~~~~~eL~~~e~el~~~~~ei~el~~ele~k~~e~~e~~~ei~~l~~eie~~~~e  228 (707)
                      ...+...   .....+.+..+..+...+..+.....+++...+.-+..+.+.............-....-+. +.+...+
T Consensus       722 ~~~~~q~~e~~~t~~eel~a~~~e~k~l~~~q~~l~~~L~k~~~~~es~k~~~~~a~~~~~~~~~~~~~qeq-v~El~~~  800 (970)
T KOG0946|consen  722 QRDLLQGAEASKTQNEELNAALSENKKLENDQELLTKELNKKNADIESFKATQRSAELSQGSLNDNLGDQEQ-VIELLKN  800 (970)
T ss_pred             hhhHHhHHHhccCChHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhhcccchhhhhhhhHHH-HHHHHHh
Confidence            2222111   11222334444444444444444444444433333333333332222111111111111111 1122222


Q ss_pred             HHHHHHHHHHHhhhchhhHHhhhhhhhhHHHHHHHHHHHHHhhhHHHHhhhhhhhHHHHHHHhHHHHHHHHHHHHHHHHH
Q 005229          229 LRFVQQSIEECSKEIPGKKEELISKGKTIAECSKEVELKKNQLNLIQDKSSLFQTRTIVYLKELKEKETHFDSLKKGLED  308 (707)
Q Consensus       229 l~~~~~~le~l~~El~~l~~Ele~l~~~l~e~~~~le~k~~ele~l~~~le~le~~~~~~~~~~~el~~~~~~le~~L~~  308 (707)
                      +.....++.+++.++..++++++.+...+......++.....-..+-.....       .+.++..+.+.|......+..
T Consensus       801 l~e~~~~l~~~q~e~~~~keq~~t~~~~tsa~a~~le~m~~~~~~la~e~~~-------ieq~ls~l~~~~k~~~nli~~  873 (970)
T KOG0946|consen  801 LSEESTRLQELQSELTQLKEQIQTLLERTSAAADSLESMGSTEKNLANELKL-------IEQKLSNLQEKIKFGNNLIKE  873 (970)
T ss_pred             hhhhhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHhhccccchhhHHHH-------HHHHHHHHHHHhhhhhhHHHH
Confidence            4445555555555555555555555555555555555443322222111111       222233333345555555555


Q ss_pred             HHHHHHHHH
Q 005229          309 RLQDLELKE  317 (707)
Q Consensus       309 ~~~eL~~~e  317 (707)
                      ..+.+.+++
T Consensus       874 ltEk~~sl~  882 (970)
T KOG0946|consen  874 LTEKISSLE  882 (970)
T ss_pred             HhhhhhhHH
Confidence            555555544

>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=98.07  E-value=0.05  Score=63.53  Aligned_cols=76  Identities=12%  Similarity=0.128  Sum_probs=39.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229           53 KCQAYQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQ---LAFKESKISSMQTLIEENEGLLKDKEKLYDEVK  128 (707)
Q Consensus        53 ~~~~~~~el~~l~~~i~e~~~e~~~~~~ei~~le~~i~e~~~e---l~ele~ei~~l~~~i~e~~~~l~~~e~e~~~l~  128 (707)
                      +...++.++.+++..-..+-.+..+++.+--.|++++..++..   ++.++.+|..+..++.-+...++....-....+
T Consensus        77 ~~~~lr~e~ke~K~rE~rll~dyselEeENislQKqvs~Lk~sQvefE~~Khei~rl~Ee~~~l~~qlee~~rLk~iae  155 (717)
T PF09730_consen   77 ERKRLREEIKEYKFREARLLQDYSELEEENISLQKQVSVLKQSQVEFEGLKHEIKRLEEEIELLNSQLEEAARLKEIAE  155 (717)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444555555444445555555555555555555555543   555555555555555555555555444444333

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

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

Probab=98.06  E-value=0.00071  Score=68.36  Aligned_cols=21  Identities=19%  Similarity=0.360  Sum_probs=7.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHH
Q 005229          167 ELLQGKVRLHENEVESLEQKL  187 (707)
Q Consensus       167 ~~le~el~~~~~eL~~~e~el  187 (707)
                      ..++.++..+..+++..+..+
T Consensus        62 ~~~e~ei~~~r~r~~~~e~kl   82 (239)
T COG1579          62 SQLESEIQEIRERIKRAEEKL   82 (239)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333333333

>COG4372 Uncharacterized protein conserved in bacteria with the myosin-like domain [Function unknown]

Probab=98.04  E-value=0.014  Score=61.49  Aligned_cols=96  Identities=10%  Similarity=0.116  Sum_probs=42.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHH
Q 005229           56 AYQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLMLCE  135 (707)
Q Consensus        56 ~~~~el~~l~~~i~e~~~e~~~~~~ei~~le~~i~e~~~el~ele~ei~~l~~~i~e~~~~l~~~e~e~~~l~~ele~le  135 (707)
                      .+...|..+..++...+.++...+.+-+....+.+.-..+-+..+.++...++.+......+....+..+.++.++..+-
T Consensus        78 di~~qlr~~rtel~~a~~~k~~~e~er~~~~~El~~~r~e~~~v~~~~~~a~~n~~kAqQ~lar~t~Q~q~lqtrl~~l~  157 (499)
T COG4372          78 DIRPQLRALRTELGTAQGEKRAAETEREAARSELQKARQEREAVRQELAAARQNLAKAQQELARLTKQAQDLQTRLKTLA  157 (499)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333333333333333444444444444444444444444444444444555555555555555


Q ss_pred             HHHHHHHHHHHHHHHH
Q 005229          136 TKLECEKKELELTQSS  151 (707)
Q Consensus       136 ~el~~~~~Ele~~e~~  151 (707)
                      .+...+..+..++...
T Consensus       158 ~qr~ql~aq~qsl~a~  173 (499)
T COG4372         158 EQRRQLEAQAQSLQAS  173 (499)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            5555554444444333

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

Probab=98.00  E-value=0.0013  Score=61.93  Aligned_cols=64  Identities=17%  Similarity=0.192  Sum_probs=29.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHH
Q 005229           56 AYQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKD  119 (707)
Q Consensus        56 ~~~~el~~l~~~i~e~~~e~~~~~~ei~~le~~i~e~~~el~ele~ei~~l~~~i~e~~~~l~~  119 (707)
                      .++.+..........+..+++.++.+...++.+|..+...+..++.++..+...+......+..
T Consensus         4 ~lk~E~d~a~~r~e~~e~~~K~le~~~~~~E~EI~sL~~K~~~lE~eld~~~~~l~~~k~~lee   67 (143)
T PF12718_consen    4 ALKLEADNAQDRAEELEAKVKQLEQENEQKEQEITSLQKKNQQLEEELDKLEEQLKEAKEKLEE   67 (143)
T ss_pred             HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3444444444444444444444444444444444444444444444444444444444433333

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 [].

>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=97.96  E-value=0.08  Score=61.88  Aligned_cols=50  Identities=14%  Similarity=0.167  Sum_probs=22.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhcChhhHHHhHHHHHHHHHHHhhhc
Q 005229          194 QKKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEI  243 (707)
Q Consensus       194 i~el~~ele~k~~e~~e~~~ei~~l~~eie~~~~el~~~~~~le~l~~El  243 (707)
                      |..+...+.+.+.+...+...+...+..++.-+..+.....++..|...+
T Consensus       267 iqKL~qQL~qve~EK~~L~~~L~e~Q~qLe~a~~als~q~eki~~L~e~l  316 (717)
T PF09730_consen  267 IQKLKQQLLQVEREKSSLLSNLQESQKQLEHAQGALSEQQEKINRLTEQL  316 (717)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444444444444444444444444444444443333

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

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

Probab=97.93  E-value=0.0022  Score=60.27  Aligned_cols=12  Identities=17%  Similarity=0.268  Sum_probs=4.2

Q ss_pred             HHHHHHHHhHHH
Q 005229           94 KQLAFKESKISS  105 (707)
Q Consensus        94 ~el~ele~ei~~  105 (707)
                      .+++.++..+..
T Consensus        49 ~eld~~~~~l~~   60 (143)
T PF12718_consen   49 EELDKLEEQLKE   60 (143)
T ss_pred             HHHHHHHHHHHH
Confidence            333333333333

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 [].

>PF15619 Lebercilin: Ciliary protein causing Leber congenital amaurosis disease

Probab=97.91  E-value=0.014  Score=57.87  Aligned_cols=93  Identities=16%  Similarity=0.155  Sum_probs=36.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Q 005229           55 QAYQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLMLC  134 (707)
Q Consensus        55 ~~~~~el~~l~~~i~e~~~e~~~~~~ei~~le~~i~e~~~el~ele~ei~~l~~~i~e~~~~l~~~e~e~~~l~~ele~l  134 (707)
                      ..++.++.++...+.++..+...+..--..-++.+..|...-.++-       ..|..+..++..+...+...+.....+
T Consensus        15 ~~L~n~l~elq~~l~~l~~ENk~Lk~lq~Rq~kAL~k~e~~e~~Lp-------qll~~h~eEvr~Lr~~LR~~q~~~r~~   87 (194)
T PF15619_consen   15 KELQNELAELQRKLQELRKENKTLKQLQKRQEKALQKYEDTEAELP-------QLLQRHNEEVRVLRERLRKSQEQEREL   87 (194)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444444443333333333333333333333333333       334444444444444444444444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q 005229          135 ETKLECEKKELELTQSSIKE  154 (707)
Q Consensus       135 e~el~~~~~Ele~~e~~i~~  154 (707)
                      +..+.....++-.....+..
T Consensus        88 ~~klk~~~~el~k~~~~l~~  107 (194)
T PF15619_consen   88 ERKLKDKDEELLKTKDELKH  107 (194)
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            44444444444444444333

>KOG4809 consensus Rab6 GTPase-interacting protein involved in endosome-to-TGN transport [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.90  E-value=0.067  Score=59.02  Aligned_cols=134  Identities=16%  Similarity=0.144  Sum_probs=78.8

Q ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229          128 KNSLMLCETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLEQKLDSMRKQQKKYFDDVELKKRE  207 (707)
Q Consensus       128 ~~ele~le~el~~~~~Ele~~e~~i~~l~~ele~~e~~l~~le~el~~~~~eL~~~e~el~~~~~ei~el~~ele~k~~e  207 (707)
                      ..+|+..+.+...+.+.+..++..+.+....+..+.+....+........++|..++..|+..++++-.+...+....+.
T Consensus       330 ~EeIe~~~ke~kdLkEkv~~lq~~l~eke~sl~dlkehassLas~glk~ds~Lk~leIalEqkkEec~kme~qLkkAh~~  409 (654)
T KOG4809|consen  330 LEEIESFRKENKDLKEKVNALQAELTEKESSLIDLKEHASSLASAGLKRDSKLKSLEIALEQKKEECSKMEAQLKKAHNI  409 (654)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            34556666666666666666665555555555555555666666666667777777777777666666666666555444


Q ss_pred             HH------HHHHHHHHHhcChhhHHHhHHHHHHHHHHHhhhchhhHHhhhhhhhhHHHHH
Q 005229          208 LN------EIRKYIEELNQDPASKDKELRFVQQSIEECSKEIPGKKEELISKGKTIAECS  261 (707)
Q Consensus       208 ~~------e~~~ei~~l~~eie~~~~el~~~~~~le~l~~El~~l~~Ele~l~~~l~e~~  261 (707)
                      ..      +....|..++.++..++.++......++++..=+...+++.....+.+.+..
T Consensus       410 ~ddar~~pe~~d~i~~le~e~~~y~de~~kaqaevdrlLeilkeveneKnDkdkkiaele  469 (654)
T KOG4809|consen  410 EDDARMNPEFADQIKQLEKEASYYRDECGKAQAEVDRLLEILKEVENEKNDKDKKIAELE  469 (654)
T ss_pred             hHhhhcChhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccchhhhcC
Confidence            32      2334556666666666666666666666655555555554444444444443

>KOG4809 consensus Rab6 GTPase-interacting protein involved in endosome-to-TGN transport [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.90  E-value=0.067  Score=59.01  Aligned_cols=17  Identities=6%  Similarity=-0.257  Sum_probs=8.3

Q ss_pred             hhhHHHHhhcCCchhhH
Q 005229          383 CKVFDTIKSARDPALLV  399 (707)
Q Consensus       383 ~e~~~al~~a~dpa~lV  399 (707)
                      .-..+++..+|+|+..|
T Consensus       616 ~~~~~~~~~~~ln~~d~  632 (654)
T KOG4809|consen  616 SIGLAAVAMDVLNTGDV  632 (654)
T ss_pred             HHHHHhcccCCCCCCcc
Confidence            33444555555555443

>COG4477 EzrA Negative regulator of septation ring formation [Cell division and chromosome partitioning]

Probab=97.85  E-value=0.082  Score=58.60  Aligned_cols=90  Identities=17%  Similarity=0.145  Sum_probs=59.2

Q ss_pred             HHHHHHhhhhhhHHHHHHHHhhhHhhHHHHHHHhhcCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229            5 RVEKIMGLGQKRIGEFNCELELKENELNSLSVSLNLKNKPSSAQEWINKCQAYQKELRLWKNLIEECYDEVELREKKVGE   84 (707)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~eL~l~e~eL~~~~~el~~~~~~l~~~l~~~~~~~~~~el~~l~~~i~e~~~e~~~~~~ei~~   84 (707)
                      .++..++.+..=+.++++++=---.+|...-+++......+.-.-+..+++.++..+......+.++  ++...+.++..
T Consensus       208 ~L~~~~e~IP~L~~e~~~~lP~ql~~Lk~Gyr~m~~~gY~l~~~~id~~~~~L~~~l~~~~~~l~~L--eld~aeeel~~  285 (570)
T COG4477         208 ALRSIMERIPSLLAELQTELPGQLQDLKAGYRDMKEEGYHLEHVNIDSRLERLKEQLVENSELLTQL--ELDEAEEELGL  285 (570)
T ss_pred             HHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHccCCcccccHHHHHHHHHHHHHHHHhHHHHh--hhhhHHHHHHH
Confidence            3556666666777777777766667777777888888888765556666666666666555444433  45566666666


Q ss_pred             HHHHHHHHHHHH
Q 005229           85 AQRSIEEQEKQL   96 (707)
Q Consensus        85 le~~i~e~~~el   96 (707)
                      ++..|+.+-.-+
T Consensus       286 I~e~ie~lYd~l  297 (570)
T COG4477         286 IQEKIESLYDLL  297 (570)
T ss_pred             HHHHHHHHHHHH
Confidence            666666665443

>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD

Probab=97.85  E-value=0.09  Score=62.23  Aligned_cols=18  Identities=28%  Similarity=0.231  Sum_probs=10.9

Q ss_pred             hcccCcHHHHHHHHHHhh
Q 005229          462 VAVENSLEVLGFLHLLAA  479 (707)
Q Consensus       462 ~~~~~~l~a~~fl~~l~~  479 (707)
                      ++|++.+-+++|+..|+.
T Consensus       553 S~Ge~~~~~la~~~al~~  570 (650)
T TIGR03185       553 SAGERQILAIALLWGLAK  570 (650)
T ss_pred             CHHHHHHHHHHHHHHHHH
Confidence            444555666677666654

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.

>KOG0963 consensus Transcription factor/CCAAT displacement protein CDP1 [Transcription]

Probab=97.85  E-value=0.094  Score=59.13  Aligned_cols=34  Identities=21%  Similarity=0.355  Sum_probs=18.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhHHHhHHHHH
Q 005229          302 LKKGLEDRLQDLELKEREFEKRVKEFELREKELD  335 (707)
Q Consensus       302 le~~L~~~~~eL~~~e~~~~~~~~E~e~~e~~l~  335 (707)
                      +...++....++..++..+..+..+++..+..+.
T Consensus       308 ~~~e~e~~~~qI~~le~~l~~~~~~leel~~kL~  341 (629)
T KOG0963|consen  308 LVEEREKHKAQISALEKELKAKISELEELKEKLN  341 (629)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3344445555566666666666665555544443

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

Probab=97.82  E-value=0.033  Score=64.70  Aligned_cols=59  Identities=22%  Similarity=0.214  Sum_probs=31.7

Q ss_pred             CCCCCHHHHHHHHHH---HHHHHHhhhhc----ccCcHHHHHHHHHHhhhCCCC-----CCCHHHHHHHHH
Q 005229          438 EPEINAQVRDEAMKV---AGEWKKKMRVA----VENSLEVLGFLHLLAAYRLAP-----AFDREELESLLC  496 (707)
Q Consensus       438 ~~~~~~~v~~~A~~~---A~~Wk~~~~~~----~~~~l~a~~fl~~l~~fgi~~-----~f~~~el~~l~~  496 (707)
                      +|..+..|..-.+..   |......+...    .+......-.|+-+..||.--     +.+.++|-+||+
T Consensus       680 ~~e~~d~v~~l~k~~~~~a~~~~~~l~~~~al~~~d~~~l~~~lq~~~~~~eel~~~~~di~~e~l~~lld  750 (980)
T KOG0980|consen  680 SPEGSDRVNDLCKKCGREALAFLVSLSSENALERGDEMLLRQYLQTLNQLGEELLPKELDIDQELLGNLLD  750 (980)
T ss_pred             CCchhHHHHHHHHHHHHHHHHHHHHHhhhhHHHhhHHHHHHHHHHHHHHHhHHhccccchhhHHHHHHHHH
Confidence            555566666666666   44444444322    122345555667777776432     445566555554

>PF15619 Lebercilin: Ciliary protein causing Leber congenital amaurosis disease

Probab=97.82  E-value=0.013  Score=58.07  Aligned_cols=35  Identities=17%  Similarity=0.266  Sum_probs=15.9

Q ss_pred             hHHHHHHHHHHHhhhchhhHHhhhhhhhhHHHHHH
Q 005229          228 ELRFVQQSIEECSKEIPGKKEELISKGKTIAECSK  262 (707)
Q Consensus       228 el~~~~~~le~l~~El~~l~~Ele~l~~~l~e~~~  262 (707)
                      ++.........+..++..+..++..+...|.+..+
T Consensus       158 ql~~e~kK~~~~~~~~~~l~~ei~~L~~klkEKer  192 (194)
T PF15619_consen  158 QLASEKKKHKEAQEEVKSLQEEIQRLNQKLKEKER  192 (194)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            33334444444444444444444444444444433

>PF14662 CCDC155: Coiled-coil region of CCDC155

Probab=97.77  E-value=0.035  Score=53.81  Aligned_cols=99  Identities=13%  Similarity=0.054  Sum_probs=42.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229          110 IEENEGLLKDKEKLYDEVKNSLMLCETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLEQKLDS  189 (707)
Q Consensus       110 i~e~~~~l~~~e~e~~~l~~ele~le~el~~~~~Ele~~e~~i~~l~~ele~~e~~l~~le~el~~~~~eL~~~e~el~~  189 (707)
                      -..+-..-+.++.+.+.+..++..++.+...+..+.+.+..++.++..+...+..++-..+.-+.....-+.+....+..
T Consensus        83 ~~~L~aq~rqlEkE~q~L~~~i~~Lqeen~kl~~e~~~lk~~~~eL~~~~~~Lq~Ql~~~e~l~~~~da~l~e~t~~i~e  162 (193)
T PF14662_consen   83 NRSLLAQARQLEKEQQSLVAEIETLQEENGKLLAERDGLKKRSKELATEKATLQRQLCEFESLICQRDAILSERTQQIEE  162 (193)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHhhhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHhhHHH
Confidence            33333333444444445555555555555555555555555555554443333333333333333333333333333333


Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q 005229          190 MRKQQKKYFDDVELKKREL  208 (707)
Q Consensus       190 ~~~ei~el~~ele~k~~e~  208 (707)
                      +..-+.++..-.+.++.++
T Consensus       163 L~~~ieEy~~~teeLR~e~  181 (193)
T PF14662_consen  163 LKKTIEEYRSITEELRLEK  181 (193)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333

>KOG0999 consensus Microtubule-associated protein Bicaudal-D [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.77  E-value=0.086  Score=58.16  Aligned_cols=30  Identities=23%  Similarity=0.060  Sum_probs=12.9

Q ss_pred             HHHhHHHHHHHHHHHhhhchhhHHhhhhhh
Q 005229          225 KDKELRFVQQSIEECSKEIPGKKEELISKG  254 (707)
Q Consensus       225 ~~~el~~~~~~le~l~~El~~l~~Ele~l~  254 (707)
                      ++.++.+.+-+..++..++.++++|=-+++
T Consensus       154 lr~elKe~KfRE~RllseYSELEEENIsLQ  183 (772)
T KOG0999|consen  154 LRDELKEYKFREARLLSEYSELEEENISLQ  183 (772)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhcchHH
Confidence            333444444444444444444444433333

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

Probab=97.76  E-value=0.035  Score=64.45  Aligned_cols=28  Identities=25%  Similarity=0.271  Sum_probs=22.2

Q ss_pred             HHHHHHHhhhCCCCCCCHHHHHHHHHHh
Q 005229          471 LGFLHLLAAYRLAPAFDREELESLLCIV  498 (707)
Q Consensus       471 ~~fl~~l~~fgi~~~f~~~el~~l~~~~  498 (707)
                      -.-.||||+=.+..+++..-+.+|=.+.
T Consensus       878 AsTaQLVaASrVKA~k~S~~ld~L~~as  905 (980)
T KOG0980|consen  878 ASTAQLVAASRVKADKDSKKLDALEVAS  905 (980)
T ss_pred             HHHHHHHHHHHhhccccchhhHHHHHHH
Confidence            3467899999999999988888875544

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

Probab=97.75  E-value=0.058  Score=58.81  Aligned_cols=7  Identities=29%  Similarity=0.691  Sum_probs=3.7

Q ss_pred             HHHHhhh
Q 005229          455 EWKKKMR  461 (707)
Q Consensus       455 ~Wk~~~~  461 (707)
                      .||..+-
T Consensus       320 ~wkG~vi  326 (420)
T COG4942         320 RWKGMVI  326 (420)
T ss_pred             cccceEE
Confidence            4666543

>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=97.75  E-value=0.037  Score=65.29  Aligned_cols=43  Identities=5%  Similarity=0.191  Sum_probs=22.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229           53 KCQAYQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQ   95 (707)
Q Consensus        53 ~~~~~~~el~~l~~~i~e~~~e~~~~~~ei~~le~~i~e~~~e   95 (707)
                      .+..++.+...++...+.....+..++.++..++++++.+...
T Consensus       182 eL~~lr~~e~~Le~~~~~~~~~l~~L~~~~~~l~kdVE~~rer  224 (1072)
T KOG0979|consen  182 ELMDLREDEKSLEDKLTTKTEKLNRLEDEIDKLEKDVERVRER  224 (1072)
T ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444445555555555555555555555555555555555433

>PF14915 CCDC144C: CCDC144C protein coiled-coil region

Probab=97.72  E-value=0.08  Score=54.65  Aligned_cols=25  Identities=16%  Similarity=0.135  Sum_probs=15.5

Q ss_pred             HHHHHHHHHhhHHHhHHHHHHHHHH
Q 005229          316 KEREFEKRVKEFELREKELDSIRKA  340 (707)
Q Consensus       316 ~e~~~~~~~~E~e~~e~~l~~~~~~  340 (707)
                      ++..+...+.++.....++--++..
T Consensus       276 lEErNKeL~ne~n~LkEr~~qyEkE  300 (305)
T PF14915_consen  276 LEERNKELINECNHLKERLYQYEKE  300 (305)
T ss_pred             HHHHhHHHHHHHHHHHHHHHHHHHH
Confidence            5666666677777666666555443

>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=97.71  E-value=0.036  Score=58.02  Aligned_cols=141  Identities=20%  Similarity=0.200  Sum_probs=65.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229          131 LMLCETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLEQKLDSMRKQQKKYFDDVELKKRELNE  210 (707)
Q Consensus       131 le~le~el~~~~~Ele~~e~~i~~l~~ele~~e~~l~~le~el~~~~~eL~~~e~el~~~~~ei~el~~ele~k~~e~~e  210 (707)
                      ++.+..++..+..+-..++.....+..+-...+++   .+.-+..+-+++.....++..+..++.....+....++++..
T Consensus       162 le~Lq~Klk~LEeEN~~LR~Ea~~L~~et~~~Eek---EqqLv~dcv~QL~~An~qia~LseELa~k~Ee~~rQQEEIt~  238 (306)
T PF04849_consen  162 LEALQEKLKSLEEENEQLRSEASQLKTETDTYEEK---EQQLVLDCVKQLSEANQQIASLSEELARKTEENRRQQEEITS  238 (306)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhHHHhhccHH---HHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34555555555555555555555554443333322   111133344444444444444444444444444444444444


Q ss_pred             HHHHHHHHhcChhhHHHhHHHHHHHHHHHhhhchhhHHhhhhhhhhHHHHHHHHHHHHHhhhHH
Q 005229          211 IRKYIEELNQDPASKDKELRFVQQSIEECSKEIPGKKEELISKGKTIAECSKEVELKKNQLNLI  274 (707)
Q Consensus       211 ~~~ei~~l~~eie~~~~el~~~~~~le~l~~El~~l~~Ele~l~~~l~e~~~~le~k~~ele~l  274 (707)
                      +..++-.+++++..+-.+-+.+.+.+.....-...+..|+..++..+.++..-+.+.+.++..+
T Consensus       239 LlsqivdlQ~r~k~~~~EnEeL~q~L~~ske~Q~~L~aEL~elqdkY~E~~~mL~EaQEElk~l  302 (306)
T PF04849_consen  239 LLSQIVDLQQRCKQLAAENEELQQHLQASKESQRQLQAELQELQDKYAECMAMLHEAQEELKTL  302 (306)
T ss_pred             HHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            4444444444444444444444444444444444455555566666666665555555555444

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 [].

>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=97.66  E-value=0.082  Score=54.24  Aligned_cols=58  Identities=21%  Similarity=0.289  Sum_probs=22.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 005229           57 YQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENE  114 (707)
Q Consensus        57 ~~~el~~l~~~i~e~~~e~~~~~~ei~~le~~i~e~~~el~ele~ei~~l~~~i~e~~  114 (707)
                      ...++..+.+....++.+++.+..++..+..++.+...++.+.+.++..++..|..++
T Consensus        36 ~ds~l~~~~~~~~~~q~ei~~L~~qi~~~~~k~~~~~~~i~~~~~eik~l~~eI~~~~   93 (265)
T COG3883          36 QDSKLSELQKEKKNIQNEIESLDNQIEEIQSKIDELQKEIDQSKAEIKKLQKEIAELK   93 (265)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333333333333333333333333333333333333333333

>PF05010 TACC: Transforming acidic coiled-coil-containing protein (TACC); InterPro: IPR007707 This family contains the proteins TACC 1, 2 and 3, found concentrated in the centrosomes of eukaryotes which may play a conserved role in organising centrosomal microtubules

Probab=97.65  E-value=0.082  Score=52.70  Aligned_cols=76  Identities=12%  Similarity=0.155  Sum_probs=40.6

Q ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229          122 KLYDEVKNSLMLCETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLEQKLDSMRKQQKKY  197 (707)
Q Consensus       122 ~e~~~l~~ele~le~el~~~~~Ele~~e~~i~~l~~ele~~e~~l~~le~el~~~~~eL~~~e~el~~~~~ei~el  197 (707)
                      ........++..+..+.+.+...+.+++.....+-...+....-+...+..-..+.+.+.+....+....+++..+
T Consensus        62 ~~~~~~~~~i~~~~~erdq~~~dL~s~E~sfsdl~~ryek~K~vi~~~k~NEE~Lkk~~~ey~~~l~~~eqry~aL  137 (207)
T PF05010_consen   62 KQKELSEAEIQKLLKERDQAYADLNSLEKSFSDLHKRYEKQKEVIEGYKKNEETLKKCIEEYEERLKKEEQRYQAL  137 (207)
T ss_pred             hhHHhHHHHHHHHHhhHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444555555556666666666666665555555555555555555555555555555555555444444333

The human TACC proteins have been linked to cancer and TACC2 has been identified as a possible tumour suppressor (AZU-1) [].

>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=97.63  E-value=0.039  Score=65.11  Aligned_cols=20  Identities=5%  Similarity=-0.079  Sum_probs=8.6

Q ss_pred             HHHhhcCCCCCchHHHHHHH
Q 005229           35 SVSLNLKNKPSSAQEWINKC   54 (707)
Q Consensus        35 ~~el~~~~~~l~~~l~~~~~   54 (707)
                      +.++.+--+-..+.|+.+-.
T Consensus       149 QDkV~EFa~L~pi~LL~eTe  168 (1072)
T KOG0979|consen  149 QDKVKEFARLSPIELLVETE  168 (1072)
T ss_pred             HHHHHHHHcCChHHHHHHHH
Confidence            33444444444444444433

>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=97.60  E-value=0.025  Score=59.19  Aligned_cols=142  Identities=11%  Similarity=0.174  Sum_probs=85.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChhhHHHhHHHHHHHHHHHhhhchhhHHhhhhh
Q 005229          174 RLHENEVESLEQKLDSMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIPGKKEELISK  253 (707)
Q Consensus       174 ~~~~~eL~~~e~el~~~~~ei~el~~ele~k~~e~~e~~~ei~~l~~eie~~~~el~~~~~~le~l~~El~~l~~Ele~l  253 (707)
                      +.++.++..++.+-..+..+...+..+....+.+-..+   +...-+++......+..+..++.....++....+|+.++
T Consensus       163 e~Lq~Klk~LEeEN~~LR~Ea~~L~~et~~~EekEqqL---v~dcv~QL~~An~qia~LseELa~k~Ee~~rQQEEIt~L  239 (306)
T PF04849_consen  163 EALQEKLKSLEEENEQLRSEASQLKTETDTYEEKEQQL---VLDCVKQLSEANQQIASLSEELARKTEENRRQQEEITSL  239 (306)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhHHHhhccHHHHHH---HHHHHHHhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444444444444444444444443333333331111   333444555555566666666666666666666677777


Q ss_pred             hhhHHHHHHHHHHHHHhhhHHHHhhhhhhhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229          254 GKTIAECSKEVELKKNQLNLIQDKSSLFQTRTIVYLKELKEKETHFDSLKKGLEDRLQDLELKER  318 (707)
Q Consensus       254 ~~~l~e~~~~le~k~~ele~l~~~le~le~~~~~~~~~~~el~~~~~~le~~L~~~~~eL~~~e~  318 (707)
                      ..++...++++...-.+.+++...+...+..-..+..++.++.+.+......|.+-.++|..+.+
T Consensus       240 lsqivdlQ~r~k~~~~EnEeL~q~L~~ske~Q~~L~aEL~elqdkY~E~~~mL~EaQEElk~lR~  304 (306)
T PF04849_consen  240 LSQIVDLQQRCKQLAAENEELQQHLQASKESQRQLQAELQELQDKYAECMAMLHEAQEELKTLRK  304 (306)
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence            77777777777777777777777777766666667777777777788877777777777766543

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 [].

>KOG0962 consensus DNA repair protein RAD50, ABC-type ATPase/SMC superfamily [Replication, recombination and repair]

Probab=97.57  E-value=0.35  Score=59.48  Aligned_cols=24  Identities=4%  Similarity=-0.029  Sum_probs=16.9

Q ss_pred             hhhHHHHh---hcCCcccccccccccC
Q 005229          518 PGLQCSTT---AEGRSAPSMLVGTSAP  541 (707)
Q Consensus       518 ~~~i~~li---~~g~~~~a~~~~~~~~  541 (707)
                      -++|..|=   -+|.-|+-|.+.+-.+
T Consensus      1130 N~iI~elW~~tYrG~Did~IrIrsD~~ 1156 (1294)
T KOG0962|consen 1130 NRIIRELWRKTYRGTDIDYIKIRSDSV 1156 (1294)
T ss_pred             HHHHHHHHHhccCCCCcceEEEeeccc
Confidence            45566654   5799999888877554

>PF05557 MAD: Mitotic checkpoint protein; InterPro: IPR008672 This family consists of several eukaryotic mitotic checkpoint (Mitotic arrest deficient or MAD) proteins

Probab=97.53  E-value=2e-05  Score=93.98  Aligned_cols=9  Identities=22%  Similarity=0.423  Sum_probs=3.7

Q ss_pred             CHHHHHHHH
Q 005229          442 NAQVRDEAM  450 (707)
Q Consensus       442 ~~~v~~~A~  450 (707)
                      +|....++.
T Consensus       555 NP~~~~~~~  563 (722)
T PF05557_consen  555 NPTSKAEQI  563 (722)
T ss_dssp             -HHHHHHHH
T ss_pred             CcHHHHHHH
Confidence            455544433

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.

>PRK09039 hypothetical protein; Validated

Probab=97.53  E-value=0.027  Score=61.03  Aligned_cols=55  Identities=18%  Similarity=0.154  Sum_probs=30.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH
Q 005229           50 WINKCQAYQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQLAFKESKIS  104 (707)
Q Consensus        50 ~~~~~~~~~~el~~l~~~i~e~~~e~~~~~~ei~~le~~i~e~~~el~ele~ei~  104 (707)
                      +...+....+++..++.+|.++-.-+..-......++..+..+..++...+....
T Consensus        44 Ls~~i~~~~~eL~~L~~qIa~L~e~L~le~~~~~~l~~~l~~l~~~l~~a~~~r~   98 (343)
T PRK09039         44 LSREISGKDSALDRLNSQIAELADLLSLERQGNQDLQDSVANLRASLSAAEAERS   98 (343)
T ss_pred             HHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHH
Confidence            3455666666666666666665555555555555555555555555444444333

>TIGR02680 conserved hypothetical protein TIGR02680

Probab=97.50  E-value=0.13  Score=65.79  Aligned_cols=13  Identities=23%  Similarity=0.115  Sum_probs=7.2

Q ss_pred             HHHHHHHHHHhhh
Q 005229          468 LEVLGFLHLLAAY  480 (707)
Q Consensus       468 l~a~~fl~~l~~f  480 (707)
                      .++..|..+|-.-
T Consensus      1166 ~~t~~~~~~L~~~ 1178 (1353)
T TIGR02680      1166 PTGLALRRLLRTD 1178 (1353)
T ss_pred             hhHHHHHHHHhcC
Confidence            4444576666554

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.

>TIGR02680 conserved hypothetical protein TIGR02680

Probab=97.48  E-value=0.16  Score=64.80  Aligned_cols=91  Identities=10%  Similarity=0.088  Sum_probs=70.8

Q ss_pred             HHHHHHhhhhhhHHHHHHHHhhhHhhHHHHHHHhhcCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229            5 RVEKIMGLGQKRIGEFNCELELKENELNSLSVSLNLKNKPSSAQEWINKCQAYQKELRLWKNLIEECYDEVELREKKVGE   84 (707)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~eL~l~e~eL~~~~~el~~~~~~l~~~l~~~~~~~~~~el~~l~~~i~e~~~e~~~~~~ei~~   84 (707)
                      +|+..+..+..++..+..++..+...+..+..+...-....++.-....+......+.....++.....+..........
T Consensus       746 el~~~IaeL~~~i~~l~~~l~~l~~r~~~L~~e~~~~Ps~~dL~~A~~~l~~A~~~~~~a~~~l~~a~~~l~~a~~~~~~  825 (1353)
T TIGR02680       746 ELDARLAAVDDELAELARELRALGARQRALADELAGAPSDRSLRAAHRRAAEAERQAESAERELARAARKAAAAAAAWKQ  825 (1353)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            46667777777777777777777777788888888888887777777777878888888888888888888888888777


Q ss_pred             HHHHHHHHHHH
Q 005229           85 AQRSIEEQEKQ   95 (707)
Q Consensus        85 le~~i~e~~~e   95 (707)
                      ....+.....+
T Consensus       826 a~~~l~~aaa~  836 (1353)
T TIGR02680       826 ARRELERDAAD  836 (1353)
T ss_pred             HHHHHHHHHhc
Confidence            77777777665

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.

>PRK11281 hypothetical protein; Provisional

Probab=97.46  E-value=0.21  Score=61.86  Aligned_cols=57  Identities=12%  Similarity=0.140  Sum_probs=23.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCh
Q 005229          166 LELLQGKVRLHENEVESLEQKLDSMRKQQKKYFDDVELKKRELNEIRKYIEELNQDP  222 (707)
Q Consensus       166 l~~le~el~~~~~eL~~~e~el~~~~~ei~el~~ele~k~~e~~e~~~ei~~l~~ei  222 (707)
                      ...++.++.-++.++.-.+.++.+.....+-++..++....++...+..+..++..+
T Consensus       194 ~~~l~ae~~~l~~~~~~~~~~l~~~~~l~~l~~~q~d~~~~~~~~~~~~~~~lq~~i  250 (1113)
T PRK11281        194 RVLLQAEQALLNAQNDLQRKSLEGNTQLQDLLQKQRDYLTARIQRLEHQLQLLQEAI  250 (1113)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444444444333333333333333333333333333333333

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

Probab=97.44  E-value=0.27  Score=53.48  Aligned_cols=88  Identities=15%  Similarity=0.197  Sum_probs=51.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Q 005229           72 YDEVELREKKVGEAQRSIEEQE---KQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLMLCETKLECEKKELELT  148 (707)
Q Consensus        72 ~~e~~~~~~ei~~le~~i~e~~---~el~ele~ei~~l~~~i~e~~~~l~~~e~e~~~l~~ele~le~el~~~~~Ele~~  148 (707)
                      ..++..+..+...|...|.+..   ..+..++.+-..++.....+......++...+..-..|+.++.+++...++|..+
T Consensus       270 ~~~i~~lk~~n~~l~e~i~ea~k~s~~i~~l~ek~r~l~~D~nk~~~~~~~mk~K~~~~~g~l~kl~~eie~kEeei~~L  349 (622)
T COG5185         270 NTDIANLKTQNDNLYEKIQEAMKISQKIKTLREKWRALKSDSNKYENYVNAMKQKSQEWPGKLEKLKSEIELKEEEIKAL  349 (622)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHH
Confidence            3444445555555554444433   2356666666666666666666666666666666666666666666666666666


Q ss_pred             HHHHHHHHHhh
Q 005229          149 QSSIKELSMEF  159 (707)
Q Consensus       149 e~~i~~l~~el  159 (707)
                      +..++.+...+
T Consensus       350 ~~~~d~L~~q~  360 (622)
T COG5185         350 QSNIDELHKQL  360 (622)
T ss_pred             HhhHHHHHHHH
Confidence            66666665543

>COG4477 EzrA Negative regulator of septation ring formation [Cell division and chromosome partitioning]

Probab=97.42  E-value=0.32  Score=54.05  Aligned_cols=136  Identities=16%  Similarity=0.172  Sum_probs=61.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhcChhhHHHhHHHHHHHHHHHhhhchhhHHhhhhhhhhHHHHHHHHHHHHHhhhHH
Q 005229          195 KKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIPGKKEELISKGKTIAECSKEVELKKNQLNLI  274 (707)
Q Consensus       195 ~el~~ele~k~~e~~e~~~ei~~l~~eie~~~~el~~~~~~le~l~~El~~l~~Ele~l~~~l~e~~~~le~k~~ele~l  274 (707)
                      ..+.++++.+.+.+..+...+..-..-...++..++.+.+.+..++++.......+.++++.=-++...++..+..+..+
T Consensus       350 r~~e~eL~el~~~~~~i~~~~~~~~~~yS~lq~~l~~~~~~l~~i~~~q~~~~e~L~~LrkdEl~Are~l~~~~~~l~ei  429 (570)
T COG4477         350 RKFEKELKELESVLDEILENIEAQEVAYSELQDNLEEIEKALTDIEDEQEKVQEHLTSLRKDELEARENLERLKSKLHEI  429 (570)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444444444444444444555555555555555555555555555555554444444455444444444


Q ss_pred             HHhhhh--hhhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHh
Q 005229          275 QDKSSL--FQTRTIVYLKELKEKETHFDSLKKGLEDRLQDLELKEREFEKRVKEFELR  330 (707)
Q Consensus       275 ~~~le~--le~~~~~~~~~~~el~~~~~~le~~L~~~~~eL~~~e~~~~~~~~E~e~~  330 (707)
                      .+.++.  +=|-=..|-.-+.....+++.+..+|.++--.|+......+.++..+...
T Consensus       430 kR~mek~nLPGlPe~~l~l~~~~~~~i~~l~~eLse~pinm~~v~~~v~~a~~~m~~l  487 (570)
T COG4477         430 KRYMEKSNLPGLPETFLSLFFTAGHEIQDLMKELSEVPINMEAVSALVDIATEDMNTL  487 (570)
T ss_pred             HHHHHHcCCCCCcHHHHHHHHhhhhHHHHHHHHHhhcCCcHHHHHHHHHHHHHHHHHH
Confidence            443332  00000112222233333444455555544444555555555554444333

>PF09787 Golgin_A5: Golgin subfamily A member 5; InterPro: IPR019177 This entry represents a family of proteins involved in maintaining Golgi structure

Probab=97.42  E-value=0.4  Score=55.00  Aligned_cols=48  Identities=21%  Similarity=0.193  Sum_probs=33.8

Q ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhHHHHHH
Q 005229          289 LKELKEKETHFDSLKKGLEDRLQDLELKEREFEKRVKEFELREKELDS  336 (707)
Q Consensus       289 ~~~~~el~~~~~~le~~L~~~~~eL~~~e~~~~~~~~E~e~~e~~l~~  336 (707)
                      ...|.+++.-+..+-..|-.+...|+.+..+.-...-.++..+..+.+
T Consensus       384 ~s~~~elE~rl~~lt~~Li~KQ~~lE~l~~ek~al~lqlErl~~~l~~  431 (511)
T PF09787_consen  384 SSSWNELESRLTQLTESLIQKQTQLESLGSEKNALRLQLERLETQLKE  431 (511)
T ss_pred             cCCcHhHHHHHhhccHHHHHHHHHHHHHHhhhhhccccHHHHHHHHHh
Confidence            346888888888888888777777777777666666666666655544

They stimulate the formation of Golgi stacks and ribbons, and are involved in intra-Golgi retrograde transport. Two main interactions have been characterised: one with RAB1A that has been activated by GTP-binding and another with isoform CASP of CUTL1 [].

>KOG0962 consensus DNA repair protein RAD50, ABC-type ATPase/SMC superfamily [Replication, recombination and repair]

Probab=97.41  E-value=0.64  Score=57.25  Aligned_cols=31  Identities=23%  Similarity=0.193  Sum_probs=14.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhH
Q 005229          132 MLCETKLECEKKELELTQSSIKELSMEFHSE  162 (707)
Q Consensus       132 e~le~el~~~~~Ele~~e~~i~~l~~ele~~  162 (707)
                      .+++.++..+.+++......++++...+..+
T Consensus       881 ~qle~~~~~l~e~~~~~~s~~~e~~~~~~~~  911 (1294)
T KOG0962|consen  881 QQLEEDIEELSEEITRLDSKVKELLERIQPL  911 (1294)
T ss_pred             HhhHHHHHHHHHHHHHHHHHHHhhHhhhcch
Confidence            3444444455555544444444444443333

>PF05622 HOOK: HOOK protein; InterPro: IPR008636 This family consists of several HOOK1, 2 and 3 proteins from different eukaryotic organisms

Probab=97.40  E-value=3.5e-05  Score=91.66  Aligned_cols=28  Identities=21%  Similarity=0.157  Sum_probs=0.0

Q ss_pred             HHHHHhhhhhhHHHHHHHHhhhHhhHHH
Q 005229            6 VEKIMGLGQKRIGEFNCELELKENELNS   33 (707)
Q Consensus         6 ~~~~~~~~~~~~~~~~~eL~l~e~eL~~   33 (707)
                      ++.++..+..+...+..+...+...+..
T Consensus       198 l~~~i~~L~~e~~~L~~e~~~l~~~~~~  225 (713)
T PF05622_consen  198 LEKQISDLQEEKESLQSENEELQERLSQ  225 (713)
T ss_dssp             ----------------------------
T ss_pred             HHHHHHHHHHhHHHhhhhhhhhhcccCC
Confidence            3444444444444444444444433333

The different members of the Homo sapiens gene family are HOOK1, HOOK2 and HOOK3. Different domains have been identified in the three Homo sapiens HOOK proteins, and it was demonstrated that the highly conserved NH2-domain mediates attachment to microtubules, whereas the central coiled-coil motif mediates homodimerisation and the more divergent C-terminal domains are involved in binding to specific organelles (organelle-binding domains). It has been demonstrated that endogenous HOOK3 binds to Golgi membranes [], whereas both HOOK1 and HOOK2 are localised to discrete but unidentified cellular structures. In mice the Hook1 gene is predominantly expressed in the testis. Hook1 function is necessary for the correct positioning of microtubular structures within the haploid germ cell. Disruption of Hook1 function in mice causes abnormal sperm head shape and fragile attachment of the flagellum to the sperm head [].; GO: 0008017 microtubule binding, 0000226 microtubule cytoskeleton organization, 0005737 cytoplasm; PDB: 1WIX_A.

>KOG4593 consensus Mitotic checkpoint protein MAD1 [Cell cycle control, cell division, chromosome partitioning]

Probab=97.39  E-value=0.42  Score=54.73  Aligned_cols=17  Identities=29%  Similarity=0.225  Sum_probs=7.4

Q ss_pred             hHHHHHHHHHHHHHHHH
Q 005229          130 SLMLCETKLECEKKELE  146 (707)
Q Consensus       130 ele~le~el~~~~~Ele  146 (707)
                      +++.++..+....+++.
T Consensus       252 el~~l~~a~~q~~ee~~  268 (716)
T KOG4593|consen  252 ELEELERALSQLREELA  268 (716)
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            33444444444444444

>PF05010 TACC: Transforming acidic coiled-coil-containing protein (TACC); InterPro: IPR007707 This family contains the proteins TACC 1, 2 and 3, found concentrated in the centrosomes of eukaryotes which may play a conserved role in organising centrosomal microtubules

Probab=97.37  E-value=0.19  Score=50.20  Aligned_cols=33  Identities=21%  Similarity=0.335  Sum_probs=17.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 005229          293 KEKETHFDSLKKGLEDRLQDLELKEREFEKRVK  325 (707)
Q Consensus       293 ~el~~~~~~le~~L~~~~~eL~~~e~~~~~~~~  325 (707)
                      +-.+-...|++..|+....+.+.+-+-++..|.
T Consensus       171 kk~e~~~~SLe~~LeQK~kEn~ELtkICDeLI~  203 (207)
T PF05010_consen  171 KKEEMKVQSLEESLEQKTKENEELTKICDELIS  203 (207)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333334555666666555555555555555444

The human TACC proteins have been linked to cancer and TACC2 has been identified as a possible tumour suppressor (AZU-1) [].

>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]

Probab=97.35  E-value=0.52  Score=54.77  Aligned_cols=7  Identities=14%  Similarity=0.297  Sum_probs=4.0

Q ss_pred             HhhhCCC
Q 005229          401 HAMSGFY  407 (707)
Q Consensus       401 d~~~~~~  407 (707)
                      +||..+|
T Consensus       668 ~Cvq~r~  674 (698)
T KOG0978|consen  668 ECVQTRY  674 (698)
T ss_pred             HHHHHHH
Confidence            4555555

>PF05557 MAD: Mitotic checkpoint protein; InterPro: IPR008672 This family consists of several eukaryotic mitotic checkpoint (Mitotic arrest deficient or MAD) proteins

Probab=97.34  E-value=0.00011  Score=87.51  Aligned_cols=26  Identities=23%  Similarity=0.273  Sum_probs=17.8

Q ss_pred             CCccchhhhHHHHhhcCCcccccccc
Q 005229          512 GFADKVPGLQCSTTAEGRSAPSMLVG  537 (707)
Q Consensus       512 gl~~k~~~~i~~li~~g~~~~a~~~~  537 (707)
                      +|...+++.|+.-|...+.||++.-+
T Consensus       687 ~~~~~~~~~i~~~v~~~~siP~FLaa  712 (722)
T PF05557_consen  687 EFSPELEDLIEFWVEERNSIPAFLAA  712 (722)
T ss_dssp             CCHHCTHHHHHHHTTTS--HHHHHHH
T ss_pred             chHHHHHHHHHHHHHcCCChhHHHHH
Confidence            56677888888888888888876443

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.

>PRK09039 hypothetical protein; Validated

Probab=97.34  E-value=0.059  Score=58.39  Aligned_cols=16  Identities=19%  Similarity=0.248  Sum_probs=7.8

Q ss_pred             CCchhhHHHhhhCCCC
Q 005229          393 RDPALLVLHAMSGFYP  408 (707)
Q Consensus       393 ~dpa~lVLd~~~~~~~  408 (707)
                      .+|.++.....+.+.|
T Consensus       305 i~~~ri~~~G~G~~~P  320 (343)
T PRK09039        305 VPADRLAAAGFGEFQP  320 (343)
T ss_pred             CCHHHeEEEEeCCcCc
Confidence            4555655444444443

>PF09789 DUF2353: Uncharacterized coiled-coil protein (DUF2353); InterPro: IPR019179 Members of this family have been annotated as being coiled-coil domain-containing protein 149, however they currently have no known function

Probab=97.33  E-value=0.23  Score=52.62  Aligned_cols=107  Identities=14%  Similarity=0.165  Sum_probs=54.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChhhHHHhHHHHHHHHHHHhhhchhhHHhhhh
Q 005229          173 VRLHENEVESLEQKLDSMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIPGKKEELIS  252 (707)
Q Consensus       173 l~~~~~eL~~~e~el~~~~~ei~el~~ele~k~~e~~e~~~ei~~l~~eie~~~~el~~~~~~le~l~~El~~l~~Ele~  252 (707)
                      +.+...+...+..++..+.+++.+++.+++.++..+......-........-  .+.+.+...++.+...+..++-++.+
T Consensus        74 L~~sre~Nk~L~~Ev~~Lrqkl~E~qGD~KlLR~~la~~r~~~~~~~~~~~~--~ere~lV~qLEk~~~q~~qLe~d~qs  151 (319)
T PF09789_consen   74 LSESREQNKKLKEEVEELRQKLNEAQGDIKLLREKLARQRVGDEGIGARHFP--HEREDLVEQLEKLREQIEQLERDLQS  151 (319)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhchHHHHHHHHHhhhhhhccccccccc--hHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444444444455555555555555444444333332222111  44444555555555566666666666


Q ss_pred             hhhhHHHHHHHHHHHHHhhhHHHHhhhhh
Q 005229          253 KGKTIAECSKEVELKKNQLNLIQDKSSLF  281 (707)
Q Consensus       253 l~~~l~e~~~~le~k~~ele~l~~~le~l  281 (707)
                      +..+.++...+.+..+....++..++..+
T Consensus       152 ~lDEkeEl~~ERD~yk~K~~RLN~ELn~~  180 (319)
T PF09789_consen  152 LLDEKEELVTERDAYKCKAHRLNHELNYI  180 (319)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            66666666666666666666666655543

>PRK10246 exonuclease subunit SbcC; Provisional

Probab=97.32  E-value=0.88  Score=56.91  Aligned_cols=16  Identities=19%  Similarity=0.387  Sum_probs=10.3

Q ss_pred             HhhhCCccchhhhHHH
Q 005229          508 RRTLGFADKVPGLQCS  523 (707)
Q Consensus       508 ~~~lgl~~k~~~~i~~  523 (707)
                      .+++|++.+++++.+.
T Consensus      1007 g~~v~iisH~~~l~~~ 1022 (1047)
T PRK10246       1007 GKTIGVISHVEAMKER 1022 (1047)
T ss_pred             CCEEEEEecHHHHHHh
Confidence            4556777776666655

>PRK11281 hypothetical protein; Provisional

Probab=97.32  E-value=0.85  Score=56.60  Aligned_cols=26  Identities=15%  Similarity=0.253  Sum_probs=15.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhH
Q 005229          302 LKKGLEDRLQDLELKEREFEKRVKEF  327 (707)
Q Consensus       302 le~~L~~~~~eL~~~e~~~~~~~~E~  327 (707)
                      +..-+..|.+=|+.+.+.++..+.+.
T Consensus       405 l~~ll~~r~~LL~~l~~~~~~~l~~~  430 (1113)
T PRK11281        405 LLQLLDERRELLDQLNKQLNNQLNLA  430 (1113)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44455556666666666666655544

>PRK10929 putative mechanosensitive channel protein; Provisional

Probab=97.32  E-value=0.84  Score=56.50  Aligned_cols=27  Identities=15%  Similarity=0.043  Sum_probs=17.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhHH
Q 005229          302 LKKGLEDRLQDLELKEREFEKRVKEFE  328 (707)
Q Consensus       302 le~~L~~~~~eL~~~e~~~~~~~~E~e  328 (707)
                      +..-++.+.+=|+.+.+.++..+.+.-
T Consensus       381 l~~ll~~rr~LL~~L~~~~~~~l~~l~  407 (1109)
T PRK10929        381 LDAQLRTQRELLNSLLSGGDTLILELT  407 (1109)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444556677777777777777776653

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

Probab=97.28  E-value=0.22  Score=58.96  Aligned_cols=39  Identities=18%  Similarity=0.271  Sum_probs=15.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229          166 LELLQGKVRLHENEVESLEQKLDSMRKQQKKYFDDVELK  204 (707)
Q Consensus       166 l~~le~el~~~~~eL~~~e~el~~~~~ei~el~~ele~k  204 (707)
                      ...++..+..+..+++..+.++.+.+..+.+++.++...
T Consensus       605 K~~Le~~L~~~~d~lE~~~~qL~E~E~~L~eLq~eL~~~  643 (769)
T PF05911_consen  605 KEELEMELASCQDQLESLKNQLKESEQKLEELQSELESA  643 (769)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333344444444444444444443333333333

The function of this family is unknown.

>PF13514 AAA_27: AAA domain

Probab=97.23  E-value=1.2  Score=56.38  Aligned_cols=49  Identities=18%  Similarity=0.256  Sum_probs=19.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229           48 QEWINKCQAYQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQL   96 (707)
Q Consensus        48 ~l~~~~~~~~~~el~~l~~~i~e~~~e~~~~~~ei~~le~~i~e~~~el   96 (707)
                      ..+.........+..........+..++.....++...+.........+
T Consensus       655 ~~~l~~a~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~  703 (1111)
T PF13514_consen  655 AALLEEAEALLEEWEQAAARREQLEEELQQLEQELEEAEAELQEAQEAL  703 (1111)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344333333333333333333333444444443333333333333333

>KOG1937 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.22  E-value=0.46  Score=51.60  Aligned_cols=44  Identities=16%  Similarity=0.117  Sum_probs=22.0

Q ss_pred             HhcChhhHHHhHHHHHHHHHHHhhhchhhHHhhhhhhhhHHHHH
Q 005229          218 LNQDPASKDKELRFVQQSIEECSKEIPGKKEELISKGKTIAECS  261 (707)
Q Consensus       218 l~~eie~~~~el~~~~~~le~l~~El~~l~~Ele~l~~~l~e~~  261 (707)
                      ..+.|.++...+...++.+-.+..+-..+++++.++...+...-
T Consensus       387 ytqrikEi~gniRKq~~DI~Kil~etreLqkq~ns~se~L~Rsf  430 (521)
T KOG1937|consen  387 YTQRIKEIDGNIRKQEQDIVKILEETRELQKQENSESEALNRSF  430 (521)
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhH
Confidence            33444444444444555555555555555555555555544333

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

Probab=97.21  E-value=0.43  Score=51.48  Aligned_cols=32  Identities=19%  Similarity=0.406  Sum_probs=11.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229          166 LELLQGKVRLHENEVESLEQKLDSMRKQQKKY  197 (707)
Q Consensus       166 l~~le~el~~~~~eL~~~e~el~~~~~ei~el  197 (707)
                      +..++.++.....+|+.++.++.+++.++..+
T Consensus       211 L~~lr~eL~~~~~~i~~~k~~l~el~~el~~l  242 (325)
T PF08317_consen  211 LEALRQELAEQKEEIEAKKKELAELQEELEEL  242 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333333333333333

>PF05622 HOOK: HOOK protein; InterPro: IPR008636 This family consists of several HOOK1, 2 and 3 proteins from different eukaryotic organisms

Probab=97.20  E-value=8.2e-05  Score=88.57  Aligned_cols=15  Identities=20%  Similarity=0.341  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHHH
Q 005229           52 NKCQAYQKELRLWKN   66 (707)
Q Consensus        52 ~~~~~~~~el~~l~~   66 (707)
                      .....++++++.++.
T Consensus       291 ~~a~~LrDElD~lR~  305 (713)
T PF05622_consen  291 REARALRDELDELRE  305 (713)
T ss_dssp             ---------------
T ss_pred             HHHHHHhhhHHHHHH
Confidence            344555555555544

The different members of the Homo sapiens gene family are HOOK1, HOOK2 and HOOK3. Different domains have been identified in the three Homo sapiens HOOK proteins, and it was demonstrated that the highly conserved NH2-domain mediates attachment to microtubules, whereas the central coiled-coil motif mediates homodimerisation and the more divergent C-terminal domains are involved in binding to specific organelles (organelle-binding domains). It has been demonstrated that endogenous HOOK3 binds to Golgi membranes [], whereas both HOOK1 and HOOK2 are localised to discrete but unidentified cellular structures. In mice the Hook1 gene is predominantly expressed in the testis. Hook1 function is necessary for the correct positioning of microtubular structures within the haploid germ cell. Disruption of Hook1 function in mice causes abnormal sperm head shape and fragile attachment of the flagellum to the sperm head [].; GO: 0008017 microtubule binding, 0000226 microtubule cytoskeleton organization, 0005737 cytoplasm; PDB: 1WIX_A.

>PF09789 DUF2353: Uncharacterized coiled-coil protein (DUF2353); InterPro: IPR019179 Members of this family have been annotated as being coiled-coil domain-containing protein 149, however they currently have no known function

Probab=97.20  E-value=0.27  Score=52.08  Aligned_cols=37  Identities=14%  Similarity=0.057  Sum_probs=16.9

Q ss_pred             HHHHHHHHHHHhhhchhhHHhhhhhhhhHHHHHHHHH
Q 005229          229 LRFVQQSIEECSKEIPGKKEELISKGKTIAECSKEVE  265 (707)
Q Consensus       229 l~~~~~~le~l~~El~~l~~Ele~l~~~l~e~~~~le  265 (707)
                      ++.+--+-.-+...+..+++|++..+..+.....-++
T Consensus       191 IDaLi~ENRyL~erl~q~qeE~~l~k~~i~KYK~~le  227 (319)
T PF09789_consen  191 IDALIMENRYLKERLKQLQEEKELLKQTINKYKSALE  227 (319)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344333344444444444444444444444444444

>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=97.19  E-value=0.45  Score=50.79  Aligned_cols=24  Identities=25%  Similarity=0.450  Sum_probs=10.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q 005229          299 FDSLKKGLEDRLQDLELKEREFEK  322 (707)
Q Consensus       299 ~~~le~~L~~~~~eL~~~e~~~~~  322 (707)
                      |.+...+++.....+..+++.+..
T Consensus       239 F~tfk~Emekm~Kk~kklEKE~~~  262 (309)
T PF09728_consen  239 FETFKKEMEKMSKKIKKLEKENQT  262 (309)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444444444444444444443333

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 [].

>KOG0999 consensus Microtubule-associated protein Bicaudal-D [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.17  E-value=0.6  Score=51.85  Aligned_cols=20  Identities=20%  Similarity=0.322  Sum_probs=10.6

Q ss_pred             hHHHHHHHHhhhHhhHHHHH
Q 005229           16 RIGEFNCELELKENELNSLS   35 (707)
Q Consensus        16 ~~~~~~~eL~l~e~eL~~~~   35 (707)
                      ....++.+++.+.++|.+..
T Consensus         9 ~ve~lr~eierLT~el~q~t   28 (772)
T KOG0999|consen    9 EVEKLRQEIERLTEELEQTT   28 (772)
T ss_pred             hHHHHHHHHHHHHHHHHHHH
Confidence            34445555555555555543

>PF15066 CAGE1: Cancer-associated gene protein 1 family

Probab=97.08  E-value=0.49  Score=51.61  Aligned_cols=61  Identities=15%  Similarity=0.011  Sum_probs=41.2

Q ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHH
Q 005229          122 KLYDEVKNSLMLCETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVES  182 (707)
Q Consensus       122 ~e~~~l~~ele~le~el~~~~~Ele~~e~~i~~l~~ele~~e~~l~~le~el~~~~~eL~~  182 (707)
                      .+.=.+..|-..++..+..+.+-+...++.+.+.+.+.+.+.-++..++..+..++.+...
T Consensus       376 edKY~viLEKnd~~k~lqnLqe~la~tqk~LqEsr~eKetLqlelkK~k~nyv~LQEry~~  436 (527)
T PF15066_consen  376 EDKYRVILEKNDIEKTLQNLQEALANTQKHLQESRNEKETLQLELKKIKANYVHLQERYMT  436 (527)
T ss_pred             HhHhHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHhhhHHHHHHHHHH
Confidence            3333445566667777777777788888887777777777766677777776666655443

>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=97.06  E-value=0.53  Score=49.36  Aligned_cols=34  Identities=15%  Similarity=0.152  Sum_probs=13.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229           53 KCQAYQKELRLWKNLIEECYDEVELREKKVGEAQ   86 (707)
Q Consensus        53 ~~~~~~~el~~l~~~i~e~~~e~~~~~~ei~~le   86 (707)
                      ++..++.+-..++..+.....+...+..++..|.
T Consensus        28 ~~~sL~qen~~Lk~El~~ek~~~~~L~~e~~~lr   61 (310)
T PF09755_consen   28 RIESLQQENRVLKRELETEKARCKHLQEENRALR   61 (310)
T ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444433333333333333333333333333

>KOG1937 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.96  E-value=0.81  Score=49.78  Aligned_cols=50  Identities=12%  Similarity=0.311  Sum_probs=28.2

Q ss_pred             HHHHHHHhhhHHHHhhhhhhhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Q 005229          263 EVELKKNQLNLIQDKSSLFQTRTIVYLKELKEKETHFDSLKKGLEDRLQDLE  314 (707)
Q Consensus       263 ~le~k~~ele~l~~~le~le~~~~~~~~~~~el~~~~~~le~~L~~~~~eL~  314 (707)
                      .-...+.++..+++++..-+.+  ..-..++.+..++..+.+..+.++.++.
T Consensus       470 ~tg~~~revrdlE~qI~~E~~k--~~l~slEkl~~Dyqairqen~~L~~~iR  519 (521)
T KOG1937|consen  470 ETGALKREVRDLESQIYVEEQK--QYLKSLEKLHQDYQAIRQENDQLFSEIR  519 (521)
T ss_pred             HcchHHHHHHHHHHHHhHHHHH--HHHhhHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3334555555555555542222  1234556666677777777777776654

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

Probab=96.94  E-value=0.41  Score=56.79  Aligned_cols=113  Identities=19%  Similarity=0.197  Sum_probs=55.9

Q ss_pred             HHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChhhHHHhHHHHHHH
Q 005229          156 SMEFHSEEEKLELLQGKVRLHENEVESLEQKLDSMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQS  235 (707)
Q Consensus       156 ~~ele~~e~~l~~le~el~~~~~eL~~~e~el~~~~~ei~el~~ele~k~~e~~e~~~ei~~l~~eie~~~~el~~~~~~  235 (707)
                      ..+...++..+.....++..+..+|.+.+..+..++.++....+.-...+.++......+..++..+...+.++..+...
T Consensus       602 e~eK~~Le~~L~~~~d~lE~~~~qL~E~E~~L~eLq~eL~~~keS~s~~E~ql~~~~e~~e~le~~~~~~e~E~~~l~~K  681 (769)
T PF05911_consen  602 ESEKEELEMELASCQDQLESLKNQLKESEQKLEELQSELESAKESNSLAETQLKAMKESYESLETRLKDLEAEAEELQSK  681 (769)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHH
Confidence            33333333334444444444444444444455555555444444444555555555555555555555555555555555


Q ss_pred             HHHHhhhchhhHHhhhhhhhhHHHHHHHHHHHH
Q 005229          236 IEECSKEIPGKKEELISKGKTIAECSKEVELKK  268 (707)
Q Consensus       236 le~l~~El~~l~~Ele~l~~~l~e~~~~le~k~  268 (707)
                      +..|+.++..-+.--+........++.+++...
T Consensus       682 i~~Le~Ele~er~~~~e~~~kc~~Le~el~r~~  714 (769)
T PF05911_consen  682 ISSLEEELEKERALSEELEAKCRELEEELERMK  714 (769)
T ss_pred             HHHHHHHHHHHHhcchhhhhHHHHHHHHHHhhh
Confidence            555555555544444444444444444444443

The function of this family is unknown.

>PRK10246 exonuclease subunit SbcC; Provisional

Probab=96.93  E-value=2  Score=53.83  Aligned_cols=12  Identities=8%  Similarity=0.146  Sum_probs=7.0

Q ss_pred             CCchhHHHHHHh
Q 005229          362 SSGRYLQFLLNQ  373 (707)
Q Consensus       362 ~~~~~l~~~~~~  373 (707)
                      .+|..|+.|+..
T Consensus       889 ~~g~kf~~~~~~  900 (1047)
T PRK10246        889 KEGDKFRKFAQG  900 (1047)
T ss_pred             ccCchHHHHHHH
Confidence            345566676654

>PRK10929 putative mechanosensitive channel protein; Provisional

Probab=96.93  E-value=1.9  Score=53.53  Aligned_cols=33  Identities=12%  Similarity=-0.006  Sum_probs=21.2

Q ss_pred             HHHhhhhhhHHHHHHHHhhhHhhHHHHHHHhhc
Q 005229            8 KIMGLGQKRIGEFNCELELKENELNSLSVSLNL   40 (707)
Q Consensus         8 ~~~~~~~~~~~~~~~eL~l~e~eL~~~~~el~~   40 (707)
                      +.++..+.+.+.+++.++..-.++..+++++..
T Consensus        58 ~~~~~~~~~~~~~~~~i~~ap~~~~~~~~~l~~   90 (1109)
T PRK10929         58 EERKGSLERAKQYQQVIDNFPKLSAELRQQLNN   90 (1109)
T ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHh
Confidence            455556666666666676666666666666654

>PF06818 Fez1: Fez1; InterPro: IPR009638 This family represents the eukaryotic Fez1 protein

Probab=96.90  E-value=0.44  Score=47.01  Aligned_cols=31  Identities=13%  Similarity=0.244  Sum_probs=15.3

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229          291 ELKEKETHFDSLKKGLEDRLQDLELKEREFE  321 (707)
Q Consensus       291 ~~~el~~~~~~le~~L~~~~~eL~~~e~~~~  321 (707)
                      -|.+-.+..=-.++.|..-.-+|-...+.++
T Consensus       167 ~W~eEKekVi~YQkQLQ~nYvqMy~rn~~LE  197 (202)
T PF06818_consen  167 TWQEEKEKVIRYQKQLQQNYVQMYQRNQALE  197 (202)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4655555555555555544444444444433

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

>PF13870 DUF4201: Domain of unknown function (DUF4201)

Probab=96.86  E-value=0.27  Score=48.09  Aligned_cols=89  Identities=17%  Similarity=0.213  Sum_probs=48.4

Q ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229          122 KLYDEVKNSLMLCETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLEQKLDSMRKQQKKYFDDV  201 (707)
Q Consensus       122 ~e~~~l~~ele~le~el~~~~~Ele~~e~~i~~l~~ele~~e~~l~~le~el~~~~~eL~~~e~el~~~~~ei~el~~el  201 (707)
                      -+|..++.+-..+..+|++...++..+...+...-.-+....+.+..+..++..+..+|...+..+..++.++.....+.
T Consensus        42 iDFeqLkien~~l~~kIeERn~eL~~Lk~~~~~~v~~L~h~keKl~~~~~~~~~l~~~l~~~~~~~~~~r~~l~~~k~~r  121 (177)
T PF13870_consen   42 IDFEQLKIENQQLNEKIEERNKELLKLKKKIGKTVQILTHVKEKLHFLSEELERLKQELKDREEELAKLREELYRVKKER  121 (177)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45666666666777777777777766666665555554444444555555555555555554444444444444444444


Q ss_pred             HHHHHHHHH
Q 005229          202 ELKKRELNE  210 (707)
Q Consensus       202 e~k~~e~~e  210 (707)
                      ......+..
T Consensus       122 ~k~~~~~~~  130 (177)
T PF13870_consen  122 DKLRKQNKK  130 (177)
T ss_pred             HHHHHHHHH
Confidence            443333333

>PF15066 CAGE1: Cancer-associated gene protein 1 family

Probab=96.81  E-value=1.1  Score=49.00  Aligned_cols=123  Identities=10%  Similarity=0.091  Sum_probs=63.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhcChhhHHHhHHHHHHHHHHHhhhchhhHHhhhhhhhhHHHHHHHHHHHHHhhhHHH
Q 005229          196 KYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIPGKKEELISKGKTIAECSKEVELKKNQLNLIQ  275 (707)
Q Consensus       196 el~~ele~k~~e~~e~~~ei~~l~~eie~~~~el~~~~~~le~l~~El~~l~~Ele~l~~~l~e~~~~le~k~~ele~l~  275 (707)
                      ++.+.+..+..-+.+.++.+.+..++-+.++-++..++...-.|+..+..--++....-.+.-+..+-|..+..++++++
T Consensus       387 d~~k~lqnLqe~la~tqk~LqEsr~eKetLqlelkK~k~nyv~LQEry~~eiQqKnksvsqclEmdk~LskKeeeverLQ  466 (527)
T PF15066_consen  387 DIEKTLQNLQEALANTQKHLQESRNEKETLQLELKKIKANYVHLQERYMTEIQQKNKSVSQCLEMDKTLSKKEEEVERLQ  466 (527)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHhhhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhhhHHHHHHHH
Confidence            33344444444444445555555555555555555555555555555544444444444455566666666666666666


Q ss_pred             HhhhhhhhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229          276 DKSSLFQTRTIVYLKELKEKETHFDSLKKGLEDRLQDLELKEREFE  321 (707)
Q Consensus       276 ~~le~le~~~~~~~~~~~el~~~~~~le~~L~~~~~eL~~~e~~~~  321 (707)
                      .....++..   ....+.-|....+..++++-.+.+++..-++++.
T Consensus       467 ~lkgelEka---t~SALdlLkrEKe~~EqefLslqeEfQk~ekenl  509 (527)
T PF15066_consen  467 QLKGELEKA---TTSALDLLKREKETREQEFLSLQEEFQKHEKENL  509 (527)
T ss_pred             HHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhH
Confidence            655555433   1223344444455555555555555555555444

>smart00787 Spc7 Spc7 kinetochore protein

Probab=96.80  E-value=0.53  Score=50.26  Aligned_cols=76  Identities=14%  Similarity=0.170  Sum_probs=40.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChhhH----HHhHHHHHHHHHHHh
Q 005229          165 KLELLQGKVRLHENEVESLEQKLDSMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPASK----DKELRFVQQSIEECS  240 (707)
Q Consensus       165 ~l~~le~el~~~~~eL~~~e~el~~~~~ei~el~~ele~k~~e~~e~~~ei~~l~~eie~~----~~el~~~~~~le~l~  240 (707)
                      .+..+++++.....++..+..++.+++.++..+...|+....++.++..+|..+++.++..    ..++..++..+..++
T Consensus       205 eL~~lk~~l~~~~~ei~~~~~~l~e~~~~l~~l~~~I~~~~~~k~e~~~~I~~ae~~~~~~r~~t~~Ei~~Lk~~~~~Le  284 (312)
T smart00787      205 ELDRAKEKLKKLLQEIMIKVKKLEELEEELQELESKIEDLTNKKSELNTEIAEAEKKLEQCRGFTFKEIEKLKEQLKLLQ  284 (312)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHH
Confidence            3555555555555555555555555555555555555555555555555555555544332    234444444444444

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

>TIGR01843 type_I_hlyD type I secretion membrane fusion protein, HlyD family

Probab=96.79  E-value=0.58  Score=52.06  Aligned_cols=12  Identities=17%  Similarity=0.227  Sum_probs=4.3

Q ss_pred             HHHHHhhhHhhH
Q 005229           20 FNCELELKENEL   31 (707)
Q Consensus        20 ~~~eL~l~e~eL   31 (707)
                      ++.++..++.++
T Consensus        86 l~~~~~~l~a~~   97 (423)
T TIGR01843        86 LESQVLRLEAEV   97 (423)
T ss_pred             HHHHHHHHHHHH
Confidence            333333333333

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.

>TIGR01843 type_I_hlyD type I secretion membrane fusion protein, HlyD family

Probab=96.77  E-value=0.38  Score=53.58  Aligned_cols=16  Identities=25%  Similarity=0.347  Sum_probs=5.7

Q ss_pred             HHHHHHHHHHHHHHHH
Q 005229          174 RLHENEVESLEQKLDS  189 (707)
Q Consensus       174 ~~~~~eL~~~e~el~~  189 (707)
                      ...+.++...+.++..
T Consensus       206 ~~~~~~l~~~~~~l~~  221 (423)
T TIGR01843       206 AEAQGELGRLEAELEV  221 (423)
T ss_pred             HHHHhHHHHHHHHHHH
Confidence            3333333333333333

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.

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

Probab=96.75  E-value=0.71  Score=46.11  Aligned_cols=44  Identities=20%  Similarity=0.227  Sum_probs=16.1

Q ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhH
Q 005229           88 SIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSL  131 (707)
Q Consensus        88 ~i~e~~~el~ele~ei~~l~~~i~e~~~~l~~~e~e~~~l~~el  131 (707)
                      +|.+.+......++.+.++..+...+..-|...+.+...++..+
T Consensus        35 ei~emkk~e~~~~k~m~ei~~eN~~L~epL~~a~~e~~eL~k~L   78 (201)
T PF13851_consen   35 EIAEMKKKEERNEKLMAEISQENKRLSEPLKKAEEEVEELRKQL   78 (201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333333333333333333333333333

>PF09787 Golgin_A5: Golgin subfamily A member 5; InterPro: IPR019177 This entry represents a family of proteins involved in maintaining Golgi structure

Probab=96.74  E-value=1.6  Score=50.05  Aligned_cols=64  Identities=17%  Similarity=0.241  Sum_probs=37.3

Q ss_pred             HHHHHhhhhhhHHHHHHHHhhhHhhHHHHHHHhhcCCCCCchHHHHHHH-----HHHHHHHHHHHHHHHHHH
Q 005229            6 VEKIMGLGQKRIGEFNCELELKENELNSLSVSLNLKNKPSSAQEWINKC-----QAYQKELRLWKNLIEECY   72 (707)
Q Consensus         6 ~~~~~~~~~~~~~~~~~eL~l~e~eL~~~~~el~~~~~~l~~~l~~~~~-----~~~~~el~~l~~~i~e~~   72 (707)
                      +..+...+..++.++..++..+..+|..++.+   ....++...-..++     ..+++.+..+...+....
T Consensus       107 l~~e~a~lk~~l~e~~~El~~l~~~l~~l~~~---~~~~~~~~~~~~~l~~~~~~sL~ekl~lld~al~~~~  175 (511)
T PF09787_consen  107 LSSELAVLKIRLQELDQELRRLRRQLEELQNE---KSRILSDESTVSRLQNGAPRSLQEKLSLLDEALKRED  175 (511)
T ss_pred             ccchhHHHHHHHHHHHHHHHHHHHHHHHHHHh---hhccCchhHHHHHHHHHHHhhHHHHHHHHHHHHHhcC
Confidence            44566677777777788888777777777221   12222222233333     666776666666555443

They stimulate the formation of Golgi stacks and ribbons, and are involved in intra-Golgi retrograde transport. Two main interactions have been characterised: one with RAB1A that has been activated by GTP-binding and another with isoform CASP of CUTL1 [].

>TIGR00634 recN DNA repair protein RecN

Probab=96.73  E-value=0.28  Score=57.05  Aligned_cols=44  Identities=9%  Similarity=0.051  Sum_probs=25.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229           50 WINKCQAYQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQE   93 (707)
Q Consensus        50 ~~~~~~~~~~el~~l~~~i~e~~~e~~~~~~ei~~le~~i~e~~   93 (707)
                      +...+.....++..+...+.++..+......++..++-++++++
T Consensus       159 ~~~~~~~~~~~~~~~~~~L~~l~~~~~~~~~eld~L~~ql~ELe  202 (563)
T TIGR00634       159 KVKAYRELYQAWLKARQQLKDRQQKEQELAQRLDFLQFQLEELE  202 (563)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHH
Confidence            44555555555555555555555555555555555555555555

All proteins in this family for which functions are known are ATP binding proteins involved in the initiation of recombination and recombinational repair.

>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=96.62  E-value=0.22  Score=50.64  Aligned_cols=22  Identities=18%  Similarity=0.211  Sum_probs=12.7

Q ss_pred             CCCCHHHHHHHHHHHHHHHHhh
Q 005229          439 PEINAQVRDEAMKVAGEWKKKM  460 (707)
Q Consensus       439 ~~~~~~v~~~A~~~A~~Wk~~~  460 (707)
                      +..++...++.+..-.+.+++|
T Consensus       273 ~s~~s~l~dQLK~qNQEL~ski  294 (307)
T PF10481_consen  273 NSSSSQLLDQLKAQNQELRSKI  294 (307)
T ss_pred             CCCchHHHHHHHHHhHHHHHHH
Confidence            3445555555566666666665

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 [].

>PF07111 HCR: Alpha helical coiled-coil rod protein (HCR); InterPro: IPR009800 This family consists of several mammalian alpha helical coiled-coil rod HCR proteins

Probab=96.59  E-value=2.1  Score=49.36  Aligned_cols=17  Identities=0%  Similarity=-0.062  Sum_probs=7.3

Q ss_pred             HHHHHHHHHHHHHHHHH
Q 005229          199 DDVELKKRELNEIRKYI  215 (707)
Q Consensus       199 ~ele~k~~e~~e~~~ei  215 (707)
                      .-+...++.+..+-..+
T Consensus       306 ~LL~~WREKVFaLmVQL  322 (739)
T PF07111_consen  306 QLLSRWREKVFALMVQL  322 (739)
T ss_pred             HHHHHHHHHHHHHHHHh
Confidence            33444444444444333

The function of HCR is unknown but it has been implicated in psoriasis in humans and is thought to affect keratinocyte proliferation [].; GO: 0030154 cell differentiation, 0005634 nucleus, 0005737 cytoplasm

>TIGR00634 recN DNA repair protein RecN

Probab=96.59  E-value=0.54  Score=54.75  Aligned_cols=8  Identities=13%  Similarity=0.293  Sum_probs=3.3

Q ss_pred             chhhHHHh
Q 005229          395 PALLVLHA  402 (707)
Q Consensus       395 pa~lVLd~  402 (707)
                      |.-+|||=
T Consensus       463 ~~~lilDE  470 (563)
T TIGR00634       463 VTTLIFDE  470 (563)
T ss_pred             CCEEEEEC
Confidence            34444443

All proteins in this family for which functions are known are ATP binding proteins involved in the initiation of recombination and recombinational repair.

>KOG0243 consensus Kinesin-like protein [Cytoskeleton]

Probab=96.56  E-value=2.9  Score=50.64  Aligned_cols=17  Identities=18%  Similarity=0.235  Sum_probs=10.0

Q ss_pred             HHHHHHHHHHHHHHhhh
Q 005229          445 VRDEAMKVAGEWKKKMR  461 (707)
Q Consensus       445 v~~~A~~~A~~Wk~~~~  461 (707)
                      .-+.|......|+.-+.
T Consensus       853 ~~~~~~~~~~~~~~~~~  869 (1041)
T KOG0243|consen  853 LLENAESQVDECKEAIE  869 (1041)
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            33556666666666653

>KOG4360 consensus Uncharacterized coiled coil protein [Function unknown]

Probab=96.54  E-value=0.34  Score=53.31  Aligned_cols=141  Identities=13%  Similarity=0.101  Sum_probs=78.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229          131 LMLCETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQGK-VRLHENEVESLEQKLDSMRKQQKKYFDDVELKKRELN  209 (707)
Q Consensus       131 le~le~el~~~~~Ele~~e~~i~~l~~ele~~e~~l~~le~e-l~~~~~eL~~~e~el~~~~~ei~el~~ele~k~~e~~  209 (707)
                      ++.+..++....++...+..+...++.|--..    ...++. +..+.+++.+...++..+.+++..+.+++....+++.
T Consensus       161 ~EaL~ekLk~~~een~~lr~k~~llk~Et~~~----~~keq~~y~~~~KelrdtN~q~~s~~eel~~kt~el~~q~Ee~s  236 (596)
T KOG4360|consen  161 LEALQEKLKPLEEENTQLRSKAMLLKTETLTY----EEKEQQLYGDCVKELRDTNTQARSGQEELQSKTKELSRQQEENS  236 (596)
T ss_pred             HHHHHhhcCChHHHHHHHHHHHHHHHhhhcch----hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34555555555666666555555555542222    111222 2245555555555555555555555555555555555


Q ss_pred             HHHHHHHHHhcChhhHHHhHHHHHHHHHHHhhhchhhHHhhhhhhhhHHHHHHHHHHHHHhhhHHH
Q 005229          210 EIRKYIEELNQDPASKDKELRFVQQSIEECSKEIPGKKEELISKGKTIAECSKEVELKKNQLNLIQ  275 (707)
Q Consensus       210 e~~~ei~~l~~eie~~~~el~~~~~~le~l~~El~~l~~Ele~l~~~l~e~~~~le~k~~ele~l~  275 (707)
                      .+..+|-.+.+++.-..-+.+.+...+.....-...+..|+.+++.++.++...+.+.+.+++.+.
T Consensus       237 kLlsql~d~qkk~k~~~~Ekeel~~~Lq~~~da~~ql~aE~~EleDkyAE~m~~~~EaeeELk~lr  302 (596)
T KOG4360|consen  237 KLLSQLVDLQKKIKYLRHEKEELDEHLQAYKDAQRQLTAELEELEDKYAECMQMLHEAEEELKCLR  302 (596)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            555555555555555555555555555555555666666777777777777777776666655443

>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=96.52  E-value=0.25  Score=50.23  Aligned_cols=85  Identities=20%  Similarity=0.309  Sum_probs=37.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229          108 TLIEENEGLLKDKEKLYDEVKNSLMLCETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLEQKL  187 (707)
Q Consensus       108 ~~i~e~~~~l~~~e~e~~~l~~ele~le~el~~~~~Ele~~e~~i~~l~~ele~~e~~l~~le~el~~~~~eL~~~e~el  187 (707)
                      -.|+.++..+.......+.-..+...++.+...+.+..+.++..-+.+..++...+.++.-++..+......|+.++.++
T Consensus        39 fQleSlEAaLqKQKqK~e~ek~e~s~LkREnq~l~e~c~~lek~rqKlshdlq~Ke~qv~~lEgQl~s~Kkqie~Leqel  118 (307)
T PF10481_consen   39 FQLESLEAALQKQKQKVEEEKNEYSALKRENQSLMESCENLEKTRQKLSHDLQVKESQVNFLEGQLNSCKKQIEKLEQEL  118 (307)
T ss_pred             HhHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhHHHHHHHHHHHHHHhhHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333444444555555555555555555555555544444444444444444444444433333


Q ss_pred             HHHHH
Q 005229          188 DSMRK  192 (707)
Q Consensus       188 ~~~~~  192 (707)
                      ..++.
T Consensus       119 kr~Ks  123 (307)
T PF10481_consen  119 KRCKS  123 (307)
T ss_pred             HHHHH
Confidence            33333

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 [].

>TIGR01005 eps_transp_fam exopolysaccharide transport protein family

Probab=96.46  E-value=0.2  Score=60.43  Aligned_cols=51  Identities=18%  Similarity=0.078  Sum_probs=29.3

Q ss_pred             hcccCcHHHHHHHHHHhhhCCCCCC-CHHHHHHHHHHhhhcchhhHHHhhhCCccchhhhHHHHh
Q 005229          462 VAVENSLEVLGFLHLLAAYRLAPAF-DREELESLLCIVAQHRQTPKLRRTLGFADKVPGLQCSTT  525 (707)
Q Consensus       462 ~~~~~~l~a~~fl~~l~~fgi~~~f-~~~el~~l~~~~~~~~~~~~l~~~lgl~~k~~~~i~~li  525 (707)
                      +|.|++.-|..|-..++.-|-..-+ |.|            -+.|.+...+|+.+ -+++.+.|.
T Consensus       556 ~G~GKTt~a~nLA~~lA~~g~rvLlID~D------------~~~~~l~~~~~~~~-~~gl~~~l~  607 (754)
T TIGR01005       556 PVLGKSDIEANAAALIASGGKRALLIDAD------------GRKAALSQILVARE-VSGLLDLLA  607 (754)
T ss_pred             CCCChhHHHHHHHHHHHhCCCeEEEEeCC------------CCchhHHHHhCCcc-cCChHHHHc
Confidence            4556788888888888766642221 332            22344566666543 456766664

The model describes the exopolysaccharide transport protein family in bacteria. The transport protein is part of a large genetic locus which is associated with exopolysaccharide (EPS) biosynthesis. Detailed molecular characterization and gene fusion analysis revealed atleast seven gene products are involved in the overall regulation, which among other things, include exopolysaccharide biosynthesis, property of conferring virulence and exopolysaccharide export.

>KOG1899 consensus LAR transmembrane tyrosine phosphatase-interacting protein liprin [General function prediction only]

Probab=96.43  E-value=0.42  Score=53.73  Aligned_cols=70  Identities=26%  Similarity=0.228  Sum_probs=34.5

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHH
Q 005229          102 KISSMQTLIEENEGLLKDKEKLYDEVKNSLMLCETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQG  171 (707)
Q Consensus       102 ei~~l~~~i~e~~~~l~~~e~e~~~l~~ele~le~el~~~~~Ele~~e~~i~~l~~ele~~e~~l~~le~  171 (707)
                      +|.++..-|++....|...++.++.--.....++.+.-.+-.++..++=++..++++-.+.|+++...++
T Consensus       140 KIrDLE~cie~kr~kLnatEEmLQqellsrtsLETqKlDLmaevSeLKLkltalEkeq~e~E~K~R~se~  209 (861)
T KOG1899|consen  140 KIRDLETCIEEKRNKLNATEEMLQQELLSRTSLETQKLDLMAEVSELKLKLTALEKEQNETEKKLRLSEN  209 (861)
T ss_pred             hHHHHHHHHHHHHhhhchHHHHHHHHHHhhhhHHHHHhHHHHHHHHhHHHHHHHHHHhhhHHHHHHhHHH
Confidence            3334444444444445555555444444445566666666666666655555555553333333333333

>PF06818 Fez1: Fez1; InterPro: IPR009638 This family represents the eukaryotic Fez1 protein

Probab=96.39  E-value=1.2  Score=44.12  Aligned_cols=30  Identities=30%  Similarity=0.494  Sum_probs=11.4

Q ss_pred             HHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229          127 VKNSLMLCETKLECEKKELELTQSSIKELS  156 (707)
Q Consensus       127 l~~ele~le~el~~~~~Ele~~e~~i~~l~  156 (707)
                      ...+++..+.++.....+.+.+...+..+.
T Consensus        64 K~~ELE~ce~ELqr~~~Ea~lLrekl~~le   93 (202)
T PF06818_consen   64 KQLELEVCENELQRKKNEAELLREKLGQLE   93 (202)
T ss_pred             hhHhHHHhHHHHHHHhCHHHHhhhhhhhhH
Confidence            333333333333333333333333333333

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

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

Probab=96.39  E-value=1.2  Score=44.42  Aligned_cols=103  Identities=16%  Similarity=0.255  Sum_probs=48.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChhhHHHhHHHHHHHHHHHhhhchh
Q 005229          166 LELLQGKVRLHENEVESLEQKLDSMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIPG  245 (707)
Q Consensus       166 l~~le~el~~~~~eL~~~e~el~~~~~ei~el~~ele~k~~e~~e~~~ei~~l~~eie~~~~el~~~~~~le~l~~El~~  245 (707)
                      +.++++++.+........+..+.++..+...+..-+...+.++.++...+...+++    ...+...+.++..+.+++..
T Consensus        29 IksLKeei~emkk~e~~~~k~m~ei~~eN~~L~epL~~a~~e~~eL~k~L~~y~kd----K~~L~~~k~rl~~~ek~l~~  104 (201)
T PF13851_consen   29 IKSLKEEIAEMKKKEERNEKLMAEISQENKRLSEPLKKAEEEVEELRKQLKNYEKD----KQSLQNLKARLKELEKELKD  104 (201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444444444444444444444444444444444444433222    22333344444445555555


Q ss_pred             hHHhhhhhhhhHHHHHHHHHHHHHhhh
Q 005229          246 KKEELISKGKTIAECSKEVELKKNQLN  272 (707)
Q Consensus       246 l~~Ele~l~~~l~e~~~~le~k~~ele  272 (707)
                      ++-+.+.+...+.....+.+.+...++
T Consensus       105 Lk~e~evL~qr~~kle~ErdeL~~kf~  131 (201)
T PF13851_consen  105 LKWEHEVLEQRFEKLEQERDELYRKFE  131 (201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            555555555555555555555544444

>KOG0982 consensus Centrosomal protein Nuf [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]

Probab=96.37  E-value=2  Score=46.58  Aligned_cols=81  Identities=15%  Similarity=0.029  Sum_probs=33.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229           75 VELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLMLCETKLECEKKELELTQSSIKE  154 (707)
Q Consensus        75 ~~~~~~ei~~le~~i~e~~~el~ele~ei~~l~~~i~e~~~~l~~~e~e~~~l~~ele~le~el~~~~~Ele~~e~~i~~  154 (707)
                      ...+..++..+++++.++..+-......-..++.+.-.+......++..+......-++.-.+-+....||..+..+-+.
T Consensus       217 r~di~~kv~flerkv~eledd~~~~gd~~SrlkqEnlqLvhR~h~LEEq~reqElraeE~l~Ee~rrhrEil~k~eReas  296 (502)
T KOG0982|consen  217 RIDIERKVRFLERKVQELEDDQNIAGDRSSRLKQENLQLVHRYHMLEEQRREQELRAEESLSEEERRHREILIKKEREAS  296 (502)
T ss_pred             hhhHHHHHHHHHHHHHHhhcchhccccchhHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34445555555555555555432222233333333333333333334444333333333333333444444444433333


Q ss_pred             H
Q 005229          155 L  155 (707)
Q Consensus       155 l  155 (707)
                      +
T Consensus       297 l  297 (502)
T KOG0982|consen  297 L  297 (502)
T ss_pred             H
Confidence            3

>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=96.36  E-value=0.81  Score=42.48  Aligned_cols=12  Identities=17%  Similarity=0.396  Sum_probs=4.3

Q ss_pred             hHHHHHHHHHHH
Q 005229          102 KISSMQTLIEEN  113 (707)
Q Consensus       102 ei~~l~~~i~e~  113 (707)
                      .+..++..+...
T Consensus        25 ~~~~~~~dl~~q   36 (132)
T PF07926_consen   25 QLQSLREDLESQ   36 (132)
T ss_pred             HHHHHHHHHHHH
Confidence            333333333333

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

>TIGR03007 pepcterm_ChnLen polysaccharide chain length determinant protein, PEP-CTERM locus subfamily

Probab=96.35  E-value=0.77  Score=52.55  Aligned_cols=20  Identities=5%  Similarity=0.049  Sum_probs=10.2

Q ss_pred             CCHHHHHHHHHHHHHHHHhh
Q 005229          441 INAQVRDEAMKVAGEWKKKM  460 (707)
Q Consensus       441 ~~~~v~~~A~~~A~~Wk~~~  460 (707)
                      .++..+..++.--.-|=-.+
T Consensus       464 ~~~~~~~~~~~~~~~~~~~~  483 (498)
T TIGR03007       464 ATPEERRRRRRRLAAFLASA  483 (498)
T ss_pred             CCHHHHHHHHHHHHHHHHHH
Confidence            34455555555555554433

Members of this protein family belong to the family of polysaccharide chain length determinant proteins (pfam02706). All are found in species that encode the PEP-CTERM/exosortase system predicted to act in protein sorting in a number of Gram-negative bacteria, and are found near the epsH homolog that is the putative exosortase gene.

>TIGR03007 pepcterm_ChnLen polysaccharide chain length determinant protein, PEP-CTERM locus subfamily

Probab=96.34  E-value=0.92  Score=51.92  Aligned_cols=31  Identities=10%  Similarity=0.000  Sum_probs=15.9

Q ss_pred             hhHHhhhhhhhhHHHHHHHHHHHHHhhhHHH
Q 005229          245 GKKEELISKGKTIAECSKEVELKKNQLNLIQ  275 (707)
Q Consensus       245 ~l~~Ele~l~~~l~e~~~~le~k~~ele~l~  275 (707)
                      ....++..++.+++......+.....++..+
T Consensus       352 ~~~~el~~L~Re~~~~~~~Y~~l~~r~eea~  382 (498)
T TIGR03007       352 EVEAELTQLNRDYEVNKSNYEQLLTRRESAE  382 (498)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344555555555555555555555554443

Members of this protein family belong to the family of polysaccharide chain length determinant proteins (pfam02706). All are found in species that encode the PEP-CTERM/exosortase system predicted to act in protein sorting in a number of Gram-negative bacteria, and are found near the epsH homolog that is the putative exosortase gene.

>PRK10869 recombination and repair protein; Provisional

Probab=96.28  E-value=0.95  Score=52.46  Aligned_cols=45  Identities=9%  Similarity=0.016  Sum_probs=27.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229           50 WINKCQAYQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEK   94 (707)
Q Consensus        50 ~~~~~~~~~~el~~l~~~i~e~~~e~~~~~~ei~~le~~i~e~~~   94 (707)
                      +...+...-.++..+...++++.........++..++-+++++..
T Consensus       155 ~~~~~~~~y~~~~~~~~~l~~l~~~~~~~~~~~d~l~fql~Ei~~  199 (553)
T PRK10869        155 LLQEMRAAYQLWHQSCRDLAQHQQQSQERAARKQLLQYQLKELNE  199 (553)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHh
Confidence            444555555666666666666666666666666666666666653

>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=96.23  E-value=0.47  Score=56.36  Aligned_cols=29  Identities=10%  Similarity=0.146  Sum_probs=14.8

Q ss_pred             HhhhhhhhhHHHHHHHHHHHHHhhhHHHH
Q 005229          248 EELISKGKTIAECSKEVELKKNQLNLIQD  276 (707)
Q Consensus       248 ~Ele~l~~~l~e~~~~le~k~~ele~l~~  276 (707)
                      .+.+.++..+.+.-.+|+....+++.+..
T Consensus       685 ~Q~~~I~~iL~~~~~~I~~~v~~ik~i~~  713 (717)
T PF10168_consen  685 SQKRTIKEILKQQGEEIDELVKQIKNIKK  713 (717)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34445555555555555555555554443

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 [].

>KOG0243 consensus Kinesin-like protein [Cytoskeleton]

Probab=96.22  E-value=4.5  Score=49.13  Aligned_cols=65  Identities=18%  Similarity=0.131  Sum_probs=27.3

Q ss_pred             HHHHHHHhhhHhhHHHHHHHhhcCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229           18 GEFNCELELKENELNSLSVSLNLKNKPSSAQEWINKCQAYQKELRLWKNLIEECYDEVELREKKVGEAQRSI   89 (707)
Q Consensus        18 ~~~~~eL~l~e~eL~~~~~el~~~~~~l~~~l~~~~~~~~~~el~~l~~~i~e~~~e~~~~~~ei~~le~~i   89 (707)
                      +++..||+.+..+|-..+....-.       ....+|.....++.....+|+++..++..+++++..+....
T Consensus       407 Kd~~~EIerLK~dl~AaReKnGvy-------isee~y~~~e~e~~~~~~~ieele~el~~~~~~l~~~~e~~  471 (1041)
T KOG0243|consen  407 KDLYEEIERLKRDLAAAREKNGVY-------ISEERYTQEEKEKKEMAEQIEELEEELENLEKQLKDLTELY  471 (1041)
T ss_pred             HHHHHHHHHHHHHHHHhHhhCceE-------echHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344455555555554443332211       12233333334444444444444444444444444444333

>KOG4593 consensus Mitotic checkpoint protein MAD1 [Cell cycle control, cell division, chromosome partitioning]

Probab=96.20  E-value=3.4  Score=47.66  Aligned_cols=29  Identities=21%  Similarity=0.290  Sum_probs=11.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 005229          131 LMLCETKLECEKKELELTQSSIKELSMEF  159 (707)
Q Consensus       131 le~le~el~~~~~Ele~~e~~i~~l~~el  159 (707)
                      ++.+...+...-.+++..+........++
T Consensus       239 le~i~~~~~dqlqel~~l~~a~~q~~ee~  267 (716)
T KOG4593|consen  239 LEAINKNMKDQLQELEELERALSQLREEL  267 (716)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333334444444444443443

>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=96.19  E-value=0.41  Score=44.49  Aligned_cols=97  Identities=18%  Similarity=0.171  Sum_probs=43.9

Q ss_pred             cChhhHHHhHHHHHHHHHHHhhhchhhHHhhhhhhhhHHHHHHHHHHHHHhhhHHHHhhhhhhhHHHHHHHhHHHHHHHH
Q 005229          220 QDPASKDKELRFVQQSIEECSKEIPGKKEELISKGKTIAECSKEVELKKNQLNLIQDKSSLFQTRTIVYLKELKEKETHF  299 (707)
Q Consensus       220 ~eie~~~~el~~~~~~le~l~~El~~l~~Ele~l~~~l~e~~~~le~k~~ele~l~~~le~le~~~~~~~~~~~el~~~~  299 (707)
                      .++..........+...+.-...+...-+.+..++.++......+...+.+.+.....+...       ...|.+-+..+
T Consensus        31 ~dl~~q~~~a~~Aq~~YE~El~~Ha~~~~~L~~lr~e~~~~~~~~~~l~~~~~~a~~~l~~~-------e~sw~~qk~~l  103 (132)
T PF07926_consen   31 EDLESQAKIAQEAQQKYERELVKHAEDIKELQQLREELQELQQEINELKAEAESAKAELEES-------EASWEEQKEQL  103 (132)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHhHHHHHHHH
Confidence            33333333333333333333333334444444444444444444444444444444333332       23366655555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q 005229          300 DSLKKGLEDRLQDLELKEREFEKR  323 (707)
Q Consensus       300 ~~le~~L~~~~~eL~~~e~~~~~~  323 (707)
                      ..--..+..+..+|.....-+-..
T Consensus       104 e~e~~~~~~r~~dL~~QN~lLh~Q  127 (132)
T PF07926_consen  104 EKELSELEQRIEDLNEQNKLLHDQ  127 (132)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            555555555555555555544433

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

>TIGR01005 eps_transp_fam exopolysaccharide transport protein family

Probab=96.08  E-value=1.3  Score=53.51  Aligned_cols=54  Identities=6%  Similarity=-0.015  Sum_probs=26.0

Q ss_pred             hHHHHHHHHHHHhhhchhhHHh---hhhhhhhHHHHHHHHHHHHHhhhHHHHhhhhh
Q 005229          228 ELRFVQQSIEECSKEIPGKKEE---LISKGKTIAECSKEVELKKNQLNLIQDKSSLF  281 (707)
Q Consensus       228 el~~~~~~le~l~~El~~l~~E---le~l~~~l~e~~~~le~k~~ele~l~~~le~l  281 (707)
                      ++.......+.+...+..++.+   +.....++..++++.+..+.-++.+-...+..
T Consensus       346 ~~~~a~~~~~~L~~~l~~~~~~~~~~~~~~~e~~~L~Re~~~~~~~Y~~ll~r~~e~  402 (754)
T TIGR01005       346 QADAAQARESQLVSDVNQLKAASAQAGEQQVDLDALQRDAAAKRQLYESYLTNYRQA  402 (754)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhCcHhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333343333333332   23334556666666666666666555555443

The model describes the exopolysaccharide transport protein family in bacteria. The transport protein is part of a large genetic locus which is associated with exopolysaccharide (EPS) biosynthesis. Detailed molecular characterization and gene fusion analysis revealed atleast seven gene products are involved in the overall regulation, which among other things, include exopolysaccharide biosynthesis, property of conferring virulence and exopolysaccharide export.

>KOG1899 consensus LAR transmembrane tyrosine phosphatase-interacting protein liprin [General function prediction only]

Probab=96.03  E-value=1.3  Score=49.90  Aligned_cols=140  Identities=15%  Similarity=0.132  Sum_probs=58.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Q 005229           55 QAYQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLMLC  134 (707)
Q Consensus        55 ~~~~~el~~l~~~i~e~~~e~~~~~~ei~~le~~i~e~~~el~ele~ei~~l~~~i~e~~~~l~~~e~e~~~l~~ele~l  134 (707)
                      .++++.+..++...+.+.-+...+..++..-..+|.+++.=|++...++......+..---..-.++..+-.+..++..+
T Consensus       107 ~~yQerLaRLe~dkesL~LQvsvLteqVeaQgEKIrDLE~cie~kr~kLnatEEmLQqellsrtsLETqKlDLmaevSeL  186 (861)
T KOG1899|consen  107 PEYQERLARLEMDKESLQLQVSVLTEQVEAQGEKIRDLETCIEEKRNKLNATEEMLQQELLSRTSLETQKLDLMAEVSEL  186 (861)
T ss_pred             hHHHHHHHHHhcchhhheehHHHHHHHHHHhhhhHHHHHHHHHHHHhhhchHHHHHHHHHHhhhhHHHHHhHHHHHHHHh
Confidence            33444444444444444444444444444444444444444444444444433333322222234444444444455555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229          135 ETKLECEKKELELTQSSIKELSMEFHSEE-EKLELLQGKVRLHENEVESLEQKLDSMRKQQ  194 (707)
Q Consensus       135 e~el~~~~~Ele~~e~~i~~l~~ele~~e-~~l~~le~el~~~~~eL~~~e~el~~~~~ei  194 (707)
                      +-.+..++++....++++...+..+.++. ..+....++..+.+.++..-..++..+++++
T Consensus       187 KLkltalEkeq~e~E~K~R~se~l~qevn~~kv~e~~~erlqye~klkstk~e~a~L~Eq~  247 (861)
T KOG1899|consen  187 KLKLTALEKEQNETEKKLRLSENLMQEVNQSKVGEVVQERLQYETKLKSTKGEMAPLREQR  247 (861)
T ss_pred             HHHHHHHHHHhhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhhcccccchhhhHHHHH
Confidence            55555555444444444444333333332 1133333333333333433333433343333

>PF13166 AAA_13: AAA domain

Probab=95.98  E-value=1.6  Score=52.30  Aligned_cols=54  Identities=19%  Similarity=0.269  Sum_probs=22.5

Q ss_pred             hHHHHHHHHHHHhhhchhhHHhhhhhhhhHHHHHHHHHHHHHhhhHHHHhhhhh
Q 005229          228 ELRFVQQSIEECSKEIPGKKEELISKGKTIAECSKEVELKKNQLNLIQDKSSLF  281 (707)
Q Consensus       228 el~~~~~~le~l~~El~~l~~Ele~l~~~l~e~~~~le~k~~ele~l~~~le~l  281 (707)
                      ++..+++.+..+...+..+..++..++.++.++...+.....-.+.+...+..+
T Consensus       418 ~~~~~~~~i~~~~~~~~~~~~~~~~~~~~i~~l~~~~~~~~~~~~~iN~~L~~~  471 (712)
T PF13166_consen  418 EIKELEKEINSLEKKLKKAKEEIKKIEKEIKELEAQLKNTEPAADRINEELKRL  471 (712)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHh
Confidence            333333333334444444444444444444444444443333344444444444

>KOG0982 consensus Centrosomal protein Nuf [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]

Probab=95.97  E-value=3.1  Score=45.13  Aligned_cols=32  Identities=13%  Similarity=-0.028  Sum_probs=15.1

Q ss_pred             HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 005229          127 VKNSLMLCETKLECEKKELELTQSSIKELSME  158 (707)
Q Consensus       127 l~~ele~le~el~~~~~Ele~~e~~i~~l~~e  158 (707)
                      +++.+.+++.+..++...+..+...++.+..+
T Consensus       302 lqmr~qqleeentelRs~~arlksl~dklaee  333 (502)
T KOG0982|consen  302 LQMRDQQLEEENTELRSLIARLKSLADKLAEE  333 (502)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            44444444444444444444444444444444

>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=95.93  E-value=0.7  Score=54.93  Aligned_cols=40  Identities=20%  Similarity=0.143  Sum_probs=17.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 005229           75 VELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENE  114 (707)
Q Consensus        75 ~~~~~~ei~~le~~i~e~~~el~ele~ei~~l~~~i~e~~  114 (707)
                      ...++.++..+...++..-.+|.+++++++.++..-+.+.
T Consensus       560 r~ei~~rv~~Lk~~~e~Ql~~L~~l~e~~~~l~~~ae~La  599 (717)
T PF10168_consen  560 REEIQRRVKLLKQQKEQQLKELQELQEERKSLRESAEKLA  599 (717)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444444444444444444444444444443333333

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 [].

>PRK10869 recombination and repair protein; Provisional

Probab=95.83  E-value=3.1  Score=48.28  Aligned_cols=10  Identities=10%  Similarity=0.434  Sum_probs=5.0

Q ss_pred             CchhhHHHhh
Q 005229          394 DPALLVLHAM  403 (707)
Q Consensus       394 dpa~lVLd~~  403 (707)
                      +|.-+|||=+
T Consensus       452 ~~~~li~DEp  461 (553)
T PRK10869        452 ETPALIFDEV  461 (553)
T ss_pred             CCCEEEEECC
Confidence            4555555543

>KOG0249 consensus LAR-interacting protein and related proteins [General function prediction only]

Probab=95.80  E-value=2.1  Score=49.28  Aligned_cols=42  Identities=12%  Similarity=0.187  Sum_probs=24.5

Q ss_pred             hhchhhHHhhhhhhhhHHHHHHHHHHHHHhhhHHHHhhhhhh
Q 005229          241 KEIPGKKEELISKGKTIAECSKEVELKKNQLNLIQDKSSLFQ  282 (707)
Q Consensus       241 ~El~~l~~Ele~l~~~l~e~~~~le~k~~ele~l~~~le~le  282 (707)
                      .+...+.++++++++.+.+.....+.+....+.+..++..|.
T Consensus       216 e~kn~L~~e~~s~kk~l~~~~~~k~rl~~d~E~Lr~e~~qL~  257 (916)
T KOG0249|consen  216 EDKNRLEQELESVKKQLEEMRHDKDKLRTDIEDLRGELDQLR  257 (916)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            344455556666666666666666666666666655555554

>PF15397 DUF4618: Domain of unknown function (DUF4618)

Probab=95.76  E-value=2.9  Score=43.09  Aligned_cols=44  Identities=14%  Similarity=0.206  Sum_probs=21.7

Q ss_pred             HHHHhhhchhhHHhhhhhhhhHHHHHHHHHHHHHhhhHHHHhhh
Q 005229          236 IEECSKEIPGKKEELISKGKTIAECSKEVELKKNQLNLIQDKSS  279 (707)
Q Consensus       236 le~l~~El~~l~~Ele~l~~~l~e~~~~le~k~~ele~l~~~le  279 (707)
                      +-....++..+.+++...++.+.+...++..++++++.+..+..
T Consensus       181 l~~~~~~N~~m~kei~~~re~i~el~e~I~~L~~eV~~L~~~~~  224 (258)
T PF15397_consen  181 LLQRTLENQVMQKEIVQFREEIDELEEEIPQLRAEVEQLQAQAQ  224 (258)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            33333444445555555555555555555555555554444333

>PF13514 AAA_27: AAA domain

Probab=95.72  E-value=9  Score=48.53  Aligned_cols=35  Identities=20%  Similarity=0.280  Sum_probs=14.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHH
Q 005229           73 DEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQ  107 (707)
Q Consensus        73 ~e~~~~~~ei~~le~~i~e~~~el~ele~ei~~l~  107 (707)
                      .+...++.++..++.++......+...+..+...+
T Consensus       673 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  707 (1111)
T PF13514_consen  673 ARREQLEEELQQLEQELEEAEAELQEAQEALEEWQ  707 (1111)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444444444444444444444433

>PF13166 AAA_13: AAA domain

Probab=95.72  E-value=3  Score=50.00  Aligned_cols=12  Identities=0%  Similarity=-0.014  Sum_probs=5.4

Q ss_pred             HHHhhcCCcccc
Q 005229          522 CSTTAEGRSAPS  533 (707)
Q Consensus       522 ~~li~~g~~~~a  533 (707)
                      -.+|+.|-|.+.
T Consensus       677 ~r~~n~~SH~~~  688 (712)
T PF13166_consen  677 YRLINDESHSEE  688 (712)
T ss_pred             HHHHhhcCCcCc
Confidence            344455544443

>KOG4360 consensus Uncharacterized coiled coil protein [Function unknown]

Probab=95.69  E-value=1.3  Score=48.99  Aligned_cols=96  Identities=14%  Similarity=0.198  Sum_probs=64.4

Q ss_pred             hHHHhHHHHHHHHHHHhhhchhhHHhhhhhhhhHHHHHHHHHHHHHhhhHHHHhhhhhhhHHHHHHHhHHHHHHHHHHHH
Q 005229          224 SKDKELRFVQQSIEECSKEIPGKKEELISKGKTIAECSKEVELKKNQLNLIQDKSSLFQTRTIVYLKELKEKETHFDSLK  303 (707)
Q Consensus       224 ~~~~el~~~~~~le~l~~El~~l~~Ele~l~~~l~e~~~~le~k~~ele~l~~~le~le~~~~~~~~~~~el~~~~~~le  303 (707)
                      ..+.......+.+....+++..+.+|...+..+|..+.+++....-+.+++...+..+..+-+.++.+++++++.+....
T Consensus       209 dtN~q~~s~~eel~~kt~el~~q~Ee~skLlsql~d~qkk~k~~~~Ekeel~~~Lq~~~da~~ql~aE~~EleDkyAE~m  288 (596)
T KOG4360|consen  209 DTNTQARSGQEELQSKTKELSRQQEENSKLLSQLVDLQKKIKYLRHEKEELDEHLQAYKDAQRQLTAELEELEDKYAECM  288 (596)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHH
Confidence            33334444444444445555555555555555666666666666666777777788877777778888888888888888


Q ss_pred             HHHHHHHHHHHHHHHH
Q 005229          304 KGLEDRLQDLELKERE  319 (707)
Q Consensus       304 ~~L~~~~~eL~~~e~~  319 (707)
                      +.+.+-.++|+.+...
T Consensus       289 ~~~~EaeeELk~lrs~  304 (596)
T KOG4360|consen  289 QMLHEAEEELKCLRSC  304 (596)
T ss_pred             HHHHHHHHHHHhhccC
Confidence            8888888887776543

>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=95.68  E-value=3.4  Score=43.45  Aligned_cols=41  Identities=10%  Similarity=0.072  Sum_probs=19.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229           55 QAYQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQ   95 (707)
Q Consensus        55 ~~~~~el~~l~~~i~e~~~e~~~~~~ei~~le~~i~e~~~e   95 (707)
                      ..+...+..+..+-..+..+......+...|..++..++..
T Consensus        23 ~~l~~~~~sL~qen~~Lk~El~~ek~~~~~L~~e~~~lr~~   63 (310)
T PF09755_consen   23 EQLRKRIESLQQENRVLKRELETEKARCKHLQEENRALREA   63 (310)
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444444444444444444444444444443

>TIGR03017 EpsF chain length determinant protein EpsF

Probab=95.42  E-value=3.1  Score=46.82  Aligned_cols=33  Identities=9%  Similarity=0.133  Sum_probs=20.8

Q ss_pred             hhhhhhhHHHHHHHHHHHHHhhhHHHHhhhhhh
Q 005229          250 LISKGKTIAECSKEVELKKNQLNLIQDKSSLFQ  282 (707)
Q Consensus       250 le~l~~~l~e~~~~le~k~~ele~l~~~le~le  282 (707)
                      +.....++..++++.+..+..++.+-...+...
T Consensus       337 l~~~~~~~~~L~r~~~~~~~~y~~ll~r~~e~~  369 (444)
T TIGR03017       337 LNRQRDEMSVLQRDVENAQRAYDAAMQRYTQTR  369 (444)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333445666777777777777776666665543

Sequences in this family of proteins are members of the chain length determinant family (pfam02706) which includes the wzc protein from E.coli. This family of proteins are homologous to the EpsF protein of the methanolan biosynthesis operon of Methylobacillus species strain 12S. The distribution of this protein appears to be restricted to a subset of exopolysaccharide operons containing a syntenic grouping of genes including a variant of the EpsH exosortase protein. Exosortase has been proposed to be involved in the targetting and processing of proteins containing the PEP-CTERM domain to the exopolysaccharide layer.

>PF04111 APG6: Autophagy protein Apg6; InterPro: IPR007243 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells

Probab=95.42  E-value=0.14  Score=54.73  Aligned_cols=63  Identities=21%  Similarity=0.171  Sum_probs=25.5

Q ss_pred             HHHHHHHHHHHHHHhcChhhHHHhHHHHHHHHHHHhhhchhhHHhhhhhhhhHHHHHHHHHHH
Q 005229          205 KRELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIPGKKEELISKGKTIAECSKEVELK  267 (707)
Q Consensus       205 ~~e~~e~~~ei~~l~~eie~~~~el~~~~~~le~l~~El~~l~~Ele~l~~~l~e~~~~le~k  267 (707)
                      +++..++..++..++.+...+..+-...-.....+..++....++++++..++......++.+
T Consensus        70 E~e~~~l~~el~~le~e~~~l~~eE~~~~~~~n~~~~~l~~~~~e~~sl~~q~~~~~~~L~~L  132 (314)
T PF04111_consen   70 EKEREELDQELEELEEELEELDEEEEEYWREYNELQLELIEFQEERDSLKNQYEYASNQLDRL  132 (314)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333333333333333333344444444444444444444444444444433

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.

>PF04111 APG6: Autophagy protein Apg6; InterPro: IPR007243 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells

Probab=95.38  E-value=0.26  Score=52.78  Aligned_cols=10  Identities=30%  Similarity=0.428  Sum_probs=5.9

Q ss_pred             HHHHHHHhhh
Q 005229          425 RSCILLLEQL  434 (707)
Q Consensus       425 ~~c~~lle~l  434 (707)
                      +||-++|-.|
T Consensus       292 ~AlK~lLtnl  301 (314)
T PF04111_consen  292 KALKYLLTNL  301 (314)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            4666666555

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.

>TIGR01000 bacteriocin_acc bacteriocin secretion accessory protein

Probab=95.37  E-value=2.8  Score=47.50  Aligned_cols=28  Identities=7%  Similarity=0.024  Sum_probs=15.7

Q ss_pred             HHHHHHhhhhhhHHHHHHHHhhhHhhHH
Q 005229            5 RVEKIMGLGQKRIGEFNCELELKENELN   32 (707)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~eL~l~e~eL~   32 (707)
                      .+..+++..+.++..+..++..++.++.
T Consensus        94 ~~~~~~~~~~~~~~~~~~~~~rL~a~~~  121 (457)
T TIGR01000        94 NEENQKQLLEQQLDNLKDQKKSLDTLKQ  121 (457)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3445555566666666666665555443

This family represents an accessory protein that works with the bacteriocin maturation and ABC transport secretion protein described by TIGR01193.

>KOG2991 consensus Splicing regulator [RNA processing and modification]

Probab=95.31  E-value=3.7  Score=41.49  Aligned_cols=55  Identities=7%  Similarity=0.104  Sum_probs=43.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH
Q 005229           49 EWINKCQAYQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQLAFKESKI  103 (707)
Q Consensus        49 l~~~~~~~~~~el~~l~~~i~e~~~e~~~~~~ei~~le~~i~e~~~el~ele~ei  103 (707)
                      ++...|..++..-..+..+......+-..+-.++...+.++.++...+..++...
T Consensus       105 ll~d~i~nLk~se~~lkqQ~~~a~RrE~ilv~rlA~kEQEmqe~~sqi~~lK~qq  159 (330)
T KOG2991|consen  105 LLSDDITNLKESEEKLKQQQQEAARRENILVMRLATKEQEMQECTSQIQYLKQQQ  159 (330)
T ss_pred             hhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            3788888888888888888888777777788888888888888888877776654

>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=95.30  E-value=1.3  Score=40.40  Aligned_cols=42  Identities=14%  Similarity=0.137  Sum_probs=20.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 005229          110 IEENEGLLKDKEKLYDEVKNSLMLCETKLECEKKELELTQSS  151 (707)
Q Consensus       110 i~e~~~~l~~~e~e~~~l~~ele~le~el~~~~~Ele~~e~~  151 (707)
                      ++.+...|+..+.++..++.++..++...+.+..||-.+...
T Consensus        18 ve~L~s~lr~~E~E~~~l~~el~~l~~~r~~l~~Eiv~l~~~   59 (120)
T PF12325_consen   18 VERLQSQLRRLEGELASLQEELARLEAERDELREEIVKLMEE   59 (120)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444555555555555555544444444444333

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 [].

>KOG1850 consensus Myosin-like coiled-coil protein [Cytoskeleton]

Probab=95.19  E-value=4.8  Score=42.06  Aligned_cols=76  Identities=13%  Similarity=0.175  Sum_probs=33.7

Q ss_pred             HHHHHHHHHHHhcChhhHHHhHHHHHHHHHHHhhhchhhHHhhhhhhhhHHHHHHHHHHHHHhhhHHHHhhhhhhh
Q 005229          208 LNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIPGKKEELISKGKTIAECSKEVELKKNQLNLIQDKSSLFQT  283 (707)
Q Consensus       208 ~~e~~~ei~~l~~eie~~~~el~~~~~~le~l~~El~~l~~Ele~l~~~l~e~~~~le~k~~ele~l~~~le~le~  283 (707)
                      +.++..-+.+.+.-+..+..+++...+.+..++++--.++..-+.-.+.+-..-.+-......++.++..+..|+.
T Consensus       231 yeefq~tl~KSNE~F~~fK~E~ekmtKk~kklEKE~l~wr~K~e~aNk~vL~la~ekt~~~k~~~~lq~kiq~Lek  306 (391)
T KOG1850|consen  231 YEEFQTTLAKSNELFTKFKQEMEKMTKKIKKLEKETLIWRTKWENANKAVLQLAEEKTVRDKEYETLQKKIQRLEK  306 (391)
T ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence            3444444444444444455555555555555555555554444444443333333333333334444444444333

>COG2433 Uncharacterized conserved protein [Function unknown]

Probab=95.14  E-value=0.76  Score=51.99  Aligned_cols=8  Identities=13%  Similarity=0.144  Sum_probs=3.1

Q ss_pred             CHHHHHHH
Q 005229          442 NAQVRDEA  449 (707)
Q Consensus       442 ~~~v~~~A  449 (707)
                      ++++..+|
T Consensus       611 ~~eelr~~  618 (652)
T COG2433         611 DSEELRRA  618 (652)
T ss_pred             cHHHHHHH
Confidence            33333333

>KOG4438 consensus Centromere-associated protein NUF2 [Cell cycle control, cell division, chromosome partitioning]

Probab=95.02  E-value=6.7  Score=42.80  Aligned_cols=29  Identities=14%  Similarity=0.124  Sum_probs=11.2

Q ss_pred             HHHHHHHhhhchhhHHhhhhhhhhHHHHH
Q 005229          233 QQSIEECSKEIPGKKEELISKGKTIAECS  261 (707)
Q Consensus       233 ~~~le~l~~El~~l~~Ele~l~~~l~e~~  261 (707)
                      .+.++...+.......++......+.+..
T Consensus       365 ~~~md~~~~~~n~V~~kr~a~~~kie~~~  393 (446)
T KOG4438|consen  365 KAMMDDNIEKYNVVRQKRNAKVKKIEEKN  393 (446)
T ss_pred             HHHHHHHHHHhcccchhhccHHHHHHHHH
Confidence            33333333333333344444333333333

>PF13870 DUF4201: Domain of unknown function (DUF4201)

Probab=95.01  E-value=3.8  Score=39.97  Aligned_cols=10  Identities=30%  Similarity=0.464  Sum_probs=3.6

Q ss_pred             HHHHHHHHHH
Q 005229          105 SMQTLIEENE  114 (707)
Q Consensus       105 ~l~~~i~e~~  114 (707)
                      .+...|++..
T Consensus        53 ~l~~kIeERn   62 (177)
T PF13870_consen   53 QLNEKIEERN   62 (177)
T ss_pred             HHHHHHHHHH
Confidence            3333333333

>PF07111 HCR: Alpha helical coiled-coil rod protein (HCR); InterPro: IPR009800 This family consists of several mammalian alpha helical coiled-coil rod HCR proteins

Probab=95.01  E-value=9.3  Score=44.34  Aligned_cols=8  Identities=13%  Similarity=-0.193  Sum_probs=3.4

Q ss_pred             HHHHhhcC
Q 005229          521 QCSTTAEG  528 (707)
Q Consensus       521 i~~li~~g  528 (707)
                      +-.++++|
T Consensus       666 lps~~~k~  673 (739)
T PF07111_consen  666 LPSLLEKE  673 (739)
T ss_pred             cCCccccc
Confidence            33444444

The function of HCR is unknown but it has been implicated in psoriasis in humans and is thought to affect keratinocyte proliferation [].; GO: 0030154 cell differentiation, 0005634 nucleus, 0005737 cytoplasm

>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=94.66  E-value=1.9  Score=46.89  Aligned_cols=8  Identities=13%  Similarity=0.148  Sum_probs=3.1

Q ss_pred             HHHHHHHH
Q 005229           90 EEQEKQLA   97 (707)
Q Consensus        90 ~e~~~el~   97 (707)
                      .+|+.+++
T Consensus       194 ~eWklEvE  201 (359)
T PF10498_consen  194 AEWKLEVE  201 (359)
T ss_pred             HHHHHHHH
Confidence            33443333

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.

>COG2433 Uncharacterized conserved protein [Function unknown]

Probab=94.65  E-value=0.65  Score=52.51  Aligned_cols=42  Identities=19%  Similarity=0.294  Sum_probs=17.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Q 005229           76 ELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLL  117 (707)
Q Consensus        76 ~~~~~ei~~le~~i~e~~~el~ele~ei~~l~~~i~e~~~~l  117 (707)
                      ....+++..+++.++.+..++..++.++.++++.|+.++.++
T Consensus       418 ~~~~~~i~~~~~~ve~l~~e~~~L~~~~ee~k~eie~L~~~l  459 (652)
T COG2433         418 TVYEKRIKKLEETVERLEEENSELKRELEELKREIEKLESEL  459 (652)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444444444444444444444443333

>TIGR03017 EpsF chain length determinant protein EpsF

Probab=94.54  E-value=10  Score=42.64  Aligned_cols=27  Identities=11%  Similarity=0.098  Sum_probs=14.0

Q ss_pred             hhhhhhHHHHHHHHhhhHhhHHHHHHH
Q 005229           11 GLGQKRIGEFNCELELKENELNSLSVS   37 (707)
Q Consensus        11 ~~~~~~~~~~~~eL~l~e~eL~~~~~e   37 (707)
                      .-++.++.++..++...+.+|...+.+
T Consensus       174 ~fl~~ql~~~~~~l~~ae~~l~~fr~~  200 (444)
T TIGR03017       174 LWFVQQIAALREDLARAQSKLSAYQQE  200 (444)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334445555555555555555555444

Sequences in this family of proteins are members of the chain length determinant family (pfam02706) which includes the wzc protein from E.coli. This family of proteins are homologous to the EpsF protein of the methanolan biosynthesis operon of Methylobacillus species strain 12S. The distribution of this protein appears to be restricted to a subset of exopolysaccharide operons containing a syntenic grouping of genes including a variant of the EpsH exosortase protein. Exosortase has been proposed to be involved in the targetting and processing of proteins containing the PEP-CTERM domain to the exopolysaccharide layer.

>KOG0249 consensus LAR-interacting protein and related proteins [General function prediction only]

Probab=94.49  E-value=5.3  Score=46.11  Aligned_cols=26  Identities=15%  Similarity=0.187  Sum_probs=10.2

Q ss_pred             HHHHHHHhcChhhHHHhHHHHHHHHH
Q 005229          212 RKYIEELNQDPASKDKELRFVQQSIE  237 (707)
Q Consensus       212 ~~ei~~l~~eie~~~~el~~~~~~le  237 (707)
                      ...+.++...++++..++..+.++++
T Consensus       162 eer~~kl~~~~qe~naeL~rarqree  187 (916)
T KOG0249|consen  162 EERTRKLEEQLEELNAELQRARQREK  187 (916)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333444444444443333

>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=94.49  E-value=1.7  Score=47.30  Aligned_cols=32  Identities=13%  Similarity=0.216  Sum_probs=13.8

Q ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Q 005229           90 EEQEKQLAFKESKISSMQTLIEENEGLLKDKE  121 (707)
Q Consensus        90 ~e~~~el~ele~ei~~l~~~i~e~~~~l~~~e  121 (707)
                      .+|+..+++...-...+...+......|+.+.
T Consensus       216 kDWR~hleqm~~~~~~I~~~~~~~~~~L~kl~  247 (359)
T PF10498_consen  216 KDWRSHLEQMKQHKKSIESALPETKSQLDKLQ  247 (359)
T ss_pred             chHHHHHHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence            34444444444444444444444443333333

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.

>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]

Probab=94.34  E-value=2.7  Score=45.94  Aligned_cols=27  Identities=37%  Similarity=0.282  Sum_probs=10.2

Q ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHHHH
Q 005229          119 DKEKLYDEVKNSLMLCETKLECEKKEL  145 (707)
Q Consensus       119 ~~e~e~~~l~~ele~le~el~~~~~El  145 (707)
                      ..+...+.+...+.++..++....+++
T Consensus       372 ~~e~~kk~~e~k~~q~q~k~~k~~kel  398 (493)
T KOG0804|consen  372 DLEAEKKIVERKLQQLQTKLKKCQKEL  398 (493)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333333333333333

>PF12777 MT: Microtubule-binding stalk of dynein motor; InterPro: IPR024743 The 380 kDa motor unit of dynein belongs to the AAA class of chaperone-like ATPases

Probab=94.29  E-value=8.3  Score=41.93  Aligned_cols=90  Identities=17%  Similarity=0.178  Sum_probs=57.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhcChhhHHHhHHHHHHHHHHHhhhchhhHHhhhhhhhhHHHHHHHHHHHHHhhhHHHH
Q 005229          197 YFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIPGKKEELISKGKTIAECSKEVELKKNQLNLIQD  276 (707)
Q Consensus       197 l~~ele~k~~e~~e~~~ei~~l~~eie~~~~el~~~~~~le~l~~El~~l~~Ele~l~~~l~e~~~~le~k~~ele~l~~  276 (707)
                      +...+...+.++...+..+.....++..++..+..++...+....+...++.+++..+..+....+-+..+..+..++..
T Consensus       219 ~~~~l~~a~~~l~~~~~~L~~~~~~l~~l~~~l~~l~~~~~~~~~e~~~l~~~~~~~~~kl~rA~~Li~~L~~E~~RW~~  298 (344)
T PF12777_consen  219 KRQKLEEAEAELEEAEEQLAEKQAELAELEEKLAALQKEYEEAQKEKQELEEEIEETERKLERAEKLISGLSGEKERWSE  298 (344)
T ss_dssp             HHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHCCHC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccHHHHHhhhcchhhhHHH
Confidence            44555555555566666666666666666666666666666666666666666666677777777777777777666666


Q ss_pred             hhhhhhhHHH
Q 005229          277 KSSLFQTRTI  286 (707)
Q Consensus       277 ~le~le~~~~  286 (707)
                      .+..+.....
T Consensus       299 ~~~~l~~~~~  308 (344)
T PF12777_consen  299 QIEELEEQLK  308 (344)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHhc
Confidence            6665555433

The core of the 380 kDa motor unit contains a concatenated chain of six AAA modules (D1-6), of which four correspond to the ATP binding sites with P-loop signatures, and two are modules in which the P loop has been lost in evolution. This domain occurs between D4 and D5 and includes the two predicted alpha-helical coiled coil segments that form the stalk supporting the ATP-sensitive microtubule binding component [].; PDB: 3VKH_A 3VKG_A 3ERR_A 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 2RR7_A.

>KOG4438 consensus Centromere-associated protein NUF2 [Cell cycle control, cell division, chromosome partitioning]

Probab=94.24  E-value=10  Score=41.43  Aligned_cols=42  Identities=14%  Similarity=0.192  Sum_probs=18.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Q 005229           75 VELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGL  116 (707)
Q Consensus        75 ~~~~~~ei~~le~~i~e~~~el~ele~ei~~l~~~i~e~~~~  116 (707)
                      ...+.+++...+.+..+-..++..++..++++...+.+....
T Consensus       154 ~qq~~~ele~~d~~~~~d~ee~kqlEe~ieeL~qsl~kd~~~  195 (446)
T KOG4438|consen  154 YQQALKELERFDEDVEEDEEEVKQLEENIEELNQSLLKDFNQ  195 (446)
T ss_pred             HHHHHHHHHhhcccccccHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333444444444333333344555555555544444444333

>PF15254 CCDC14: Coiled-coil domain-containing protein 14

Probab=94.21  E-value=5.4  Score=46.58  Aligned_cols=19  Identities=26%  Similarity=0.371  Sum_probs=11.5

Q ss_pred             cCCCCcHHHHHHHHHHHHH
Q 005229          665 LGTFDTAEAAALAYDEAAL  683 (707)
Q Consensus       665 lG~f~t~e~Aa~ayd~aa~  683 (707)
                      +-||.|-.|..--...||+
T Consensus       825 ~stfts~de~~f~~glaal  843 (861)
T PF15254_consen  825 FSTFTSRDEQDFRNGLAAL  843 (861)
T ss_pred             ccccccccHHHHHhhHHHh
Confidence            4678777666555454444

>PF03148 Tektin: Tektin family; InterPro: IPR000435 Tektin heteropolymers form unique protofilaments of flagellar microtubules []

Probab=94.17  E-value=11  Score=41.62  Aligned_cols=13  Identities=15%  Similarity=0.199  Sum_probs=4.7

Q ss_pred             HHHHHHHHHHHHH
Q 005229           74 EVELREKKVGEAQ   86 (707)
Q Consensus        74 e~~~~~~ei~~le   86 (707)
                      .+.....++..+.
T Consensus       138 ~l~~~~eQl~~lr  150 (384)
T PF03148_consen  138 TLEQAEEQLRLLR  150 (384)
T ss_pred             HHHHHHHHHHHHH
Confidence            3333333333333

The proteins are predicted to form extended rods composed of 2 alpha- helical segments (~180 residues long) capable of forming coiled coils, interrupted by non-helical linkers []. The 2 segments are similar in sequence, indicating a gene duplication event. Along each tektin rod, cysteine residues occur with a periodicity of ~8nm, coincident with the axial repeat of tubulin dimers in microtubules []. It is proposed that the assembly of tektin heteropolymers produces filaments with repeats of 8, 16, 24, 32, 40, 48 and 96nm, generating the basis for the complex spatial arrangements of axonemal components [].; GO: 0000226 microtubule cytoskeleton organization, 0005874 microtubule

>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]

Probab=94.13  E-value=3.2  Score=45.39  Aligned_cols=16  Identities=0%  Similarity=-0.027  Sum_probs=5.9

Q ss_pred             hhhhhhhhHHHHHHHH
Q 005229          249 ELISKGKTIAECSKEV  264 (707)
Q Consensus       249 Ele~l~~~l~e~~~~l  264 (707)
                      ++..+++++..+.=.+
T Consensus       436 ~I~dLqEQlrDlmf~l  451 (493)
T KOG0804|consen  436 KITDLQEQLRDLMFFL  451 (493)
T ss_pred             HHHHHHHHHHhHheeh
Confidence            3333333333333333

>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=94.07  E-value=2.7  Score=42.86  Aligned_cols=21  Identities=14%  Similarity=0.330  Sum_probs=11.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHH
Q 005229          166 LELLQGKVRLHENEVESLEQK  186 (707)
Q Consensus       166 l~~le~el~~~~~eL~~~e~e  186 (707)
                      +..+.+++..+..++...+.+
T Consensus        83 i~r~~eey~~Lk~~in~~R~e  103 (230)
T PF10146_consen   83 IQRLYEEYKPLKDEINELRKE  103 (230)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            444445555555555555555

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.

>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=94.06  E-value=7.5  Score=41.01  Aligned_cols=46  Identities=15%  Similarity=0.282  Sum_probs=24.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229          173 VRLHENEVESLEQKLDSMRKQQKKYFDDVELKKRELNEIRKYIEEL  218 (707)
Q Consensus       173 l~~~~~eL~~~e~el~~~~~ei~el~~ele~k~~e~~e~~~ei~~l  218 (707)
                      .......+......+......+..+...+...+..+-..-..|.-+
T Consensus       114 ~~~~~~~~~~~~~~~~~~~~~l~~l~~~l~~~r~~l~~~l~~ifpI  159 (302)
T PF10186_consen  114 VESRQEQLEELQNELEERKQRLSQLQSQLARRRRQLIQELSEIFPI  159 (302)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCc
Confidence            3334444444445555555555555555666666655555566654

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

>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]

Probab=94.03  E-value=0.85  Score=45.00  Aligned_cols=77  Identities=13%  Similarity=0.083  Sum_probs=45.0

Q ss_pred             hhHHHhHHHHHHHHHHHhhhchhhHHhhhhhhhhHHHHHHHHHHHHHhhhHHHHhhhhhhhHHHHHHHhHHHHHHHH
Q 005229          223 ASKDKELRFVQQSIEECSKEIPGKKEELISKGKTIAECSKEVELKKNQLNLIQDKSSLFQTRTIVYLKELKEKETHF  299 (707)
Q Consensus       223 e~~~~el~~~~~~le~l~~El~~l~~Ele~l~~~l~e~~~~le~k~~ele~l~~~le~le~~~~~~~~~~~el~~~~  299 (707)
                      ..++..+..++..+++++++.+.+.++++.++.++++.+.++..++.+...++.....+.+....+...|.+|+...
T Consensus       131 ~d~ke~~ee~kekl~E~~~EkeeL~~eleele~e~ee~~erlk~le~E~s~LeE~~~~l~~ev~~L~~r~~ELe~~~  207 (290)
T COG4026         131 MDLKEDYEELKEKLEELQKEKEELLKELEELEAEYEEVQERLKRLEVENSRLEEMLKKLPGEVYDLKKRWDELEPGV  207 (290)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchhHHHHHHHHHHHhcccc
Confidence            34555555666666666666666666666666666666666666666665655555555554333444444444433

>PF04012 PspA_IM30: PspA/IM30 family; InterPro: IPR007157 This family includes PspA a protein that suppresses sigma54-dependent transcription

Probab=94.01  E-value=7.7  Score=39.22  Aligned_cols=46  Identities=22%  Similarity=0.263  Sum_probs=32.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229           50 WINKCQAYQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQ   95 (707)
Q Consensus        50 ~~~~~~~~~~el~~l~~~i~e~~~e~~~~~~ei~~le~~i~e~~~e   95 (707)
                      +..-|.+++..+..++..+.........++.++..++..+..+...
T Consensus        28 l~q~ird~e~~l~~a~~~~a~~~a~~~~le~~~~~~~~~~~~~~~~   73 (221)
T PF04012_consen   28 LEQAIRDMEEQLRKARQALARVMANQKRLERKLDEAEEEAEKWEKQ   73 (221)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4555666777777777777777777777777777777777777666

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 [].

>PF04912 Dynamitin: Dynamitin ; InterPro: IPR006996 Dynamitin is a subunit of the microtubule-dependent motor complex, it is also implicated in cell adhesion by binding to macrophage-enriched myristoylated alanine-rice C kinase substrate (MacMARCKS) []

Probab=93.96  E-value=12  Score=41.35  Aligned_cols=53  Identities=15%  Similarity=0.179  Sum_probs=29.9

Q ss_pred             hhhhhHHHHHHHHhhhHhhHHHHHHHhhcC-CCCCchHHHHHHHHHHHHHHHHH
Q 005229           12 LGQKRIGEFNCELELKENELNSLSVSLNLK-NKPSSAQEWINKCQAYQKELRLW   64 (707)
Q Consensus        12 ~~~~~~~~~~~eL~l~e~eL~~~~~el~~~-~~~l~~~l~~~~~~~~~~el~~l   64 (707)
                      ....++..++.|++.+..++..++..-... ....+-..+...+..+++.|..+
T Consensus        91 s~~~kl~RL~~Ev~EL~eEl~~~~~~~~~~~~e~~~~~~l~~~~~~L~~~L~~l  144 (388)
T PF04912_consen   91 SPEQKLQRLRREVEELKEELEKRKADSKESDEEKISPEELAQQLEELSKQLDSL  144 (388)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHhhcccccccccCChhhHHHHHHHHHHHHHHh
Confidence            445666677777777777776665443333 22333333455666666666665

It is also thought to modulate cytoplasmic dynein binding to an organelle, and plays a role in prometaphase chromosome alignment and spindle organisation during mitosis. Dynamitin is also involved in anchoring microtubules to centrosomes and may play a role in synapse formation during brain development []. ; GO: 0007017 microtubule-based process, 0005869 dynactin complex

>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=93.61  E-value=6.7  Score=37.17  Aligned_cols=47  Identities=28%  Similarity=0.316  Sum_probs=17.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Q 005229          104 SSMQTLIEENEGLLKDKEKLYDEVKNSLMLCETKLECEKKELELTQS  150 (707)
Q Consensus       104 ~~l~~~i~e~~~~l~~~e~e~~~l~~ele~le~el~~~~~Ele~~e~  150 (707)
                      ..++..++..+.++...+.....+...+..+...+....+++..+..
T Consensus        76 ~rL~~~~~~~ere~~~~~~~~~~l~~~~~~~~~~~k~~kee~~klk~  122 (151)
T PF11559_consen   76 ERLKEQLEELERELASAEEKERQLQKQLKSLEAKLKQEKEELQKLKN  122 (151)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333333333333333444444444433333

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.

>KOG2196 consensus Nuclear porin [Nuclear structure]

Probab=93.57  E-value=7  Score=39.48  Aligned_cols=64  Identities=14%  Similarity=0.118  Sum_probs=26.8

Q ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Q 005229           85 AQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLMLCETKLECEKKELELT  148 (707)
Q Consensus        85 le~~i~e~~~el~ele~ei~~l~~~i~e~~~~l~~~e~e~~~l~~ele~le~el~~~~~Ele~~  148 (707)
                      |+.=|.+|..+|++-++-......+|+.....|-.....+..+-.++..++..-..+..+++-+
T Consensus        76 LeeliNkWs~el~~Qe~vF~~q~~qvNaWDr~LI~ngekI~~Ly~e~~~vk~~qkrLdq~L~~I  139 (254)
T KOG2196|consen   76 LEELINKWSLELEEQERVFLQQATQVNAWDRTLIENGEKISGLYNEVVKVKLDQKRLDQELEFI  139 (254)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHhCcHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            3444444444444444444444444444444443333333333333333333333333333333

>PF14073 Cep57_CLD: Centrosome localisation domain of Cep57

Probab=93.55  E-value=7.6  Score=37.63  Aligned_cols=95  Identities=18%  Similarity=0.247  Sum_probs=51.9

Q ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229          124 YDEVKNSLMLCETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLEQKLDSMRKQQKKYFDDVEL  203 (707)
Q Consensus       124 ~~~l~~ele~le~el~~~~~Ele~~e~~i~~l~~ele~~e~~l~~le~el~~~~~eL~~~e~el~~~~~ei~el~~ele~  203 (707)
                      .+.+...+...+....-+.++++-....+.....+....-++...++.+-..-..++......++.++.+.-.+...-..
T Consensus        59 ~~dl~~qL~aAEtRCslLEKQLeyMRkmv~~ae~er~~~le~q~~l~~e~~~~~~~~~~klekLe~LE~E~~rLt~~Q~~  138 (178)
T PF14073_consen   59 NQDLSSQLSAAETRCSLLEKQLEYMRKMVESAEKERNAVLEQQVSLQRERQQDQSELQAKLEKLEKLEKEYLRLTATQSL  138 (178)
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhccchhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44556666666677777777777777666666555444333333333332333344444445555566665555555555


Q ss_pred             HHHHHHHHHHHHHHH
Q 005229          204 KKRELNEIRKYIEEL  218 (707)
Q Consensus       204 k~~e~~e~~~ei~~l  218 (707)
                      .+..+..++.++.+-
T Consensus       139 ae~Ki~~LE~KL~eE  153 (178)
T PF14073_consen  139 AETKIKELEEKLQEE  153 (178)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            555555555555443

>PF12777 MT: Microtubule-binding stalk of dynein motor; InterPro: IPR024743 The 380 kDa motor unit of dynein belongs to the AAA class of chaperone-like ATPases

Probab=93.32  E-value=14  Score=40.10  Aligned_cols=62  Identities=19%  Similarity=0.264  Sum_probs=24.2

Q ss_pred             HHhhhhhhhhHHHHHHHHHHHHHhhhHHHHhhhhhhhHHHHHHHhHHHHHHHHHHHHHHHHH
Q 005229          247 KEELISKGKTIAECSKEVELKKNQLNLIQDKSSLFQTRTIVYLKELKEKETHFDSLKKGLED  308 (707)
Q Consensus       247 ~~Ele~l~~~l~e~~~~le~k~~ele~l~~~le~le~~~~~~~~~~~el~~~~~~le~~L~~  308 (707)
                      +..++..+..+......+..++.++..++..+..++........+-..++......+..|..
T Consensus       220 ~~~l~~a~~~l~~~~~~L~~~~~~l~~l~~~l~~l~~~~~~~~~e~~~l~~~~~~~~~kl~r  281 (344)
T PF12777_consen  220 RQKLEEAEAELEEAEEQLAEKQAELAELEEKLAALQKEYEEAQKEKQELEEEIEETERKLER  281 (344)
T ss_dssp             HHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence            33344444444444444444444444444444433333333333333333334444444433

The core of the 380 kDa motor unit contains a concatenated chain of six AAA modules (D1-6), of which four correspond to the ATP binding sites with P-loop signatures, and two are modules in which the P loop has been lost in evolution. This domain occurs between D4 and D5 and includes the two predicted alpha-helical coiled coil segments that form the stalk supporting the ATP-sensitive microtubule binding component [].; PDB: 3VKH_A 3VKG_A 3ERR_A 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 2RR7_A.

>PLN02939 transferase, transferring glycosyl groups

Probab=93.28  E-value=26  Score=42.95  Aligned_cols=50  Identities=16%  Similarity=0.109  Sum_probs=22.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229           50 WINKCQAYQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQLAFK   99 (707)
Q Consensus        50 ~~~~~~~~~~el~~l~~~i~e~~~e~~~~~~ei~~le~~i~e~~~el~el   99 (707)
                      +..-|...++.+--++..--...+++..+-.+-+.|+.+|+-++..|.+-
T Consensus       133 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  182 (977)
T PLN02939        133 LVGMIQNAEKNILLLNQARLQALEDLEKILTEKEALQGKINILEMRLSET  182 (977)
T ss_pred             HHHHHHHHHhhhHhHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhhhh
Confidence            33444444444444444444444444444444444554444444444443

>PF14992 TMCO5: TMCO5 family

Probab=93.23  E-value=12  Score=38.97  Aligned_cols=39  Identities=26%  Similarity=0.270  Sum_probs=29.6

Q ss_pred             HHHHHHHhhhCCCCCCCHHHHHHHHHHhhhcchhhHHHhhh
Q 005229          471 LGFLHLLAAYRLAPAFDREELESLLCIVAQHRQTPKLRRTL  511 (707)
Q Consensus       471 ~~fl~~l~~fgi~~~f~~~el~~l~~~~~~~~~~~~l~~~l  511 (707)
                      .++|-.+..|  +.++|.|-+..++..+-+|+..-+|.+-|
T Consensus       229 ~~LL~y~~f~--~~fInpdll~~~LP~~L~R~tlw~LR~~l  267 (280)
T PF14992_consen  229 TRLLGYLLFY--IQFINPDLLEDVLPKMLSRRTLWRLREFL  267 (280)
T ss_pred             HHHHHHHHHH--HhhcCcHHHHHHhHHhcchhHHHHHHHHH
Confidence            3444455556  67789999999999999999998876554

>KOG0244 consensus Kinesin-like protein [Cytoskeleton]

Probab=93.22  E-value=15  Score=44.05  Aligned_cols=71  Identities=13%  Similarity=0.110  Sum_probs=51.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChhhHHHhHHHHHH
Q 005229          164 EKLELLQGKVRLHENEVESLEQKLDSMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQ  234 (707)
Q Consensus       164 ~~l~~le~el~~~~~eL~~~e~el~~~~~ei~el~~ele~k~~e~~e~~~ei~~l~~eie~~~~el~~~~~  234 (707)
                      ..+..+..++..++++|..++.....+-.+........+..+...-++..++..++.+...+.+++.....
T Consensus       467 ~~q~~ls~el~el~k~l~~Ke~l~rr~~~~~~~~~~~~~~~e~~~~~le~e~~~le~E~~~l~~el~~~~~  537 (913)
T KOG0244|consen  467 QKQGSLSGELSELEKRLAEKEPLTRRKAYEKAEKSKAKEQYESDSGTLEAEKSPLESERSRLRNELNVFNR  537 (913)
T ss_pred             HHHhhhhHHHHHHHhhhccccHHHHHHHHhhhhhhHHHHHHhhhhhhHHHHhcccccccHHHHHHHHhhhH
Confidence            33455777777777777777777777666666666777777777777777777777777777777777655

>KOG0239 consensus Kinesin (KAR3 subfamily) [Cytoskeleton]

Probab=93.20  E-value=11  Score=44.49  Aligned_cols=23  Identities=13%  Similarity=0.104  Sum_probs=14.3

Q ss_pred             hhchhhHHhhhhhhhhHHHHHHH
Q 005229          241 KEIPGKKEELISKGKTIAECSKE  263 (707)
Q Consensus       241 ~El~~l~~Ele~l~~~l~e~~~~  263 (707)
                      .+...+..++..++..|...++-
T Consensus       300 ~~r~kL~N~i~eLkGnIRV~CRv  322 (670)
T KOG0239|consen  300 EERRKLHNEILELKGNIRVFCRV  322 (670)
T ss_pred             HHHHHHHHHHHHhhcCceEEEEe
Confidence            44555666777777777665543

>KOG4677 consensus Golgi integral membrane protein [Intracellular trafficking, secretion, and vesicular transport; General function prediction only]

Probab=93.16  E-value=16  Score=40.13  Aligned_cols=19  Identities=21%  Similarity=0.263  Sum_probs=14.4

Q ss_pred             hhcCCchhhHHHhhhCCCC
Q 005229          390 KSARDPALLVLHAMSGFYP  408 (707)
Q Consensus       390 ~~a~dpa~lVLd~~~~~~~  408 (707)
                      ++.+|-+.+-|..+-.-||
T Consensus       507 ~s~VD~~s~~l~~~lr~~p  525 (554)
T KOG4677|consen  507 RSKVDKGSAELEKILRLLP  525 (554)
T ss_pred             HhhcchhhHHHHHHHhcCc
Confidence            4557888888888887776

>COG4717 Uncharacterized conserved protein [Function unknown]

Probab=93.01  E-value=25  Score=41.97  Aligned_cols=33  Identities=21%  Similarity=0.208  Sum_probs=13.6

Q ss_pred             hhhhhhhhHHHHHHHHHHHHHhhhHHHHhhhhh
Q 005229          249 ELISKGKTIAECSKEVELKKNQLNLIQDKSSLF  281 (707)
Q Consensus       249 Ele~l~~~l~e~~~~le~k~~ele~l~~~le~l  281 (707)
                      |+..+.+.+.....+++....++-.+..++..+
T Consensus       775 E~~~lEe~~d~~~ee~~el~a~v~~~~~qi~~l  807 (984)
T COG4717         775 ELALLEEAIDALDEEVEELHAQVAALSRQIAQL  807 (984)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333344444444444444444444444444

>KOG4302 consensus Microtubule-associated protein essential for anaphase spindle elongation [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]

Probab=92.94  E-value=23  Score=41.46  Aligned_cols=38  Identities=11%  Similarity=0.141  Sum_probs=22.4

Q ss_pred             HHHHHHHHhhh-hccCCCCCHHHHHHHHHHHHHHHHhhh
Q 005229          424 RRSCILLLEQL-STVEPEINAQVRDEAMKVAGEWKKKMR  461 (707)
Q Consensus       424 r~~c~~lle~l-~~~~~~~~~~v~~~A~~~A~~Wk~~~~  461 (707)
                      |.+.++|.+.= ++.-..--|.+.+.++.-...|-....
T Consensus       407 Rg~h~lLkreekar~~vsKlP~~~~~L~~k~~~wE~e~~  445 (660)
T KOG4302|consen  407 RGAHLLLKREEKARKLVSKLPKMVEALTAKVTAWEEEKG  445 (660)
T ss_pred             ccchhHHHHHHHHHHHhhhCchhhHHHHHHHHHHHHhcC
Confidence            66776776652 222111156666667777888877654

>KOG0239 consensus Kinesin (KAR3 subfamily) [Cytoskeleton]

Probab=92.91  E-value=7.2  Score=46.12  Aligned_cols=13  Identities=23%  Similarity=-0.105  Sum_probs=7.0

Q ss_pred             HHHHhhcCCcccc
Q 005229          521 QCSTTAEGRSAPS  533 (707)
Q Consensus       521 i~~li~~g~~~~a  533 (707)
                      |..|.+.|..--|
T Consensus       494 v~~ll~~g~~nRs  506 (670)
T KOG0239|consen  494 VDILLEIGLSNRS  506 (670)
T ss_pred             HHHHHHHhhcccc
Confidence            5555565555444

>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=92.87  E-value=8.7  Score=36.38  Aligned_cols=25  Identities=16%  Similarity=0.136  Sum_probs=9.0

Q ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHH
Q 005229          119 DKEKLYDEVKNSLMLCETKLECEKK  143 (707)
Q Consensus       119 ~~e~e~~~l~~ele~le~el~~~~~  143 (707)
                      .++..+......+.....++..+..
T Consensus        98 ~l~~~~~~~~~~~k~~kee~~klk~  122 (151)
T PF11559_consen   98 QLQKQLKSLEAKLKQEKEELQKLKN  122 (151)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333333333

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.

>PRK12704 phosphodiesterase; Provisional

Probab=92.86  E-value=21  Score=41.15  Aligned_cols=49  Identities=24%  Similarity=0.355  Sum_probs=28.0

Q ss_pred             cceee--eEc-CCCceEEEEecCCCCcccccCCCCcHHHHHHHHHHHHHHccCCCCCCCCCCcc
Q 005229          638 HFRGV--RQR-PWGKWAAEIRDPKKAARIWLGTFDTAEAAALAYDEAALRFKGRKAKLNFPERV  698 (707)
Q Consensus       638 ~~rGV--~~~-~~g~w~a~i~~~~~~~~~~lG~f~t~e~Aa~ayd~aa~~~~g~~~~~nfp~~~  698 (707)
                      .|.||  .+- ..|| .-+|.+...  .|     ++.+....|.|.|..-=    ..+.||-.+
T Consensus       454 ~~~gv~~~yaiqaGr-eirv~v~~~--~v-----~d~~~~~la~~i~~~ie----~~~~ypg~i  505 (520)
T PRK12704        454 SFEGVEKAYAIQAGR-EIRVIVKPD--KV-----DDLQAVRLARDIAKKIE----EELQYPGQI  505 (520)
T ss_pred             hCCcHHHHHHHhcCc-eEEEEeCCC--cC-----ChHHHHHHHHHHHHHHH----HhCcCCCce
Confidence            59999  333 4577 344444433  33     67777778888654322    456666443

>TIGR03319 YmdA_YtgF conserved hypothetical protein YmdA/YtgF

Probab=92.75  E-value=22  Score=40.80  Aligned_cols=49  Identities=24%  Similarity=0.357  Sum_probs=27.8

Q ss_pred             cceee--eEc-CCCceEEEEecCCCCcccccCCCCcHHHHHHHHHHHHHHccCCCCCCCCCCcc
Q 005229          638 HFRGV--RQR-PWGKWAAEIRDPKKAARIWLGTFDTAEAAALAYDEAALRFKGRKAKLNFPERV  698 (707)
Q Consensus       638 ~~rGV--~~~-~~g~w~a~i~~~~~~~~~~lG~f~t~e~Aa~ayd~aa~~~~g~~~~~nfp~~~  698 (707)
                      .|.||  .+- ..|| .-+|.+...  .|     ++.+.+..|+|.|..-=    ..+.||-.+
T Consensus       448 ~~~gv~~~~aiqaGr-eirv~v~~~--~v-----~d~~~~~la~~i~~~ie----~~~~ypg~i  499 (514)
T TIGR03319       448 SFEGVEKSYAIQAGR-EIRVMVKPE--KI-----SDDQAVVLARDIAKKIE----EELEYPGQI  499 (514)
T ss_pred             hCCCchhhhhhhcCc-EEEEEecCC--cC-----ChHHHHHHHHHHHHHHH----HhCcCCCce
Confidence            48899  333 4466 444444433  33     67777788888654322    455666443

>PF06705 SF-assemblin: SF-assemblin/beta giardin

Probab=92.69  E-value=14  Score=38.20  Aligned_cols=53  Identities=17%  Similarity=0.113  Sum_probs=22.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh-HHHHHHHHHHHHHHHHHHHHHH
Q 005229          131 LMLCETKLECEKKELELTQSSIKELSMEFHS-EEEKLELLQGKVRLHENEVESL  183 (707)
Q Consensus       131 le~le~el~~~~~Ele~~e~~i~~l~~ele~-~e~~l~~le~el~~~~~eL~~~  183 (707)
                      .+.+...++.+...+..+...+..-...+.. ++.....+..++..+...++..
T Consensus        87 ~~~~~~~l~~L~~ri~~L~~~i~ee~~~r~~~ie~~~~~l~~~l~~l~~~~~~E  140 (247)
T PF06705_consen   87 QEQLQSRLDSLNDRIEALEEEIQEEKEERPQDIEELNQELVRELNELQEAFENE  140 (247)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444555555555554444443333222 2223333444444444444433

>PF10234 Cluap1: Clusterin-associated protein-1; InterPro: IPR019366 This protein of 413 amino acids contains a central coiled-coil domain, possibly the region that binds to clusterin

Probab=92.41  E-value=7.2  Score=40.51  Aligned_cols=86  Identities=13%  Similarity=0.129  Sum_probs=49.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Q 005229           74 EVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLMLCETKLECEKKELELTQSSIK  153 (707)
Q Consensus        74 e~~~~~~ei~~le~~i~e~~~el~ele~ei~~l~~~i~e~~~~l~~~e~e~~~l~~ele~le~el~~~~~Ele~~e~~i~  153 (707)
                      -+.....++...+..+..+..+...++.+|+..+.+++..++.+.++++..=-...|-+.++.++..+-...-..-..+.
T Consensus       170 ai~~~~~~~~~~~~~l~~l~~de~~Le~KIekkk~ELER~qKRL~sLq~vRPAfmdEyEklE~EL~~lY~~Y~~kfRNl~  249 (267)
T PF10234_consen  170 AIKAVQQQLQQTQQQLNNLASDEANLEAKIEKKKQELERNQKRLQSLQSVRPAFMDEYEKLEEELQKLYEIYVEKFRNLD  249 (267)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHHHHHHHHHHHhHH
Confidence            34444455555555555555555566666666666666666666666665555556666666666666555555544444


Q ss_pred             HHHHhh
Q 005229          154 ELSMEF  159 (707)
Q Consensus       154 ~l~~el  159 (707)
                      -++.++
T Consensus       250 yLe~ql  255 (267)
T PF10234_consen  250 YLEHQL  255 (267)
T ss_pred             HHHHHH
Confidence            444443

Cluap1 expression is highest in the nucleus and gradually increases during late S to G2/M phases of the cell cycle and returns to the basal level in the G0/G1 phases. In addition, it is upregulated in colon cancer tissues compared to corresponding non-cancerous mucosa. It thus plays a crucial role in the life of the cell [].

>KOG1853 consensus LIS1-interacting protein NUDE [Cytoskeleton]

Probab=92.20  E-value=15  Score=37.33  Aligned_cols=22  Identities=18%  Similarity=0.404  Sum_probs=12.5

Q ss_pred             CCCCHHHHHHHHHHHHHHHHhh
Q 005229          439 PEINAQVRDEAMKVAGEWKKKM  460 (707)
Q Consensus       439 ~~~~~~v~~~A~~~A~~Wk~~~  460 (707)
                      .+++|++|-.|.-+-.+.-.+.
T Consensus       239 ~pltp~aRisalnivgDllRkv  260 (333)
T KOG1853|consen  239 VPLTPDARISALNIVGDLLRKV  260 (333)
T ss_pred             CCCCchhhHHHHHHHHHHHHHh
Confidence            3456666666665555544444

>PF05384 DegS: Sensor protein DegS; InterPro: IPR008595 This is a group of Bacillus DegS proteins

Probab=92.16  E-value=11  Score=36.02  Aligned_cols=34  Identities=12%  Similarity=0.224  Sum_probs=12.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229           62 RLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQ   95 (707)
Q Consensus        62 ~~l~~~i~e~~~e~~~~~~ei~~le~~i~e~~~e   95 (707)
                      ..+++...+...=.+....+...+.+++.+.+.+
T Consensus         9 ~~ie~sK~qIf~I~E~~R~E~~~l~~EL~evk~~   42 (159)
T PF05384_consen    9 DTIESSKEQIFEIAEQARQEYERLRKELEEVKEE   42 (159)
T ss_pred             HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333333333333333333

The DegS-DegU two-component regulatory system of Bacillus subtilis controls various processes that characterise the transition from the exponential to the stationary growth phase, including the induction of extracellular degradative enzymes, expression of late competence genes and down-regulation of the sigma D regulon []. The entry also contains one sequence Q8R9D3 from SWISSPROT from Thermoanaerobacter tengcongensis which is described as a sensory transduction histidine kinase.; GO: 0016301 kinase activity, 0007165 signal transduction

>PF14073 Cep57_CLD: Centrosome localisation domain of Cep57

Probab=91.88  E-value=13  Score=36.08  Aligned_cols=30  Identities=23%  Similarity=0.235  Sum_probs=15.2

Q ss_pred             HhhhhhhHHHHHHHHhhhHhhHHHHHHHhh
Q 005229           10 MGLGQKRIGEFNCELELKENELNSLSVSLN   39 (707)
Q Consensus        10 ~~~~~~~~~~~~~eL~l~e~eL~~~~~el~   39 (707)
                      +..+|++|..+.-|=...+..+..+..+..
T Consensus         6 LK~LQeKIrrLELER~qAe~nl~~LS~et~   35 (178)
T PF14073_consen    6 LKNLQEKIRRLELERSQAEDNLKQLSRETS   35 (178)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhHHHH
Confidence            344555555555554555555555544443

>PF03148 Tektin: Tektin family; InterPro: IPR000435 Tektin heteropolymers form unique protofilaments of flagellar microtubules []

Probab=91.67  E-value=25  Score=38.90  Aligned_cols=102  Identities=18%  Similarity=0.184  Sum_probs=51.0

Q ss_pred             HHHhHHHHHHHHHHHhhhchhhHHhhhhhhhhHHHHHHHHHHHHHhhhHHHHhhhhhh------hHHH----HHHHhHHH
Q 005229          225 KDKELRFVQQSIEECSKEIPGKKEELISKGKTIAECSKEVELKKNQLNLIQDKSSLFQ------TRTI----VYLKELKE  294 (707)
Q Consensus       225 ~~~el~~~~~~le~l~~El~~l~~Ele~l~~~l~e~~~~le~k~~ele~l~~~le~le------~~~~----~~~~~~~e  294 (707)
                      +...+...+.....++.++.....++...+..|..+..-+..+..-+...+-.++...      -|.+    .+..+..+
T Consensus       249 l~~Ri~et~~ak~~Le~ql~~~~~ei~~~e~~i~~L~~ai~~k~~~lkvaqTRL~~R~~RP~vElcrD~~q~~L~~Ev~~  328 (384)
T PF03148_consen  249 LRKRIHETQEAKNELEWQLKKTLQEIAEMEKNIEDLEKAIRDKEGPLKVAQTRLENRTQRPNVELCRDPPQYGLIEEVKE  328 (384)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHhhHhcCCchHHHHhhHHHHHHHHHHH
Confidence            3444444445555555555555566666666666666666666666555555555422      2211    22334444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 005229          295 KETHFDSLKKGLEDRLQDLELKEREFEKRVKE  326 (707)
Q Consensus       295 l~~~~~~le~~L~~~~~eL~~~e~~~~~~~~E  326 (707)
                      +...+..|...|..-...+..+...-.....+
T Consensus       329 l~~~i~~L~~~L~~a~~~l~~L~~~~~~Le~d  360 (384)
T PF03148_consen  329 LRESIEALQEKLDEAEASLQKLERTRLRLEED  360 (384)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55555555555544444444444444433333

The proteins are predicted to form extended rods composed of 2 alpha- helical segments (~180 residues long) capable of forming coiled coils, interrupted by non-helical linkers []. The 2 segments are similar in sequence, indicating a gene duplication event. Along each tektin rod, cysteine residues occur with a periodicity of ~8nm, coincident with the axial repeat of tubulin dimers in microtubules []. It is proposed that the assembly of tektin heteropolymers produces filaments with repeats of 8, 16, 24, 32, 40, 48 and 96nm, generating the basis for the complex spatial arrangements of axonemal components [].; GO: 0000226 microtubule cytoskeleton organization, 0005874 microtubule

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

Probab=91.66  E-value=6.4  Score=40.51  Aligned_cols=20  Identities=25%  Similarity=0.227  Sum_probs=8.6

Q ss_pred             hHHHHHHHHHHHHHhhhHHH
Q 005229          256 TIAECSKEVELKKNQLNLIQ  275 (707)
Q Consensus       256 ~l~e~~~~le~k~~ele~l~  275 (707)
                      .|+...++|+.+-.-++..+
T Consensus       153 DINiQN~KLEsLLqsMElAq  172 (305)
T PF15290_consen  153 DINIQNKKLESLLQSMELAQ  172 (305)
T ss_pred             hhhhhHhHHHHHHHHHHHHH
Confidence            33444444444444444433

>KOG2991 consensus Splicing regulator [RNA processing and modification]

Probab=91.52  E-value=18  Score=36.87  Aligned_cols=19  Identities=37%  Similarity=0.340  Sum_probs=8.2

Q ss_pred             HHHHHHHHHHHHHHHHHHh
Q 005229          140 CEKKELELTQSSIKELSME  158 (707)
Q Consensus       140 ~~~~Ele~~e~~i~~l~~e  158 (707)
                      .++.+++....+|++++.+
T Consensus       181 rlK~ele~tk~Klee~Qne  199 (330)
T KOG2991|consen  181 RLKGELEQTKDKLEEAQNE  199 (330)
T ss_pred             HHHHHHHHHHHHHHHHHhh
Confidence            3444444444444444444

>PF15254 CCDC14: Coiled-coil domain-containing protein 14

Probab=90.97  E-value=39  Score=39.86  Aligned_cols=14  Identities=7%  Similarity=0.273  Sum_probs=5.5

Q ss_pred             hhHHHHhhhhhhhH
Q 005229          271 LNLIQDKSSLFQTR  284 (707)
Q Consensus       271 le~l~~~le~le~~  284 (707)
                      +.++......|+..
T Consensus       538 i~RL~eLtR~LQ~S  551 (861)
T PF15254_consen  538 IERLRELTRTLQNS  551 (861)
T ss_pred             HHHHHHHHHHHHHH
Confidence            33333333344443

>PF04912 Dynamitin: Dynamitin ; InterPro: IPR006996 Dynamitin is a subunit of the microtubule-dependent motor complex, it is also implicated in cell adhesion by binding to macrophage-enriched myristoylated alanine-rice C kinase substrate (MacMARCKS) []

Probab=90.86  E-value=30  Score=38.32  Aligned_cols=23  Identities=22%  Similarity=0.117  Sum_probs=15.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q 005229           50 WINKCQAYQKELRLWKNLIEECY   72 (707)
Q Consensus        50 ~~~~~~~~~~el~~l~~~i~e~~   72 (707)
                      ...++..++.|+.++.+++....
T Consensus        92 ~~~kl~RL~~Ev~EL~eEl~~~~  114 (388)
T PF04912_consen   92 PEQKLQRLRREVEELKEELEKRK  114 (388)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHh
Confidence            55666777777777666666553

It is also thought to modulate cytoplasmic dynein binding to an organelle, and plays a role in prometaphase chromosome alignment and spindle organisation during mitosis. Dynamitin is also involved in anchoring microtubules to centrosomes and may play a role in synapse formation during brain development []. ; GO: 0007017 microtubule-based process, 0005869 dynactin complex

>PLN03229 acetyl-coenzyme A carboxylase carboxyl transferase subunit alpha; Provisional

Probab=90.72  E-value=40  Score=39.86  Aligned_cols=10  Identities=10%  Similarity=0.504  Sum_probs=5.1

Q ss_pred             HHHHHHHHHH
Q 005229          298 HFDSLKKGLE  307 (707)
Q Consensus       298 ~~~~le~~L~  307 (707)
                      .++.|+++|.
T Consensus       696 kieal~~qik  705 (762)
T PLN03229        696 KIEALEQQIK  705 (762)
T ss_pred             HHHHHHHHHH
Confidence            3455555554

>COG3096 MukB Uncharacterized protein involved in chromosome partitioning [Cell division and chromosome partitioning]

Probab=90.65  E-value=40  Score=39.45  Aligned_cols=48  Identities=13%  Similarity=0.169  Sum_probs=27.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Q 005229           66 NLIEECYDEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEEN  113 (707)
Q Consensus        66 ~~i~e~~~e~~~~~~ei~~le~~i~e~~~el~ele~ei~~l~~~i~e~  113 (707)
                      ..+..+..+...+...+...+..-+....++...+..+..+.+.|-.+
T Consensus       836 ~~~~~~~~~Rnei~R~l~~~~~~~QQ~R~Q~d~aKe~~~~LnkLiPql  883 (1480)
T COG3096         836 AEIRQLNSRRNELERALSNHENDNQQQRIQFDQAKEGVTALNRLIPQL  883 (1480)
T ss_pred             HHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHhhhhh
Confidence            334444555555555555555555555566666666666666665544

>KOG2129 consensus Uncharacterized conserved protein H4 [Function unknown]

Probab=90.59  E-value=29  Score=37.76  Aligned_cols=35  Identities=23%  Similarity=0.230  Sum_probs=14.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHH
Q 005229          167 ELLQGKVRLHENEVESLEQKLDS-MRKQQKKYFDDV  201 (707)
Q Consensus       167 ~~le~el~~~~~eL~~~e~el~~-~~~ei~el~~el  201 (707)
                      +.++.+.-++++.++..+..|.. +=++++.+..+.
T Consensus       182 eQLRre~V~lentlEQEqEalvN~LwKrmdkLe~ek  217 (552)
T KOG2129|consen  182 EQLRREAVQLENTLEQEQEALVNSLWKRMDKLEQEK  217 (552)
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444444444444444433322 333344443333

>TIGR02977 phageshock_pspA phage shock protein A

Probab=90.47  E-value=22  Score=36.06  Aligned_cols=45  Identities=9%  Similarity=0.073  Sum_probs=30.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229           51 INKCQAYQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQ   95 (707)
Q Consensus        51 ~~~~~~~~~el~~l~~~i~e~~~e~~~~~~ei~~le~~i~e~~~e   95 (707)
                      ..-+.+++..+......+.........++.++..++..+..+...
T Consensus        30 ~q~irem~~~l~~ar~~lA~~~a~~k~~e~~~~~~~~~~~~~~~~   74 (219)
T TIGR02977        30 RLIIQEMEDTLVEVRTTSARTIADKKELERRVSRLEAQVADWQEK   74 (219)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334455666667777777777777777777777777777777766

Members of this family are the phage shock protein PspA, from the phage shock operon. This is a narrower family than the set of PspA and its homologs, sometimes several in a genome, as described by PFAM model pfam04012. PspA appears to maintain the protonmotive force under stress conditions that include overexpression of certain phage secretins, heat shock, ethanol, and protein export defects.

>COG5283 Phage-related tail protein [Function unknown]

Probab=90.46  E-value=54  Score=40.69  Aligned_cols=146  Identities=12%  Similarity=0.105  Sum_probs=113.4

Q ss_pred             HHhhhhhhHHHHHHHHhhhHhhHHHHHHHhhcCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229            9 IMGLGQKRIGEFNCELELKENELNSLSVSLNLKNKPSSAQEWINKCQAYQKELRLWKNLIEECYDEVELREKKVGEAQRS   88 (707)
Q Consensus         9 ~~~~~~~~~~~~~~eL~l~e~eL~~~~~el~~~~~~l~~~l~~~~~~~~~~el~~l~~~i~e~~~e~~~~~~ei~~le~~   88 (707)
                      .++.+...+....+.-+..|.++.+-+.-+..+...         ++.+.+-+...+.-+.++..+......-+...++.
T Consensus        23 ~in~L~ssi~~~~~~~k~~e~q~k~t~~~ls~s~~k---------~~~l~eameK~k~~~~~~kqe~~evn~at~a~~ka   93 (1213)
T COG5283          23 NINVLKSSIKDSTQFWKMLEKQQKLTKDGLSASKGK---------YEGLSEAMEKQKKAYEDLKQEVKEVNRATQASKKA   93 (1213)
T ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHhhhhhhhhhHHH---------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            456677777777777777777766665555544444         48888888888999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHH
Q 005229           89 IEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLMLCETKLECEKKELELTQSSIKELSMEFHSEE  163 (707)
Q Consensus        89 i~e~~~el~ele~ei~~l~~~i~e~~~~l~~~e~e~~~l~~ele~le~el~~~~~Ele~~e~~i~~l~~ele~~e  163 (707)
                      ..++..+....+..+..+...+......+..-+.+++.++-.+..+..-+..+....+.....+......+..+.
T Consensus        94 y~e~~~q~tqae~~~~sas~q~~~a~~q~~~~~~~iq~~~~~is~t~k~maaQ~~l~eqt~n~~g~a~~~~~gl~  168 (1213)
T COG5283          94 YQEYNAQYTQAENKLRSLSGQFGVASEQLMLQQKEIQRLQYAISTLNKSMAAQARLLEQTGNKFGTADAKVVGLR  168 (1213)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhchhhHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhhHHHHHHHhhhhHh
Confidence            999999999999999988888888888888888888888888877777666666666666666666666655554

>PF09738 DUF2051: Double stranded RNA binding protein (DUF2051); InterPro: IPR019139 This entry represents transcriptional repressors which preferentially bind to the GC-rich consensus sequence (5'-AGCCCCCGGCG-3') and may regulate expression of TNF, EGFR and PDGFA

Probab=90.24  E-value=14  Score=39.28  Aligned_cols=42  Identities=12%  Similarity=0.143  Sum_probs=21.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 005229          110 IEENEGLLKDKEKLYDEVKNSLMLCETKLECEKKELELTQSS  151 (707)
Q Consensus       110 i~e~~~~l~~~e~e~~~l~~ele~le~el~~~~~Ele~~e~~  151 (707)
                      +.++...+...+..|........++..+...+.=+++.++..
T Consensus        79 ~r~lk~~l~evEekyrkAMv~naQLDNek~~l~yqvd~Lkd~  120 (302)
T PF09738_consen   79 LRDLKDSLAEVEEKYRKAMVSNAQLDNEKSALMYQVDLLKDK  120 (302)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHH
Confidence            344444555555555555555555555555555554444433

They may control smooth muscle cell proliferation following artery injury through PDGFA repression and may also bind double-stranded RNA. They interact with the leucine-rich repeat domain of human flightless-I (FliI) protein.

>COG4717 Uncharacterized conserved protein [Function unknown]

Probab=90.23  E-value=48  Score=39.70  Aligned_cols=44  Identities=9%  Similarity=0.136  Sum_probs=27.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229           55 QAYQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQLAF   98 (707)
Q Consensus        55 ~~~~~el~~l~~~i~e~~~e~~~~~~ei~~le~~i~e~~~el~e   98 (707)
                      ...+.....+.+.++.+....+.++.+.+..+..+.++..+.++
T Consensus       553 ~r~rq~~~~~r~~ld~leaa~e~lE~r~~~~e~~~~e~~se~e~  596 (984)
T COG4717         553 SRIRQHWQQLRKALDQLEAAYEALEGRFAAAEAAMAEWQSEWEE  596 (984)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHH
Confidence            33445555666666666666666666666666666666666443

>KOG2129 consensus Uncharacterized conserved protein H4 [Function unknown]

Probab=90.19  E-value=31  Score=37.52  Aligned_cols=22  Identities=18%  Similarity=0.134  Sum_probs=10.4

Q ss_pred             HHHHHHhcChhhHHHhHHHHHH
Q 005229          213 KYIEELNQDPASKDKELRFVQQ  234 (707)
Q Consensus       213 ~ei~~l~~eie~~~~el~~~~~  234 (707)
                      .-|..+..++++++..+...++
T Consensus       253 ~hi~~l~~EveRlrt~l~~Aqk  274 (552)
T KOG2129|consen  253 LHIDKLQAEVERLRTYLSRAQK  274 (552)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444555555555544443

>PF10212 TTKRSYEDQ: Predicted coiled-coil domain-containing protein; InterPro: IPR019348 This entry represents a C-terminal 500 residue region, which contains a conserved TTKRSYEDQ motif

Probab=90.19  E-value=9.4  Score=43.02  Aligned_cols=10  Identities=20%  Similarity=0.411  Sum_probs=5.8

Q ss_pred             HHHHHHHhhh
Q 005229            4 WRVEKIMGLG   13 (707)
Q Consensus         4 ~~~~~~~~~~   13 (707)
                      |.|+.++...
T Consensus       328 w~LEaQL~kI  337 (518)
T PF10212_consen  328 WMLEAQLAKI  337 (518)
T ss_pred             HHHHHHHHHH
Confidence            6666665544

It is found in a family of coiled-coil domain-containing proteins that are conserved from nematodes to humans. These proteins also contain an N-terminal domain with a KLRAQ motif (IPR019343 from INTERPRO). The function of these proteins is not known.

>PF15294 Leu_zip: Leucine zipper

Probab=90.16  E-value=15  Score=38.26  Aligned_cols=139  Identities=21%  Similarity=0.233  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH---------hHHHHHHHHHHHHHHHH
Q 005229           76 ELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKN---------SLMLCETKLECEKKELE  146 (707)
Q Consensus        76 ~~~~~ei~~le~~i~e~~~el~ele~ei~~l~~~i~e~~~~l~~~e~e~~~l~~---------ele~le~el~~~~~Ele  146 (707)
                      ..+.++|..++.+-+.++..+..++..-..+-.+-..+...|+.++........         ++..++..+..++.+++
T Consensus       128 ~ll~kEi~rLq~EN~kLk~rl~~le~~at~~l~Ek~kl~~~L~~lq~~~~~~~~k~~~~~~~q~l~dLE~k~a~lK~e~e  207 (278)
T PF15294_consen  128 ELLNKEIDRLQEENEKLKERLKSLEKQATSALDEKSKLEAQLKELQDEQGDQKGKKDLSFKAQDLSDLENKMAALKSELE  207 (278)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccccccccchhhHHHHHHHHHHHHH


Q ss_pred             HHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHH
Q 005229          147 LTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLEQKLDSMRKQ---QKKYFDDVELKKRELNEIRKYIEE  217 (707)
Q Consensus       147 ~~e~~i~~l~~ele~~e~~l~~le~el~~~~~eL~~~e~el~~~~~e---i~el~~ele~k~~e~~e~~~ei~~  217 (707)
                      ..   +.........++..+.....++..++..|...++++...=.+   +..+..-+..+..++.++...+.+
T Consensus       208 k~---~~d~~~~~k~L~e~L~~~KhelL~~QeqL~~aekeLekKfqqT~ay~NMk~~ltkKn~QiKeLRkrl~k  278 (278)
T PF15294_consen  208 KA---LQDKESQQKALEETLQSCKHELLRVQEQLSLAEKELEKKFQQTAAYRNMKEILTKKNEQIKELRKRLAK  278 (278)
T ss_pred             HH---HHHHHHHHHHHHHHHHHHHHHHHhcchhhhcchhhHHHHhCccHHHHHhHHHHHhccHHHHHHHHHhcC

>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=89.91  E-value=26  Score=36.19  Aligned_cols=9  Identities=22%  Similarity=0.353  Sum_probs=3.3

Q ss_pred             hhHHHHhhc
Q 005229          384 KVFDTIKSA  392 (707)
Q Consensus       384 e~~~al~~a  392 (707)
                      ++..|++.|
T Consensus       224 ~i~~ai~ia  232 (251)
T PF11932_consen  224 EIRKAIRIA  232 (251)
T ss_pred             HHHHHHHHH
Confidence            333333333

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.

>KOG0992 consensus Uncharacterized conserved protein [Function unknown]

Probab=89.82  E-value=38  Score=37.89  Aligned_cols=12  Identities=8%  Similarity=0.061  Sum_probs=5.5

Q ss_pred             HHHHHHHHHHHH
Q 005229           74 EVELREKKVGEA   85 (707)
Q Consensus        74 e~~~~~~ei~~l   85 (707)
                      +++.+..-+..+
T Consensus       128 ~~d~l~~~~~fl  139 (613)
T KOG0992|consen  128 EIDKLKNLLSFL  139 (613)
T ss_pred             hHHHHHHHHHHH
Confidence            344444444444

>PF05276 SH3BP5: SH3 domain-binding protein 5 (SH3BP5); InterPro: IPR007940 The SH3 domain-binding protein inhibits the auto and transphophorylation of BTK and acts as a negative regulator of BTK-related signalling in B cells

Probab=89.71  E-value=26  Score=35.91  Aligned_cols=43  Identities=9%  Similarity=0.150  Sum_probs=18.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229          171 GKVRLHENEVESLEQKLDSMRKQQKKYFDDVELKKRELNEIRK  213 (707)
Q Consensus       171 ~el~~~~~eL~~~e~el~~~~~ei~el~~ele~k~~e~~e~~~  213 (707)
                      +-|.....++.+.+.+......+...........+..+..+++
T Consensus       121 EmLn~A~~kVneAE~ek~~ae~eH~~~~~~~~~ae~~v~~Lek  163 (239)
T PF05276_consen  121 EMLNHATQKVNEAEQEKTRAEREHQRRARIYNEAEQRVQQLEK  163 (239)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444444444444444443333333333333333

>KOG0972 consensus Huntingtin interacting protein 1 (Hip1) interactor Hippi [Signal transduction mechanisms]

Probab=89.69  E-value=16  Score=37.80  Aligned_cols=37  Identities=16%  Similarity=0.111  Sum_probs=15.5

Q ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Q 005229          117 LKDKEKLYDEVKNSLMLCETKLECEKKELELTQSSIK  153 (707)
Q Consensus       117 l~~~e~e~~~l~~ele~le~el~~~~~Ele~~e~~i~  153 (707)
                      ++.+.+.-..+.++++.+-.+...+..++..++.+-+
T Consensus       261 LEkI~SREK~lNnqL~~l~q~fr~a~~~lse~~e~y~  297 (384)
T KOG0972|consen  261 LEKIASREKSLNNQLASLMQKFRRATDTLSELREKYK  297 (384)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333334444444444444444444444443333

>PF05335 DUF745: Protein of unknown function (DUF745); InterPro: IPR007999 This family consists of several uncharacterised Drosophila melanogaster proteins of unknown function

Probab=89.68  E-value=22  Score=35.04  Aligned_cols=32  Identities=19%  Similarity=0.339  Sum_probs=11.8

Q ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Q 005229          119 DKEKLYDEVKNSLMLCETKLECEKKELELTQS  150 (707)
Q Consensus       119 ~~e~e~~~l~~ele~le~el~~~~~Ele~~e~  150 (707)
                      .++..++.++.++...+.-+.+....+...+.
T Consensus        64 GKq~iveqLe~ev~EAe~vV~ee~~sL~~aq~   95 (188)
T PF05335_consen   64 GKQQIVEQLEQEVREAEAVVQEEKASLQQAQA   95 (188)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333333333333333

>PRK10698 phage shock protein PspA; Provisional

Probab=89.42  E-value=26  Score=35.54  Aligned_cols=46  Identities=11%  Similarity=0.043  Sum_probs=33.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229           50 WINKCQAYQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQ   95 (707)
Q Consensus        50 ~~~~~~~~~~el~~l~~~i~e~~~e~~~~~~ei~~le~~i~e~~~e   95 (707)
                      +.--+.+++..+..+...+.......+.++.++..++..+..|...
T Consensus        29 l~q~i~em~~~l~~~r~alA~~~A~~k~~er~~~~~~~~~~~~e~k   74 (222)
T PRK10698         29 VRLMIQEMEDTLVEVRSTSARALAEKKQLTRRIEQAEAQQVEWQEK   74 (222)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444566677777777777777777777777777777777777766

>PF04012 PspA_IM30: PspA/IM30 family; InterPro: IPR007157 This family includes PspA a protein that suppresses sigma54-dependent transcription

Probab=89.41  E-value=26  Score=35.39  Aligned_cols=39  Identities=13%  Similarity=0.282  Sum_probs=16.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 005229           76 ELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENE  114 (707)
Q Consensus        76 ~~~~~ei~~le~~i~e~~~el~ele~ei~~l~~~i~e~~  114 (707)
                      ..++.-|.+++..+.+.+..+......-..++..+.+..
T Consensus        26 ~~l~q~ird~e~~l~~a~~~~a~~~a~~~~le~~~~~~~   64 (221)
T PF04012_consen   26 KMLEQAIRDMEEQLRKARQALARVMANQKRLERKLDEAE   64 (221)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444444444444444444444433333333333333333

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 [].

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

Probab=89.34  E-value=18  Score=37.38  Aligned_cols=47  Identities=28%  Similarity=0.240  Sum_probs=23.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhcChhhHHHhHHHHHHHHHH
Q 005229          192 KQQKKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEE  238 (707)
Q Consensus       192 ~ei~el~~ele~k~~e~~e~~~ei~~l~~eie~~~~el~~~~~~le~  238 (707)
                      +||+.|+.-++..+..+.+..+-|++.=-+|...+..++.+-+.++-
T Consensus       124 kEIkQLkQvieTmrssL~ekDkGiQKYFvDINiQN~KLEsLLqsMEl  170 (305)
T PF15290_consen  124 KEIKQLKQVIETMRSSLAEKDKGIQKYFVDINIQNKKLESLLQSMEL  170 (305)
T ss_pred             HHHHHHHHHHHHHHhhhchhhhhHHHHHhhhhhhHhHHHHHHHHHHH
Confidence            44444444444445555555555555555555555555555544443

>PF10234 Cluap1: Clusterin-associated protein-1; InterPro: IPR019366 This protein of 413 amino acids contains a central coiled-coil domain, possibly the region that binds to clusterin

Probab=89.25  E-value=25  Score=36.58  Aligned_cols=76  Identities=18%  Similarity=0.210  Sum_probs=36.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhcChhhHHHhHHHHHHHHHHHh-------hhchhhHHhhhhhhhhHHHHHHHHHHHHHhh
Q 005229          199 DDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEECS-------KEIPGKKEELISKGKTIAECSKEVELKKNQL  271 (707)
Q Consensus       199 ~ele~k~~e~~e~~~ei~~l~~eie~~~~el~~~~~~le~l~-------~El~~l~~Ele~l~~~l~e~~~~le~k~~el  271 (707)
                      ..++..++.+.++..+-..++.+|++...+++..++++..++       .|++.++.|+..+=..+-..-+.++-++.++
T Consensus       176 ~~~~~~~~~l~~l~~de~~Le~KIekkk~ELER~qKRL~sLq~vRPAfmdEyEklE~EL~~lY~~Y~~kfRNl~yLe~ql  255 (267)
T PF10234_consen  176 QQLQQTQQQLNNLASDEANLEAKIEKKKQELERNQKRLQSLQSVRPAFMDEYEKLEEELQKLYEIYVEKFRNLDYLEHQL  255 (267)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Confidence            333333444444444444444444455555555555555554       4444555555554444555555555555544


Q ss_pred             hHH
Q 005229          272 NLI  274 (707)
Q Consensus       272 e~l  274 (707)
                      +..
T Consensus       256 e~~  258 (267)
T PF10234_consen  256 EEY  258 (267)
T ss_pred             HHH
Confidence            433

Cluap1 expression is highest in the nucleus and gradually increases during late S to G2/M phases of the cell cycle and returns to the basal level in the G0/G1 phases. In addition, it is upregulated in colon cancer tissues compared to corresponding non-cancerous mucosa. It thus plays a crucial role in the life of the cell [].

>PLN02939 transferase, transferring glycosyl groups

Probab=89.11  E-value=65  Score=39.65  Aligned_cols=18  Identities=6%  Similarity=-0.009  Sum_probs=10.4

Q ss_pred             ccccccccccCCCCCCCC
Q 005229          531 APSMLVGTSAPLNQSVSS  548 (707)
Q Consensus       531 ~~a~~~~~~~~l~~~~~p  548 (707)
                      +..+.-.|.+.-...|+|
T Consensus       640 ~ktVfTIHNl~yQG~f~~  657 (977)
T PLN02939        640 ARICFTCHNFEYQGTAPA  657 (977)
T ss_pred             CcEEEEeCCCcCCCcCCH
Confidence            455666666665566643

>PF14992 TMCO5: TMCO5 family

Probab=88.83  E-value=20  Score=37.41  Aligned_cols=33  Identities=9%  Similarity=0.174  Sum_probs=15.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229           61 LRLWKNLIEECYDEVELREKKVGEAQRSIEEQE   93 (707)
Q Consensus        61 l~~l~~~i~e~~~e~~~~~~ei~~le~~i~e~~   93 (707)
                      ...+.+.-..+..+|...+..|..|+++|....
T Consensus        13 ~Q~ldE~Nq~lL~ki~~~E~~iq~Le~Eit~~~   45 (280)
T PF14992_consen   13 EQRLDEANQSLLQKIQEKEGAIQSLEREITKMD   45 (280)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            333444444444455555555555555554444

>PRK00106 hypothetical protein; Provisional

Probab=88.73  E-value=51  Score=37.96  Aligned_cols=49  Identities=20%  Similarity=0.301  Sum_probs=28.2

Q ss_pred             cceeee--Ec-CCCceEEEEecCCCCcccccCCCCcHHHHHHHHHHHHHHccCCCCCCCCCCcc
Q 005229          638 HFRGVR--QR-PWGKWAAEIRDPKKAARIWLGTFDTAEAAALAYDEAALRFKGRKAKLNFPERV  698 (707)
Q Consensus       638 ~~rGV~--~~-~~g~w~a~i~~~~~~~~~~lG~f~t~e~Aa~ayd~aa~~~~g~~~~~nfp~~~  698 (707)
                      .|.||-  +- ..|| .-+|.+...  .|     ++.+..-.|+|.|..-=    ..+.||-.+
T Consensus       469 ~~~gV~~~yaiqaGR-EiRviV~p~--~v-----~D~~~~~la~~ia~~Ie----~~~~yPG~i  520 (535)
T PRK00106        469 SFDGVQNSFALQAGR-EIRIMVQPE--KI-----SDDQVTILAHKVREKIE----NNLDYPGNI  520 (535)
T ss_pred             cCCcHHHHHHHhcCC-eEEEEecCC--cC-----ChHHHHHHHHHHHHHHH----HhCcCCCce
Confidence            599992  33 4577 444444333  33     67777778888654322    456666543

>PF04949 Transcrip_act: Transcriptional activator; InterPro: IPR007033 Golgins are a family of coiled-coil proteins associated with the Golgi apparatus necessary for tethering events in membrane fusion and as structural supports for Golgi cisternae []

Probab=88.44  E-value=22  Score=33.26  Aligned_cols=33  Identities=21%  Similarity=0.323  Sum_probs=12.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229          183 LEQKLDSMRKQQKKYFDDVELKKRELNEIRKYI  215 (707)
Q Consensus       183 ~e~el~~~~~ei~el~~ele~k~~e~~e~~~ei  215 (707)
                      .+..|+..+.+++-+......+++++.+....+
T Consensus        89 vRkkID~vNreLkpl~~~cqKKEkEykealea~  121 (159)
T PF04949_consen   89 VRKKIDSVNRELKPLGQSCQKKEKEYKEALEAF  121 (159)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333333333333333333333

This entry represents proteins annotated as RAB6-interacting golgins.

>KOG4572 consensus Predicted DNA-binding transcription factor, interacts with stathmin [Transcription; General function prediction only; Signal transduction mechanisms]

Probab=88.40  E-value=61  Score=38.38  Aligned_cols=72  Identities=15%  Similarity=0.190  Sum_probs=37.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHhcChhhHHHhHHHHHHHHH
Q 005229          166 LELLQGKVRLHENEVESLEQKLDSMRKQQKKYFDDVEL-KKRELNEIRKYIEELNQDPASKDKELRFVQQSIE  237 (707)
Q Consensus       166 l~~le~el~~~~~eL~~~e~el~~~~~ei~el~~ele~-k~~e~~e~~~ei~~l~~eie~~~~el~~~~~~le  237 (707)
                      ..+++.+......+++++.+++..+..+++++..+|-+ ++.++.+.+-...+...--..++-++..++.+.+
T Consensus       997 ~kefE~~mrdhrselEe~kKe~eaiineiee~eaeIiQekE~el~e~efka~d~Sd~r~kie~efAa~eaemd 1069 (1424)
T KOG4572|consen  997 EKEFEIEMRDHRSELEEKKKELEAIINEIEELEAEIIQEKEGELIEDEFKALDESDPRAKIEDEFAAIEAEMD 1069 (1424)
T ss_pred             HHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHHHHhcccchHHHHHhhhccccCcchhHHHHHHHHHhhhh
Confidence            44555556666666777777777766666666666532 3334444444433333333333444444443333

>KOG0240 consensus Kinesin (SMY1 subfamily) [Cytoskeleton]

Probab=88.21  E-value=53  Score=37.50  Aligned_cols=33  Identities=6%  Similarity=0.298  Sum_probs=13.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Q 005229           74 EVELREKKVGEAQRSIEEQEKQLAFKESKISSM  106 (707)
Q Consensus        74 e~~~~~~ei~~le~~i~e~~~el~ele~ei~~l  106 (707)
                      ....+.+++..|..+..++..++....+....+
T Consensus       415 ~~~~~~e~~~~L~qqlD~kd~~~n~~sqL~~~l  447 (607)
T KOG0240|consen  415 EEDILTERIESLYQQLDQKDDQINKQSQLMEKL  447 (607)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444444433333333333

>PF04949 Transcrip_act: Transcriptional activator; InterPro: IPR007033 Golgins are a family of coiled-coil proteins associated with the Golgi apparatus necessary for tethering events in membrane fusion and as structural supports for Golgi cisternae []

Probab=87.80  E-value=24  Score=32.99  Aligned_cols=47  Identities=17%  Similarity=0.285  Sum_probs=20.3

Q ss_pred             HHHHHHHHHHHHHHhcChhhHHHhHHHHHHHHHHHhhhchhhHHhhh
Q 005229          205 KRELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIPGKKEELI  251 (707)
Q Consensus       205 ~~e~~e~~~ei~~l~~eie~~~~el~~~~~~le~l~~El~~l~~Ele  251 (707)
                      ++++..+...|...++++.-+.......++++....+.+.++.++..
T Consensus        83 RkEv~~vRkkID~vNreLkpl~~~cqKKEkEykealea~nEknkeK~  129 (159)
T PF04949_consen   83 RKEVEMVRKKIDSVNRELKPLGQSCQKKEKEYKEALEAFNEKNKEKA  129 (159)
T ss_pred             HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444444444444444444444444443333333333

This entry represents proteins annotated as RAB6-interacting golgins.

>KOG4460 consensus Nuclear pore complex, Nup88/rNup84 component [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]

Probab=87.76  E-value=54  Score=37.10  Aligned_cols=28  Identities=14%  Similarity=0.184  Sum_probs=11.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhHHHH
Q 005229           79 EKKVGEAQRSIEEQEKQLAFKESKISSM  106 (707)
Q Consensus        79 ~~ei~~le~~i~e~~~el~ele~ei~~l  106 (707)
                      +..+..|...++..-++|...+++++.+
T Consensus       587 qrH~~~l~~~k~~QlQ~l~~~~eer~~i  614 (741)
T KOG4460|consen  587 QRHVKLLCDQKKKQLQDLSYCREERKSL  614 (741)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333334444443333444433333333

>PRK12704 phosphodiesterase; Provisional

Probab=87.62  E-value=60  Score=37.44  Aligned_cols=10  Identities=20%  Similarity=0.338  Sum_probs=4.8

Q ss_pred             hHHHhhhCCc
Q 005229          505 PKLRRTLGFA  514 (707)
Q Consensus       505 ~~l~~~lgl~  514 (707)
                      ..|+..+|+.
T Consensus       348 ~~lA~~lgld  357 (520)
T PRK12704        348 GLMAAELGLD  357 (520)
T ss_pred             HHHHHHhCcC
Confidence            3444555553

>PF05266 DUF724: Protein of unknown function (DUF724); InterPro: IPR007930 This family contains several uncharacterised proteins found exclusively in Arabidopsis thaliana

Probab=87.45  E-value=17  Score=36.00  Aligned_cols=26  Identities=15%  Similarity=0.157  Sum_probs=10.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229          189 SMRKQQKKYFDDVELKKRELNEIRKY  214 (707)
Q Consensus       189 ~~~~ei~el~~ele~k~~e~~e~~~e  214 (707)
                      ..+.+|..++.....++.++...+.+
T Consensus       156 ~~~~ei~~lks~~~~l~~~~~~~e~~  181 (190)
T PF05266_consen  156 AKDKEISRLKSEAEALKEEIENAELE  181 (190)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333334433333333

>PF15450 DUF4631: Domain of unknown function (DUF4631)

Probab=87.32  E-value=57  Score=36.87  Aligned_cols=19  Identities=0%  Similarity=0.169  Sum_probs=13.0

Q ss_pred             hhccchhhhhhhHHHHhhc
Q 005229          374 HLQKHDSIFCKVFDTIKSA  392 (707)
Q Consensus       374 ~~~~~~~~~~e~~~al~~a  392 (707)
                      .|.....+|-+-+++|+..
T Consensus       512 kfntEtk~R~ee~a~Lre~  530 (531)
T PF15450_consen  512 KFNTETKLRTEEVAALRES  530 (531)
T ss_pred             ccchHHHHHHHHHHHHHhc
Confidence            4445666788888888754

>KOG4460 consensus Nuclear pore complex, Nup88/rNup84 component [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]

Probab=87.21  E-value=58  Score=36.86  Aligned_cols=19  Identities=11%  Similarity=0.104  Sum_probs=7.0

Q ss_pred             hhhhHHHHHHHHHHHHHhh
Q 005229          253 KGKTIAECSKEVELKKNQL  271 (707)
Q Consensus       253 l~~~l~e~~~~le~k~~el  271 (707)
                      ++.-+.++...+++.-.++
T Consensus       714 iqsiL~~L~~~i~~~~k~V  732 (741)
T KOG4460|consen  714 IQSILKELGEHIREMVKQV  732 (741)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333

>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=87.14  E-value=4.4  Score=33.55  Aligned_cols=33  Identities=12%  Similarity=0.147  Sum_probs=12.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCh
Q 005229          190 MRKQQKKYFDDVELKKRELNEIRKYIEELNQDP  222 (707)
Q Consensus       190 ~~~ei~el~~ele~k~~e~~e~~~ei~~l~~ei  222 (707)
                      .+..|..+..+-+.+...-......|+++...+
T Consensus        10 KDe~Ia~L~eEGekLSk~el~~~~~IKKLr~~~   42 (74)
T PF12329_consen   10 KDEQIAQLMEEGEKLSKKELKLNNTIKKLRAKI   42 (74)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            333333333333333333333333333333333

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.

>KOG4603 consensus TBP-1 interacting protein [Signal transduction mechanisms]

Probab=86.94  E-value=27  Score=33.45  Aligned_cols=67  Identities=13%  Similarity=0.142  Sum_probs=49.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Q 005229           59 KELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQ--LAFKESKISSMQTLIEENEGLLKDKEKLYD  125 (707)
Q Consensus        59 ~el~~l~~~i~e~~~e~~~~~~ei~~le~~i~e~~~e--l~ele~ei~~l~~~i~e~~~~l~~~e~e~~  125 (707)
                      .++..+...|..++.++..+...++..+.+|.++.+.  +.+++++|.++++.....+..|+.+..-..
T Consensus        79 eel~~ld~~i~~l~ek~q~l~~t~s~veaEik~L~s~Lt~eemQe~i~~L~kev~~~~erl~~~k~g~~  147 (201)
T KOG4603|consen   79 EELQVLDGKIVALTEKVQSLQQTCSYVEAEIKELSSALTTEEMQEEIQELKKEVAGYRERLKNIKAGTN  147 (201)
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            5677777777788888888888888888888888777  677777777777777777766666655444

>PF09738 DUF2051: Double stranded RNA binding protein (DUF2051); InterPro: IPR019139 This entry represents transcriptional repressors which preferentially bind to the GC-rich consensus sequence (5'-AGCCCCCGGCG-3') and may regulate expression of TNF, EGFR and PDGFA

Probab=86.93  E-value=16  Score=38.84  Aligned_cols=85  Identities=9%  Similarity=0.076  Sum_probs=48.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH
Q 005229           53 KCQAYQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLM  132 (707)
Q Consensus        53 ~~~~~~~el~~l~~~i~e~~~e~~~~~~ei~~le~~i~e~~~el~ele~ei~~l~~~i~e~~~~l~~~e~e~~~l~~ele  132 (707)
                      -+..++..+.+++++.....--...+.++-..+.=++.-++..|++++..+..+++.+.+....++.....+..++.++.
T Consensus        78 s~r~lk~~l~evEekyrkAMv~naQLDNek~~l~yqvd~Lkd~lee~eE~~~~~~re~~eK~~elEr~K~~~d~L~~e~~  157 (302)
T PF09738_consen   78 SLRDLKDSLAEVEEKYRKAMVSNAQLDNEKSALMYQVDLLKDKLEELEETLAQLQREYREKIRELERQKRAHDSLREELD  157 (302)
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34666777777777777776666666666666666666666666666666666666555444444333333333333333


Q ss_pred             HHHHH
Q 005229          133 LCETK  137 (707)
Q Consensus       133 ~le~e  137 (707)
                      .+..+
T Consensus       158 ~Lre~  162 (302)
T PF09738_consen  158 ELREQ  162 (302)
T ss_pred             HHHHH
Confidence            33333

They may control smooth muscle cell proliferation following artery injury through PDGFA repression and may also bind double-stranded RNA. They interact with the leucine-rich repeat domain of human flightless-I (FliI) protein.

>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=86.84  E-value=12  Score=30.03  Aligned_cols=37  Identities=14%  Similarity=0.065  Sum_probs=16.9

Q ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 005229          122 KLYDEVKNSLMLCETKLECEKKELELTQSSIKELSME  158 (707)
Q Consensus       122 ~e~~~l~~ele~le~el~~~~~Ele~~e~~i~~l~~e  158 (707)
                      +.+.-++++++.++.+...+..+....+...+.+..+
T Consensus        18 dTI~LLQmEieELKEknn~l~~e~q~~q~~reaL~~e   54 (79)
T COG3074          18 DTITLLQMEIEELKEKNNSLSQEVQNAQHQREALERE   54 (79)
T ss_pred             HHHHHHHHHHHHHHHHhhHhHHHHHHHHHHHHHHHHH
Confidence            3334455555555555444444444444444444333

>KOG1850 consensus Myosin-like coiled-coil protein [Cytoskeleton]

Probab=86.72  E-value=45  Score=35.12  Aligned_cols=19  Identities=32%  Similarity=0.300  Sum_probs=7.7

Q ss_pred             HHhhhhhhhhHHHHHHHHH
Q 005229          247 KEELISKGKTIAECSKEVE  265 (707)
Q Consensus       247 ~~Ele~l~~~l~e~~~~le  265 (707)
                      ..|++.+.+.+..++++--
T Consensus       249 K~E~ekmtKk~kklEKE~l  267 (391)
T KOG1850|consen  249 KQEMEKMTKKIKKLEKETL  267 (391)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            3344444444444444333

>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]

Probab=86.41  E-value=4  Score=47.55  Aligned_cols=41  Identities=17%  Similarity=0.332  Sum_probs=27.6

Q ss_pred             eEcCCCceEEEEecCCCCcccccCCCCcHHHHHHHHHHHHHHcc
Q 005229          643 RQRPWGKWAAEIRDPKKAARIWLGTFDTAEAAALAYDEAALRFK  686 (707)
Q Consensus       643 ~~~~~g~w~a~i~~~~~~~~~~lG~f~t~e~Aa~ayd~aa~~~~  686 (707)
                      ++-+|++-+.+   .-.-.+.|+|+-..--+--..+++.+.+|-
T Consensus       627 rr~nW~kI~p~---d~s~~cFWvkv~Edk~en~dlfakL~~~Fa  667 (1102)
T KOG1924|consen  627 RRFNWSKIVPR---DLSENCFWVKVNEDKLENDDLFAKLALKFA  667 (1102)
T ss_pred             ccCCccccCcc---ccCccceeeecchhhccchHHHHHHHHHhh
Confidence            34466663322   112458999998887777788888888874

>PF05266 DUF724: Protein of unknown function (DUF724); InterPro: IPR007930 This family contains several uncharacterised proteins found exclusively in Arabidopsis thaliana

Probab=86.26  E-value=27  Score=34.52  Aligned_cols=7  Identities=0%  Similarity=0.078  Sum_probs=2.5

Q ss_pred             HHHHHHH
Q 005229          131 LMLCETK  137 (707)
Q Consensus       131 le~le~e  137 (707)
                      +..++..
T Consensus       161 i~~lks~  167 (190)
T PF05266_consen  161 ISRLKSE  167 (190)
T ss_pred             HHHHHHH
Confidence            3333333

>PF02994 Transposase_22: L1 transposable element; InterPro: IPR004244 Many human L1 elements are capable of retrotransposition

Probab=86.23  E-value=2.3  Score=46.74  Aligned_cols=9  Identities=11%  Similarity=0.545  Sum_probs=3.7

Q ss_pred             CCCCHHHHH
Q 005229          439 PEINAQVRD  447 (707)
Q Consensus       439 ~~~~~~v~~  447 (707)
                      |.+|+++.+
T Consensus       286 ~DlS~~~l~  294 (370)
T PF02994_consen  286 PDLSPETLQ  294 (370)
T ss_dssp             CTSTHHHHH
T ss_pred             CCCCHHHHH
Confidence            344444433

Some of these have been shown to exhibit reverse transcriptase (RT) activity [] although the function of many are, as yet, unknown. More information about these proteins can be found at Protein of the Month: Transposase [].; PDB: 2LDY_A 3SOO_A 2YKQ_A 2YKO_C 2YKP_B 2W7A_B 2JRB_A.

>KOG3647 consensus Predicted coiled-coil protein [General function prediction only]

Probab=85.96  E-value=45  Score=34.30  Aligned_cols=77  Identities=13%  Similarity=0.123  Sum_probs=45.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHH
Q 005229           71 CYDEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLMLCETKLECEKKELEL  147 (707)
Q Consensus        71 ~~~e~~~~~~ei~~le~~i~e~~~el~ele~ei~~l~~~i~e~~~~l~~~e~e~~~l~~ele~le~el~~~~~Ele~  147 (707)
                      +..-|+.+..++......++....+..++..+|+..+.+++...+.++.++.-.=....+-+..+.+++.+-...-.
T Consensus       110 lk~aIq~i~~~~q~~~~~Lnnvasdea~L~~Kierrk~ElEr~rkRle~LqsiRP~~MdEyE~~EeeLqkly~~Y~l  186 (338)
T KOG3647|consen  110 LKSAIQAIQVRLQSSRAQLNNVASDEAALGSKIERRKAELERTRKRLEALQSIRPAHMDEYEDCEEELQKLYQRYFL  186 (338)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHHHHH
Confidence            34455555556666666666666666666666666666666666666666665555555555555555554444433

>KOG3091 consensus Nuclear pore complex, p54 component (sc Nup57) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]

Probab=85.71  E-value=30  Score=38.72  Aligned_cols=59  Identities=8%  Similarity=0.124  Sum_probs=29.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Q 005229           55 QAYQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEEN  113 (707)
Q Consensus        55 ~~~~~el~~l~~~i~e~~~e~~~~~~ei~~le~~i~e~~~el~ele~ei~~l~~~i~e~  113 (707)
                      +++.+++.--....+.....++.+..++.+|++.--..-..|++.+.+..++.++|-.+
T Consensus       337 ~dL~~R~K~Q~q~~~~~r~ri~~i~e~v~eLqk~~ad~~~KI~~~k~r~~~Ls~RiLRv  395 (508)
T KOG3091|consen  337 EDLRQRLKVQDQEVKQHRIRINAIGERVTELQKHHADAVAKIEEAKNRHVELSHRILRV  395 (508)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            44555555444444455555555555555555444444444555555555555555444

>PRK15422 septal ring assembly protein ZapB; Provisional

Probab=85.70  E-value=15  Score=30.59  Aligned_cols=23  Identities=9%  Similarity=0.039  Sum_probs=9.4

Q ss_pred             HHHHHHhHHHHHHHHHHHHHHHH
Q 005229          124 YDEVKNSLMLCETKLECEKKELE  146 (707)
Q Consensus       124 ~~~l~~ele~le~el~~~~~Ele  146 (707)
                      +.-++++++.++.+-..+..+..
T Consensus        20 I~LLqmEieELKekn~~L~~e~~   42 (79)
T PRK15422         20 ITLLQMEIEELKEKNNSLSQEVQ   42 (79)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444444333333

>PF15450 DUF4631: Domain of unknown function (DUF4631)

Probab=85.45  E-value=71  Score=36.15  Aligned_cols=50  Identities=20%  Similarity=0.195  Sum_probs=27.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHH----HHHHHHhHHH-HHHHHHHHHHHHHHHHHHHH
Q 005229           76 ELREKKVGEAQRSIEEQEKQ----LAFKESKISS-MQTLIEENEGLLKDKEKLYD  125 (707)
Q Consensus        76 ~~~~~ei~~le~~i~e~~~e----l~ele~ei~~-l~~~i~e~~~~l~~~e~e~~  125 (707)
                      .....++..+..++..+..+    +...+.++.. +++.+-.++..++..+...-
T Consensus       163 ~k~d~E~arm~aqi~~l~eEmS~r~l~reakl~~~lqk~f~alEk~mka~e~~rl  217 (531)
T PF15450_consen  163 QKVDNEVARMQAQITKLGEEMSLRFLKREAKLCSFLQKSFLALEKRMKAQESSRL  217 (531)
T ss_pred             HhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44455566666666666655    2233333332 66666666666666655443

>COG0497 RecN ATPase involved in DNA repair [DNA replication, recombination, and repair]

Probab=85.08  E-value=80  Score=36.44  Aligned_cols=67  Identities=7%  Similarity=0.105  Sum_probs=29.2

Q ss_pred             HHHHHHHHHHHHHHHHHHhcChhhHHHhHHHHHHHHHHHh---hhchhhHHhhhhhhhhHHHHHHHHHHH
Q 005229          201 VELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEECS---KEIPGKKEELISKGKTIAECSKEVELK  267 (707)
Q Consensus       201 le~k~~e~~e~~~ei~~l~~eie~~~~el~~~~~~le~l~---~El~~l~~Ele~l~~~l~e~~~~le~k  267 (707)
                      ++..+.++..+..-..+....++.+-.-.+.+..++..+.   .....+++++..+..++......|...
T Consensus       299 L~~ve~Rl~~L~~l~RKY~~~~~~l~~~~~~~~~el~~L~~~~~~~~~Le~~~~~l~~~~~~~A~~Ls~~  368 (557)
T COG0497         299 LEEVEERLFALKSLARKYGVTIEDLLEYLDKIKEELAQLDNSEESLEALEKEVKKLKAELLEAAEALSAI  368 (557)
T ss_pred             HHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444444444444444444444444444444443332   223334444444444444444444443

>TIGR02338 gimC_beta prefoldin, beta subunit, archaeal

Probab=84.95  E-value=23  Score=31.69  Aligned_cols=26  Identities=12%  Similarity=0.225  Sum_probs=10.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229           70 ECYDEVELREKKVGEAQRSIEEQEKQ   95 (707)
Q Consensus        70 e~~~e~~~~~~ei~~le~~i~e~~~e   95 (707)
                      .++.++..+..++..++.++.+...-
T Consensus        14 ~~q~~~~~l~~q~~~le~~~~E~~~v   39 (110)
T TIGR02338        14 QLQQQLQAVATQKQQVEAQLKEAEKA   39 (110)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333444444444444444444433

Chaperonins are cytosolic, ATP-dependent molecular chaperones, with a conserved toroidal architecture, that assist in the folding of nascent and/or denatured polypeptide chains. The group I chaperonin system consists of GroEL and GroES, and is found (usually) in bacteria and organelles of bacterial origin. The group II chaperonin system, called the thermosome in Archaea and TRiC or CCT in the Eukaryota, is structurally similar but only distantly related. Prefoldin, also called GimC, is a complex in Archaea and Eukaryota, that works with group II chaperonins. Members of this protein family are the archaeal clade of the beta class of prefoldin subunit. Closely related, but outside the scope of this family are the eukaryotic beta-class prefoldin subunits, Gim-1,3,4 and 6. The alpha class prefoldin subunits are more distantly related.

>PF10212 TTKRSYEDQ: Predicted coiled-coil domain-containing protein; InterPro: IPR019348 This entry represents a C-terminal 500 residue region, which contains a conserved TTKRSYEDQ motif

Probab=84.92  E-value=76  Score=36.05  Aligned_cols=31  Identities=10%  Similarity=0.290  Sum_probs=18.5

Q ss_pred             hhHHhhhhhhhhHHHHHHHHHHHHHhhhHHH
Q 005229          245 GKKEELISKGKTIAECSKEVELKKNQLNLIQ  275 (707)
Q Consensus       245 ~l~~Ele~l~~~l~e~~~~le~k~~ele~l~  275 (707)
                      +++.++..+-+++.....+|.....+++.++
T Consensus       484 NYE~QLs~MSEHLasmNeqL~~Q~eeI~~LK  514 (518)
T PF10212_consen  484 NYEEQLSMMSEHLASMNEQLAKQREEIQTLK  514 (518)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            4555666666666666666666666555544

It is found in a family of coiled-coil domain-containing proteins that are conserved from nematodes to humans. These proteins also contain an N-terminal domain with a KLRAQ motif (IPR019343 from INTERPRO). The function of these proteins is not known.

>PRK09841 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional

Probab=84.91  E-value=35  Score=41.10  Aligned_cols=24  Identities=4%  Similarity=-0.082  Sum_probs=17.0

Q ss_pred             hcccCcHHHHHHHHHHhhhCCCCC
Q 005229          462 VAVENSLEVLGFLHLLAAYRLAPA  485 (707)
Q Consensus       462 ~~~~~~l~a~~fl~~l~~fgi~~~  485 (707)
                      .+.|++.-+..|-..++.-|-..-
T Consensus       541 ~g~GKTtva~nLA~~la~~G~rVL  564 (726)
T PRK09841        541 PDSGKTFVSSTLAAVIAQSDQKVL  564 (726)
T ss_pred             CCCCHHHHHHHHHHHHHhCCCeEE
Confidence            355677888888888888775443

>KOG1853 consensus LIS1-interacting protein NUDE [Cytoskeleton]

Probab=84.50  E-value=50  Score=33.62  Aligned_cols=30  Identities=20%  Similarity=0.099  Sum_probs=16.1

Q ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 005229          129 NSLMLCETKLECEKKELELTQSSIKELSME  158 (707)
Q Consensus       129 ~ele~le~el~~~~~Ele~~e~~i~~l~~e  158 (707)
                      .....++.++.......+.+.+-|.++++-
T Consensus        91 ~q~s~Leddlsqt~aikeql~kyiReLEQa  120 (333)
T KOG1853|consen   91 QQESQLEDDLSQTHAIKEQLRKYIRELEQA  120 (333)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            344555555555555555555555555444

>PRK09841 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional

Probab=84.49  E-value=36  Score=41.06  Aligned_cols=32  Identities=19%  Similarity=0.228  Sum_probs=15.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHH
Q 005229           77 LREKKVGEAQRSIEEQEKQLAFKESKISSMQT  108 (707)
Q Consensus        77 ~~~~ei~~le~~i~e~~~el~ele~ei~~l~~  108 (707)
                      ...+-+..|+.++.+++.++...+..++..+.
T Consensus       264 ~a~~a~~fL~~qL~~l~~~L~~aE~~l~~fr~  295 (726)
T PRK09841        264 QDSQSLEFLQRQLPEVRSELDQAEEKLNVYRQ  295 (726)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33334445555555555555555555544443

>COG1382 GimC Prefoldin, chaperonin cofactor [Posttranslational modification, protein turnover, chaperones]

Probab=84.35  E-value=32  Score=31.23  Aligned_cols=18  Identities=17%  Similarity=0.045  Sum_probs=6.5

Q ss_pred             HHHHHHHHHHHHHHHHHH
Q 005229          131 LMLCETKLECEKKELELT  148 (707)
Q Consensus       131 le~le~el~~~~~Ele~~  148 (707)
                      ++.++-++..+....+.+
T Consensus        79 ~E~Le~ri~tLekQe~~l   96 (119)
T COG1382          79 KETLELRIKTLEKQEEKL   96 (119)
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            333333333333333333

>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=83.78  E-value=21  Score=28.76  Aligned_cols=57  Identities=14%  Similarity=0.039  Sum_probs=24.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229           73 DEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKN  129 (707)
Q Consensus        73 ~e~~~~~~ei~~le~~i~e~~~el~ele~ei~~l~~~i~e~~~~l~~~e~e~~~l~~  129 (707)
                      .++...-.-|.-|+-+|++++..-..+..+...++...+.++.+-..+..+....+.
T Consensus        11 ~KiqqAvdTI~LLQmEieELKEknn~l~~e~q~~q~~reaL~~eneqlk~e~~~WQe   67 (79)
T COG3074          11 AKVQQAIDTITLLQMEIEELKEKNNSLSQEVQNAQHQREALERENEQLKEEQNGWQE   67 (79)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333334444444444444444444444444444444444444333333333333333

>PRK11519 tyrosine kinase; Provisional

Probab=83.64  E-value=52  Score=39.61  Aligned_cols=54  Identities=13%  Similarity=0.185  Sum_probs=31.4

Q ss_pred             hcccCcHHHHHHHHHHhhhCCCCCC-CHHHHHHHHHHhhhcchhhHHHhhhCCccchhhhHHHHhhcC
Q 005229          462 VAVENSLEVLGFLHLLAAYRLAPAF-DREELESLLCIVAQHRQTPKLRRTLGFADKVPGLQCSTTAEG  528 (707)
Q Consensus       462 ~~~~~~l~a~~fl~~l~~fgi~~~f-~~~el~~l~~~~~~~~~~~~l~~~lgl~~k~~~~i~~li~~g  528 (707)
                      +|.|++.-+..|-..+|..|-..-+ |.|         .   +.|.+.+.+|+.. -+++.+.|...+
T Consensus       536 ~geGKTt~a~nLA~~la~~g~rvLlID~D---------l---r~~~~~~~~~~~~-~~gl~~~l~~~~  590 (719)
T PRK11519        536 PSIGKTFVCANLAAVISQTNKRVLLIDCD---------M---RKGYTHELLGTNN-VNGLSDILIGQG  590 (719)
T ss_pred             CCCCHHHHHHHHHHHHHhCCCcEEEEeCC---------C---CCCcHHHHhCCCC-CCCHHHHhCCCC
Confidence            4556777787887777777753322 332         1   1234555566653 467887776544

>PF03999 MAP65_ASE1: Microtubule associated protein (MAP65/ASE1 family); InterPro: IPR007145 This is a family of microtubule associated proteins

Probab=83.64  E-value=1.1  Score=52.76  Aligned_cols=11  Identities=27%  Similarity=0.555  Sum_probs=5.4

Q ss_pred             HHHHHHHHHHh
Q 005229          449 AMKVAGEWKKK  459 (707)
Q Consensus       449 A~~~A~~Wk~~  459 (707)
                      -+..-.+|-..
T Consensus       400 L~~~l~~wE~e  410 (619)
T PF03999_consen  400 LKKKLEEWEEE  410 (619)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            34445556543

One of its members is the yeast anaphase spindle elongation protein.; PDB: 3NRX_A 3NRY_A.

>PF12252 SidE: Dot/Icm substrate protein; InterPro: IPR021014 This entry represents bacterial proteins that are typically between 397 and 1543 amino acids in length including SidE protein in the Dot/Icm pathway of Legionella pneumophila bacteria

Probab=83.64  E-value=1.2e+02  Score=37.29  Aligned_cols=31  Identities=32%  Similarity=0.388  Sum_probs=20.4

Q ss_pred             HHHHHhHHHHHH-HHHHHHHHHHHHHHHHHHH
Q 005229          286 IVYLKELKEKET-HFDSLKKGLEDRLQDLELK  316 (707)
Q Consensus       286 ~~~~~~~~el~~-~~~~le~~L~~~~~eL~~~  316 (707)
                      +.+-.++.+|+. |++.+.+....+.++|...
T Consensus      1332 ealI~qLRelC~~h~~~l~k~~~~r~~el~~~ 1363 (1439)
T PF12252_consen 1332 EALIIQLRELCEAHQDNLAKTRKTRLQELTKQ 1363 (1439)
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHHHhcc
Confidence            344445556555 7777887777777777664

There is little literature describing the family.

>COG1842 PspA Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]

Probab=83.18  E-value=57  Score=33.22  Aligned_cols=20  Identities=5%  Similarity=0.298  Sum_probs=7.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q 005229           76 ELREKKVGEAQRSIEEQEKQ   95 (707)
Q Consensus        76 ~~~~~ei~~le~~i~e~~~e   95 (707)
                      +.++..|.+.+.++.+.+..
T Consensus        27 ~~l~Q~ird~~~~l~~ar~~   46 (225)
T COG1842          27 KMLEQAIRDMESELAKARQA   46 (225)
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333

>KOG3091 consensus Nuclear pore complex, p54 component (sc Nup57) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]

Probab=83.16  E-value=47  Score=37.27  Aligned_cols=56  Identities=14%  Similarity=0.081  Sum_probs=26.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Q 005229           62 RLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLL  117 (707)
Q Consensus        62 ~~l~~~i~e~~~e~~~~~~ei~~le~~i~e~~~el~ele~ei~~l~~~i~e~~~~l  117 (707)
                      .+|..+++-...+.+..+.+|..+..++.++.+.-..--.+|..++...-+++.++
T Consensus       337 ~dL~~R~K~Q~q~~~~~r~ri~~i~e~v~eLqk~~ad~~~KI~~~k~r~~~Ls~Ri  392 (508)
T KOG3091|consen  337 EDLRQRLKVQDQEVKQHRIRINAIGERVTELQKHHADAVAKIEEAKNRHVELSHRI  392 (508)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHH
Confidence            34444444444445555555555555555555444444444444444444444443

>KOG1962 consensus B-cell receptor-associated protein and related proteins [Defense mechanisms]

Probab=83.15  E-value=29  Score=34.85  Aligned_cols=22  Identities=23%  Similarity=0.187  Sum_probs=9.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q 005229          166 LELLQGKVRLHENEVESLEQKL  187 (707)
Q Consensus       166 l~~le~el~~~~~eL~~~e~el  187 (707)
                      .+.+..+++.+-.+-..+++++
T Consensus       188 ~e~~~~EydrLlee~~~Lq~~i  209 (216)
T KOG1962|consen  188 SEGLQDEYDRLLEEYSKLQEQI  209 (216)
T ss_pred             HHHcccHHHHHHHHHHHHHHHH
Confidence            3334444444444444444433

>PRK11519 tyrosine kinase; Provisional

Probab=82.43  E-value=57  Score=39.28  Aligned_cols=31  Identities=16%  Similarity=0.292  Sum_probs=15.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHH
Q 005229           78 REKKVGEAQRSIEEQEKQLAFKESKISSMQT  108 (707)
Q Consensus        78 ~~~ei~~le~~i~e~~~el~ele~ei~~l~~  108 (707)
                      ..+-+..|++++.+++.++...+..+...+.
T Consensus       265 a~~a~~fL~~ql~~l~~~L~~aE~~l~~fr~  295 (719)
T PRK11519        265 ASKSLAFLAQQLPEVRSRLDVAENKLNAFRQ  295 (719)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344455555555555555555555555443

>KOG2196 consensus Nuclear porin [Nuclear structure]

Probab=82.22  E-value=61  Score=32.95  Aligned_cols=51  Identities=18%  Similarity=0.199  Sum_probs=25.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 005229           64 WKNLIEECYDEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENE  114 (707)
Q Consensus        64 l~~~i~e~~~e~~~~~~ei~~le~~i~e~~~el~ele~ei~~l~~~i~e~~  114 (707)
                      |++-|+.-..++..-++-....-.+|..|...|-....+|..+-.+....+
T Consensus        76 LeeliNkWs~el~~Qe~vF~~q~~qvNaWDr~LI~ngekI~~Ly~e~~~vk  126 (254)
T KOG2196|consen   76 LEELINKWSLELEEQERVFLQQATQVNAWDRTLIENGEKISGLYNEVVKVK  126 (254)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHhCcHHHHHHHHHHHHHH
Confidence            334444444444444455455555555555555555555555544444443

>KOG2264 consensus Exostosin EXT1L [Signal transduction mechanisms]

Probab=81.73  E-value=11  Score=42.43  Aligned_cols=20  Identities=5%  Similarity=-0.067  Sum_probs=13.0

Q ss_pred             cchhhhHHHHhhcCCccccc
Q 005229          515 DKVPGLQCSTTAEGRSAPSM  534 (707)
Q Consensus       515 ~k~~~~i~~li~~g~~~~a~  534 (707)
                      +-+.+-|-.++.-.-||++-
T Consensus       512 ~~~~~tvlA~lR~rlqIP~r  531 (907)
T KOG2264|consen  512 HLLARTVLAALRYRLQIPTR  531 (907)
T ss_pred             HHHHHHHHHHHHHhhCCCCc
Confidence            44556666777777777743

>KOG2751 consensus Beclin-like protein [Signal transduction mechanisms]

Probab=81.70  E-value=29  Score=38.17  Aligned_cols=16  Identities=31%  Similarity=0.457  Sum_probs=6.8

Q ss_pred             HHHHHHHHHHHHHHHH
Q 005229          299 FDSLKKGLEDRLQDLE  314 (707)
Q Consensus       299 ~~~le~~L~~~~~eL~  314 (707)
                      +++++..++-...+++
T Consensus       248 l~Sle~q~~~s~~qld  263 (447)
T KOG2751|consen  248 LDSLEAQIEYSQAQLD  263 (447)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            4444444444333333

>KOG2264 consensus Exostosin EXT1L [Signal transduction mechanisms]

Probab=81.55  E-value=10  Score=42.70  Aligned_cols=56  Identities=23%  Similarity=0.279  Sum_probs=26.0

Q ss_pred             HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHH
Q 005229          126 EVKNSLMLCETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVE  181 (707)
Q Consensus       126 ~l~~ele~le~el~~~~~Ele~~e~~i~~l~~ele~~e~~l~~le~el~~~~~eL~  181 (707)
                      .+..|+.+++.+.++++.+|+.....|++++..+...+.++..++.++++.+..++
T Consensus        90 sVs~EL~ele~krqel~seI~~~n~kiEelk~~i~~~q~eL~~Lk~~ieqaq~~~~  145 (907)
T KOG2264|consen   90 SVSLELTELEVKRQELNSEIEEINTKIEELKRLIPQKQLELSALKGEIEQAQRQLE  145 (907)
T ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhHHHHHHHHhHHHHHHHHHH
Confidence            44445555555555555555555555555544433333333334444444333333

>PRK15422 septal ring assembly protein ZapB; Provisional

Probab=81.53  E-value=30  Score=28.84  Aligned_cols=14  Identities=29%  Similarity=0.254  Sum_probs=5.0

Q ss_pred             HHHHHHHHHHHHHH
Q 005229           80 KKVGEAQRSIEEQE   93 (707)
Q Consensus        80 ~ei~~le~~i~e~~   93 (707)
                      ..|.-|+-+|++++
T Consensus        18 dtI~LLqmEieELK   31 (79)
T PRK15422         18 DTITLLQMEIEELK   31 (79)
T ss_pred             HHHHHHHHHHHHHH
Confidence            33333333333333

>cd00632 Prefoldin_beta Prefoldin beta; Prefoldin is a hexameric molecular chaperone complex, composed of two evolutionarily related subunits (alpha and beta), which are found in both eukaryotes and archaea

Probab=81.40  E-value=22  Score=31.43  Aligned_cols=12  Identities=8%  Similarity=0.169  Sum_probs=4.3

Q ss_pred             HHHHhHHHHHHH
Q 005229          126 EVKNSLMLCETK  137 (707)
Q Consensus       126 ~l~~ele~le~e  137 (707)
                      .++.++..+...
T Consensus        10 ~l~~~~~~l~~~   21 (105)
T cd00632          10 QLQQQLQAYIVQ   21 (105)
T ss_pred             HHHHHHHHHHHH
Confidence            333333333333

Prefoldin binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The hexameric structure consists of a double beta barrel assembly with six protruding coiled-coils. The alpha prefoldin subunits have two beta hairpin structures while the beta prefoldin subunits (this CD) have only one hairpin that is most similar to the second hairpin of the alpha subunit. The prefoldin hexamer consists of two alpha and four beta subunits and is assembled from the beta hairpins of all six subunits. The alpha subunits initially dimerize providing a structural nucleus for the assembly of the beta subunits. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the st

>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=81.27  E-value=15  Score=35.56  Aligned_cols=14  Identities=21%  Similarity=0.280  Sum_probs=4.9

Q ss_pred             HHHHHHHHHHHHHH
Q 005229           73 DEVELREKKVGEAQ   86 (707)
Q Consensus        73 ~e~~~~~~ei~~le   86 (707)
                      .++..+..++..++
T Consensus        86 ~el~~l~~~~k~l~   99 (169)
T PF07106_consen   86 EELAELKKEVKSLE   99 (169)
T ss_pred             HHHHHHHHHHHHHH
Confidence            33333333333333

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 [].

>PF03999 MAP65_ASE1: Microtubule associated protein (MAP65/ASE1 family); InterPro: IPR007145 This is a family of microtubule associated proteins

Probab=81.14  E-value=6.7  Score=46.25  Aligned_cols=12  Identities=17%  Similarity=0.080  Sum_probs=9.7

Q ss_pred             cCCchhHHHHHH
Q 005229          361 TSSGRYLQFLLN  372 (707)
Q Consensus       361 ~~~~~~l~~~~~  372 (707)
                      .++|..+..+|.
T Consensus       416 lv~G~~~le~l~  427 (619)
T PF03999_consen  416 LVDGERYLEYLE  427 (619)
T ss_dssp             EETTEEHHHHHH
T ss_pred             EEcCccHHHHHH
Confidence            478988888876

One of its members is the yeast anaphase spindle elongation protein.; PDB: 3NRX_A 3NRY_A.

>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89

Probab=81.13  E-value=8.2  Score=31.52  Aligned_cols=57  Identities=12%  Similarity=0.052  Sum_probs=28.6

Q ss_pred             hhhHHHhHHHHHHHHHHHhhhchhhHHhhhhhhhhHHHHHHHHHHHHHhhhHHHHhh
Q 005229          222 PASKDKELRFVQQSIEECSKEIPGKKEELISKGKTIAECSKEVELKKNQLNLIQDKS  278 (707)
Q Consensus       222 ie~~~~el~~~~~~le~l~~El~~l~~Ele~l~~~l~e~~~~le~k~~ele~l~~~l  278 (707)
                      +..+++.+..+...+.....++..+..|+++....+..+..++..++.+++.+..++
T Consensus         7 ~~~Lr~rLd~~~rk~~~~~~~~k~L~~ERd~~~~~l~~a~~e~~~Lk~E~e~L~~el   63 (69)
T PF14197_consen    7 IATLRNRLDSLTRKNSVHEIENKRLRRERDSAERQLGDAYEENNKLKEENEALRKEL   63 (69)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444445555555555555555555555555555555544443

>KOG3215 consensus Uncharacterized conserved protein [Function unknown]

Probab=81.02  E-value=61  Score=32.09  Aligned_cols=30  Identities=13%  Similarity=0.205  Sum_probs=17.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 005229           80 KKVGEAQRSIEEQEKQLAFKESKISSMQTL  109 (707)
Q Consensus        80 ~ei~~le~~i~e~~~el~ele~ei~~l~~~  109 (707)
                      ..+..+++.+..+..++..-++.+...++.
T Consensus        33 r~v~~l~ksf~~~~~E~~kee~~y~ea~ri   62 (222)
T KOG3215|consen   33 RLVEHLEKSFVLAKAEIEKEEKEYSEAKRI   62 (222)
T ss_pred             HHHHHHHHHHHHHHHHhhhhhhchhHHHHH
Confidence            345556666666666666666555555554

>KOG2751 consensus Beclin-like protein [Signal transduction mechanisms]

Probab=80.79  E-value=35  Score=37.51  Aligned_cols=57  Identities=12%  Similarity=0.142  Sum_probs=26.3

Q ss_pred             HHHHHHHhcChhhHHHhHHHHHHHHHHHhhhchhhHHhhhhhhhhHHHHHHHHHHHH
Q 005229          212 RKYIEELNQDPASKDKELRFVQQSIEECSKEIPGKKEELISKGKTIAECSKEVELKK  268 (707)
Q Consensus       212 ~~ei~~l~~eie~~~~el~~~~~~le~l~~El~~l~~Ele~l~~~l~e~~~~le~k~  268 (707)
                      ...+.+++.+-+.+..+-...-++......+.-..+.++.+++.++......++.+.
T Consensus       210 ~~~l~e~~~~~~~~~e~~~~~~~ey~~~~~q~~~~~del~Sle~q~~~s~~qldkL~  266 (447)
T KOG2751|consen  210 DHQLKELEFKAERLNEEEDQYWREYNNFQRQLIEHQDELDSLEAQIEYSQAQLDKLR  266 (447)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333333333444444444444555566666665555555555443

>TIGR01010 BexC_CtrB_KpsE polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family

Probab=80.66  E-value=67  Score=35.04  Aligned_cols=28  Identities=11%  Similarity=0.336  Sum_probs=12.7

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229          130 SLMLCETKLECEKKELELTQSSIKELSM  157 (707)
Q Consensus       130 ele~le~el~~~~~Ele~~e~~i~~l~~  157 (707)
                      .+..++.++...+.++...+..+...+.
T Consensus       171 a~~fl~~ql~~~~~~l~~ae~~l~~fr~  198 (362)
T TIGR01010       171 TIAFAENEVKEAEQRLNATKAELLKYQI  198 (362)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444444444444444433

This family contains gamma proteobacterial proteins involved in capsule polysaccharide export.

>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=80.55  E-value=23  Score=34.22  Aligned_cols=15  Identities=20%  Similarity=0.271  Sum_probs=5.4

Q ss_pred             HHHHHHHHHHHHHHH
Q 005229          137 KLECEKKELELTQSS  151 (707)
Q Consensus       137 el~~~~~Ele~~e~~  151 (707)
                      .+..+..++..++.+
T Consensus       117 ~i~~l~~e~~~l~~k  131 (169)
T PF07106_consen  117 EIEELEEEIEELEEK  131 (169)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            333333333333333

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 [].

>cd00176 SPEC Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; the repeats are independent folding units; tandem repeats are found in differing numbers and arrange in an antiparallel manner to form dimers; the repeats are defined by a characteristic tryptophan (W) residue in helix A and a leucine (L) at the carboxyl end of helix C and separated by a linker of 5 residues; two copies of the repeat are present here

Probab=80.52  E-value=58  Score=31.53  Aligned_cols=24  Identities=25%  Similarity=0.241  Sum_probs=10.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q 005229          166 LELLQGKVRLHENEVESLEQKLDS  189 (707)
Q Consensus       166 l~~le~el~~~~~eL~~~e~el~~  189 (707)
                      +..+......+...+......|..
T Consensus        81 ~~~l~~~w~~l~~~~~~r~~~L~~  104 (213)
T cd00176          81 LEELNQRWEELRELAEERRQRLEE  104 (213)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444444444444444444444444

>COG1842 PspA Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]

Probab=80.43  E-value=71  Score=32.52  Aligned_cols=46  Identities=20%  Similarity=0.216  Sum_probs=36.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229           50 WINKCQAYQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQ   95 (707)
Q Consensus        50 ~~~~~~~~~~el~~l~~~i~e~~~e~~~~~~ei~~le~~i~e~~~e   95 (707)
                      +...|.+.+.++..+...+.........++.++..+...+.++...
T Consensus        29 l~Q~ird~~~~l~~ar~~~A~~~a~~k~~e~~~~~~~~~~~k~e~~   74 (225)
T COG1842          29 LEQAIRDMESELAKARQALAQAIARQKQLERKLEEAQARAEKLEEK   74 (225)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5556677788888888888888888888888888888888888776

>COG0497 RecN ATPase involved in DNA repair [DNA replication, recombination, and repair]

Probab=80.27  E-value=1.2e+02  Score=35.05  Aligned_cols=19  Identities=21%  Similarity=0.060  Sum_probs=7.6

Q ss_pred             hcccCcHHHHHHHHHHhhh
Q 005229          462 VAVENSLEVLGFLHLLAAY  480 (707)
Q Consensus       462 ~~~~~~l~a~~fl~~l~~f  480 (707)
                      +||+-|--.|||=-.++.+
T Consensus       433 SGGELSRimLAlk~i~~~~  451 (557)
T COG0497         433 SGGELSRIMLALKVILSRK  451 (557)
T ss_pred             chhHHHHHHHHHHHHHhcc
Confidence            3334443334444344444

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	707
1gcc_A	63	Solution Nmr Structure Of The Complex Of Gcc-Box Bi		9e-15
2gcc_A	70	Solution Structure Of The Gcc-Box Binding Domain, N		1e-14

>pdb|1GCC|A Chain A, Solution Nmr Structure Of The Complex Of Gcc-Box Binding Domain Of Aterf1 And Gcc-Box Dna, Minimized Average Structure Length = 63

Iteration: 1
 Score = 79.0 bits (193), Expect = 9e-15,   Method: Composition-based stats.
 Identities = 36/62 (58%), Positives = 42/62 (67%), Gaps = 1/62 (1%)
Query: 638 HFRGVRQRPWGKWAAEIRDP-KKAARIWLGTFDTXXXXXXXXXXXXXRFKGRKAKLNFPE 696
           H+RGVRQRPWGK+AAEIRDP K  AR+WLGTF+T             R +G +A LNFP 
Sbjct: 2   HYRGVRQRPWGKFAAEIRDPAKNGARVWLGTFETAEDAALAYDRAAFRMRGSRALLNFPL 61
Query: 697 RV 698
           RV
Sbjct: 62  RV 63

>pdb|2GCC|A Chain A, Solution Structure Of The Gcc-Box Binding Domain, Nmr, Minimized Mean Structure Length = 70

Iteration: 1
 Score = 78.6 bits (192), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 36/64 (56%), Positives = 43/64 (67%), Gaps = 1/64 (1%)
Query: 638 HFRGVRQRPWGKWAAEIRDP-KKAARIWLGTFDTXXXXXXXXXXXXXRFKGRKAKLNFPE 696
           H+RGVRQRPWGK+AAEIRDP K  AR+WLGTF+T             R +G +A LNFP 
Sbjct: 5   HYRGVRQRPWGKFAAEIRDPAKNGARVWLGTFETAEDAALAYDRAAFRMRGSRALLNFPL 64
Query: 697 RVQA 700
           RV +
Sbjct: 65  RVNS 68

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	707
1gcc_A	63	Ethylene responsive element binding factor 1; tran	5e-39
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	1e-17
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	2e-13
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	3e-13
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	9e-13
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	3e-11
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	2e-05
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-12
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-12
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-09
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	4e-12
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	6e-11
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	8e-11
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	1e-06
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	1e-05
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	4e-05
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	3e-08
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	5e-08
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	8e-07
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	2e-05
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	3e-05
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	2e-04
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	4e-04
2xs1_A	704	Programmed cell death 6-interacting protein; prote	1e-06
2xs1_A	704	Programmed cell death 6-interacting protein; prote	1e-06
2b9c_A	147	Striated-muscle alpha tropomyosin; alpha-helix, co	2e-06
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	4e-05
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	6e-05
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	4e-04
1g8x_A	1010	Myosin II heavy chain fused to alpha-actinin 3; mo	6e-05
4dvy_P	877	Cytotoxicity-associated immunodominant antigen; on	7e-05
3iyd_F	613	RNA polymerase sigma factor RPOD; transcription, i	1e-04
1cii_A	602	Colicin IA; bacteriocin, ION channel formation, tr	2e-04

>1gcc_A Ethylene responsive element binding factor 1; transcription factor, protein-DNA complex, ethylene inducible; HET: DNA; NMR {Arabidopsis thaliana} SCOP: d.10.1.2 PDB: 2gcc_A 3gcc_A Length = 63

 Score =  137 bits (346), Expect = 5e-39
 Identities = 46/62 (74%), Positives = 52/62 (83%), Gaps = 1/62 (1%)

Query: 638 HFRGVRQRPWGKWAAEIRDP-KKAARIWLGTFDTAEAAALAYDEAALRFKGRKAKLNFPE 696
           H+RGVRQRPWGK+AAEIRDP K  AR+WLGTF+TAE AALAYD AA R +G +A LNFP 
Sbjct: 2   HYRGVRQRPWGKFAAEIRDPAKNGARVWLGTFETAEDAALAYDRAAFRMRGSRALLNFPL 61

Query: 697 RV 698
           RV
Sbjct: 62  RV 63

>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 = 86.8 bits (215), Expect = 1e-17
 Identities = 51/312 (16%), Positives = 134/312 (42%), Gaps = 5/312 (1%)

Query: 46   SAQEWINKCQAYQKEL-RLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQLAFKESKIS 104
              +E   K +A  KEL +    L EE      L+EK   E +   E +E ++     K  
Sbjct: 868  RTKERQQKAEAELKELEQKHTQLCEEKNL---LQEKLQAETELYAEAEEMRVRLAAKKQE 924

Query: 105  SMQTLIEENEGLLKDKEKLYDEVKNSLMLCETKLECEKKELELTQSSIKELSMEFHSEEE 164
             ++ ++ E E  ++++E+   +++      + ++   +++LE  +++ ++L +E  + + 
Sbjct: 925  -LEEILHEMEARIEEEEERSQQLQAEKKKMQQQMLDLEEQLEEEEAARQKLQLEKVTADG 983

Query: 165  KLELLQGKVRLHENEVESLEQKLDSMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPAS 224
            K++ ++  + + E++   L ++   + ++      ++  ++ +   + K   +     + 
Sbjct: 984  KIKKMEDDILIMEDQNNKLTKERKLLEERVSDLTTNLAEEEEKAKNLTKLKNKHESMISE 1043

Query: 225  KDKELRFVQQSIEECSKEIPGKKEELISKGKTIAECSKEVELKKNQLNLIQDKSSLFQTR 284
             +  L+  ++S +E  K     + E     + IAE   ++   K QL   +++      R
Sbjct: 1044 LEVRLKKEEKSRQELEKIKRKLEGESSDLHEQIAELQAQIAELKAQLAKKEEELQAALAR 1103

Query: 285  TIVYLKELKEKETHFDSLKKGLEDRLQDLELKEREFEKRVKEFELREKELDSIRKAVEDR 344
                  +          L+  + D  +DLE ++    K  K+     +EL++++  +ED 
Sbjct: 1104 LEDETSQKNNALKKIRELESHISDLQEDLESEKAARNKAEKQKRDLSEELEALKTELEDT 1163

Query: 345  SKNLLLQVKIKD 356
                  Q +++ 
Sbjct: 1164 LDTTATQQELRG 1175

>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 = 73.3 bits (180), Expect = 2e-13
 Identities = 44/294 (14%), Positives = 119/294 (40%), Gaps = 3/294 (1%)

Query: 58   QKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLL 117
            ++E++     ++   +  +  E ++ E ++   +  ++    + K+ +   L  E E + 
Sbjct: 856  EEEMQAKDEELQRTKERQQKAEAELKELEQKHTQLCEEKNLLQEKLQAETELYAEAEEMR 915

Query: 118  KDKEKLYDEVKNSLMLCETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHE 177
                    E++  L   E ++E E++  +  Q+  K++  +    EE+LE  +   +  +
Sbjct: 916  VRLAAKKQELEEILHEMEARIEEEEERSQQLQAEKKKMQQQMLDLEEQLEEEEAARQKLQ 975

Query: 178  NEVESLEQKLDSMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIE 237
             E  + + K+  M        D      +E   + + + +L  + A ++++ + + +   
Sbjct: 976  LEKVTADGKIKKMEDDILIMEDQNNKLTKERKLLEERVSDLTTNLAEEEEKAKNLTKLKN 1035

Query: 238  ECSKEIPGKKEELISKGKTIAECSKEVELKKNQLNLIQDKSSLFQTRTIVYLKELKEKET 297
            +    I   +  L  + K+  E  K     + + + + ++ +  Q +      +L +KE 
Sbjct: 1036 KHESMISELEVRLKKEEKSRQELEKIKRKLEGESSDLHEQIAELQAQIAELKAQLAKKEE 1095

Query: 298  HFDSLKKGLED---RLQDLELKEREFEKRVKEFELREKELDSIRKAVEDRSKNL 348
               +    LED   +  +   K RE E  + + +   +   + R   E + ++L
Sbjct: 1096 ELQAALARLEDETSQKNNALKKIRELESHISDLQEDLESEKAARNKAEKQKRDL 1149

>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 = 72.6 bits (178), Expect = 3e-13
 Identities = 30/230 (13%), Positives = 85/230 (36%), Gaps = 5/230 (2%)

Query: 14   QKRIGEFNCELELKENELNSL-----SVSLNLKNKPSSAQEWINKCQAYQKELRLWKNLI 68
            Q+++ +   +LE +E     L     +    +K          ++     KE +L +  +
Sbjct: 954  QQQMLDLEEQLEEEEAARQKLQLEKVTADGKIKKMEDDILIMEDQNNKLTKERKLLEERV 1013

Query: 69   EECYDEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVK 128
             +    +   E+K     +   + E  ++  E ++   +   +E E + +  E    ++ 
Sbjct: 1014 SDLTTNLAEEEEKAKNLTKLKNKHESMISELEVRLKKEEKSRQELEKIKRKLEGESSDLH 1073

Query: 129  NSLMLCETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLEQKLD 188
              +   + ++   K +L   +  ++        E  +      K+R  E+ +  L++ L+
Sbjct: 1074 EQIAELQAQIAELKAQLAKKEEELQAALARLEDETSQKNNALKKIRELESHISDLQEDLE 1133

Query: 189  SMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEE 238
            S +  + K          EL  ++  +E+     A++ +      +  ++
Sbjct: 1134 SEKAARNKAEKQKRDLSEELEALKTELEDTLDTTATQQELRGSDYKDDDD 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 = 71.0 bits (174), Expect = 9e-13
 Identities = 46/248 (18%), Positives = 105/248 (42%), Gaps = 10/248 (4%)

Query: 58   QKELRLWKNLIEECY---DEVELREKKVGEAQRSIEEQEKQLAFKESKISS----MQTLI 110
            ++E    + L  E      ++   E+++ E + + ++ + +    + KI      +  + 
Sbjct: 937  EEEEERSQQLQAEKKKMQQQMLDLEEQLEEEEAARQKLQLEKVTADGKIKKMEDDILIME 996

Query: 111  EENEGLLKDKEKLYDEVKN---SLMLCETKLECEKKELELTQSSIKELSMEFHSEEEKLE 167
            ++N  L K+++ L + V +   +L   E K +   K     +S I EL +    EE+  +
Sbjct: 997  DQNNKLTKERKLLEERVSDLTTNLAEEEEKAKNLTKLKNKHESMISELEVRLKKEEKSRQ 1056

Query: 168  LLQGKVRLHENEVESLEQKLDSMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPASKDK 227
             L+   R  E E   L +++  ++ Q  +    +  K+ EL      +E+      +  K
Sbjct: 1057 ELEKIKRKLEGESSDLHEQIAELQAQIAELKAQLAKKEEELQAALARLEDETSQKNNALK 1116

Query: 228  ELRFVQQSIEECSKEIPGKKEELISKGKTIAECSKEVELKKNQLNLIQDKSSLFQTRTIV 287
            ++R ++  I +  +++  +K       K   + S+E+E  K +L    D ++  Q     
Sbjct: 1117 KIRELESHISDLQEDLESEKAARNKAEKQKRDLSEELEALKTELEDTLDTTATQQELRGS 1176

Query: 288  YLKELKEK 295
              K+  +K
Sbjct: 1177 DYKDDDDK 1184

>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 = 65.6 bits (160), Expect = 3e-11
 Identities = 54/315 (17%), Positives = 128/315 (40%), Gaps = 27/315 (8%)

Query: 50   WINKCQAYQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTL 109
            ++N        L      + +   + E  + K  E QR+ E Q+K  A  +        L
Sbjct: 831  FMNVXHWPWMXLFFXIXPLLKVTRQEEEMQAKDEELQRTKERQQKAEAELKELEQKHTQL 890

Query: 110  IEENEGLLKDKEKLYDEVKNSLMLCETKLECEKKELELTQSSIKELSMEFHSEEEKLELL 169
             EE   L +  +   +    +  +   +L  +K+ELE     + E+      EEE+ + L
Sbjct: 891  CEEKNLLQEKLQAETELYAEAEEMRV-RLAAKKQELE---EILHEMEARIEEEEERSQQL 946

Query: 170  QGKVRLHENEVESLEQKLDSMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPASKDKEL 229
            Q + +  + ++  LE++L+     ++K    ++L+K   +     I+++  D    + + 
Sbjct: 947  QAEKKKMQQQMLDLEEQLEEEEAARQK----LQLEKVTADGK---IKKMEDDILIMEDQN 999

Query: 230  RFVQQSIEECSKEIPGKKEELISKGKTIAECSKEVELKKNQLNLIQDKSSLFQTRTIVYL 289
              + +  +   + +      L  + +     +K     ++ ++ ++ +           L
Sbjct: 1000 NKLTKERKLLEERVSDLTTNLAEEEEKAKNLTKLKNKHESMISELEVR-----------L 1048

Query: 290  KELKEKETHFDSLKKGLEDRLQDLELKEREFEKRVKEFEL----REKELDSIRKAVED-R 344
            K+ ++     + +K+ LE    DL  +  E + ++ E +     +E+EL +    +ED  
Sbjct: 1049 KKEEKSRQELEKIKRKLEGESSDLHEQIAELQAQIAELKAQLAKKEEELQAALARLEDET 1108

Query: 345  SKNLLLQVKIKDPEN 359
            S+      KI++ E+
Sbjct: 1109 SQKNNALKKIRELES 1123

>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 = 47.5 bits (113), Expect = 2e-05
 Identities = 37/192 (19%), Positives = 80/192 (41%), Gaps = 18/192 (9%)

Query: 14   QKRIGEFNCELELKENELNSLSVSLN-LKNKPSSAQEWINKCQAYQKELRLWKNLIEECY 72
            ++R+ +    L  +E +  +L+   N  ++  S  +  + K +  ++EL   K  +E   
Sbjct: 1010 EERVSDLTTNLAEEEEKAKNLTKLKNKHESMISELEVRLKKEEKSRQELEKIKRKLEG-- 1067

Query: 73   DEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLM 132
             E     +++ E Q  I E + QLA KE ++ +    +E+      +  K   E+++ + 
Sbjct: 1068 -ESSDLHEQIAELQAQIAELKAQLAKKEEELQAALARLEDETSQKNNALKKIRELESHIS 1126

Query: 133  LCETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLEQKLDSMRK 192
              +  LE EK      +   ++L        E+LE L+        E+E       + ++
Sbjct: 1127 DLQEDLESEKAARNKAEKQKRDL-------SEELEALK-------TELEDTLDTTATQQE 1172

Query: 193  QQKKYFDDVELK 204
             +   + D + K
Sbjct: 1173 LRGSDYKDDDDK 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 = 70.3 bits (171), Expect = 1e-12
 Identities = 44/353 (12%), Positives = 106/353 (30%), Gaps = 106/353 (30%)

Query: 24  LELKENEL-------NSLSVSL---NLKNKPSSAQEWINKCQAYQKELRLWK--NLIEEC 71
           L+ +  +L       N   +S+   ++++  ++   W        K +   K   +IE  
Sbjct: 311 LDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNW--------KHVNCDKLTTIIESS 362

Query: 72  YDEVELREKKVGEAQRSIEEQEKQLA-FKES-KISSMQTLIEENEGLLKDKEKLYDEVKN 129
            + +E  E +         +   +L+ F  S  I +   L      +  D      +V  
Sbjct: 363 LNVLEPAEYR---------KMFDRLSVFPPSAHIPT-ILL----SLIWFDVI--KSDVMV 406

Query: 130 SLMLCETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLEQKLDS 189
            +         EK+         KE ++   S       +  ++++      +L + +  
Sbjct: 407 VVNKLHKYSLVEKQP--------KESTISIPS-------IYLELKVKLENEYALHRSIVD 451

Query: 190 MRKQQKKYFDDVELKKRELNEIRKYI----EELNQDPASKDKE-------LRFVQQSIEE 238
                K +  D  +          +I    + +      +           RF++Q I  
Sbjct: 452 HYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEH--PERMTLFRMVFLDFRFLEQKI-- 507

Query: 239 CSKEIPGKKEELISKGKTIAECSKEVELKKNQLNLIQDKSSLFQTRTIVYLKELKEKETH 298
                         +  + A  +       + LN +Q            Y   + + +  
Sbjct: 508 --------------RHDSTAWNA-----SGSILNTLQQ--------LKFYKPYICDNDPK 540

Query: 299 FDSLKKGLEDRLQDLELKEREFEKRVKEFELREKELDSIRKAVEDRSKNLLLQ 351
           ++ L   + D           F  +++E  +  K  D +R A+    + +  +
Sbjct: 541 YERLVNAILD-----------FLPKIEENLICSKYTDLLRIALMAEDEAIFEE 582

>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 = 70.3 bits (171), Expect = 2e-12
 Identities = 79/506 (15%), Positives = 160/506 (31%), Gaps = 139/506 (27%)

Query: 142 KKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLEQKLDSMRKQQ----KKY 197
               +     ++++     S+EE   ++  K     + V    +   ++  +Q    +K+
Sbjct: 30  VDNFDCKD--VQDMPKSILSKEEIDHIIMSK-----DAVSGTLRLFWTLLSKQEEMVQKF 82

Query: 198 FDDV--------------ELKKRELNEIRKYIEELNQ---DPASKDKELRFVQQSIEECS 240
            ++V              E ++  +   R YIE+ ++   D     K    V  S  +  
Sbjct: 83  VEEVLRINYKFLMSPIKTEQRQPSMMT-RMYIEQRDRLYNDNQVFAK--YNV--SRLQPY 137

Query: 241 KEIPGKKEELISK-----------GKTI--AE-C-SKEVELKKNQ----LNLIQDKSSLF 281
            ++     EL              GKT    + C S +V+ K +     LNL    S   
Sbjct: 138 LKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNS--- 194

Query: 282 QTRTIVYLKELKEKETHFDSLKKGLEDRLQDLELKEREFEKRVKEFELREKELDSIRKAV 341
              T+  L+ L++     D       D   +++L+    +  ++   L+ K         
Sbjct: 195 -PETV--LEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRL-LKSKPY------- 243

Query: 342 EDRSKNLLLQVK-IKDPENLTSSGRYLQFLLNQHLQKHDSIFCK---------VFDTIKS 391
               +N LL +  +++ +   +      F L+          CK         V D + +
Sbjct: 244 ----ENCLLVLLNVQNAKAWNA------FNLS----------CKILLTTRFKQVTDFLSA 283

Query: 392 ARDPALLVLHAMSGFYPPHSREGDLEFDVSIVRRSCILLLEQLSTVEPE----INAQVRD 447
           A    + + H      P           +  +      L  ++ T  P     I   +RD
Sbjct: 284 ATTTHISLDHHSMTLTPDEV----KSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRD 339

Query: 448 EAMKVAGEWK----KKMRVAVENSLEVLGFLHLLAAYRLAPAFDREEL--ESLLCIV--A 499
                   WK     K+   +E+SL VL        +     F         LL ++   
Sbjct: 340 GLAT-WDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFD 398

Query: 500 QHRQTP-----KL-RRTLGFADK--------VPGLQCSTTAEGRSAPSMLVGTSAPLNQS 545
             +        KL + +L   +K        +P +      +  +  +        L++S
Sbjct: 399 VIKSDVMVVVNKLHKYSL--VEKQPKESTISIPSIYLELKVKLENEYA--------LHRS 448

Query: 546 VSSPMNLPQCSGMDPNSSTSSLVSQY 571
           +    N+P+    D +      + QY
Sbjct: 449 IVDHYNIPKTF--DSDDLIPPYLDQY 472

>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 = 65/441 (14%), Positives = 135/441 (30%), Gaps = 118/441 (26%)

Query: 207 ELNEIR-KY--IEELNQDPASKDKELRFVQQSIEECSKEIPGKKEELISKGKTIAECSKE 263
           E  E + +Y  I  + +D    +    F  + +++  K I       +SK        +E
Sbjct: 10  ETGEHQYQYKDILSVFEDAFVDN----FDCKDVQDMPKSI-------LSK--------EE 50

Query: 264 VELKKNQLNLIQDKSSLFQTRTIVYLKELKEKETHFDSLKKGLEDRLQ-DLE-LKEREFE 321
           ++      ++I  K ++  T  + +    K++E     ++K +E+ L+ + + L     +
Sbjct: 51  ID------HIIMSKDAVSGTLRLFWTLLSKQEEM----VQKFVEEVLRINYKFLMSP-IK 99

Query: 322 KRVKEFELREKELDSIRKAVEDRSKNLLLQVKIKDPENLTSSGRYLQFLLNQHLQKHDSI 381
              ++  +  +     R    DR  N     ++    N++    YL+  L Q L +    
Sbjct: 100 TEQRQPSMMTRMYIEQR----DRLYN---DNQVFAKYNVSRLQPYLK--LRQALLE---- 146

Query: 382 FCKVFDTIKSARDPALLVLHAMSGF---------YPPHSREGDLEFDV---SIVRRSCI- 428
                      R    +++  + G             +  +  ++F +   ++   +   
Sbjct: 147 ----------LRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPE 196

Query: 429 LLLEQLSTVEPEINAQVRDEAMKVAGEWKKKMRVAVENSLEVLGFLHLLAAYRLAPAFDR 488
            +LE L  +  +I     D       +    +++ + +    L  L     Y        
Sbjct: 197 TVLEMLQKLLYQI-----DPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYE------- 244

Query: 489 EELESLLCIVAQHRQTPKLRRTLGFADKVPGLQCS---TT----------AEGRSAPSML 535
                LL  V  + Q  K               C    TT          A   +  S L
Sbjct: 245 ---NCLL--VLLNVQNAKAWNAFNL-------SCKILLTTRFKQVTDFLSAATTTHIS-L 291

Query: 536 VGTSAPLNQSVSSPMNLPQCSGMDPNSSTSSLVSQYSGAQPQLENQYKRLRRESPSTIAY 595
              S  L       + L +     P      L  +     P+  +      R+  +T   
Sbjct: 292 DHHSMTLTPDEVKSL-LLKYLDCRP----QDLPREVLTTNPRRLSIIAESIRDGLATWDN 346

Query: 596 TPQTPASDNLSR---SSLATQ 613
                  D L+    SSL   
Sbjct: 347 WKH-VNCDKLTTIIESSLNVL 366

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus} Length = 1080

 Score = 69.0 bits (169), Expect = 4e-12
 Identities = 41/215 (19%), Positives = 83/215 (38%), Gaps = 16/215 (7%)

Query: 48   QEWINKCQAYQKELRLWKNLIEECYDE----VELREKKVGEAQRSIEEQEKQLAFKESKI 103
            Q+ +    A     R  K ++           +   KK+    RS+E  +K     E+KI
Sbjct: 871  QKHVRGWLARVHYHRTLKAIVYLQCCYRRMMAKRELKKLKIEARSVERYKKLHIGLENKI 930

Query: 104  SSMQTLIEENEGLLKDKEKLYDEVKNSLMLCETKLECEKKELELTQSSIKELSMEFHSEE 163
              +Q  I+E     K       E  N+L   E     E ++L      ++    E  +  
Sbjct: 931  MQLQRKIDEQNKEYKSLL----EKMNNL---EITYSTETEKLRSDVERLRMSEEEAKNAT 983

Query: 164  EKLELLQGKVRLHENEVESLEQKLDSMRKQQKKYFDDVELKKRELNE----IRKYIEELN 219
             ++  LQ ++     E+   + +  ++ +   KY  + E    EL E    ++   EELN
Sbjct: 984  NRVLSLQEEIAKLRKELHQTQTEKKTIEEWADKYKHETEQLVSELKEQNTLLKTEKEELN 1043

Query: 220  QDPASKDKELR-FVQQSIEECSKEIPGKKEELISK 253
            +    + KE+   +++ + E +K++     +   +
Sbjct: 1044 RRIHDQAKEITETMEKKLVEETKQLELDLNDERLR 1078

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus} Length = 1080

 Score = 65.1 bits (159), Expect = 6e-11
 Identities = 43/287 (14%), Positives = 107/287 (37%), Gaps = 32/287 (11%)

Query: 49   EWINKCQAYQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQT 108
                  Q +Q+   + K         + L+    G   R                     
Sbjct: 817  RAAIIIQKFQRMYVVRKRYQCMRDATIALQALLRGYLVR--------------------- 855

Query: 109  LIEENEGLLKDKEKLYDEVKNSLMLCETKLECEKKELELTQSSIKELSMEFHSEEEKLEL 168
               + + +L++ + +  +      L         K +   Q   + +  +   E +KL++
Sbjct: 856  --NKYQMMLREHKSIIIQKHVRGWLARVHYHRTLKAIVYLQCCYRRMMAK--RELKKLKI 911

Query: 169  LQGKVRLHENEVESLEQKLDSMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPASKDKE 228
                V  ++     LE K+  ++++       ++ + +E   + + +  L    +++ ++
Sbjct: 912  EARSVERYKKLHIGLENKIMQLQRK-------IDEQNKEYKSLLEKMNNLEITYSTETEK 964

Query: 229  LRFVQQSIEECSKEIPGKKEELISKGKTIAECSKEVELKKNQLNLIQDKSSLFQTRTIVY 288
            LR   + +    +E       ++S  + IA+  KE+   + +   I++ +  ++  T   
Sbjct: 965  LRSDVERLRMSEEEAKNATNRVLSLQEEIAKLRKELHQTQTEKKTIEEWADKYKHETEQL 1024

Query: 289  LKELKEKETHFDSLKKGLEDRLQDLELKEREFEKRVKEFELREKELD 335
            + ELKE+ T   + K+ L  R+ D   +  E  ++    E ++ ELD
Sbjct: 1025 VSELKEQNTLLKTEKEELNRRIHDQAKEITETMEKKLVEETKQLELD 1071

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus} Length = 1080

 Score = 64.7 bits (158), Expect = 8e-11
 Identities = 35/248 (14%), Positives = 95/248 (38%), Gaps = 16/248 (6%)

Query: 48   QEWINKCQAYQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQ 107
            + +     A      L +  +     ++ LRE K    Q+ +     ++ +  +   ++ 
Sbjct: 833  KRYQCMRDATIALQALLRGYLVRNKYQMMLREHKSIIIQKHVRGWLARVHYHRTL-KAIV 891

Query: 108  TLIEENEGLLKDKE--KLYDEVKNSLMLCETKLECEKKELELTQ-------------SSI 152
             L      ++  +E  KL  E ++     +  +  E K ++L +               +
Sbjct: 892  YLQCCYRRMMAKRELKKLKIEARSVERYKKLHIGLENKIMQLQRKIDEQNKEYKSLLEKM 951

Query: 153  KELSMEFHSEEEKLELLQGKVRLHENEVESLEQKLDSMRKQQKKYFDDVELKKRELNEIR 212
              L + + +E EKL     ++R+ E E ++   ++ S++++  K   ++   + E   I 
Sbjct: 952  NNLEITYSTETEKLRSDVERLRMSEEEAKNATNRVLSLQEEIAKLRKELHQTQTEKKTIE 1011

Query: 213  KYIEELNQDPASKDKELRFVQQSIEECSKEIPGKKEELISKGKTIAECSKEVELKKNQLN 272
            ++ ++   +      EL+     ++   +E+  +  +   +     E     E K+ +L+
Sbjct: 1012 EWADKYKHETEQLVSELKEQNTLLKTEKEELNRRIHDQAKEITETMEKKLVEETKQLELD 1071

Query: 273  LIQDKSSL 280
            L  ++   
Sbjct: 1072 LNDERLRY 1079

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus} Length = 1080

 Score = 50.9 bits (122), Expect = 1e-06
 Identities = 30/238 (12%), Positives = 91/238 (38%), Gaps = 14/238 (5%)

Query: 122  KLYDEVKNSLMLCETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVE 181
            K Y  ++++ +  +  L       +           +    E K  ++Q  VR     V 
Sbjct: 833  KRYQCMRDATIALQALLRGYLVRNK----------YQMMLREHKSIIIQKHVRGWLARVH 882

Query: 182  SLEQKLDSMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEECSK 241
                    +  Q        + + ++L    + +E   +     + ++  +Q+ I+E +K
Sbjct: 883  YHRTLKAIVYLQCCYRRMMAKRELKKLKIEARSVERYKKLHIGLENKIMQLQRKIDEQNK 942

Query: 242  EIPGKKEELISKGKTIAECSKEVELKKNQLNLIQDKSSLFQTRTIVYLKELKEKETHFDS 301
            E     E++ +   T +  ++++     +L + ++++     R +   +E+ +       
Sbjct: 943  EYKSLLEKMNNLEITYSTETEKLRSDVERLRMSEEEAKNATNRVLSLQEEIAKLRKELHQ 1002

Query: 302  L---KKGLEDRLQDLELKEREFEKRV-KEFELREKELDSIRKAVEDRSKNLLLQVKIK 355
                KK +E+     + +  +    + ++  L + E + + + + D++K +   ++ K
Sbjct: 1003 TQTEKKTIEEWADKYKHETEQLVSELKEQNTLLKTEKEELNRRIHDQAKEITETMEKK 1060

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus} Length = 1080

 Score = 47.8 bits (114), Expect = 1e-05
 Identities = 22/159 (13%), Positives = 63/159 (39%), Gaps = 10/159 (6%)

Query: 14   QKRIGEFNCELELKENELNSLSVSLNLKNKPSSAQEWINKCQAYQKELRLWKNLIEECYD 73
            + +I +   +++ +  E  SL     + N   +      K ++  + LR+ +   +   +
Sbjct: 927  ENKIMQLQRKIDEQNKEYKSLL--EKMNNLEITYSTETEKLRSDVERLRMSEEEAKNATN 984

Query: 74   EVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLML 133
             V   ++++ + ++ + + + +    E      +   E+    LK++  L    K  L  
Sbjct: 985  RVLSLQEEIAKLRKELHQTQTEKKTIEEWADKYKHETEQLVSELKEQNTLLKTEKEEL-- 1042

Query: 134  CETKLECEKKELELT-----QSSIKELSMEFHSEEEKLE 167
               ++  + KE+  T         K+L ++ + E  + +
Sbjct: 1043 -NRRIHDQAKEITETMEKKLVEETKQLELDLNDERLRYQ 1080

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus} Length = 1080

 Score = 46.3 bits (110), Expect = 4e-05
 Identities = 28/177 (15%), Positives = 70/177 (39%), Gaps = 10/177 (5%)

Query: 23   ELELKENELNSL-SVSLNLKNKPSSAQEWINKCQAYQKELRLWKNLIEECYDEVELREKK 81
            +L+++   +     + + L+NK    Q  I++     K L    N +E  Y     + + 
Sbjct: 908  KLKIEARSVERYKKLHIGLENKIMQLQRKIDEQNKEYKSLLEKMNNLEITYSTETEKLRS 967

Query: 82   VGEAQRSIEEQ----EKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLMLCETK 137
              E  R  EE+      ++   + +I+ ++  + + +   K  E+  D+ K+      ++
Sbjct: 968  DVERLRMSEEEAKNATNRVLSLQEEIAKLRKELHQTQTEKKTIEEWADKYKHETEQLVSE 1027

Query: 138  LECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLEQKLDSMRKQQ 194
            L+ +   L+  +  +          ++  E+ +   +    E + LE  L+  R + 
Sbjct: 1028 LKEQNTLLKTEKEELNRR-----IHDQAKEITETMEKKLVEETKQLELDLNDERLRY 1079

>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1 PDB: 2tma_A 2w49_A 2w4u_A Length = 284

 Score = 55.0 bits (132), Expect = 3e-08
 Identities = 38/276 (13%), Positives = 108/276 (39%)

Query: 53  KCQAYQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEE 112
           K Q  + +     +  +E   + +  E +  + +  +   +K+L   E ++      +++
Sbjct: 7   KMQMLKLDKENALDRADEAEADKKAAEDRSKQLEDELVSLQKKLKATEDELDKYSEALKD 66

Query: 113 NEGLLKDKEKLYDEVKNSLMLCETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQGK 172
            +  L+  EK   + +  +     +++  ++EL+  Q  +     +    E+  +  +  
Sbjct: 67  AQEKLELAEKKATDAEADVASLNRRIQLFEEELDRAQERLATALQKLEEAEKAADESERG 126

Query: 173 VRLHENEVESLEQKLDSMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFV 232
           +++ E+  +  E+K++    Q K+     E   R+  E+ + +  +  D    ++     
Sbjct: 127 MKVIESRAQKDEEKMEIQEIQLKEAKHIAEDADRKYEEVARKLVIIESDLERAEERAELS 186

Query: 233 QQSIEECSKEIPGKKEELISKGKTIAECSKEVELKKNQLNLIQDKSSLFQTRTIVYLKEL 292
           +    E  +EI      L S      + S++ +  + ++ ++ DK    +TR     + +
Sbjct: 187 EGKCAELEEEIKTVTNNLKSLEAQAEKYSQKEDKYEEEIKVLSDKLKEAETRAEFAERSV 246

Query: 293 KEKETHFDSLKKGLEDRLQDLELKEREFEKRVKEFE 328
            + E   D L+  L  +    +    E +  + +  
Sbjct: 247 TKLEKSIDDLEDELYAQKLKYKAISEELDHALNDMT 282

>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1 PDB: 2tma_A 2w49_A 2w4u_A Length = 284

 Score = 53.9 bits (129), Expect = 5e-08
 Identities = 42/279 (15%), Positives = 109/279 (39%)

Query: 65  KNLIEECYDEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLY 124
           K  ++    + E    +  EA+   +  E +    E ++ S+Q  ++  E  L    +  
Sbjct: 5   KKKMQMLKLDKENALDRADEAEADKKAAEDRSKQLEDELVSLQKKLKATEDELDKYSEAL 64

Query: 125 DEVKNSLMLCETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLE 184
            + +  L L E K    + ++      I+    E    +E+L     K+   E   +  E
Sbjct: 65  KDAQEKLELAEKKATDAEADVASLNRRIQLFEEELDRAQERLATALQKLEEAEKAADESE 124

Query: 185 QKLDSMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIP 244
           + +  +  + +K  + +E+++ +L E +   E+ ++      ++L  ++  +E   +   
Sbjct: 125 RGMKVIESRAQKDEEKMEIQEIQLKEAKHIAEDADRKYEEVARKLVIIESDLERAEERAE 184

Query: 245 GKKEELISKGKTIAECSKEVELKKNQLNLIQDKSSLFQTRTIVYLKELKEKETHFDSLKK 304
             + +     + I   +  ++  + Q      K   ++    V   +LKE ET  +  ++
Sbjct: 185 LSEGKCAELEEEIKTVTNNLKSLEAQAEKYSQKEDKYEEEIKVLSDKLKEAETRAEFAER 244

Query: 305 GLEDRLQDLELKEREFEKRVKEFELREKELDSIRKAVED 343
            +    + ++  E E   +  +++   +ELD     +  
Sbjct: 245 SVTKLEKSIDDLEDELYAQKLKYKAISEELDHALNDMTS 283

>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1 PDB: 2tma_A 2w49_A 2w4u_A Length = 284

 Score = 50.4 bits (120), Expect = 8e-07
 Identities = 42/250 (16%), Positives = 105/250 (42%)

Query: 23  ELELKENELNSLSVSLNLKNKPSSAQEWINKCQAYQKELRLWKNLIEECYDEVELREKKV 82
           E   K+ E   +S+   LK       ++    +  Q++L L +    +   +V    +++
Sbjct: 33  EDRSKQLEDELVSLQKKLKATEDELDKYSEALKDAQEKLELAEKKATDAEADVASLNRRI 92

Query: 83  GEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLMLCETKLECEK 142
              +  ++  +++LA    K+   +   +E+E  +K  E    + +  + + E +L+  K
Sbjct: 93  QLFEEELDRAQERLATALQKLEEAEKAADESERGMKVIESRAQKDEEKMEIQEIQLKEAK 152

Query: 143 KELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLEQKLDSMRKQQKKYFDDVE 202
              E      +E++ +    E  LE  + +  L E +   LE+++ ++    K      E
Sbjct: 153 HIAEDADRKYEEVARKLVIIESDLERAEERAELSEGKCAELEEEIKTVTNNLKSLEAQAE 212

Query: 203 LKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIPGKKEELISKGKTIAECSK 262
              ++ ++  + I+ L+      +    F ++S+ +  K I   ++EL ++       S+
Sbjct: 213 KYSQKEDKYEEEIKVLSDKLKEAETRAEFAERSVTKLEKSIDDLEDELYAQKLKYKAISE 272

Query: 263 EVELKKNQLN 272
           E++   N + 
Sbjct: 273 ELDHALNDMT 282

>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1 PDB: 2tma_A 2w49_A 2w4u_A Length = 284

 Score = 46.2 bits (109), Expect = 2e-05
 Identities = 36/189 (19%), Positives = 78/189 (41%)

Query: 23  ELELKENELNSLSVSLNLKNKPSSAQEWINKCQAYQKELRLWKNLIEECYDEVELREKKV 82
           E EL   +    +    L+    +A E     +  +   +  +  +E    +++  +   
Sbjct: 96  EEELDRAQERLATALQKLEEAEKAADESERGMKVIESRAQKDEEKMEIQEIQLKEAKHIA 155

Query: 83  GEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLMLCETKLECEK 142
            +A R  EE  ++L   ES +   +   E +EG   + E+    V N+L   E + E   
Sbjct: 156 EDADRKYEEVARKLVIIESDLERAEERAELSEGKCAELEEEIKTVTNNLKSLEAQAEKYS 215

Query: 143 KELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLEQKLDSMRKQQKKYFDDVE 202
           ++ +  +  IK LS +    E + E  +  V   E  ++ LE +L + + + K   ++++
Sbjct: 216 QKEDKYEEEIKVLSDKLKEAETRAEFAERSVTKLEKSIDDLEDELYAQKLKYKAISEELD 275

Query: 203 LKKRELNEI 211
               ++  I
Sbjct: 276 HALNDMTSI 284

>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1 PDB: 2tma_A 2w49_A 2w4u_A Length = 284

 Score = 45.4 bits (107), Expect = 3e-05
 Identities = 41/268 (15%), Positives = 111/268 (41%), Gaps = 14/268 (5%)

Query: 47  AQEWINKCQAYQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQLAFKESKISSM 106
            +   ++ +  + EL   +  ++   DE++   + + +AQ  +E  EK+    E+ ++S+
Sbjct: 29  KKAAEDRSKQLEDELVSLQKKLKATEDELDKYSEALKDAQEKLELAEKKATDAEADVASL 88

Query: 107 QTLIEENEGLLKDKEKLYDEVKNSLMLCETKLECEKKELELTQSSIKELSMEFHSEEEKL 166
              I+  E  L   ++              KLE  +K  + ++  +K +      +EEK+
Sbjct: 89  NRRIQLFEEELDRAQERLATA-------LQKLEEAEKAADESERGMKVIESRAQKDEEKM 141

Query: 167 ELLQGKVRLHENEVESLEQKLDSMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPASKD 226
           E+ + +++  ++  E  ++K + + ++      D+E  +           EL ++  +  
Sbjct: 142 EIQEIQLKEAKHIAEDADRKYEEVARKLVIIESDLERAEERAELSEGKCAELEEEIKTVT 201

Query: 227 KELRFVQQSIEECSKEIPGKKEELISKGKTIAECSKEVELKKNQLNLIQDKSSLFQTRTI 286
             L+ ++   E+ S++    +EE+      + E     E  +  +  ++      +    
Sbjct: 202 NNLKSLEAQAEKYSQKEDKYEEEIKVLSDKLKEAETRAEFAERSVTKLEKSIDDLE---- 257

Query: 287 VYLKELKEKETHFDSLKKGLEDRLQDLE 314
               EL  ++  + ++ + L+  L D+ 
Sbjct: 258 ---DELYAQKLKYKAISEELDHALNDMT 282

>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1 PDB: 2tma_A 2w49_A 2w4u_A Length = 284

 Score = 42.7 bits (100), Expect = 2e-04
 Identities = 28/206 (13%), Positives = 90/206 (43%)

Query: 138 LECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLEQKLDSMRKQQKKY 197
           ++  KK++++ +   +         E   +  + + +  E+E+ SL++KL +   +  KY
Sbjct: 1   MDAIKKKMQMLKLDKENALDRADEAEADKKAAEDRSKQLEDELVSLQKKLKATEDELDKY 60

Query: 198 FDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIPGKKEELISKGKTI 257
            + ++  + +L    K   +   D AS ++ ++  ++ ++   + +    ++L    K  
Sbjct: 61  SEALKDAQEKLELAEKKATDAEADVASLNRRIQLFEEELDRAQERLATALQKLEEAEKAA 120

Query: 258 AECSKEVELKKNQLNLIQDKSSLFQTRTIVYLKELKEKETHFDSLKKGLEDRLQDLELKE 317
            E  + +++ +++    ++K  + + +        ++ +  ++ + + L     DLE  E
Sbjct: 121 DESERGMKVIESRAQKDEEKMEIQEIQLKEAKHIAEDADRKYEEVARKLVIIESDLERAE 180

Query: 318 REFEKRVKEFELREKELDSIRKAVED 343
              E    +    E+E+ ++   ++ 
Sbjct: 181 ERAELSEGKCAELEEEIKTVTNNLKS 206

>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1 PDB: 2tma_A 2w49_A 2w4u_A Length = 284

 Score = 41.9 bits (98), Expect = 4e-04
 Identities = 33/265 (12%), Positives = 100/265 (37%), Gaps = 18/265 (6%)

Query: 89  IEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLMLCETKLECEKKELELT 148
           ++  +K++   +    +     +E E   K  E    ++++ L+  + KL+  + EL+  
Sbjct: 1   MDAIKKKMQMLKLDKENALDRADEAEADKKAAEDRSKQLEDELVSLQKKLKATEDELDKY 60

Query: 149 QSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLEQKLDSMRKQQKKYFDDVELKKREL 208
             ++K+   +    E+K    +  V      ++  E++LD  +++       +E  ++  
Sbjct: 61  SEALKDAQEKLELAEKKATDAEADVASLNRRIQLFEEELDRAQERLATALQKLEEAEKAA 120

Query: 209 NEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIPGKKEELISKGKTIAECSKEVELKK 268
           +E  + ++ +       ++++   +  ++E          +     + +     ++E  +
Sbjct: 121 DESERGMKVIESRAQKDEEKMEIQEIQLKEAKHIAEDADRKYEEVARKLVIIESDLERAE 180

Query: 269 NQLNLIQDKSSLFQTRTIVYLKELKEKETHFDSLKKGLEDRLQDLELKEREFEKRVKEFE 328
            +                   +  + K    +   K + + L+ LE +  ++ ++  ++E
Sbjct: 181 ERA------------------ELSEGKCAELEEEIKTVTNNLKSLEAQAEKYSQKEDKYE 222

Query: 329 LREKELDSIRKAVEDRSKNLLLQVK 353
              K L    K  E R++     V 
Sbjct: 223 EEIKVLSDKLKEAETRAEFAERSVT 247

>2xs1_A Programmed cell death 6-interacting protein; protein transport-viral protein complex, cell cycle; 2.30A {Homo sapiens} PDB: 2xs8_A 2oev_A 2r05_A 2r02_A 2r03_A 2oex_A 2ojq_A Length = 704

 Score = 51.1 bits (121), Expect = 1e-06
 Identities = 51/324 (15%), Positives = 99/324 (30%), Gaps = 32/324 (9%)

Query: 14  QKRIGEFNCELELKENELNSLSVSLNLKNKPSSAQEWINKCQAYQKELRLWKNLIEECYD 73
              +   N    +++   +++  S+  K++    Q  I       KEL        E  D
Sbjct: 399 NGVLASLNLPAAIEDVSGDTVPQSILTKSRSVIEQGGIQTVDQLIKELPELLQRNREILD 458

Query: 74  EVELR---EKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNS 130
           E       E+      R+  ++  Q          ++        +L    +   +VK  
Sbjct: 459 ESLRLLDEEEATDNDLRAKFKERWQRTPSNELYKPLRAEGTNFRTVLDKAVQADGQVKEC 518

Query: 131 LMLCETKLECEKKELELTQSSI----KELSMEFHSEEEKLELLQGKVRLHENEVESLEQK 186
                  +    K      ++I       +M+       L+ L   +   + E E LE  
Sbjct: 519 YQSHRDTIVLLCKPEPELNAAIPSANPAKTMQGSEVVNVLKSLLSNLDEVKKEREGLEND 578

Query: 187 LDSMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIPGK 246
           L S+       F     +   +NE    + EL       D+    +   ++E  K    K
Sbjct: 579 LKSVNFDMTSKFLTALAQDGVINEEALSVTEL-------DRVYGGLTTKVQESLK----K 627

Query: 247 KEELISKGKTIAECSKEVELKKNQLNLIQDKSSLFQTRTIVYLKELKEKETHFDSLKKGL 306
           +E L+     I    +E    K   N    +  +        LK L     +F  L   L
Sbjct: 628 QEGLLKN---IQVSHQEFSKMKQSNNEANLREEV--------LKNLATAYDNFVELVANL 676

Query: 307 EDRLQ---DLELKEREFEKRVKEF 327
           ++  +   +L      F+ +  + 
Sbjct: 677 KEGTKFYNELTEILVRFQNKCSDI 700

>2xs1_A Programmed cell death 6-interacting protein; protein transport-viral protein complex, cell cycle; 2.30A {Homo sapiens} PDB: 2xs8_A 2oev_A 2r05_A 2r02_A 2r03_A 2oex_A 2ojq_A Length = 704

 Score = 50.7 bits (120), Expect = 1e-06
 Identities = 42/298 (14%), Positives = 95/298 (31%), Gaps = 10/298 (3%)

Query: 55  QAYQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENE 114
                ++R    L       + L       +  ++ +        +S+    Q  I+  +
Sbjct: 385 NRSIAQMREATTLANGVLASLNLPAAIEDVSGDTVPQSILT----KSRSVIEQGGIQTVD 440

Query: 115 GLLKDKEKLYDEVKNSLMLCETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVR 174
            L+K+  +L    +  L      L+ E+      ++  KE      S E    L   +  
Sbjct: 441 QLIKELPELLQRNREILDESLRLLDEEEATDNDLRAKFKERWQRTPSNELYKPLRA-EGT 499

Query: 175 LHENEVESLEQKLDSMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPASKDKE----LR 230
                ++   Q    +++  + + D + L  +   E+   I   N     +  E    L+
Sbjct: 500 NFRTVLDKAVQADGQVKECYQSHRDTIVLLCKPEPELNAAIPSANPAKTMQGSEVVNVLK 559

Query: 231 FVQQSIEECSKEIPGKKEELISKGKTIAECSKEVELKKNQLNLIQDKSSLFQTRTIVYLK 290
            +  +++E  KE  G + +L S    +         +   +N      +           
Sbjct: 560 SLLSNLDEVKKEREGLENDLKSVNFDMTSKFLTALAQDGVINEEALSVTELDRVYGGLTT 619

Query: 291 ELKEKETHFDSLKKGLEDRLQDLELKEREFEKRVKEFELREKELDSIRKAVEDRSKNL 348
           +++E     + L K ++   Q+   K ++        E   K L +      +   NL
Sbjct: 620 KVQESLKKQEGLLKNIQVSHQEFS-KMKQSNNEANLREEVLKNLATAYDNFVELVANL 676

>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 Length = 147

 Score = 46.6 bits (110), Expect = 2e-06
 Identities = 32/144 (22%), Positives = 70/144 (48%)

Query: 52  NKCQAYQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIE 111
            + Q  ++EL   +  +     ++E  EK   E++R ++  E +    E K+   +  ++
Sbjct: 3   RRIQLVEEELDRAQERLATALQKLEEAEKAADESERGMKVIESRAQKDEEKMEIQEIQLK 62

Query: 112 ENEGLLKDKEKLYDEVKNSLMLCETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQG 171
           E + + +D ++ Y+EV   L++ E+ LE  ++  EL++    EL  E  +    L+ L+ 
Sbjct: 63  EAKHIAEDADRKYEEVARKLVIIESDLERAEERAELSEGKCAELEEELKTVTNNLKSLED 122

Query: 172 KVRLHENEVESLEQKLDSMRKQQK 195
           KV    ++   LE ++  ++K   
Sbjct: 123 KVEELLSKNYHLENEVARLKKLVG 146

>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 = 46.4 bits (110), Expect = 4e-05
 Identities = 37/282 (13%), Positives = 106/282 (37%), Gaps = 39/282 (13%)

Query: 94   KQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLMLCETKLECEKKELELTQSSIK 153
            + L  +  +  +    I+E E +  +   +    +++++            L     +I 
Sbjct: 1827 RNLDLENPQYIAPPVFIQEAEIMGNNLMAIPPSHRDAVV----------SSLVYIHQTIG 1876

Query: 154  ELSMEFHSEEEK---------LELLQGKVRLHENEVESLEQKLDSMRKQQKKYFDDVELK 204
            E ++     + +         L+ +   V L       + +K D + ++Q     ++ LK
Sbjct: 1877 EANIRLLKRQGRQNYVTPRHYLDFINQVVLL-------INEKRDQLEEEQLHL--NIGLK 1927

Query: 205  KRELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIPGKKEELISKGKTIAECSKEV 264
            K  L +    +++L    A K++EL    +   +  K++   ++    K K   E   ++
Sbjct: 1928 K--LRDTEAQVKDLQVSLAQKNRELDVKNEQANQKLKQMVQDQQAAEIKQKDARELQVQL 1985

Query: 265  ELKKNQLNLIQDKSSLFQTRTIVYL---KELKEKETHFDSLKKGLEDRLQDLELKEREFE 321
            +++  ++ + + K+     +        +E+++ E   + LK   ++ +  +   E+   
Sbjct: 1986 DVRNKEIAVQKVKAYADLEKAEPTGPLREEVEQLENAANELKLKQDEIVATITALEKSIA 2045

Query: 322  KRVKEFELREKELDSIRKAVEDRSKNLLLQVKIKDPENLTSS 363
               +E+    +E + I+           ++ K+     L  +
Sbjct: 2046 TYKEEYATLIRETEQIKTESS------KVKNKVDRSIALLDN 2081

>3na7_A HP0958; flagellar biogenesis, flagellum export, C4 Zn-ribbon, coiled post-transcriptional, gene regulation, chaperone; HET: EPE; 2.20A {Helicobacter pylori} Length = 256

 Score = 44.3 bits (104), Expect = 6e-05
 Identities = 21/174 (12%), Positives = 68/174 (39%), Gaps = 5/174 (2%)

Query: 55  QAYQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENE 114
               KE+   + LI E   +++          ++I   E++    + ++S  +  +++  
Sbjct: 14  SHLDKEIDSLEPLIREKRKDLDKALNDKEAKNKAILNLEEEKLALKLQVSKNEQTLQDTN 73

Query: 115 GLLKDKEKLYDEVKNSLMLCETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVR 174
             +   +K   E+K+     E +L     E ++ +    + + E  + + +++    K  
Sbjct: 74  AKIASIQKKMSEIKS-----ERELRSLNIEEDIAKERSNQANREIENLQNEIKRKSEKQE 128

Query: 175 LHENEVESLEQKLDSMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPASKDKE 228
             + E+  LE+    +    +    +++  ++ + + ++ + E  +       E
Sbjct: 129 DLKKEMLELEKLALELESLVENEVKNIKETQQIIFKKKEDLVEKTEPKIYSFYE 182

>3na7_A HP0958; flagellar biogenesis, flagellum export, C4 Zn-ribbon, coiled post-transcriptional, gene regulation, chaperone; HET: EPE; 2.20A {Helicobacter pylori} Length = 256

 Score = 41.6 bits (97), Expect = 4e-04
 Identities = 20/159 (12%), Positives = 59/159 (37%), Gaps = 2/159 (1%)

Query: 163 EEKLELLQGKVRLHENEVESLEQKLDSMRKQQKKYFDDVELKKRELNEIRKYIEELN--Q 220
           E  +   +  +    N+ E+  + + ++ +++      V   ++ L +    I  +    
Sbjct: 24  EPLIREKRKDLDKALNDKEAKNKAILNLEEEKLALKLQVSKNEQTLQDTNAKIASIQKKM 83

Query: 221 DPASKDKELRFVQQSIEECSKEIPGKKEELISKGKTIAECSKEVELKKNQLNLIQDKSSL 280
                ++ELR +    +   +       E+ +    I   S++ E  K ++  ++  +  
Sbjct: 84  SEIKSERELRSLNIEEDIAKERSNQANREIENLQNEIKRKSEKQEDLKKEMLELEKLALE 143

Query: 281 FQTRTIVYLKELKEKETHFDSLKKGLEDRLQDLELKERE 319
            ++     +K +KE +      K+ L ++ +       E
Sbjct: 144 LESLVENEVKNIKETQQIIFKKKEDLVEKTEPKIYSFYE 182

>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 = 45.4 bits (108), Expect = 6e-05
 Identities = 23/217 (10%), Positives = 60/217 (27%), Gaps = 24/217 (11%)

Query: 4    WRVEKIMGLGQKRIGEFNCELELKENELNSLSVSLNLKNKPSSAQEWINKCQAYQKELRL 63
                + +   +        +L L + E       L      S+        Q + + LR+
Sbjct: 817  PPKGQEVSELEAIYNSLQTKLRLIKREPFVAPAGLTPNEIDSTWSALEKAEQEHAEALRI 876

Query: 64   WKNLIEECYDEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKL 123
                      E++ ++K     Q+     +K   +  +K   +     E    +   +  
Sbjct: 877  ----------ELKRQKKIAVLLQKYNRILKKLENWATTKSVYLG--SNETGDSITAVQAK 924

Query: 124  YDEVKNSLMLCETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESL 183
               ++            E +      S + +L+         +  L       E +    
Sbjct: 925  LKNLEA---FDGECQSLEGQSNSDLLSILAQLT---ELNYNGVPELT------ERKDTFF 972

Query: 184  EQKLDSMRKQQKKYFDDVELKKRELNEIRKYIEELNQ 220
             Q+   ++   + Y + +  +   L +I       + 
Sbjct: 973  AQQWTGVKSSAETYKNTLLAELERLQKIEDLHHHHHH 1009

>4dvy_P Cytotoxicity-associated immunodominant antigen; oncoprotein; 3.30A {Helicobacter pylori} Length = 877

 Score = 45.3 bits (106), Expect = 7e-05
 Identities = 57/271 (21%), Positives = 105/271 (38%), Gaps = 32/271 (11%)

Query: 40  LKNKPSSAQEWINKCQAYQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQLAFK 99
           +K+  SS +E   K   + K +   K+     YDEV+  +K + ++ R  E  EK++  K
Sbjct: 579 IKDFLSSNKELAGKALNFNKAVAEAKS--TGNYDEVKKAQKDLEKSLRKREHLEKEVEKK 636

Query: 100 ESKISSMQTLIEENEGLLKDKEKLY-----------------DEVKNSLMLCETKLECEK 142
               S  +  +E        K++++                   +K        KLE   
Sbjct: 637 LESKSGNKNKMEAKAQANSQKDEIFALINKEANRDARAIAYTQNLKGIKRELSDKLEKIS 696

Query: 143 KELELTQSSIKELS----MEFHSEEEKLELLQGKVR------LHENEVESLEQKLDSMRK 192
           K+L+    S  E       +F   EE L+ L+G V+         ++VE+L   L+  + 
Sbjct: 697 KDLKDFSKSFDEFKNGKNKDFSKAEETLKALKGSVKDLGINPEWISKVENLNAALNEFKN 756

Query: 193 QQKKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIPGKKEELIS 252
            + K F  V   K +L    K +  +NQ    K   L   Q      +     + E++++
Sbjct: 757 GKNKDFSKVTQAKSDLENSVKDV-IINQKVTDKVDNLN--QAVSVAKAMGDFSRVEQVLA 813

Query: 253 KGKTIAECSKEVELKKNQLNLIQDKSSLFQT 283
             K  ++     + +KN+       S L+Q+
Sbjct: 814 DLKNFSKEQLAQQAQKNEDFNTGKNSELYQS 844

>3iyd_F RNA polymerase sigma factor RPOD; transcription, initiation, class I, activator, RNA polymeras holoenzyme, sigma70, open complex, CAP, CRP; HET: DNA CMP; 19.80A {Escherichia coli k-12} Length = 613

 Score = 44.2 bits (104), Expect = 1e-04
 Identities = 36/287 (12%), Positives = 101/287 (35%), Gaps = 19/287 (6%)

Query: 78  REKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLMLCETK 137
           RE ++  A+R  +   +          ++  L+E+   +  ++ +L D +   +     +
Sbjct: 113 REGEIDIAKRIEDGINQVQCSVAEYPEAITYLLEQYNRVEAEEARLSDLITGFVDPNAEE 172

Query: 138 LECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLEQKLDSMRKQQKKY 197
                     ++ S ++L  +   +EE  +          +   + E K   +R Q    
Sbjct: 173 DLAPTATHVGSELSQEDLDDDEDEDEEDGDDDSADDDNSIDPELARE-KFAELRAQYVVT 231

Query: 198 FDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIPGKKEELISKGKTI 257
            D ++ K R     ++ I +L    +   K+ R V +  +     +    + + ++ + I
Sbjct: 232 RDTIKAKGRSHATAQEEILKL----SEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLI 287

Query: 258 AECSKEV----------ELKKNQLNLIQDKSSLFQTRTIVYLKELKEKETHFDSLKKGLE 307
            +   E               N+ +     +++   +   + ++L +         + L+
Sbjct: 288 MKLCVEQCKMPKKNFITLFTGNETSDTWFNAAIAMNK--PWSEKLHDVSEEVHRALQKLQ 345

Query: 308 DRLQDLELKEREFEKRVKEFELREKELDSIRKAVEDRSKNLLLQVKI 354
              ++  L   + +   +   + E +    +K + +   NL L + I
Sbjct: 346 QIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVE--ANLRLVISI 390

>1cii_A Colicin IA; bacteriocin, ION channel formation, transmembrane protein; 3.00A {Escherichia coli} SCOP: f.1.1.1 h.4.3.1 Length = 602

 Score = 43.5 bits (101), Expect = 2e-04
 Identities = 36/315 (11%), Positives = 91/315 (28%), Gaps = 1/315 (0%)

Query: 40  LKNKPSSAQEWINKCQAYQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQLAFK 99
                +  +E  NK     K L       E+  + ++       +A     ++ + L  +
Sbjct: 59  KNTLSAQQKENENKRTEAGKRLSAAIAAREKDENTLKTLRAGNADAADITRQEFRLLQAE 118

Query: 100 ESKISSMQTLIEENEGLLKDKEKLYDEVKNSLMLCETKLECEKKELELTQSSIKELSMEF 159
             +      +   +   L  + ++     +SL +   +     ++ E  Q   +    + 
Sbjct: 119 LREYGFRTEIAGYDALRLHTESRMLFADADSLRISPREARSLIEQAEKRQKDAQNADKKA 178

Query: 160 HSEEEKLELLQGKVRLHENEVE-SLEQKLDSMRKQQKKYFDDVELKKRELNEIRKYIEEL 218
                + E  +G +    +E+E +    L  +  QQ +         R ++E R  +  +
Sbjct: 179 ADMLAEYERRKGILDTRLSELEKNGGAALAVLDAQQARLLGQQTRNDRAISEARNKLSSV 238

Query: 219 NQDPASKDKELRFVQQSIEECSKEIPGKKEELISKGKTIAECSKEVELKKNQLNLIQDKS 278
            +   +    L   +Q + +      GK      K    +  +  + +  +       K 
Sbjct: 239 TESLNTARNALTRAEQQLTQQKNTPDGKTIVSPEKFPGRSSTNDSIVVSGDPRFAGTIKI 298

Query: 279 SLFQTRTIVYLKELKEKETHFDSLKKGLEDRLQDLELKEREFEKRVKEFELREKELDSIR 338
           +                 +  D  +  L DR   +       +K          +L    
Sbjct: 299 TTSAVIDNRANLNYLLSHSGLDYKRNILNDRNPVVTEDVEGDKKIYNAEVAEWDKLRQRL 358

Query: 339 KAVEDRSKNLLLQVK 353
               ++  +    V 
Sbjct: 359 LDARNKITSAESAVN 373

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	707
1gcc_A	63	Ethylene responsive element binding factor 1; tran	99.88
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	99.49
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	99.32
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	98.2
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	97.78
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	97.75
2efr_A	155	General control protein GCN4 and tropomyosin 1 Al;	97.72
2efr_A	155	General control protein GCN4 and tropomyosin 1 Al;	97.68
2v71_A	189	Nuclear distribution protein NUDE-like 1; developm	97.66
3o0z_A	168	RHO-associated protein kinase 1; coiled-coil, tran	97.39
3o0z_A	168	RHO-associated protein kinase 1; coiled-coil, tran	97.31
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	96.92
4gkw_A	167	Spindle assembly abnormal protein 6; double helix,	96.71
4gkw_A	167	Spindle assembly abnormal protein 6; double helix,	96.61
2fxo_A	129	Myosin heavy chain, cardiac muscle beta isoform; c	96.43
3u59_A	101	Tropomyosin beta chain; muscle contraction, actin,	96.22
2b9c_A	147	Striated-muscle alpha tropomyosin; alpha-helix, co	95.96
2ocy_A	154	RAB guanine nucleotide exchange factor SEC2; RAB,	95.2
2xzr_A	114	Immunoglobulin-binding protein EIBD; cell adhesion	94.21
3ol1_A	119	Vimentin; structural genomics, PSI-2, protein stru	94.17
3tnu_B	129	Keratin, type II cytoskeletal 5; coiled-coil, stru	93.8
3tnu_A	131	Keratin, type I cytoskeletal 14; coiled-coil, stru	93.6
1deq_A	390	Fibrinogen (alpha chain); coiled-coil, blood clott	93.41
2eqb_B	97	RAB guanine nucleotide exchange factor SEC2; coile	93.18
3ol1_A	119	Vimentin; structural genomics, PSI-2, protein stru	92.93
3ghg_A	562	Fibrinogen alpha chain; triple-stranded coiled coi	92.7
2v4h_A	110	NF-kappa-B essential modulator; transcription, met	92.53
3q8t_A	96	Beclin-1; autophagy, ATG14L uvrag, apoptosis; 1.90	92.12
3tnu_B	129	Keratin, type II cytoskeletal 5; coiled-coil, stru	91.8
3tnu_A	131	Keratin, type I cytoskeletal 14; coiled-coil, stru	91.7
2e7s_A	135	RAB guanine nucleotide exchange factor SEC2; coile	90.75
2v66_B	111	Nuclear distribution protein NUDE-like 1; structur	90.73
2v4h_A	110	NF-kappa-B essential modulator; transcription, met	90.62
2e7s_A	135	RAB guanine nucleotide exchange factor SEC2; coile	90.08
2jee_A	81	YIIU; FTSZ, septum, coiled-coil, cell division, ce	90.04
3ghg_A	562	Fibrinogen alpha chain; triple-stranded coiled coi	89.56
1l8d_A	112	DNA double-strand break repair RAD50 ATPase; zinc	88.79
3mq7_A	121	Bone marrow stromal antigen 2; HIV, antiviral prot	88.7
3igm_B	77	PF14_0633 protein; AP2 domain, specific transcript	88.49
3mq7_A	121	Bone marrow stromal antigen 2; HIV, antiviral prot	88.16
1m1j_B	464	Fibrinogen beta chain; coiled coils, disulfide rin	87.7
2no2_A	107	HIP-I, huntingtin-interacting protein 1; clathrin	86.83
3l4q_C	170	Phosphatidylinositol 3-kinase regulatory subunit b	85.83
1m1j_B	464	Fibrinogen beta chain; coiled coils, disulfide rin	85.76
3jsv_C	94	NF-kappa-B essential modulator; ubiquitin, coiled-	85.67
3s4r_A	93	Vimentin; alpha-helix, cytoskeleton, intermediate	84.95
1m1j_A	491	Fibrinogen alpha subunit; coiled coils, disulfide	83.49
1sjj_A	863	Actinin; 3-helix bundle, calponin homology domain,	83.41
3l4q_C	170	Phosphatidylinositol 3-kinase regulatory subunit b	83.36
3kbt_A	326	Beta-I spectrin, spectrin beta chain, erythrocyte;	82.16
2i1j_A	575	Moesin; FERM, coiled-coil, C-ermad, ERM, radixin,	81.91
3a7p_A	152	Autophagy protein 16; coiled-coil, coiled coil, cy	80.94
3mq9_A	471	Bone marrow stromal antigen 2 fused to maltose-BI	80.39

>1gcc_A Ethylene responsive element binding factor 1; transcription factor, protein-DNA complex, ethylene inducible; HET: DNA; NMR {Arabidopsis thaliana} SCOP: d.10.1.2 PDB: 2gcc_A 3gcc_A

Probab=99.88  E-value=1.2e-23  Score=166.62  Aligned_cols=61  Identities=75%  Similarity=1.300  Sum_probs=57.7

Q ss_pred             cceeeeEcCCCceEEEEecCCC-CcccccCCCCcHHHHHHHHHHHHHHccCCCCCCCCCCcc
Q 005229          638 HFRGVRQRPWGKWAAEIRDPKK-AARIWLGTFDTAEAAALAYDEAALRFKGRKAKLNFPERV  698 (707)
Q Consensus       638 ~~rGV~~~~~g~w~a~i~~~~~-~~~~~lG~f~t~e~Aa~ayd~aa~~~~g~~~~~nfp~~~  698 (707)
                      +||||++++||||+|+|+++.+ |+++|||||+|+|+||+|||.||+.++|.++.+|||.++
T Consensus         2 ~yrGV~~r~~gkw~A~I~~~~~~g~r~~LGtf~T~eeAA~AyD~Aa~~~~G~~a~~NFp~~~   63 (63)
T 1gcc_A            2 HYRGVRQRPWGKFAAEIRDPAKNGARVWLGTFETAEDAALAYDRAAFRMRGSRALLNFPLRV   63 (63)
T ss_dssp             CCTTEEEETTTEEEEEEEETTTTSEEEEEEEESSHHHHHHHHHHHHHHHHSSCCCCSSCTTC
T ss_pred             CcccEeeCCCCcEEEEEccccCCCeEEEeeeCCCHHHHHHHHHHHHHHhcCcccccCCCCcC
Confidence            6999998899999999999974 789999999999999999999999999999999999874

>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1 PDB: 2tma_A 2w49_A 2w4u_A

Probab=99.49  E-value=1e-09  Score=112.47  Aligned_cols=42  Identities=10%  Similarity=0.073  Sum_probs=15.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229           54 CQAYQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQ   95 (707)
Q Consensus        54 ~~~~~~el~~l~~~i~e~~~e~~~~~~ei~~le~~i~e~~~e   95 (707)
                      +..++.++..+...+..+..++..+...+..++..+......
T Consensus         8 ~~~l~~~~~~~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~   49 (284)
T 1c1g_A            8 MQMLKLDKENALDRADEAEADKKAAEDRSKQLEDELVSLQKK   49 (284)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333333333333333333333333333333

>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=99.32  E-value=1.3e-12  Score=161.12  Aligned_cols=81  Identities=14%  Similarity=0.092  Sum_probs=33.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH
Q 005229           53 KCQAYQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLM  132 (707)
Q Consensus        53 ~~~~~~~el~~l~~~i~e~~~e~~~~~~ei~~le~~i~e~~~el~ele~ei~~l~~~i~e~~~~l~~~e~e~~~l~~ele  132 (707)
                      ++..++.++..++..+..++..+..++.++..++.++..+..++......+..+...+..+...+..++..+..++.+++
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            33444444444444444444444444444444444444444443333333333333333333333333333333333333


Q ss_pred             H
Q 005229          133 L  133 (707)
Q Consensus       133 ~  133 (707)
                      .
T Consensus       938 e  938 (1184)
T 1i84_S          938 E  938 (1184)
T ss_dssp             H
T ss_pred             H
Confidence            3

>3na7_A HP0958; flagellar biogenesis, flagellum export, C4 Zn-ribbon, coiled post-transcriptional, gene regulation, chaperone; HET: EPE; 2.20A {Helicobacter pylori}

Probab=98.20  E-value=9.8e-05  Score=75.31  Aligned_cols=24  Identities=17%  Similarity=0.219  Sum_probs=8.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q 005229          194 QKKYFDDVELKKRELNEIRKYIEE  217 (707)
Q Consensus       194 i~el~~ele~k~~e~~e~~~ei~~  217 (707)
                      ++.+..+++....++..++.++..
T Consensus        92 ~~aL~kEie~~~~~i~~lE~eile  115 (256)
T 3na7_A           92 LRSLNIEEDIAKERSNQANREIEN  115 (256)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333333333333

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=97.78  E-value=0.0038  Score=82.56  Aligned_cols=72  Identities=13%  Similarity=0.162  Sum_probs=37.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChhhHHHhHHHHHHH
Q 005229          164 EKLELLQGKVRLHENEVESLEQKLDSMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQS  235 (707)
Q Consensus       164 ~~l~~le~el~~~~~eL~~~e~el~~~~~ei~el~~ele~k~~e~~e~~~ei~~l~~eie~~~~el~~~~~~  235 (707)
                      .++..++.++...+.+|..++.++.+++..+..++.+.+....+...++.+++..+.+++....-+..+..+
T Consensus      2014 ~~l~~ae~~l~~~~~~L~~~~~~L~~le~~l~~L~~~~~~~~~ek~~L~~e~~~~~~kl~rA~~Li~gL~~E 2085 (3245)
T 3vkg_A         2014 EEVEQLENAANELKLKQDEIVATITALEKSIATYKEEYATLIRETEQIKTESSKVKNKVDRSIALLDNLNSE 2085 (3245)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Confidence            445555555555555555555555555555555555555555555555555544444444444444444333

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=97.75  E-value=0.0061  Score=80.67  Aligned_cols=88  Identities=13%  Similarity=0.124  Sum_probs=44.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChhhHHHhHHHHHHHHHHHhhhchhhHH
Q 005229          169 LQGKVRLHENEVESLEQKLDSMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQSIEECSKEIPGKKE  248 (707)
Q Consensus       169 le~el~~~~~eL~~~e~el~~~~~ei~el~~ele~k~~e~~e~~~ei~~l~~eie~~~~el~~~~~~le~l~~El~~l~~  248 (707)
                      +++++..++.++...+.++...+.++.+++..+..++.+++....+.+.++.+++..+..++.+++-+..|..|.....+
T Consensus      2012 kr~~l~~ae~~l~~~~~~L~~~~~~L~~le~~l~~L~~~~~~~~~ek~~L~~e~~~~~~kl~rA~~Li~gL~~Ek~RW~~ 2091 (3245)
T 3vkg_A         2012 LREEVEQLENAANELKLKQDEIVATITALEKSIATYKEEYATLIRETEQIKTESSKVKNKVDRSIALLDNLNSERGRWEQ 2091 (3245)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccccHHH
Confidence            34445555555555555555555555555555555555555555555555555555555555555555555555555544


Q ss_pred             hhhhhhhh
Q 005229          249 ELISKGKT  256 (707)
Q Consensus       249 Ele~l~~~  256 (707)
                      .++.++.+
T Consensus      2092 ~~~~l~~~ 2099 (3245)
T 3vkg_A         2092 QSENFNTQ 2099 (3245)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            44444443

>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=97.72  E-value=0.02  Score=52.90  Aligned_cols=29  Identities=14%  Similarity=0.207  Sum_probs=10.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229          166 LELLQGKVRLHENEVESLEQKLDSMRKQQ  194 (707)
Q Consensus       166 l~~le~el~~~~~eL~~~e~el~~~~~ei  194 (707)
                      +..++..++.++.+|...+.....+..++
T Consensus       100 v~kLEk~id~lEd~L~~~Kek~~~i~~eL  128 (155)
T 2efr_A          100 VTKLEKSIDDLEDELYAQKLKYKAISEEM  128 (155)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333333333333

>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=97.68  E-value=0.034  Score=51.39  Aligned_cols=105  Identities=21%  Similarity=0.234  Sum_probs=47.4

Q ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229          114 EGLLKDKEKLYDEVKNSLMLCETKLECEKKELELTQSSIKELSMEFHSEEEKLELLQGKVRLHENEVESLEQKLDSMRKQ  193 (707)
Q Consensus       114 ~~~l~~~e~e~~~l~~ele~le~el~~~~~Ele~~e~~i~~l~~ele~~e~~l~~le~el~~~~~eL~~~e~el~~~~~e  193 (707)
                      +..+..++.++..+...+..++..-......-+..+.+|..+...+...+.+....+..+..++..|..++.++..-...
T Consensus        41 E~k~~eLEeeL~~v~~nlKsLE~seekasqrEd~yEeqIk~L~~kLKEAE~RAE~AERsv~kLEk~id~lEd~L~~~Kek  120 (155)
T 2efr_A           41 EGKSAELEEELKTVTNNLKSLEAQAEKYSQKEDKYEEEIKVLSDKLKEAETRAEFAERSVTKLEKSIDDLEDELYAQKLK  120 (155)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhhccchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333344444444444444444444444444444444444445555555555555555555555554444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229          194 QKKYFDDVELKKRELNEIRKYIEEL  218 (707)
Q Consensus       194 i~el~~ele~k~~e~~e~~~ei~~l  218 (707)
                      +..+..++...-.++..+...+..+
T Consensus       121 ~~~i~~eLd~tl~el~~~~~~~~~~  145 (155)
T 2efr_A          121 YKAISEEMKQLEDKVEELLSKNYHL  145 (155)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhcccchHHH
Confidence            4444444444444444443333333

>2v71_A Nuclear distribution protein NUDE-like 1; developmental protein, nuclear protein, neurogenesis, cytosk LIS1 binding, differentiation; 2.24A {Rattus norvegicus}

Probab=97.66  E-value=0.0075  Score=57.48  Aligned_cols=18  Identities=6%  Similarity=-0.106  Sum_probs=6.5

Q ss_pred             HHHHHHhHHHHHHHHHHH
Q 005229           96 LAFKESKISSMQTLIEEN  113 (707)
Q Consensus        96 l~ele~ei~~l~~~i~e~  113 (707)
                      ...+...+..++..+.++
T Consensus        19 ~~~~~q~~~~le~El~EF   36 (189)
T 2v71_A           19 SMKYKQSFQEARDELVEF   36 (189)
T ss_dssp             HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            333333333333333333

>3o0z_A RHO-associated protein kinase 1; coiled-coil, transferase; HET: MSE; 2.33A {Homo sapiens}

Probab=97.39  E-value=0.067  Score=49.72  Aligned_cols=16  Identities=31%  Similarity=0.347  Sum_probs=6.2

Q ss_pred             HHHHHHHHHHHhhhch
Q 005229          229 LRFVQQSIEECSKEIP  244 (707)
Q Consensus       229 l~~~~~~le~l~~El~  244 (707)
                      +..++.++++=..+|.
T Consensus       145 LKalQ~~~eqE~~~H~  160 (168)
T 3o0z_A          145 LKSLQQRLEQEVNEHK  160 (168)
T ss_dssp             HHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            3333444443333333

>3o0z_A RHO-associated protein kinase 1; coiled-coil, transferase; HET: MSE; 2.33A {Homo sapiens}

Probab=97.31  E-value=0.042  Score=51.05  Aligned_cols=50  Identities=18%  Similarity=0.109  Sum_probs=19.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Q 005229           63 LWKNLIEECYDEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEE  112 (707)
Q Consensus        63 ~l~~~i~e~~~e~~~~~~ei~~le~~i~e~~~el~ele~ei~~l~~~i~e  112 (707)
                      .++.++.+++..++.-..-...+.+...++...+..++..+.+++..+..
T Consensus        10 ~LekQL~E~n~kLk~EsE~~~rlkK~~tEl~k~~~~~E~~~rELq~~~~~   59 (168)
T 3o0z_A           10 QLQKQLEEANDLLRTESDTAVRLRKSHTEMSKSISQLESLNRELQERNRI   59 (168)
T ss_dssp             CTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33334444444433333333333333333333333333333333333333

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus}

Probab=96.92  E-value=0.016  Score=70.45  Aligned_cols=34  Identities=18%  Similarity=0.175  Sum_probs=14.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229          175 LHENEVESLEQKLDSMRKQQKKYFDDVELKKREL  208 (707)
Q Consensus       175 ~~~~eL~~~e~el~~~~~ei~el~~ele~k~~e~  208 (707)
                      .++.++..++.++..+++++..+.++.+.+++.+
T Consensus       981 ~~~~~v~~L~~e~~~l~~~~~~~~ke~~~lee~~ 1014 (1080)
T 2dfs_A          981 NATNRVLSLQEEIAKLRKELHQTQTEKKTIEEWA 1014 (1080)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444444444444444444444444443333

>4gkw_A Spindle assembly abnormal protein 6; double helix, SAS-5, centriole, structural protein; 3.30A {Caenorhabditis elegans}

Probab=96.71  E-value=0.27  Score=42.97  Aligned_cols=56  Identities=13%  Similarity=0.130  Sum_probs=27.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChhhHHHhHHHHHH
Q 005229          179 EVESLEQKLDSMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPASKDKELRFVQQ  234 (707)
Q Consensus       179 eL~~~e~el~~~~~ei~el~~ele~k~~e~~e~~~ei~~l~~eie~~~~el~~~~~  234 (707)
                      +|.+++..+.+.+.-++.++..+-.+++++..-..+..+...-++.+.-+-+.+.+
T Consensus        99 KLrELEADLKEKDsMVe~LT~TiG~LrKELEdEklK~~E~MdSFE~LkvENE~vke  154 (167)
T 4gkw_A           99 KLGELEADLKEKDSMVESLTETIGILRKELENEKLKAAENMDSFEKLSMENENLKE  154 (167)
T ss_dssp             HTHHHHHTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhHHH
Confidence            34444445555555555555555555555555555555444444444333333333

>4gkw_A Spindle assembly abnormal protein 6; double helix, SAS-5, centriole, structural protein; 3.30A {Caenorhabditis elegans}

Probab=96.61  E-value=0.32  Score=42.50  Aligned_cols=15  Identities=13%  Similarity=0.111  Sum_probs=6.0

Q ss_pred             HHHHHHHHHHHHHHH
Q 005229          166 LELLQGKVRLHENEV  180 (707)
Q Consensus       166 l~~le~el~~~~~eL  180 (707)
                      +..++..++.....|
T Consensus        69 ~~~~QRn~~K~~~~L   83 (167)
T 4gkw_A           69 LGTAQRNLEKADQLL   83 (167)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHhHHHHHHHH
Confidence            334444444433333

>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=96.43  E-value=0.41  Score=42.94  Aligned_cols=42  Identities=14%  Similarity=0.298  Sum_probs=17.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229          176 HENEVESLEQKLDSMRKQQKKYFDDVELKKRELNEIRKYIEE  217 (707)
Q Consensus       176 ~~~eL~~~e~el~~~~~ei~el~~ele~k~~e~~e~~~ei~~  217 (707)
                      ++..|.++...+.........+......++.++.++...+..
T Consensus        81 Le~~l~el~~rleeeee~~~~L~~~kkkle~e~~~Lk~~led  122 (129)
T 2fxo_A           81 LEAKVKEMNKRLEDEEEMNAELTAKKRKLEDECSELKRDIDD  122 (129)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333334444444444444444444444444443

>3u59_A Tropomyosin beta chain; muscle contraction, actin, contractIle protein; 2.50A {Gallus gallus}

Probab=96.22  E-value=0.21  Score=42.88  Aligned_cols=79  Identities=14%  Similarity=0.114  Sum_probs=28.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 005229           73 DEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKDKEKLYDEVKNSLMLCETKLECEKKELELTQSS  151 (707)
Q Consensus        73 ~e~~~~~~ei~~le~~i~e~~~el~ele~ei~~l~~~i~e~~~~l~~~e~e~~~l~~ele~le~el~~~~~Ele~~e~~  151 (707)
                      .+......+...++.++..........+.++..+++.+..++..+...+..+......++..+........++..+..+
T Consensus        16 ~e~e~a~d~ae~~e~~~k~~e~~~~~~E~ei~sL~kKiq~lE~eld~~~e~l~~a~~kLe~~ek~~~~AE~evasLnRr   94 (101)
T 3u59_A           16 LDKENAIDRAEQAEADKKQAEDRCKQLEEEQQGLQKKLKGTEDEVEKYSESVKEAQEKLEQAEKKATDAEAEVASLNRR   94 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333333333333333333333333333333333333333333333333333333333333333

>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=95.96  E-value=0.13  Score=47.29  Aligned_cols=41  Identities=32%  Similarity=0.533  Sum_probs=17.1

Q ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 005229          118 KDKEKLYDEVKNSLMLCETKLECEKKELELTQSSIKELSME  158 (707)
Q Consensus       118 ~~~e~e~~~l~~ele~le~el~~~~~Ele~~e~~i~~l~~e  158 (707)
                      +.....+..+.-.+..++.+++......+..+..+..+..+
T Consensus        69 eeadrKyeE~~RKl~~~E~dLeraeeRae~aE~k~~eLEee  109 (147)
T 2b9c_A           69 EDADRKYEEVARKLVIIESDLERAEERAELSEGKCAELEEE  109 (147)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33334444444444444444444444444444443333333

>2ocy_A RAB guanine nucleotide exchange factor SEC2; RAB, GEF, guanine exchange factor, coiled-coil, endocytosis/exocytosis complex; 3.30A {Saccharomyces cerevisiae} SCOP: h.1.33.1

Probab=95.20  E-value=1.9  Score=39.60  Aligned_cols=26  Identities=15%  Similarity=0.303  Sum_probs=10.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhc
Q 005229          195 KKYFDDVELKKRELNEIRKYIEELNQ  220 (707)
Q Consensus       195 ~el~~ele~k~~e~~e~~~ei~~l~~  220 (707)
                      +.+...+..++..+..++.++..+..
T Consensus       118 ~~L~~ql~e~~~~l~~lq~ql~~LK~  143 (154)
T 2ocy_A          118 KRLTEQLREKDTLLDTLTLQLKNLKK  143 (154)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333334444433333

>2xzr_A Immunoglobulin-binding protein EIBD; cell adhesion, trimeric autotransporter adhesin, TAA; 2.80A {Enterobacteria phage p-eibd}

Probab=94.21  E-value=2  Score=35.46  Aligned_cols=55  Identities=16%  Similarity=0.268  Sum_probs=32.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChhhHHH
Q 005229          173 VRLHENEVESLEQKLDSMRKQQKKYFDDVELKKRELNEIRKYIEELNQDPASKDK  227 (707)
Q Consensus       173 l~~~~~eL~~~e~el~~~~~ei~el~~ele~k~~e~~e~~~ei~~l~~eie~~~~  227 (707)
                      +......+......++.++.+|++..++++....+..++-.++.-+++++.++.+
T Consensus        50 iaanTr~lQqh~aRlnsqQrQI~ENhkEMKq~aaqsaaLlsk~yh~ene~ar~kk  104 (114)
T 2xzr_A           50 IAANTRTLQQHSARLDSQQRQINENHKEMKQIEDKIEEILSKIYHIENEIARIKK  104 (114)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            3344444445555556666666666666666666667766666666666655443

>3tnu_B Keratin, type II cytoskeletal 5; coiled-coil, structural support, cytosolic protein; 3.00A {Homo sapiens}

Probab=93.80  E-value=1.6  Score=39.12  Aligned_cols=14  Identities=14%  Similarity=0.188  Sum_probs=5.1

Q ss_pred             HHHHHHHHHHHHHH
Q 005229          173 VRLHENEVESLEQK  186 (707)
Q Consensus       173 l~~~~~eL~~~e~e  186 (707)
                      +..++.+|...+.+
T Consensus        84 i~~lE~eL~~~r~e   97 (129)
T 3tnu_B           84 LAELEEALQKAKQD   97 (129)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHhHHHHHHH
Confidence            33333333333333

>3tnu_A Keratin, type I cytoskeletal 14; coiled-coil, structural support, cytosolic protein; 3.00A {Homo sapiens}

Probab=93.60  E-value=1.3  Score=39.74  Aligned_cols=18  Identities=11%  Similarity=0.255  Sum_probs=6.7

Q ss_pred             HHHHHHHHHHHHHHHHHH
Q 005229          172 KVRLHENEVESLEQKLDS  189 (707)
Q Consensus       172 el~~~~~eL~~~e~el~~  189 (707)
                      .+..++.+|...+.++..
T Consensus        85 ~i~~lE~eL~~~r~em~~  102 (131)
T 3tnu_A           85 MIGSVEEQLAQLRCEMEQ  102 (131)
T ss_dssp             HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            333333333333333333

>2eqb_B RAB guanine nucleotide exchange factor SEC2; coiled coil, endocytosis/exocytosis complex; 2.70A {Saccharomyces cerevisiae} SCOP: h.1.33.1

Probab=93.18  E-value=2.9  Score=35.06  Aligned_cols=59  Identities=15%  Similarity=0.153  Sum_probs=33.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHH
Q 005229           61 LRLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENEGLLKD  119 (707)
Q Consensus        61 l~~l~~~i~e~~~e~~~~~~ei~~le~~i~e~~~el~ele~ei~~l~~~i~e~~~~l~~  119 (707)
                      ++.+...+..+..+......++..|..++.+-...-...+.....+..++++++..|-.
T Consensus         7 ~e~lre~l~~le~~~~~~~~e~~~L~~~l~eE~~~R~~aE~~~~~ie~ElEeLTasLFe   65 (97)
T 2eqb_B            7 YNQLKEDYNTLKRELSDRDDEVKRLREDIAKENELRTKAEEEADKLNKEVEDLTASLFD   65 (97)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44455555555555555555555566555555555555566666666666666655533

>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=92.70  E-value=2.7  Score=45.57  Aligned_cols=24  Identities=13%  Similarity=0.228  Sum_probs=9.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q 005229          178 NEVESLEQKLDSMRKQQKKYFDDV  201 (707)
Q Consensus       178 ~eL~~~e~el~~~~~ei~el~~el  201 (707)
                      ..|..++.-|..+..+|+.|+.+|
T Consensus       131 snIrvLQsnLedq~~kIQRLEvDI  154 (562)
T 3ghg_A          131 QHIQLLQKNVRAQLVDMKRLEVDI  154 (562)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333334444444444444443333

>2v4h_A NF-kappa-B essential modulator; transcription, metal-binding, NEMO - IKK gamma - NFKB pathwa darpin, transcription regulation; 2.9A {Mus musculus}

Probab=92.53  E-value=2.8  Score=35.84  Aligned_cols=38  Identities=5%  Similarity=0.102  Sum_probs=16.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Q 005229          103 ISSMQTLIEENEGLLKDKEKLYDEVKNSLMLCETKLEC  140 (707)
Q Consensus       103 i~~l~~~i~e~~~~l~~~e~e~~~l~~ele~le~el~~  140 (707)
                      |.-++..+.-+......-....+.+..+.+.+..++..
T Consensus        64 I~vLkaQv~IY~~DF~aERadREkl~~eKe~L~~ql~~  101 (110)
T 2v4h_A           64 VPVLKAQADIYKADFQAERHAREKLVEKKEYLQEQLEQ  101 (110)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHccchhhHHHHHhHHHHHHHHHHH
Confidence            44444444444444444444444444444444443333

>3q8t_A Beclin-1; autophagy, ATG14L uvrag, apoptosis; 1.90A {Rattus norvegicus}

Probab=92.12  E-value=4.8  Score=33.92  Aligned_cols=37  Identities=24%  Similarity=0.188  Sum_probs=13.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229           57 YQKELRLWKNLIEECYDEVELREKKVGEAQRSIEEQE   93 (707)
Q Consensus        57 ~~~el~~l~~~i~e~~~e~~~~~~ei~~le~~i~e~~   93 (707)
                      +..++..+...-..+..++..++++-..+..+|....
T Consensus         9 l~~eL~~l~~eE~~L~~eL~~lEke~~~l~~el~~le   45 (96)
T 3q8t_A            9 LQRELKELALEEERLIQELEDVEKNRKVVAENLEKVQ   45 (96)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            3333333333333333333333333333333333333

>3tnu_B Keratin, type II cytoskeletal 5; coiled-coil, structural support, cytosolic protein; 3.00A {Homo sapiens}

Probab=91.80  E-value=2.6  Score=37.67  Aligned_cols=74  Identities=19%  Similarity=0.218  Sum_probs=33.6

Q ss_pred             hhchhhHHhhhhhhhhHHHHHHHHHHHHHhhhHHHHhhhhhhhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229          241 KEIPGKKEELISKGKTIAECSKEVELKKNQLNLIQDKSSLFQTRTIVYLKELKEKETHFDSLKKGLEDRLQDLELKE  317 (707)
Q Consensus       241 ~El~~l~~Ele~l~~~l~e~~~~le~k~~ele~l~~~le~le~~~~~~~~~~~el~~~~~~le~~L~~~~~eL~~~e  317 (707)
                      ..+...+.|+.+++..+..+.-+++..+.....++..+...+.+   +..+++.....+..++..|.....++....
T Consensus        29 ~~l~~~k~Ei~elrr~iq~L~~el~~l~~~~~~LE~~l~e~e~~---~~~~l~~~q~~i~~lE~eL~~~r~e~~~ql  102 (129)
T 3tnu_B           29 DDLRNTKHEISEMNRMIQRLRAEIDNVKKQCANLQNAIADAEQR---GELALKDARNKLAELEEALQKAKQDMARLL  102 (129)
T ss_dssp             -----CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            33344444455555555555555555555555555555544444   334444444445555555554444444443

>3tnu_A Keratin, type I cytoskeletal 14; coiled-coil, structural support, cytosolic protein; 3.00A {Homo sapiens}

Probab=91.70  E-value=2.4  Score=37.99  Aligned_cols=75  Identities=15%  Similarity=0.190  Sum_probs=31.1

Q ss_pred             hhhchhhHHhhhhhhhhHHHHHHHHHHHHHhhhHHHHhhhhhhhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229          240 SKEIPGKKEELISKGKTIAECSKEVELKKNQLNLIQDKSSLFQTRTIVYLKELKEKETHFDSLKKGLEDRLQDLELKE  317 (707)
Q Consensus       240 ~~El~~l~~Ele~l~~~l~e~~~~le~k~~ele~l~~~le~le~~~~~~~~~~~el~~~~~~le~~L~~~~~eL~~~e  317 (707)
                      ...+...+.|+.+++..+..+.-+++..+.....++..+...+.+   +..+++.....+..++..|.....++....
T Consensus        30 ~~~l~~~k~Ei~elrr~iq~L~~el~~l~~~~~sLE~~l~e~e~~---~~~~l~~~q~~i~~lE~eL~~~r~em~~ql  104 (131)
T 3tnu_A           30 SELVQSGKSEISELRRTMQNLEIELQSQLSMKASLENSLEETKGR---YCMQLAQIQEMIGSVEEQLAQLRCEMEQQN  104 (131)
T ss_dssp             -----------CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333344444444455555555555555555555555555554444   334444444444555555554444444443

>2e7s_A RAB guanine nucleotide exchange factor SEC2; coiled coil, endocytosis/exocytosis complex; 3.00A {Saccharomyces cerevisiae} SCOP: h.1.33.1

Probab=90.75  E-value=1.7  Score=38.86  Aligned_cols=29  Identities=10%  Similarity=-0.040  Sum_probs=9.4

Q ss_pred             hHHHHHHHHHHHhhhchhhHHhhhhhhhh
Q 005229          228 ELRFVQQSIEECSKEIPGKKEELISKGKT  256 (707)
Q Consensus       228 el~~~~~~le~l~~El~~l~~Ele~l~~~  256 (707)
                      +...++.+.+.+..++...+.-++.++.+
T Consensus        97 ~~~~~e~r~~~L~~ql~e~e~ll~~lq~Q  125 (135)
T 2e7s_A           97 EKYAIEILNKRLTEQLREKDMLLDTLTLQ  125 (135)
T ss_dssp             HHHHHHHHHHHHHHTTTHHHHCC------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33334444444444444444333333333

>2v66_B Nuclear distribution protein NUDE-like 1; structural protein, developmental protein, structural protei phosphorylation, transport, microtubule; 2.10A {Homo sapiens}

Probab=90.73  E-value=7.6  Score=33.52  Aligned_cols=52  Identities=23%  Similarity=0.270  Sum_probs=32.2

Q ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhHHHHHHHHHH
Q 005229          289 LKELKEKETHFDSLKKGLEDRLQDLELKEREFEKRVKEFELREKELDSIRKA  340 (707)
Q Consensus       289 ~~~~~el~~~~~~le~~L~~~~~eL~~~e~~~~~~~~E~e~~e~~l~~~~~~  340 (707)
                      ...+.+|+..=+.++..-......|..++..+..++..--..+.++++.+.+
T Consensus        55 ~~~iReLEq~NDDLER~~R~t~~SLeD~E~k~n~aiErnalLE~El~EKe~L  106 (111)
T 2v66_B           55 HKYVRELEQANDDLERAKRATIVSLEDFEQRLNQAIERNAFLESELDEKESL  106 (111)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhchHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444444555666666666667777777777777766777777765544

>2v4h_A NF-kappa-B essential modulator; transcription, metal-binding, NEMO - IKK gamma - NFKB pathwa darpin, transcription regulation; 2.9A {Mus musculus}

Probab=90.62  E-value=4.1  Score=34.79  Aligned_cols=38  Identities=11%  Similarity=-0.005  Sum_probs=16.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHH
Q 005229          110 IEENEGLLKDKEKLYDEVKNSLMLCETKLECEKKELEL  147 (707)
Q Consensus       110 i~e~~~~l~~~e~e~~~l~~ele~le~el~~~~~Ele~  147 (707)
                      |.-++.++.-...+|..-+..-+.+..+++.+..++..
T Consensus        64 I~vLkaQv~IY~~DF~aERadREkl~~eKe~L~~ql~~  101 (110)
T 2v4h_A           64 VPVLKAQADIYKADFQAERHAREKLVEKKEYLQEQLEQ  101 (110)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHccchhhHHHHHhHHHHHHHHHHH
Confidence            44444444444444444333333333333333333333

>2e7s_A RAB guanine nucleotide exchange factor SEC2; coiled coil, endocytosis/exocytosis complex; 3.00A {Saccharomyces cerevisiae} SCOP: h.1.33.1

Probab=90.08  E-value=1  Score=40.32  Aligned_cols=11  Identities=36%  Similarity=0.377  Sum_probs=4.1

Q ss_pred             HHHHHHHHHHH
Q 005229          174 RLHENEVESLE  184 (707)
Q Consensus       174 ~~~~~eL~~~e  184 (707)
                      ..++.+|+++.
T Consensus        70 ~~ie~ElE~LT   80 (135)
T 2e7s_A           70 DKLNKEVEDLT   80 (135)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            33333333333

>2jee_A YIIU; FTSZ, septum, coiled-coil, cell division, cell cycle, hypothetical protein; 2.8A {Escherichia coli}

Probab=90.04  E-value=4.5  Score=32.78  Aligned_cols=10  Identities=10%  Similarity=0.202  Sum_probs=3.6

Q ss_pred             HHHHHHHHHH
Q 005229          136 TKLECEKKEL  145 (707)
Q Consensus       136 ~el~~~~~El  145 (707)
                      .++..+-+.|
T Consensus        13 ~KIq~avdtI   22 (81)
T 2jee_A           13 AKVQQAIDTI   22 (81)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            3333333333

>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=89.56  E-value=7.6  Score=42.15  Aligned_cols=26  Identities=19%  Similarity=0.419  Sum_probs=12.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHh
Q 005229          300 DSLKKGLEDRLQDLELKEREFEKRVK  325 (707)
Q Consensus       300 ~~le~~L~~~~~eL~~~e~~~~~~~~  325 (707)
                      ..|+..|+....+|..+|-.++.++.
T Consensus       134 rvLQsnLedq~~kIQRLEvDIdiqir  159 (562)
T 3ghg_A          134 QLLQKNVRAQLVDMKRLEVDIDIKIR  159 (562)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444555555555554433

>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=88.79  E-value=7.5  Score=33.43  Aligned_cols=34  Identities=12%  Similarity=0.138  Sum_probs=13.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229           62 RLWKNLIEECYDEVELREKKVGEAQRSIEEQEKQ   95 (707)
Q Consensus        62 ~~l~~~i~e~~~e~~~~~~ei~~le~~i~e~~~e   95 (707)
                      ..+...+.++..++..+...+..++..+..+...
T Consensus         6 ~~~~~~~~~~~~~l~~L~~~~~~l~~~i~~l~~~   39 (112)
T 1l8d_A            6 EELETKKTTIEEERNEITQRIGELKNKIGDLKTA   39 (112)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333344444444444444333333333333333

>3mq7_A Bone marrow stromal antigen 2; HIV, antiviral protein; 2.28A {Homo sapiens} PDB: 3mqc_A 3mqb_A 3mkx_A 3nwh_A 2xg7_A* 2x7a_A

Probab=88.70  E-value=4.4  Score=34.86  Aligned_cols=17  Identities=24%  Similarity=0.171  Sum_probs=8.6

Q ss_pred             HHHHHHhhhHhhHHHHH
Q 005229           19 EFNCELELKENELNSLS   35 (707)
Q Consensus        19 ~~~~eL~l~e~eL~~~~   35 (707)
                      +|.+-=.+++++|...+
T Consensus        22 ECrN~T~lLq~qLTqAQ   38 (121)
T 3mq7_A           22 EARNVTHLLQQELTEAQ   38 (121)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHH
Confidence            44444455555555554

>3igm_B PF14_0633 protein; AP2 domain, specific transcription FA protein-DNA complex, transcription-DNA complex; 2.20A {Plasmodium falciparum}

Probab=88.49  E-value=0.19  Score=39.85  Aligned_cols=45  Identities=18%  Similarity=0.259  Sum_probs=29.1

Q ss_pred             CCCccceee-eEcCCCceEEEEecCCCCcc--c---ccCCC--CcHHHHHHHHH
Q 005229          634 VSRMHFRGV-RQRPWGKWAAEIRDPKKAAR--I---WLGTF--DTAEAAALAYD  679 (707)
Q Consensus       634 ~~~s~~rGV-~~~~~g~w~a~i~~~~~~~~--~---~lG~f--~t~e~Aa~ayd  679 (707)
                      ..+|+|.|| |..+.+.|.|.-.++++.+.  .   +.| |  +.+..||-.|-
T Consensus         3 ~~~Sg~pGVsw~kR~~~WlA~W~e~g~rrsRtF~~k~yG-f~~e~Ak~~AIef~   55 (77)
T 3igm_B            3 HMSSGYPGVSWNKRMCAWLAFFYDGASRRSRTFHPKHFN-MDKEKARLAAVEFM   55 (77)
T ss_dssp             -CCSSSTTEEEETTTTEEEEEEEETTEEEEEEECCTTHH-HHHHHHHHHHHHHH
T ss_pred             CCCCCCCcEEeecCCceEEEEEecCCeEeeeeechhhcC-cCHHHHHHHHHHHH
Confidence            467999999 66688999999887754111  1   133 4  35666666654

>3mq7_A Bone marrow stromal antigen 2; HIV, antiviral protein; 2.28A {Homo sapiens} PDB: 3mqc_A 3mqb_A 3mkx_A 3nwh_A 2xg7_A* 2x7a_A

Probab=88.16  E-value=5.6  Score=34.21  Aligned_cols=30  Identities=20%  Similarity=0.316  Sum_probs=11.9

Q ss_pred             HHHHhcChhhHHHhHHHHHHHHHHHhhhch
Q 005229          215 IEELNQDPASKDKELRFVQQSIEECSKEIP  244 (707)
Q Consensus       215 i~~l~~eie~~~~el~~~~~~le~l~~El~  244 (707)
                      +++++.+|..+...+.++..+++++.+++.
T Consensus        73 vqeLqgEI~~Lnq~Lq~a~ae~erlr~~~~  102 (121)
T 3mq7_A           73 VEELEGEITTLNHKLQDASAEVERLRRENQ  102 (121)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhch
Confidence            333333333344444444444444433333

>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=87.70  E-value=17  Score=39.50  Aligned_cols=9  Identities=22%  Similarity=0.438  Sum_probs=5.3

Q ss_pred             ceeeeEcCC
Q 005229          639 FRGVRQRPW  647 (707)
Q Consensus       639 ~rGV~~~~~  647 (707)
                      ..||.+..|
T Consensus       436 ~~GI~W~~w  444 (464)
T 1m1j_B          436 DDGIVWMNW  444 (464)
T ss_dssp             CCBSEEHHH
T ss_pred             CCCeEeCCC
Confidence            467765554

>2no2_A HIP-I, huntingtin-interacting protein 1; clathrin light chain binding, HIP1 coiled-coil domain, endocytosis, clathrin SELF-assembly, cell adhesion; 2.80A {Homo sapiens}

Probab=86.83  E-value=14  Score=31.67  Aligned_cols=37  Identities=11%  Similarity=0.074  Sum_probs=19.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229           50 WINKCQAYQKELRLWKNLIEECYDEVELREKKVGEAQ   86 (707)
Q Consensus        50 ~~~~~~~~~~el~~l~~~i~e~~~e~~~~~~ei~~le   86 (707)
                      ++++..+..+.+......-.++...+..+..++..++
T Consensus         6 LLRK~aE~~KqL~~~~q~~~e~e~~k~eL~~~~~~~~   42 (107)
T 2no2_A            6 LLRKNAEVTKQVSMARQAQVDLEREKKELEDSLERIS   42 (107)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3445555555555555555555555555554444444

>3l4q_C Phosphatidylinositol 3-kinase regulatory subunit beta; PI3K, phosphoinositide-3-kinase, influenza virus, NS1; 2.30A {Bos taurus} PDB: 2v1y_B

Probab=85.83  E-value=22  Score=33.01  Aligned_cols=40  Identities=10%  Similarity=0.181  Sum_probs=14.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 005229           75 VELREKKVGEAQRSIEEQEKQLAFKESKISSMQTLIEENE  114 (707)
Q Consensus        75 ~~~~~~ei~~le~~i~e~~~el~ele~ei~~l~~~i~e~~  114 (707)
                      +..+.++.....++.+.+..+......+|.-.+.-|+.+.
T Consensus        19 L~e~h~qy~~ks~~yd~l~e~y~r~sqEiq~Kr~AieAF~   58 (170)
T 3l4q_C           19 LKVYHQQYQDKSREYDQLYEEYTRTSQELQMKRTAIEAFN   58 (170)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            3333333333333333333333333333333333333333

>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=85.76  E-value=28  Score=37.81  Aligned_cols=25  Identities=16%  Similarity=0.368  Sum_probs=11.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229          166 LELLQGKVRLHENEVESLEQKLDSM  190 (707)
Q Consensus       166 l~~le~el~~~~~eL~~~e~el~~~  190 (707)
                      +..++..++.+..+|..++..+..+
T Consensus       170 i~~L~~~~~~l~~ki~~l~~~~~~~  194 (464)
T 1m1j_B          170 LRVLRAVIDSLHKKIQKLENAIATQ  194 (464)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444444555555555554443

>3jsv_C NF-kappa-B essential modulator; ubiquitin, coiled-coil, cellular signaling, cytoplasm, isopeptide bond, nucleus, phosphoprotein, UBL conjugation; 2.70A {Mus musculus} PDB: 3f89_A 2zvo_B 2zvn_B

Probab=85.67  E-value=8.6  Score=31.94  Aligned_cols=64  Identities=5%  Similarity=0.114  Sum_probs=25.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH---HhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 005229           74 EVELREKKVGEAQRSIEEQEKQLAFKE---SKISSMQTLIEENEGLLKDKEKLYDEVKNSLMLCETK  137 (707)
Q Consensus        74 e~~~~~~ei~~le~~i~e~~~el~ele---~ei~~l~~~i~e~~~~l~~~e~e~~~l~~ele~le~e  137 (707)
                      .+...++-+...+.+|.+++..+...+   ..+..++..+.-+......-....+.+..+.+.+..+
T Consensus        10 ~L~~aEeaL~~kq~~id~lke~~~q~~~~~E~i~vLk~Qv~IY~~DF~aERadREkl~~eKe~L~~q   76 (94)
T 3jsv_C           10 QLQQAEEALVAKQELIDKLKEEAEQHKIVMETVPVLKAQADIYKADFQAERHAREKLVEKKEYLQEQ   76 (94)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSHHHHH
T ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Confidence            333333333334444444444433333   2333344444444444433333443333333333333

>3s4r_A Vimentin; alpha-helix, cytoskeleton, intermediate filament, structural; 2.45A {Homo sapiens} PDB: 3ssu_A

Probab=84.95  E-value=16  Score=30.51  Aligned_cols=29  Identities=3%  Similarity=-0.036  Sum_probs=13.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229           55 QAYQKELRLWKNLIEECYDEVELREKKVG   83 (707)
Q Consensus        55 ~~~~~el~~l~~~i~e~~~e~~~~~~ei~   83 (707)
                      ..+...+..+.+++.-++.+-..++.++.
T Consensus        12 q~LNdRlAsyIdKVR~LEqqN~~Le~~i~   40 (93)
T 3s4r_A           12 QELNDRFANLIDKVRFLEQQNKILLAELE   40 (93)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44455555555555544444444444433

>1m1j_A Fibrinogen alpha subunit; coiled coils, disulfide rings, fibrinogen, blood clotting; HET: NDG NAG; 2.70A {Gallus gallus} SCOP: h.1.8.1 PDB: 1ei3_A

Probab=83.49  E-value=31  Score=36.79  Aligned_cols=6  Identities=33%  Similarity=0.850  Sum_probs=0.0

Q ss_pred             hhhhHH
Q 005229          517 VPGLQC  522 (707)
Q Consensus       517 ~~~~i~  522 (707)
                      .||+-.
T Consensus       350 ~pd~~~  355 (491)
T 1m1j_A          350 LPDLES  355 (491)
T ss_dssp             ------
T ss_pred             CccHHH
Confidence            444433

>1sjj_A Actinin; 3-helix bundle, calponin homology domain, calmodulin-like domain, actin binding protein, contractIle protein; 20.00A {Gallus gallus} SCOP: i.15.1.1

Probab=83.41  E-value=76  Score=37.17  Aligned_cols=61  Identities=16%  Similarity=0.200  Sum_probs=30.3

Q ss_pred             hhhcccCcHHHHHHHHHHhhhCCCCCCCHHHHHHHHHHhhhcc---hhhHHHhhhCCccchhhhHHHHhh
Q 005229          460 MRVAVENSLEVLGFLHLLAAYRLAPAFDREELESLLCIVAQHR---QTPKLRRTLGFADKVPGLQCSTTA  526 (707)
Q Consensus       460 ~~~~~~~~l~a~~fl~~l~~fgi~~~f~~~el~~l~~~~~~~~---~~~~l~~~lgl~~k~~~~i~~li~  526 (707)
                      ++.++.+.++---|+.++..+. ......+.+...|..+....   ...+|...|.     ++-++.|++
T Consensus       770 ~D~d~dG~I~~~EF~~~~~~~~-~~~~~~~~l~~aF~~~~d~~G~Is~~El~~~l~-----~~~~~~l~~  833 (863)
T 1sjj_A          770 VDPNRMGVVTFQAFIDFMSRET-ADTDTADQVMASFKILAGDKNYITVDELRRELP-----PDQAEYCIA  833 (863)
T ss_dssp             HCTTSCSEEETTHHHHTHHHHS-TTCSSSHHHHHHHHGGGTSSSEEEHHHHHHHSC-----HHHHHHHHH
T ss_pred             hCCCCCCcCcHHHHHHHHHHHh-cCCCCHHHHHHHHHHHhCCCCcCcHHHHHHHCC-----HHHHHHHHH
Confidence            3444334444445555555442 22234456766666652211   1246666664     566666654

>3l4q_C Phosphatidylinositol 3-kinase regulatory subunit beta; PI3K, phosphoinositide-3-kinase, influenza virus, NS1; 2.30A {Bos taurus} PDB: 2v1y_B

Probab=83.36  E-value=29  Score=32.26  Aligned_cols=26  Identities=4%  Similarity=-0.089  Sum_probs=12.2

Q ss_pred             hhhhhhhhHHHHHHHHHHHHHhhhHH
Q 005229          249 ELISKGKTIAECSKEVELKKNQLNLI  274 (707)
Q Consensus       249 Ele~l~~~l~e~~~~le~k~~ele~l  274 (707)
                      |++.+.....-+..+|.++......+
T Consensus        90 E~~~l~~N~e~LksRL~~l~~sk~~L  115 (170)
T 3l4q_C           90 EMQRILLNSERLKSRIAEIHESRTKL  115 (170)
T ss_dssp             STTTTTHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44555555555554444444433333

>3kbt_A Beta-I spectrin, spectrin beta chain, erythrocyte; complex, spectrin, spectrin repeat, three helix bundle, ANKY binding, disease mutation, structural protein, ZU5 sandwich; 2.75A {Homo sapiens} PDB: 3kbu_A

Probab=82.16  E-value=46  Score=33.73  Aligned_cols=55  Identities=9%  Similarity=0.102  Sum_probs=24.5

Q ss_pred             HHHHHHhhhHhhHHHHHHHhhcCCCCC---chHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005229           19 EFNCELELKENELNSLSVSLNLKNKPS---SAQEWINKCQAYQKELRLWKNLIEECYD   73 (707)
Q Consensus        19 ~~~~eL~l~e~eL~~~~~el~~~~~~l---~~~l~~~~~~~~~~el~~l~~~i~e~~~   73 (707)
                      .+..++..+..=|...+..+.+....-   ++.-+..+...++.++......+..+..
T Consensus         8 qf~~~~~el~~Wl~e~~~~l~~~~~g~d~~~~~~ll~kh~~~~~el~~~~~~v~~l~~   65 (326)
T 3kbt_A            8 QYYLDADEAEAWIGEQELYVISDEIPKDEEGAIVMLKRHLRQQRAVEDYGRNIKQLAS   65 (326)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTSCCCCCSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhcCCccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444444433322   2333444445555555555555554443

>2i1j_A Moesin; FERM, coiled-coil, C-ermad, ERM, radixin, ezrin, MER actin binding, masking, regulation, SELF-inhibition, cell A membrane protein; 2.10A {Spodoptera frugiperda} PDB: 2i1k_A 1e5w_A

Probab=81.91  E-value=2  Score=48.43  Aligned_cols=26  Identities=8%  Similarity=0.141  Sum_probs=3.4

Q ss_pred             HHHHHHHHHHHHHHhcChhhHHHhHH
Q 005229          205 KRELNEIRKYIEELNQDPASKDKELR  230 (707)
Q Consensus       205 ~~e~~e~~~ei~~l~~eie~~~~el~  230 (707)
                      ..+......+...+..++...+....
T Consensus       425 ~~~~~~~~~e~~~~~~~~~~a~~~~~  450 (575)
T 2i1j_A          425 QQEVELKDSETRRLQEEVEDARRKQD  450 (575)
T ss_dssp             -----------------CHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333333333

>3a7p_A Autophagy protein 16; coiled-coil, coiled coil, cytoplasmic vesicle, protein transport, transport, vacuole; 2.80A {Saccharomyces cerevisiae}

Probab=80.94  E-value=32  Score=31.17  Aligned_cols=19  Identities=11%  Similarity=-0.101  Sum_probs=6.9

Q ss_pred             HHHHHHHHHhHHHHHHHHH
Q 005229          121 EKLYDEVKNSLMLCETKLE  139 (707)
Q Consensus       121 e~e~~~l~~ele~le~el~  139 (707)
                      .+++..++.++..++.++.
T Consensus       102 ~DEl~aLqlq~n~lE~kl~  120 (152)
T 3a7p_A          102 NAALISGTIENNVLQQKLS  120 (152)
T ss_dssp             HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333

>3mq9_A Bone marrow stromal antigen 2 fused to maltose-BI periplasmic protein; HIV, antiviral protein; 2.80A {Escherichia coli}

Probab=80.39  E-value=34  Score=37.02  Aligned_cols=16  Identities=6%  Similarity=0.108  Sum_probs=5.7

Q ss_pred             hcChhhHHHhHHHHHH
Q 005229          219 NQDPASKDKELRFVQQ  234 (707)
Q Consensus       219 ~~eie~~~~el~~~~~  234 (707)
                      +.+|.+++.+++..+.
T Consensus       449 ~~~~~~~~~~~~~~~~  464 (471)
T 3mq9_A          449 EGEITTLNHKLQDASA  464 (471)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            3333333333333333

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	707
d1gcca_	63	d.10.1.2 (A:) GCC-box binding domain {Mouse-ear cr	2e-33

>d1gcca_ d.10.1.2 (A:) GCC-box binding domain {Mouse-ear cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 63

class: Alpha and beta proteins (a+b)
fold: DNA-binding domain
superfamily: DNA-binding domain
family: GCC-box binding domain
domain: GCC-box binding domain
species: Mouse-ear cress (Arabidopsis thaliana) [TaxId: 3702]

 Score =  120 bits (302), Expect = 2e-33
 Identities = 46/62 (74%), Positives = 52/62 (83%), Gaps = 1/62 (1%)

Query: 638 HFRGVRQRPWGKWAAEIRDP-KKAARIWLGTFDTAEAAALAYDEAALRFKGRKAKLNFPE 696
           H+RGVRQRPWGK+AAEIRDP K  AR+WLGTF+TAE AALAYD AA R +G +A LNFP 
Sbjct: 2   HYRGVRQRPWGKFAAEIRDPAKNGARVWLGTFETAEDAALAYDRAAFRMRGSRALLNFPL 61

Query: 697 RV 698
           RV
Sbjct: 62  RV 63

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	707
d1gcca_	63	GCC-box binding domain {Mouse-ear cress (Arabidops	99.88
d1fxka_	107	Prefoldin beta subunit {Archaeon Methanobacterium	80.93

>d1gcca_ d.10.1.2 (A:) GCC-box binding domain {Mouse-ear cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Alpha and beta proteins (a+b)
fold: DNA-binding domain
superfamily: DNA-binding domain
family: GCC-box binding domain
domain: GCC-box binding domain
species: Mouse-ear cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.88  E-value=8.7e-24  Score=164.22  Aligned_cols=60  Identities=73%  Similarity=1.289  Sum_probs=56.1

Q ss_pred             cceeeeEcCCCceEEEEecCC-CCcccccCCCCcHHHHHHHHHHHHHHccCCCCCCCCCCc
Q 005229          638 HFRGVRQRPWGKWAAEIRDPK-KAARIWLGTFDTAEAAALAYDEAALRFKGRKAKLNFPER  697 (707)
Q Consensus       638 ~~rGV~~~~~g~w~a~i~~~~-~~~~~~lG~f~t~e~Aa~ayd~aa~~~~g~~~~~nfp~~  697 (707)
                      .||||+++++|||.|+||++. +++++|||||+|+||||+|||.||+.++|+++.+|||..
T Consensus         2 ~yrGVr~r~~gkw~A~Ir~~~~~~~r~~LGtf~t~eeAArAYD~aa~~~~G~~a~~NFP~~   62 (63)
T d1gcca_           2 HYRGVRQRPWGKFAAEIRDPAKNGARVWLGTFETAEDAALAYDRAAFRMRGSRALLNFPLR   62 (63)
T ss_dssp             CCTTEEEETTTEEEEEEEETTTTSEEEEEEEESSHHHHHHHHHHHHHHHHSSCCCCSSCTT
T ss_pred             CcceEeECCCCCEEEEEecCCCCCcEeccccccCHHHHHHHHHHHHHHhcCCCcccCCCcc
Confidence            499999888999999999975 568999999999999999999999999999999999975

>d1fxka_ a.2.5.1 (A:) Prefoldin beta subunit {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: All alpha proteins
fold: Long alpha-hairpin
superfamily: Prefoldin
family: Prefoldin
domain: Prefoldin beta subunit
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=80.93  E-value=12  Score=29.92  Aligned_cols=21  Identities=0%  Similarity=0.018  Sum_probs=7.7

Q ss_pred             HHHhHHHHHHHHHHHHHHHHH
Q 005229          127 VKNSLMLCETKLECEKKELEL  147 (707)
Q Consensus       127 l~~ele~le~el~~~~~Ele~  147 (707)
                      ++.++..+...+..+..++..
T Consensus        13 lq~el~~~~~q~~~le~q~~E   33 (107)
T d1fxka_          13 LQQQAQAISVQKQTVEMQINE   33 (107)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333333333