Citrus Sinensis ID: 013531

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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-
Protein Sequence
MAASKLVIFSLFFALILTAADVSIQGEDVPPLTASDAVDSSPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKEEMMRAKFEATSRSKELTEVHSAWLPPWLAVHLLQCQSLIETHWNAHGKPAMDVAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVRAYGKFLKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAASALLVLPVIILFRIGSAIFCKKARKPVRHSHHHSRRKAKRGHPDK
Secondary Structure (PSIPRED)
ccHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHcHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHcHHHHHHHHHcHHHHHHHHHHHccHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHHHHHHHHHHccccccccccccccHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccHHHHcccccc
Coil and Loop (DISEMBL)
MAASKLVIFSLFFALILTAadvsiqgedvppltasdavdssplkIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKEEMMRAKFEATSRSKELTEVHSAWLPPWLAVHLLQCQSLIEthwnahgkpAMDVAIQKALEKKAqagkwvqphVETIkakwipavKEQWVVFTTnvephvqtLKTKTIEACEatktavtphIIRVQEVVDPYFQEakkfskpyidqvatvakphvdnVRVALKPYTKKVVRAYGKFLKSATTYHHQVQASVQEMLKKheltsplatKELEWFAASALLVLPVIILFRIGSAifckkarkpvrhshhhsrrkakrghpdk
Flexible Loop (DISEMBL)
MAASKLVIFSLFFALILTAADVSIQGEDVPPltasdavdssplKIELDQLKSKIRSLEshidektqelkgkdevvAQKEkaiqdkserIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKleklqkindeqkskirkteRALKEEMMRAKFEATSRSKELTEVHSAWLPPWLAVHLLQCQSLIETHWNAHGKPAMDVAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEAtktavtphiiRVQEVVDPYFQEAKKFSKPYIDQVatvakphvdnvrvalkpytkKVVRAYGKFLKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAASALLVLPVIILFRIGSAIFCkkarkpvrhshhhsrrkakrghpdk
Low Complexity Region (SEG)
MAASKLVIFSLFFALILTAADVSIQGEDVPPLTASDAVDSSPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNlkkesekqqkekealeaRAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKEEMMRAKFEATSRSKELTEVHSAWLPPWLAVHLLQCQSLIETHWNAHGKPAMDVAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVRAYGKFLKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAASALLVLPVIILFRIGSAIFCKKArkpvrhshhhsrrkakrghPDK
Disordered region (IsUnstruct)
****KLVIFSLFFALILTAADVSIQ******************************************************************************************************************************************************************************TEVHSAWLPPWLAVHLLQCQSLIETHWNAHGKPAMDVAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVRAYGKFLKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAASALLVLPVIILFRIGSAIFCKK***********************
Disordered Region (DISOPRED)
******V*FSLFFALILTAA******************************************************************************************************************************************************************************************LPPWLAVHLL********************************************************************************************EV*DP*************************************VVRAYGK***********************ELTSPLATKELEWFAASALLVLPVIILFRIGSA****************************
Disordered Region (DISEMBL)
MAASKLVIFSLFFALILTAADVSIQGEDVPPLTASDAVDSSPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLK************LEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKEEMM***************VHSAWLPPWLAVHLLQCQSLIETHWNAHGKPAMDVAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVRAYGKFLKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAASALLVLPVIILFRIGSAIFCKK***********************
Disordered Region (DISPRO)
*AASKLVIFSLFFALILTAADVSIQGE***PLT******SSPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKEEMMRAKFEATSRSKELTEVHSAWLPPWLAVHLLQCQSLIETHWNAHGKPAMDVAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVRAYGKFLKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAASALLVLPVIILFRIGSAIFCKK***********************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
SSSSSSSSSSSSSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
SSSSSSSSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MAASKLVIFSLFFALILTAADVSIQGEDVPPLTASDAVDSSPLKIExxxxxxxxxxxxxxxxxxxxxLKGKDEVxxxxxxxxxxxxxxxxxxxxxxxxxxxxExxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxAKFEATSRSKELTEVHSAWLPPWLAVHLLQCQSLIETHWNAHGKPAMDVAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVRAYGKFLKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAASALLVLPVIILFRIGSAIFCKKARKPVRHSHHHSRRKAKRGHPDK
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

No hits with e-value below 0.001 by BLAST

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	441
255574131	440	conserved hypothetical protein [Ricinus	0.979	0.981	0.693	1e-168
225429824	449	PREDICTED: uncharacterized protein LOC10	1.0	0.982	0.668	1e-168
224121216	446	predicted protein [Populus trichocarpa]	1.0	0.988	0.688	1e-167
224115694	447	predicted protein [Populus trichocarpa]	1.0	0.986	0.682	1e-165
363806748	446	uncharacterized protein LOC100781922 pre	0.984	0.973	0.637	1e-159
357466595	439	hypothetical protein MTR_3g109330 [Medic	0.975	0.979	0.64	1e-158
449509133	448	PREDICTED: LOW QUALITY PROTEIN: uncharac	1.0	0.984	0.602	1e-147
449437044	448	PREDICTED: uncharacterized protein LOC10	1.0	0.984	0.600	1e-147
388521969	435	unknown [Lotus japonicus]	0.970	0.983	0.618	1e-144
217074086	404	unknown [Medicago truncatula]	0.879	0.960	0.635	1e-140

>gi|255574131|ref|XP_002527981.1| conserved hypothetical protein [Ricinus communis] gi|223532607|gb|EEF34393.1| conserved hypothetical protein [Ricinus communis]

 Score =  598 bits (1541), Expect = e-168,   Method: Compositional matrix adjust.
 Identities = 308/444 (69%), Positives = 371/444 (83%), Gaps = 12/444 (2%)

Query: 4   SKLVIFSLFFALILTA--ADVSIQGEDVPPLTASDAVDSSPLKIELDQLKSKIRSLESHI 61
           + L IFS F ALI +A  AD+S++ +D   L +S AV SS  KI+LDQL SKI +LES I
Sbjct: 3   ANLAIFSFFLALIFSAVRADISLESDD--QLISSHAVHSSAFKIQLDQLNSKIHALESQI 60

Query: 62  DEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADEL 121
           DE+T+ELK KD +++Q +K I+D S+ I+SLQ E+SSLQKKE ++AAEQV KAHARA EL
Sbjct: 61  DERTRELKNKDAIISQNDKIIKDNSDSILSLQTEISSLQKKEKIDAAEQVGKAHARAGEL 120

Query: 122 EKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERAL 181
           EKQ++N+KKE E Q +EKEALEARA EAEKKI++L  KLE LQKINDEQKSK+RKTERAL
Sbjct: 121 EKQVENIKKEVETQNREKEALEARANEAEKKIAELHLKLENLQKINDEQKSKLRKTERAL 180

Query: 182 K---EEMMRAKFEATSRSKELTEVHSAWLPPWLAVHLLQCQSLIETHWNAHGKPAMDVAI 238
           K   EE+M+AKFEATS++KEL EVH AWLPPWLAV L++    I+THWN HG+PAM++ I
Sbjct: 181 KVAEEELMKAKFEATSKTKELMEVHGAWLPPWLAVELVR----IQTHWNEHGRPAMELVI 236

Query: 239 QKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKT 298
           QKAL+KKA A KW +PH++T+K KW+PAVKEQW++  T+VEPHVQ+L TKTIEA EA+KT
Sbjct: 237 QKALDKKAHAEKWAKPHLDTVKTKWVPAVKEQWLLIVTHVEPHVQSLTTKTIEAYEASKT 296

Query: 299 AVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVRAYGKF 358
           A+TPH+ RVQEVV PYFQEAKKFSKPYIDQVATV KPHVD VRVALKPY K+ V AYGKF
Sbjct: 297 AITPHVSRVQEVVGPYFQEAKKFSKPYIDQVATVTKPHVDKVRVALKPYMKQAVHAYGKF 356

Query: 359 LKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAASALLVLPVIILFRIGSAIFCKK 418
           L+SA+TYHHQVQ +VQE L KHELT PLATKEL WF ASALL LP+I+L RI SAIFCKK
Sbjct: 357 LESASTYHHQVQGTVQETLNKHELTRPLATKELIWFMASALLALPIILLSRICSAIFCKK 416

Query: 419 ARKPVRHSH-HHSRRKAKRGHPDK 441
           A+KP+RH++ +H+RRKAKRGHPDK
Sbjct: 417 AKKPIRHANTNHARRKAKRGHPDK 440

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225429824|ref|XP_002280828.1| PREDICTED: uncharacterized protein LOC100254151 [Vitis vinifera] gi|296081785|emb|CBI20790.3| unnamed protein product [Vitis vinifera]

 Score =  597 bits (1539), Expect = e-168,   Method: Compositional matrix adjust.
 Identities = 300/449 (66%), Positives = 356/449 (79%), Gaps = 8/449 (1%)

Query: 1   MAASKLVIFSLFFALILTA--ADVSIQGEDVP-PLTASDAVDSSPLKIELDQLKSKIRSL 57
           M ASKL    +FFALI     AD SI   D P  +  S++ +S  LKIEL  L+ KI++L
Sbjct: 1   MGASKLATLFIFFALIFCKIRADASIDEVDQPQGVVLSESSESEALKIELALLQEKIQTL 60

Query: 58  ESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHAR 117
           E+HIDE+++ELK KDE++AQKEK +Q+KS  I  LQ E+ SLQKK T +A EQ+ KA+AR
Sbjct: 61  ETHIDERSKELKSKDEIIAQKEKIVQEKSNSITQLQNEIVSLQKKGTSDAEEQLGKAYAR 120

Query: 118 ADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKT 177
           A ELEKQ+D LKKE E QQKEK ALE+RA EAE+K  +L++K+E L+KI DEQK++IRKT
Sbjct: 121 ASELEKQVDKLKKEIETQQKEKAALESRANEAERKTRELNSKVESLKKITDEQKTRIRKT 180

Query: 178 ERALK---EEMMRAKFEATSRSKELTEVHSAWLPPWLAVHLLQCQSLIETHWNAHGKPAM 234
           ERAL+   EEMM+AKF+A S++KEL EVH AWLPPW A HL+ CQS +E HWN HGKPA+
Sbjct: 181 ERALQVAEEEMMKAKFDANSKTKELMEVHGAWLPPWFANHLISCQSFMEVHWNKHGKPAL 240

Query: 235 DVAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACE 294
           D   QKALEKKAQA KW +PHVET K KWIPA+K+QW+  TT +EPHVQ L TKT+EA E
Sbjct: 241 DTLTQKALEKKAQAQKWSEPHVETFKTKWIPAIKDQWLEITTYLEPHVQLLCTKTVEAYE 300

Query: 295 ATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVRA 354
           A+K A+TPH+I+VQE  DPYFQ AKK SKPYIDQVA V KPHVDNV+VALKPYTKKVVR 
Sbjct: 301 ASKNAITPHVIKVQEFGDPYFQVAKKVSKPYIDQVAAVTKPHVDNVKVALKPYTKKVVRG 360

Query: 355 YGKFLKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAASALLVLPVIILFRIGSAI 414
           YGKFLKSATTYH +VQ +VQE LK HELT PLATKEL WFAASALL LP+I LFRI SAI
Sbjct: 361 YGKFLKSATTYHQKVQDTVQEKLKNHELTKPLATKELVWFAASALLALPIIFLFRICSAI 420

Query: 415 FCKKARKPVR--HSHHHSRRKAKRGHPDK 441
           FCKKA+KP+R  H++HH RRK KRGHPDK
Sbjct: 421 FCKKAKKPIRNGHTNHHPRRKPKRGHPDK 449

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224121216|ref|XP_002330772.1| predicted protein [Populus trichocarpa] gi|118485922|gb|ABK94806.1| unknown [Populus trichocarpa] gi|222872574|gb|EEF09705.1| predicted protein [Populus trichocarpa]

 Score =  595 bits (1534), Expect = e-167,   Method: Compositional matrix adjust.
 Identities = 307/446 (68%), Positives = 355/446 (79%), Gaps = 5/446 (1%)

Query: 1   MAASKLVIFSLFFALILTAADVSIQGEDVPPLTAS-DAVDSSPLKIELDQLKSKIRSLES 59
           MAASKL   S+ F   LT   V     D   +T S  AVDSS  KIELDQLKSKI +LES
Sbjct: 1   MAASKLASLSILFIFALTLTAVVSVRADYDDITGSVAAVDSSAFKIELDQLKSKIHALES 60

Query: 60  HIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARAD 119
           HIDEKT+ELKGKD+++A KEK IQ+K + I SLQ ELSSLQ     +A EQV KAHARA 
Sbjct: 61  HIDEKTKELKGKDDMIALKEKIIQEKVDSIGSLQSELSSLQNNGKTDAQEQVRKAHARAG 120

Query: 120 ELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTER 179
           ELEKQ+D L KE E QQK+KEALEARA EAEKKIS+L+ KL  L KIN+EQKSKIRKTER
Sbjct: 121 ELEKQVDKLAKELETQQKKKEALEARASEAEKKISELNLKLADLAKINEEQKSKIRKTER 180

Query: 180 ALK---EEMMRAKFEATSRSKELTEVHSAWLPPWLAVHLLQCQSLIETHWNAHGKPAMDV 236
           ALK   EE+++ K EATS++KEL EVH AWLPPWLAV L+  QSL +THWN HGKP M++
Sbjct: 181 ALKIAEEELLKTKSEATSKAKELMEVHGAWLPPWLAVQLVHWQSLAQTHWNEHGKPVMEL 240

Query: 237 AIQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEAT 296
           AIQ+ALEKKAQA KW +PHVETIK KW+PA+KEQWVV  T VEPHVQ+L  KT+E  EA+
Sbjct: 241 AIQRALEKKAQAEKWAKPHVETIKTKWVPAIKEQWVVIATQVEPHVQSLTVKTVEIYEAS 300

Query: 297 KTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVRAYG 356
           KT +T HIIRVQE+VDP FQEAKKFS+PYIDQVATV KPHVD VRV LKPYTK+ V AYG
Sbjct: 301 KTTITAHIIRVQEIVDPCFQEAKKFSEPYIDQVATVTKPHVDKVRVVLKPYTKEAVDAYG 360

Query: 357 KFLKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAASALLVLPVIILFRIGSAIFC 416
           KFL+SATTYH+QVQ++VQE L+KHELT PLATK+  WF ASAL  LP+ IL R+ S+IFC
Sbjct: 361 KFLESATTYHNQVQSTVQETLEKHELTKPLATKDSIWFIASALFTLPIFILARVCSSIFC 420

Query: 417 KKARKPVRHSH-HHSRRKAKRGHPDK 441
           KK++KPVR++   HSRRKAKRGHPDK
Sbjct: 421 KKSKKPVRNAQTSHSRRKAKRGHPDK 446

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224115694|ref|XP_002332119.1| predicted protein [Populus trichocarpa] gi|118488228|gb|ABK95933.1| unknown [Populus trichocarpa] gi|222874939|gb|EEF12070.1| predicted protein [Populus trichocarpa]

 Score =  589 bits (1518), Expect = e-165,   Method: Compositional matrix adjust.
 Identities = 305/447 (68%), Positives = 358/447 (80%), Gaps = 6/447 (1%)

Query: 1   MAASKLVIFSLFF--ALILTAADVSIQGEDVPPLTASDAVDSSPLKIELDQLKSKIRSLE 58
           MAASKL   S+ F  ALI TA  V    +D     ++ AVD S LKIELDQLKSKI + E
Sbjct: 1   MAASKLAFLSILFVFALIFTAVGVRADVDDDNTAESAAAVDLSALKIELDQLKSKIHAHE 60

Query: 59  SHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARA 118
           SHIDEKT+EL GKD ++AQKE  IQ+K + I SLQ E+SSL+KK  ++A E V KAHARA
Sbjct: 61  SHIDEKTKELNGKDVMIAQKETIIQEKVDSIASLQSEISSLKKKGKIDAQELVGKAHARA 120

Query: 119 DELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTE 178
            ELEKQ++ L KE E QQ+E EALEARA EAEKKIS+L+ KL  L+KIN EQKSKIRKTE
Sbjct: 121 GELEKQMEKLSKELETQQQENEALEARASEAEKKISELNFKLADLEKINVEQKSKIRKTE 180

Query: 179 RALK---EEMMRAKFEATSRSKELTEVHSAWLPPWLAVHLLQCQSLIETHWNAHGKPAMD 235
           RALK   EE+++ K EA S++KEL EVH AWLPPWLAV L++ QSL +THW+ HGKP M+
Sbjct: 181 RALKIAEEELIKTKSEAISKAKELMEVHGAWLPPWLAVQLIRWQSLAQTHWSEHGKPTME 240

Query: 236 VAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEA 295
           +AIQKALEKKAQA KW +PHVETIK KW+PA+KEQWVV TT V+PHVQ+L  KT++  EA
Sbjct: 241 LAIQKALEKKAQAEKWAEPHVETIKTKWVPAIKEQWVVITTQVKPHVQSLTAKTVQIYEA 300

Query: 296 TKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVRAY 355
           +KT VTPHIIRVQE+ DPYFQEAKKFSKPYIDQVAT+ KPHVD V+VALKPYTK+ V AY
Sbjct: 301 SKTTVTPHIIRVQEIADPYFQEAKKFSKPYIDQVATMTKPHVDKVKVALKPYTKEAVHAY 360

Query: 356 GKFLKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAASALLVLPVIILFRIGSAIF 415
           GKFL+SATTYH+QVQ +VQE L+KHELT PLA KEL WF ASALL LPVIIL R  S+IF
Sbjct: 361 GKFLESATTYHNQVQVTVQETLEKHELTKPLAMKELIWFIASALLALPVIILARACSSIF 420

Query: 416 CKKARKPVRHSHHH-SRRKAKRGHPDK 441
           C+KA+KP R++H + SRRKAKRGH DK
Sbjct: 421 CQKAKKPARNAHANPSRRKAKRGHSDK 447

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|363806748|ref|NP_001242275.1| uncharacterized protein LOC100781922 precursor [Glycine max] gi|255642485|gb|ACU21506.1| unknown [Glycine max]

 Score =  566 bits (1459), Expect = e-159,   Method: Compositional matrix adjust.
 Identities = 287/450 (63%), Positives = 351/450 (78%), Gaps = 16/450 (3%)

Query: 1   MAASKLVIF----SLFFALILTAADVSIQGEDVPPLTASDAVDSSPLKIELDQLKSKIRS 56
           MA  KL +F    +L FA++   AD+SI+G    P       D+S ++I+LDQL SKI+ 
Sbjct: 1   MAPPKLFVFALSVTLIFAIVGAEADISIEGSTPEP-------DTSAIRIQLDQLNSKIQI 53

Query: 57  LESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHA 116
           LES I EK +E+K KDE++A+KEK+I+DKS  I SLQ E++SLQKK +L+A EQV KAHA
Sbjct: 54  LESQISEKLEEVKKKDEIIAEKEKSIEDKSITIQSLQNEIASLQKKGSLDAEEQVGKAHA 113

Query: 117 RADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRK 176
           RA EL+KQ+D LK+E E Q KEK   E R  E EKKI DL++KLE LQKIN+EQK KI+K
Sbjct: 114 RAGELQKQVDKLKRELETQNKEKVNWETRVPELEKKIHDLNSKLEDLQKINEEQKKKIQK 173

Query: 177 TERALK---EEMMRAKFEATSRSKELTEVHSAWLPPWLAVHLLQCQSLIETHWNAHGKPA 233
           TERALK   EEM++AKFEAT+  KEL E H AWLPPWLAVH +  +S +++HWN HGKPA
Sbjct: 174 TERALKVAEEEMVKAKFEATAIEKELRETHGAWLPPWLAVHYIHSKSFVDSHWNKHGKPA 233

Query: 234 MDVAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEAC 293
           +++  QKALEKKAQAGKW +PHVETIK KW+PAVKEQW V  TN EPHVQ L TKT+   
Sbjct: 234 LEMVTQKALEKKAQAGKWAEPHVETIKTKWVPAVKEQWSVVKTNAEPHVQLLTTKTVGVY 293

Query: 294 EATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVR 353
           EA+K A++PH+ + +E VDPY+QEA+KFSKPYIDQ+A  AKPHVD V+V LKPYTK+VVR
Sbjct: 294 EASKNAISPHLSKAKEFVDPYYQEARKFSKPYIDQIAIAAKPHVDKVQVVLKPYTKEVVR 353

Query: 354 AYGKFLKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAASALLVLPVIILFRIGSA 413
            YGKFL+SATTYH QVQASVQE LKKHELT PLATKELEWFAASALL LP+I++ R+ SA
Sbjct: 354 TYGKFLESATTYHRQVQASVQETLKKHELTRPLATKELEWFAASALLALPIILVARVFSA 413

Query: 414 IFC-KKARKPVRH-SHHHSRRKAKRGHPDK 441
           +FC KK  KP R+ ++HH+RRK KRGH DK
Sbjct: 414 VFCSKKVNKPARNGNNHHARRKHKRGHLDK 443

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357466595|ref|XP_003603582.1| hypothetical protein MTR_3g109330 [Medicago truncatula] gi|355492630|gb|AES73833.1| hypothetical protein MTR_3g109330 [Medicago truncatula] gi|388509130|gb|AFK42631.1| unknown [Medicago truncatula]

 Score =  563 bits (1452), Expect = e-158,   Method: Compositional matrix adjust.
 Identities = 288/450 (64%), Positives = 349/450 (77%), Gaps = 20/450 (4%)

Query: 1   MAASKLVIFS----LFFALILTAADVSIQGEDVPPLTASDAVDSSPLKIELDQLKSKIRS 56
           MA  KL +F+    L F+ + + ADVSI+  D           SS LKI+LDQL SKI+S
Sbjct: 1   MAPPKLFVFAISVALIFSFVTSEADVSIEDSD-----------SSALKIQLDQLNSKIQS 49

Query: 57  LESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHA 116
           LES I EKTQELK KD+V+A+KEK  QDK   I SLQ E++SLQKK +L+A EQV KA+A
Sbjct: 50  LESQISEKTQELKKKDQVIAEKEKLFQDKLSSIQSLQNEVASLQKKGSLDAEEQVGKAYA 109

Query: 117 RADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRK 176
           RA EL+KQ+D LK E E Q  EK   E+R  + EKKI DL++KLE +QKIN+EQK +IRK
Sbjct: 110 RAGELQKQVDKLKSELEAQNSEKVNWESRVAKLEKKIHDLNSKLEDVQKINEEQKKQIRK 169

Query: 177 TERALK---EEMMRAKFEATSRSKELTEVHSAWLPPWLAVHLLQCQSLIETHWNAHGKPA 233
           TERALK   EEM++AK EAT+++KEL+E H AWLPPWLAVH ++ +S+ E+HWN HGKP 
Sbjct: 170 TERALKVAEEEMLKAKLEATTKAKELSETHGAWLPPWLAVHYIRSKSVAESHWNEHGKPL 229

Query: 234 MDVAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEAC 293
           ++V  QKALEKKAQAGKW +PHVETIK KW+PAVKEQW V  T  EPHVQ L +KT+E  
Sbjct: 230 LEVISQKALEKKAQAGKWAEPHVETIKTKWVPAVKEQWSVVKTKAEPHVQALTSKTVEVY 289

Query: 294 EATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVR 353
           +++K A+ PH+ + +E VDPY+QEA+KFSKPYIDQVAT AKPHV+NV+V LKPYTKKVV 
Sbjct: 290 KSSKDALAPHLNKAKECVDPYYQEARKFSKPYIDQVATAAKPHVENVQVVLKPYTKKVVL 349

Query: 354 AYGKFLKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAASALLVLPVIILFRIGSA 413
           AYG FL+SAT YH QVQA+VQE LKKHELT PLATKELEWFAASALL LP+I++ R+ SA
Sbjct: 350 AYGNFLESATAYHRQVQATVQETLKKHELTRPLATKELEWFAASALLALPIILIARVFSA 409

Query: 414 IFC-KKARKPVRHSH-HHSRRKAKRGHPDK 441
           IFC KKA KP R  + HH+RRKAKRGHPDK
Sbjct: 410 IFCSKKASKPARSGNTHHARRKAKRGHPDK 439

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449509133|ref|XP_004163503.1| PREDICTED: LOW QUALITY PROTEIN: uncharacterized protein LOC101229984 [Cucumis sativus]

 Score =  529 bits (1362), Expect = e-147,   Method: Compositional matrix adjust.
 Identities = 270/448 (60%), Positives = 339/448 (75%), Gaps = 7/448 (1%)

Query: 1   MAASKLVIFSLFFALILTA--AD--VSIQGEDVPPLTASDAVDSSPLKIELDQLKSKIRS 56
           MA SKL I SLF AL+LT   AD  + ++ + +  +  SD  + S LK+ELDQLK KI+ 
Sbjct: 1   MAISKLAILSLFLALVLTQLRADESLDVEAQHIVEVVRSDDSEFSDLKLELDQLKFKIQK 60

Query: 57  LESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHA 116
           LES +D KT ELK +DEV+AQKEK I  K + I  L+ E++SLQKK  L+A EQV KA++
Sbjct: 61  LESDLDVKTXELKRRDEVIAQKEKVISAKLDSISLLESEIASLQKKGKLDAEEQVGKAYS 120

Query: 117 RADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRK 176
           RA ELE+Q+D+LK++ E    EKE+ E  A EAEKK  + S +LE LQKI++EQKSKIR 
Sbjct: 121 RAHELERQVDDLKRQLEILNGEKESWETLANEAEKKTLEASLRLESLQKIHEEQKSKIRV 180

Query: 177 TERAL---KEEMMRAKFEATSRSKELTEVHSAWLPPWLAVHLLQCQSLIETHWNAHGKPA 233
           TERAL   KEEM +AKFEA +R KELTEVH AWLPPWLA H  Q QSLI+THWN H KPA
Sbjct: 181 TERALEVSKEEMRKAKFEAATRIKELTEVHGAWLPPWLASHYDQFQSLIKTHWNKHAKPA 240

Query: 234 MDVAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEAC 293
           +DV IQKA +K AQA KW +PHV+T+K K+IP VKE+W+V  TNV+PHV+TL  KT+E  
Sbjct: 241 IDVVIQKASDKTAQAAKWAEPHVKTVKIKYIPIVKERWLVVKTNVKPHVETLTAKTVEFY 300

Query: 294 EATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVR 353
           + +K+ +TP+ ++ +E + PY+ E KKFSKPYIDQVATV KPHV+ VRV LKPYTKK+VR
Sbjct: 301 QTSKSVITPYAVKSKEAISPYYLEVKKFSKPYIDQVATVTKPHVEKVRVVLKPYTKKLVR 360

Query: 354 AYGKFLKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAASALLVLPVIILFRIGSA 413
            YGKFL+SA  YH +VQ +V+E L KHELT PLAT+ELEWFAASA+L LP+I LF + SA
Sbjct: 361 GYGKFLESAAVYHQKVQGTVKETLNKHELTKPLATRELEWFAASAILALPIIFLFNMISA 420

Query: 414 IFCKKARKPVRHSHHHSRRKAKRGHPDK 441
           +F KK +KP R++ HH+RRK KRGH DK
Sbjct: 421 LFWKKTKKPTRNTGHHARRKGKRGHSDK 448

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449437044|ref|XP_004136302.1| PREDICTED: uncharacterized protein LOC101216465 [Cucumis sativus]

 Score =  528 bits (1361), Expect = e-147,   Method: Compositional matrix adjust.
 Identities = 269/448 (60%), Positives = 338/448 (75%), Gaps = 7/448 (1%)

Query: 1   MAASKLVIFSLFFALILTA--AD--VSIQGEDVPPLTASDAVDSSPLKIELDQLKSKIRS 56
           MA SKL I SLF AL+ T   AD  + ++ + +  +  SD  + S LK+ELDQLK KI+ 
Sbjct: 1   MAISKLAILSLFLALVFTQLRADESLDVEAQHIVEVVRSDDSEFSDLKLELDQLKFKIQK 60

Query: 57  LESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHA 116
           LES +D K QELK +DEV+AQKEK I  K + I  L+ E++SLQKK  L+A EQV KA++
Sbjct: 61  LESDLDVKNQELKRRDEVIAQKEKVITAKLDSISLLESEIASLQKKGKLDAEEQVGKAYS 120

Query: 117 RADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRK 176
           RA ELE+Q+D+LK++ E    EKE+ E  A EAEKK  + S +LE LQKI++EQKSKIR 
Sbjct: 121 RAHELERQVDDLKRQLEILNGEKESWETLANEAEKKTLEASLRLESLQKIHEEQKSKIRV 180

Query: 177 TERAL---KEEMMRAKFEATSRSKELTEVHSAWLPPWLAVHLLQCQSLIETHWNAHGKPA 233
           TERAL   KEEM +AKFEA +R KELTEVH AWLPPWLA H  Q QSLI+THWN H KPA
Sbjct: 181 TERALEVSKEEMRKAKFEAATRIKELTEVHGAWLPPWLASHYDQFQSLIKTHWNKHAKPA 240

Query: 234 MDVAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEAC 293
           +DV IQKA +K AQA KW +PHV+T+K K+IP VKE+W+V  TNV+PHV+TL  KT+E  
Sbjct: 241 IDVVIQKASDKTAQAAKWAEPHVKTVKIKYIPIVKERWLVVKTNVKPHVETLTAKTVEFY 300

Query: 294 EATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVR 353
           + +K+ +TP+ ++ +E + PY+ E KKFSKPYIDQVATV KPHV+ VRV LKPYTKK+VR
Sbjct: 301 QTSKSVITPYAVKSKEAISPYYLEVKKFSKPYIDQVATVTKPHVEKVRVVLKPYTKKLVR 360

Query: 354 AYGKFLKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAASALLVLPVIILFRIGSA 413
            YGKFL+SA  YH +VQ +V+E L KHELT PLAT+ELEWFAASA+L LP+I LF + SA
Sbjct: 361 GYGKFLESAAVYHQKVQGTVKETLNKHELTKPLATRELEWFAASAILALPIIFLFNMISA 420

Query: 414 IFCKKARKPVRHSHHHSRRKAKRGHPDK 441
           +F KK +KP R++ HH+RRK KRGH DK
Sbjct: 421 LFWKKTKKPTRNTGHHARRKGKRGHSDK 448

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388521969|gb|AFK49046.1| unknown [Lotus japonicus]

 Score =  517 bits (1331), Expect = e-144,   Method: Compositional matrix adjust.
 Identities = 277/448 (61%), Positives = 336/448 (75%), Gaps = 20/448 (4%)

Query: 1   MAASKLVIFSLFFALI--LTAADVSIQGEDVPPLTASDAVDSSPLKIELDQLKSKIRSLE 58
           MA  KL +F+L  ALI  ++AAD  +  +D              +KI+LDQL S+I +LE
Sbjct: 1   MAPPKLFLFTLSLALIFSISAADAGVSHDD-------------SVKIQLDQLNSRILTLE 47

Query: 59  SHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARA 118
           S I +K+QELK KDEV+A+KEK IQDKS  + SLQ E++SLQKK +L+A E+V KAHARA
Sbjct: 48  SQIKDKSQELKKKDEVIAEKEKFIQDKSSTVESLQNEVASLQKKGSLDAQEEVGKAHARA 107

Query: 119 DELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTE 178
            EL+KQ++NLK+E EKQ KEK   E R  E EKKI DL++KLE +QK+N+EQK+KIRKTE
Sbjct: 108 GELQKQVENLKRELEKQNKEKVNWETRVAELEKKIHDLNSKLEDIQKVNEEQKTKIRKTE 167

Query: 179 RALK---EEMMRAKFEATSRSKELTEVHSAWLPPWLAVHLLQCQSLIETHWNAHGKPAMD 235
           RALK   EEM++AK EA S+++EL E H  WLPPWLAVH ++ +SL+E HWN HGKP ++
Sbjct: 168 RALKVAEEEMVKAKLEANSKARELIEAHGNWLPPWLAVHYIRSKSLVEAHWNKHGKPVLE 227

Query: 236 VAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEA 295
           V  QKALEKKAQA KW +PH+ET+K KWIPAVK+QW    T  EP VQ L+TK+ E  E 
Sbjct: 228 VVTQKALEKKAQAEKWAEPHLETVKTKWIPAVKQQWSEVKTQAEPRVQLLRTKSFEVYET 287

Query: 296 TKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVRAY 355
           +K A+ PH    +E VDPY+QEA+K SKPYIDQVA  AKPHVD  +V LKPYTKKVV AY
Sbjct: 288 SKKAIDPHFSNAKEFVDPYYQEARKLSKPYIDQVAVAAKPHVDKAQVVLKPYTKKVVHAY 347

Query: 356 GKFLKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAASALLVLPVIILFRIGSAIF 415
             FL+SATTYH QVQA+VQE LKKHELT PLATKELEWFAASALL LP+I+L R  SAIF
Sbjct: 348 RNFLQSATTYHRQVQATVQETLKKHELTRPLATKELEWFAASALLALPIILLARAFSAIF 407

Query: 416 C-KKARKPVRHSH-HHSRRKAKRGHPDK 441
           C KK  KP R  + HH+RRKAKR HPDK
Sbjct: 408 CSKKVNKPARSGNTHHARRKAKRVHPDK 435

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|217074086|gb|ACJ85403.1| unknown [Medicago truncatula]

 Score =  503 bits (1296), Expect = e-140,   Method: Compositional matrix adjust.
 Identities = 258/406 (63%), Positives = 313/406 (77%), Gaps = 18/406 (4%)

Query: 1   MAASKLVIFS----LFFALILTAADVSIQGEDVPPLTASDAVDSSPLKIELDQLKSKIRS 56
           MA  KL +F+    L F+ + + ADVSI+  D           SS LKI+LDQL SKI+S
Sbjct: 1   MAPPKLFVFAISVALIFSFVTSEADVSIEDSD-----------SSALKIQLDQLNSKIQS 49

Query: 57  LESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHA 116
           LES I EKTQELK KD+V+A+KEK  QDK   I SLQ E++SLQKK +L+A EQV KA+A
Sbjct: 50  LESQISEKTQELKKKDQVIAEKEKLFQDKLSSIQSLQNEVASLQKKGSLDAEEQVGKAYA 109

Query: 117 RADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRK 176
           RA EL+KQ+D LK E E Q  EK   E+R  + EKKI DL++KLE +QKIN+EQK +IRK
Sbjct: 110 RAGELQKQVDKLKSELEAQNSEKVNWESRVAKLEKKIHDLNSKLEDVQKINEEQKKQIRK 169

Query: 177 TERALK---EEMMRAKFEATSRSKELTEVHSAWLPPWLAVHLLQCQSLIETHWNAHGKPA 233
           TERALK   EEM++AK EAT+++KEL+E H AWLPPWLAVH ++ +S+ E+HWN HGKP 
Sbjct: 170 TERALKVAEEEMLKAKLEATTKAKELSETHGAWLPPWLAVHYIRSKSVAESHWNEHGKPL 229

Query: 234 MDVAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEAC 293
           ++V  QKALEKKAQAGKW +PHVETIK KW+PAVKEQW V  T  EPHVQ L +KT+E  
Sbjct: 230 LEVISQKALEKKAQAGKWAEPHVETIKTKWVPAVKEQWSVVKTKAEPHVQALTSKTVEVY 289

Query: 294 EATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVR 353
           +++K A+ PH+ + +E VDPY+QEA+KFSKPYIDQVAT AKPHV+NV+V LKPYTKKVV 
Sbjct: 290 KSSKDALAPHLNKAKECVDPYYQEARKFSKPYIDQVATAAKPHVENVQVVLKPYTKKVVL 349

Query: 354 AYGKFLKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAASAL 399
           AYG FL+SAT YH QVQA+VQE LKKHELT PLATKELEWFAA AL
Sbjct: 350 AYGNFLESATAYHRQVQATVQETLKKHELTRPLATKELEWFAAFAL 395

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

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	441
TAIR|locus:2128166	437	AT4G31340 "AT4G31340" [Arabido	0.931	0.940	0.551	1.3e-118
TAIR|locus:2061067	440	AT2G24420 [Arabidopsis thalian	0.927	0.929	0.532	3.5e-114
TAIR|locus:2126470	388	AT4G30090 "AT4G30090" [Arabido	0.587	0.667	0.328	1.3e-38
UNIPROTKB|F1PCW0	2240	GOLGA4 "Uncharacterized protei	0.700	0.137	0.225	1.5e-07
UNIPROTKB|G4N0Y1	709	MGG_09571 "Uncharacterized pro	0.761	0.473	0.205	9.9e-06
UNIPROTKB|F1SQ11	1411	EEA1 "Uncharacterized protein"	0.664	0.207	0.224	2.3e-05
UNIPROTKB|Q7Z7A1	2325	CNTRL "Centriolin" [Homo sapie	0.535	0.101	0.213	5.2e-05
UNIPROTKB|Q5T1M5	1219	FKBP15 "FK506-binding protein	0.625	0.226	0.197	5.3e-05
TAIR|locus:2032520	277	AT1G28410 "AT1G28410" [Arabido	0.269	0.429	0.264	5.4e-05
ZFIN|ZDB-GENE-030616-162	1992	myh10 "myosin, heavy chain 10,	0.757	0.167	0.243	5.6e-05

TAIR|locus:2128166 AT4G31340 "AT4G31340" [Arabidopsis thaliana (taxid:3702)]

 Score = 1168 (416.2 bits), Expect = 1.3e-118, P = 1.3e-118
 Identities = 232/421 (55%), Positives = 303/421 (71%)

Query:     1 MAASKLVIFSLFFALILTAADVSIQGEDVPPLTASDAVDSSPLKIELDQLKSKIRSLESH 60
             MAA+KLV   L  AL+ T +  +    D P ++ +   D S  KI LDQL +KIR+LES 
Sbjct:     1 MAAAKLVAL-LLLALLFTTSVFA--DADEPEVSEAAGSDGSS-KIHLDQLNAKIRALESQ 56

Query:    61 IDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADE 120
             IDEKT+E++GKDEVVA+KEK ++++ ++I SLQ E+SSLQKK + ++A+Q+ KA ARADE
Sbjct:    57 IDEKTREVQGKDEVVAEKEKLLKEREDKIASLQTEVSSLQKKGSSDSAKQLGKAQARADE 116

Query:   121 LEKQIDNXXXXXXXXXXXXXXXXXRAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERA 180
             LEKQ++                  R  EAEKK+ +L++ L+KLQK N+EQK+KI K ERA
Sbjct:   117 LEKQVEVLKNFLEQKNKEKDSTEARTNEAEKKLRELNSSLDKLQKTNEEQKNKIGKLERA 176

Query:   181 LK---EEMMRAKFEATSRSKELTEVHSAWLPPWLAVHLLQCQSLIETHWNAHGKPAMDVA 237
             +K   EEM+R K EAT+++KEL E H +WLPPWLAVH  + Q+  ETHW AHGKPA++  
Sbjct:   177 IKIAEEEMLRTKLEATTKAKELLEAHGSWLPPWLAVHWFKFQTYTETHWEAHGKPAVETV 236

Query:   238 IQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATK 297
             I K  E KAQA KW +PHVE +K K+IPA+KE     T +VEPH +TL  K  EA  ++K
Sbjct:   237 ILKVTEAKAQAEKWAEPHVENVKTKYIPAIKE---TVTIHVEPHFRTLSIKAKEAYHSSK 293

Query:   298 TAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVRAYGK 357
             +AV+PHI+ VQE VDPY+QEAKKFSKPY+DQVAT  KPHVD ++VA+KPYT KV+  Y +
Sbjct:   294 SAVSPHIVTVQEFVDPYYQEAKKFSKPYVDQVATTTKPHVDKMKVAMKPYTTKVIIVYTE 353

Query:   358 FLKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAASALLVLPVIILFRIGSAIFCK 417
             FL+SATTYH+QVQA V+  LK HELT P AT E  WFAASALLV P+ + +R+ S++FC 
Sbjct:   354 FLESATTYHNQVQAHVERKLKSHELTEPFATNEFVWFAASALLVFPIFVAYRVLSSLFCT 413

Query:   418 K 418
             K
Sbjct:   414 K 414

GO:0005783 "endoplasmic reticulum" evidence=IDA

GO:0005774 "vacuolar membrane" evidence=IDA

GO:0005794 "Golgi apparatus" evidence=IDA

GO:0006007 "glucose catabolic process" evidence=RCA

GO:0042732 "D-xylose metabolic process" evidence=RCA

TAIR|locus:2061067 AT2G24420 [Arabidopsis thaliana (taxid:3702)]

 Score = 1126 (401.4 bits), Expect = 3.5e-114, P = 3.5e-114
 Identities = 227/426 (53%), Positives = 295/426 (69%)

Query:     1 MAASKLVIFSLFFALILTA-----ADVSIQGEDVPPLTASDAVDSSPLKIELDQLKSKIR 55
             MAA+KLV   L  AL+        AD  I G D P L  SD  D     IELDQL +KIR
Sbjct:     1 MAAAKLVALLLLLALVFNFTTCIFADAGIDGGDEPKLR-SDGGD-----IELDQLNAKIR 54

Query:    56 SLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAH 115
             +LES ID+KT+ELKG++E+V +KEK +Q++ +++ SL+ E+SSL+KK + ++ E + KA 
Sbjct:    55 ALESQIDDKTKELKGREELVTEKEKLLQERQDKVASLETEVSSLRKKGSSDSVELLSKAQ 114

Query:   116 ARADELEKQIDNXXXXXXXXXXXXXXXXXRAIEAEKKISDLSAKLEKLQKINDEQKSKIR 175
             ARA ELEKQ++                  +  E EKK+++L++++EKL K N+EQK+KIR
Sbjct:   115 ARATELEKQVEVLKKFLEQKNKEKELIEAQTSETEKKLNELNSRVEKLHKTNEEQKNKIR 174

Query:   176 KTERALK---EEMMRAKFEATSRSKELTEVHSAWLPPWLAVHLLQCQSLIETHWNAHGKP 232
             K ERALK   EEM+R K EAT+++KEL EVH AWLPPW AVH    Q++  THW+AHGKP
Sbjct:   175 KLERALKISEEEMLRTKHEATTKAKELMEVHGAWLPPWFAVHWSSFQTVAGTHWDAHGKP 234

Query:   233 AMDVAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEA 292
              M+   QK    K QA KW +PH+  +K K+IPA+KE      T+VEPHVQTL TK  EA
Sbjct:   235 VMEKVTQKVTLAKNQAEKWAKPHMANVKTKYIPAIKE---TVKTHVEPHVQTLSTKAKEA 291

Query:   293 CEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVV 352
               A+K+AVTPHI++ QE VDPY+QEAKKFSKPY+DQVAT  KPHVD VR  +KPYT K V
Sbjct:   292 YHASKSAVTPHIVKFQEHVDPYYQEAKKFSKPYVDQVATATKPHVDKVRATMKPYTTKTV 351

Query:   353 RAYGKFLKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAASALLVLPVIILFRIGS 412
               Y +FL+SA+TYHHQ+QA+V+  LK HEL  P ATKE  WFAASALL LP+ I+++   
Sbjct:   352 HYYKEFLESASTYHHQLQANVESKLKSHELLEPFATKEFIWFAASALLALPIFIVYKFLC 411

Query:   413 AIFCKK 418
             ++FC K
Sbjct:   412 SLFCTK 417

GO:0005576 "extracellular region" evidence=ISM

GO:0005783 "endoplasmic reticulum" evidence=IDA

GO:0005774 "vacuolar membrane" evidence=IDA

TAIR|locus:2126470 AT4G30090 "AT4G30090" [Arabidopsis thaliana (taxid:3702)]

 Score = 413 (150.4 bits), Expect = 1.3e-38, P = 1.3e-38
 Identities = 87/265 (32%), Positives = 147/265 (55%)

Query:   151 KKISDLSAKLEKLQKINDEQKSKIR-KTERALKEEMMRAKFEATSRSKELTEVHSAWLPP 209
             K  S++  K+ +LQK     K ++  + +R L+ E   A  +    S +L  +   W   
Sbjct:   100 KHASEVEEKVYELQKQVFGLKREVETQRKRRLEVEAELADKKVAQLSSKLENI-DGWFLS 158

Query:   210 WLAVHLLQCQSLIETHWNAHGKPAMDVAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKE 269
              L ++  + Q+ + T W+ H  P +   +Q    K  Q  KW +PH+ET+ ++WIP++K+
Sbjct:   159 KLGLNPTESQAYLMTLWHQHLSPTLHTTLQMVSMKIEQVQKWSEPHIETLNSQWIPSIKD 218

Query:   270 QWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQV 329
               V  T  +EP VQ +  K+IE    +K A+TPH+I+  +    Y +  +  + PY  ++
Sbjct:   219 ACVTITIYLEPKVQYITDKSIELLYTSKQALTPHLIQGFDASYYYLEVIRTHTHPYTTRI 278

Query:   330 ATVAKPHVDNVRVALKPYTKKVVRAYGKFLKSATTYHHQVQASVQEMLKKHELTSPLATK 389
              T+ KPH++ V+VAL+PYT+ V   + K + S   YH Q Q    EMLK +E+T P+AT 
Sbjct:   279 MTLTKPHLERVQVALEPYTENVRHGFQKLVNSTKIYHQQAQ----EMLKNNEITKPVATM 334

Query:   390 ELEWFAASALLVLPVIILFRIGSAI 414
             +L W  A+AL+  P+I + ++ SA+
Sbjct:   335 DLAWVGATALIGFPLIFIIKLLSAV 359

GO:0003674 "molecular_function" evidence=ND

GO:0009793 "embryo development ending in seed dormancy" evidence=NAS

GO:0005783 "endoplasmic reticulum" evidence=IDA

UNIPROTKB|F1PCW0 GOLGA4 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 158 (60.7 bits), Expect = 1.5e-07, P = 1.5e-07
 Identities = 80/355 (22%), Positives = 161/355 (45%)

Query:    49 QLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKEL----SSLQKKET 104
             Q +S I+ L+  ++ KT+E   KDE +   ++ +  ++ER+V L+ E+    S L+KKE 
Sbjct:  1473 QYQSTIKELQMQLELKTKEASEKDEQIQLLKEDLDQQNERLVCLKGEMEDKKSKLEKKEC 1532

Query:   105 LNAAEQVDKAHARADELEKQIDNXXXXXXXXXXXXXXXXXRAIEAEKKISDLSAKLEKLQ 164
              N   ++    AR  ELE+ +                   +  + E+K  ++  KL+ +Q
Sbjct:  1533 -NLETELKTQTARIAELEEHLTQKTTEIKSLSEVLNSYNQQK-DTEQK--EMRQKLQHIQ 1588

Query:   165 KINDEQKSKIRKTERA---LKEEMMRAKFEATSRSKELTEVHSAWLPPWLAVHLLQCQSL 221
             ++ DE+  ++++ E     L++++   K E  ++ KEL   +S+          L+ +  
Sbjct:  1589 ELGDEKDCRVKEAEEKVSRLEKQVSSMKSELETKKKELDHANSSMKGKEEEFKALEDRLE 1648

Query:   222 IETHWN-AHGKPAMD---VAIQKAL-----EKKAQAGKWVQPHVETIKAKWIPAVKEQWV 272
             +E+    A  K   +   VAI+K L     EK+ Q  K  + H+  +  K    ++E+  
Sbjct:  1649 LESAAKLAELKKKAEQKIVAIKKQLLSQMEEKEQQYKKDTEGHLGELNTK----LQEK-- 1702

Query:   273 VFTTNVEPHVQTL--KTKTIEACEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVA 330
                   E  +Q L  K K++E    ++ +V P  ++       Y       ++  ID  +
Sbjct:  1703 ------EREIQVLEEKLKSVEGLPQSEASVVPTSVK-------YMVAC---AEQGIDPES 1746

Query:   331 TVAKPHVDNVRVALKPYTKK--VVRAYGKFLKSATTYHHQVQASVQEMLKKHELT 383
             +V K + +N+    +   +K  +++   +  +   + H ++Q   QE+L K E T
Sbjct:  1747 SVQKAYEENISTLQRSLMEKEKLLQRLEQEKEEMVSSHSEMQCRYQELLIKIEHT 1801

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

UNIPROTKB|G4N0Y1 MGG_09571 "Uncharacterized protein" [Magnaporthe oryzae 70-15 (taxid:242507)]

 Score = 136 (52.9 bits), Expect = 9.9e-06, P = 9.9e-06
 Identities = 75/365 (20%), Positives = 154/365 (42%)

Query:    33 TASDAVDSSPLKIELDQLKSKIRSLESHIDEKTQELKG----KDEVVAQKEKAIQDKSER 88
             T+S + DS  L+ ++ +L+ K+ + ++ +D +  ++K      DE+ A K+   ++K+E 
Sbjct:     9 TSSGSGDSKELQTKVKELQEKLDATKTQLDTRDSDIKTLVQRADELAAAKKPLEEEKTEL 68

Query:    89 IVSLQKELSSLQKK--ETLNAAEQVDKAHARADELEKQ---IDNXXXXXXXXXXXXXXXX 143
                L+K    L  +  E  +  + +D+ +A+ + L+K+   +D                 
Sbjct:    69 EAKLKKASEDLSTRDSEIKDLLKNIDQVNAKVESLKKEKAAVDQQLAEAQKGKEGAQKET 128

Query:   144 XRAIEA-EKKISDLSAKLEKLQKINDEQKSKIRKTERALKEEMMRAKFEATSRSKEL-TE 201
                I+A EK  ++L+A++EKL+    +  SK      +L++E  +   E  S    L  E
Sbjct:   129 LEKIDALEKAKAELNAQVEKLKSEVADVSSK----NDSLRQEQSKLLEETNSAKDTLKAE 184

Query:   202 VHSAWLPPWLAVHLLQCQSLIETHWNAHGKPAMDVAIQKALEKKAQAGKWVQPHVETIKA 261
             + +  +     +   +          A  K  ++  + K L+ +  A K      +   +
Sbjct:   185 LDAKIVALTSDLDAAKADLSRANEEAATTKTKLEEQV-KTLQAELDATK---KDAQAAAS 240

Query:   262 KWIPAVKEQWVVFTTNVEPHVQTLKT--KTIEACEATKTAVTPHIIRVQEVVDPYFQEAK 319
             K     K +     T +    + L+   K+ E  +A    +   I +++E +      A 
Sbjct:   241 KGTEEAKSEVTSLNTKIAKLEEDLEAANKSTETAQAEAATLKTKISKLEEDL-----AAA 295

Query:   320 KFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVRAYGKFLKSATTYHHQVQASVQEMLKK 379
             K     + Q A   K  +D+    ++  TK+      K LK+A     + QAS+++   +
Sbjct:   296 KSQSDKLTQEAEAQKKSLDDANAQIQAKTKETEDLLAK-LKAAEASVAEKQASLEKT--Q 352

Query:   380 HELTS 384
              ELTS
Sbjct:   353 AELTS 357

GO:0005575 "cellular_component" evidence=ND

UNIPROTKB|F1SQ11 EEA1 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 136 (52.9 bits), Expect = 2.3e-05, P = 2.3e-05
 Identities = 72/321 (22%), Positives = 134/321 (41%)

Query:    43 LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKK 102
             L+ E++QL SK+   E  + E    LK + ++ ++K   + DK +++  LQ +LS L+++
Sbjct:   412 LQSEINQLHSKLLETERQLGEAHGRLKEQRQLSSEK---LMDKEQQVADLQLKLSRLEEE 468

Query:   103 ETLNAAEQVDKAHARADELEKQIDNXXXXXXXXXXXXXXXXXRAIEAEKKISDLSAKLEK 162
                  A   +  H + D+ ++Q                       +  ++I D   K++ 
Sbjct:   469 LKEKVANSTELQH-QLDKTKQQHQEQQALQQSTTAKLREAQNDLEQVLRQIGDKDQKIQN 527

Query:   163 LQKINDEQKSKIRKTERALKEEMMRAKFEA----TSRSKELTEVHSAWLPPWLAVHLLQC 218
             L+ +  + K  I   E+  + E + AK +A    T+   +L E +       L   + Q 
Sbjct:   528 LEALLQKSKENISLLEK--EREDLYAKIQAGEGETAVLNQLQEKNHI-----LQEQVTQL 580

Query:   219 QSLIETHWNAHGKPAMDVAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNV 278
                ++    +H K A +    +  E+KA   +  Q  V +++A  I  +  Q       V
Sbjct:   581 TEKLKNQSESH-KQAQENLHDQVQEQKAHL-RAAQDRVLSLEAS-ISELSSQLNESKEKV 637

Query:   279 EP-HVQT-LKTKTIEACEATKTA----VTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATV 332
                 +Q   KT+ + + EA KTA    +  H+   Q  +    QE  K +   +DQV T 
Sbjct:   638 SQLDIQIKAKTELLLSAEAAKTAQRADLQNHLDTAQNALQDKQQELNKITTQ-LDQVTTK 696

Query:   333 AKP---HVDNVRVALKPYTKK 350
              +    H   +   LK Y +K
Sbjct:   697 LQDKQEHCGQLESHLKEYKEK 717

GO:0042803 "protein homodimerization activity" evidence=IEA

GO:0030742 "GTP-dependent protein binding" evidence=IEA

GO:0019897 "extrinsic to plasma membrane" evidence=IEA

GO:0006906 "vesicle fusion" evidence=IEA

GO:0006897 "endocytosis" evidence=IEA

GO:0005969 "serine-pyruvate aminotransferase complex" evidence=IEA

GO:0005829 "cytosol" evidence=IEA

GO:0005769 "early endosome" evidence=IEA

GO:0005545 "1-phosphatidylinositol binding" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|Q7Z7A1 CNTRL "Centriolin" [Homo sapiens (taxid:9606)]

 Score = 135 (52.6 bits), Expect = 5.2e-05, P = 5.2e-05
 Identities = 55/258 (21%), Positives = 117/258 (45%)

Query:    47 LDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQ------ 100
             L++L+  +R L+  +D+  ++       ++  ++ +Q+K E + SLQ+EL+++Q      
Sbjct:  1824 LEKLELNVRKLQQELDQLNRDKLSLHNDISAMQQQLQEKREAVNSLQEELANVQDHLNLA 1883

Query:   101 KKETLNAAEQVDKAHARADELEKQIDNXXXXXXXXXXXXXXXXXRAIEAEKKISDLSAKL 160
             K++ L+  +  D   +    L+K I                   +    + +I +   KL
Sbjct:  1884 KQDLLHTTKHQDVLLSEQTRLQKDISEWANRFEDCQKEEETKQQQLQVLQNEIEENKLKL 1943

Query:   161 -------EKLQKINDEQKSKIRKTERALKEEMMRAKFEATSRSKELTEVHSAWLPPWLAV 213
                    ++LQK  + ++SK+  ++  LKE+  + + E T +  +L +V S  L     V
Sbjct:  1944 VQQEMMFQRLQKERESEESKLETSKVTLKEQQHQLEKELTDQKSKLDQVLSKVLAAEERV 2003

Query:   214 HLLQ-----CQSLIETHWNAHGKPAMDVAIQKALEKKAQAGKWVQPHVETIKAKWIPAVK 268
               LQ     C+SL +T   +  K  +    Q+ +EK  +    +Q   ++++A +   ++
Sbjct:  2004 RTLQEEERWCESLEKTL--SQTKRQLSEREQQLVEKSGELLA-LQKEADSMRADF-SLLR 2059

Query:   269 EQWVVFTTNVEPHVQTLK 286
              Q++      E  V +LK
Sbjct:  2060 NQFLTERKKAEKQVASLK 2077

GO:0051301 "cell division" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0005813 "centrosome" evidence=IDA

GO:0000086 "G2/M transition of mitotic cell cycle" evidence=TAS

GO:0000278 "mitotic cell cycle" evidence=TAS

GO:0005829 "cytosol" evidence=TAS

UNIPROTKB|Q5T1M5 FKBP15 "FK506-binding protein 15" [Homo sapiens (taxid:9606)]

 Score = 132 (51.5 bits), Expect = 5.3e-05, P = 5.3e-05
 Identities = 57/289 (19%), Positives = 125/289 (43%)

Query:    40 SSPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELS-S 98
             ++ L+   +  ++++   E    + T+EL      V+  +  +    ++   LQ +L+ S
Sbjct:   617 NNSLQTATENTQARVLHAEQEKAKVTEELAAATAQVSHLQLKMTAHQKKETELQMQLTES 676

Query:    99 LQKKETLNAAEQVDKAHARADELEKQIDNXXXXXXXXXXXXXXXXXRAIEAEKKISDLSA 158
             L++ + L    Q+ K  A+  EL++  +                  +    E++++DL  
Sbjct:   677 LKETDLLRG--QLTKVQAKLSELQETSEQAQSKFKSEKQNRKQLELKVTSLEEELTDLRV 734

Query:   159 KLEKLQKINDEQKSKIRKTERALKEEM--MRAKF-EATSRSKELTEVHSAWLPPWLAVHL 215
             + E L+K   E+K K  +     +EE+  +R  + E   + ++L +          A  L
Sbjct:   735 EKESLEKNLSERKKKSAQERSQAEEEIDEIRKSYQEELDKLRQLLKKTRVSTDQAAAEQL 794

Query:   216 LQCQSLIETHWNAHGK----PAMDVAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQW 271
                Q+ ++T W A  +     A D  +Q+  E  AQ   + Q  V+ ++ K + A++ Q 
Sbjct:   795 SLVQAELQTQWEAKCEHLLASAKDEHLQQYQEVCAQRDAYQQKLVQ-LQEKCL-ALQAQI 852

Query:   272 VVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVVDPYFQEAKK 320
                T   E H++ L+ K        + A +    +V+++++  FQ  ++
Sbjct:   853 TALTKQNEQHIKELE-KNKSQMSGVEAAASDPSEKVKKIMNQVFQSLRR 900

GO:0006457 "protein folding" evidence=IEA

GO:0003779 "actin binding" evidence=IEA

GO:0006897 "endocytosis" evidence=IEA

GO:0005884 "actin filament" evidence=IEA

GO:0030426 "growth cone" evidence=IEA

GO:0005769 "early endosome" evidence=IEA

GO:0030424 "axon" evidence=IEA

GO:0010923 "negative regulation of phosphatase activity" evidence=IDA

TAIR|locus:2032520 AT1G28410 "AT1G28410" [Arabidopsis thaliana (taxid:3702)]

 Score = 123 (48.4 bits), Expect = 5.4e-05, P = 5.4e-05
 Identities = 36/136 (26%), Positives = 66/136 (48%)

Query:   285 LKTKTIEACEATKTAVTPHIIRVQEVVDPY-FQEAKKFSK---PYIDQVATVAKPHVDNV 340
             LK K +E  + T+  VT   I+VQ +     F   +  +    P++  ++ + + H+  V
Sbjct:   134 LKAKALEVEQMTEV-VTEQWIQVQHLEQMREFNNRRHHTPSRCPFVKLMSDIQRKHLPKV 192

Query:   341 RVA------------LKPYTKKVVRAYGKFLKSATTYHHQVQASVQEMLKKHELTSPLAT 388
               A            ++PY  K +        + T YHHQ+Q  ++  +++ E+T+ LA 
Sbjct:   193 DEAFDIHWKGKKVLSVQPYLTKALSQLKSLWAAVTKYHHQLQGFIEHEMERTEITAALAN 252

Query:   389 KELEWFAASALLVLPV 404
             +E+ +F ASAL+  PV
Sbjct:   253 REVVFFMASALITFPV 268

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0009507 "chloroplast" evidence=ISM

ZFIN|ZDB-GENE-030616-162 myh10 "myosin, heavy chain 10, non-muscle" [Danio rerio (taxid:7955)]

 Score = 134 (52.2 bits), Expect = 5.6e-05, P = 5.6e-05
 Identities = 93/382 (24%), Positives = 165/382 (43%)

Query:    17 LTA-ADVSIQGEDVPPLTASDAVDSSPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVV 75
             +TA A +    ED+  L   D  +S  LK E   L+ ++  + S + E+ ++ K   +V 
Sbjct:   993 VTAEAKIKKMEEDI--LLLEDQ-NSKFLK-EKKLLEDRVGEMTSQLAEEEEKAKNLGKVK 1048

Query:    76 AQKEKAIQDKSERIVSLQK---ELSSLQKK---ETLNAAEQVDKAHARADELEKQIDNXX 129
              ++E  + D  ER+   +K   EL   ++K   ET +  +Q+ +  A+ DEL+ Q+    
Sbjct:  1049 NKQEMMMVDLEERLKKEEKTRQELEKAKRKLDAETTDLQDQIAELQAQIDELKIQLAKKE 1108

Query:   130 XXXXXXXXXXXXXXXRAIEAEKKISDLSAKLEKLQKINDEQKS---KIRKTERALKEEMM 186
                            +   A K++ +L A+L +LQ+  + +K+   K  K +R L EE+ 
Sbjct:  1109 EELQAVLARGDEEVAQKNNALKQLRELQAQLAELQEDLESEKAARNKAEKLKRDLSEELE 1168

Query:   187 RAKFE------ATSRSKELT---EVHSAWLPPWLAVHLLQCQSLIETHWNAHGKPAMDVA 237
               K E       T+  +EL    E   A L   +       +S I+     HG      A
Sbjct:  1169 ALKTELEDTLDTTAAQQELRSKREQEVAELKKAIDDETRNHESQIQEMRQRHG-----TA 1223

Query:   238 IQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATK 297
             +++  E+  QA K V+ ++E  K       KE      TN    +Q  K+++    E  +
Sbjct:  1224 LEEISEQLEQA-KRVKGNLEKNKQTLESDNKE-----LTNEVKSLQQAKSES----EHKR 1273

Query:   298 TAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVRAYGK 357
               +   +   QEV+   F E +K      D+   + +  +DNV   L+   KK +    K
Sbjct:  1274 KKLEAQL---QEVM-ARFSEGEKVKGELADRTHKI-QTELDNVSCLLEDAEKKGI----K 1324

Query:   358 FLKSATTYHHQVQASVQEMLKK 379
               K  ++   Q+Q   QE+L++
Sbjct:  1325 LTKDVSSLESQLQ-DTQELLQE 1345

GO:0016459 "myosin complex" evidence=IEA

GO:0003774 "motor activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0051015 "actin filament binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003779 "actin binding" evidence=IEA

---

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: GSVIVG00032356001 SubName- Full=Chromosome chr4 scaffold_6, whole genome shotgun sequence; (449 aa) (Vitis vinifera)

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	441
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	2e-13
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	3e-11
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	8e-11
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	9e-10
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	1e-09
COG1579	239	COG1579, COG1579, Zn-ribbon protein, possibly nucl	1e-09
PRK12704	520	PRK12704, PRK12704, phosphodiesterase; Provisional	1e-09
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	2e-09
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	3e-09
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	3e-09
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	6e-09
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	3e-08
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	4e-08
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	4e-08
PRK02224	880	PRK02224, PRK02224, chromosome segregation protein	4e-08
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	6e-08
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	9e-08
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	1e-07
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	1e-07
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	3e-07
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	3e-07
TIGR03319	514	TIGR03319, RNase_Y, ribonuclease Y	3e-07
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	5e-07
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	5e-07
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	1e-06
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	2e-06
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	2e-06
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	2e-06
COG0419	908	COG0419, SbcC, ATPase involved in DNA repair [DNA	2e-06
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	3e-06
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	3e-06
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	3e-06
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	4e-06
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	4e-06
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	6e-06
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	9e-06
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	9e-06
PRK00106	535	PRK00106, PRK00106, hypothetical protein; Provisio	9e-06
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	1e-05
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	1e-05
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	1e-05
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	2e-05
COG1579	239	COG1579, COG1579, Zn-ribbon protein, possibly nucl	3e-05
TIGR04211	198	TIGR04211, SH3_and_anchor, SH3 domain protein	3e-05
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	4e-05
pfam12329	74	pfam12329, TMF_DNA_bd, TATA element modulatory fac	4e-05
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	5e-05
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	6e-05
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	6e-05
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	8e-05
TIGR03319	514	TIGR03319, RNase_Y, ribonuclease Y	9e-05
COG0419	908	COG0419, SbcC, ATPase involved in DNA repair [DNA	9e-05
PRK02224	880	PRK02224, PRK02224, chromosome segregation protein	1e-04
COG0419	908	COG0419, SbcC, ATPase involved in DNA repair [DNA	1e-04
TIGR04211	198	TIGR04211, SH3_and_anchor, SH3 domain protein	1e-04
PRK11637	428	PRK11637, PRK11637, AmiB activator; Provisional	1e-04
COG0419	908	COG0419, SbcC, ATPase involved in DNA repair [DNA	2e-04
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	2e-04
pfam13166	713	pfam13166, AAA_13, AAA domain	2e-04
pfam08614	194	pfam08614, ATG16, Autophagy protein 16 (ATG16)	2e-04
PRK00409	782	PRK00409, PRK00409, recombination and DNA strand e	2e-04
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	3e-04
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	3e-04
pfam03962	188	pfam03962, Mnd1, Mnd1 family	3e-04
COG1283	533	COG1283, NptA, Na+/phosphate symporter [Inorganic	3e-04
PRK09039	343	PRK09039, PRK09039, hypothetical protein; Validate	4e-04
TIGR01554	384	TIGR01554, major_cap_HK97, phage major capsid prot	5e-04
COG4372	499	COG4372, COG4372, Uncharacterized protein conserve	5e-04
PRK11448	1123	PRK11448, hsdR, type I restriction enzyme EcoKI su	5e-04
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	6e-04
pfam05262	489	pfam05262, Borrelia_P83, Borrelia P83/100 protein	6e-04
PRK12704	520	PRK12704, PRK12704, phosphodiesterase; Provisional	8e-04
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	8e-04
PTZ00108	1388	PTZ00108, PTZ00108, DNA topoisomerase 2-like prote	8e-04
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	0.001
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	0.001
pfam08317	321	pfam08317, Spc7, Spc7 kinetochore protein	0.001
COG5185	622	COG5185, HEC1, Protein involved in chromosome segr	0.001
pfam04156	186	pfam04156, IncA, IncA protein	0.001
PRK02224	880	PRK02224, PRK02224, chromosome segregation protein	0.002
PRK00409	782	PRK00409, PRK00409, recombination and DNA strand e	0.002
smart00787	312	smart00787, Spc7, Spc7 kinetochore protein	0.002
COG1322	448	COG1322, COG1322, Predicted nuclease of restrictio	0.002
PRK11281	1113	PRK11281, PRK11281, hypothetical protein; Provisio	0.002
PHA02562	562	PHA02562, 46, endonuclease subunit; Provisional	0.002
COG4499	434	COG4499, COG4499, Predicted membrane protein [Func	0.002
COG4942	420	COG4942, COG4942, Membrane-bound metallopeptidase	0.002
COG4487	438	COG4487, COG4487, Uncharacterized protein conserve	0.002
PRK02224	880	PRK02224, PRK02224, chromosome segregation protein	0.003
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	0.003
COG0419	908	COG0419, SbcC, ATPase involved in DNA repair [DNA	0.003
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	0.003
pfam08317	321	pfam08317, Spc7, Spc7 kinetochore protein	0.003
PRK10636	638	PRK10636, PRK10636, putative ABC transporter ATP-b	0.003
TIGR02680	1353	TIGR02680, TIGR02680, TIGR02680 family protein	0.003
TIGR04320	356	TIGR04320, Surf_Exclu_PgrA, SEC10/PgrA surface exc	0.003
pfam14235	158	pfam14235, DUF4337, Domain of unknown function (DU	0.003
COG2433	652	COG2433, COG2433, Uncharacterized conserved protei	0.004
pfam00012	598	pfam00012, HSP70, Hsp70 protein	0.004

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

 Score = 72.4 bits (178), Expect = 2e-13
 Identities = 42/159 (26%), Positives = 85/159 (53%), Gaps = 1/159 (0%)

Query: 43  LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKK 102
           LK E+++L+ K ++L+  ++E  +EL+  +  +   E+ ++   +R   L++E+  L++ 
Sbjct: 777 LKEEIEELEEKRQALQEELEELEEELEEAERRLDALERELESLEQRRERLEQEIEELEE- 835

Query: 103 ETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEK 162
           E     E++D+     +ELEK+++ LK+E E+ + EKE LE    E E++  +L  +L +
Sbjct: 836 EIEELEEKLDELEEELEELEKELEELKEELEELEAEKEELEDELKELEEEKEELEEELRE 895

Query: 163 LQKINDEQKSKIRKTERALKEEMMRAKFEATSRSKELTE 201
           L+    E K +I K    L+E   + +       +   E
Sbjct: 896 LESELAELKEEIEKLRERLEELEAKLERLEVELPELEEE 934

Length = 1163

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

 Score = 65.5 bits (160), Expect = 3e-11
 Identities = 38/148 (25%), Positives = 80/148 (54%), Gaps = 6/148 (4%)

Query: 43  LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSL-QK 101
           L+ EL++L+ +++  E  ++E T EL+  +E + +    + +  E I  LQKEL +L  +
Sbjct: 237 LREELEELQEELKEAEEELEELTAELQELEEKLEELRLEVSELEEEIEELQKELYALANE 296

Query: 102 KETLN-----AAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDL 156
              L        E++     + +ELE Q++ L+ + ++  +E   LE +  E ++++  L
Sbjct: 297 ISRLEQQKQILRERLANLERQLEELEAQLEELESKLDELAEELAELEEKLEELKEELESL 356

Query: 157 SAKLEKLQKINDEQKSKIRKTERALKEE 184
            A+LE+L+   +E +S++ + E  L+  
Sbjct: 357 EAELEELEAELEELESRLEELEEQLETL 384

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 = 64.0 bits (156), Expect = 8e-11
 Identities = 37/178 (20%), Positives = 84/178 (47%), Gaps = 20/178 (11%)

Query: 44  KIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKE 103
           ++EL  L +K++ L   ++E  +EL   +E + + ++ +++  + I  L+ EL  L+++ 
Sbjct: 224 ELELALLLAKLKELRKELEELEEELSRLEEELEELQEELEEAEKEIEELKSELEELREEL 283

Query: 104 TLNAAE--------------------QVDKAHARADELEKQIDNLKKESEKQQKEKEALE 143
                E                    ++++     +ELE++++ LK++ E  ++E E  E
Sbjct: 284 EELQEELLELKEEIEELEGEISLLRERLEELENELEELEERLEELKEKIEALKEELEERE 343

Query: 144 ARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKEEMMRAKFEATSRSKELTE 201
               E E+ +++L    E+L++       ++ +   AL+EE+   + E      EL E
Sbjct: 344 TLLEELEQLLAELEEAKEELEEKLSALLEELEELFEALREELAELEAELAEIRNELEE 401

Length = 1163

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

 Score = 60.9 bits (148), Expect = 9e-10
 Identities = 33/163 (20%), Positives = 77/163 (47%), Gaps = 1/163 (0%)

Query: 44  KIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKE 103
           K EL +L+ ++  LE+ +++  +ELK     +   E  +++   ++  L+++L  L+++ 
Sbjct: 666 KRELKELEEELAELEAQLEKLEEELKSLKNELRSLEDLLEELRRQLEELERQLEELKREL 725

Query: 104 TLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKL 163
                E      +R +ELE++++ L++E E+ Q+  E LE      E+ ++ L  ++E+L
Sbjct: 726 AALEEELEQLQ-SRLEELEEELEELEEELEELQERLEELEEELESLEEALAKLKEEIEEL 784

Query: 164 QKINDEQKSKIRKTERALKEEMMRAKFEATSRSKELTEVHSAW 206
           ++     + ++ + E  L+E   R                   
Sbjct: 785 EEKRQALQEELEELEEELEEAERRLDALERELESLEQRRERLE 827

Length = 1163

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

 Score = 60.1 bits (146), Expect = 1e-09
 Identities = 39/175 (22%), Positives = 81/175 (46%), Gaps = 4/175 (2%)

Query: 34  ASDAVDSSPL--KIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVS 91
            S   +SS L  + E+++L+ KI  LE  I E  + L    + + + E+ ++   + +  
Sbjct: 664 GSAKTNSSILERRREIEELEEKIEELEEKIAELEKALAELRKELEELEEELEQLRKELEE 723

Query: 92  LQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEK 151
           L +++ S  +K+      +V++   R  +L K++  L+ E E+ ++  E  E    EAE 
Sbjct: 724 LSRQI-SALRKDLARLEAEVEQLEERIAQLSKELTELEAEIEELEERLEEAEEELAEAEA 782

Query: 152 KISDLSAKLEKLQKINDEQKSKIRKTERALKEEMMRAKFEATSRSKELTEVHSAW 206
           +I +L A++E+L++     +  + +    L      A      R + L    +A 
Sbjct: 783 EIEELEAQIEQLKEELKALREALDELRAELTLLNEEA-ANLRERLESLERRIAAT 836

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

 Score = 58.1 bits (141), Expect = 1e-09
 Identities = 40/142 (28%), Positives = 77/142 (54%), Gaps = 3/142 (2%)

Query: 46  ELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETL 105
            L + K+++ +L   ++    EL+  +  V+Q E  IQ+  ERI   +++LS+++ +  L
Sbjct: 32  ALKKAKAELEALNKALEALEIELEDLENQVSQLESEIQEIRERIKRAEEKLSAVKDEREL 91

Query: 106 NAAEQ-VDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLE-KL 163
            A    +  A  R + LE ++  L +E EK +KE E L+ R    EK +++  A+LE ++
Sbjct: 92  RALNIEIQIAKERINSLEDELAELMEEIEKLEKEIEDLKERLERLEKNLAEAEARLEEEV 151

Query: 164 QKINDEQKSKIRKTERALKEEM 185
            +I +E +  +      LKE++
Sbjct: 152 AEIREEGQE-LSSKREELKEKL 172

Length = 239

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

 Score = 59.4 bits (145), Expect = 1e-09
 Identities = 41/141 (29%), Positives = 76/141 (53%), Gaps = 8/141 (5%)

Query: 64  KTQELKGKDEVVAQKEKAIQDKSERIVSLQK-ELSSLQKKETLN-AAEQVDKAHARADEL 121
           K   L+ K+E+   + +  ++  ER   LQK E   LQK+E L+   E ++K     ++ 
Sbjct: 56  KEALLEAKEEIHKLRNEFEKELRERRNELQKLEKRLLQKEENLDRKLELLEKREEELEKK 115

Query: 122 EKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLS---AKLEKLQKINDEQKSKIRKTE 178
           EK+++  ++E EK+++E E L    ++  ++IS L+   AK   L+K+ +E + +     
Sbjct: 116 EKELEQKQQELEKKEEELEELIEEQLQELERISGLTAEEAKEILLEKVEEEARHEAAVL- 174

Query: 179 RALKEEMMRAKFEATSRSKEL 199
             +KE    AK EA  ++KE+
Sbjct: 175 --IKEIEEEAKEEADKKAKEI 193

Length = 520

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

 Score = 59.7 bits (145), Expect = 2e-09
 Identities = 44/162 (27%), Positives = 81/162 (50%), Gaps = 23/162 (14%)

Query: 43  LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKK 102
           LK EL  L+S++R +E+ +DE +QEL               D S +I  ++KE+  L+++
Sbjct: 686 LKRELSSLQSELRRIENRLDELSQEL--------------SDASRKIGEIEKEIEQLEQE 731

Query: 103 ETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEK 162
           E        +K   R +ELE+ + +L++E E  + E + LEAR  E E+ +  L   L  
Sbjct: 732 E--------EKLKERLEELEEDLSSLEQEIENVKSELKELEARIEELEEDLHKLEEALND 783

Query: 163 L-QKINDEQKSKIRKTERALKEEMMRAKFEATSRSKELTEVH 203
           L  +++  +  +I+     L+EE+ R +       ++L  + 
Sbjct: 784 LEARLSHSRIPEIQAELSKLEEEVSRIEARLREIEQKLNRLT 825

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

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

 Score = 58.9 bits (143), Expect = 3e-09
 Identities = 36/161 (22%), Positives = 80/161 (49%), Gaps = 4/161 (2%)

Query: 41  SPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQ 100
             L+ +L +L+  +  LE+ +      +      +++ E+ +     R+  ++++L+ L 
Sbjct: 768 EELEEDLHKLEEALNDLEARLSH--SRIPEIQAELSKLEEEVSRIEARLREIEQKLNRLT 825

Query: 101 KKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKL 160
            ++     +++ +   +  +L++QI +++KE E    +KE LE    E E  + DL ++L
Sbjct: 826 LEKEY-LEKEIQELQEQRIDLKEQIKSIEKEIENLNGKKEELEEELEELEAALRDLESRL 884

Query: 161 EKLQKINDEQKSKIRKTERALKEEMMRAKFEATSRSKELTE 201
             L+K  DE ++++R+ ER   EE+     +   R  EL  
Sbjct: 885 GDLKKERDELEAQLRELERK-IEELEAQIEKKRKRLSELKA 924

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

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

 Score = 58.9 bits (143), Expect = 3e-09
 Identities = 43/177 (24%), Positives = 86/177 (48%), Gaps = 17/177 (9%)

Query: 46  ELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSE--------RIVSLQKELS 97
           +L  L+ ++  L   I E  + L+  ++++ +  K I+D  E        +I  L+ E++
Sbjct: 245 QLASLEEELEKLTEEISELEKRLEEIEQLLEELNKKIKDLGEEEQLRVKEKIGELEAEIA 304

Query: 98  SLQKKETLN------AAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEK 151
           SL++           A E++ K  A  D+L  +I+ L++E E+++K ++ L     E ++
Sbjct: 305 SLERSIAEKERELEDAEERLAKLEAEIDKLLAEIEELEREIEEERKRRDKLTEEYAELKE 364

Query: 152 KISDLSAKLEKLQKINDE--QKSKIRKTE-RALKEEMMRAKFEATSRSKELTEVHSA 205
           ++ DL A+LE++ K   E   + K  + +   LK E+   K E     +EL  +   
Sbjct: 365 ELEDLRAELEEVDKEFAETRDELKDYREKLEKLKREINELKRELDRLQEELQRLSEE 421

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

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

 Score = 58.2 bits (141), Expect = 6e-09
 Identities = 39/166 (23%), Positives = 80/166 (48%), Gaps = 4/166 (2%)

Query: 43  LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKS---ERIVSLQKELSSL 99
           LK E+++L+ +I  L   ++E   EL+  +E + + ++ I+      E   +L +EL  L
Sbjct: 293 LKEEIEELEGEISLLRERLEELENELEELEERLEELKEKIEALKEELEERETLLEELEQL 352

Query: 100 QKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAK 159
             +      E  +K  A  +ELE+  + L++E  + + E   +     E +++I  L  +
Sbjct: 353 LAELEEAKEELEEKLSALLEELEELFEALREELAELEAELAEIRNELEELKREIESLEER 412

Query: 160 LEKLQKINDEQKSKIRKTERALKEEMMRAKFEATSRSKELTEVHSA 205
           LE+L +  ++ K ++++ E  L+E     + E     +EL E    
Sbjct: 413 LERLSERLEDLKEELKELEAELEELQTELE-ELNEELEELEEQLEE 457

Length = 1163

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

 Score = 55.8 bits (135), Expect = 3e-08
 Identities = 37/161 (22%), Positives = 77/161 (47%), Gaps = 7/161 (4%)

Query: 43  LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKK 102
           L  EL +L+++I  LE  ++E  +EL   +  + + E  I+   E + +L++ L  L+ +
Sbjct: 752 LSKELTELEAEIEELEERLEEAEEELAEAEAEIEELEAQIEQLKEELKALREALDELRAE 811

Query: 103 ETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEK 162
            TL   E  +    R + LE++I   ++  E  +++ E L         +I +L   +E+
Sbjct: 812 LTLLNEEAANLR-ERLESLERRIAATERRLEDLEEQIEELSEDIESLAAEIEELEELIEE 870

Query: 163 LQ-KINDEQKSKIRKTERALKEEMMRAKFEATSRSKELTEV 202
           L+ ++      +      +L+E +   + E    S+EL E+
Sbjct: 871 LESELEALLNER-----ASLEEALALLRSELEELSEELREL 906

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 = 55.5 bits (134), Expect = 4e-08
 Identities = 42/162 (25%), Positives = 95/162 (58%), Gaps = 5/162 (3%)

Query: 43  LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKK 102
           L+ EL++L+ ++  L+  ++E  +EL+  +E +A+ ++ I++  E+  +LQ+EL  L+++
Sbjct: 742 LEEELEELEEELEELQERLEELEEELESLEEALAKLKEEIEELEEKRQALQEELEELEEE 801

Query: 103 ETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEK 162
               A  ++D      + LE++ + L++E E+ ++E E LE +  E E+++ +L  +LE+
Sbjct: 802 LEE-AERRLDALERELESLEQRRERLEQEIEELEEEIEELEEKLDELEEELEELEKELEE 860

Query: 163 LQKINDEQKSKIRKTERALKEEMMRAKFEATSRSKELTEVHS 204
           L+    E+  ++   +  L++E+   + E     +EL E+ S
Sbjct: 861 LK----EELEELEAEKEELEDELKELEEEKEELEEELRELES 898

Length = 1163

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

 Score = 55.5 bits (134), Expect = 4e-08
 Identities = 35/149 (23%), Positives = 76/149 (51%), Gaps = 4/149 (2%)

Query: 39  DSSPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSS 98
           +   LK  L++L+  + SLE  I+    ELK  +  + + E+ +    E +  L+  LS 
Sbjct: 731 EEEKLKERLEELEEDLSSLEQEIENVKSELKELEARIEELEEDLHKLEEALNDLEARLSH 790

Query: 99  LQKKETLNAAEQVDKAH----ARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKIS 154
            +  E      ++++      AR  E+E++++ L  E E  +KE + L+ + I+ +++I 
Sbjct: 791 SRIPEIQAELSKLEEEVSRIEARLREIEQKLNRLTLEKEYLEKEIQELQEQRIDLKEQIK 850

Query: 155 DLSAKLEKLQKINDEQKSKIRKTERALKE 183
            +  ++E L    +E + ++ + E AL++
Sbjct: 851 SIEKEIENLNGKKEELEEELEELEAALRD 879

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|179385 PRK02224, PRK02224, chromosome segregation protein; Provisional

 Score = 55.0 bits (133), Expect = 4e-08
 Identities = 44/174 (25%), Positives = 89/174 (51%), Gaps = 16/174 (9%)

Query: 43  LKIELDQLKSKI------RSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKEL 96
           L+ E+++++ ++         E  I+   +  +  +E++A++ + I++K ER   L++  
Sbjct: 487 LEEEVEEVEERLERAEDLVEAEDRIERLEERREDLEELIAERRETIEEKRERAEELRERA 546

Query: 97  SSL-----QKKETLNAA-EQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAE 150
           + L     +K+E    A E+ ++A     EL  ++  LK+  E  ++ +  L A A +AE
Sbjct: 547 AELEAEAEEKREAAAEAEEEAEEAREEVAELNSKLAELKERIESLERIRTLLAAIA-DAE 605

Query: 151 KKISDLSAKLEKLQKINDEQKSKI---RKTERALKEEMMRAKFEATSRSKELTE 201
            +I  L  K E L ++NDE++ ++   R+ +R L+ E   A+ E     KE  E
Sbjct: 606 DEIERLREKREALAELNDERRERLAEKRERKRELEAEFDEARIEEAREDKERAE 659

Length = 880

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

 Score = 54.7 bits (132), Expect = 6e-08
 Identities = 43/168 (25%), Positives = 85/168 (50%), Gaps = 27/168 (16%)

Query: 43  LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQK- 101
           +K ++ +L+++I SLE  I EK +EL+  +E +A+ E  I      I  L++E+   +K 
Sbjct: 292 VKEKIGELEAEIASLERSIAEKERELEDAEERLAKLEAEIDKLLAEIEELEREIEEERKR 351

Query: 102 -----------KETLNA----AEQVDKAHARA-----------DELEKQIDNLKKESEKQ 135
                      KE L       E+VDK  A             ++L+++I+ LK+E ++ 
Sbjct: 352 RDKLTEEYAELKEELEDLRAELEEVDKEFAETRDELKDYREKLEKLKREINELKRELDRL 411

Query: 136 QKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKE 183
           Q+E + L     +    I+ + AK+ +L++  +++  +I+K E  L++
Sbjct: 412 QEELQRLSEELADLNAAIAGIEAKINELEEEKEDKALEIKKQEWKLEQ 459

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

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

 Score = 54.3 bits (131), Expect = 9e-08
 Identities = 30/138 (21%), Positives = 71/138 (51%), Gaps = 4/138 (2%)

Query: 46  ELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETL 105
           EL +LK +I  LE  I    + L+  +  + + E+ +++  E+I +L++EL   +     
Sbjct: 289 ELLELKEEIEELEGEISLLRERLEELENELEELEERLEELKEKIEALKEELEERETLLEE 348

Query: 106 NAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQK 165
              + + +     +ELE+++  L +E E   +  EAL     E E +++++  +LE+L++
Sbjct: 349 -LEQLLAELEEAKEELEEKLSALLEELE---ELFEALREELAELEAELAEIRNELEELKR 404

Query: 166 INDEQKSKIRKTERALKE 183
             +  + ++ +    L++
Sbjct: 405 EIESLEERLERLSERLED 422

Length = 1163

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

 Score = 53.9 bits (130), Expect = 1e-07
 Identities = 37/156 (23%), Positives = 73/156 (46%), Gaps = 11/156 (7%)

Query: 46  ELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETL 105
           +L++ +  +  LE  ++E  ++L+  +    Q EKA     ER   L+ EL  L+    L
Sbjct: 180 KLERTEENLERLEDLLEELEKQLEKLER---QAEKA-----ERYQELKAELRELELALLL 231

Query: 106 NAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQK 165
               ++ +     +ELE+++  L++E E+ Q+E E  E    E + ++ +L  +LE+LQ+
Sbjct: 232 A---KLKELRKELEELEEELSRLEEELEELQEELEEAEKEIEELKSELEELREELEELQE 288

Query: 166 INDEQKSKIRKTERALKEEMMRAKFEATSRSKELTE 201
              E K +I + E  +     R +       +    
Sbjct: 289 ELLELKEEIEELEGEISLLRERLEELENELEELEER 324

Length = 1163

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

 Score = 54.2 bits (130), Expect = 1e-07
 Identities = 34/138 (24%), Positives = 68/138 (49%), Gaps = 1/138 (0%)

Query: 46  ELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETL 105
            +D L+  +R  +  I+   QEL+ ++E++AQ       + E+   LQ+E   L  KE  
Sbjct: 239 RIDLLQELLRDEQEEIESSKQELEKEEEILAQ-VLKENKEEEKEKKLQEEELKLLAKEEE 297

Query: 106 NAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQK 165
               ++ K   R  + E+++   +KE +K +KE +  +    E EK++ +L  K E  ++
Sbjct: 298 ELKSELLKLERRKVDDEEKLKESEKELKKLEKELKKEKEEIEELEKELKELEIKREAEEE 357

Query: 166 INDEQKSKIRKTERALKE 183
             ++ +    K E+  +E
Sbjct: 358 EEEQLEKLQEKLEQLEEE 375

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

 Score = 52.8 bits (127), Expect = 3e-07
 Identities = 42/167 (25%), Positives = 83/167 (49%), Gaps = 19/167 (11%)

Query: 46  ELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETL 105
           EL++++  I  L+  IDEK Q+L+       ++E+   +K+ER  +L KE    +  E L
Sbjct: 178 ELEEVEENIERLDLIIDEKRQQLER-----LRRER---EKAERYQALLKEKREYEGYELL 229

Query: 106 NAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKL-- 163
              E +++       +E+Q+ +L++E EK  +E   LE R  E E+ + +L+ K++ L  
Sbjct: 230 KEKEALERQKEA---IERQLASLEEELEKLTEEISELEKRLEEIEQLLEELNKKIKDLGE 286

Query: 164 ------QKINDEQKSKIRKTERALKEEMMRAKFEATSRSKELTEVHS 204
                 ++   E +++I   ER++ E+    +      +K   E+  
Sbjct: 287 EEQLRVKEKIGELEAEIASLERSIAEKERELEDAEERLAKLEAEIDK 333

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

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

 Score = 52.4 bits (126), Expect = 3e-07
 Identities = 39/155 (25%), Positives = 75/155 (48%), Gaps = 23/155 (14%)

Query: 46  ELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDK-------SERIVSLQKELSS 98
           EL +L+ ++  +E+ + E  Q+L          EK IQ+         E+I S++KE+ +
Sbjct: 799 ELSKLEEEVSRIEARLREIEQKLNRLTLEKEYLEKEIQELQEQRIDLKEQIKSIEKEIEN 858

Query: 99  LQK---------KETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEA 149
           L           +E   A   ++       +L+K+ D L+ +  + +++ E LEA+  + 
Sbjct: 859 LNGKKEELEEELEELEAALRDLESRLG---DLKKERDELEAQLRELERKIEELEAQIEKK 915

Query: 150 EKKISDLSAKLEKLQKINDEQKSKIRKTERALKEE 184
            K++S+L AKLE L+    E+ S+I   +   +E 
Sbjct: 916 RKRLSELKAKLEALE----EELSEIEDPKGEDEEI 946

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|188306 TIGR03319, RNase_Y, ribonuclease Y

 Score = 52.2 bits (126), Expect = 3e-07
 Identities = 40/146 (27%), Positives = 75/146 (51%), Gaps = 6/146 (4%)

Query: 58  ESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETL--NAAEQVDKAH 115
           E+   +K   L+ K+EV   + +  ++  ER   LQ+    L ++E       E +DK  
Sbjct: 44  EAETLKKEALLEAKEEVHKLRAELERELKERRNELQRLERRLLQREETLDRKMESLDKKE 103

Query: 116 ARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIR 175
              ++ EK++ N +K  +++++E E L A   E  ++IS L+ + E  + + +E + + R
Sbjct: 104 ENLEKKEKELSNKEKNLDEKEEELEELIAEQREELERISGLTQE-EAKEILLEEVEEEAR 162

Query: 176 KTERA--LKEEMMRAKFEATSRSKEL 199
             E A  +KE    AK EA  ++KE+
Sbjct: 163 -HEAAKLIKEIEEEAKEEADKKAKEI 187

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

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

 Score = 51.6 bits (124), Expect = 5e-07
 Identities = 37/144 (25%), Positives = 84/144 (58%), Gaps = 3/144 (2%)

Query: 43  LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSL--Q 100
           L+  L++LK KI +L+  ++E+   L+  ++++A+ E+A ++  E++ +L +EL  L   
Sbjct: 321 LEERLEELKEKIEALKEELEERETLLEELEQLLAELEEAKEELEEKLSALLEELEELFEA 380

Query: 101 KKETLNAAE-QVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAK 159
            +E L   E ++ +     +EL+++I++L++  E+  +  E L+    E E ++ +L  +
Sbjct: 381 LREELAELEAELAEIRNELEELKREIESLEERLERLSERLEDLKEELKELEAELEELQTE 440

Query: 160 LEKLQKINDEQKSKIRKTERALKE 183
           LE+L +  +E + ++ +    LKE
Sbjct: 441 LEELNEELEELEEQLEELRDRLKE 464

Length = 1163

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

 Score = 52.0 bits (125), Expect = 5e-07
 Identities = 30/159 (18%), Positives = 78/159 (49%), Gaps = 5/159 (3%)

Query: 43  LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKK 102
           L  E+ +L+ + + L   +    ++L+  +  + + E  + + +E +  L+++L  L++ 
Sbjct: 293 LANEISRLEQQKQILRERLANLERQLEELEAQLEELESKLDELAEELAELEEKLEELKE- 351

Query: 103 ETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEK 162
           E  +   ++++  A  +ELE +++ L+++ E  + +   LE +      +I  L A+LE+
Sbjct: 352 ELESLEAELEELEAELEELESRLEELEEQLETLRSKVAQLELQIASLNNEIERLEARLER 411

Query: 163 LQKINDEQKSKIRKTERALKEEMMRAKFEATSRSKELTE 201
           L+   +  + +I      L +++  A+ +      E  E
Sbjct: 412 LEDRRERLQQEI----EELLKKLEEAELKELQAELEELE 446

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

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

 Score = 50.8 bits (122), Expect = 1e-06
 Identities = 47/165 (28%), Positives = 87/165 (52%), Gaps = 13/165 (7%)

Query: 43  LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSL--- 99
           LK +L +LK +I+SL+  + EK +ELK K   +   EK + +  E +  L KEL  L   
Sbjct: 530 LKEKLIKLKGEIKSLKKEL-EKLEELKKKLAEL---EKKLDELEEELAELLKELEELGFE 585

Query: 100 ---QKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDL 156
              + +E L   E     +    + EK+++  +KE +K ++E +       E EK++ +L
Sbjct: 586 SVEELEERLKELEPFYNEYLELKDAEKELEREEKELKKLEEELDKAFEELAETEKRLEEL 645

Query: 157 SAKLEKLQKI-NDEQKSKIRKTERALKEEM--MRAKFEATSRSKE 198
             +LE+L+K  ++E+  ++R+    L  E+  +RA+ E   + +E
Sbjct: 646 RKELEELEKKYSEEEYEELREEYLELSRELAGLRAELEELEKRRE 690

Length = 880

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

 Score = 49.7 bits (119), Expect = 2e-06
 Identities = 35/174 (20%), Positives = 88/174 (50%), Gaps = 15/174 (8%)

Query: 43  LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKK 102
           L+ +L++L+ ++  L+  +    +EL+     + + E+ +++  E +  LQ+ L   + +
Sbjct: 707 LRRQLEELERQLEELKRELAALEEELEQLQSRLEELEEELEELEEELEELQERLE--ELE 764

Query: 103 ETLNAAE--------QVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKIS 154
           E L + E        ++++   +   L+++++ L++E E+ ++  +ALE      E++  
Sbjct: 765 EELESLEEALAKLKEEIEELEEKRQALQEELEELEEELEEAERRLDALERELESLEQRRE 824

Query: 155 DLSAKLEKLQKINDEQKSKIRKTERALKE-----EMMRAKFEATSRSKELTEVH 203
            L  ++E+L++  +E + K+ + E  L+E     E ++ + E     KE  E  
Sbjct: 825 RLEQEIEELEEEIEELEEKLDELEEELEELEKELEELKEELEELEAEKEELEDE 878

Length = 1163

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

 Score = 50.4 bits (121), Expect = 2e-06
 Identities = 45/160 (28%), Positives = 85/160 (53%), Gaps = 11/160 (6%)

Query: 46  ELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETL 105
           EL +++ K R L   + E  + LK + E++  KE A     E++  L+++L     +E  
Sbjct: 467 ELKEIEEKERKLRKELRELEKVLKKESELIKLKELA-----EQLKELEEKLKKYNLEELE 521

Query: 106 NAAEQVDKAHARADELEKQIDNLKKESEKQQ---KEKEALEARAIEAEKKISDLSAKLEK 162
             AE+ +K   +  +L+ +I +LKKE EK +   K+   LE +  E E+++++L  +LE+
Sbjct: 522 KKAEEYEKLKEKLIKLKGEIKSLKKELEKLEELKKKLAELEKKLDELEEELAELLKELEE 581

Query: 163 LQ-KINDEQKSKIRKTERALKE--EMMRAKFEATSRSKEL 199
           L  +  +E + ++++ E    E  E+  A+ E     KEL
Sbjct: 582 LGFESVEELEERLKELEPFYNEYLELKDAEKELEREEKEL 621

Length = 880

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

 Score = 49.7 bits (119), Expect = 2e-06
 Identities = 38/168 (22%), Positives = 72/168 (42%), Gaps = 27/168 (16%)

Query: 46  ELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQ---KELSSLQKK 102
           EL++LK +I  LE  ++      +  +E + + E+ I++  + I  L+   KEL  L++K
Sbjct: 232 ELEELKEEIEELEKELESLEGSKRKLEEKIRELEERIEELKKEIEELEEKVKELKELKEK 291

Query: 103 ETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEK 162
                            +L +  +    E  + +K    LE      E++I +L  K E+
Sbjct: 292 AE------------EYIKLSEFYEEYLDELREIEKRLSRLEEEINGIEERIKELEEKEER 339

Query: 163 LQKINDEQKSKIRKTE------------RALKEEMMRAKFEATSRSKE 198
           L+++  + K   ++ E            +A KEE+ R K   T  + E
Sbjct: 340 LEELKKKLKELEKRLEELEERHELYEEAKAKKEELERLKKRLTGLTPE 387

Length = 880

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

 Score = 50.1 bits (120), Expect = 2e-06
 Identities = 42/157 (26%), Positives = 83/157 (52%), Gaps = 9/157 (5%)

Query: 43  LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKE------KAIQDKSERIVSLQKEL 96
           L+  L++L+ KI  LE    E  +  +  + + A  E      + ++   ER+  L+++L
Sbjct: 279 LERLLEELEEKIERLEELEREIEELEEELEGLRALLEELEELLEKLKSLEERLEKLEEKL 338

Query: 97  SSLQKKETLNAAEQVDKA---HARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKI 153
             L+ +    A E+ + A     R  ELE++++ L+KE EK  +  + LE    E ++++
Sbjct: 339 EKLESELEELAEEKNELAKLLEERLKELEERLEELEKELEKALERLKQLEEAIQELKEEL 398

Query: 154 SDLSAKLEKLQKINDEQKSKIRKTERALKEEMMRAKF 190
           ++LSA LE++Q+  +E + ++ + ER L+E     K 
Sbjct: 399 AELSAALEEIQEELEELEKELEELERELEELEEEIKK 435

Length = 908

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

 Score = 49.7 bits (119), Expect = 3e-06
 Identities = 34/153 (22%), Positives = 76/153 (49%), Gaps = 10/153 (6%)

Query: 43  LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKK 102
           L+ EL+ L+ +   LE  I+E  +E++  +E + + E+ +++  + +  L++EL  L+  
Sbjct: 812 LERELESLEQRRERLEQEIEELEEEIEELEEKLDELEEELEELEKELEELKEELEELEA- 870

Query: 103 ETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEK 162
           E     +++ +     +ELE+++  L+ E  + ++E E L  R  E E K+  L  +L +
Sbjct: 871 EKEELEDELKELEEEKEELEEELRELESELAELKEEIEKLRERLEELEAKLERLEVELPE 930

Query: 163 LQ---------KINDEQKSKIRKTERALKEEMM 186
           L+          +  E + +I + E  ++    
Sbjct: 931 LEEELEEEYEDTLETELEREIERLEEEIEALGP 963

Length = 1163

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

 Score = 49.3 bits (118), Expect = 3e-06
 Identities = 34/157 (21%), Positives = 73/157 (46%), Gaps = 8/157 (5%)

Query: 48  DQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNA 107
             L   I+ ++  I+   + +K  + +    E+ I++K + +  + +E++ +  +     
Sbjct: 165 KNLGEVIKEIKRRIERLEKFIKRTENI----EELIKEKEKELEEVLREINEISSELP-EL 219

Query: 108 AEQVDKAHARADELEK---QIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQ 164
            E+++K      ELE+   +I+ L+KE E  +  K  LE +  E E++I +L  ++E+L+
Sbjct: 220 REELEKLEKEVKELEELKEEIEELEKELESLEGSKRKLEEKIRELEERIEELKKEIEELE 279

Query: 165 KINDEQKSKIRKTERALKEEMMRAKFEATSRSKELTE 201
           +   E K    K E  +K      ++    R  E   
Sbjct: 280 EKVKELKELKEKAEEYIKLSEFYEEYLDELREIEKRL 316

Length = 880

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 49.4 bits (117), Expect = 3e-06
 Identities = 41/172 (23%), Positives = 77/172 (44%), Gaps = 21/172 (12%)

Query: 48   DQLKSKIRSLESHIDE---KTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKET 104
            D+ K K    +   D    K +E K   E    + +A  D++E     + E +  +K+E 
Sbjct: 1318 DEAKKKAEEAKKKADAAKKKAEEAKKAAEAAKAEAEAAADEAEA-AEEKAEAAEKKKEEA 1376

Query: 105  LNAAEQV----------DKAHARADELEKQIDNLKKESEKQQK----EKEALEARAIEAE 150
               A+            D+A  +A+E +K+ D LKK +  ++K    +K+A E +  +  
Sbjct: 1377 KKKADAAKKKAEEKKKADEAKKKAEEDKKKADELKKAAAAKKKADEAKKKAEEKKKADEA 1436

Query: 151  KKISDLSAKLEKLQKINDEQKSK---IRKTERALKEEMMRAKFEATSRSKEL 199
            KK ++ + K ++ +K  +E K      +K E A K +  + K E   ++ E 
Sbjct: 1437 KKKAEEAKKADEAKKKAEEAKKAEEAKKKAEEAKKADEAKKKAEEAKKADEA 1488

Length = 2084

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

 Score = 48.9 bits (117), Expect = 4e-06
 Identities = 34/162 (20%), Positives = 70/162 (43%), Gaps = 19/162 (11%)

Query: 43   LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKK 102
            LK EL++L+++   LE  + E  +E +  +E + + E  + +  E I  L++ L  L+ K
Sbjct: 861  LKEELEELEAEKEELEDELKELEEEKEELEEELRELESELAELKEEIEKLRERLEELEAK 920

Query: 103  ET---------------LNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAI 147
                                     +     + LE++I+ L   + +  +E E +E R  
Sbjct: 921  LERLEVELPELEEELEEEYEDTLETELEREIERLEEEIEALGPVNLRAIEEYEEVEERYE 980

Query: 148  EAEKKISDLSAKLEKLQ----KINDEQKSKIRKTERALKEEM 185
            E + +  DL    EKL     +++ E++ + ++T   + E  
Sbjct: 981  ELKSQREDLEEAKEKLLEVIEELDKEKRERFKETFDKINENF 1022

Length = 1163

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

 Score = 48.9 bits (117), Expect = 4e-06
 Identities = 45/164 (27%), Positives = 85/164 (51%), Gaps = 15/164 (9%)

Query: 45  IELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKET 104
           I+L +   +       I+++   L+ +   + ++ K +++K ER+  L+K+L  L+K+  
Sbjct: 296 IKLSEFYEEYLDELREIEKRLSRLEEEINGIEERIKELEEKEERLEELKKKLKELEKR-- 353

Query: 105 LNAAEQVDKAHARADELEKQIDNLKKES-----EKQQKEKEALEARAIEAEKKISDLSAK 159
           L   E+  + +  A   +++++ LKK       EK +KE E LE    E E++IS ++A+
Sbjct: 354 LEELEERHELYEEAKAKKEELERLKKRLTGLTPEKLEKELEELEKAKEEIEEEISKITAR 413

Query: 160 LEKLQKINDEQKSKIRKTERALKEEMMRAKFEATSRSKELTEVH 203
           + +L+K   E K  I        EE+ +AK +     +ELTE H
Sbjct: 414 IGELKKEIKELKKAI--------EELKKAKGKCPVCGRELTEEH 449

Length = 880

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

 Score = 48.5 bits (116), Expect = 6e-06
 Identities = 46/196 (23%), Positives = 84/196 (42%), Gaps = 45/196 (22%)

Query: 43   LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKK 102
            L+ +   LK +I+S+E  I+    + +  +E + + E A++D   R+  L+KE   L+ +
Sbjct: 838  LQEQRIDLKEQIKSIEKEIENLNGKKEELEEELEELEAALRDLESRLGDLKKERDELEAQ 897

Query: 103  --------ETLNAAEQVDKAHARADELEKQIDNLKKE--------------------SEK 134
                    E L A  Q++K   R  EL+ +++ L++E                     E 
Sbjct: 898  LRELERKIEELEA--QIEKKRKRLSELKAKLEALEEELSEIEDPKGEDEEIPEEELSLED 955

Query: 135  QQKEKEALEAR----------AI----EAEKKISDLSAKLEKLQKINDEQKSKIRKTERA 180
             Q E + +E            AI    E  K++ +L  K  KL++       +I + E+ 
Sbjct: 956  VQAELQRVEEEIRALEPVNMLAIQEYEEVLKRLDELKEKRAKLEEERKAILERIEEYEKK 1015

Query: 181  LKEEMMRAKFEATSRS 196
             +E  M A FEA + +
Sbjct: 1016 KREVFMEA-FEAINEN 1030

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

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

 Score = 47.7 bits (114), Expect = 9e-06
 Identities = 33/163 (20%), Positives = 66/163 (40%), Gaps = 13/163 (7%)

Query: 43  LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKK 102
           L  E   L+ ++ SLE  I    + L+         E+ I++ SE I SL  E+  L++ 
Sbjct: 815 LNEEAANLRERLESLERRIAATERRLE-------DLEEQIEELSEDIESLAAEIEELEEL 867

Query: 103 -ETLNAA-----EQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDL 156
            E L +       +          L  +++ L +E  + + ++  L     E  +K++ L
Sbjct: 868 IEELESELEALLNERASLEEALALLRSELEELSEELRELESKRSELRRELEELREKLAQL 927

Query: 157 SAKLEKLQKINDEQKSKIRKTERALKEEMMRAKFEATSRSKEL 199
             +LE L+   D  + ++ +      EE    + +     +E 
Sbjct: 928 ELRLEGLEVRIDNLQERLSEEYSLTLEEAEALENKIEDDEEEA 970

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 = 47.7 bits (114), Expect = 9e-06
 Identities = 35/152 (23%), Positives = 75/152 (49%), Gaps = 2/152 (1%)

Query: 43  LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKK 102
           L+ +++QLK ++++L   +DE   EL   +E  A   + ++    RI + ++ L  L++ 
Sbjct: 787 LEAQIEQLKEELKALREALDELRAELTLLNEEAANLRERLESLERRIAATERRLEDLEE- 845

Query: 103 ETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEK 162
           +    +E ++   A  +ELE+ I+ L+ E E    E+ +LE        ++ +LS +L +
Sbjct: 846 QIEELSEDIESLAAEIEELEELIEELESELEALLNERASLEEALALLRSELEELSEELRE 905

Query: 163 L-QKINDEQKSKIRKTERALKEEMMRAKFEAT 193
           L  K ++ ++      E+  + E+     E  
Sbjct: 906 LESKRSELRRELEELREKLAQLELRLEGLEVR 937

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|178867 PRK00106, PRK00106, hypothetical protein; Provisional

 Score = 47.6 bits (113), Expect = 9e-06
 Identities = 33/119 (27%), Positives = 60/119 (50%), Gaps = 12/119 (10%)

Query: 46  ELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSL--QKKE 103
           EL Q++S++    + +D K + L  K++ +  KE+++ DKS+ I   ++++  L  QKK 
Sbjct: 98  ELKQIESRLTERATSLDRKDENLSSKEKTLESKEQSLTDKSKHIDEREEQVEKLEEQKKA 157

Query: 104 TLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEK 162
            L     + +A AR   L +  + L  E          +  R  EAE+++ D S K+ K
Sbjct: 158 ELERVAALSQAEAREIILAETENKLTHE----------IATRIREAEREVKDRSDKMAK 206

Length = 535

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

 Score = 47.4 bits (113), Expect = 1e-05
 Identities = 39/147 (26%), Positives = 78/147 (53%), Gaps = 8/147 (5%)

Query: 43  LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKK 102
           L+  L  L+ ++  LE+ ++E   +L    E +A+ E+ +++  E + SL+ EL  L+ +
Sbjct: 307 LRERLANLERQLEELEAQLEELESKLDELAEELAELEEKLEELKEELESLEAELEELEAE 366

Query: 103 ----ETLNAA--EQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDL 156
               E+      EQ++   ++  +LE QI +L  E E+ +   E LE R    +++I +L
Sbjct: 367 LEELESRLEELEEQLETLRSKVAQLELQIASLNNEIERLEARLERLEDRRERLQQEIEEL 426

Query: 157 SAKLEKLQKINDEQKSKIRKTERALKE 183
             KLE+ +    E ++++ + E  L+E
Sbjct: 427 LKKLEEAEL--KELQAELEELEEELEE 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. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1179

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

 Score = 47.8 bits (114), Expect = 1e-05
 Identities = 28/147 (19%), Positives = 62/147 (42%), Gaps = 8/147 (5%)

Query: 37  AVDSSPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKEL 96
                 L  E  +LK ++  L + ++E  +E     + +    + ++     I  L++EL
Sbjct: 349 RKRRDKLTEEYAELKEELEDLRAELEEVDKEFAETRDELKDYREKLEKLKREINELKREL 408

Query: 97  SSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDL 156
             LQ        E++ +      +L   I  ++ +  + ++EKE       + E K+  L
Sbjct: 409 DRLQ--------EELQRLSEELADLNAAIAGIEAKINELEEEKEDKALEIKKQEWKLEQL 460

Query: 157 SAKLEKLQKINDEQKSKIRKTERALKE 183
           +A L K ++   + K +  + E+ L +
Sbjct: 461 AADLSKYEQELYDLKEEYDRVEKELSK 487

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|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 47.4 bits (112), Expect = 1e-05
 Identities = 44/159 (27%), Positives = 77/159 (48%), Gaps = 10/159 (6%)

Query: 44   KIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKE 103
            K E  +++  ++  E     K +E K  +E    K KA + K       + E    ++ E
Sbjct: 1588 KAEEARIEEVMKLYEEEKKMKAEEAKKAEE---AKIKAEELKKAEEEKKKVEQLKKKEAE 1644

Query: 104  TLNAAEQVDKAH----ARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAK 159
                AE++ KA      +A E  K+ +  KK++E+ +K +E  E +A EA KK ++ + K
Sbjct: 1645 EKKKAEELKKAEEENKIKAAEEAKKAEEDKKKAEEAKKAEED-EKKAAEALKKEAEEAKK 1703

Query: 160  LEKLQKINDEQKSKIRKTERALKEEMMRAKFEATSRSKE 198
             E+L+K   E+K K  + ++A  EE  + K E   +  E
Sbjct: 1704 AEELKKKEAEEKKKAEELKKA--EEENKIKAEEAKKEAE 1740

Length = 2084

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

 Score = 46.6 bits (111), Expect = 2e-05
 Identities = 27/113 (23%), Positives = 51/113 (45%), Gaps = 6/113 (5%)

Query: 40  SSPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSL 99
               + +L++LK +I  L+  +D   +EL+   E +A    AI     +I  L++E    
Sbjct: 387 LKDYREKLEKLKREINELKRELDRLQEELQRLSEELADLNAAIAGIEAKINELEEEKEDK 446

Query: 100 QKK------ETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARA 146
             +      +    A  + K      +L+++ D ++KE  K Q+E    EA+A
Sbjct: 447 ALEIKKQEWKLEQLAADLSKYEQELYDLKEEYDRVEKELSKLQRELAEAEAQA 499

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

 Score = 45.0 bits (107), Expect = 3e-05
 Identities = 29/142 (20%), Positives = 64/142 (45%), Gaps = 10/142 (7%)

Query: 45  IELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKET 104
           + + +L  +   LE  I E  + LK     +    KA++     +  L+ ++S L+    
Sbjct: 10  LAIQKLDLEKDRLEPRIKEIRKALKKAKAELEALNKALEALEIELEDLENQVSQLE---- 65

Query: 105 LNAAEQVDKAHARADELEKQIDNLKKESE--KQQKEKEALEARAIEAEKKISDLSAKLEK 162
                ++ +   R    E+++  +K E E      E +  + R    E ++++L  ++EK
Sbjct: 66  ----SEIQEIRERIKRAEEKLSAVKDERELRALNIEIQIAKERINSLEDELAELMEEIEK 121

Query: 163 LQKINDEQKSKIRKTERALKEE 184
           L+K  ++ K ++ + E+ L E 
Sbjct: 122 LEKEIEDLKERLERLEKNLAEA 143

Length = 239

>gnl|CDD|234501 TIGR04211, SH3_and_anchor, SH3 domain protein

 Score = 44.6 bits (106), Expect = 3e-05
 Identities = 27/104 (25%), Positives = 56/104 (53%), Gaps = 4/104 (3%)

Query: 86  SERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALE-- 143
            ER+  LQ+EL+ LQ+ E     EQ+ +      EL++++  L+ E E+ QKE   ++  
Sbjct: 65  RERLPELQQELAELQE-ELAELQEQLAELQQENQELKQELSTLEAELERLQKELARIKQL 123

Query: 144 -ARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKEEMM 186
            A AIE +++  +L  +L +L++ N+  +++  + +   +    
Sbjct: 124 SANAIELDEENRELREELAELKQENEALEAENERLQENEQRRWF 167

Members of this protein family have a signal peptide, a strongly conserved SH3 domain, a variable region, and then a C-terminal hydrophobic transmembrane alpha helix region. Length = 198

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

 Score = 45.8 bits (109), Expect = 4e-05
 Identities = 35/118 (29%), Positives = 66/118 (55%), Gaps = 7/118 (5%)

Query: 73  EVVAQKEKA-IQDKSERIVSLQKELSSLQKKET-----LNAAEQ-VDKAHARADELEKQI 125
            + ++ E A +Q   ER+  L++ELSSLQ +       L+   Q +  A  +  E+EK+I
Sbjct: 666 ILFSRSEPAELQRLRERLEGLKRELSSLQSELRRIENRLDELSQELSDASRKIGEIEKEI 725

Query: 126 DNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKE 183
           + L++E EK ++  E LE      E++I ++ ++L++L+   +E +  + K E AL +
Sbjct: 726 EQLEQEEEKLKERLEELEEDLSSLEQEIENVKSELKELEARIEELEEDLHKLEEALND 783

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|221533 pfam12329, TMF_DNA_bd, TATA element modulatory factor 1 DNA binding

 Score = 41.5 bits (98), Expect = 4e-05
 Identities = 32/72 (44%), Positives = 41/72 (56%), Gaps = 1/72 (1%)

Query: 79  EKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKE 138
           EK + +K E+I  L +E   L KKE L     + K  A+  ELEK+I  LKK+ EK +KE
Sbjct: 4   EKKLAEKDEQIAQLMEEGEKLSKKE-LKHNNTIKKLRAKNKELEKEIAELKKKLEKLEKE 62

Query: 139 KEALEARAIEAE 150
            E LE R   AE
Sbjct: 63  LENLEERLKRAE 74

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. 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. Length = 74

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

 Score = 45.3 bits (107), Expect = 5e-05
 Identities = 34/154 (22%), Positives = 68/154 (44%), Gaps = 9/154 (5%)

Query: 43  LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKK 102
           L  E ++LKS++  LE    +  ++LK  ++ + + EK ++ + E I  L+KEL  L+ K
Sbjct: 292 LAKEEEELKSELLKLERRKVDDEEKLKESEKELKKLEKELKKEKEEIEELEKELKELEIK 351

Query: 103 ETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKK---------I 153
                 E+      +    + + + L K+  + ++   A + +  E E K         +
Sbjct: 352 REAEEEEEEQLEKLQEKLEQLEEELLAKKKLESERLSSAAKLKEEELELKNEEEKEAKLL 411

Query: 154 SDLSAKLEKLQKINDEQKSKIRKTERALKEEMMR 187
            +LS + E L K   +++ KI +      E    
Sbjct: 412 LELSEQEEDLLKEEKKEELKIVEELEESLETKQG 445

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

 Score = 45.0 bits (107), Expect = 6e-05
 Identities = 38/146 (26%), Positives = 65/146 (44%), Gaps = 11/146 (7%)

Query: 43   LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQK- 101
            L+ EL++L  ++R LES   E  +EL+   E +AQ E  ++    RI +LQ+ LS     
Sbjct: 892  LRSELEELSEELRELESKRSELRRELEELREKLAQLELRLEGLEVRIDNLQERLSEEYSL 951

Query: 102  ------KETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISD 155
                         +  ++A  R   LE +I  L   +    +E E L+ R      +  D
Sbjct: 952  TLEEAEALENKIEDDEEEARRRLKRLENKIKELGPVNLAAIEEYEELKERYDFLTAQKED 1011

Query: 156  LSAKLEKLQ----KINDEQKSKIRKT 177
            L+   E L+    +I+ E + + + T
Sbjct: 1012 LTEAKETLEEAIEEIDREARERFKDT 1037

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 = 45.1 bits (107), Expect = 6e-05
 Identities = 35/147 (23%), Positives = 75/147 (51%), Gaps = 12/147 (8%)

Query: 45  IELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKET 104
           +EL   + ++   E  + +  +EL    E +A+ EK +++  + +  L+K+ S  + +E 
Sbjct: 605 LELKDAEKELEREEKELKKLEEELDKAFEELAETEKRLEELRKELEELEKKYSEEEYEEL 664

Query: 105 LNAAEQVDKAHARAD----ELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKL 160
                ++ +  A       ELEK+ + +KK  EK ++E E  E    +A+K++  L   L
Sbjct: 665 REEYLELSRELAGLRAELEELEKRREEIKKTLEKLKEELEERE----KAKKELEKLEKAL 720

Query: 161 EKLQKINDEQKSKIRKTERALKEEMMR 187
           E+++++    + K++K +  LKE  + 
Sbjct: 721 ERVEEL----REKVKKYKALLKERALS 743

Length = 880

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 45.1 bits (106), Expect = 8e-05
 Identities = 38/141 (26%), Positives = 67/141 (47%), Gaps = 5/141 (3%)

Query: 63   EKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELE 122
            +K +E K  DE    +EK   D++++     K+    +KK    A ++ D A  +A+E +
Sbjct: 1284 KKAEEKKKADEAKKAEEKKKADEAKKKAEEAKKADEAKKKAE-EAKKKADAAKKKAEEAK 1342

Query: 123  KQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQK----SKIRKTE 178
            K  +  K E+E    E EA E +A  AEKK  +   K +  +K  +E+K    +K +  E
Sbjct: 1343 KAAEAAKAEAEAAADEAEAAEEKAEAAEKKKEEAKKKADAAKKKAEEKKKADEAKKKAEE 1402

Query: 179  RALKEEMMRAKFEATSRSKEL 199
               K + ++    A  ++ E 
Sbjct: 1403 DKKKADELKKAAAAKKKADEA 1423

Length = 2084

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

 Score = 44.5 bits (106), Expect = 9e-05
 Identities = 32/113 (28%), Positives = 61/113 (53%), Gaps = 4/113 (3%)

Query: 46  ELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSL--QKKE 103
           EL +L+ ++   E  +D K + L  K+E + +KEK + +K + +   ++EL  L  +++E
Sbjct: 77  ELQRLERRLLQREETLDRKMESLDKKEENLEKKEKELSNKEKNLDEKEEELEELIAEQRE 136

Query: 104 TLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDL 156
            L     + +  A+   LE+  +  + E+ K  KE E  EA+  EA+KK  ++
Sbjct: 137 ELERISGLTQEEAKEILLEEVEEEARHEAAKLIKEIEE-EAKE-EADKKAKEI 187

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

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

 Score = 44.8 bits (106), Expect = 9e-05
 Identities = 35/174 (20%), Positives = 76/174 (43%), Gaps = 18/174 (10%)

Query: 43  LKIELDQLKSKIRSLESHIDEKTQELKGKDEV-VAQKEKAIQDKSERIVSLQKELSSLQK 101
           L   L+ ++  + +LE  + E  +  + ++E    + E+ I+   ER+  L++E   L++
Sbjct: 194 LSELLEDIEDLLEALEEELKELKKLEEIQEEQEEEELEQEIEALEERLAELEEEKERLEE 253

Query: 102 KET---------LNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKK 152
            +          L A +  ++     + L ++++   +  E+ ++E E LE         
Sbjct: 254 LKARLLEIESLELEALKIREEELRELERLLEELEEKIERLEELEREIEELEEELEGLRAL 313

Query: 153 ISDLSAKLEKL-------QKINDEQKSKIRKTERALKEEMMRAKFEATSRSKEL 199
           + +L   LEKL       +K+ ++ +    + E   +E+   AK     R KEL
Sbjct: 314 LEELEELLEKLKSLEERLEKLEEKLEKLESELEELAEEKNELAK-LLEERLKEL 366

Length = 908

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

 Score = 44.3 bits (105), Expect = 1e-04
 Identities = 30/145 (20%), Positives = 63/145 (43%), Gaps = 14/145 (9%)

Query: 54  IRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDK 113
             ++E+  +E     +   + + +   A Q  +E   SL+++   L+        E+ ++
Sbjct: 309 AEAVEARREELEDRDEELRDRLEECRVAAQAHNEEAESLREDADDLE--------ERAEE 360

Query: 114 AHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSK 173
               A ELE +++  ++  E +++E E LE    E  ++  D    L   +   +E    
Sbjct: 361 LREEAAELESELEEAREAVEDRREEIEELEEEIEELRERFGDAPVDLGNAEDFLEE---- 416

Query: 174 IRKTERALKEEMMRAKFEATSRSKE 198
           +R+    L+E    A+ EAT R+  
Sbjct: 417 LREERDELRER--EAELEATLRTAR 439

Length = 880

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

 Score = 44.0 bits (104), Expect = 1e-04
 Identities = 36/149 (24%), Positives = 76/149 (51%), Gaps = 8/149 (5%)

Query: 43  LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEK------AIQDKSERIVSLQKEL 96
           L+ EL++L+ +I+ LE  I++   +     E+    EK       + ++ E+ +    EL
Sbjct: 422 LERELEELEEEIKKLEEQINQLESKELMIAELAGAGEKCPVCGQELPEEHEKELLELYEL 481

Query: 97  SSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDL 156
              + +E L+  ++  +     +ELEK++  L++E  +  + +EAL+    E  +K+ +L
Sbjct: 482 ELEELEEELSREKEEAELREEIEELEKELRELEEELIELLELEEALKEELEEKLEKLENL 541

Query: 157 SAKLE--KLQKINDEQKSKIRKTERALKE 183
             +LE  K +    + K ++R+ E  L+E
Sbjct: 542 LEELEELKEKLQLQQLKEELRQLEDRLQE 570

Length = 908

>gnl|CDD|234501 TIGR04211, SH3_and_anchor, SH3 domain protein

 Score = 42.7 bits (101), Expect = 1e-04
 Identities = 18/105 (17%), Positives = 51/105 (48%), Gaps = 2/105 (1%)

Query: 38  VDSSPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELS 97
            D+   +  L +L+ ++  L+  + E  ++L    +   + ++ +      +  LQKEL+
Sbjct: 59  SDTPSARERLPELQQELAELQEELAELQEQLAELQQENQELKQELSTLEAELERLQKELA 118

Query: 98  SLQK--KETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKE 140
            +++     +   E+  +      EL+++ + L+ E+E+ Q+ ++
Sbjct: 119 RIKQLSANAIELDEENRELREELAELKQENEALEAENERLQENEQ 163

Members of this protein family have a signal peptide, a strongly conserved SH3 domain, a variable region, and then a C-terminal hydrophobic transmembrane alpha helix region. Length = 198

>gnl|CDD|236942 PRK11637, PRK11637, AmiB activator; Provisional

 Score = 43.5 bits (103), Expect = 1e-04
 Identities = 25/97 (25%), Positives = 51/97 (52%), Gaps = 4/97 (4%)

Query: 56  SLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAH 115
           +  +H  +   +LK   + +A KEK+++ + ++  SL  +L   Q++    A+ ++ +  
Sbjct: 37  AFSAHASDNRDQLKSIQQDIAAKEKSVRQQQQQRASLLAQLKK-QEEAISQASRKLRETQ 95

Query: 116 ARADELEKQIDNLK---KESEKQQKEKEALEARAIEA 149
              ++L KQID L     + E+QQ  +E L A  ++A
Sbjct: 96  NTLNQLNKQIDELNASIAKLEQQQAAQERLLAAQLDA 132

Length = 428

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

 Score = 43.2 bits (102), Expect = 2e-04
 Identities = 34/137 (24%), Positives = 75/137 (54%), Gaps = 5/137 (3%)

Query: 46  ELDQLKSKIRSLESHIDEKTQELKG----KDEVVAQKEKAIQDKSERIVSLQKELSSLQK 101
           EL++L  K++SLE  +++  ++L+      +E+  +K +  +   ER+  L++ L  L+K
Sbjct: 316 ELEELLEKLKSLEERLEKLEEKLEKLESELEELAEEKNELAKLLEERLKELEERLEELEK 375

Query: 102 KETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLE 161
           +    A E++ +      EL++++  L    E+ Q+E E LE    E E+++ +L  +++
Sbjct: 376 ELE-KALERLKQLEEAIQELKEELAELSAALEEIQEELEELEKELEELERELEELEEEIK 434

Query: 162 KLQKINDEQKSKIRKTE 178
           KL++  ++ +SK     
Sbjct: 435 KLEEQINQLESKELMIA 451

Length = 908

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 43.6 bits (102), Expect = 2e-04
 Identities = 32/137 (23%), Positives = 66/137 (48%), Gaps = 4/137 (2%)

Query: 63   EKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKA-HARADEL 121
            +K +E +  +E+   +E  +   + R  +++ E    +K + L  AE+  KA  A+  E 
Sbjct: 1243 KKAEEERNNEEIRKFEEARMAHFARRQAAIKAE--EARKADELKKAEEKKKADEAKKAEE 1300

Query: 122  EKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERAL 181
            +K+ D  KK++E+ +K  EA + +A EA+KK      K E+ +K  +  K++        
Sbjct: 1301 KKKADEAKKKAEEAKKADEA-KKKAEEAKKKADAAKKKAEEAKKAAEAAKAEAEAAADEA 1359

Query: 182  KEEMMRAKFEATSRSKE 198
            +    +A+     + + 
Sbjct: 1360 EAAEEKAEAAEKKKEEA 1376

Length = 2084

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

 Score = 43.8 bits (104), Expect = 2e-04
 Identities = 34/135 (25%), Positives = 62/135 (45%), Gaps = 19/135 (14%)

Query: 39  DSSPLKIELDQLKSKIRSLESHIDEKTQEL--------------KGKDEVVAQKEKAIQD 84
           D   LK  L+ L+  +      ++EK ++                  D + A  E  I++
Sbjct: 321 DVEELKALLEALEEILEKNLQKLEEKLKDPSTSIELESITDLIESINDIIDAINEL-IRE 379

Query: 85  KSERIVSLQKELSSLQKK----ETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKE 140
            +E+I +L+KE +  +KK          E +D        LEK I++L+KE ++ + E +
Sbjct: 380 HNEKIDNLKKEKNKAKKKLWLHLVAELKEDIDAYQKEKKGLEKAINSLEKEIKQLEAEIK 439

Query: 141 ALEARAIEAEKKISD 155
           ALE    E EK++++
Sbjct: 440 ALEKEIKELEKQLTN 454

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|219934 pfam08614, ATG16, Autophagy protein 16 (ATG16)

 Score = 41.7 bits (98), Expect = 2e-04
 Identities = 19/60 (31%), Positives = 34/60 (56%)

Query: 43  LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKK 102
           L+ E+ QL+  I  L S I     E++   E + +KEK  +   + ++SL  EL++L++K
Sbjct: 107 LRREIQQLEKTIAELRSEITSLETEIRDLREELQEKEKDNETLQDELISLNIELNALEEK 166

Autophagy is a ubiquitous intracellular degradation system for eukaryotic cells. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. ATG16 (also known as Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate in the yeast autophagy pathway. Length = 194

>gnl|CDD|234750 PRK00409, PRK00409, recombination and DNA strand exchange inhibitor protein; Reviewed

 Score = 43.3 bits (103), Expect = 2e-04
 Identities = 31/137 (22%), Positives = 72/137 (52%), Gaps = 8/137 (5%)

Query: 44  KIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKE 103
           K +L++L + +  LE  +++K +E +   +   + ++ +++K E++   + +L    +KE
Sbjct: 515 KEKLNELIASLEELERELEQKAEEAEALLKEAEKLKEELEEKKEKLQEEEDKLLEEAEKE 574

Query: 104 TLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKL 163
              A + + +A   ADE+ K++  L+K      K  E +EAR     K+++  + K EK 
Sbjct: 575 ---AQQAIKEAKKEADEIIKELRQLQKGGYASVKAHELIEAR-----KRLNKANEKKEKK 626

Query: 164 QKINDEQKSKIRKTERA 180
           +K   E++ +++  +  
Sbjct: 627 KKKQKEKQEELKVGDEV 643

Length = 782

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

 Score = 43.1 bits (102), Expect = 3e-04
 Identities = 29/134 (21%), Positives = 61/134 (45%), Gaps = 15/134 (11%)

Query: 76  AQKEKAI--QDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESE 133
            Q EKA   ++    +  L+  L  L+ +E               +EL++++   ++E E
Sbjct: 207 RQAEKAERYKELKAELRELELALLVLRLEE----------LREELEELQEELKEAEEELE 256

Query: 134 KQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTE---RALKEEMMRAKF 190
           +   E + LE +  E   ++S+L  ++E+LQK      ++I + E   + L+E +   + 
Sbjct: 257 ELTAELQELEEKLEELRLEVSELEEEIEELQKELYALANEISRLEQQKQILRERLANLER 316

Query: 191 EATSRSKELTEVHS 204
           +      +L E+ S
Sbjct: 317 QLEELEAQLEELES 330

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|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 43.2 bits (101), Expect = 3e-04
 Identities = 45/182 (24%), Positives = 83/182 (45%), Gaps = 13/182 (7%)

Query: 34   ASDAVDSSPLKIELDQLK-SKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSL 92
            A+D  +++  K E  + K  + +       +K +E K  DE    K+KA +DK +     
Sbjct: 1355 AADEAEAAEEKAEAAEKKKEEAKKKADAAKKKAEEKKKADEA---KKKAEEDKKKADELK 1411

Query: 93   QKELSSLQKKETLNAAEQVDKAH--ARADELEKQIDNLKKESEKQQK----EKEALEARA 146
            +   +  +  E    AE+  KA    +  E  K+ D  KK++E+ +K    +K+A EA+ 
Sbjct: 1412 KAAAAKKKADEAKKKAEEKKKADEAKKKAEEAKKADEAKKKAEEAKKAEEAKKKAEEAKK 1471

Query: 147  IEAEKKISDLSAKLEKLQKINDEQKSK---IRKTERALKEEMMRAKFEATSRSKELTEVH 203
             +  KK ++ + K ++ +K  +E K K    +K   A K+     K E   ++ E  +  
Sbjct: 1472 ADEAKKKAEEAKKADEAKKKAEEAKKKADEAKKAAEAKKKADEAKKAEEAKKADEAKKAE 1531

Query: 204  SA 205
             A
Sbjct: 1532 EA 1533

Length = 2084

>gnl|CDD|202833 pfam03962, Mnd1, Mnd1 family

 Score = 41.5 bits (98), Expect = 3e-04
 Identities = 29/100 (29%), Positives = 53/100 (53%), Gaps = 9/100 (9%)

Query: 85  KSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEA 144
            S+ +  L+  L  L+K        ++++   R  EL+ QI+ LKK  E+ ++  E LE 
Sbjct: 60  PSQALNKLKTRLEKLKK--------ELEELKQRIAELQAQIEKLKKGREETEERTELLEE 111

Query: 145 RAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKEE 184
              + EK++  L A+LEK +K + E+  K+++  +  KE 
Sbjct: 112 LK-QLEKELKKLKAELEKYEKNDPERIEKLKEETKVAKEA 150

This family of proteins includes MND1 from S. cerevisiae. The mnd1 protein forms a complex with hop2 to promote homologous chromosome pairing and meiotic double-strand break repair. Length = 188

>gnl|CDD|224202 COG1283, NptA, Na+/phosphate symporter [Inorganic ion transport and metabolism]

 Score = 42.6 bits (101), Expect = 3e-04
 Identities = 38/222 (17%), Positives = 82/222 (36%), Gaps = 44/222 (19%)

Query: 2   AASKLVIFSLFFALILT------------AADVSIQGEDVPPLTA----SDAVDS----- 40
            A+ +    L F ++L                  I G++   +        A+DS     
Sbjct: 274 PAALIAHAHLLFNIVLALAALPFTGLLARFVTRLIPGDEDDEIEPKHLDETALDSPVVAL 333

Query: 41  SPLKIEL-------DQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQ 93
           +    E+       +Q+  ++        +K +E++  ++ V +  + I+    R+    
Sbjct: 334 ANAAREVLRLGDSIEQMLERLYEYIEGDAKKVKEIRKLEDAVDRLYEEIKLYLARLSKE- 392

Query: 94  KELSSLQKKETLNAAEQVDKA--------HAR--ADELEKQIDNLKKESEKQQKEKEALE 143
                L ++E+   AE +D A              +  +K+I N +  SE   +E +AL 
Sbjct: 393 ----GLSEEESRRWAEIIDAAINLEHIGDIIERLLELADKKIANGRAFSEDGLEELDALF 448

Query: 144 ARAIEAEKKISDLSAKLEK-LQKINDEQKSKIRKTERALKEE 184
           A  +E  +    +    +  L +   E+K ++R+ ER   + 
Sbjct: 449 ALTLENLRLAISVLVTGDLELARRLVERKKRVRRLERRSSKR 490

Length = 533

>gnl|CDD|181619 PRK09039, PRK09039, hypothetical protein; Validated

 Score = 42.3 bits (100), Expect = 4e-04
 Identities = 27/130 (20%), Positives = 58/130 (44%), Gaps = 20/130 (15%)

Query: 65  TQELKGKDEVVAQ--------------KEKAIQDKSERIVSLQKELSSLQ------KKET 104
           ++E+ GKD  + +              + +  QD  + + +L+  LS+ +      +   
Sbjct: 45  SREISGKDSALDRLNSQIAELADLLSLERQGNQDLQDSVANLRASLSAAEAERSRLQALL 104

Query: 105 LNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQ 164
              A     A  RA EL +++D+ K+ S +   + E L  +     ++++ L A L+  +
Sbjct: 105 AELAGAGAAAEGRAGELAQELDSEKQVSARALAQVELLNQQIAALRRQLAALEAALDASE 164

Query: 165 KINDEQKSKI 174
           K + E ++KI
Sbjct: 165 KRDRESQAKI 174

Length = 343

>gnl|CDD|233467 TIGR01554, major_cap_HK97, phage major capsid protein, HK97 family

 Score = 42.0 bits (99), Expect = 5e-04
 Identities = 28/104 (26%), Positives = 51/104 (49%), Gaps = 4/104 (3%)

Query: 82  IQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEA 141
           +++  E +  L KEL  L + E L  AE   +  A  D L+++ID L  E ++ ++  + 
Sbjct: 1   LKELREALAELAKELRKLTEDEKLAEAE---EEKAEYDALKEEIDKLDAEIDRLEELLDE 57

Query: 142 LEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKEEM 185
           LEA+   A  +      + E+ +    E ++ +R  + AL EE 
Sbjct: 58  LEAKP-AASGEGGGGEEEEEEAKAEAAEFRAYLRGGDDALAEER 100

This model family represents the major capsid protein component of the heads (capsids) of bacteriophage HK97, phi-105, P27, and related phage. This model represents one of several analogous families lacking detectable sequence similarity. The gene encoding this component is typically located in an operon encoding the small and large terminase subunits, the portal protein and the prohead or maturation protease [Mobile and extrachromosomal element functions, Prophage functions]. Length = 384

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

 Score = 41.9 bits (98), Expect = 5e-04
 Identities = 22/149 (14%), Positives = 62/149 (41%), Gaps = 11/149 (7%)

Query: 20  ADVSIQGEDVPPLTASDAVDSSPLKIELDQLKSKIRSLE---SHIDEKTQELKGKDEVVA 76
           A ++ Q +D+     + A     L+ +   L++  + L+   + +  +  +LK +   + 
Sbjct: 140 ARLTKQAQDLQTRLKTLAEQRRQLEAQAQSLQASQKQLQASATQLKSQVLDLKLRSAQIE 199

Query: 77  QKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQ 136
           Q+ + +  ++    +  +EL+         AA+Q  +A     + + QI    ++   + 
Sbjct: 200 QEAQNLATRANAAQARTEELARRAA-----AAQQTAQA---IQQRDAQISQKAQQIAARA 251

Query: 137 KEKEALEARAIEAEKKISDLSAKLEKLQK 165
           ++    E +    E   + L  ++ +L+ 
Sbjct: 252 EQIRERERQLQRLETAQARLEQEVAQLEA 280

Length = 499

>gnl|CDD|236912 PRK11448, hsdR, type I restriction enzyme EcoKI subunit R; Provisional

 Score = 42.2 bits (100), Expect = 5e-04
 Identities = 25/102 (24%), Positives = 45/102 (44%), Gaps = 8/102 (7%)

Query: 100 QKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAK 159
            +       ++V     + +   ++    +  +E QQ+E  ALE  A E E+K  +L A+
Sbjct: 140 PENLLHALQQEVLTLKQQLELQAREKAQSQALAEAQQQELVALEGLAAELEEKQQELEAQ 199

Query: 160 LEKLQKINDEQKSKIRKTERALKEEMMRAKFEATSRSKELTE 201
           LE+LQ+   E         +  K++      +A  R  EL+E
Sbjct: 200 LEQLQEKAAET-------SQERKQKRKEITDQAAKRL-ELSE 233

Length = 1123

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

 Score = 42.0 bits (99), Expect = 6e-04
 Identities = 31/136 (22%), Positives = 70/136 (51%), Gaps = 13/136 (9%)

Query: 43  LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQ---KEKAIQDKSERIVSLQKELSSL 99
           L    ++   ++R +E  +    +E+ G +E + +   KE+ +++  +++  L+K L  L
Sbjct: 298 LSEFYEEYLDELREIEKRLSRLEEEINGIEERIKELEEKEERLEELKKKLKELEKRLEEL 357

Query: 100 QK--------KETLNAAEQVDKAHA--RADELEKQIDNLKKESEKQQKEKEALEARAIEA 149
           ++        K      E++ K       ++LEK+++ L+K  E+ ++E   + AR  E 
Sbjct: 358 EERHELYEEAKAKKEELERLKKRLTGLTPEKLEKELEELEKAKEEIEEEISKITARIGEL 417

Query: 150 EKKISDLSAKLEKLQK 165
           +K+I +L   +E+L+K
Sbjct: 418 KKEIKELKKAIEELKK 433

Length = 880

>gnl|CDD|114011 pfam05262, Borrelia_P83, Borrelia P83/100 protein

 Score = 41.5 bits (97), Expect = 6e-04
 Identities = 29/122 (23%), Positives = 54/122 (44%), Gaps = 9/122 (7%)

Query: 84  DKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALE 143
           +    +  L++  S    K      E++DK    AD+ +++ D  +  ++KQ+ E    +
Sbjct: 195 NFRRDMTDLKERESQEDAKRAQQLKEELDKKQIDADKAQQKADFAQDNADKQRDEVRQKQ 254

Query: 144 ARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALK---EEMMRAK----FEATSRS 196
             A    K     S K +K  ++ + QK +I K +  +K   EE ++AK    F+    S
Sbjct: 255 QEAKNLPKPADTSSPKEDK--QVAENQKREIEKAQIEIKKNDEEALKAKDHKAFDLKQES 312

Query: 197 KE 198
           K 
Sbjct: 313 KA 314

This family consists of several Borrelia P83/P100 antigen proteins. Length = 489

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

 Score = 41.3 bits (98), Expect = 8e-04
 Identities = 30/109 (27%), Positives = 58/109 (53%), Gaps = 4/109 (3%)

Query: 46  ELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKK--E 103
           EL +L+ ++   E ++D K + L+ ++E + +KEK ++ K + +   ++EL  L ++  +
Sbjct: 83  ELQKLEKRLLQKEENLDRKLELLEKREEELEKKEKELEQKQQELEKKEEELEELIEEQLQ 142

Query: 104 TLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKK 152
            L     +    A+   LEK  +  + E+    KE E  EA+  EA+KK
Sbjct: 143 ELERISGLTAEEAKEILLEKVEEEARHEAAVLIKEIEE-EAKE-EADKK 189

Length = 520

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

 Score = 41.6 bits (98), Expect = 8e-04
 Identities = 42/159 (26%), Positives = 76/159 (47%), Gaps = 10/159 (6%)

Query: 41  SPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQ 100
             LK   +QLK     L+ +  E+ ++   + E +  KEK I+ K E I SL+KEL  L+
Sbjct: 496 IKLKELAEQLKELEEKLKKYNLEELEKKAEEYEKL--KEKLIKLKGE-IKSLKKELEKLE 552

Query: 101 --KKETLNAAEQVDKAHARADELEKQIDNLK----KESEKQQKEKEALEARAIEAEKKIS 154
             KK+     +++D+      EL K+++ L     +E E++ KE E      +E +    
Sbjct: 553 ELKKKLAELEKKLDELEEELAELLKELEELGFESVEELEERLKELEPFYNEYLELKDAEK 612

Query: 155 DLSAKLEKLQKINDEQKSKIRKTERALKE-EMMRAKFEA 192
           +L  + ++L+K+ +E      +     K  E +R + E 
Sbjct: 613 ELEREEKELKKLEEELDKAFEELAETEKRLEELRKELEE 651

Length = 880

>gnl|CDD|240271 PTZ00108, PTZ00108, DNA topoisomerase 2-like protein; Provisional

 Score = 41.6 bits (98), Expect = 8e-04
 Identities = 37/179 (20%), Positives = 72/179 (40%), Gaps = 23/179 (12%)

Query: 43   LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKK 102
            L+ EL +L +K+R ++  I+ +      K + + ++ K +     R   + K+ S     
Sbjct: 1004 LERELARLSNKVRFIKHVINGELVITNAKKKDLVKELKKLGYV--RFKDIIKKKSEKITA 1061

Query: 103  ETLNAAEQVDKAHARADELEKQ--------------------IDNLKKESEKQQKEKEAL 142
            E    AE+ D+A    DE E                      ++ L  E EK++KE E L
Sbjct: 1062 EEEEGAEEDDEADDEDDEEELGAAVSYDYLLSMPIWSLTKEKVEKLNAELEKKEKELEKL 1121

Query: 143  EARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKEEMMRAKFEATSRSKELTE 201
            +    +      DL    E L++  + ++ +I K +R   +   +A      + K+  +
Sbjct: 1122 KNTTPKDMWL-EDLDKFEEALEEQEEVEEKEIAKEQRLKSKTKGKASKLRKPKLKKKEK 1179

Length = 1388

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

 Score = 41.2 bits (97), Expect = 0.001
 Identities = 28/129 (21%), Positives = 63/129 (48%), Gaps = 1/129 (0%)

Query: 43  LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKK 102
           L+ EL ++++++  L+  I+   + L+   E +   ++ +++    +  LQ EL  L ++
Sbjct: 388 LEAELAEIRNELEELKREIESLEERLERLSERLEDLKEELKELEAELEELQTELEELNEE 447

Query: 103 ETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEK 162
                 EQ+++   R  ELE+++  L++E ++ +KE  +LEAR    E +          
Sbjct: 448 LE-ELEEQLEELRDRLKELERELAELQEELQRLEKELSSLEARLDRLEAEQRASQGVRAV 506

Query: 163 LQKINDEQK 171
           L+ +     
Sbjct: 507 LEALESGLP 515

Length = 1163

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 41.3 bits (96), Expect = 0.001
 Identities = 32/143 (22%), Positives = 68/143 (47%), Gaps = 4/143 (2%)

Query: 58   ESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAH-- 115
            E + +E  +  + +    A+++ AI+ +  R     K+    +K +    AE+  KA   
Sbjct: 1248 ERNNEEIRKFEEARMAHFARRQAAIKAEEARKADELKKAEEKKKADEAKKAEEKKKADEA 1307

Query: 116  ARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIR 175
             +  E  K+ D  KK++E+ +K+ +A + +A EA+K     +AK E     ++ + ++ +
Sbjct: 1308 KKKAEEAKKADEAKKKAEEAKKKADAAKKKAEEAKKA--AEAAKAEAEAAADEAEAAEEK 1365

Query: 176  KTERALKEEMMRAKFEATSRSKE 198
                  K+E  + K +A  +  E
Sbjct: 1366 AEAAEKKKEEAKKKADAAKKKAE 1388

Length = 2084

>gnl|CDD|219791 pfam08317, Spc7, Spc7 kinetochore protein

 Score = 40.8 bits (96), Expect = 0.001
 Identities = 19/84 (22%), Positives = 44/84 (52%), Gaps = 3/84 (3%)

Query: 44  KIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKE 103
            +EL++ + ++RSL   I EK ++L+   + + +   AI+  + +   L +E++  +K  
Sbjct: 206 PLELEKARQELRSLSVKISEKRKQLEELQQELQELTIAIEALTNKKSELLEEIAEAEKIR 265

Query: 104 TLN---AAEQVDKAHARADELEKQ 124
                 +A+++ K  A+   L+K 
Sbjct: 266 EECRGWSAKEISKLKAKVSLLQKL 289

This domain is found in cell division proteins which are required for kinetochore-spindle association. Length = 321

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

 Score = 40.7 bits (95), Expect = 0.001
 Identities = 30/167 (17%), Positives = 69/167 (41%), Gaps = 13/167 (7%)

Query: 46  ELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETL 105
           ++  LK++  +L   I E   ++  K + + +K +A++  S +  +    +   + +E  
Sbjct: 272 DIANLKTQNDNLYEKIQE-AMKISQKIKTLREKWRALKSDSNKYENYVNAMKQ-KSQEWP 329

Query: 106 NAAEQ----VDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLE 161
              E+    ++        L+  ID L K+  KQ    E  E    E EK    L+ +L+
Sbjct: 330 GKLEKLKSEIELKEEEIKALQSNIDELHKQLRKQGISTEQFELMNQEREK----LTRELD 385

Query: 162 KLQKINDEQKSKIRKTER---ALKEEMMRAKFEATSRSKELTEVHSA 205
           K+   +D+    ++  +     + + + +   +  S  + +T   S 
Sbjct: 386 KINIQSDKLTKSVKSRKLEAQGIFKSLEKTLRQYDSLIQNITRSRSQ 432

Length = 622

>gnl|CDD|217933 pfam04156, IncA, IncA protein

 Score = 39.4 bits (92), Expect = 0.001
 Identities = 28/118 (23%), Positives = 55/118 (46%), Gaps = 18/118 (15%)

Query: 46  ELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETL 105
           +L +L+ ++  LE  I E   EL+   E +    + ++   ER+ SL++ +  L K    
Sbjct: 87  QLSELQEELEDLEERIAELESELEDLKEDLQLLRELLKSLEERLESLEESIKELAK---- 142

Query: 106 NAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKL 163
                         EL +   +L++E E+ ++E E L+      ++ I +L + LE+L
Sbjct: 143 --------------ELRELRQDLREEVEELREELERLQENLQRLQEAIQELQSLLEQL 186

Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion. The inclusion is non-fusogenic with lysosomes but intercepts lipids from a host cell exocytic pathway. Initiation of chlamydial development is concurrent with modification of the inclusion membrane by a set of C. trachomatis-encoded proteins collectively designated Incs. One of these Incs, IncA, is functionally associated with the homotypic fusion of inclusions. This family probably includes members of the wider Inc family rather than just IncA. Length = 186

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

 Score = 40.4 bits (95), Expect = 0.002
 Identities = 44/175 (25%), Positives = 86/175 (49%), Gaps = 20/175 (11%)

Query: 47  LDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAI------QDKSERIVSLQKELSSLQ 100
           L+ L+S++  L+  I+   ++   +++    +++A       +++ E + +L+ E+  L+
Sbjct: 208 LNGLESELAELDEEIERYEEQ---REQARETRDEADEVLEEHEERREELETLEAEIEDLR 264

Query: 101 ------KKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKIS 154
                 ++E    AE+V     R +ELE++ D+L  E+     + EA+EAR  E E +  
Sbjct: 265 ETIAETEREREELAEEVRDLRERLEELEEERDDLLAEAGLDDADAEAVEARREELEDRDE 324

Query: 155 DLSAKLEK----LQKINDEQKSKIRKTERALKEEMMRAKFEATSRSKELTEVHSA 205
           +L  +LE+     Q  N+E +S +R+    L+E     + EA     EL E   A
Sbjct: 325 ELRDRLEECRVAAQAHNEEAES-LREDADDLEERAEELREEAAELESELEEAREA 378

Length = 880

>gnl|CDD|234750 PRK00409, PRK00409, recombination and DNA strand exchange inhibitor protein; Reviewed

 Score = 40.2 bits (95), Expect = 0.002
 Identities = 28/95 (29%), Positives = 52/95 (54%), Gaps = 7/95 (7%)

Query: 111 VDKAHARADELEKQIDNLKKESEKQQK--EKEALEARAI--EAEKKISDLSAKLEKLQKI 166
           +++A     E +++++ L    E+ ++  E++A EA A+  EAEK   +L  K EKLQ  
Sbjct: 504 IEEAKKLIGEDKEKLNELIASLEELERELEQKAEEAEALLKEAEKLKEELEEKKEKLQ-- 561

Query: 167 NDEQKSKIRKTERALKEEMMRAKFEATSRSKELTE 201
            +E+   + + E+  ++ +  AK EA    KEL +
Sbjct: 562 -EEEDKLLEEAEKEAQQAIKEAKKEADEIIKELRQ 595

Length = 782

>gnl|CDD|197874 smart00787, Spc7, Spc7 kinetochore protein

 Score = 40.0 bits (94), Expect = 0.002
 Identities = 17/57 (29%), Positives = 32/57 (56%)

Query: 46  ELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKK 102
           ELD+ K K++ L   I  K ++L+  +E + + E  I+D + +   L  E++  +KK
Sbjct: 205 ELDRAKEKLKKLLQEIMIKVKKLEELEEELQELESKIEDLTNKKSELNTEIAEAEKK 261

This domain is found in cell division proteins which are required for kinetochore-spindle association. Length = 312

>gnl|CDD|224241 COG1322, COG1322, Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]

 Score = 40.1 bits (94), Expect = 0.002
 Identities = 40/181 (22%), Positives = 79/181 (43%), Gaps = 10/181 (5%)

Query: 6   LVIFSLFFALILTAADVSIQGEDVPPLTASDAVDSSPLKIELDQLKSKIRSLESHIDEKT 65
           LV  +    L+L    +     ++        +     + E +QL++  RSL++   E  
Sbjct: 14  LVNLAFIRQLLLRLGRLEQMLGELA-AVLEQLLLLLAFRAEAEQLRTFARSLQALNLELI 72

Query: 66  QELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADEL---- 121
           QEL   +E+ A+ ++ +    E++  L + L+ L  +    A E  ++ + R  EL    
Sbjct: 73  QEL---NELKARLQQQLLQSREQLQLLIESLAQLSSEFQELANEIFEELNRRLAELNQQN 129

Query: 122 EKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERAL 181
            KQ+    +E    +K +E LE R  E+ ++ S L  ++++L     +   +      AL
Sbjct: 130 LKQLLKPLREVL--EKFREQLEQRIHESAEERSTLLEEIDRLLGEIQQLAQEAGNLTAAL 187

Query: 182 K 182
           K
Sbjct: 188 K 188

Length = 448

>gnl|CDD|236892 PRK11281, PRK11281, hypothetical protein; Provisional

 Score = 40.3 bits (95), Expect = 0.002
 Identities = 23/83 (27%), Positives = 46/83 (55%), Gaps = 6/83 (7%)

Query: 91  SLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAE 150
            +Q +L +L K++ L A +++ +       LE+ +  L K  ++Q++E E L+ +  +A 
Sbjct: 40  DVQAQLDALNKQKLLEAEDKLVQQD-----LEQTLALLDK-IDRQKEETEQLKQQLAQAP 93

Query: 151 KKISDLSAKLEKLQKINDEQKSK 173
            K+    A+LE L+  NDE+  +
Sbjct: 94  AKLRQAQAELEALKDDNDEETRE 116

Length = 1113

>gnl|CDD|222878 PHA02562, 46, endonuclease subunit; Provisional

 Score = 40.0 bits (94), Expect = 0.002
 Identities = 26/170 (15%), Positives = 64/170 (37%), Gaps = 23/170 (13%)

Query: 48  DQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETL-- 105
           D+L  + +++++ I+E T EL      +     A+   +     ++ ++   QK   +  
Sbjct: 223 DELVEEAKTIKAEIEELTDELLNLVMDIEDPSAALNKLNTAAAKIKSKIEQFQKVIKMYE 282

Query: 106 -------------NAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKK 152
                           +++ K   +  EL+     L+K      + +E +     E  KK
Sbjct: 283 KGGVCPTCTQQISEGPDRITKIKDKLKELQHS---LEKLDTAIDELEE-IMDEFNEQSKK 338

Query: 153 ISDLSAKLEKLQKINDEQKSKIRKTERALKEEMMRAKFEATSRSKELTEV 202
           + +L  K+      N +    +    + +K  +   + E    ++EL ++
Sbjct: 339 LLELKNKIST----NKQSLITLVDKAKKVKAAIEELQAEFVDNAEELAKL 384

Length = 562

>gnl|CDD|226894 COG4499, COG4499, Predicted membrane protein [Function unknown]

 Score = 39.8 bits (93), Expect = 0.002
 Identities = 19/100 (19%), Positives = 45/100 (45%), Gaps = 4/100 (4%)

Query: 80  KAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEK 139
           + + D    +++L K    ++    L+  ++ +       E  K++ +  K+  + + E 
Sbjct: 337 RNLDDNDLTLLALTKLYEEVKSNTDLSGDKRQE----LLKEYNKKLQDYTKKLGEVKDET 392

Query: 140 EALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTER 179
           +A E    +A+++        +K ++  DE K K +K ER
Sbjct: 393 DASEEAEAKAKEEKLKQEENEKKQKEQADEDKEKRQKDER 432

Length = 434

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

 Score = 39.7 bits (93), Expect = 0.002
 Identities = 23/160 (14%), Positives = 65/160 (40%), Gaps = 16/160 (10%)

Query: 43  LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQK- 101
           L+ E+  L++++      + +  +++    ++ A+       + E+   L ++L++LQ+ 
Sbjct: 71  LETEIASLEAQLIETADDLKKLRKQI---ADLNARLNALEVQEREQRRRLAEQLAALQRS 127

Query: 102 ------------KETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEA 149
                       ++   +        A      ++ID LK   ++    +  + A   E 
Sbjct: 128 GRNPPPALLVSPEDAQRSVRLAIYYGALNPARAERIDALKATLKQLAAVRAEIAAEQAEL 187

Query: 150 EKKISDLSAKLEKLQKINDEQKSKIRKTERALKEEMMRAK 189
              +S+  A+  KL ++ +E+K  + +    L  +  + +
Sbjct: 188 TTLLSEQRAQQAKLAQLLEERKKTLAQLNSELSADQKKLE 227

Length = 420

>gnl|CDD|226889 COG4487, COG4487, Uncharacterized protein conserved in bacteria [Function unknown]

 Score = 39.8 bits (93), Expect = 0.002
 Identities = 35/152 (23%), Positives = 69/152 (45%), Gaps = 6/152 (3%)

Query: 34  ASDAVDSSPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIV-SL 92
              A   S  K EL QL+ ++ + +        E   + E+  Q E A  +  E +    
Sbjct: 53  EKRAQYRSAKKKELSQLEEQLINQKKEQKNLFNEQIKQFELALQDEIAKLEALELLNLEK 112

Query: 93  QKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKES----EKQQKEKEALEARAIE 148
            KEL  L+K+    + E   +    A+ +EK+ +N K E     E ++K +E+LE    +
Sbjct: 113 DKELELLEKELDELSKELQKQLQNTAEIIEKKRENNKNEERLKFENEKKLEESLELEREK 172

Query: 149 AEKKISDLSAKLEKLQKINDEQKSKIRKTERA 180
            E+++ + +  LE   +  ++++SK    ++ 
Sbjct: 173 FEEQLHEANLDLEFK-ENEEQRESKWAILKKL 203

Length = 438

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

 Score = 39.6 bits (93), Expect = 0.003
 Identities = 29/149 (19%), Positives = 68/149 (45%), Gaps = 4/149 (2%)

Query: 58  ESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHAR 117
              ++E   EL+  +E V + E+ + +++E +V  +  +  L+++   +  E + +    
Sbjct: 474 RERVEELEAELEDLEEEVEEVEERL-ERAEDLVEAEDRIERLEERRE-DLEELIAERRET 531

Query: 118 ADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKT 177
            +E  ++ + L++ + + + E E     A EAE++  +   ++ +L     E K +I   
Sbjct: 532 IEEKRERAEELRERAAELEAEAEEKREAAAEAEEEAEEAREEVAELNSKLAELKERIESL 591

Query: 178 ERALKEEMMRAKFEATSRSKELTEVHSAW 206
           ER     ++ A  +A    + L E   A 
Sbjct: 592 ERI--RTLLAAIADAEDEIERLREKREAL 618

Length = 880

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

 Score = 39.6 bits (92), Expect = 0.003
 Identities = 30/156 (19%), Positives = 63/156 (40%), Gaps = 1/156 (0%)

Query: 46  ELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETL 105
            L Q+  + +  E     + +ELK   +   + +  +     R V  +++L   +K+   
Sbjct: 267 ILAQVLKENKEEEKEKKLQEEELKLLAKEEEELKSELLKLERRKVDDEEKLKESEKELK- 325

Query: 106 NAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQK 165
              +++ K     +ELEK++  L+ + E +++E+E LE    + E+   +L AK +   +
Sbjct: 326 KLEKELKKEKEEIEELEKELKELEIKREAEEEEEEQLEKLQEKLEQLEEELLAKKKLESE 385

Query: 166 INDEQKSKIRKTERALKEEMMRAKFEATSRSKELTE 201
                     +      EE   AK       +E   
Sbjct: 386 RLSSAAKLKEEELELKNEEEKEAKLLLELSEQEEDL 421

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

 Score = 39.7 bits (93), Expect = 0.003
 Identities = 27/138 (19%), Positives = 69/138 (50%), Gaps = 6/138 (4%)

Query: 46  ELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETL 105
           + ++L   ++ +      K +EL+G      Q  + ++D  + + +L++EL  L+K E +
Sbjct: 168 KYEKLSELLKEVIKEAKAKIEELEG------QLSELLEDIEDLLEALEEELKELKKLEEI 221

Query: 106 NAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQK 165
              ++ ++     + LE+++  L++E E+ ++ K  L        + +     +L +L++
Sbjct: 222 QEEQEEEELEQEIEALEERLAELEEEKERLEELKARLLEIESLELEALKIREEELRELER 281

Query: 166 INDEQKSKIRKTERALKE 183
           + +E + KI + E   +E
Sbjct: 282 LLEELEEKIERLEELERE 299

Length = 908

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 39.7 bits (92), Expect = 0.003
 Identities = 39/151 (25%), Positives = 75/151 (49%), Gaps = 10/151 (6%)

Query: 63   EKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELE 122
            +K  E K K E   + E+A +   E   + + +  + + K+   A ++ ++A  +ADE +
Sbjct: 1444 KKADEAKKKAEEAKKAEEAKKKAEEAKKADEAKKKAEEAKKADEAKKKAEEAKKKADEAK 1503

Query: 123  KQIDNLKK--ESEKQQKEKEALEARAIEAEKKISDLSA-----KLEKLQKINDEQKS-KI 174
            K  +  KK  E++K ++ K+A EA+  E  KK  +        K ++L+K  + +K+ + 
Sbjct: 1504 KAAEAKKKADEAKKAEEAKKADEAKKAEEAKKADEAKKAEEKKKADELKKAEELKKAEEK 1563

Query: 175  RKTERALKEEMMRAKFEATSRSKELTEVHSA 205
            +K E A K E    K  A  +++E  +   A
Sbjct: 1564 KKAEEAKKAE--EDKNMALRKAEEAKKAEEA 1592

Length = 2084

>gnl|CDD|219791 pfam08317, Spc7, Spc7 kinetochore protein

 Score = 39.2 bits (92), Expect = 0.003
 Identities = 26/125 (20%), Positives = 64/125 (51%), Gaps = 7/125 (5%)

Query: 54  IRSLESHIDEKTQELKGKDEVVAQKEKAIQD----KSERIVSLQKELSSLQK-KETLNAA 108
           +  L+  ++E  + +K  +E++ +    I        +++ +L++E++SL++  + LN  
Sbjct: 145 LEGLKEGLEENLEGMKRDEELLNKDLNLINSIKPKLRKKLQALKEEIASLRQLADELNLC 204

Query: 109 EQVDKAHARAD--ELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKI 166
           + ++   AR +   L  +I   +K+ E+ Q+E + L         K S+L  ++ + +KI
Sbjct: 205 DPLELEKARQELRSLSVKISEKRKQLEELQQELQELTIAIEALTNKKSELLEEIAEAEKI 264

Query: 167 NDEQK 171
            +E +
Sbjct: 265 REECR 269

This domain is found in cell division proteins which are required for kinetochore-spindle association. Length = 321

>gnl|CDD|236729 PRK10636, PRK10636, putative ABC transporter ATP-binding protein; Provisional

 Score = 39.8 bits (93), Expect = 0.003
 Identities = 34/122 (27%), Positives = 52/122 (42%), Gaps = 22/122 (18%)

Query: 93  QKELSSLQKKETLNAAEQVDK----AHARAD------ELEKQIDNLKKESEKQQKEKEAL 142
           Q+ LS +QK+E        +     A AR D      EL  Q   L+KE  + +KE E L
Sbjct: 516 QQWLSDVQKQENQTDEAPKENNANSAQARKDQKRREAELRTQTQPLRKEIARLEKEMEKL 575

Query: 143 EARAIEAEKKISDLS-------AKLEKLQKINDEQKSKIRKTERALKE-----EMMRAKF 190
            A+  +AE+K+ D         A+L    +     KS + + E A  E     E M  + 
Sbjct: 576 NAQLAQAEEKLGDSELYDQSRKAELTACLQQQASAKSGLEECEMAWLEAQEQLEQMLLEG 635

Query: 191 EA 192
           ++
Sbjct: 636 QS 637

Length = 638

>gnl|CDD|233973 TIGR02680, TIGR02680, TIGR02680 family protein

 Score = 39.8 bits (93), Expect = 0.003
 Identities = 39/210 (18%), Positives = 87/210 (41%), Gaps = 36/210 (17%)

Query: 22  VSIQGEDVPPLTA------SDAVDS-SPLKIELDQLKSKIRSLESHID-----------E 63
                E +PPL        +DA++     + EL++L++  R+L + +             
Sbjct: 207 SDALTEALPPLDDDELTDVADALEQLDEYRDELERLEALERALRNFLQRYRRYARTMLRR 266

Query: 64  KTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEK 123
           +   L+       Q  + +    + + + ++E   L          + +     AD L  
Sbjct: 267 RATRLRSAQTQYDQLSRDLGRARDELETAREEERELD--------ARTEALEREADALRT 318

Query: 124 QIDNLK--------KESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIR 175
           +++ L+        +E E+ + + EAL+A A +A + I +  ++LE+ ++  DE+  ++ 
Sbjct: 319 RLEALQGSPAYQDAEELERARADAEALQAAAADARQAIREAESRLEEERRRLDEEAGRLD 378

Query: 176 KTERALKEEMMRAKFEATSRSKELTEVHSA 205
             ER L+    R +    +    L+  H+A
Sbjct: 379 DAERELRAA--REQLARAAERAGLSPAHTA 406

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 [Hypothetical proteins, Conserved]. Length = 1353

>gnl|CDD|234541 TIGR04320, Surf_Exclu_PgrA, SEC10/PgrA surface exclusion domain

 Score = 39.3 bits (92), Expect = 0.003
 Identities = 24/143 (16%), Positives = 44/143 (30%), Gaps = 17/143 (11%)

Query: 22  VSIQGEDVPPLTASDAVDSSPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKA 81
           V+     +      D          L  L++ + + ++ +      L      +   + A
Sbjct: 231 VNFNDSYIADGNKFDKTPIPNTPNSLKALQAALATAQADLAAAQTALNTAQAALTTAQTA 290

Query: 82  IQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEA 141
                  + + QKEL++ Q +    A   +  A A           L     +  K KEA
Sbjct: 291 YAAAQAALATAQKELANAQAQALQTAQNNLATAQA----------ALANAEARLAKAKEA 340

Query: 142 LEARAIEAEKKISDLSAKLEKLQ 164
           L           +DL+ K   L 
Sbjct: 341 LAN-------LNADLAKKQAALD 356

This model describes a conserved domain found in surface proteins of a number of Firmutes. Many members have LPXTG C-terminal anchoring motifs and a substantial number have the KxYKxGKxW putative sorting signal at the N-terminus. The tetracycline resistance plasmid pCF10 in Enterococcus faecalis promotes conjugal plasmid transfer in response to sex pheromones, but PgrA/Sec10 encoded by that plasmid, a member of this family, specifically inhibits the ability of cells to receive homologous plasmids. The phenomenon is called surface exclusion. Length = 356

>gnl|CDD|222613 pfam14235, DUF4337, Domain of unknown function (DUF4337)

 Score = 37.6 bits (88), Expect = 0.003
 Identities = 20/54 (37%), Positives = 31/54 (57%), Gaps = 3/54 (5%)

Query: 102 KETL--NAAEQVDK-AHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKK 152
           K+ L   AA+ ++  A A   EL+ +I   KKE  + + E + LEA+A EAE +
Sbjct: 50  KQHLAELAADLLELEAAAPRAELQAKIARYKKEKARYRSEAKELEAKAKEAEAE 103

This family of proteins is functionally uncharacterized. This family of proteins is found in bacteria. Proteins in this family are typically between 187 and 201 amino acids in length. There is a single completely conserved residue Q that may be functionally important. Length = 158

>gnl|CDD|225288 COG2433, COG2433, Uncharacterized conserved protein [Function unknown]

 Score = 39.3 bits (92), Expect = 0.004
 Identities = 34/172 (19%), Positives = 71/172 (41%), Gaps = 16/172 (9%)

Query: 47  LDQLKSKIRSLESHIDE---KTQELKGKDEVVA----------QKEKAIQDKSERIVSLQ 93
               K K+  +E  + E        + K  V+            KE+    + E     +
Sbjct: 354 YLAYKPKLEKVERKLPELGIWKDVERIKALVIRGYPLAEALSKVKEEERPREKEGTEEEE 413

Query: 94  KELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARA---IEAE 150
           +   ++ +K      E V++      EL+++++ LK+E EK + E E         +  +
Sbjct: 414 RREITVYEKRIKKLEETVERLEEENSELKRELEELKREIEKLESELERFRREVRDKVRKD 473

Query: 151 KKISDLSAKLEKLQKINDEQKSKIRKTERALKEEMMRAKFEATSRSKELTEV 202
           ++I     ++E+L+K  +E+K ++ + ER L E     K E + +   +  V
Sbjct: 474 REIRARDRRIERLEKELEEKKKRVEELERKLAELRKMRKLELSGKGTPVKVV 525

Length = 652

>gnl|CDD|215656 pfam00012, HSP70, Hsp70 protein

 Score = 39.1 bits (92), Expect = 0.004
 Identities = 24/87 (27%), Positives = 48/87 (55%), Gaps = 7/87 (8%)

Query: 122 EKQIDNLKKESEK----QQKEKEALEARAIEAEKKISDLSAKLEKLQ-KINDEQKSKIRK 176
           + +I+ + K++E+     +K KE +EA+  EAE+ +  L   L++   K+ +  K K+ +
Sbjct: 503 DDEIERMVKDAEEYAAEDKKRKERIEAKN-EAEEYVYSLEKSLKEEGDKLPEADKKKVEE 561

Query: 177 TERALKEEMMRAKFEA-TSRSKELTEV 202
               LKEE+     E   ++++EL +V
Sbjct: 562 AIEWLKEELEGEDKEEIEAKTEELQKV 588

Hsp70 chaperones help to fold many proteins. Hsp70 assisted folding involves repeated cycles of substrate binding and release. Hsp70 activity is ATP dependent. Hsp70 proteins are made up of two regions: the amino terminus is the ATPase domain and the carboxyl terminus is the substrate binding region. Length = 598

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	441
PRK11637	428	AmiB activator; Provisional	98.66
PRK09039	343	hypothetical protein; Validated	98.49
PF12718	143	Tropomyosin_1: Tropomyosin like; InterPro: IPR0005	98.15
COG3883	265	Uncharacterized protein conserved in bacteria [Fun	98.12
PRK11637	428	AmiB activator; Provisional	97.99
PF12718	143	Tropomyosin_1: Tropomyosin like; InterPro: IPR0005	97.83
TIGR02169	1164	SMC_prok_A chromosome segregation protein SMC, pri	97.81
TIGR02169	1164	SMC_prok_A chromosome segregation protein SMC, pri	97.75
COG1579	239	Zn-ribbon protein, possibly nucleic acid-binding [	97.65
COG4942	420	Membrane-bound metallopeptidase [Cell division and	97.63
TIGR02168	1179	SMC_prok_B chromosome segregation protein SMC, com	97.56
COG1579	239	Zn-ribbon protein, possibly nucleic acid-binding [	97.52
PF09726	697	Macoilin: Transmembrane protein; InterPro: IPR0191	97.51
PRK09039	343	hypothetical protein; Validated	97.42
COG3883	265	Uncharacterized protein conserved in bacteria [Fun	97.38
PHA02562	562	46 endonuclease subunit; Provisional	97.37
PRK02224	880	chromosome segregation protein; Provisional	97.34
PF08614	194	ATG16: Autophagy protein 16 (ATG16); InterPro: IPR	97.29
COG1196	1163	Smc Chromosome segregation ATPases [Cell division	97.18
COG1196	1163	Smc Chromosome segregation ATPases [Cell division	97.16
KOG0243	1041	consensus Kinesin-like protein [Cytoskeleton]	97.16
TIGR01843	423	type_I_hlyD type I secretion membrane fusion prote	97.13
PF00261	237	Tropomyosin: Tropomyosin; InterPro: IPR000533 Trop	97.12
PF00261	237	Tropomyosin: Tropomyosin; InterPro: IPR000533 Trop	97.11
KOG0933	1174	consensus Structural maintenance of chromosome pro	97.1
PHA02562	562	46 endonuclease subunit; Provisional	97.09
PRK02224	880	chromosome segregation protein; Provisional	97.08
PF07888	546	CALCOCO1: Calcium binding and coiled-coil domain (	97.03
PRK03918	880	chromosome segregation protein; Provisional	96.97
KOG0250	1074	consensus DNA repair protein RAD18 (SMC family pro	96.95
KOG0250	1074	consensus DNA repair protein RAD18 (SMC family pro	96.91
PF15619	194	Lebercilin: Ciliary protein causing Leber congenit	96.88
PF08317	325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	96.88
PF04156	191	IncA: IncA protein; InterPro: IPR007285 Chlamydia	96.79
PRK04863	1486	mukB cell division protein MukB; Provisional	96.77
PF05911	769	DUF869: Plant protein of unknown function (DUF869)	96.74
PRK03918	880	chromosome segregation protein; Provisional	96.71
TIGR00606	1311	rad50 rad50. This family is based on the phylogeno	96.65
smart00787	312	Spc7 Spc7 kinetochore protein. This domain is foun	96.63
TIGR01843	423	type_I_hlyD type I secretion membrane fusion prote	96.58
PF12128	1201	DUF3584: Protein of unknown function (DUF3584); In	96.57
PF09726	697	Macoilin: Transmembrane protein; InterPro: IPR0191	96.55
KOG0161	1930	consensus Myosin class II heavy chain [Cytoskeleto	96.55
KOG0161	1930	consensus Myosin class II heavy chain [Cytoskeleto	96.54
PF08614	194	ATG16: Autophagy protein 16 (ATG16); InterPro: IPR	96.52
KOG0996	1293	consensus Structural maintenance of chromosome pro	96.52
PF07888	546	CALCOCO1: Calcium binding and coiled-coil domain (	96.49
KOG0996	1293	consensus Structural maintenance of chromosome pro	96.48
PF13851	201	GAS: Growth-arrest specific micro-tubule binding	96.47
PF05667	594	DUF812: Protein of unknown function (DUF812); Inte	96.44
PF12325	120	TMF_TATA_bd: TATA element modulatory factor 1 TATA	96.44
PF07926	132	TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro:	96.43
TIGR00606	1311	rad50 rad50. This family is based on the phylogeno	96.43
PF00038	312	Filament: Intermediate filament protein; InterPro:	96.37
PF15070	617	GOLGA2L5: Putative golgin subfamily A member 2-lik	96.36
KOG1029	1118	consensus Endocytic adaptor protein intersectin [S	96.33
PF10473	140	CENP-F_leu_zip: Leucine-rich repeats of kinetochor	96.31
PF04156	191	IncA: IncA protein; InterPro: IPR007285 Chlamydia	96.28
KOG0980	980	consensus Actin-binding protein SLA2/Huntingtin-in	96.11
KOG1029	1118	consensus Endocytic adaptor protein intersectin [S	96.08
PF12325	120	TMF_TATA_bd: TATA element modulatory factor 1 TATA	96.07
COG4942	420	Membrane-bound metallopeptidase [Cell division and	96.06
PRK04778	569	septation ring formation regulator EzrA; Provision	96.04
KOG4643	1195	consensus Uncharacterized coiled-coil protein [Fun	96.04
PF12128	1201	DUF3584: Protein of unknown function (DUF3584); In	95.99
PF06008	264	Laminin_I: Laminin Domain I; InterPro: IPR009254 L	95.84
PF09304	107	Cortex-I_coil: Cortexillin I, coiled coil; InterPr	95.74
PF04012	221	PspA_IM30: PspA/IM30 family; InterPro: IPR007157 T	95.69
PF15070	617	GOLGA2L5: Putative golgin subfamily A member 2-lik	95.64
PF10174	775	Cast: RIM-binding protein of the cytomatrix active	95.62
PRK01156	895	chromosome segregation protein; Provisional	95.59
COG2433	652	Uncharacterized conserved protein [Function unknow	95.56
COG1340	294	Uncharacterized archaeal coiled-coil protein [Func	95.53
PF12329	74	TMF_DNA_bd: TATA element modulatory factor 1 DNA b	95.52
PF11932	251	DUF3450: Protein of unknown function (DUF3450); In	95.5
PF10174	775	Cast: RIM-binding protein of the cytomatrix active	95.48
KOG0971	1243	consensus Microtubule-associated protein dynactin	95.48
PF00038	312	Filament: Intermediate filament protein; InterPro:	95.45
PF14662	193	CCDC155: Coiled-coil region of CCDC155	95.43
PF01442	202	Apolipoprotein: Apolipoprotein A1/A4/E domain; Int	95.4
PF04582	326	Reo_sigmaC: Reovirus sigma C capsid protein; Inter	95.37
PF13870	177	DUF4201: Domain of unknown function (DUF4201)	95.36
PRK01156	895	chromosome segregation protein; Provisional	95.34
PF05667	594	DUF812: Protein of unknown function (DUF812); Inte	95.31
PF10473	140	CENP-F_leu_zip: Leucine-rich repeats of kinetochor	95.28
PF13851	201	GAS: Growth-arrest specific micro-tubule binding	95.26
PF12795	240	MscS_porin: Mechanosensitive ion channel porin dom	95.2
KOG4674	1822	consensus Uncharacterized conserved coiled-coil pr	95.2
TIGR01000	457	bacteriocin_acc bacteriocin secretion accessory pr	95.17
PF10146	230	zf-C4H2: Zinc finger-containing protein ; InterPro	95.13
PF04849	306	HAP1_N: HAP1 N-terminal conserved region; InterPro	95.12
PRK11281	1113	hypothetical protein; Provisional	95.09
KOG0976	1265	consensus Rho/Rac1-interacting serine/threonine ki	95.06
PF06818	202	Fez1: Fez1; InterPro: IPR009638 This family repres	95.02
TIGR03185	650	DNA_S_dndD DNA sulfur modification protein DndD. T	95.0
PRK12704	520	phosphodiesterase; Provisional	95.0
PF08317	325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	94.99
PRK10929	1109	putative mechanosensitive channel protein; Provisi	94.92
KOG0963	629	consensus Transcription factor/CCAAT displacement	94.9
PRK04863	1486	mukB cell division protein MukB; Provisional	94.9
PF10186	302	Atg14: UV radiation resistance protein and autopha	94.87
PF12795	240	MscS_porin: Mechanosensitive ion channel porin dom	94.83
TIGR03319	514	YmdA_YtgF conserved hypothetical protein YmdA/YtgF	94.71
KOG4360	596	consensus Uncharacterized coiled coil protein [Fun	94.69
PF05701	522	WEMBL: Weak chloroplast movement under blue light;	94.67
PRK12704	520	phosphodiesterase; Provisional	94.66
PF04111	314	APG6: Autophagy protein Apg6; InterPro: IPR007243	94.64
PF04849	306	HAP1_N: HAP1 N-terminal conserved region; InterPro	94.63
COG1340	294	Uncharacterized archaeal coiled-coil protein [Func	94.62
KOG0995	581	consensus Centromere-associated protein HEC1 [Cell	94.57
KOG0980	980	consensus Actin-binding protein SLA2/Huntingtin-in	94.55
PRK04778	569	septation ring formation regulator EzrA; Provision	94.52
TIGR03007	498	pepcterm_ChnLen polysaccharide chain length determ	94.48
PF14662	193	CCDC155: Coiled-coil region of CCDC155	94.46
PRK10884	206	SH3 domain-containing protein; Provisional	94.43
PF07926	132	TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro:	94.37
PF05335	188	DUF745: Protein of unknown function (DUF745); Inte	94.37
KOG0971	1243	consensus Microtubule-associated protein dynactin	94.35
TIGR03007	498	pepcterm_ChnLen polysaccharide chain length determ	94.22
PRK10476	346	multidrug resistance protein MdtN; Provisional	94.21
TIGR01000	457	bacteriocin_acc bacteriocin secretion accessory pr	94.1
PF09304	107	Cortex-I_coil: Cortexillin I, coiled coil; InterPr	94.08
PF09730	717	BicD: Microtubule-associated protein Bicaudal-D; I	94.08
TIGR03319	514	YmdA_YtgF conserved hypothetical protein YmdA/YtgF	94.06
PF05010	207	TACC: Transforming acidic coiled-coil-containing p	94.05
PRK00106	535	hypothetical protein; Provisional	94.02
PF04111	314	APG6: Autophagy protein Apg6; InterPro: IPR007243	93.94
KOG0612	1317	consensus Rho-associated, coiled-coil containing p	93.86
TIGR01005	754	eps_transp_fam exopolysaccharide transport protein	93.84
PRK00106	535	hypothetical protein; Provisional	93.82
PF05384	159	DegS: Sensor protein DegS; InterPro: IPR008595 Thi	93.56
KOG0995	581	consensus Centromere-associated protein HEC1 [Cell	93.54
smart00787	312	Spc7 Spc7 kinetochore protein. This domain is foun	93.49
PF10186	302	Atg14: UV radiation resistance protein and autopha	93.49
PF15397	258	DUF4618: Domain of unknown function (DUF4618)	93.47
PF07106	169	TBPIP: Tat binding protein 1(TBP-1)-interacting pr	93.45
PRK10884	206	SH3 domain-containing protein; Provisional	93.36
KOG4673	961	consensus Transcription factor TMF, TATA element m	93.27
KOG0994	1758	consensus Extracellular matrix glycoprotein Lamini	93.24
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	93.2
KOG0977	546	consensus Nuclear envelope protein lamin, intermed	93.14
TIGR03017	444	EpsF chain length determinant protein EpsF. Sequen	93.13
PF09730	717	BicD: Microtubule-associated protein Bicaudal-D; I	93.09
KOG4674	1822	consensus Uncharacterized conserved coiled-coil pr	93.03
PF05911	769	DUF869: Plant protein of unknown function (DUF869)	92.99
TIGR02680	1353	conserved hypothetical protein TIGR02680. Members	92.95
PF13870	177	DUF4201: Domain of unknown function (DUF4201)	92.87
PF04582	326	Reo_sigmaC: Reovirus sigma C capsid protein; Inter	92.84
TIGR01005	754	eps_transp_fam exopolysaccharide transport protein	92.82
PF06160	560	EzrA: Septation ring formation regulator, EzrA ; I	92.82
KOG4673	961	consensus Transcription factor TMF, TATA element m	92.79
PF11932	251	DUF3450: Protein of unknown function (DUF3450); In	92.77
KOG0964	1200	consensus Structural maintenance of chromosome pro	92.75
COG2433	652	Uncharacterized conserved protein [Function unknow	92.74
KOG0976	1265	consensus Rho/Rac1-interacting serine/threonine ki	92.74
PRK11281	1113	hypothetical protein; Provisional	92.59
KOG0964	1200	consensus Structural maintenance of chromosome pro	92.56
PF09755	310	DUF2046: Uncharacterized conserved protein H4 (DUF	92.53
COG4477	570	EzrA Negative regulator of septation ring formatio	92.5
PF06818	202	Fez1: Fez1; InterPro: IPR009638 This family repres	92.47
COG4372	499	Uncharacterized protein conserved in bacteria with	92.35
TIGR03185	650	DNA_S_dndD DNA sulfur modification protein DndD. T	92.23
PF12072	201	DUF3552: Domain of unknown function (DUF3552); Int	92.22
KOG0946	970	consensus ER-Golgi vesicle-tethering protein p115	92.22
PF07106	169	TBPIP: Tat binding protein 1(TBP-1)-interacting pr	92.19
KOG0977	546	consensus Nuclear envelope protein lamin, intermed	92.16
PF15254	861	CCDC14: Coiled-coil domain-containing protein 14	92.04
KOG0979	1072	consensus Structural maintenance of chromosome pro	91.92
cd00632	105	Prefoldin_beta Prefoldin beta; Prefoldin is a hexa	91.87
KOG0018	1141	consensus Structural maintenance of chromosome pro	91.85
PF06120	301	Phage_HK97_TLTM: Tail length tape measure protein;	91.8
PF11559	151	ADIP: Afadin- and alpha -actinin-Binding; InterPro	91.73
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	91.73
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	91.71
TIGR02680	1353	conserved hypothetical protein TIGR02680. Members	91.68
PF06005	72	DUF904: Protein of unknown function (DUF904); Inte	91.64
PF09755	310	DUF2046: Uncharacterized conserved protein H4 (DUF	91.59
COG5185	622	HEC1 Protein involved in chromosome segregation, i	91.42
PF10481	307	CENP-F_N: Cenp-F N-terminal domain; InterPro: IPR0	91.41
PRK03947	140	prefoldin subunit alpha; Reviewed	91.35
COG1842	225	PspA Phage shock protein A (IM30), suppresses sigm	91.08
PRK04406	75	hypothetical protein; Provisional	91.05
TIGR03017	444	EpsF chain length determinant protein EpsF. Sequen	91.01
PRK10929	1109	putative mechanosensitive channel protein; Provisi	90.96
PF05335	188	DUF745: Protein of unknown function (DUF745); Inte	90.94
COG4372	499	Uncharacterized protein conserved in bacteria with	90.91
PF08581	79	Tup_N: Tup N-terminal; InterPro: IPR013890 The N-t	90.83
PF13863	126	DUF4200: Domain of unknown function (DUF4200)	90.76
PF05010	207	TACC: Transforming acidic coiled-coil-containing p	90.6
COG0419	908	SbcC ATPase involved in DNA repair [DNA replicatio	90.59
PF05622	713	HOOK: HOOK protein; InterPro: IPR008636 This famil	90.59
PF13166	712	AAA_13: AAA domain	90.56
TIGR02338	110	gimC_beta prefoldin, beta subunit, archaeal. Chape	90.52
PF12329	74	TMF_DNA_bd: TATA element modulatory factor 1 DNA b	90.45
PRK10361	475	DNA recombination protein RmuC; Provisional	90.44
KOG4643	1195	consensus Uncharacterized coiled-coil protein [Fun	90.32
PF13166	712	AAA_13: AAA domain	90.29
PF15254	861	CCDC14: Coiled-coil domain-containing protein 14	90.23
PF04871	136	Uso1_p115_C: Uso1 / p115 like vesicle tethering pr	90.17
KOG2077	832	consensus JNK/SAPK-associated protein-1 [Signal tr	89.87
PF07798	177	DUF1640: Protein of unknown function (DUF1640); In	89.8
TIGR02977	219	phageshock_pspA phage shock protein A. Members of	89.78
PRK15422	79	septal ring assembly protein ZapB; Provisional	89.72
KOG0999	772	consensus Microtubule-associated protein Bicaudal-	89.64
COG0419	908	SbcC ATPase involved in DNA repair [DNA replicatio	89.6
PF12761	195	End3: Actin cytoskeleton-regulatory complex protei	89.51
PF10146	230	zf-C4H2: Zinc finger-containing protein ; InterPro	89.49
KOG0963	629	consensus Transcription factor/CCAAT displacement	89.44
PF02994	370	Transposase_22: L1 transposable element; InterPro:	89.35
KOG0018	1141	consensus Structural maintenance of chromosome pro	89.26
PF00769	246	ERM: Ezrin/radixin/moesin family; InterPro: IPR011	89.23
KOG0288	459	consensus WD40 repeat protein TipD [General functi	89.01
PF14992	280	TMCO5: TMCO5 family	88.97
PF13514	1111	AAA_27: AAA domain	88.79
COG1382	119	GimC Prefoldin, chaperonin cofactor [Posttranslati	88.62
TIGR00998	334	8a0101 efflux pump membrane protein (multidrug res	88.54
KOG0612	1317	consensus Rho-associated, coiled-coil containing p	88.4
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	88.33
KOG4809	654	consensus Rab6 GTPase-interacting protein involved	88.2
PRK11020	118	hypothetical protein; Provisional	88.18
PF06785	401	UPF0242: Uncharacterised protein family (UPF0242);	88.02
KOG1853	333	consensus LIS1-interacting protein NUDE [Cytoskele	87.98
PF05483	786	SCP-1: Synaptonemal complex protein 1 (SCP-1); Int	87.81
COG1730	145	GIM5 Predicted prefoldin, molecular chaperone impl	87.7
PRK02119	73	hypothetical protein; Provisional	87.61
TIGR00634	563	recN DNA repair protein RecN. All proteins in this	87.59
PF13514	1111	AAA_27: AAA domain	87.54
KOG0243	1041	consensus Kinesin-like protein [Cytoskeleton]	87.51
KOG4603	201	consensus TBP-1 interacting protein [Signal transd	87.5
PF14362	301	DUF4407: Domain of unknown function (DUF4407)	87.43
PF12072	201	DUF3552: Domain of unknown function (DUF3552); Int	87.14
PRK10803	263	tol-pal system protein YbgF; Provisional	87.08
PRK09343	121	prefoldin subunit beta; Provisional	87.08
PRK10361	475	DNA recombination protein RmuC; Provisional	87.05
PF04375	372	HemX: HemX; InterPro: IPR007470 The majority of pr	87.03
PF01576	859	Myosin_tail_1: Myosin tail; InterPro: IPR002928 Mu	87.0
KOG1853	333	consensus LIS1-interacting protein NUDE [Cytoskele	86.98
PF15397	258	DUF4618: Domain of unknown function (DUF4618)	86.91
PF04728	56	LPP: Lipoprotein leucine-zipper; InterPro: IPR0068	86.83
KOG4360	596	consensus Uncharacterized coiled coil protein [Fun	86.76
PF05266	190	DUF724: Protein of unknown function (DUF724); Inte	86.71
PRK04325	74	hypothetical protein; Provisional	86.69
PRK15178	434	Vi polysaccharide export inner membrane protein Ve	86.68
PF01576	859	Myosin_tail_1: Myosin tail; InterPro: IPR002928 Mu	86.63
PF15290	305	Syntaphilin: Golgi-localised syntaxin-1-binding cl	86.61
PF10168	717	Nup88: Nuclear pore component; InterPro: IPR019321	86.52
PF08826	61	DMPK_coil: DMPK coiled coil domain like; InterPro:	86.29
PF07889	126	DUF1664: Protein of unknown function (DUF1664); In	86.29
KOG0239	670	consensus Kinesin (KAR3 subfamily) [Cytoskeleton]	86.28
PF09787	511	Golgin_A5: Golgin subfamily A member 5; InterPro:	86.28
PRK00736	68	hypothetical protein; Provisional	86.22
PF01442	202	Apolipoprotein: Apolipoprotein A1/A4/E domain; Int	86.2
PF15619	194	Lebercilin: Ciliary protein causing Leber congenit	85.88
PF10234	267	Cluap1: Clusterin-associated protein-1; InterPro:	85.85
PRK11546	143	zraP zinc resistance protein; Provisional	85.84
PRK04406	75	hypothetical protein; Provisional	85.8
PF04102	69	SlyX: SlyX; InterPro: IPR007236 The SlyX protein h	85.79
PRK12705	508	hypothetical protein; Provisional	85.77
PRK02793	72	phi X174 lysis protein; Provisional	85.76
COG5185	622	HEC1 Protein involved in chromosome segregation, i	85.6
KOG0946	970	consensus ER-Golgi vesicle-tethering protein p115	85.58
PF04102	69	SlyX: SlyX; InterPro: IPR007236 The SlyX protein h	85.57
KOG1899	861	consensus LAR transmembrane tyrosine phosphatase-i	85.54
TIGR00634	563	recN DNA repair protein RecN. All proteins in this	85.51
PRK00295	68	hypothetical protein; Provisional	85.49
PF06005	72	DUF904: Protein of unknown function (DUF904); Inte	85.45
PF10205	102	KLRAQ: Predicted coiled-coil domain-containing pro	85.36
PF00769	246	ERM: Ezrin/radixin/moesin family; InterPro: IPR011	85.35
PF05483	786	SCP-1: Synaptonemal complex protein 1 (SCP-1); Int	85.19
KOG0288	459	consensus WD40 repeat protein TipD [General functi	85.17
PHA03332	1328	membrane glycoprotein; Provisional	85.07
PF01920	106	Prefoldin_2: Prefoldin subunit; InterPro: IPR00277	85.06
TIGR01010	362	BexC_CtrB_KpsE polysaccharide export inner-membran	85.04
PRK00295	68	hypothetical protein; Provisional	85.0
PF13747	89	DUF4164: Domain of unknown function (DUF4164)	84.91
TIGR02231	525	conserved hypothetical protein. This family consis	84.88
PF10481	307	CENP-F_N: Cenp-F N-terminal domain; InterPro: IPR0	84.78
KOG1003	205	consensus Actin filament-coating protein tropomyos	84.64
COG3206	458	GumC Uncharacterized protein involved in exopolysa	84.38
PRK00846	77	hypothetical protein; Provisional	84.35
TIGR02338	110	gimC_beta prefoldin, beta subunit, archaeal. Chape	84.32
PF14197	69	Cep57_CLD_2: Centrosome localisation domain of PPC	84.06
KOG0982	502	consensus Centrosomal protein Nuf [Cell cycle cont	84.04
PRK09841	726	cryptic autophosphorylating protein tyrosine kinas	84.02
PF11570	136	E2R135: Coiled-coil receptor-binding R-domain of c	84.02
TIGR03545	555	conserved hypothetical protein TIGR03545. This mod	83.94
PF03962	188	Mnd1: Mnd1 family; InterPro: IPR005647 This family	83.93
PRK11519	719	tyrosine kinase; Provisional	83.8
PF10168	717	Nup88: Nuclear pore component; InterPro: IPR019321	83.64
PF09787	511	Golgin_A5: Golgin subfamily A member 5; InterPro:	83.58
PF02994	370	Transposase_22: L1 transposable element; InterPro:	83.57
PRK00736	68	hypothetical protein; Provisional	83.44
PF13863	126	DUF4200: Domain of unknown function (DUF4200)	83.36
KOG0962	1294	consensus DNA repair protein RAD50, ABC-type ATPas	83.17
PF07989	75	Microtub_assoc: Microtubule associated; InterPro:	83.14
PF14282	106	FlxA: FlxA-like protein	83.11
KOG0979	1072	consensus Structural maintenance of chromosome pro	83.08
PF14073	178	Cep57_CLD: Centrosome localisation domain of Cep57	82.98
KOG1003	205	consensus Actin filament-coating protein tropomyos	82.97
TIGR03752	472	conj_TIGR03752 integrating conjugative element pro	82.93
PRK10698	222	phage shock protein PspA; Provisional	82.86
PRK15422	79	septal ring assembly protein ZapB; Provisional	82.85
PRK09343	121	prefoldin subunit beta; Provisional	82.64
PRK04325	74	hypothetical protein; Provisional	82.56
PF08647	96	BRE1: BRE1 E3 ubiquitin ligase; InterPro: IPR01395	82.49
TIGR01069	771	mutS2 MutS2 family protein. Function of MutS2 is u	82.28
KOG3433	203	consensus Protein involved in meiotic recombinatio	82.15
PRK02793	72	phi X174 lysis protein; Provisional	82.09
PF08172	248	CASP_C: CASP C terminal; InterPro: IPR012955 This	81.98
KOG2991	330	consensus Splicing regulator [RNA processing and m	81.94
PRK00846	77	hypothetical protein; Provisional	81.85
KOG1899	861	consensus LAR transmembrane tyrosine phosphatase-i	81.75
PF15450	531	DUF4631: Domain of unknown function (DUF4631)	81.6
KOG0962	1294	consensus DNA repair protein RAD50, ABC-type ATPas	81.48
PF05377	55	FlaC_arch: Flagella accessory protein C (FlaC); In	81.38
PF10211	189	Ax_dynein_light: Axonemal dynein light chain; Inte	81.31
PF02403	108	Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal dom	81.28
PRK10869	553	recombination and repair protein; Provisional	81.2
COG4026	290	Uncharacterized protein containing TOPRIM domain,	81.18
COG3074	79	Uncharacterized protein conserved in bacteria [Fun	81.13
KOG0244	913	consensus Kinesin-like protein [Cytoskeleton]	81.11
PF07111	739	HCR: Alpha helical coiled-coil rod protein (HCR);	81.09
PF10212	518	TTKRSYEDQ: Predicted coiled-coil domain-containing	81.09
PF05557	722	MAD: Mitotic checkpoint protein; InterPro: IPR0086	80.98
KOG4603	201	consensus TBP-1 interacting protein [Signal transd	80.93
COG1382	119	GimC Prefoldin, chaperonin cofactor [Posttranslati	80.89
PF10212	518	TTKRSYEDQ: Predicted coiled-coil domain-containing	80.89
PF15294	278	Leu_zip: Leucine zipper	80.87
PF03148	384	Tektin: Tektin family; InterPro: IPR000435 Tektin	80.75
PRK00409	782	recombination and DNA strand exchange inhibitor pr	80.53
PRK10698	222	phage shock protein PspA; Provisional	80.51
PF12777	344	MT: Microtubule-binding stalk of dynein motor; Int	80.48
PF04912	388	Dynamitin: Dynamitin ; InterPro: IPR006996 Dynamit	80.47
KOG2391	365	consensus Vacuolar sorting protein/ubiquitin recep	80.44
TIGR01069	771	mutS2 MutS2 family protein. Function of MutS2 is u	80.37
PRK10246	1047	exonuclease subunit SbcC; Provisional	80.32
TIGR02971	327	heterocyst_DevB ABC exporter membrane fusion prote	80.06
PRK00286	438	xseA exodeoxyribonuclease VII large subunit; Revie	80.03

>PRK11637 AmiB activator; Provisional

Probab=98.66  E-value=9.9e-06  Score=85.08  Aligned_cols=58  Identities=24%  Similarity=0.383  Sum_probs=35.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          125 IDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALK  182 (441)
Q Consensus       125 Ve~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelEk~lk  182 (441)
                      ++.+.....++...+.+++....+++..+.+++....+|+....+++..+++++..++
T Consensus       172 l~~l~~~~~~L~~~k~~le~~~~~l~~~~~e~~~~k~~L~~~k~e~~~~l~~L~~~~~  229 (428)
T PRK11637        172 IAELKQTREELAAQKAELEEKQSQQKTLLYEQQAQQQKLEQARNERKKTLTGLESSLQ  229 (428)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5555555555556666666666666666666666666666666666666666665555

>PRK09039 hypothetical protein; Validated

Probab=98.49  E-value=2.1e-05  Score=80.90  Aligned_cols=162  Identities=22%  Similarity=0.268  Sum_probs=119.7

Q ss_pred             hhhhHHHHHHHHHHHHhhhhccCCCCCCCccCccCCCCchhHhHHHHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHH
Q 013531            4 SKLVIFSLFFALILTAADVSIQGEDVPPLTASDAVDSSPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQ   83 (441)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~el~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~   83 (441)
                      +-||+..+|++.||..+.+                   -+..++..++.+|++|+++|.++..-+.-........+..|.
T Consensus        24 ~~ll~~~~f~l~~f~~~q~-------------------fLs~~i~~~~~eL~~L~~qIa~L~e~L~le~~~~~~l~~~l~   84 (343)
T PRK09039         24 STLLLVIMFLLTVFVVAQF-------------------FLSREISGKDSALDRLNSQIAELADLLSLERQGNQDLQDSVA   84 (343)
T ss_pred             HHHHHHHHHHHHHHHHHHH-------------------HHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHH
Confidence            4566666666656655333                   234567777888888888888877666666666666676666


Q ss_pred             HHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531           84 DKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKL  163 (441)
Q Consensus        84 ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeL  163 (441)
                      +....+..++..-+.|+.-.... ......++.++..|..++..++....+...++..|..+...++.++..++..++.+
T Consensus        85 ~l~~~l~~a~~~r~~Le~~~~~~-~~~~~~~~~~~~~l~~~L~~~k~~~se~~~~V~~L~~qI~aLr~Qla~le~~L~~a  163 (343)
T PRK09039         85 NLRASLSAAEAERSRLQALLAEL-AGAGAAAEGRAGELAQELDSEKQVSARALAQVELLNQQIAALRRQLAALEAALDAS  163 (343)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhh-hhhcchHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            66666666666666665322111 11123567888999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q 013531          164 QKINDEQKSKIRKTERALKEEM  185 (441)
Q Consensus       164 ek~~aEQk~qIeelEk~lkeei  185 (441)
                      +....+++.+|++++..+..-+
T Consensus       164 e~~~~~~~~~i~~L~~~L~~a~  185 (343)
T PRK09039        164 EKRDRESQAKIADLGRRLNVAL  185 (343)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999998888544

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

Probab=98.15  E-value=0.00037  Score=63.54  Aligned_cols=132  Identities=24%  Similarity=0.361  Sum_probs=76.2

Q ss_pred             hhHhHHHHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhh--HHhhHHHHHHHHHH
Q 013531           43 LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLN--AAEQVDKAHARADE  120 (441)
Q Consensus        43 ~~~el~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~--~~~~~~~a~~~~~e  120 (441)
                      ++.|.+....+..+++.++..++++...       +|..|..+.+++..++.+|..++..-...  .-+.+.+...++..
T Consensus         5 lk~E~d~a~~r~e~~e~~~K~le~~~~~-------~E~EI~sL~~K~~~lE~eld~~~~~l~~~k~~lee~~~~~~~~E~   77 (143)
T PF12718_consen    5 LKLEADNAQDRAEELEAKVKQLEQENEQ-------KEQEITSLQKKNQQLEEELDKLEEQLKEAKEKLEESEKRKSNAEQ   77 (143)
T ss_pred             HHHhHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhHHH
Confidence            4445555555556666666655555555       55555555566666666666665322111  11222233333445


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          121 LEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERAL  181 (441)
Q Consensus       121 Le~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelEk~l  181 (441)
                      |+..|..|+.+++..+........+..++......++.++..|+......+.++++++...
T Consensus        78 l~rriq~LEeele~ae~~L~e~~ekl~e~d~~ae~~eRkv~~le~~~~~~E~k~eel~~k~  138 (143)
T PF12718_consen   78 LNRRIQLLEEELEEAEKKLKETTEKLREADVKAEHFERKVKALEQERDQWEEKYEELEEKY  138 (143)
T ss_pred             HHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Confidence            6677777777777777777666666666666666666666666666666666666665543

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 [].

>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=98.12  E-value=0.00063  Score=67.79  Aligned_cols=138  Identities=20%  Similarity=0.297  Sum_probs=83.8

Q ss_pred             HhHHHHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHh-----------hhhchhh-------
Q 013531           45 IELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSL-----------QKKETLN-------  106 (441)
Q Consensus        45 ~el~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sL-----------q~~~~~~-------  106 (441)
                      .+...+..+|..|..+|+++.+++++.+.++.+....|.+..+.|..+...|...           |..|+..       
T Consensus        45 ~~~~~~q~ei~~L~~qi~~~~~k~~~~~~~i~~~~~eik~l~~eI~~~~~~I~~r~~~l~~raRAmq~nG~~t~Yidvil  124 (265)
T COG3883          45 KEKKNIQNEIESLDNQIEEIQSKIDELQKEIDQSKAEIKKLQKEIAELKENIVERQELLKKRARAMQVNGTATSYIDVIL  124 (265)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChhHHHHHHH
Confidence            3334466666777777777777777777777666666666667776666666544           4434332       


Q ss_pred             HHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHH
Q 013531          107 AAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLS-------AKLEKLQKINDEQKSKIRKTER  179 (441)
Q Consensus       107 ~~~~~~~a~~~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELe-------kklEeLek~~aEQk~qIeelEk  179 (441)
                      ..+..+..-.|+..+..-|+-=++.++++..+...|+.....+++..+.+.       ..+.+|+..+.+++..+..+..
T Consensus       125 ~SkSfsD~IsRvtAi~~iv~aDk~ile~qk~dk~~Le~kq~~l~~~~e~l~al~~e~e~~~~~L~~qk~e~~~l~~~~aa  204 (265)
T COG3883         125 NSKSFSDLISRVTAISVIVDADKKILEQQKEDKKSLEEKQAALEDKLETLVALQNELETQLNSLNSQKAEKNALIAALAA  204 (265)
T ss_pred             ccCcHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            234455666677777776666677777777777777777777666655444       4444444444444444444444


Q ss_pred             HHH
Q 013531          180 ALK  182 (441)
Q Consensus       180 ~lk  182 (441)
                      ...
T Consensus       205 ~~a  207 (265)
T COG3883         205 KEA  207 (265)
T ss_pred             HHH
Confidence            333

>PRK11637 AmiB activator; Provisional

Probab=97.99  E-value=0.0013  Score=69.23  Aligned_cols=59  Identities=12%  Similarity=0.127  Sum_probs=29.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          124 QIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALK  182 (441)
Q Consensus       124 eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelEk~lk  182 (441)
                      ....|+....+++....+++..+.+++....+.+..+..|+....++...+.++++..+
T Consensus       185 ~k~~le~~~~~l~~~~~e~~~~k~~L~~~k~e~~~~l~~L~~~~~~~~~~l~~l~~~~~  243 (428)
T PRK11637        185 QKAELEEKQSQQKTLLYEQQAQQQKLEQARNERKKTLTGLESSLQKDQQQLSELRANES  243 (428)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33334444444444444444455555555555455555566555555555555555444

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

Probab=97.83  E-value=0.0032  Score=57.47  Aligned_cols=16  Identities=19%  Similarity=0.229  Sum_probs=7.2

Q ss_pred             HHHHHHHHHHhhHHHH
Q 013531           49 QLKSKIRSLESHIDEK   64 (441)
Q Consensus        49 ~l~~~i~~Les~i~~~   64 (441)
                      .||.+......+.+++
T Consensus         4 ~lk~E~d~a~~r~e~~   19 (143)
T PF12718_consen    4 ALKLEADNAQDRAEEL   19 (143)
T ss_pred             HHHHhHHHHHHHHHHH
Confidence            3444444444444443

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 [].

>TIGR02169 SMC_prok_A chromosome segregation protein SMC, primarily archaeal type

Probab=97.81  E-value=0.0028  Score=73.08  Aligned_cols=31  Identities=10%  Similarity=0.178  Sum_probs=12.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          118 ADELEKQIDNLKKESEKQQKEKEALEARAIE  148 (441)
Q Consensus       118 ~~eLe~eVe~Lkkeie~~ek~~eeLEark~e  148 (441)
                      +.+++.++..++.++..+..++..++.+...
T Consensus       800 l~~l~~~~~~l~~~~~~l~~~~~~l~~~~~~  830 (1164)
T TIGR02169       800 LSKLEEEVSRIEARLREIEQKLNRLTLEKEY  830 (1164)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444444444444333333333

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.

>TIGR02169 SMC_prok_A chromosome segregation protein SMC, primarily archaeal type

Probab=97.75  E-value=0.0041  Score=71.73  Aligned_cols=26  Identities=38%  Similarity=0.567  Sum_probs=11.0

Q ss_pred             HhHHHHHHHHHHHHhhHHHHhhhhcc
Q 013531           45 IELDQLKSKIRSLESHIDEKTQELKG   70 (441)
Q Consensus        45 ~el~~l~~~i~~Les~i~~~~~~i~~   70 (441)
                      .++..++.++..++..+..+.+++..
T Consensus       294 ~~~~~~~~~~~~~~~~~~~~~~~l~~  319 (1164)
T TIGR02169       294 EKIGELEAEIASLERSIAEKERELED  319 (1164)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444444444433

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.

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

Probab=97.65  E-value=0.013  Score=57.77  Aligned_cols=95  Identities=18%  Similarity=0.176  Sum_probs=42.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 013531          117 RADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKEEMMRAKFEATSRS  196 (441)
Q Consensus       117 ~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelEk~lkeei~k~k~E~~~kA  196 (441)
                      ....|+-+++.++..+..++.++..+..+...+       +.++..+......++..+.+++..+..++..+..+...-.
T Consensus        90 e~~aL~~E~~~ak~r~~~le~el~~l~~~~~~l-------~~~i~~l~~~~~~~e~~~~e~~~~~e~e~~~i~e~~~~~~  162 (239)
T COG1579          90 ELRALNIEIQIAKERINSLEDELAELMEEIEKL-------EKEIEDLKERLERLEKNLAEAEARLEEEVAEIREEGQELS  162 (239)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444455555444444444444444444444       4444444444444444444444444433332222222111


Q ss_pred             hhHHHhhhccCChhHHHHHHhhh
Q 013531          197 KELTEVHSAWLPPWLAVHLLQCQ  219 (441)
Q Consensus       197 k~l~e~h~~wlppw~a~~~~~~q  219 (441)
                      .+-.+ --.=+||=|...+.+..
T Consensus       163 ~~~~~-L~~~l~~ell~~yeri~  184 (239)
T COG1579         163 SKREE-LKEKLDPELLSEYERIR  184 (239)
T ss_pred             HHHHH-HHHhcCHHHHHHHHHHH
Confidence            11111 11236776666666655

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

Probab=97.63  E-value=0.0094  Score=62.96  Aligned_cols=133  Identities=19%  Similarity=0.265  Sum_probs=90.6

Q ss_pred             HHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc---hhhHHhhHHHH------------
Q 013531           50 LKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKE---TLNAAEQVDKA------------  114 (441)
Q Consensus        50 l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~---~~~~~~~~~~a------------  114 (441)
                      -+.+.++|++.|..++.+|+.-+..|..-++.+.+.++.|.++...|.-|+..-   ..-..+++..+            
T Consensus        57 ~~~~~~kL~~~lk~~e~~i~~~~~ql~~s~~~l~~~~~~I~~~~~~l~~l~~q~r~qr~~La~~L~A~~r~g~~p~~~ll  136 (420)
T COG4942          57 QQDQRAKLEKQLKSLETEIASLEAQLIETADDLKKLRKQIADLNARLNALEVQEREQRRRLAEQLAALQRSGRNPPPALL  136 (420)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCchhh
Confidence            334445666667777777777777777777777777777777777777776432   00001111111            


Q ss_pred             ----------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          115 ----------------HARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTE  178 (441)
Q Consensus       115 ----------------~~~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelE  178 (441)
                                      .+=+.++-.+++.|......+......++++..++...+.+...+...|.....+++....+++
T Consensus       137 ~~~eda~~~~R~ai~~~~l~~~~~~~i~~l~~~~~~l~~~~~~iaaeq~~l~~~~~eq~~q~~kl~~~~~E~kk~~~~l~  216 (420)
T COG4942         137 VSPEDAQRSVRLAIYYGALNPARAERIDALKATLKQLAAVRAEIAAEQAELTTLLSEQRAQQAKLAQLLEERKKTLAQLN  216 (420)
T ss_pred             cChhhhhHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                            0113445556888888888888888888888888888888888888888888888888888888


Q ss_pred             HHHH
Q 013531          179 RALK  182 (441)
Q Consensus       179 k~lk  182 (441)
                      ..+.
T Consensus       217 ~~l~  220 (420)
T COG4942         217 SELS  220 (420)
T ss_pred             HHHH
Confidence            8887

>TIGR02168 SMC_prok_B chromosome segregation protein SMC, common bacterial type

Probab=97.56  E-value=0.011  Score=68.02  Aligned_cols=13  Identities=31%  Similarity=0.626  Sum_probs=4.8

Q ss_pred             hHHHHHHHHHHHH
Q 013531           46 ELDQLKSKIRSLE   58 (441)
Q Consensus        46 el~~l~~~i~~Le   58 (441)
                      ++..+..++..++
T Consensus       699 ~~~~~~~~l~~l~  711 (1179)
T TIGR02168       699 ALAELRKELEELE  711 (1179)
T ss_pred             HHHHHHHHHHHHH
Confidence            3333333333333

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.

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

Probab=97.52  E-value=0.017  Score=57.07  Aligned_cols=110  Identities=18%  Similarity=0.319  Sum_probs=60.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531           78 KEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNL--KKESEKQQKEKEALEARAIEAEKKISD  155 (441)
Q Consensus        78 ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~eVe~L--kkeie~~ek~~eeLEark~eLEkkleE  155 (441)
                      ....+....+.+.+++.++..|++..+.. +.-+.+.++|...++......  .++.++++.++..++.+...++..+.+
T Consensus        36 ~~~e~e~~~~~~~~~~~e~e~le~qv~~~-e~ei~~~r~r~~~~e~kl~~v~~~~e~~aL~~E~~~ak~r~~~le~el~~  114 (239)
T COG1579          36 AKAELEALNKALEALEIELEDLENQVSQL-ESEIQEIRERIKRAEEKLSAVKDERELRALNIEIQIAKERINSLEDELAE  114 (239)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444444444443322221 122344445555555554444  456666677777777777777777777


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          156 LSAKLEKLQKINDEQKSKIRKTERALKEEMMRA  188 (441)
Q Consensus       156 LekklEeLek~~aEQk~qIeelEk~lkeei~k~  188 (441)
                      +...++.+++.....+..+..+++.+.+.-.+.
T Consensus       115 l~~~~~~l~~~i~~l~~~~~~~e~~~~e~~~~~  147 (239)
T COG1579         115 LMEEIEKLEKEIEDLKERLERLEKNLAEAEARL  147 (239)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            777777777777777777777777666443333

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

Probab=97.51  E-value=0.027  Score=63.27  Aligned_cols=140  Identities=22%  Similarity=0.314  Sum_probs=81.3

Q ss_pred             chhHhHHHHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhH----------
Q 013531           42 PLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQV----------  111 (441)
Q Consensus        42 ~~~~el~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~----------  111 (441)
                      .++.||++|+.+..+|+.++..+++....=.+.+.++|+-+.+--..=..++..+...++..-. .++.+          
T Consensus       457 ~lk~eL~qlr~ene~Lq~Kl~~L~~aRq~DKq~l~~LEkrL~eE~~~R~~lEkQL~eErk~r~~-ee~~aar~~~~~~~~  535 (697)
T PF09726_consen  457 SLKSELSQLRQENEQLQNKLQNLVQARQQDKQSLQQLEKRLAEERRQRASLEKQLQEERKARKE-EEEKAARALAQAQAT  535 (697)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH-HHHhhhhccccchhc
Confidence            4566777777777777777777777666666667777777777766667777776666543211 11111          


Q ss_pred             -----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          112 -----DKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALK  182 (441)
Q Consensus       112 -----~~a~~~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelEk~lk  182 (441)
                           .....|..+||.++..|+.++..-++++..+|.+..++.....+-+...+.|-......+.+-..+|..+.
T Consensus       536 r~e~~e~~r~r~~~lE~E~~~lr~elk~kee~~~~~e~~~~~lr~~~~e~~~~~e~L~~aL~amqdk~~~LE~sLs  611 (697)
T PF09726_consen  536 RQECAESCRQRRRQLESELKKLRRELKQKEEQIRELESELQELRKYEKESEKDTEVLMSALSAMQDKNQHLENSLS  611 (697)
T ss_pred             cchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHhhh
Confidence                 11233556666666666666666666666666665544433222333444444555555555555555555

; GO: 0016021 integral to membrane

>PRK09039 hypothetical protein; Validated

Probab=97.42  E-value=0.041  Score=56.91  Aligned_cols=14  Identities=43%  Similarity=0.584  Sum_probs=7.5

Q ss_pred             HhHHHHHHHHHHHH
Q 013531           45 IELDQLKSKIRSLE   58 (441)
Q Consensus        45 ~el~~l~~~i~~Le   58 (441)
                      .+|++|..+|++|=
T Consensus        53 ~eL~~L~~qIa~L~   66 (343)
T PRK09039         53 SALDRLNSQIAELA   66 (343)
T ss_pred             HHHHHHHHHHHHHH
Confidence            45555555555543

>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=97.38  E-value=0.088  Score=52.77  Aligned_cols=136  Identities=18%  Similarity=0.286  Sum_probs=96.2

Q ss_pred             HhHHHHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHH-------
Q 013531           45 IELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHAR-------  117 (441)
Q Consensus        45 ~el~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~-------  117 (441)
                      .++..+......++.+|+.+-.+|.+-...+..+++.|.+....|..++++|..|.+.+..  ...+.+-.+|       
T Consensus        38 s~l~~~~~~~~~~q~ei~~L~~qi~~~~~k~~~~~~~i~~~~~eik~l~~eI~~~~~~I~~--r~~~l~~raRAmq~nG~  115 (265)
T COG3883          38 SKLSELQKEKKNIQNEIESLDNQIEEIQSKIDELQKEIDQSKAEIKKLQKEIAELKENIVE--RQELLKKRARAMQVNGT  115 (265)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHcCC
Confidence            4556666666666666666666666666666666666666666666666666666443322  1222222222       


Q ss_pred             -------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          118 -------------ADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALK  182 (441)
Q Consensus       118 -------------~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelEk~lk  182 (441)
                                   .+++-.+|.-+...++.-..-++.+..+...++.....++.+++.|.....+.+.+.++++....
T Consensus       116 ~t~Yidvil~SkSfsD~IsRvtAi~~iv~aDk~ile~qk~dk~~Le~kq~~l~~~~e~l~al~~e~e~~~~~L~~qk~  193 (265)
T COG3883         116 ATSYIDVILNSKSFSDLISRVTAISVIVDADKKILEQQKEDKKSLEEKQAALEDKLETLVALQNELETQLNSLNSQKA  193 (265)
T ss_pred             hhHHHHHHHccCcHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                         35566677777888888888888888899999999999999999999999999999988888777

>PHA02562 46 endonuclease subunit; Provisional

Probab=97.37  E-value=0.027  Score=60.63  Aligned_cols=50  Identities=14%  Similarity=0.239  Sum_probs=25.9

Q ss_pred             HHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013531           50 LKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSL   99 (441)
Q Consensus        50 l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sL   99 (441)
                      +..++..|+..|..+..++..-++.|+..+..+...+..+..++..+..+
T Consensus       232 l~~~l~~l~~~i~~l~~~i~~~~~~L~~l~~~~~~~~~~l~~~~~~~~~~  281 (562)
T PHA02562        232 IKAEIEELTDELLNLVMDIEDPSAALNKLNTAAAKIKSKIEQFQKVIKMY  281 (562)
T ss_pred             HHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            34444444444444444444445555555555555555555555555555

>PRK02224 chromosome segregation protein; Provisional

Probab=97.34  E-value=0.025  Score=64.37  Aligned_cols=48  Identities=13%  Similarity=0.059  Sum_probs=21.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          132 SEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTER  179 (441)
Q Consensus       132 ie~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelEk  179 (441)
                      ++++..++.+++++..+++..+.+++...+++.....+.+.++++++.
T Consensus       594 ~~~~~~~i~~~~~~~~~~~~~~~~l~~~~~~~~~~l~~~r~~i~~l~~  641 (880)
T PRK02224        594 IRTLLAAIADAEDEIERLREKREALAELNDERRERLAEKRERKRELEA  641 (880)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333444444444444444444444444444445555555555443

>PF08614 ATG16: Autophagy protein 16 (ATG16); InterPro: IPR013923 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells

Probab=97.29  E-value=0.0046  Score=58.67  Aligned_cols=112  Identities=24%  Similarity=0.336  Sum_probs=51.0

Q ss_pred             chhHhHHHHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHH
Q 013531           42 PLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADEL  121 (441)
Q Consensus        42 ~~~~el~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eL  121 (441)
                      .+...+..++.++..+...-.++.+.|...+..+..++..+.+++..|.++..++..|+               .++..|
T Consensus        71 ~le~~~~~l~~ELael~r~~~el~~~L~~~~~~l~~l~~~~~~~~~~l~~l~~~~~~L~---------------~~~~~l  135 (194)
T PF08614_consen   71 SLEQKLAKLQEELAELYRSKGELAQQLVELNDELQELEKELSEKERRLAELEAELAQLE---------------EKIKDL  135 (194)
T ss_dssp             -------------------------------------------HHHHHHHHHHHHHHHH---------------HHHHHH
T ss_pred             ccccccccccccccccccccccccccccccccccchhhhhHHHHHHHHHHHHHHHHHHH---------------HHHHHH
Confidence            34455566778888887888888888888888888888888888888888888888887               245666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          122 EKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKIND  168 (441)
Q Consensus       122 e~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~a  168 (441)
                      +.++....+.++.+++++..|.-..+.+|.+...++.+-.+|-+.--
T Consensus       136 ~~~l~ek~k~~e~l~DE~~~L~l~~~~~e~k~~~l~~En~~Lv~Rwm  182 (194)
T PF08614_consen  136 EEELKEKNKANEILQDELQALQLQLNMLEEKLRKLEEENRELVERWM  182 (194)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            77777777777777777777777777777777777766666654433

In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. This entry represents auotphagy protein 16 (Apg16), which is required for the function of the Apg12p-Apg5p conjugate.; PDB: 3A7O_D 3A7P_B.

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

Probab=97.18  E-value=0.049  Score=64.40  Aligned_cols=19  Identities=42%  Similarity=0.688  Sum_probs=8.1

Q ss_pred             HHHHHHHHHhhHHHHhhhh
Q 013531           50 LKSKIRSLESHIDEKTQEL   68 (441)
Q Consensus        50 l~~~i~~Les~i~~~~~~i   68 (441)
                      ++.++.+++..+.+++..+
T Consensus       693 ~~~~~~~~~~~~~~~~~~~  711 (1163)
T COG1196         693 LKNELRSLEDLLEELRRQL  711 (1163)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            4444444444444444333

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

Probab=97.16  E-value=0.053  Score=64.13  Aligned_cols=9  Identities=11%  Similarity=0.268  Sum_probs=3.5

Q ss_pred             HHHHHHHHH
Q 013531          368 QVQASVQEM  376 (441)
Q Consensus       368 q~Q~~v~~~  376 (441)
                      +++...+..
T Consensus      1021 ~F~~if~~L 1029 (1163)
T COG1196        1021 NFSEIFKEL 1029 (1163)
T ss_pred             HHHHHHHHh
Confidence            344333333

>KOG0243 consensus Kinesin-like protein [Cytoskeleton]

Probab=97.16  E-value=0.43  Score=55.53  Aligned_cols=63  Identities=6%  Similarity=0.169  Sum_probs=44.5

Q ss_pred             hhHHHHHHhhcCcchHhHHHhhcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCchhcc
Q 013531          323 KPYIDQVATVAKPHVDNVRVALKPYTKKVVRAYGKFLKSATTYHHQVQASVQEMLKKHELTSPLAT  388 (441)
Q Consensus       323 ~py~~qa~~~skP~vdkv~~~~~Py~e~v~~~~k~~~~~a~~~H~q~Q~~v~~~l~~~e~~~~~at  388 (441)
                      +......++.+..-++.+..-+-|+...+...+..++..+..+...+|+.++   .+-+++.-+++
T Consensus       638 q~~~~~~k~~~~s~l~~i~s~~~~~~~~~~~~l~~~~~~~~~~~~~i~~~l~---~q~~~~~l~~~  700 (1041)
T KOG0243|consen  638 QQLQEVLKKDSESCLEVINSSITSSINELESMLETIANTADDLLQNISSRLS---NQQEILSLFAN  700 (1041)
T ss_pred             HHHHHHHhhhHHHHHHHHhccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHh---hhhhHHHHhhH
Confidence            3333444444555556677777788888999999999999999999998877   34455555555

>TIGR01843 type_I_hlyD type I secretion membrane fusion protein, HlyD family

Probab=97.13  E-value=0.23  Score=51.03  Aligned_cols=30  Identities=17%  Similarity=0.319  Sum_probs=19.7

Q ss_pred             CchhHhHHHHHHHHHHHHhhHHHHhhhhcc
Q 013531           41 SPLKIELDQLKSKIRSLESHIDEKTQELKG   70 (441)
Q Consensus        41 ~~~~~el~~l~~~i~~Les~i~~~~~~i~~   70 (441)
                      ..+..++.+++.++.+|+..+..+...+..
T Consensus        77 ~~~~~~l~~l~~~~~~l~a~~~~l~~~~~~  106 (423)
T TIGR01843        77 TDVEADAAELESQVLRLEAEVARLRAEADS  106 (423)
T ss_pred             chhhhHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence            334567777778887777777665555544

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.

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

Probab=97.12  E-value=0.047  Score=53.36  Aligned_cols=103  Identities=23%  Similarity=0.396  Sum_probs=41.8

Q ss_pred             HHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHHHHHHHHHHHHH
Q 013531           54 IRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESE  133 (441)
Q Consensus        54 i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~eVe~Lkkeie  133 (441)
                      |.+|+..|+..+..+..-...|+..++.....+..+.+|+..|..|.. ..-..++....+..++.+++...+.......
T Consensus         3 ~~~l~~eld~~~~~~~~~~~~l~~~~~~~~~aE~e~~~l~rri~~lE~-~le~~eerL~~~~~kL~~~e~~~de~er~~k   81 (237)
T PF00261_consen    3 IQQLKDELDEAEERLEEAEEKLKEAEKRAEKAEAEVASLQRRIQLLEE-ELERAEERLEEATEKLEEAEKRADESERARK   81 (237)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC-CCHHHHCCCCHHHHHHHHHHHHHHHHCHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444444444444444444444444444444444555555555555531 1112222233333344444444444333333


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          134 KQQKEKEALEARAIEAEKKISDLS  157 (441)
Q Consensus       134 ~~ek~~eeLEark~eLEkkleELe  157 (441)
                      .++.+....+.+...++.++.++.
T Consensus        82 ~lE~r~~~~eeri~~lE~~l~ea~  105 (237)
T PF00261_consen   82 VLENREQSDEERIEELEQQLKEAK  105 (237)
T ss_dssp             HHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333333333333

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 ....

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

Probab=97.11  E-value=0.069  Score=52.22  Aligned_cols=77  Identities=22%  Similarity=0.381  Sum_probs=35.0

Q ss_pred             HHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHHHHHHHHH
Q 013531           50 LKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLK  129 (441)
Q Consensus        50 l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~eVe~Lk  129 (441)
                      |..+....+.+|..++.+++.-.......+.-..+-+.++..++.++.-.        ++.+..++.++.+|+.++..+.
T Consensus        83 lE~r~~~~eeri~~lE~~l~ea~~~~ee~e~k~~E~~rkl~~~E~~Le~a--------EeR~e~~E~ki~eLE~el~~~~  154 (237)
T PF00261_consen   83 LENREQSDEERIEELEQQLKEAKRRAEEAERKYEEVERKLKVLEQELERA--------EERAEAAESKIKELEEELKSVG  154 (237)
T ss_dssp             HHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHhhhchhHHHHHHHHHHHH
Confidence            33444444455555555555444444444444444444444444443332        3444455555555555555544


Q ss_pred             HHHHH
Q 013531          130 KESEK  134 (441)
Q Consensus       130 keie~  134 (441)
                      ..+..
T Consensus       155 ~~lk~  159 (237)
T PF00261_consen  155 NNLKS  159 (237)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            44433

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 ....

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

Probab=97.10  E-value=0.91  Score=52.66  Aligned_cols=36  Identities=19%  Similarity=0.403  Sum_probs=21.5

Q ss_pred             HHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHH
Q 013531           53 KIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSER   88 (441)
Q Consensus        53 ~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~   88 (441)
                      .+..+.+.|.+.+++|+++..-++++++.|...++.
T Consensus       742 ~~~~~~e~v~e~~~~Ike~~~~~k~~~~~i~~lE~~  777 (1174)
T KOG0933|consen  742 DLKELLEEVEESEQQIKEKERALKKCEDKISTLEKK  777 (1174)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344456666666677777666666666666444433

>PHA02562 46 endonuclease subunit; Provisional

Probab=97.09  E-value=0.032  Score=60.00  Aligned_cols=19  Identities=21%  Similarity=0.431  Sum_probs=8.1

Q ss_pred             hHhHHHHHHHHHHHHhhHH
Q 013531           44 KIELDQLKSKIRSLESHID   62 (441)
Q Consensus        44 ~~el~~l~~~i~~Les~i~   62 (441)
                      ..+++.++.++..++.+|.
T Consensus       180 ~~~i~~l~~~i~~l~~~i~  198 (562)
T PHA02562        180 NQQIQTLDMKIDHIQQQIK  198 (562)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            3444444444444444333

>PRK02224 chromosome segregation protein; Provisional

Probab=97.08  E-value=0.054  Score=61.73  Aligned_cols=8  Identities=13%  Similarity=0.185  Sum_probs=3.4

Q ss_pred             hhhhccCC
Q 013531          224 THWNAHGK  231 (441)
Q Consensus       224 ~~w~~hg~  231 (441)
                      +.|..=|.
T Consensus       452 ~~Cp~C~r  459 (880)
T PRK02224        452 GKCPECGQ  459 (880)
T ss_pred             ccCCCCCC
Confidence            44444443

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

Probab=97.03  E-value=0.13  Score=56.21  Aligned_cols=79  Identities=27%  Similarity=0.433  Sum_probs=42.9

Q ss_pred             HHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHHHHHHHHH
Q 013531           50 LKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLK  129 (441)
Q Consensus        50 l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~eVe~Lk  129 (441)
                      |..+..+|+..|+.+..++....++..++....+++......+..+..+|.        .+-.++.+++.+|+..+..|.
T Consensus       162 Le~e~~~l~~~v~~l~~eL~~~~ee~e~L~~~~kel~~~~e~l~~E~~~L~--------~q~~e~~~ri~~LEedi~~l~  233 (546)
T PF07888_consen  162 LEEEVEQLREEVERLEAELEQEEEEMEQLKQQQKELTESSEELKEERESLK--------EQLAEARQRIRELEEDIKTLT  233 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHH
Confidence            444455555555555555555555555555555555555555555555554        223445666667776666665


Q ss_pred             HHHHHHH
Q 013531          130 KESEKQQ  136 (441)
Q Consensus       130 keie~~e  136 (441)
                      ......+
T Consensus       234 qk~~E~e  240 (546)
T PF07888_consen  234 QKEKEQE  240 (546)
T ss_pred             HHHHHHH
Confidence            5443333

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 [].

>PRK03918 chromosome segregation protein; Provisional

Probab=96.97  E-value=0.22  Score=56.58  Aligned_cols=18  Identities=33%  Similarity=0.462  Sum_probs=7.2

Q ss_pred             HHHHHHHHHhhHHHHhhh
Q 013531           50 LKSKIRSLESHIDEKTQE   67 (441)
Q Consensus        50 l~~~i~~Les~i~~~~~~   67 (441)
                      ++.++..++..+.+++.+
T Consensus       530 l~~~~~~l~~~l~~l~~~  547 (880)
T PRK03918        530 LKEKLIKLKGEIKSLKKE  547 (880)
T ss_pred             HHHHHHHHHhHHHHHHHH
Confidence            333444444434433333

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

Probab=96.95  E-value=0.06  Score=62.33  Aligned_cols=132  Identities=20%  Similarity=0.366  Sum_probs=71.3

Q ss_pred             HHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhh------hchhhHHhhHHHHHHHHHHHHHH
Q 013531           51 KSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQK------KETLNAAEQVDKAHARADELEKQ  124 (441)
Q Consensus        51 ~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~------~~~~~~~~~~~~a~~~~~eLe~e  124 (441)
                      ..+++.|..+|+.....+.+-++.+.+++..|+++.......-.||..+..      ..-.+.+.....++.++.++.+.
T Consensus       294 qek~~~l~~ki~~~~~k~~~~r~k~teiea~i~~~~~e~~~~d~Ei~~~r~~~~~~~re~~~~~~~~~~~~n~i~~~k~~  373 (1074)
T KOG0250|consen  294 QEKVDTLQEKIEEKQGKIEEARQKLTEIEAKIGELKDEVDAQDEEIEEARKDLDDLRREVNDLKEEIREIENSIRKLKKE  373 (1074)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444444444444555555555444444444444421      11233444455555556666666


Q ss_pred             HHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          125 IDNLKKESEKQQKEK-EALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALK  182 (441)
Q Consensus       125 Ve~Lkkeie~~ek~~-eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelEk~lk  182 (441)
                      ++.|+++|.+.+++. ..+..++.+.+.+++.|+.+++.++.....+...+++...++.
T Consensus       374 ~d~l~k~I~~~~~~~~~~~~~~~~e~e~k~~~L~~evek~e~~~~~L~~e~~~~~~~~~  432 (1074)
T KOG0250|consen  374 VDRLEKQIADLEKQTNNELGSELEERENKLEQLKKEVEKLEEQINSLREELNEVKEKAK  432 (1074)
T ss_pred             HHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            666666666666665 5666666666666666666666666666666666666555554

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

Probab=96.91  E-value=0.3  Score=56.79  Aligned_cols=59  Identities=27%  Similarity=0.388  Sum_probs=27.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          124 QIDNLKKESEKQQKEKEALEARA-IEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALK  182 (441)
Q Consensus       124 eVe~Lkkeie~~ek~~eeLEark-~eLEkkleELekklEeLek~~aEQk~qIeelEk~lk  182 (441)
                      .+..+++.++.+++.+..++.+- +++..++.+.+.+++.|+..++..+..+..+...++
T Consensus       366 ~i~~~k~~~d~l~k~I~~~~~~~~~~~~~~~~e~e~k~~~L~~evek~e~~~~~L~~e~~  425 (1074)
T KOG0250|consen  366 SIRKLKKEVDRLEKQIADLEKQTNNELGSELEERENKLEQLKKEVEKLEEQINSLREELN  425 (1074)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444444444 334444444445555555555444444444444444

>PF15619 Lebercilin: Ciliary protein causing Leber congenital amaurosis disease

Probab=96.88  E-value=0.25  Score=47.45  Aligned_cols=130  Identities=20%  Similarity=0.327  Sum_probs=80.3

Q ss_pred             hHhHHHHHHHHHHHHhhHHHHhhhhcchhH-------HHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHH
Q 013531           44 KIELDQLKSKIRSLESHIDEKTQELKGKDE-------VVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHA  116 (441)
Q Consensus        44 ~~el~~l~~~i~~Les~i~~~~~~i~~k~~-------~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~  116 (441)
                      ...+..|+.+|..|+.+|.++..|-+.-..       .|...|+.=.+..+.|....+||-.|+        ++..++..
T Consensus        11 ~~ki~~L~n~l~elq~~l~~l~~ENk~Lk~lq~Rq~kAL~k~e~~e~~Lpqll~~h~eEvr~Lr--------~~LR~~q~   82 (194)
T PF15619_consen   11 LHKIKELQNELAELQRKLQELRKENKTLKQLQKRQEKALQKYEDTEAELPQLLQRHNEEVRVLR--------ERLRKSQE   82 (194)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHH--------HHHHHHHH
Confidence            345566777777777777777666554333       334444444778888888888888886        33444555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          117 RADELEKQIDNLKKESEKQQKEKEALEARAIE--AEKKISDLSAKLEKLQKINDEQKSKIRKTERALK  182 (441)
Q Consensus       117 ~~~eLe~eVe~Lkkeie~~ek~~eeLEark~e--LEkkleELekklEeLek~~aEQk~qIeelEk~lk  182 (441)
                      +..+++..+.....++...+..+..|..-..+  +.. .++|..+++.++....+....|..+++.++
T Consensus        83 ~~r~~~~klk~~~~el~k~~~~l~~L~~L~~dknL~e-ReeL~~kL~~~~~~l~~~~~ki~~Lek~le  149 (194)
T PF15619_consen   83 QERELERKLKDKDEELLKTKDELKHLKKLSEDKNLAE-REELQRKLSQLEQKLQEKEKKIQELEKQLE  149 (194)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCchh-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55555555555555555555555544443322  222 366777777777777777777777777766

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

Probab=96.88  E-value=0.089  Score=53.81  Aligned_cols=117  Identities=21%  Similarity=0.318  Sum_probs=70.2

Q ss_pred             HHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531           55 RSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEK  134 (441)
Q Consensus        55 ~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~eVe~Lkkeie~  134 (441)
                      ..|+..++.+.++...-+..+...+..+.+....-..|..++..|+....-..           ..=..++..++.++.+
T Consensus       152 ~~L~~~~~~L~~D~~~L~~~~~~l~~~~~~l~~~~~~L~~e~~~Lk~~~~e~~-----------~~D~~eL~~lr~eL~~  220 (325)
T PF08317_consen  152 EGLEENLELLQEDYAKLDKQLEQLDELLPKLRERKAELEEELENLKQLVEEIE-----------SCDQEELEALRQELAE  220 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh-----------hcCHHHHHHHHHHHHH
Confidence            44455555555555555555555666666666666666677776663221000           0001345666666666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          135 QQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALK  182 (441)
Q Consensus       135 ~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelEk~lk  182 (441)
                      +..+++.......+++.++..++..++++...+.+...+|+++++...
T Consensus       221 ~~~~i~~~k~~l~el~~el~~l~~~i~~~~~~k~~l~~eI~e~~~~~~  268 (325)
T PF08317_consen  221 QKEEIEAKKKELAELQEELEELEEKIEELEEQKQELLAEIAEAEKIRE  268 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            666666666666667777777777777777777777777777776665

>PF04156 IncA: IncA protein; InterPro: IPR007285 Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion

Probab=96.79  E-value=0.098  Score=48.90  Aligned_cols=24  Identities=33%  Similarity=0.493  Sum_probs=10.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          113 KAHARADELEKQIDNLKKESEKQQ  136 (441)
Q Consensus       113 ~a~~~~~eLe~eVe~Lkkeie~~e  136 (441)
                      ..++++..++..+..+.+++.++.
T Consensus       127 ~~~~~l~~l~~~~~~~~~e~~~l~  150 (191)
T PF04156_consen  127 SVEERLDSLDESIKELEKEIRELQ  150 (191)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333444444444444444444444

The inclusion is nonfusogenic with lysosomes but intercepts lipids from a host cell exocytic pathway. Initiation of chlamydial development is concurrent with modification of the inclusion membrane by a set of C. trachomatis-encoded proteins collectively designated Incs. One of these Incs, IncA (Inclusion membrane protein A), is functionally associated with the homotypic fusion of inclusions [].

>PRK04863 mukB cell division protein MukB; Provisional

Probab=96.77  E-value=0.53  Score=57.29  Aligned_cols=132  Identities=18%  Similarity=0.283  Sum_probs=64.0

Q ss_pred             hHHHHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhH-----HhhHHHHHHHHHH
Q 013531           46 ELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNA-----AEQVDKAHARADE  120 (441)
Q Consensus        46 el~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~-----~~~~~~a~~~~~e  120 (441)
                      |.-.+=.++...+.+..+-.+.|...+..+...++++.+.+..+..|+.++.....-.....     ..........+.+
T Consensus       280 ERR~liEEAag~r~rk~eA~kkLe~tE~nL~rI~diL~ELe~rL~kLEkQaEkA~kyleL~ee~lr~q~ei~~l~~~LeE  359 (1486)
T PRK04863        280 ERRVHLEEALELRRELYTSRRQLAAEQYRLVEMARELAELNEAESDLEQDYQAASDHLNLVQTALRQQEKIERYQADLEE  359 (1486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333334455556666666666666666777777777777777777777776654322211     1222233333444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          121 LEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKT  177 (441)
Q Consensus       121 Le~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeel  177 (441)
                      |+.++++....++....++..++.+...++.++++++.++.+++.....++.++.++
T Consensus       360 Lee~Lee~eeeLeeleeeleeleeEleelEeeLeeLqeqLaelqqel~elQ~el~q~  416 (1486)
T PRK04863        360 LEERLEEQNEVVEEADEQQEENEARAEAAEEEVDELKSQLADYQQALDVQQTRAIQY  416 (1486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444444444444444444444444444444444444444433333333333333333

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

Probab=96.74  E-value=0.052  Score=61.60  Aligned_cols=107  Identities=21%  Similarity=0.307  Sum_probs=77.1

Q ss_pred             CchhHhHHHHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHH
Q 013531           41 SPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADE  120 (441)
Q Consensus        41 ~~~~~el~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~e  120 (441)
                      .+-......|..++..|++....++..+.+-++.|+.....+.|.+..|.+|+.++.+++ +-.+..+.|...-.+....
T Consensus       585 ea~~~~~~el~eelE~le~eK~~Le~~L~~~~d~lE~~~~qL~E~E~~L~eLq~eL~~~k-eS~s~~E~ql~~~~e~~e~  663 (769)
T PF05911_consen  585 EADTSEKKELEEELEKLESEKEELEMELASCQDQLESLKNQLKESEQKLEELQSELESAK-ESNSLAETQLKAMKESYES  663 (769)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHH
Confidence            334555667888999999999999999999999999999999999999999999999885 4445556655555555555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          121 LEKQIDNLKKESEKQQKEKEALEARAIE  148 (441)
Q Consensus       121 Le~eVe~Lkkeie~~ek~~eeLEark~e  148 (441)
                      |+.+...++.++..+..++..|+.+...
T Consensus       664 le~~~~~~e~E~~~l~~Ki~~Le~Ele~  691 (769)
T PF05911_consen  664 LETRLKDLEAEAEELQSKISSLEEELEK  691 (769)
T ss_pred             HhhhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            5555555555555555555555544333

The function of this family is unknown.

>PRK03918 chromosome segregation protein; Provisional

Probab=96.71  E-value=0.25  Score=56.23  Aligned_cols=13  Identities=8%  Similarity=0.110  Sum_probs=6.8

Q ss_pred             hhhhccCCchHHH
Q 013531          224 THWNAHGKPAMDV  236 (441)
Q Consensus       224 ~~w~~hg~p~~~~  236 (441)
                      +.|-.||.|.-+.
T Consensus       436 ~~Cp~c~~~L~~~  448 (880)
T PRK03918        436 GKCPVCGRELTEE  448 (880)
T ss_pred             CCCCCCCCcCCch
Confidence            4455566665443

>TIGR00606 rad50 rad50

Probab=96.65  E-value=2.1  Score=51.59  Aligned_cols=51  Identities=31%  Similarity=0.403  Sum_probs=30.7

Q ss_pred             HHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013531           50 LKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQ  100 (441)
Q Consensus        50 l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq  100 (441)
                      +..++..+++.|+++...++..++.+..+.+.+......|.+++.++..+.
T Consensus       417 ~~~~~~~~q~~L~ei~~~l~~~eq~~~~~~e~~~~~~~~i~~~~~~l~~~~  467 (1311)
T TIGR00606       417 LQSKERLKQEQADEIRDEKKGLGRTIELKKEILEKKQEELKFVIKELQQLE  467 (1311)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence            444555566666666666666666666666666666666666666665543

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

>smart00787 Spc7 Spc7 kinetochore protein

Probab=96.63  E-value=0.17  Score=51.92  Aligned_cols=112  Identities=22%  Similarity=0.313  Sum_probs=70.0

Q ss_pred             HHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHH----HHHHHHHHH
Q 013531           56 SLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELE----KQIDNLKKE  131 (441)
Q Consensus        56 ~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe----~eVe~Lkke  131 (441)
                      .|+..++.+.++-..-+..+...+.++.+....-..|..++..|+.-               ..+++    +++..++..
T Consensus       148 ~L~~~~~~l~~D~~~L~~~~~~l~~~~~~l~~~~~~L~~e~~~L~~~---------------~~e~~~~d~~eL~~lk~~  212 (312)
T smart00787      148 GLDENLEGLKEDYKLLMKELELLNSIKPKLRDRKDALEEELRQLKQL---------------EDELEDCDPTELDRAKEK  212 (312)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh---------------HHHHHhCCHHHHHHHHHH
Confidence            33444444444444444444445555555556666666666666521               22221    356666666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          132 SEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALK  182 (441)
Q Consensus       132 ie~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelEk~lk  182 (441)
                      +..+..++........+++.++.+++..+++....+.+...+|+++++...
T Consensus       213 l~~~~~ei~~~~~~l~e~~~~l~~l~~~I~~~~~~k~e~~~~I~~ae~~~~  263 (312)
T smart00787      213 LKKLLQEIMIKVKKLEELEEELQELESKIEDLTNKKSELNTEIAEAEKKLE  263 (312)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            666666667666777777777888888888888888888888888888776

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=96.58  E-value=0.25  Score=50.75  Aligned_cols=6  Identities=33%  Similarity=0.761  Sum_probs=2.6

Q ss_pred             CCchHH
Q 013531          230 GKPAMD  235 (441)
Q Consensus       230 g~p~~~  235 (441)
                      |.|++.
T Consensus       297 g~~l~~  302 (423)
T TIGR01843       297 GETLME  302 (423)
T ss_pred             CCeeEE
Confidence            444443

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.

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

Probab=96.57  E-value=2.2  Score=51.04  Aligned_cols=35  Identities=9%  Similarity=0.219  Sum_probs=20.2

Q ss_pred             HHhhcccHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          341 RVALKPYTKKVVRAYGKFLKSATTYHHQVQASVQE  375 (441)
Q Consensus       341 ~~~~~Py~e~v~~~~k~~~~~a~~~H~q~Q~~v~~  375 (441)
                      +..+.=....+...+..|+..-..+++.++.+.++
T Consensus       980 ~~~l~e~~~~~~~~i~~f~~~l~~~~r~I~~~s~~ 1014 (1201)
T PF12128_consen  980 QQALIEQGRNIGNDISNFYGVLEDFDRRIKSQSRR 1014 (1201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHH
Confidence            33334444455556666666667777777666444

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

Probab=96.55  E-value=0.054  Score=60.99  Aligned_cols=104  Identities=24%  Similarity=0.308  Sum_probs=62.2

Q ss_pred             HHHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHH-------HHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHH
Q 013531           48 DQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDK-------SERIVSLQKELSSLQKKETLNAAEQVDKAHARADE  120 (441)
Q Consensus        48 ~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek-------~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~e  120 (441)
                      +++|.+..+||++|..+..|++.|++.+...|..+++.       ++.+..|.+.++.||                    
T Consensus       541 e~~r~r~~~lE~E~~~lr~elk~kee~~~~~e~~~~~lr~~~~e~~~~~e~L~~aL~amq--------------------  600 (697)
T PF09726_consen  541 ESCRQRRRQLESELKKLRRELKQKEEQIRELESELQELRKYEKESEKDTEVLMSALSAMQ--------------------  600 (697)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHH--------------------
Confidence            45899999999999999999999888888887776422       234566666666666                    


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          121 LEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSK  173 (441)
Q Consensus       121 Le~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~q  173 (441)
                        +.-.-|++-+..-..=+-+|-+-..+...+++.++..+..-++++.+++.+
T Consensus       601 --dk~~~LE~sLsaEtriKldLfsaLg~akrq~ei~~~~~~~~d~ei~~lk~k  651 (697)
T PF09726_consen  601 --DKNQHLENSLSAETRIKLDLFSALGDAKRQLEIAQGQLRKKDKEIEELKAK  651 (697)
T ss_pred             --HHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence              333444444444444444555555554444444444444433333333333

; GO: 0016021 integral to membrane

>KOG0161 consensus Myosin class II heavy chain [Cytoskeleton]

Probab=96.55  E-value=0.26  Score=60.77  Aligned_cols=35  Identities=29%  Similarity=0.439  Sum_probs=17.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          148 EAEKKISDLSAKLEKLQKINDEQKSKIRKTERALK  182 (441)
Q Consensus       148 eLEkkleELekklEeLek~~aEQk~qIeelEk~lk  182 (441)
                      .+..++++.+..+..+++.+.++..+|.++...++
T Consensus      1080 ~l~~k~e~e~~~~~~l~k~i~eL~~~i~el~e~le 1114 (1930)
T KOG0161|consen 1080 QLQSKLEDEQAEVAQLQKQIKELEARIKELEEELE 1114 (1930)
T ss_pred             HHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33334444444444455555555555555555554

>KOG0161 consensus Myosin class II heavy chain [Cytoskeleton]

Probab=96.54  E-value=0.24  Score=61.04  Aligned_cols=37  Identities=22%  Similarity=0.279  Sum_probs=16.1

Q ss_pred             HHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHH
Q 013531           49 QLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDK   85 (441)
Q Consensus        49 ~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek   85 (441)
                      .|+.....|++.+++++..+.........+|+.+..+
T Consensus      1010 ~l~k~~~kle~~l~~le~~le~e~~~r~e~Ek~~rkl 1046 (1930)
T KOG0161|consen 1010 SLNKAKAKLEQQLDDLEVTLEREKRIRMELEKAKRKL 1046 (1930)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444444444444444444444444444333333

>PF08614 ATG16: Autophagy protein 16 (ATG16); InterPro: IPR013923 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells

Probab=96.52  E-value=0.029  Score=53.18  Aligned_cols=59  Identities=20%  Similarity=0.360  Sum_probs=11.1

Q ss_pred             CchhHhHHHHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013531           41 SPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSL   99 (441)
Q Consensus        41 ~~~~~el~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sL   99 (441)
                      ..+..||..+...-++|..++..++.++..++..+..++..|.+....+..|+.+|..|
T Consensus        77 ~~l~~ELael~r~~~el~~~L~~~~~~l~~l~~~~~~~~~~l~~l~~~~~~L~~~~~~l  135 (194)
T PF08614_consen   77 AKLQEELAELYRSKGELAQQLVELNDELQELEKELSEKERRLAELEAELAQLEEKIKDL  135 (194)
T ss_dssp             -------------------------------------HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccccccccccccccccccccccccccccchhhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34555555554444555555555555555555555555555555555555555555444

In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. This entry represents auotphagy protein 16 (Apg16), which is required for the function of the Apg12p-Apg5p conjugate.; PDB: 3A7O_D 3A7P_B.

>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=96.52  E-value=0.44  Score=55.88  Aligned_cols=47  Identities=23%  Similarity=0.305  Sum_probs=26.7

Q ss_pred             HHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013531           54 IRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQ  100 (441)
Q Consensus        54 i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq  100 (441)
                      +..+.++|..++.+|..-..++...++..+..+..|+.++.+|..|+
T Consensus       407 lK~~~~k~kKleke~ek~~~~~~e~e~~pe~~~~~i~~~~~ei~~L~  453 (1293)
T KOG0996|consen  407 LKRLTSKIKKLEKEIEKARRKKSELEKAPEKARIEIQKCQTEIEQLE  453 (1293)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhHHHHHhCchhhHhHHHHHHHHHHHHH
Confidence            33344445555555555455555555555556666666777777665

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

Probab=96.49  E-value=0.58  Score=51.30  Aligned_cols=45  Identities=20%  Similarity=0.262  Sum_probs=24.9

Q ss_pred             HhHHHHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHH
Q 013531           45 IELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERI   89 (441)
Q Consensus        45 ~el~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I   89 (441)
                      .+...++.+|.+|+..|..+++...+.+..+.+..+...+++...
T Consensus       213 ~q~~e~~~ri~~LEedi~~l~qk~~E~e~~~~~lk~~~~elEq~~  257 (546)
T PF07888_consen  213 EQLAEARQRIRELEEDIKTLTQKEKEQEKELDKLKELKAELEQLE  257 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344445666666666666666666555555555544444444444

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 [].

>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=96.48  E-value=0.11  Score=60.71  Aligned_cols=161  Identities=24%  Similarity=0.382  Sum_probs=101.8

Q ss_pred             CchhHhHHHH-----H-HHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHH
Q 013531           41 SPLKIELDQL-----K-SKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKA  114 (441)
Q Consensus        41 ~~~~~el~~l-----~-~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a  114 (441)
                      ..+..|++++     + .+|.+|.++|..+.      ...++...+-|......|.-+.++|..++.. ...+..-+.++
T Consensus       868 e~l~kE~e~~qe~~~Kk~~i~~lq~~i~~i~------~e~~q~qk~kv~~~~~~~~~l~~~i~k~~~~-i~~s~~~i~k~  940 (1293)
T KOG0996|consen  868 EELKKEVEELQEKAAKKARIKELQNKIDEIG------GEKVQAQKDKVEKINEQLDKLEADIAKLTVA-IKTSDRNIAKA  940 (1293)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHHhh------chhhHHhHHHHHHHHHHHHHHHHHHHHhHHH-HhcCcccHHHH
Confidence            4567777777     4 88888888888873      3445555666777777777788888777532 33344556677


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHh
Q 013531          115 HARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALK---EEMMRAKFE  191 (441)
Q Consensus       115 ~~~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelEk~lk---eei~k~k~E  191 (441)
                      +..+.+|+..++.++++++.+..+...++.+..+++....+...-+.++.+.....+..++...+...   .+..-++..
T Consensus       941 q~~l~~le~~~~~~e~e~~~L~e~~~~~~~k~~E~~~~~~e~~~~~~E~k~~~~~~k~~~e~i~k~~~~lk~~rId~~~K 1020 (1293)
T KOG0996|consen  941 QKKLSELEREIEDTEKELDDLTEELKGLEEKAAELEKEYKEAEESLKEIKKELRDLKSELENIKKSENELKAERIDIENK 1020 (1293)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccHHHH
Confidence            77788888888888777777777777777777777776666666665555555555555555444443   111112222


Q ss_pred             hhhhhhhHHHhhhccCC
Q 013531          192 ATSRSKELTEVHSAWLP  208 (441)
Q Consensus       192 ~~~kAk~l~e~h~~wlp  208 (441)
                      ..+-..++.|+-..|--
T Consensus      1021 ~e~~~~~l~e~~~~~~~ 1037 (1293)
T KOG0996|consen 1021 LEAINGELNEIESKIKQ 1037 (1293)
T ss_pred             HHHHHHHHHHHHhhhhh
Confidence            22334556665555544

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

Probab=96.47  E-value=0.5  Score=45.43  Aligned_cols=99  Identities=23%  Similarity=0.332  Sum_probs=61.5

Q ss_pred             HHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHHHHHHHH
Q 013531           49 QLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNL  128 (441)
Q Consensus        49 ~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~eVe~L  128 (441)
                      .|+.+|.+++.+....++.+.+-..+.+.+-.-+......+.+|+..+...++.     ......+.+++..+++++..|
T Consensus        31 sLKeei~emkk~e~~~~k~m~ei~~eN~~L~epL~~a~~e~~eL~k~L~~y~kd-----K~~L~~~k~rl~~~ek~l~~L  105 (201)
T PF13851_consen   31 SLKEEIAEMKKKEERNEKLMAEISQENKRLSEPLKKAEEEVEELRKQLKNYEKD-----KQSLQNLKARLKELEKELKDL  105 (201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHH
Confidence            355555555555555555555555555555555555555555555555554421     112225567888888888888


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          129 KKESEKQQKEKEALEARAIEAEKK  152 (441)
Q Consensus       129 kkeie~~ek~~eeLEark~eLEkk  152 (441)
                      +-+-+.+..+...++.++.++..+
T Consensus       106 k~e~evL~qr~~kle~ErdeL~~k  129 (201)
T PF13851_consen  106 KWEHEVLEQRFEKLEQERDELYRK  129 (201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            888888888888888888877765

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

Probab=96.44  E-value=0.27  Score=54.50  Aligned_cols=57  Identities=28%  Similarity=0.387  Sum_probs=43.9

Q ss_pred             hhHhHHHHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013531           43 LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSL   99 (441)
Q Consensus        43 ~~~el~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sL   99 (441)
                      -..|++.|+.+|..|++.|.+++.+++.-...+++.+..+.+......++++++...
T Consensus       326 ~~~el~~l~~~l~~l~~~i~~~~~~~~~l~~~~~q~~~e~~~~~~~~~~le~~~~l~  382 (594)
T PF05667_consen  326 QEQELEELQEQLDELESQIEELEAEIKMLKSSLKQLEEELEEKEAENEELEEELKLK  382 (594)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            356777788888888888888888888877777777777777777777777777644

>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=96.44  E-value=0.15  Score=45.43  Aligned_cols=48  Identities=23%  Similarity=0.402  Sum_probs=29.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          119 DELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKI  166 (441)
Q Consensus       119 ~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~  166 (441)
                      ....+++..|+.++.+++.+.+.+-.-..+-..++++|...+.++...
T Consensus        64 ~~~~~~~~~L~~el~~l~~ry~t~LellGEK~E~veEL~~Dv~DlK~m  111 (120)
T PF12325_consen   64 RALKKEVEELEQELEELQQRYQTLLELLGEKSEEVEELRADVQDLKEM  111 (120)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHH
Confidence            334456666666666666666666666666666666666666655443

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 [].

>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=96.43  E-value=0.49  Score=42.32  Aligned_cols=34  Identities=24%  Similarity=0.408  Sum_probs=18.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          141 ALEARAIEAEKKISDLSAKLEKLQKINDEQKSKI  174 (441)
Q Consensus       141 eLEark~eLEkkleELekklEeLek~~aEQk~qI  174 (441)
                      ..+.++..+++.+.+++.++++|...+.-+=.+|
T Consensus        95 sw~~qk~~le~e~~~~~~r~~dL~~QN~lLh~Ql  128 (132)
T PF07926_consen   95 SWEEQKEQLEKELSELEQRIEDLNEQNKLLHDQL  128 (132)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444455566666666666666665555444433

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

>TIGR00606 rad50 rad50

Probab=96.43  E-value=0.28  Score=58.94  Aligned_cols=31  Identities=19%  Similarity=0.246  Sum_probs=14.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          112 DKAHARADELEKQIDNLKKESEKQQKEKEAL  142 (441)
Q Consensus       112 ~~a~~~~~eLe~eVe~Lkkeie~~ek~~eeL  142 (441)
                      ...+..+..+...++.+..+.++.+.++..|
T Consensus       832 ~~~~~el~~l~~~~e~l~~e~e~~~~eI~~L  862 (1311)
T TIGR00606       832 QEKQHELDTVVSKIELNRKLIQDQQEQIQHL  862 (1311)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444444444444444444444444444

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

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

Probab=96.37  E-value=1.2  Score=44.74  Aligned_cols=67  Identities=24%  Similarity=0.317  Sum_probs=37.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          116 ARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALK  182 (441)
Q Consensus       116 ~~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelEk~lk  182 (441)
                      .....|+-+++.++.++++...+.+........++..+..+.+.+++..-.....+.++..+...+.
T Consensus        68 ~eka~l~~e~~~l~~e~~~~r~k~e~e~~~~~~le~el~~lrk~ld~~~~~r~~le~~i~~L~eEl~  134 (312)
T PF00038_consen   68 KEKARLELEIDNLKEELEDLRRKYEEELAERKDLEEELESLRKDLDEETLARVDLENQIQSLKEELE  134 (312)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhhHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhHhHHHHHHHHHHHHHH
Confidence            3344445555555555555555555555555555555555555555555555555555555555554

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 ....

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

Probab=96.36  E-value=0.25  Score=55.01  Aligned_cols=115  Identities=23%  Similarity=0.340  Sum_probs=64.5

Q ss_pred             HHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhh----------HHhhHHHHHHHH
Q 013531           49 QLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLN----------AAEQVDKAHARA  118 (441)
Q Consensus        49 ~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~----------~~~~~~~a~~~~  118 (441)
                      +|..++..|+..++.+..++......-..+...+.+.+..|.+++..+..++... .+          ....++.|-++.
T Consensus        84 ~Lq~E~~~L~kElE~L~~qlqaqv~~ne~Ls~L~~EqEerL~ELE~~le~~~e~~-~D~~kLLe~lqsdk~t~SRAlsQN  162 (617)
T PF15070_consen   84 QLQAEAEHLRKELESLEEQLQAQVENNEQLSRLNQEQEERLAELEEELERLQEQQ-EDRQKLLEQLQSDKATASRALSQN  162 (617)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHhhhcccchHHHHHHHhH
Confidence            3555555555555555555544444444444444455555555554444443211 11          123466788899


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          119 DELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQ  164 (441)
Q Consensus       119 ~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLe  164 (441)
                      .+|..++.+|+.....+.+++.++.+....-.-...+|..++.+++
T Consensus       163 ~eLK~QL~Elq~~Fv~ltne~~elt~~lq~Eq~~~keL~~kl~~l~  208 (617)
T PF15070_consen  163 RELKEQLAELQDAFVKLTNENMELTSALQSEQHVKKELQKKLGELQ  208 (617)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhHhhHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999998888888886666555443333333333333333

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

Probab=96.33  E-value=0.44  Score=53.86  Aligned_cols=55  Identities=20%  Similarity=0.300  Sum_probs=22.6

Q ss_pred             hHHHHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013531           46 ELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQ  100 (441)
Q Consensus        46 el~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq  100 (441)
                      ||..|+-++.+|.-+|.+..-.|.....+|....+.+.-.-..|..|+..|.-+|
T Consensus       445 eletLn~k~qqls~kl~Dvr~~~tt~kt~ie~~~~q~e~~isei~qlqarikE~q  499 (1118)
T KOG1029|consen  445 ELETLNFKLQQLSGKLQDVRVDITTQKTEIEEVTKQRELMISEIDQLQARIKELQ  499 (1118)
T ss_pred             HHHHHHHHHHHHhhhhhhheeccchHHHHHHHhhhHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444444444434444444444444333333333344444444433

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

Probab=96.31  E-value=0.72  Score=42.26  Aligned_cols=57  Identities=16%  Similarity=0.352  Sum_probs=24.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          123 KQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTER  179 (441)
Q Consensus       123 ~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelEk  179 (441)
                      .+++.+-..+.++..+...+-+++..+.+...+.+.++.+|+....+....|...+.
T Consensus        59 ~el~~lt~el~~L~~EL~~l~sEk~~L~k~lq~~q~kv~eLE~~~~~~~~~l~~~E~  115 (140)
T PF10473_consen   59 EELEELTSELNQLELELDTLRSEKENLDKELQKKQEKVSELESLNSSLENLLQEKEQ  115 (140)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            344444444444444444444444444444444444444444444444444444443

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

>PF04156 IncA: IncA protein; InterPro: IPR007285 Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion

Probab=96.28  E-value=0.18  Score=47.05  Aligned_cols=26  Identities=23%  Similarity=0.429  Sum_probs=11.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          118 ADELEKQIDNLKKESEKQQKEKEALE  143 (441)
Q Consensus       118 ~~eLe~eVe~Lkkeie~~ek~~eeLE  143 (441)
                      ....+++++.++....+..++..++.
T Consensus       125 ~~~~~~~l~~l~~~~~~~~~e~~~l~  150 (191)
T PF04156_consen  125 LKSVEERLDSLDESIKELEKEIRELQ  150 (191)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444444444444444

The inclusion is nonfusogenic with lysosomes but intercepts lipids from a host cell exocytic pathway. Initiation of chlamydial development is concurrent with modification of the inclusion membrane by a set of C. trachomatis-encoded proteins collectively designated Incs. One of these Incs, IncA (Inclusion membrane protein A), is functionally associated with the homotypic fusion of inclusions [].

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

Probab=96.11  E-value=0.97  Score=51.78  Aligned_cols=103  Identities=15%  Similarity=0.254  Sum_probs=46.6

Q ss_pred             HHHHHHHHHHhhHHHHhhhh---cchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhh-------HHHHHHHH
Q 013531           49 QLKSKIRSLESHIDEKTQEL---KGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQ-------VDKAHARA  118 (441)
Q Consensus        49 ~l~~~i~~Les~i~~~~~~i---~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~-------~~~a~~~~  118 (441)
                      +||.++++|+..-..+++-.   .+........++.++..-.++..+.++=.-|-.+. -+-.+|       ..+.....
T Consensus       390 qLr~elaql~a~r~q~eka~~~~ee~e~~~l~~e~ry~klkek~t~l~~~h~~lL~K~-~di~kQle~~~~s~~~~~~~~  468 (980)
T KOG0980|consen  390 QLRNELAQLLASRTQLEKAQVLVEEAENKALAAENRYEKLKEKYTELRQEHADLLRKY-DDIQKQLESAEQSIDDVEEEN  468 (980)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHhHHHHHHHH
Confidence            45555555554444444333   33333333444444444444444444433321111 111222       22455556


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          119 DELEKQIDNLKKESEKQQKEKEALEARAIEAEKK  152 (441)
Q Consensus       119 ~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkk  152 (441)
                      ++|+.++++++.+....+.+.+.+......++.+
T Consensus       469 ~~L~d~le~~~~~~~~~~~K~e~~~~~le~l~~E  502 (980)
T KOG0980|consen  469 TNLNDQLEELQRAAGRAETKTESQAKALESLRQE  502 (980)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            6666666666665555444444444443333333

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

Probab=96.08  E-value=0.62  Score=52.73  Aligned_cols=56  Identities=14%  Similarity=0.283  Sum_probs=28.5

Q ss_pred             HHHHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 013531           47 LDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKK  102 (441)
Q Consensus        47 l~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~  102 (441)
                      ..+|..++..|+-++.+++..|-.-.-.+.+-...|.+..+.+..+-+||.-||..
T Consensus       439 ~~ql~~eletLn~k~qqls~kl~Dvr~~~tt~kt~ie~~~~q~e~~isei~qlqar  494 (1118)
T KOG1029|consen  439 KKQLQQELETLNFKLQQLSGKLQDVRVDITTQKTEIEEVTKQRELMISEIDQLQAR  494 (1118)
T ss_pred             HHHHHHHHHHHHHHHHHHhhhhhhheeccchHHHHHHHhhhHHHHHHHHHHHHHHH
Confidence            33444445555555555444444444444444455555555555566666655543

>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=96.07  E-value=0.35  Score=43.12  Aligned_cols=41  Identities=20%  Similarity=0.430  Sum_probs=21.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHH
Q 013531          148 EAEKKISDLSAKLEKLQKINDEQKSKIRKTERALK--EEMMRA  188 (441)
Q Consensus       148 eLEkkleELekklEeLek~~aEQk~qIeelEk~lk--eei~k~  188 (441)
                      .++.++.+++.+.+.+=...-+.....++++.++.  .+|.+.
T Consensus        72 ~L~~el~~l~~ry~t~LellGEK~E~veEL~~Dv~DlK~myr~  114 (120)
T PF12325_consen   72 ELEQELEELQQRYQTLLELLGEKSEEVEELRADVQDLKEMYRE  114 (120)
T ss_pred             HHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHHH
Confidence            34444555555555555555555555555555555  444443

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 [].

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

Probab=96.06  E-value=1.5  Score=46.72  Aligned_cols=56  Identities=20%  Similarity=0.345  Sum_probs=31.5

Q ss_pred             HhHHHHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013531           45 IELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQ  100 (441)
Q Consensus        45 ~el~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq  100 (441)
                      .++++.+.+|.+++++|....++...-...|+..+..|...+..|...+.++.-+.
T Consensus        38 ~~l~q~q~ei~~~~~~i~~~~~~~~kL~~~lk~~e~~i~~~~~ql~~s~~~l~~~~   93 (420)
T COG4942          38 KQLKQIQKEIAALEKKIREQQDQRAKLEKQLKSLETEIASLEAQLIETADDLKKLR   93 (420)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHH
Confidence            45666677777776666665555555455555555555555555544444444443

>PRK04778 septation ring formation regulator EzrA; Provisional

Probab=96.04  E-value=3.1  Score=45.79  Aligned_cols=21  Identities=19%  Similarity=0.328  Sum_probs=11.5

Q ss_pred             cchhHHHHhhhhhhH-HHHHHh
Q 013531          311 VDPYFQEAKKFSKPY-IDQVAT  331 (441)
Q Consensus       311 v~Py~~e~ke~~~py-~~qa~~  331 (441)
                      |.-.+.+|...-+-| |++|-.
T Consensus       519 V~~~f~~Ae~lF~~~~Y~~al~  540 (569)
T PRK04778        519 VAEALNEAERLFREYDYKAALE  540 (569)
T ss_pred             HHHHHHHHHHHHHhCChHHHHH
Confidence            445555555555555 655544

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

Probab=96.04  E-value=0.34  Score=55.95  Aligned_cols=55  Identities=24%  Similarity=0.322  Sum_probs=48.7

Q ss_pred             HHHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 013531           48 DQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKK  102 (441)
Q Consensus        48 ~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~  102 (441)
                      ..|.-+++.|+++|.-+.+++.+|.+.+..+.+.|..++..|..|.+++.-.+..
T Consensus       173 ~hL~velAdle~kir~LrqElEEK~enll~lr~eLddleae~~klrqe~~e~l~e  227 (1195)
T KOG4643|consen  173 LHLEVELADLEKKIRTLRQELEEKFENLLRLRNELDDLEAEISKLRQEIEEFLDE  227 (1195)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4578888889999999999999999999999999999999999999999887754

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

Probab=95.99  E-value=5.3  Score=47.92  Aligned_cols=97  Identities=20%  Similarity=0.348  Sum_probs=53.6

Q ss_pred             CCchhHhHHHHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh-------chhhHHhhHH
Q 013531           40 SSPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKK-------ETLNAAEQVD  112 (441)
Q Consensus        40 ~~~~~~el~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~-------~~~~~~~~~~  112 (441)
                      ...++.++.++...|..++...+++++.|+.....+......+..........+.++..|++.       .....++...
T Consensus       602 ee~L~~~l~~~~~~l~~~~~~~~~~e~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~  681 (1201)
T PF12128_consen  602 EEELRERLEQAEDQLQSAEERQEELEKQLKQINKKIEELKREITQAEQELKQAEQDLQRLKNEREQLKQEIEEAKEERKE  681 (1201)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            335667777777777777666666666666666666666555555555555445555544433       3333333334


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          113 KAHARADELEKQIDNLKKESEKQQ  136 (441)
Q Consensus       113 ~a~~~~~eLe~eVe~Lkkeie~~e  136 (441)
                      .++.++..++.++..++.++....
T Consensus       682 ~~~~~l~~l~~~l~~~~~e~~~~~  705 (1201)
T PF12128_consen  682 QIEEQLNELEEELKQLKQELEELL  705 (1201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            445555555555555544444433

>PF06008 Laminin_I: Laminin Domain I; InterPro: IPR009254 Laminins are glycoproteins that are major constituents of the basement membrane of cells

Probab=95.84  E-value=1.5  Score=43.32  Aligned_cols=48  Identities=21%  Similarity=0.374  Sum_probs=30.5

Q ss_pred             HHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 013531           56 SLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKE  103 (441)
Q Consensus        56 ~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~  103 (441)
                      .|++.|..++.++.+...-+......+...++.+.+|..++..|+.+.
T Consensus        21 ~l~~~~e~~~~~L~~~~~~~~~~~~~~~~~e~~l~~L~~d~~~L~~k~   68 (264)
T PF06008_consen   21 KLLSSIEDLTNQLRSYRSKLNPQKQQLDPLEKELESLEQDVENLQEKA   68 (264)
T ss_pred             HHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            355555555566665555555566666777777777777777776443

Laminins are trimeric molecules; laminin-1 is an alpha1 beta1 gamma1 trimer. It has been suggested that the domains I and II from laminin A, B1 and B2 may come together to form a triple helical coiled-coil structure []. Binding to cells via a high affinity receptor, laminin is thought to mediate the attachment, migration and organisation of cells into tissues during embryonic development by interacting with other extracellular matrix components.; GO: 0005102 receptor binding, 0030155 regulation of cell adhesion, 0030334 regulation of cell migration, 0045995 regulation of embryonic development, 0005606 laminin-1 complex

>PF09304 Cortex-I_coil: Cortexillin I, coiled coil; InterPro: IPR015383 This domain is predominantly found in the actin-bundling protein cortexillin I from Dictyostelium discoideum (Slime mold)

Probab=95.74  E-value=0.31  Score=42.65  Aligned_cols=75  Identities=19%  Similarity=0.318  Sum_probs=43.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHh
Q 013531          117 RADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALK-EEMMRAKFE  191 (441)
Q Consensus       117 ~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelEk~lk-eei~k~k~E  191 (441)
                      .-.+++.++..|+..++...-....|...+.+++..+..|+......++.+.+.+++|+++.+.+. +.+.+++.+
T Consensus        10 s~~el~n~La~Le~slE~~K~S~~eL~kqkd~L~~~l~~L~~q~~s~~qr~~eLqaki~ea~~~le~eK~ak~~l~   85 (107)
T PF09304_consen   10 SQNELQNRLASLERSLEDEKTSQGELAKQKDQLRNALQSLQAQNASRNQRIAELQAKIDEARRNLEDEKQAKLELE   85 (107)
T ss_dssp             ----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344555555555556666666666665555566666666666666666666666666666666666 444444433

The domain has a structure consisting of an 18-heptad-repeat alpha-helical coiled-coil, and is a prerequisite for the assembly of Cortexillin I []. ; PDB: 1D7M_A.

>PF04012 PspA_IM30: PspA/IM30 family; InterPro: IPR007157 This family includes PspA a protein that suppresses sigma54-dependent transcription

Probab=95.69  E-value=1.9  Score=41.24  Aligned_cols=114  Identities=21%  Similarity=0.303  Sum_probs=72.1

Q ss_pred             HHHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHHHHHHH
Q 013531           48 DQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDN  127 (441)
Q Consensus        48 ~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~eVe~  127 (441)
                      ..|+.-|..++..|....+.+..---.-...+..+.+.+..|...+.....--..|   .++.+..|-.+...++.++..
T Consensus        26 ~~l~q~ird~e~~l~~a~~~~a~~~a~~~~le~~~~~~~~~~~~~~~~A~~Al~~g---~edLAr~al~~k~~~e~~~~~  102 (221)
T PF04012_consen   26 KMLEQAIRDMEEQLRKARQALARVMANQKRLERKLDEAEEEAEKWEKQAELALAAG---REDLAREALQRKADLEEQAER  102 (221)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcC---CHHHHHHHHHHHHHHHHHHHH
Confidence            45666777777777776666666555555566666666666666665554333333   334445666667777777777


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          128 LKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQ  164 (441)
Q Consensus       128 Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLe  164 (441)
                      |+.+++.+......|......++.++.++..+...+.
T Consensus       103 l~~~~~~~~~~~~~l~~~l~~l~~kl~e~k~k~~~l~  139 (221)
T PF04012_consen  103 LEQQLDQAEAQVEKLKEQLEELEAKLEELKSKREELK  139 (221)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            7777777777777777776677666666666665554

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 [].

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

Probab=95.64  E-value=5  Score=45.00  Aligned_cols=129  Identities=18%  Similarity=0.351  Sum_probs=82.7

Q ss_pred             HHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhH-HHHHHHHHHHHHHHHHH
Q 013531           50 LKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQV-DKAHARADELEKQIDNL  128 (441)
Q Consensus        50 l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~-~~a~~~~~eLe~eVe~L  128 (441)
                      |+.+...+..++..++.++..-..+...--..|.+++..|..|.+.+.........+.-... ...++.+..|.++++.|
T Consensus        20 lk~e~a~~qqr~~qmseev~~L~eEk~~~~~~V~eLE~sL~eLk~q~~~~~~~~~pa~pse~E~~Lq~E~~~L~kElE~L   99 (617)
T PF15070_consen   20 LKEESAQWQQRMQQMSEEVRTLKEEKEHDISRVQELERSLSELKNQMAEPPPPEPPAGPSEVEQQLQAEAEHLRKELESL   99 (617)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCccccccchHHHHHHHHHHHHHHHHHHHH
Confidence            56666666666666666666656666666677888888888888888766543322211111 24555666677777777


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          129 KKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTE  178 (441)
Q Consensus       129 kkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelE  178 (441)
                      ...+..+..+.+.|.....+.+.++.+++..++.++....++...+..++
T Consensus       100 ~~qlqaqv~~ne~Ls~L~~EqEerL~ELE~~le~~~e~~~D~~kLLe~lq  149 (617)
T PF15070_consen  100 EEQLQAQVENNEQLSRLNQEQEERLAELEEELERLQEQQEDRQKLLEQLQ  149 (617)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            77777777777766655556677777777777776665555555444443

>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=95.62  E-value=1.6  Score=49.95  Aligned_cols=26  Identities=19%  Similarity=0.282  Sum_probs=10.4

Q ss_pred             HhhHHHHhhhhcchhHHHHHHHHHHH
Q 013531           58 ESHIDEKTQELKGKDEVVAQKEKAIQ   83 (441)
Q Consensus        58 es~i~~~~~~i~~k~~~l~~ke~~i~   83 (441)
                      .++++.+..+|..|+.+|..+-.-+.
T Consensus       286 K~k~d~~~~eL~rk~~E~~~~qt~l~  311 (775)
T PF10174_consen  286 KSKMDRLKLELSRKKSELEALQTRLE  311 (775)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344444444444444433333333

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 [].

>PRK01156 chromosome segregation protein; Provisional

Probab=95.59  E-value=0.91  Score=52.16  Aligned_cols=11  Identities=9%  Similarity=0.111  Sum_probs=4.9

Q ss_pred             HHHHHHHHHHH
Q 013531          368 QVQASVQEMLK  378 (441)
Q Consensus       368 q~Q~~v~~~l~  378 (441)
                      .++....+++.
T Consensus       761 ~~~~~~~e~~~  771 (895)
T PRK01156        761 AMTSLTRKYLF  771 (895)
T ss_pred             HHHHHHHHHHH
Confidence            34444445543

>COG2433 Uncharacterized conserved protein [Function unknown]

Probab=95.56  E-value=0.27  Score=54.22  Aligned_cols=76  Identities=26%  Similarity=0.438  Sum_probs=46.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--H
Q 013531          116 ARADELEKQIDNLKKESEKQQKEKEALEARAIEA----------EKKISDLSAKLEKLQKINDEQKSKIRKTERALK--E  183 (441)
Q Consensus       116 ~~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eL----------EkkleELekklEeLek~~aEQk~qIeelEk~lk--e  183 (441)
                      ..+..|+.++..|+..++.++..++.|+++..++          ..++..++..++.|+....+.+..++++++.+.  .
T Consensus       429 ~~ve~l~~e~~~L~~~~ee~k~eie~L~~~l~~~~r~~~~~~~~~rei~~~~~~I~~L~~~L~e~~~~ve~L~~~l~~l~  508 (652)
T COG2433         429 ETVERLEEENSELKRELEELKREIEKLESELERFRREVRDKVRKDREIRARDRRIERLEKELEEKKKRVEELERKLAELR  508 (652)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444444444444444444444444444432          234666778888888888888888888888887  5


Q ss_pred             HHHHHHHh
Q 013531          184 EMMRAKFE  191 (441)
Q Consensus       184 ei~k~k~E  191 (441)
                      .|.++...
T Consensus       509 k~~~lE~s  516 (652)
T COG2433         509 KMRKLELS  516 (652)
T ss_pred             HHHhhhhc
Confidence            66665443

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

Probab=95.53  E-value=3.3  Score=42.26  Aligned_cols=36  Identities=28%  Similarity=0.445  Sum_probs=20.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          113 KAHARADELEKQIDNLKKESEKQQKEKEALEARAIE  148 (441)
Q Consensus       113 ~a~~~~~eLe~eVe~Lkkeie~~ek~~eeLEark~e  148 (441)
                      .-++.+.+|-++++.+++..+++..++..|-.+..+
T Consensus       155 e~~~~~~el~aei~~lk~~~~e~~eki~~la~eaqe  190 (294)
T COG1340         155 EENEKLKELKAEIDELKKKAREIHEKIQELANEAQE  190 (294)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334445555566666666666666555555555444

>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=95.52  E-value=0.13  Score=42.07  Aligned_cols=65  Identities=43%  Similarity=0.544  Sum_probs=30.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531           78 KEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALE  143 (441)
Q Consensus        78 ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~eVe~Lkkeie~~ek~~eeLE  143 (441)
                      .++.|.+|+..|+.|..|-..|.+. .......+.+..+.+.++++++..|.+.++....++..++
T Consensus         3 l~~~l~EKDe~Ia~L~eEGekLSk~-el~~~~~IKKLr~~~~e~e~~~~~l~~~~~~~e~~~~~l~   67 (74)
T PF12329_consen    3 LEKKLAEKDEQIAQLMEEGEKLSKK-ELKLNNTIKKLRAKIKELEKQIKELKKKLEELEKELESLE   67 (74)
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4556666666666676666666422 1222222233333444444444444444444444444333

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.

>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=95.50  E-value=2.4  Score=41.64  Aligned_cols=88  Identities=17%  Similarity=0.314  Sum_probs=43.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531           80 KAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAK  159 (441)
Q Consensus        80 ~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekk  159 (441)
                      +.-.++...|..+..++++|+               .....++++++++++++.+++.+++.++.-..++.-.+.+.-..
T Consensus        49 ~e~~~L~~e~~~l~~e~e~L~---------------~~~~~l~~~v~~q~~el~~L~~qi~~~~~~~~~l~p~m~~m~~~  113 (251)
T PF11932_consen   49 DEKQELLAEYRQLEREIENLE---------------VYNEQLERQVASQEQELASLEQQIEQIEETRQELVPLMEQMIDE  113 (251)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH---------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333444445555555555554               23444455566666666666666666665555544443333333


Q ss_pred             HHHHHH-----HHHHHHHHHHHHHHHHH
Q 013531          160 LEKLQK-----INDEQKSKIRKTERALK  182 (441)
Q Consensus       160 lEeLek-----~~aEQk~qIeelEk~lk  182 (441)
                      ++..-.     ..++...+++.+...+.
T Consensus       114 L~~~v~~d~Pf~~~eR~~Rl~~L~~~l~  141 (251)
T PF11932_consen  114 LEQFVELDLPFLLEERQERLARLRAMLD  141 (251)
T ss_pred             HHHHHhcCCCCChHHHHHHHHHHHHhhh
Confidence            333222     34455556655555544

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.

>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=95.48  E-value=1.3  Score=50.75  Aligned_cols=66  Identities=26%  Similarity=0.370  Sum_probs=27.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          117 RADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALK  182 (441)
Q Consensus       117 ~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelEk~lk  182 (441)
                      .+++.+.++..++.+...+..++.++-......+.++..|..+++.|+....+...++......+.
T Consensus       358 ~l~kk~~~~~~~qeE~~~~~~Ei~~l~d~~d~~e~ki~~Lq~kie~Lee~l~ekd~ql~~~k~Rl~  423 (775)
T PF10174_consen  358 QLEKKQAQIEKLQEEKSRLQGEIEDLRDMLDKKERKINVLQKKIENLEEQLREKDRQLDEEKERLS  423 (775)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            333333333333333333333333333333334444444444444444444444444444444433

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 [].

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

Probab=95.48  E-value=0.72  Score=52.98  Aligned_cols=107  Identities=17%  Similarity=0.307  Sum_probs=52.2

Q ss_pred             hhHhHHHHHHHHHHHHhhHHHHhhhhcchhHHH-HHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHH-HHHHHHHH
Q 013531           43 LKIELDQLKSKIRSLESHIDEKTQELKGKDEVV-AQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVD-KAHARADE  120 (441)
Q Consensus        43 ~~~el~~l~~~i~~Les~i~~~~~~i~~k~~~l-~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~-~a~~~~~e  120 (441)
                      +-.|+..|+.+++.|+-.++.+..|+.++--.- ..---...+++....-|-+.+-.|.  ..++.+++.. ++...+..
T Consensus       330 LQ~eve~lkEr~deletdlEILKaEmeekG~~~~~~ss~qfkqlEqqN~rLKdalVrLR--DlsA~ek~d~qK~~kelE~  407 (1243)
T KOG0971|consen  330 LQQEVEALKERVDELETDLEILKAEMEEKGSDGQAASSYQFKQLEQQNARLKDALVRLR--DLSASEKQDHQKLQKELEK  407 (1243)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCcccchHHHHHHHHHHHHHHHHHHHHH--hcchHHHHHHHHHHHHHHH
Confidence            444444555555555555555544444331110 0001123334444444555555553  2333344443 66666666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          121 LEKQIDNLKKESEKQQKEKEALEARAIEAEK  151 (441)
Q Consensus       121 Le~eVe~Lkkeie~~ek~~eeLEark~eLEk  151 (441)
                      .+.++.+|+.+.+.+..+++.+|+...++..
T Consensus       408 k~sE~~eL~r~kE~Lsr~~d~aEs~iadlkE  438 (1243)
T KOG0971|consen  408 KNSELEELRRQKERLSRELDQAESTIADLKE  438 (1243)
T ss_pred             HhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6666666666666666666666666555443

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

Probab=95.45  E-value=0.62  Score=46.65  Aligned_cols=43  Identities=28%  Similarity=0.413  Sum_probs=26.2

Q ss_pred             HhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013531           58 ESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQ  100 (441)
Q Consensus        58 es~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq  100 (441)
                      .++|.++......-...+......+.+....|.+|+.+|.+|+
T Consensus       194 ~~k~~~l~~~~~~~~~~~~~~~~E~~~~r~~~~~l~~el~~l~  236 (312)
T PF00038_consen  194 QSKLEELRQQSEKSSEELESAKEELKELRRQIQSLQAELESLR  236 (312)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccccccccccccccccccchhHhHHHHHHhhhhHhhhhhhccc
Confidence            4455555555555555555566666666666666666666665

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 ....

>PF14662 CCDC155: Coiled-coil region of CCDC155

Probab=95.43  E-value=1.7  Score=41.84  Aligned_cols=69  Identities=28%  Similarity=0.349  Sum_probs=41.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          114 AHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALK  182 (441)
Q Consensus       114 a~~~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelEk~lk  182 (441)
                      |-..+..+++++++|+.....++.....|-+....+|+....|..+++.|+..+.......+.+.++.+
T Consensus        58 al~~aK~l~eEledLk~~~~~lEE~~~~L~aq~rqlEkE~q~L~~~i~~Lqeen~kl~~e~~~lk~~~~  126 (193)
T PF14662_consen   58 ALQKAKALEEELEDLKTLAKSLEEENRSLLAQARQLEKEQQSLVAEIETLQEENGKLLAERDGLKKRSK  126 (193)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHhhhhHHHHHH
Confidence            333455556666666666666666666666666666666666666666666655555555555554443

>PF01442 Apolipoprotein: Apolipoprotein A1/A4/E domain; InterPro: IPR000074 Exchangeable apolipoproteins (apoA, apoC and apoE) have the same genomic structure and are members of a multi-gene family that probably evolved from a common ancestral gene

Probab=95.40  E-value=1.7  Score=39.26  Aligned_cols=14  Identities=29%  Similarity=0.453  Sum_probs=6.0

Q ss_pred             HHHHHHHHHHHHhh
Q 013531           87 ERIVSLQKELSSLQ  100 (441)
Q Consensus        87 ~~I~~l~~ei~sLq  100 (441)
                      ..+.++...+..++
T Consensus         5 ~~~~~l~~~~~~l~   18 (202)
T PF01442_consen    5 DRLDSLSSRTEELE   18 (202)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
Confidence            33444444444443

This entry includes the ApoA1, ApoA4 and ApoE proteins. ApoA1 and ApoA4 are part of the APOA1/C3/A4/A5 gene cluster on chromosome 11 []. Apolipoproteins function in lipid transport as structural components of lipoprotein particles, cofactors for enzymes and ligands for cell-surface receptors. In particular, apoA1 is the major protein component of high-density lipoproteins; apoA4 is thought to act primarily in intestinal lipid absorption; and apoE is a blood plasma protein that mediates the transport and uptake of cholesterol and lipid by way of its high affinity interaction with different cellular receptors, including the low-density lipoprotein (LDL) receptor. Recent findings with apoA1 and apoE suggest that the tertiary structures of these two members of the human exchangeable apolipoprotein gene family are related []. The three-dimensional structure of the LDL receptor-binding domain of apoE indicates that the protein forms an unusually elongated four-helix bundle that may be stabilised by a tightly packed hydrophobic core that includes leucine zipper-type interactions and by numerous salt bridges on the mostly charged surface. Basic amino acids important for LDL receptor binding are clustered into a surface patch on one long helix [].; GO: 0008289 lipid binding, 0006869 lipid transport, 0042157 lipoprotein metabolic process, 0005576 extracellular region; PDB: 1YA9_A 3S84_A 1NFN_A 1LE2_A 1B68_A 1BZ4_A 1OEG_A 2L7B_A 1LE4_A 1EA8_A ....

>PF04582 Reo_sigmaC: Reovirus sigma C capsid protein; InterPro: IPR007662 Protein sigmaC in its native state was shown to be a homotrimer

Probab=95.37  E-value=0.032  Score=57.35  Aligned_cols=56  Identities=18%  Similarity=0.370  Sum_probs=0.0

Q ss_pred             HhHHHHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013531           45 IELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQ  100 (441)
Q Consensus        45 ~el~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq  100 (441)
                      ..|.+++.++..||+.+..+...+..-...|..+...|......|.++..+|.+|.
T Consensus        28 GDLs~I~eRLsaLEssv~sL~~SVs~lss~iSdLss~L~~l~~sl~~~~s~L~sLs   83 (326)
T PF04582_consen   28 GDLSPIRERLSALESSVASLSDSVSSLSSTISDLSSDLQDLASSLADMTSELNSLS   83 (326)
T ss_dssp             --------------------------------------------------------
T ss_pred             ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34555666666666666666666666555555566666666666666666666654

It was demonstrated that the sigmaC subunits are not covalently bound via disulphide linkages and the formation of an intrachain disulphide bond between the two cysteine residues of the sigmaC polypeptide may have a negative effect on oligomer stability. The susceptibility of the trimer to pH, temperature, ionic strength, chemical denaturants and detergents indicates that hydrophobic interactions contribute much more to oligomer stability than do ionic interactions and hydrogen bonding [].; PDB: 2VRS_C 2JJL_A 2BSF_A 2BT7_A 2BT8_A.

>PF13870 DUF4201: Domain of unknown function (DUF4201)

Probab=95.36  E-value=2.3  Score=39.62  Aligned_cols=27  Identities=33%  Similarity=0.527  Sum_probs=16.3

Q ss_pred             hHhHHHHHHHHHHHHhhHHHHhhhhcc
Q 013531           44 KIELDQLKSKIRSLESHIDEKTQELKG   70 (441)
Q Consensus        44 ~~el~~l~~~i~~Les~i~~~~~~i~~   70 (441)
                      .++..||+++..+|..+|++++.+|..
T Consensus        41 ~iDFeqLkien~~l~~kIeERn~eL~~   67 (177)
T PF13870_consen   41 LIDFEQLKIENQQLNEKIEERNKELLK   67 (177)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            355666677777776666665444443

>PRK01156 chromosome segregation protein; Provisional

Probab=95.34  E-value=2  Score=49.46  Aligned_cols=9  Identities=44%  Similarity=0.471  Sum_probs=3.3

Q ss_pred             HHHHHHHHH
Q 013531           50 LKSKIRSLE   58 (441)
Q Consensus        50 l~~~i~~Le   58 (441)
                      ++..+..++
T Consensus       171 ~~~~~~~~~  179 (895)
T PRK01156        171 LKDVIDMLR  179 (895)
T ss_pred             HHHHHHHHH
Confidence            333333333

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

Probab=95.31  E-value=1.9  Score=48.03  Aligned_cols=57  Identities=11%  Similarity=0.253  Sum_probs=46.7

Q ss_pred             HHHHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 013531           47 LDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKE  103 (441)
Q Consensus        47 l~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~  103 (441)
                      ...-..++..|+.+|+++..+|.+-+.+++.+...+.+....+.....+...|+...
T Consensus       323 ~~~~~~el~~l~~~l~~l~~~i~~~~~~~~~l~~~~~q~~~e~~~~~~~~~~le~~~  379 (594)
T PF05667_consen  323 QEEQEQELEELQEQLDELESQIEELEAEIKMLKSSLKQLEEELEEKEAENEELEEEL  379 (594)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345578889999999999999999888888888888888888888888888887443

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

Probab=95.28  E-value=2.3  Score=38.96  Aligned_cols=104  Identities=26%  Similarity=0.321  Sum_probs=49.4

Q ss_pred             HhHHHHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHHHH
Q 013531           45 IELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQ  124 (441)
Q Consensus        45 ~el~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~e  124 (441)
                      .+|...+.+-+.|+.+|..++.+|..-..........-......|.+|+.+|..+.               ...+.|+.+
T Consensus        10 ~kLK~~~~e~dsle~~v~~LEreLe~~q~~~e~~~~daEn~k~eie~L~~el~~lt---------------~el~~L~~E   74 (140)
T PF10473_consen   10 EKLKESESEKDSLEDHVESLERELEMSQENKECLILDAENSKAEIETLEEELEELT---------------SELNQLELE   74 (140)
T ss_pred             HHHHHHHHhHhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH---------------HHHHHHHHH
Confidence            45555666777777777777666655333333333333333334444444444443               233444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          125 IDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKL  163 (441)
Q Consensus       125 Ve~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeL  163 (441)
                      ++.+..+.+.+.........+..+++....++...++..
T Consensus        75 L~~l~sEk~~L~k~lq~~q~kv~eLE~~~~~~~~~l~~~  113 (140)
T PF10473_consen   75 LDTLRSEKENLDKELQKKQEKVSELESLNSSLENLLQEK  113 (140)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Confidence            444444444444444444444444444443333333333

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

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

Probab=95.26  E-value=3  Score=40.12  Aligned_cols=11  Identities=27%  Similarity=0.456  Sum_probs=5.4

Q ss_pred             hhhhhHHHhhh
Q 013531          194 SRSKELTEVHS  204 (441)
Q Consensus       194 ~kAk~l~e~h~  204 (441)
                      .+--+|.+|..
T Consensus       161 ~keaqL~evl~  171 (201)
T PF13851_consen  161 KKEAQLNEVLA  171 (201)
T ss_pred             HHHHHHHHHHH
Confidence            34445555444

>PF12795 MscS_porin: Mechanosensitive ion channel porin domain

Probab=95.20  E-value=2.3  Score=41.56  Aligned_cols=125  Identities=18%  Similarity=0.275  Sum_probs=65.2

Q ss_pred             hhHhHHHHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc-hhhHHhhHHHHHHHHHHH
Q 013531           43 LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKE-TLNAAEQVDKAHARADEL  121 (441)
Q Consensus        43 ~~~el~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~-~~~~~~~~~~a~~~~~eL  121 (441)
                      +...|....+.+..++..+...++.+.+-..-....-..|.+....+.+....+..+...+ +...+.+....+++..-|
T Consensus        83 Leq~l~~~~~~L~~~q~~l~~~~~~l~~~~~~p~~aq~~l~~~~~~l~ei~~~L~~~~~~~~~~l~~a~~~~l~ae~~~l  162 (240)
T PF12795_consen   83 LEQRLSQEQAQLQELQEQLQQENSQLIEIQTRPERAQQQLSEARQRLQEIRNQLQNLPPNGESPLSEAQRWLLQAELAAL  162 (240)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHhccCCCCcchhhHHHHHHHHHHHHHH
Confidence            4444455555555555555555555555555555555555555666666666665554444 344444444555555555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          122 EKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKIN  167 (441)
Q Consensus       122 e~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~  167 (441)
                      +.+++.|+.++.......+-+..++..+..++..++..+..|+..+
T Consensus       163 ~~~~~~le~el~s~~~rq~L~~~qrdl~~~~~~~l~~~l~~Lq~~l  208 (240)
T PF12795_consen  163 EAQIEMLEQELLSNNNRQELLQLQRDLLKARIQRLQQQLQALQNLL  208 (240)
T ss_pred             HHHHHHHHHHHHCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5555555555555555555444444444444444444444444333

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

Probab=95.20  E-value=1.8  Score=53.26  Aligned_cols=100  Identities=14%  Similarity=0.193  Sum_probs=59.1

Q ss_pred             HHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHH---HH-----HHHHHHH
Q 013531           50 LKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVD---KA-----HARADEL  121 (441)
Q Consensus        50 l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~---~a-----~~~~~eL  121 (441)
                      ||.....+..+|.++...|.....++..++..+.++...|+....++..|+.....- ....+   ..     -.....|
T Consensus      1234 LRee~~~~~~k~qEl~~~i~kl~~el~plq~~l~el~~e~~~~~ael~~l~~e~~~w-K~R~q~L~~k~k~~d~~~~~kL 1312 (1822)
T KOG4674|consen 1234 LREENEANLEKIQELRDKIEKLNFELAPLQNELKELKAELQEKVAELKKLEEENDRW-KQRNQDLLEKYKDSDKNDYEKL 1312 (1822)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHhhcCCHHHHHHH
Confidence            666666677777777777777777777788888888888888888888887443211 11111   11     1124444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          122 EKQIDNLKKESEKQQKEKEALEARAIEAE  150 (441)
Q Consensus       122 e~eVe~Lkkeie~~ek~~eeLEark~eLE  150 (441)
                      .++|..|++++...+..++++..+.+.+.
T Consensus      1313 ~~ei~~Lk~el~~ke~~~~el~~~~~~~q 1341 (1822)
T KOG4674|consen 1313 KSEISRLKEELEEKENLIAELKKELNRLQ 1341 (1822)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45555555555555555555555544444

>TIGR01000 bacteriocin_acc bacteriocin secretion accessory protein

Probab=95.17  E-value=1.2  Score=47.34  Aligned_cols=22  Identities=32%  Similarity=0.449  Sum_probs=16.2

Q ss_pred             hhHhHHHHHHHHHHHHhhHHHH
Q 013531           43 LKIELDQLKSKIRSLESHIDEK   64 (441)
Q Consensus        43 ~~~el~~l~~~i~~Les~i~~~   64 (441)
                      +..++..++.++..|+..++.+
T Consensus       102 ~~~~~~~~~~~~~rL~a~~~~~  123 (457)
T TIGR01000       102 LEQQLDNLKDQKKSLDTLKQSI  123 (457)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            6777788888888887766543

This family represents an accessory protein that works with the bacteriocin maturation and ABC transport secretion protein described by TIGR01193.

>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=95.13  E-value=0.91  Score=44.74  Aligned_cols=58  Identities=16%  Similarity=0.170  Sum_probs=31.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          123 KQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERA  180 (441)
Q Consensus       123 ~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelEk~  180 (441)
                      .+=..+-+++..++.|+..+|.-...++...+.....+..+.....-++..++++...
T Consensus        46 ~Er~~h~eeLrqI~~DIn~lE~iIkqa~~er~~~~~~i~r~~eey~~Lk~~in~~R~e  103 (230)
T PF10146_consen   46 QERMAHVEELRQINQDINTLENIIKQAESERNKRQEKIQRLYEEYKPLKDEINELRKE  103 (230)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444555566666666666666655555555555555555555555555555443

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.

>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=95.12  E-value=3.2  Score=42.65  Aligned_cols=111  Identities=23%  Similarity=0.324  Sum_probs=59.3

Q ss_pred             CchhHhHHHHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHH
Q 013531           41 SPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADE  120 (441)
Q Consensus        41 ~~~~~el~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~e  120 (441)
                      ......++.|+.|+..||..-..+.++...-+.+..+.|    +++.   .|..++           -+|...|+.++..
T Consensus       156 ~~~~~~le~Lq~Klk~LEeEN~~LR~Ea~~L~~et~~~E----ekEq---qLv~dc-----------v~QL~~An~qia~  217 (306)
T PF04849_consen  156 SQKCIQLEALQEKLKSLEEENEQLRSEASQLKTETDTYE----EKEQ---QLVLDC-----------VKQLSEANQQIAS  217 (306)
T ss_pred             cccchhHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhhcc----HHHH---HHHHHH-----------HHHhhhcchhHHH
Confidence            334677888888888887776666555544222222221    1111   111111           2344555556666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          121 LEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDE  169 (441)
Q Consensus       121 Le~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~aE  169 (441)
                      |..++..-..+...+..++..|-++..+++.+...+....++|......
T Consensus       218 LseELa~k~Ee~~rQQEEIt~LlsqivdlQ~r~k~~~~EnEeL~q~L~~  266 (306)
T PF04849_consen  218 LSEELARKTEENRRQQEEITSLLSQIVDLQQRCKQLAAENEELQQHLQA  266 (306)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence            6666666666666666666666666666665555555544444444333

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 [].

>PRK11281 hypothetical protein; Provisional

Probab=95.09  E-value=1.9  Score=51.20  Aligned_cols=34  Identities=18%  Similarity=0.261  Sum_probs=19.0

Q ss_pred             HHHHHHHHHHHHHHHHHH---HHHHH---HHHHHHHhcCC
Q 013531          349 KKVVRAYGKFLKSATTYH---HQVQA---SVQEMLKKHEL  382 (441)
Q Consensus       349 e~v~~~~k~~~~~a~~~H---~q~Q~---~v~~~l~~~e~  382 (441)
                      +.....+..++..+++..   +|+..   .++++|.+|=|
T Consensus       417 ~~l~~~~~~~l~~~~~l~~~q~Ql~~~~~~l~~~L~~~lf  456 (1113)
T PRK11281        417 DQLNKQLNNQLNLAINLQLNQQQLLSVSDSLQSTLTQQIF  456 (1113)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            344555666666666663   55543   45556666544

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

Probab=95.06  E-value=4.2  Score=46.57  Aligned_cols=83  Identities=20%  Similarity=0.283  Sum_probs=47.7

Q ss_pred             HHHHHHHHHHHHHHHHHhhhhchhh---HHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531           82 IQDKSERIVSLQKELSSLQKKETLN---AAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSA  158 (441)
Q Consensus        82 i~ek~~~I~~l~~ei~sLq~~~~~~---~~~~~~~a~~~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELek  158 (441)
                      +.+++-.+..++.+++.|+.....+   .++.-.+.+..+-+|..|+-.|+-.+-.+..+.+.+..+++++|++.+.+..
T Consensus       286 lSqkeelVk~~qeeLd~lkqt~t~a~gdseqatkylh~enmkltrqkadirc~LlEarrk~egfddk~~eLEKkrd~al~  365 (1265)
T KOG0976|consen  286 LSQKEELVKELQEELDTLKQTRTRADGDSEQATKYLHLENMKLTRQKADIRCALLEARRKAEGFDDKLNELEKKRDMALM  365 (1265)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHH
Confidence            3444555666666666665433221   2222235566667777777777777666666666666666666666555554


Q ss_pred             HHHHHH
Q 013531          159 KLEKLQ  164 (441)
Q Consensus       159 klEeLe  164 (441)
                      .+..++
T Consensus       366 dvr~i~  371 (1265)
T KOG0976|consen  366 DVRSIQ  371 (1265)
T ss_pred             hHHHHH
Confidence            444333

>PF06818 Fez1: Fez1; InterPro: IPR009638 This family represents the eukaryotic Fez1 protein

Probab=95.02  E-value=1.4  Score=42.66  Aligned_cols=46  Identities=28%  Similarity=0.419  Sum_probs=26.9

Q ss_pred             CchhHhHHHHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHH
Q 013531           41 SPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKS   86 (441)
Q Consensus        41 ~~~~~el~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~   86 (441)
                      .+++..+..++.++...++.+..+...+.+|+.++...++.+..+.
T Consensus        34 v~Lr~ql~e~~~~l~~~~~~~~~l~~~~~~K~~ELE~ce~ELqr~~   79 (202)
T PF06818_consen   34 VSLRAQLRELRAELRNKESQIQELQDSLRTKQLELEVCENELQRKK   79 (202)
T ss_pred             HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhHhHHHhHHHHHHHh
Confidence            3455555555666666666666666666666666666665555544

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

>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD

Probab=95.00  E-value=1.5  Score=48.85  Aligned_cols=12  Identities=33%  Similarity=0.590  Sum_probs=4.3

Q ss_pred             HHHHHHHHHHHH
Q 013531          123 KQIDNLKKESEK  134 (441)
Q Consensus       123 ~eVe~Lkkeie~  134 (441)
                      .++..++++++.
T Consensus       449 ~~~~~~~~~i~~  460 (650)
T TIGR03185       449 RQLETLKEAIEA  460 (650)
T ss_pred             HHHHHHHHHHHH
Confidence            333333333333

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.

>PRK12704 phosphodiesterase; Provisional

Probab=95.00  E-value=1  Score=49.24  Aligned_cols=9  Identities=22%  Similarity=0.442  Sum_probs=3.7

Q ss_pred             HHHHHHHHH
Q 013531          174 IRKTERALK  182 (441)
Q Consensus       174 IeelEk~lk  182 (441)
                      +++++....
T Consensus       160 ~~~~~~~~~  168 (520)
T PRK12704        160 LEKVEEEAR  168 (520)
T ss_pred             HHHHHHHHH
Confidence            444444443

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

Probab=94.99  E-value=2.5  Score=43.37  Aligned_cols=31  Identities=16%  Similarity=0.323  Sum_probs=12.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          152 KISDLSAKLEKLQKINDEQKSKIRKTERALK  182 (441)
Q Consensus       152 kleELekklEeLek~~aEQk~qIeelEk~lk  182 (441)
                      .+.+++.+++.++...++...++.++...+.
T Consensus       231 ~l~el~~el~~l~~~i~~~~~~k~~l~~eI~  261 (325)
T PF08317_consen  231 ELAELQEELEELEEKIEELEEQKQELLAEIA  261 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444444444444444444444444333

>PRK10929 putative mechanosensitive channel protein; Provisional

Probab=94.92  E-value=1.7  Score=51.68  Aligned_cols=121  Identities=14%  Similarity=0.156  Sum_probs=73.0

Q ss_pred             hHhHHHHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHHH
Q 013531           44 KIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEK  123 (441)
Q Consensus        44 ~~el~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~  123 (441)
                      ..+...|.++...|+.+++.+++++.+-+.-+.-...........|..++..++.||+..+.--.+++..+-+++..+.+
T Consensus       172 ~a~~~~lqae~~~l~~~~~~l~~~l~s~~~~~~L~~~q~dl~~~~~~~l~~~~~~Lq~~in~kR~~~se~~~~~~~~~~~  251 (1109)
T PRK10929        172 QAQLTALQAESAALKALVDELELAQLSANNRQELARLRSELAKKRSQQLDAYLQALRNQLNSQRQREAERALESTELLAE  251 (1109)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH
Confidence            45567788899999999999998888766555555556666788888888889888877666555555555555555544


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          124 QIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQ  164 (441)
Q Consensus       124 eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLe  164 (441)
                      +...+-..+.++-....+|-.+....-.+.+.+..+....+
T Consensus       252 ~~~~~~~~i~~~~~~N~~Ls~~L~~~t~~~n~l~~~~~~~~  292 (1109)
T PRK10929        252 QSGDLPKSIVAQFKINRELSQALNQQAQRMDLIASQQRQAA  292 (1109)
T ss_pred             hhccCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            43333222333333334444444443333344333333333

>KOG0963 consensus Transcription factor/CCAAT displacement protein CDP1 [Transcription]

Probab=94.90  E-value=1.8  Score=48.05  Aligned_cols=72  Identities=26%  Similarity=0.457  Sum_probs=40.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHH
Q 013531          111 VDKAHARADELEKQIDNLKKESEKQQKEKE--------ALEARAIEAEKKISDLSAKLEKLQ----KINDEQKSKIRKTE  178 (441)
Q Consensus       111 ~~~a~~~~~eLe~eVe~Lkkeie~~ek~~e--------eLEark~eLEkkleELekklEeLe----k~~aEQk~qIeelE  178 (441)
                      ...|+.++..|+.+++.|+.+....+....        .+....+..+..+..|...++.++    +..+.-..+|..++
T Consensus       244 Le~aq~ri~~lE~e~e~L~~ql~~~N~~~~~~~~~~i~~~~~~L~~kd~~i~~L~~di~~~~~S~~~e~e~~~~qI~~le  323 (629)
T KOG0963|consen  244 LEDAQQRIVFLEREVEQLREQLAKANSSKKLAKIDDIDALGSVLNQKDSEIAQLSNDIERLEASLVEEREKHKAQISALE  323 (629)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhccCCchHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            346788888888888888877776664433        233333334444444443333332    33444445555555


Q ss_pred             HHHH
Q 013531          179 RALK  182 (441)
Q Consensus       179 k~lk  182 (441)
                      +.+.
T Consensus       324 ~~l~  327 (629)
T KOG0963|consen  324 KELK  327 (629)
T ss_pred             HHHH
Confidence            5554

>PRK04863 mukB cell division protein MukB; Provisional

Probab=94.90  E-value=5.4  Score=48.96  Aligned_cols=113  Identities=18%  Similarity=0.197  Sum_probs=49.5

Q ss_pred             hhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531           67 ELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARA  146 (441)
Q Consensus        67 ~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~eVe~Lkkeie~~ek~~eeLEark  146 (441)
                      +..+-...|...+..+.+.+..+.++...+..|+.....+.+-+....  ++..+..++..+...++.+..+.++.+...
T Consensus       294 rk~eA~kkLe~tE~nL~rI~diL~ELe~rL~kLEkQaEkA~kyleL~e--e~lr~q~ei~~l~~~LeELee~Lee~eeeL  371 (1486)
T PRK04863        294 ELYTSRRQLAAEQYRLVEMARELAELNEAESDLEQDYQAASDHLNLVQ--TALRQQEKIERYQADLEELEERLEEQNEVV  371 (1486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333334445555555666666666666666666533322222211111  111223333444444444444444444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          147 IEAEKKISDLSAKLEKLQKINDEQKSKIRKTERAL  181 (441)
Q Consensus       147 ~eLEkkleELekklEeLek~~aEQk~qIeelEk~l  181 (441)
                      .+++.++.+++.+++.++......+.++.++...+
T Consensus       372 eeleeeleeleeEleelEeeLeeLqeqLaelqqel  406 (1486)
T PRK04863        372 EEADEQQEENEARAEAAEEEVDELKSQLADYQQAL  406 (1486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444444444444444444444444444433333

>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=94.87  E-value=3.3  Score=40.61  Aligned_cols=15  Identities=20%  Similarity=0.401  Sum_probs=5.8

Q ss_pred             HHHHHHHHHHHhhHH
Q 013531           48 DQLKSKIRSLESHID   62 (441)
Q Consensus        48 ~~l~~~i~~Les~i~   62 (441)
                      ..++.+|.++....+
T Consensus        23 ~~~~~~l~~~~~~~~   37 (302)
T PF10186_consen   23 LELRSELQQLKEENE   37 (302)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            333444444433333

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

>PF12795 MscS_porin: Mechanosensitive ion channel porin domain

Probab=94.83  E-value=2  Score=41.93  Aligned_cols=136  Identities=12%  Similarity=0.181  Sum_probs=75.2

Q ss_pred             HHHHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhh-HHHHHHHHHHHHHHH
Q 013531           47 LDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQ-VDKAHARADELEKQI  125 (441)
Q Consensus        47 l~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~-~~~a~~~~~eLe~eV  125 (441)
                      +++|..+|....+.+.+....+..-...+..........-..|.+....+..+.+.-......+ ..-+.++...|+.+.
T Consensus        80 ~~eLeq~l~~~~~~L~~~q~~l~~~~~~l~~~~~~p~~aq~~l~~~~~~l~ei~~~L~~~~~~~~~~l~~a~~~~l~ae~  159 (240)
T PF12795_consen   80 LEELEQRLSQEQAQLQELQEQLQQENSQLIEIQTRPERAQQQLSEARQRLQEIRNQLQNLPPNGESPLSEAQRWLLQAEL  159 (240)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHhccCCCCcchhhHHHHHHHHHHH
Confidence            4455555555555555555555555555555554454444555554444444433222211122 444566666666666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          126 DNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALK  182 (441)
Q Consensus       126 e~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelEk~lk  182 (441)
                      ..|+.+++-++........+..=...+.+.+..+++.++......+..|+.......
T Consensus       160 ~~l~~~~~~le~el~s~~~rq~L~~~qrdl~~~~~~~l~~~l~~Lq~~ln~~R~~ea  216 (240)
T PF12795_consen  160 AALEAQIEMLEQELLSNNNRQELLQLQRDLLKARIQRLQQQLQALQNLLNQKRRQEA  216 (240)
T ss_pred             HHHHHHHHHHHHHHHCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            666666666666666655555555566666666666666666666666666555444

>TIGR03319 YmdA_YtgF conserved hypothetical protein YmdA/YtgF

Probab=94.71  E-value=2.7  Score=45.96  Aligned_cols=34  Identities=26%  Similarity=0.266  Sum_probs=14.1

Q ss_pred             chHHHHHHHHHHHHHHhcccccchHHHHHhhhhh
Q 013531          232 PAMDVAIQKALEKKAQAGKWVQPHVETIKAKWIP  265 (441)
Q Consensus       232 p~~~~~~~ka~~~~~~~~~w~~P~l~~~~~K~~p  265 (441)
                      |+-.+..+.+.++.-..|.==|--++....|...
T Consensus       254 p~rreia~~~l~~li~dgrihp~riee~~~~~~~  287 (514)
T TIGR03319       254 PVRREIARMALEKLIQDGRIHPARIEEMVEKATK  287 (514)
T ss_pred             hHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHH
Confidence            3344444444444444444333333333333333

>KOG4360 consensus Uncharacterized coiled coil protein [Function unknown]

Probab=94.69  E-value=1.5  Score=47.58  Aligned_cols=129  Identities=24%  Similarity=0.286  Sum_probs=84.9

Q ss_pred             hHHHHHHHHHHHHhhHHHHhhhhc----------chhHHHH-HHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHH
Q 013531           46 ELDQLKSKIRSLESHIDEKTQELK----------GKDEVVA-QKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKA  114 (441)
Q Consensus        46 el~~l~~~i~~Les~i~~~~~~i~----------~k~~~l~-~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a  114 (441)
                      .+++|+-++-.|++++..+.++..          ++...+= -+.+.+.+.+.++.+++.+|+++-+..+.        -
T Consensus       160 ~~EaL~ekLk~~~een~~lr~k~~llk~Et~~~~~keq~~y~~~~KelrdtN~q~~s~~eel~~kt~el~~--------q  231 (596)
T KOG4360|consen  160 LLEALQEKLKPLEEENTQLRSKAMLLKTETLTYEEKEQQLYGDCVKELRDTNTQARSGQEELQSKTKELSR--------Q  231 (596)
T ss_pred             HHHHHHhhcCChHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------H
Confidence            346666666666666555544322          1222222 34555666667777777777766533322        3


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          115 HARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALK  182 (441)
Q Consensus       115 ~~~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelEk~lk  182 (441)
                      ++..+.|.+++.++++.+.-+.-+++.+..-.........+++.+.+++++..++-..++.+.+..++
T Consensus       232 ~Ee~skLlsql~d~qkk~k~~~~Ekeel~~~Lq~~~da~~ql~aE~~EleDkyAE~m~~~~EaeeELk  299 (596)
T KOG4360|consen  232 QEENSKLLSQLVDLQKKIKYLRHEKEELDEHLQAYKDAQRQLTAELEELEDKYAECMQMLHEAEEELK  299 (596)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44577788888888888877787788777777777777778888888888888888877777777666

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

Probab=94.67  E-value=4.3  Score=44.38  Aligned_cols=10  Identities=20%  Similarity=0.189  Sum_probs=4.0

Q ss_pred             cchhHHHHhh
Q 013531          311 VDPYFQEAKK  320 (441)
Q Consensus       311 v~Py~~e~ke  320 (441)
                      |+-.+.+|-.
T Consensus       458 Vtls~eEy~~  467 (522)
T PF05701_consen  458 VTLSLEEYES  467 (522)
T ss_pred             eeecHHHHHH
Confidence            3334444433

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

>PRK12704 phosphodiesterase; Provisional

Probab=94.66  E-value=2.8  Score=45.92  Aligned_cols=6  Identities=67%  Similarity=0.501  Sum_probs=2.2

Q ss_pred             HHHHHH
Q 013531          240 KALEKK  245 (441)
Q Consensus       240 ka~~~~  245 (441)
                      .++++.
T Consensus       268 ~~l~~l  273 (520)
T PRK12704        268 LALEKL  273 (520)
T ss_pred             HHHHHH
Confidence            333333

>PF04111 APG6: Autophagy protein Apg6; InterPro: IPR007243 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells

Probab=94.64  E-value=0.93  Score=46.46  Aligned_cols=22  Identities=18%  Similarity=0.321  Sum_probs=11.4

Q ss_pred             HHHhcCCCchhccchHHHHHHHH
Q 013531          376 MLKKHELTSPLATKELEWFAASA  398 (441)
Q Consensus       376 ~l~~~e~~~~~at~el~wflasa  398 (441)
                      ......+-=++.+.+ -|=.|.-
T Consensus       274 ~I~~~si~~~~~~~~-~WT~AlK  295 (314)
T PF04111_consen  274 KIGGVSIKLQFNSEE-EWTKALK  295 (314)
T ss_dssp             EECTCES-STTS-HH-HHHHHHH
T ss_pred             ccCCeeeeecCCChh-HHHHHHH
Confidence            333334434556666 8888773

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.

>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=94.63  E-value=2.3  Score=43.61  Aligned_cols=131  Identities=22%  Similarity=0.293  Sum_probs=60.2

Q ss_pred             CchhHhHHHHHHHHHHHHhhHHHHhhhhcchhHH----HHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHH
Q 013531           41 SPLKIELDQLKSKIRSLESHIDEKTQELKGKDEV----VAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHA  116 (441)
Q Consensus        41 ~~~~~el~~l~~~i~~Les~i~~~~~~i~~k~~~----l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~  116 (441)
                      .++..-+..|..+-.+|++..+.+..+-..-.+.    +..+-+.+.+.+..|..|+.+|+.-. +....+.++      
T Consensus       163 e~Lq~Klk~LEeEN~~LR~Ea~~L~~et~~~EekEqqLv~dcv~QL~~An~qia~LseELa~k~-Ee~~rQQEE------  235 (306)
T PF04849_consen  163 EALQEKLKSLEEENEQLRSEASQLKTETDTYEEKEQQLVLDCVKQLSEANQQIASLSEELARKT-EENRRQQEE------  235 (306)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHH-HHHHHHHHH------
Confidence            3444444444444444444444433222222111    23344556666777888888776553 434444443      


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          117 RADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTER  179 (441)
Q Consensus       117 ~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelEk  179 (441)
                       +..|-.+|-.|++-....-.+.+++.............|..++.++++.-.+-...+.+.+.
T Consensus       236 -It~LlsqivdlQ~r~k~~~~EnEeL~q~L~~ske~Q~~L~aEL~elqdkY~E~~~mL~EaQE  297 (306)
T PF04849_consen  236 -ITSLLSQIVDLQQRCKQLAAENEELQQHLQASKESQRQLQAELQELQDKYAECMAMLHEAQE  297 (306)
T ss_pred             -HHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence             33333444444444444444444444444443333444445555555544444444444443

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 [].

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

Probab=94.62  E-value=6.1  Score=40.43  Aligned_cols=81  Identities=25%  Similarity=0.411  Sum_probs=54.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531           80 KAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAK  159 (441)
Q Consensus        80 ~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekk  159 (441)
                      ..+.+...+=.++..++.++-        +.-...++++.++.+++.+|+...+.++.++..+-..++++-..+.++-..
T Consensus        20 ~~~~e~~ekR~El~~~~~~~~--------ekRdeln~kvrE~~e~~~elr~~rdeineev~elK~kR~ein~kl~eL~~~   91 (294)
T COG1340          20 EEIEELKEKRDELRKEASELA--------EKRDELNAKVRELREKAQELREERDEINEEVQELKEKRDEINAKLQELRKE   91 (294)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333345555555553        334566778888888888888888888888888888888877777777666


Q ss_pred             HHHHHHHHH
Q 013531          160 LEKLQKIND  168 (441)
Q Consensus       160 lEeLek~~a  168 (441)
                      +.++-...+
T Consensus        92 ~~~l~e~~~  100 (294)
T COG1340          92 YRELKEKRN  100 (294)
T ss_pred             HHHHHHHhh
Confidence            666655544

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

Probab=94.57  E-value=3.3  Score=45.62  Aligned_cols=40  Identities=10%  Similarity=0.250  Sum_probs=31.5

Q ss_pred             hHhHHHhhcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          337 VDNVRVALKPYTKKVVRAYGKFLKSATTYHHQVQASVQEM  376 (441)
Q Consensus       337 vdkv~~~~~Py~e~v~~~~k~~~~~a~~~H~q~Q~~v~~~  376 (441)
                      +|++...+.=|..++...+..++..+.++|--+|+.|.+.
T Consensus       526 l~~~~~~~~eer~ki~~ql~~~i~~i~~~k~~iqs~le~~  565 (581)
T KOG0995|consen  526 LDRMVATGEEERQKIAKQLFAVIDQISDFKVSIQSSLENL  565 (581)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4456666777777787888888999999999999888764

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

Probab=94.55  E-value=5.7  Score=45.83  Aligned_cols=15  Identities=40%  Similarity=0.414  Sum_probs=6.4

Q ss_pred             hhHhHHHHHHHHHHH
Q 013531           43 LKIELDQLKSKIRSL   57 (441)
Q Consensus        43 ~~~el~~l~~~i~~L   57 (441)
                      ++.|+++|++.-.++
T Consensus       391 Lr~elaql~a~r~q~  405 (980)
T KOG0980|consen  391 LRNELAQLLASRTQL  405 (980)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            444444444433333

>PRK04778 septation ring formation regulator EzrA; Provisional

Probab=94.52  E-value=4.1  Score=44.89  Aligned_cols=30  Identities=10%  Similarity=0.338  Sum_probs=13.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          151 KKISDLSAKLEKLQKINDEQKSKIRKTERA  180 (441)
Q Consensus       151 kkleELekklEeLek~~aEQk~qIeelEk~  180 (441)
                      ...+++...++.+++...+....++.+++.
T Consensus       383 e~leel~e~leeie~eq~ei~e~l~~Lrk~  412 (569)
T PRK04778        383 EELEEILKQLEEIEKEQEKLSEMLQGLRKD  412 (569)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444444444444433

>TIGR03007 pepcterm_ChnLen polysaccharide chain length determinant protein, PEP-CTERM locus subfamily

Probab=94.48  E-value=3.1  Score=44.45  Aligned_cols=23  Identities=30%  Similarity=0.202  Sum_probs=16.8

Q ss_pred             chHHHHHHHHHHHHHHHHHHHHH
Q 013531          389 KELEWFAASALLVLPVIILFRIG  411 (441)
Q Consensus       389 ~el~wflasall~~P~~~~~~~~  411 (441)
                      ..+++|++|+-+++-++.+.|+.
T Consensus       474 ~~~~~~~~~~~~~~~~~~~~~~~  496 (498)
T TIGR03007       474 RRLAAFLASAGLLIAVYGALMAM  496 (498)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            34677778888888888777653

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.

>PF14662 CCDC155: Coiled-coil region of CCDC155

Probab=94.46  E-value=5  Score=38.71  Aligned_cols=79  Identities=28%  Similarity=0.285  Sum_probs=45.1

Q ss_pred             HHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531           88 RIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKIN  167 (441)
Q Consensus        88 ~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~  167 (441)
                      .-..+..|+..| +......+++.....++...++++...|-.++..++.+...+......+.++..+|......|+..+
T Consensus        61 ~aK~l~eEledL-k~~~~~lEE~~~~L~aq~rqlEkE~q~L~~~i~~Lqeen~kl~~e~~~lk~~~~eL~~~~~~Lq~Ql  139 (193)
T PF14662_consen   61 KAKALEEELEDL-KTLAKSLEEENRSLLAQARQLEKEQQSLVAEIETLQEENGKLLAERDGLKKRSKELATEKATLQRQL  139 (193)
T ss_pred             HHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHhhhhHHHHHHHHHHhhHHHHHHH
Confidence            333444455555 2333334556666666666666666666666666666666666666666666555555554554444

>PRK10884 SH3 domain-containing protein; Provisional

Probab=94.43  E-value=0.61  Score=45.18  Aligned_cols=21  Identities=24%  Similarity=0.548  Sum_probs=12.7

Q ss_pred             HHHHHHHHHhhHHHHhhhhcc
Q 013531           50 LKSKIRSLESHIDEKTQELKG   70 (441)
Q Consensus        50 l~~~i~~Les~i~~~~~~i~~   70 (441)
                      ++..+..|+.++.+++.++.+
T Consensus        91 ~~~rlp~le~el~~l~~~l~~  111 (206)
T PRK10884         91 LRTRVPDLENQVKTLTDKLNN  111 (206)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            556666666666666555554

>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=94.37  E-value=3.6  Score=36.77  Aligned_cols=22  Identities=23%  Similarity=0.292  Sum_probs=10.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q 013531          158 AKLEKLQKINDEQKSKIRKTER  179 (441)
Q Consensus       158 kklEeLek~~aEQk~qIeelEk  179 (441)
                      .....|++.+.+.+.+++++..
T Consensus        98 ~qk~~le~e~~~~~~r~~dL~~  119 (132)
T PF07926_consen   98 EQKEQLEKELSELEQRIEDLNE  119 (132)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444444444445554443

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

>PF05335 DUF745: Protein of unknown function (DUF745); InterPro: IPR007999 This family consists of several uncharacterised Drosophila melanogaster proteins of unknown function

Probab=94.37  E-value=3.4  Score=39.60  Aligned_cols=108  Identities=19%  Similarity=0.288  Sum_probs=67.6

Q ss_pred             hhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531           67 ELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARA  146 (441)
Q Consensus        67 ~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~eVe~Lkkeie~~ek~~eeLEark  146 (441)
                      -|.||...+.+++..+.|-+..|.+-...|.+-|        ..+..|..-+.....++..|+.-+..........+.-.
T Consensus        61 aL~GKq~iveqLe~ev~EAe~vV~ee~~sL~~aq--------~na~aA~~aa~~A~~q~~~L~~~l~~a~~nl~~a~~~a  132 (188)
T PF05335_consen   61 ALAGKQQIVEQLEQEVREAEAVVQEEKASLQQAQ--------ANAQAAQRAAQQAQQQLETLKAALKAAQANLANAEQVA  132 (188)
T ss_pred             HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4567777777777777777777655555554443        23334445556666666666666666666666666666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          147 IEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALK  182 (441)
Q Consensus       147 ~eLEkkleELekklEeLek~~aEQk~qIeelEk~lk  182 (441)
                      ......+.+-...++...+..+.+..++.....+++
T Consensus       133 ~~AQ~el~eK~qLLeaAk~Rve~L~~QL~~Ar~D~~  168 (188)
T PF05335_consen  133 EGAQQELAEKTQLLEAAKRRVEELQRQLQAARADYE  168 (188)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            666666666666666666666666666666666655

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

Probab=94.35  E-value=2.3  Score=49.07  Aligned_cols=19  Identities=21%  Similarity=0.382  Sum_probs=8.2

Q ss_pred             HHHHHHHHHhhHHHHhhhh
Q 013531           50 LKSKIRSLESHIDEKTQEL   68 (441)
Q Consensus        50 l~~~i~~Les~i~~~~~~i   68 (441)
                      |..+++++|+.|.++..++
T Consensus       422 Lsr~~d~aEs~iadlkEQV  440 (1243)
T KOG0971|consen  422 LSRELDQAESTIADLKEQV  440 (1243)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            3344444444444443333

>TIGR03007 pepcterm_ChnLen polysaccharide chain length determinant protein, PEP-CTERM locus subfamily

Probab=94.22  E-value=6.5  Score=42.02  Aligned_cols=19  Identities=11%  Similarity=0.323  Sum_probs=9.1

Q ss_pred             HhHHHHHHHHHHHHhhHHH
Q 013531           45 IELDQLKSKIRSLESHIDE   63 (441)
Q Consensus        45 ~el~~l~~~i~~Les~i~~   63 (441)
                      .+++.++.++.+.+..+.+
T Consensus       168 ~ql~~~~~~L~~ae~~l~~  186 (498)
T TIGR03007       168 EQIKTYEKKLEAAENRLKA  186 (498)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            3444455555555444444

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.

>PRK10476 multidrug resistance protein MdtN; Provisional

Probab=94.21  E-value=3.6  Score=41.99  Aligned_cols=20  Identities=0%  Similarity=0.104  Sum_probs=9.4

Q ss_pred             HHHHHHHHHhhHHHHhhhhc
Q 013531           50 LKSKIRSLESHIDEKTQELK   69 (441)
Q Consensus        50 l~~~i~~Les~i~~~~~~i~   69 (441)
                      ++..+.++++.+...+.++.
T Consensus        84 ~~~~l~~a~a~l~~a~a~l~  103 (346)
T PRK10476         84 YELTVAQAQADLALADAQIM  103 (346)
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            44445555555544444433

>TIGR01000 bacteriocin_acc bacteriocin secretion accessory protein

Probab=94.10  E-value=1.9  Score=45.94  Aligned_cols=10  Identities=10%  Similarity=0.222  Sum_probs=5.6

Q ss_pred             hhccCCchHH
Q 013531          226 WNAHGKPAMD  235 (441)
Q Consensus       226 w~~hg~p~~~  235 (441)
                      |-..|.|++.
T Consensus       338 ~V~~G~~l~~  347 (457)
T TIGR01000       338 YVPKGTLIAQ  347 (457)
T ss_pred             EeCCCCEEEE
Confidence            3445666664

This family represents an accessory protein that works with the bacteriocin maturation and ABC transport secretion protein described by TIGR01193.

>PF09304 Cortex-I_coil: Cortexillin I, coiled coil; InterPro: IPR015383 This domain is predominantly found in the actin-bundling protein cortexillin I from Dictyostelium discoideum (Slime mold)

Probab=94.08  E-value=3.2  Score=36.49  Aligned_cols=45  Identities=29%  Similarity=0.434  Sum_probs=22.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          114 AHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSA  158 (441)
Q Consensus       114 a~~~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELek  158 (441)
                      .+-++.+|+.+|+++...+++-.--+..++.+....++-.+.++-
T Consensus        56 ~~qr~~eLqaki~ea~~~le~eK~ak~~l~~r~~k~~~dka~lel  100 (107)
T PF09304_consen   56 RNQRIAELQAKIDEARRNLEDEKQAKLELESRLLKAQKDKAILEL  100 (107)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHH
Confidence            344566666666666666665333333445444444444444433

The domain has a structure consisting of an 18-heptad-repeat alpha-helical coiled-coil, and is a prerequisite for the assembly of Cortexillin I []. ; PDB: 1D7M_A.

>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=94.08  E-value=5.1  Score=45.62  Aligned_cols=138  Identities=20%  Similarity=0.326  Sum_probs=97.3

Q ss_pred             HhHHHHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh---chhh------HH-------
Q 013531           45 IELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKK---ETLN------AA-------  108 (441)
Q Consensus        45 ~el~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~---~~~~------~~-------  108 (441)
                      .|+.-|+..+.|.+..-..+...+.+-...+..-...+.+...+|..|-..+..|.+-   ....      ..       
T Consensus       265 ~EiqKL~qQL~qve~EK~~L~~~L~e~Q~qLe~a~~als~q~eki~~L~e~l~aL~~l~~~ke~~~~~d~~~~~~s~~d~  344 (717)
T PF09730_consen  265 SEIQKLKQQLLQVEREKSSLLSNLQESQKQLEHAQGALSEQQEKINRLTEQLDALRKLQEDKEQQSAEDSEKERDSHEDG  344 (717)
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccchhhhhhhhccccccccccc
Confidence            3455688888888888888888888877777777777777777888888888877651   1110      00       


Q ss_pred             -------hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          109 -------EQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIE----AEKKISDLSAKLEKLQKINDEQKSKIRKT  177 (441)
Q Consensus       109 -------~~~~~a~~~~~eLe~eVe~Lkkeie~~ek~~eeLEark~e----LEkkleELekklEeLek~~aEQk~qIeel  177 (441)
                             .+..--+.+......++..|+.++..+..+...++....+    ++..+.++..++..+++...+-+.++..+
T Consensus       345 ~~ye~Di~~~eiLe~Ky~vav~Ev~~Lk~ELk~Lk~k~~~~~~~~~~ek~~~~~e~q~L~ekl~~lek~~re~qeri~~L  424 (717)
T PF09730_consen  345 DYYEVDINGLEILECKYKVAVSEVIQLKAELKALKSKYNELEERYKQEKDRLESEVQNLKEKLMSLEKSSREDQERISEL  424 (717)
T ss_pred             chhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHH
Confidence                   0011224556666677777888887777777776665544    45567888888888888777778888888


Q ss_pred             HHHHH
Q 013531          178 ERALK  182 (441)
Q Consensus       178 Ek~lk  182 (441)
                      ++.+.
T Consensus       425 E~ELr  429 (717)
T PF09730_consen  425 EKELR  429 (717)
T ss_pred             HHHHH
Confidence            88887

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

>TIGR03319 YmdA_YtgF conserved hypothetical protein YmdA/YtgF

Probab=94.06  E-value=2.3  Score=46.48  Aligned_cols=28  Identities=11%  Similarity=0.119  Sum_probs=12.1

Q ss_pred             HHHHHHHHHHH----HHHHHHHHhhhhhhhhH
Q 013531          172 SKIRKTERALK----EEMMRAKFEATSRSKEL  199 (441)
Q Consensus       172 ~qIeelEk~lk----eei~k~k~E~~~kAk~l  199 (441)
                      ..+++++....    ..+.+...+++..|.+.
T Consensus       152 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  183 (514)
T TIGR03319       152 ILLEEVEEEARHEAAKLIKEIEEEAKEEADKK  183 (514)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444    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=94.05  E-value=6.3  Score=38.37  Aligned_cols=48  Identities=10%  Similarity=0.201  Sum_probs=26.5

Q ss_pred             HHHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHH
Q 013531           48 DQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKE   95 (441)
Q Consensus        48 ~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~e   95 (441)
                      ..++.++...+.++.++.+.+........+..++|.+.++.|..+-.+
T Consensus        12 ~~~~~e~~~~E~e~~~l~~k~~e~~~~~~~m~~i~~e~Ek~i~~~i~e   59 (207)
T PF05010_consen   12 KKVQEEVAEKEEEEQELKKKYEELHKENQEMRKIMEEYEKTIAQMIEE   59 (207)
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence            334555555555555555555555555555666666666665555444

The human TACC proteins have been linked to cancer and TACC2 has been identified as a possible tumour suppressor (AZU-1) [].

>PRK00106 hypothetical protein; Provisional

Probab=94.02  E-value=4.8  Score=44.40  Aligned_cols=10  Identities=30%  Similarity=0.381  Sum_probs=4.3

Q ss_pred             HHHHHHHHHH
Q 013531          173 KIRKTERALK  182 (441)
Q Consensus       173 qIeelEk~lk  182 (441)
                      .+++++....
T Consensus       174 l~~~~~~~~~  183 (535)
T PRK00106        174 ILAETENKLT  183 (535)
T ss_pred             HHHHHHHHHH
Confidence            3444444444

>PF04111 APG6: Autophagy protein Apg6; InterPro: IPR007243 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells

Probab=93.94  E-value=1.3  Score=45.40  Aligned_cols=63  Identities=27%  Similarity=0.364  Sum_probs=25.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          119 DELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERAL  181 (441)
Q Consensus       119 ~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelEk~l  181 (441)
                      .+|+.+-+.|.+++.+++.+...++......=...+.+...+.+.++..+..+.+++.....+
T Consensus        67 ~~LE~e~~~l~~el~~le~e~~~l~~eE~~~~~~~n~~~~~l~~~~~e~~sl~~q~~~~~~~L  129 (314)
T PF04111_consen   67 EELEKEREELDQELEELEEELEELDEEEEEYWREYNELQLELIEFQEERDSLKNQYEYASNQL  129 (314)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333344444444444444444433333333333333444444444444444444444444433

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.

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

Probab=93.86  E-value=7.3  Score=46.44  Aligned_cols=57  Identities=26%  Similarity=0.306  Sum_probs=34.7

Q ss_pred             HHHHHHHHHhhHHHHh--------hhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhh
Q 013531           50 LKSKIRSLESHIDEKT--------QELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLN  106 (441)
Q Consensus        50 l~~~i~~Les~i~~~~--------~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~  106 (441)
                      |...|..|.+..+++.        +++++.++.+.+.++.++..+..+.+++.++.-+|.++..+
T Consensus       470 L~e~i~~lk~~~~el~~~q~~l~q~~~ke~~ek~~~~~~~~~~l~~~~~~~~eele~~q~~~~~~  534 (1317)
T KOG0612|consen  470 LEETIEKLKSEESELQREQKALLQHEQKEVEEKLSEEEAKKRKLEALVRQLEEELEDAQKKNDNA  534 (1317)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444444444444444        45666666666667777777777777777777776655433

>TIGR01005 eps_transp_fam exopolysaccharide transport protein family

Probab=93.84  E-value=3.1  Score=46.97  Aligned_cols=83  Identities=23%  Similarity=0.279  Sum_probs=37.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531           80 KAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDN-LKKESEKQQKEKEALEARAIEAEKKISDLSA  158 (441)
Q Consensus        80 ~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~eVe~-Lkkeie~~ek~~eeLEark~eLEkkleELek  158 (441)
                      ..|+++.....+++.++..|.... ...--++..+.+++.+|+.++.. +.+.+..+..+.+.+..+.+.++.++++++.
T Consensus       288 ~~i~~L~~~l~~l~~~~~~l~~~y-~~~hP~v~~l~~qi~~l~~~i~~e~~~~~~~~~~~~~~a~~~~~~L~~~l~~~~~  366 (754)
T TIGR01005       288 DLIQRLRERQAELRATIADLSTTM-LANHPRVVAAKSSLADLDAQIRSELQKITKSLLMQADAAQARESQLVSDVNQLKA  366 (754)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhh-CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444555555554443321 12223344555555555555433 2333444444444444444455555555544


Q ss_pred             HHHHH
Q 013531          159 KLEKL  163 (441)
Q Consensus       159 klEeL  163 (441)
                      ++.++
T Consensus       367 ~~~~~  371 (754)
T TIGR01005       367 ASAQA  371 (754)
T ss_pred             HHHhC
Confidence            44433

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.

>PRK00106 hypothetical protein; Provisional

Probab=93.82  E-value=2.8  Score=46.14  Aligned_cols=38  Identities=16%  Similarity=0.176  Sum_probs=18.5

Q ss_pred             chHHHHHHHHHHHHHHhcccccchHHHHHhhhhhhHHH
Q 013531          232 PAMDVAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKE  269 (441)
Q Consensus       232 p~~~~~~~ka~~~~~~~~~w~~P~l~~~~~K~~pv~~~  269 (441)
                      |+-.+..+.++++.-..|.==|--++....|...-+..
T Consensus       275 pvRReiAr~~le~Li~dgrIhp~rIEe~v~k~~~e~~~  312 (535)
T PRK00106        275 PIRREIARMTLESLIKDGRIHPARIEELVEKNRLEMDN  312 (535)
T ss_pred             hHHHHHHHHHHHHHHHcCCcCHHHHHHHHHHHHHHHHH
Confidence            44445555555555555554444444444444444433

>PF05384 DegS: Sensor protein DegS; InterPro: IPR008595 This is a group of Bacillus DegS proteins

Probab=93.56  E-value=6.5  Score=36.82  Aligned_cols=125  Identities=14%  Similarity=0.329  Sum_probs=78.4

Q ss_pred             hHhHHHHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHHH
Q 013531           44 KIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEK  123 (441)
Q Consensus        44 ~~el~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~  123 (441)
                      +.|.+.++.+|..++..|.+.-.+.+.       ++..-........+.+..+...       .++.+..|++.+.++.-
T Consensus        26 R~E~~~l~~EL~evk~~v~~~I~evD~-------Le~~er~aR~rL~eVS~~f~~y-------sE~dik~AYe~A~~lQ~   91 (159)
T PF05384_consen   26 RQEYERLRKELEEVKEEVSEVIEEVDK-------LEKRERQARQRLAEVSRNFDRY-------SEEDIKEAYEEAHELQV   91 (159)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHhhhccc-------CHHHHHHHHHHHHHHHH
Confidence            455566666666666666555444443       4444444445555555555444       35667788888888888


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          124 QIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALK  182 (441)
Q Consensus       124 eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelEk~lk  182 (441)
                      ++..++..-..+..+-+.||-+...++.-++..+..+..+.-...-....+.+....++
T Consensus        92 ~L~~~re~E~qLr~rRD~LErrl~~l~~tierAE~l~sqi~vvl~yL~~dl~~v~~~~e  150 (159)
T PF05384_consen   92 RLAMLREREKQLRERRDELERRLRNLEETIERAENLVSQIGVVLNYLSGDLQQVSEQIE  150 (159)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            88888777777777777777777777766666666555555555555555555554444

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

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

Probab=93.54  E-value=14  Score=40.81  Aligned_cols=131  Identities=25%  Similarity=0.402  Sum_probs=67.3

Q ss_pred             hhHhHHHHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHH-----------HHHHHHHHHHHHHHhhhhchhhHHhhH
Q 013531           43 LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQD-----------KSERIVSLQKELSSLQKKETLNAAEQV  111 (441)
Q Consensus        43 ~~~el~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~e-----------k~~~I~~l~~ei~sLq~~~~~~~~~~~  111 (441)
                      ...+++.|...-..|+.+|.+++ .+.++.+-+.++-..++.           ...+-+.+.+.+.-|+        +-.
T Consensus       233 i~~~ie~l~~~n~~l~e~i~e~e-k~~~~~eslre~~~~L~~D~nK~~~y~~~~~~k~~~~~~~l~~l~--------~Ei  303 (581)
T KOG0995|consen  233 IANEIEDLKKTNRELEEMINERE-KDPGKEESLREKKARLQDDVNKFQAYVSQMKSKKQHMEKKLEMLK--------SEI  303 (581)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHh-cCcchHHHHHHHHHHHHhHHHHHHHHHHHHHhhhHHHHHHHHHHH--------HHH
Confidence            35566666666666766666543 233333333333222222           2222222222332222        112


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          112 DKAHARADELEKQIDNLKKESEKQQ---KEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALK  182 (441)
Q Consensus       112 ~~a~~~~~eLe~eVe~Lkkeie~~e---k~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelEk~lk  182 (441)
                      ..-++.+..|..++++|+++++.|.   ++.+....+++.+...++.++.+++.+.+..-+++.+++..-+.++
T Consensus       304 e~kEeE~e~lq~~~d~Lk~~Ie~Q~iS~~dve~mn~Er~~l~r~l~~i~~~~d~l~k~vw~~~l~~~~~f~~le  377 (581)
T KOG0995|consen  304 EEKEEEIEKLQKENDELKKQIELQGISGEDVERMNLERNKLKRELNKIQSELDRLSKEVWELKLEIEDFFKELE  377 (581)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            2334445555666777777766664   4445555566666666777777777776666666555555444444

>smart00787 Spc7 Spc7 kinetochore protein

Probab=93.49  E-value=4.5  Score=41.58  Aligned_cols=51  Identities=24%  Similarity=0.274  Sum_probs=21.7

Q ss_pred             HHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531           84 DKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQ  135 (441)
Q Consensus        84 ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~eVe~Lkkeie~~  135 (441)
                      .+...+..|+++-..|- +.....++-......+...|+.++..|+...+.+
T Consensus       148 ~L~~~~~~l~~D~~~L~-~~~~~l~~~~~~l~~~~~~L~~e~~~L~~~~~e~  198 (312)
T smart00787      148 GLDENLEGLKEDYKLLM-KELELLNSIKPKLRDRKDALEEELRQLKQLEDEL  198 (312)
T ss_pred             HHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Confidence            33344444444444442 1112222223344445555555555555444443

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

>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=93.49  E-value=8.2  Score=37.83  Aligned_cols=20  Identities=40%  Similarity=0.561  Sum_probs=9.9

Q ss_pred             hHhHHHHHHHHHHHHhhHHH
Q 013531           44 KIELDQLKSKIRSLESHIDE   63 (441)
Q Consensus        44 ~~el~~l~~~i~~Les~i~~   63 (441)
                      +.++..++.....|+.+|++
T Consensus        26 ~~~l~~~~~~~~~l~~~i~~   45 (302)
T PF10186_consen   26 RSELQQLKEENEELRRRIEE   45 (302)
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            34444455555555555544

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

>PF15397 DUF4618: Domain of unknown function (DUF4618)

Probab=93.47  E-value=9.4  Score=38.42  Aligned_cols=73  Identities=21%  Similarity=0.355  Sum_probs=40.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          113 KAHARADELEKQIDNLKKESEKQQKEKEALEARAIE---AEK-KISDLSAKLEKLQKINDEQKSKIRKTERALKEEMMRA  188 (441)
Q Consensus       113 ~a~~~~~eLe~eVe~Lkkeie~~ek~~eeLEark~e---LEk-kleELekklEeLek~~aEQk~qIeelEk~lkeei~k~  188 (441)
                      +.+.+++.|+.|++.|...|.+...+..-|-....-   +.. ++.+|.   ..++...+.|+..++++...++.++..+
T Consensus        78 k~e~~l~~Lq~ql~~l~akI~k~~~el~~L~TYkD~EYPvK~vqIa~L~---rqlq~lk~~qqdEldel~e~~~~el~~l  154 (258)
T PF15397_consen   78 KEESKLSKLQQQLEQLDAKIQKTQEELNFLSTYKDHEYPVKAVQIANLV---RQLQQLKDSQQDELDELNEMRQMELASL  154 (258)
T ss_pred             HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444556666666666666666655555555544432   111 344444   4445566677778888877777444433

>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=93.45  E-value=0.66  Score=42.94  Aligned_cols=57  Identities=26%  Similarity=0.437  Sum_probs=28.4

Q ss_pred             HhHHHHHHHHHHHHhhHHHHhhhhcchhHHHH---------HHHHHHHHHHHHHHHHHHHHHHhhh
Q 013531           45 IELDQLKSKIRSLESHIDEKTQELKGKDEVVA---------QKEKAIQDKSERIVSLQKELSSLQK  101 (441)
Q Consensus        45 ~el~~l~~~i~~Les~i~~~~~~i~~k~~~l~---------~ke~~i~ek~~~I~~l~~ei~sLq~  101 (441)
                      .++..++.+|.+|+.++.++.++++....+|+         ++...|.+++..|..+++.+..|+.
T Consensus        72 eel~~ld~ei~~L~~el~~l~~~~k~l~~eL~~L~~~~t~~el~~~i~~l~~e~~~l~~kL~~l~~  137 (169)
T PF07106_consen   72 EELAELDAEIKELREELAELKKEVKSLEAELASLSSEPTNEELREEIEELEEEIEELEEKLEKLRS  137 (169)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            34444444444444444444444444333333         3455556666666666666666654

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 [].

>PRK10884 SH3 domain-containing protein; Provisional

Probab=93.36  E-value=1.8  Score=41.95  Aligned_cols=14  Identities=14%  Similarity=0.472  Sum_probs=5.6

Q ss_pred             HHHHHHHHHHHHHh
Q 013531           86 SERIVSLQKELSSL   99 (441)
Q Consensus        86 ~~~I~~l~~ei~sL   99 (441)
                      ++.++++..+++.+
T Consensus        99 e~el~~l~~~l~~~  112 (206)
T PRK10884         99 ENQVKTLTDKLNNI  112 (206)
T ss_pred             HHHHHHHHHHHHHH
Confidence            33344444444333

>KOG4673 consensus Transcription factor TMF, TATA element modulatory factor [Transcription]

Probab=93.27  E-value=8.9  Score=43.38  Aligned_cols=32  Identities=19%  Similarity=0.222  Sum_probs=12.6

Q ss_pred             cchhHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013531           69 KGKDEVVAQKEKAIQDKSERIVSLQKELSSLQ  100 (441)
Q Consensus        69 ~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq  100 (441)
                      ++||+.|.++-..=+++|+++-.-+.-|--|.
T Consensus       449 aEkdE~I~~lm~EGEkLSK~ql~qs~iIkKLR  480 (961)
T KOG4673|consen  449 AEKDEIINQLMAEGEKLSKKQLAQSAIIKKLR  480 (961)
T ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Confidence            33333333333333334444444444444443

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

Probab=93.24  E-value=7.9  Score=46.08  Aligned_cols=96  Identities=27%  Similarity=0.306  Sum_probs=60.6

Q ss_pred             hcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531           68 LKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAI  147 (441)
Q Consensus        68 i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~eVe~Lkkeie~~ek~~eeLEark~  147 (441)
                      |.+-|.-.-.-++.|++.+..|.--++-|+..|. ..-.+++-+..|..++++|+..+++|+.....+..+....+....
T Consensus      1572 L~~Ad~Aq~~a~~ai~~a~~~~~~a~~~l~kv~~-~t~~aE~~~~~a~q~~~eL~~~~e~lk~~~~qns~~A~~a~~~a~ 1650 (1758)
T KOG0994|consen 1572 LEEADVAQGEAQDAIQGADRDIRLAQQLLAKVQE-ETAAAEKLATSATQQLGELETRMEELKHKAAQNSAEAKQAEKTAG 1650 (1758)
T ss_pred             HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHH
Confidence            3333444444556677777777777777777763 344566667788888888888888888777777666666555555


Q ss_pred             HHHHHHHHHHHHHHHHH
Q 013531          148 EAEKKISDLSAKLEKLQ  164 (441)
Q Consensus       148 eLEkkleELekklEeLe  164 (441)
                      .+..+..+.+..++.|+
T Consensus      1651 sa~~~A~~a~q~~~~lq 1667 (1758)
T KOG0994|consen 1651 SAKEQALSAEQGLEILQ 1667 (1758)
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            54444444444444333

>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]

Probab=93.20  E-value=3.6  Score=46.51  Aligned_cols=102  Identities=22%  Similarity=0.206  Sum_probs=54.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHhh
Q 013531          116 ARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALK---EEMMRAKFEA  192 (441)
Q Consensus       116 ~~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelEk~lk---eei~k~k~E~  192 (441)
                      .+.+.+.++...+..-++.+.+...++......+..+++..++++++++...++....++.......   +++.++....
T Consensus       538 ~~~~~l~~el~~~~~~le~~kk~~~e~~~~~~~Lq~~~ek~~~~le~i~~~~~e~~~ele~~~~k~~rleEE~e~L~~kl  617 (698)
T KOG0978|consen  538 SNESKLIKELTTLTQSLEMLKKKAQEAKQSLEDLQIELEKSEAKLEQIQEQYAELELELEIEKFKRKRLEEELERLKRKL  617 (698)
T ss_pred             HhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444445555555555555566666555555556666666666666666555555555555444432   4444443332


Q ss_pred             hhhhhhHHHhhhccCChhHHHHHHhhhh
Q 013531          193 TSRSKELTEVHSAWLPPWLAVHLLQCQS  220 (441)
Q Consensus       193 ~~kAk~l~e~h~~wlppw~a~~~~~~q~  220 (441)
                      ..- +.  +.+|+.--+-|++++..|+.
T Consensus       618 e~~-k~--~~~~~s~d~~L~EElk~yK~  642 (698)
T KOG0978|consen  618 ERL-KK--EESGASADEVLAEELKEYKE  642 (698)
T ss_pred             HHh-cc--ccccccccHHHHHHHHHHHh
Confidence            211 11  11255555667777777664

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

Probab=93.14  E-value=6.1  Score=43.61  Aligned_cols=12  Identities=33%  Similarity=0.537  Sum_probs=6.7

Q ss_pred             hhHhHHHHHHHH
Q 013531           43 LKIELDQLKSKI   54 (441)
Q Consensus        43 ~~~el~~l~~~i   54 (441)
                      .+.||.+|+.++
T Consensus        40 EK~El~~LNDRL   51 (546)
T KOG0977|consen   40 EKKELQELNDRL   51 (546)
T ss_pred             HHHHHHHHHHHH
Confidence            355666666554

>TIGR03017 EpsF chain length determinant protein EpsF

Probab=93.13  E-value=4.1  Score=42.72  Aligned_cols=21  Identities=10%  Similarity=0.363  Sum_probs=10.3

Q ss_pred             HhHHHHHHHHHHHHhhHHHHh
Q 013531           45 IELDQLKSKIRSLESHIDEKT   65 (441)
Q Consensus        45 ~el~~l~~~i~~Les~i~~~~   65 (441)
                      .++.+|+.++...+++..+..
T Consensus       215 ~~l~~l~~~l~~~~~~~~~~~  235 (444)
T TIGR03017       215 ARLNELSAQLVAAQAQVMDAS  235 (444)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            445555555555554444433

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.

>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=93.09  E-value=12  Score=42.63  Aligned_cols=128  Identities=21%  Similarity=0.271  Sum_probs=77.3

Q ss_pred             HHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHH----HHHHHHHH
Q 013531           50 LKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHAR----ADELEKQI  125 (441)
Q Consensus        50 l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~----~~eLe~eV  125 (441)
                      +..+|..|+..+....+++.....+...+-..+.+..+....++.+...|..+.     +...--+.|    ..+|+++.
T Consensus        32 ~~~~i~~l~~elk~~~~~~~~~~~e~~rl~~~~~~~~~~~~~~e~~~~~lr~e~-----ke~K~rE~rll~dyselEeEN  106 (717)
T PF09730_consen   32 LQQRILELENELKQLRQELSNVQAENERLSQLNQELRKECEDLELERKRLREEI-----KEYKFREARLLQDYSELEEEN  106 (717)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHhhhhHHHHHHH
Confidence            444444444444444444444444444455555555555555555555553221     112223333    67888888


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          126 DNLKKESEKQQKEKEALEARAIE---AEKKISDLSAKLEKLQKINDEQKSKIRKTERALK  182 (441)
Q Consensus       126 e~Lkkeie~~ek~~eeLEark~e---LEkkleELekklEeLek~~aEQk~qIeelEk~lk  182 (441)
                      -+|++++.-+..---+.|+-+-+   ++....-++..++++...+.--+.+++++-..++
T Consensus       107 islQKqvs~Lk~sQvefE~~Khei~rl~Ee~~~l~~qlee~~rLk~iae~qleEALesl~  166 (717)
T PF09730_consen  107 ISLQKQVSVLKQSQVEFEGLKHEIKRLEEEIELLNSQLEEAARLKEIAEKQLEEALESLK  166 (717)
T ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            88888888777766666665555   5555666778888888777777777777777777

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

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

Probab=93.03  E-value=11  Score=46.80  Aligned_cols=64  Identities=20%  Similarity=0.282  Sum_probs=43.0

Q ss_pred             hhHhHHHHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHH----HHHHHHHHHHHHHHHHHhhhhchhh
Q 013531           43 LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKA----IQDKSERIVSLQKELSSLQKKETLN  106 (441)
Q Consensus        43 ~~~el~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~----i~ek~~~I~~l~~ei~sLq~~~~~~  106 (441)
                      +...+.-|-.+-..|++.+.-++.++.++.+.+......    +.+++..+..+..+...+|..+.++
T Consensus       176 ~q~k~~rl~QEksll~s~~~wL~~eL~~~~ekll~~~re~s~~~~~L~~~L~~~~~~~~~~q~~~~~l  243 (1822)
T KOG4674|consen  176 SQLKEERLEQEKSLLESENKWLSRELSKVNEKLLSLRREHSIEVEQLEEKLSDLKESLAELQEKNKSL  243 (1822)
T ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455556666677777777777777777777777666555    6666666666666666666554443

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

Probab=92.99  E-value=8.5  Score=44.24  Aligned_cols=99  Identities=21%  Similarity=0.233  Sum_probs=60.7

Q ss_pred             HHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531           84 DKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKL  163 (441)
Q Consensus        84 ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeL  163 (441)
                      |-+++|.+--..++.=..+.-..-+.++..+..++.++..+...|-+.+..-.+-+.+|...+...+..+..|..+++.+
T Consensus        67 e~eq~i~~~~~~~s~e~e~~~~~le~~l~e~~~~l~~~~~e~~~l~~~l~~~~~~i~~l~~~~~~~e~~~~~l~~~l~~~  146 (769)
T PF05911_consen   67 EQEQKIHEAVAKKSKEWEKIKSELEAKLAELSKRLAESAAENSALSKALQEKEKLIAELSEEKSQAEAEIEDLMARLEST  146 (769)
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            44444444433333322222233344444445555555555556666666666667777777777777777788888888


Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q 013531          164 QKINDEQKSKIRKTERALK  182 (441)
Q Consensus       164 ek~~aEQk~qIeelEk~lk  182 (441)
                      ++.+..++-.+.-+.+.++
T Consensus       147 eken~~Lkye~~~~~kele  165 (769)
T PF05911_consen  147 EKENSSLKYELHVLSKELE  165 (769)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            8888888877777777776

The function of this family is unknown.

>TIGR02680 conserved hypothetical protein TIGR02680

Probab=92.95  E-value=5.5  Score=48.46  Aligned_cols=31  Identities=16%  Similarity=0.216  Sum_probs=18.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhcCCCchhc
Q 013531          357 KFLKSATTYHHQVQASVQEMLKKHELTSPLA  387 (441)
Q Consensus       357 ~~~~~a~~~H~q~Q~~v~~~l~~~e~~~~~a  387 (441)
                      +++..+-..=.-.|+.|...|..-.++-.|.
T Consensus       606 ~l~df~e~v~~~~ra~IEaAL~~~GLLDA~v  636 (1353)
T TIGR02680       606 QLVDFADDVPADVRAGLEAALEAAGLLDAWV  636 (1353)
T ss_pred             hheecCCCCCHHHHHHHHHHHHHCCCcceee
Confidence            3333333344456677777888777777663

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.

>PF13870 DUF4201: Domain of unknown function (DUF4201)

Probab=92.87  E-value=8.1  Score=35.98  Aligned_cols=114  Identities=21%  Similarity=0.260  Sum_probs=64.0

Q ss_pred             hhHhHHHHHHHHHHHHhhHHHHhhhhcchhHH--------HHHHHHHHHHHHHHHHHHHHHHHHhhhhchhh------HH
Q 013531           43 LKIELDQLKSKIRSLESHIDEKTQELKGKDEV--------VAQKEKAIQDKSERIVSLQKELSSLQKKETLN------AA  108 (441)
Q Consensus        43 ~~~el~~l~~~i~~Les~i~~~~~~i~~k~~~--------l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~------~~  108 (441)
                      .+.+++.+|.+...|...+..++..|..+++-        ..++.-.......+|.+...++..|.......      -.
T Consensus         4 k~~~i~~~Rl~~~~lk~~l~k~~~ql~~ke~lge~L~~iDFeqLkien~~l~~kIeERn~eL~~Lk~~~~~~v~~L~h~k   83 (177)
T PF13870_consen    4 KRNEISKLRLKNITLKHQLAKLEEQLRQKEELGEGLHLIDFEQLKIENQQLNEKIEERNKELLKLKKKIGKTVQILTHVK   83 (177)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            35678888999999999988888888887762        23344445566677777777777775433222      22


Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          109 EQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDL  156 (441)
Q Consensus       109 ~~~~~a~~~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleEL  156 (441)
                      +...........+..++......+.++..++..+..+...+.....++
T Consensus        84 eKl~~~~~~~~~l~~~l~~~~~~~~~~r~~l~~~k~~r~k~~~~~~~l  131 (177)
T PF13870_consen   84 EKLHFLSEELERLKQELKDREEELAKLREELYRVKKERDKLRKQNKKL  131 (177)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333444444444444444444444444444444444433333

>PF04582 Reo_sigmaC: Reovirus sigma C capsid protein; InterPro: IPR007662 Protein sigmaC in its native state was shown to be a homotrimer

Probab=92.84  E-value=0.22  Score=51.30  Aligned_cols=48  Identities=21%  Similarity=0.281  Sum_probs=0.0

Q ss_pred             HHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013531           52 SKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSL   99 (441)
Q Consensus        52 ~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sL   99 (441)
                      .+|..|++.|..++..|.+-.-+|.+....|......|.++++.|++|
T Consensus        56 s~iSdLss~L~~l~~sl~~~~s~L~sLsstV~~lq~Sl~~lsssVs~l  103 (326)
T PF04582_consen   56 STISDLSSDLQDLASSLADMTSELNSLSSTVTSLQSSLSSLSSSVSSL  103 (326)
T ss_dssp             ------------------------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHhh
Confidence            333333333333333333333333333333333333333333333333

It was demonstrated that the sigmaC subunits are not covalently bound via disulphide linkages and the formation of an intrachain disulphide bond between the two cysteine residues of the sigmaC polypeptide may have a negative effect on oligomer stability. The susceptibility of the trimer to pH, temperature, ionic strength, chemical denaturants and detergents indicates that hydrophobic interactions contribute much more to oligomer stability than do ionic interactions and hydrogen bonding [].; PDB: 2VRS_C 2JJL_A 2BSF_A 2BT7_A 2BT8_A.

>TIGR01005 eps_transp_fam exopolysaccharide transport protein family

Probab=92.82  E-value=3.2  Score=46.89  Aligned_cols=48  Identities=15%  Similarity=0.242  Sum_probs=38.7

Q ss_pred             hHhHHHHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHH
Q 013531           44 KIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVS   91 (441)
Q Consensus        44 ~~el~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~   91 (441)
                      ...+..|+.++.+|++++.++......+.-.+......|.+....|..
T Consensus       287 ~~~i~~L~~~l~~l~~~~~~l~~~y~~~hP~v~~l~~qi~~l~~~i~~  334 (754)
T TIGR01005       287 EDLIQRLRERQAELRATIADLSTTMLANHPRVVAAKSSLADLDAQIRS  334 (754)
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHHHHHHH
Confidence            467788899999999999999888888888888888777777776544

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.

>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=92.82  E-value=9.6  Score=42.07  Aligned_cols=99  Identities=22%  Similarity=0.329  Sum_probs=47.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531           79 EKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSA  158 (441)
Q Consensus        79 e~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELek  158 (441)
                      .+.|.........+..+++.++........+     .++...+++++..|.+..+.+...+.+-..--+.+...+.++..
T Consensus       312 ~~~l~~~~~~~~~l~~e~~~v~~sY~L~~~e-----~~~~~~l~~~l~~l~~~~~~~~~~i~~~~~~yS~i~~~l~~~~~  386 (560)
T PF06160_consen  312 YEYLEHAKEQNKELKEELERVSQSYTLNHNE-----LEIVRELEKQLKELEKRYEDLEERIEEQQVPYSEIQEELEEIEE  386 (560)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhcCCCchH-----HHHHHHHHHHHHHHHHHHHHHHHHHHcCCcCHHHHHHHHHHHHH
Confidence            3445555556666666666666544333222     12334444444444444444444444433333444444555555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          159 KLEKLQKINDEQKSKIRKTERALK  182 (441)
Q Consensus       159 klEeLek~~aEQk~qIeelEk~lk  182 (441)
                      .++.+++...+....++.+.+.-.
T Consensus       387 ~l~~ie~~q~~~~~~l~~L~~dE~  410 (560)
T PF06160_consen  387 QLEEIEEEQEEINESLQSLRKDEK  410 (560)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            555555555555555555444433

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

>KOG4673 consensus Transcription factor TMF, TATA element modulatory factor [Transcription]

Probab=92.79  E-value=19  Score=40.97  Aligned_cols=171  Identities=19%  Similarity=0.245  Sum_probs=84.8

Q ss_pred             HHHHhhHHHHhhhhcchhHHHHHH-------HHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHH-HHHHHHHHHHHHHH
Q 013531           55 RSLESHIDEKTQELKGKDEVVAQK-------EKAIQDKSERIVSLQKELSSLQKKETLNAAEQVD-KAHARADELEKQID  126 (441)
Q Consensus        55 ~~Les~i~~~~~~i~~k~~~l~~k-------e~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~-~a~~~~~eLe~eVe  126 (441)
                      .+|-+.=+.|.+++-...-.|+.+       |.....+-++|..|++|..-|. . ..+.++-.. --.+.+..+++++.
T Consensus       456 ~~lm~EGEkLSK~ql~qs~iIkKLRAk~ke~etl~~K~ge~i~~L~sE~~~lk-~-il~~Kee~Ek~~~E~I~k~~ae~~  533 (961)
T KOG4673|consen  456 NQLMAEGEKLSKKQLAQSAIIKKLRAKIKEAETLEEKKGELITKLQSEENKLK-S-ILRDKEETEKLLQETIEKHQAELT  533 (961)
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHhhhhhHHHHHhhhHHHHHHHHHHHHH-H-HhhhHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444444444444433       4445555668888888887772 2 233333333 23345666666666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------------HHHHHHHHHHHHHHHHHHHHHHHH---------
Q 013531          127 NLKKESEKQQKEKEALEARAIEAEKKISDLSA---------------KLEKLQKINDEQKSKIRKTERALK---------  182 (441)
Q Consensus       127 ~Lkkeie~~ek~~eeLEark~eLEkkleELek---------------klEeLek~~aEQk~qIeelEk~lk---------  182 (441)
                      .-++..-....++++++++...++.-.+++.+               +-+.|-..+.++...+...++...         
T Consensus       534 rq~~~~~~sr~~~~~le~~~~a~qat~d~a~~Dlqk~nrlkQdear~~~~~lvqqv~dLR~~L~~~Eq~aarrEd~~R~E  613 (961)
T KOG4673|consen  534 RQKDYYSNSRALAAALEAQALAEQATNDEARSDLQKENRLKQDEARERESMLVQQVEDLRQTLSKKEQQAARREDMFRGE  613 (961)
T ss_pred             HHHHhhhhHHHHHHHHHHHHHHHHHhhhhhhhhHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            66666666666666666665554443333222               222222333333333333333332         


Q ss_pred             -HHHHHHHHhhhhhhhhHHHhhhccCChhHHHHHHhhh---hhhhhhhhc
Q 013531          183 -EEMMRAKFEATSRSKELTEVHSAWLPPWLAVHLLQCQ---SLIETHWNA  228 (441)
Q Consensus       183 -eei~k~k~E~~~kAk~l~e~h~~wlppw~a~~~~~~q---~~~~~~w~~  228 (441)
                       +++|+.-..+.-++..+...-|+---|-| -....+|   +-.++-|+.
T Consensus       614 i~~LqrRlqaaE~R~eel~q~v~~TTrPLl-RQIE~lQ~tl~~~~tawer  662 (961)
T KOG4673|consen  614 IEDLQRRLQAAERRCEELIQQVPETTRPLL-RQIEALQETLSKAATAWER  662 (961)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhccccccHHH-HHHHHHHHHHhhhhhHHHH
Confidence             23444444444566777776676666643 2333333   334566753

>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=92.77  E-value=3.4  Score=40.61  Aligned_cols=43  Identities=21%  Similarity=0.313  Sum_probs=16.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          121 LEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKL  163 (441)
Q Consensus       121 Le~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeL  163 (441)
                      +.++-..|..+++.++.+++.++.....++..++.++.++++|
T Consensus        47 ~~~e~~~L~~e~~~l~~e~e~L~~~~~~l~~~v~~q~~el~~L   89 (251)
T PF11932_consen   47 WDDEKQELLAEYRQLEREIENLEVYNEQLERQVASQEQELASL   89 (251)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333334444444444444444433333333333333333333

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.

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

Probab=92.75  E-value=8.4  Score=45.08  Aligned_cols=56  Identities=14%  Similarity=0.333  Sum_probs=23.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          122 EKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKT  177 (441)
Q Consensus       122 e~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeel  177 (441)
                      .+++.+|...|.+.....+.+..+..+++..+.+...++..++....+.+.++.++
T Consensus       396 r~ei~~l~~~i~~~ke~e~~lq~e~~~~e~~l~~~~e~i~~l~~si~e~~~r~~~~  451 (1200)
T KOG0964|consen  396 RSEIEKLKRGINDTKEQENILQKEIEDLESELKEKLEEIKELESSINETKGRMEEF  451 (1200)
T ss_pred             HHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHhhhhhHHHHH
Confidence            33444444444444444444444444444444444444444444444444433333

>COG2433 Uncharacterized conserved protein [Function unknown]

Probab=92.74  E-value=1.3  Score=49.12  Aligned_cols=12  Identities=25%  Similarity=0.285  Sum_probs=6.4

Q ss_pred             HHHHhhhhhhHH
Q 013531          257 ETIKAKWIPAVK  268 (441)
Q Consensus       257 ~~~~~K~~pv~~  268 (441)
                      +++...=+|++.
T Consensus       584 e~f~~~~iPv~~  595 (652)
T COG2433         584 EEFFKNEIPVLP  595 (652)
T ss_pred             HHHhhcCCceee
Confidence            444555566654

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

Probab=92.74  E-value=4.5  Score=46.31  Aligned_cols=65  Identities=15%  Similarity=0.238  Sum_probs=33.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531           75 VAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKE  140 (441)
Q Consensus        75 l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~eVe~Lkkeie~~ek~~e  140 (441)
                      ++.++..|.++..+..+++.+.+.||.... ..+++...++-++.++++++.+|..++..-..+|.
T Consensus       101 lk~~~sQiriLQn~c~~lE~ekq~lQ~ti~-~~q~d~ke~etelE~~~srlh~le~eLsAk~~eIf  165 (1265)
T KOG0976|consen  101 LKHHESQIRILQNKCLRLEMEKQKLQDTIQ-GAQDDKKENEIEIENLNSRLHKLEDELSAKAHDIF  165 (1265)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHhhHHHHHHHHHHHhhhhHHHH
Confidence            333455555555555555555555553332 22344455555666666666666555544444443

>PRK11281 hypothetical protein; Provisional

Probab=92.59  E-value=3.6  Score=49.05  Aligned_cols=17  Identities=18%  Similarity=0.346  Sum_probs=9.7

Q ss_pred             hhHhHHHHHHHHHHHHh
Q 013531           43 LKIELDQLKSKIRSLES   59 (441)
Q Consensus        43 ~~~el~~l~~~i~~Les   59 (441)
                      ...++.+.+.++..|..
T Consensus        92 Ap~~l~~a~~~Le~Lk~  108 (1113)
T PRK11281         92 APAKLRQAQAELEALKD  108 (1113)
T ss_pred             hHHHHHHHHHHHHHhhc
Confidence            45556666666665544

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

Probab=92.56  E-value=7.6  Score=45.44  Aligned_cols=42  Identities=19%  Similarity=0.306  Sum_probs=16.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          118 ADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAK  159 (441)
Q Consensus       118 ~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekk  159 (441)
                      +.++.+.+.+-++++..+.-+.+++..+.+.+..++..++.+
T Consensus       330 l~~~~~ki~e~~~EL~~I~Pky~~l~~ee~~~~~rl~~l~~~  371 (1200)
T KOG0964|consen  330 LQKVKDKIEEKKDELSKIEPKYNSLVDEEKRLKKRLAKLEQK  371 (1200)
T ss_pred             HHHHHHHHHHHHHHHHHhhhHHHHHHhHHHHHHHHHHHHHHH
Confidence            333333344444444444444444433333333333333333

>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=92.53  E-value=11  Score=38.91  Aligned_cols=26  Identities=23%  Similarity=0.275  Sum_probs=20.5

Q ss_pred             CchhHhHHHHHHHHHHHHhhHHHHhh
Q 013531           41 SPLKIELDQLKSKIRSLESHIDEKTQ   66 (441)
Q Consensus        41 ~~~~~el~~l~~~i~~Les~i~~~~~   66 (441)
                      ..++.+++..+.+...|...|..+.+
T Consensus        37 ~~Lk~El~~ek~~~~~L~~e~~~lr~   62 (310)
T PF09755_consen   37 RVLKRELETEKARCKHLQEENRALRE   62 (310)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45688899999999998888877643

>COG4477 EzrA Negative regulator of septation ring formation [Cell division and chromosome partitioning]

Probab=92.50  E-value=10  Score=41.79  Aligned_cols=62  Identities=13%  Similarity=0.273  Sum_probs=33.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          119 DELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERA  180 (441)
Q Consensus       119 ~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelEk~  180 (441)
                      ...++++++|+..++.+-..++.-+..-+.+...++++...+.+.++........+.+++++
T Consensus       350 r~~e~eL~el~~~~~~i~~~~~~~~~~yS~lq~~l~~~~~~l~~i~~~q~~~~e~L~~Lrkd  411 (570)
T COG4477         350 RKFEKELKELESVLDEILENIEAQEVAYSELQDNLEEIEKALTDIEDEQEKVQEHLTSLRKD  411 (570)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            33444455555555555555555444455555555556666666665555555555555543

>PF06818 Fez1: Fez1; InterPro: IPR009638 This family represents the eukaryotic Fez1 protein

Probab=92.47  E-value=11  Score=36.62  Aligned_cols=78  Identities=21%  Similarity=0.327  Sum_probs=49.5

Q ss_pred             HHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHHHHHHHHH
Q 013531           50 LKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLK  129 (441)
Q Consensus        50 l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~eVe~Lk  129 (441)
                      =-.+|-+|+..+.+....+..++..+..+......++-.+...++++....++....        ..+++.|+.++..|+
T Consensus        29 K~~Eiv~Lr~ql~e~~~~l~~~~~~~~~l~~~~~~K~~ELE~ce~ELqr~~~Ea~lL--------rekl~~le~El~~Lr  100 (202)
T PF06818_consen   29 KDSEIVSLRAQLRELRAELRNKESQIQELQDSLRTKQLELEVCENELQRKKNEAELL--------REKLGQLEAELAELR  100 (202)
T ss_pred             HHhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhHhHHHhHHHHHHHhCHHHHh--------hhhhhhhHHHHHHHH
Confidence            344556666666666666666666666666666666666666666666665443222        234777777777777


Q ss_pred             HHHHHH
Q 013531          130 KESEKQ  135 (441)
Q Consensus       130 keie~~  135 (441)
                      ......
T Consensus       101 ~~l~~~  106 (202)
T PF06818_consen  101 EELACA  106 (202)
T ss_pred             HHHHhh
Confidence            766665

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

>COG4372 Uncharacterized protein conserved in bacteria with the myosin-like domain [Function unknown]

Probab=92.35  E-value=18  Score=38.62  Aligned_cols=103  Identities=10%  Similarity=0.138  Sum_probs=55.0

Q ss_pred             hhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531           66 QELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEAR  145 (441)
Q Consensus        66 ~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~eVe~Lkkeie~~ek~~eeLEar  145 (441)
                      ++++..+..|+..-..|++-.+..+.-.+-+.++..+-... +-....-...+.-+.++++.+--++..-.+++.+-|.+
T Consensus       182 ~Qlk~~~~~L~~r~~~ieQ~~~~la~r~~a~q~r~~ela~r-~aa~Qq~~q~i~qrd~~i~q~~q~iaar~e~I~~re~~  260 (499)
T COG4372         182 TQLKSQVLDLKLRSAQIEQEAQNLATRANAAQARTEELARR-AAAAQQTAQAIQQRDAQISQKAQQIAARAEQIRERERQ  260 (499)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence            55666666665555555555555555544444443221110 01111122234555566666666666666666666666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          146 AIEAEKKISDLSAKLEKLQKINDE  169 (441)
Q Consensus       146 k~eLEkkleELekklEeLek~~aE  169 (441)
                      ...+|....-++..++.|+.--..
T Consensus       261 lq~lEt~q~~leqeva~le~yyQ~  284 (499)
T COG4372         261 LQRLETAQARLEQEVAQLEAYYQA  284 (499)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            666776666666666666644433

>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD

Probab=92.23  E-value=6.4  Score=43.95  Aligned_cols=45  Identities=18%  Similarity=0.266  Sum_probs=21.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          114 AHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSA  158 (441)
Q Consensus       114 a~~~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELek  158 (441)
                      +..+..+|+.++..+..+.+.+..++..++....+++.++.+++.
T Consensus       207 ~~~~~~~le~el~~l~~~~e~l~~~i~~l~~ele~a~~~l~~l~~  251 (650)
T TIGR03185       207 ILSEIEALEAELKEQSEKYEDLAQEIAHLRNELEEAQRSLESLEK  251 (650)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334455555555555555555554444444444444444444443

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.

>PF12072 DUF3552: Domain of unknown function (DUF3552); InterPro: IPR022711 This presumed domain is functionally uncharacterised

Probab=92.22  E-value=11  Score=36.04  Aligned_cols=62  Identities=24%  Similarity=0.317  Sum_probs=29.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHH----HHHHHHHHhhhhhhhhH
Q 013531          138 EKEALEARAIEAEKKISDLSAKLEKLQ--KINDEQKSKIRKTERALK----EEMMRAKFEATSRSKEL  199 (441)
Q Consensus       138 ~~eeLEark~eLEkkleELekklEeLe--k~~aEQk~qIeelEk~lk----eei~k~k~E~~~kAk~l  199 (441)
                      ....++.+..+++....+....++.+-  ......+.-+++++....    ..+.+...+++..|.+-
T Consensus       118 ~~~~l~~~~~e~~~~~~~~~~~Le~iAglT~eEAk~~Ll~~le~e~~~e~a~~ir~~eeeak~~A~~~  185 (201)
T PF12072_consen  118 RKEELEEREEELEELIEEQQQELEEIAGLTAEEAKEILLEKLEEEARREAAALIRRIEEEAKEEADKK  185 (201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444445555555544  233344555566666555    34444444444444333

This domain is found in bacteria, archaea and eukaryotes. This domain is about 200 amino acids in length. This domain is found associated with PF00013 from PFAM, PF01966 from PFAM. This domain has a single completely conserved residue A that may be functionally important. ; GO: 0008663 2',3'-cyclic-nucleotide 2'-phosphodiesterase activity

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

Probab=92.22  E-value=13  Score=42.91  Aligned_cols=138  Identities=22%  Similarity=0.261  Sum_probs=65.9

Q ss_pred             HHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc----------------hhhHHhhHHH
Q 013531           50 LKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKE----------------TLNAAEQVDK  113 (441)
Q Consensus        50 l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~----------------~~~~~~~~~~  113 (441)
                      ++..|..|.-.|+.+-+..++-..+.++++..+++.-..+..|..+.+-|.+.-                +..+++..+.
T Consensus       662 yK~lI~~lD~~~e~lkQ~~~~l~~e~eeL~~~vq~~~s~hsql~~q~~~Lk~qLg~~~~~~~~~~q~~e~~~t~~eel~a  741 (970)
T KOG0946|consen  662 YKGLIRELDYQIENLKQMEKELQVENEELEEEVQDFISEHSQLKDQLDLLKNQLGIISSKQRDLLQGAEASKTQNEELNA  741 (970)
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccchhhHHhHHHhccCChHHHHH
Confidence            445555555555555555555444445555555555444445544444443211                1112333334


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          114 AHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEK-------------KISDLSAKLEKLQKINDEQKSKIRKTERA  180 (441)
Q Consensus       114 a~~~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEk-------------kleELekklEeLek~~aEQk~qIeelEk~  180 (441)
                      |.....+++..-..|.+++.+-+..++...+...+.+.             ++.++..++.+......++...+.+++.+
T Consensus       742 ~~~e~k~l~~~q~~l~~~L~k~~~~~es~k~~~~~a~~~~~~~~~~~~~qeqv~El~~~l~e~~~~l~~~q~e~~~~keq  821 (970)
T KOG0946|consen  742 ALSENKKLENDQELLTKELNKKNADIESFKATQRSAELSQGSLNDNLGDQEQVIELLKNLSEESTRLQELQSELTQLKEQ  821 (970)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhhcccchhhhhhhhHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHH
Confidence            44445555544555555555555555555444443221             23333334444445555666666666666


Q ss_pred             HHHHHHH
Q 013531          181 LKEEMMR  187 (441)
Q Consensus       181 lkeei~k  187 (441)
                      +++.+.+
T Consensus       822 ~~t~~~~  828 (970)
T KOG0946|consen  822 IQTLLER  828 (970)
T ss_pred             HHHHHHH
Confidence            6644443

>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=92.19  E-value=0.78  Score=42.44  Aligned_cols=60  Identities=27%  Similarity=0.441  Sum_probs=39.6

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531           72 DEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEA  144 (441)
Q Consensus        72 ~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~eVe~Lkkeie~~ek~~eeLEa  144 (441)
                      |.+|.++...+.+....+..|+.++.+|.+..+.             .+|..++..|+.++..++.++..+.+
T Consensus        78 d~ei~~L~~el~~l~~~~k~l~~eL~~L~~~~t~-------------~el~~~i~~l~~e~~~l~~kL~~l~~  137 (169)
T PF07106_consen   78 DAEIKELREELAELKKEVKSLEAELASLSSEPTN-------------EELREEIEELEEEIEELEEKLEKLRS  137 (169)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCH-------------HHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3444446666666667777777888887655433             35556777777777777777777665

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 [].

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

Probab=92.16  E-value=7.6  Score=42.89  Aligned_cols=15  Identities=13%  Similarity=0.240  Sum_probs=9.8

Q ss_pred             HHHHHHHHHhhHHHH
Q 013531           50 LKSKIRSLESHIDEK   64 (441)
Q Consensus        50 l~~~i~~Les~i~~~   64 (441)
                      =+.+|.+|++.+..-
T Consensus        40 EK~El~~LNDRLA~Y   54 (546)
T KOG0977|consen   40 EKKELQELNDRLAVY   54 (546)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            466777777766643

>PF15254 CCDC14: Coiled-coil domain-containing protein 14

Probab=92.04  E-value=1.7  Score=49.26  Aligned_cols=88  Identities=26%  Similarity=0.327  Sum_probs=44.5

Q ss_pred             HHHHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHHHHHH
Q 013531           47 LDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQID  126 (441)
Q Consensus        47 l~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~eVe  126 (441)
                      +.-||++.+||+.++..++++|+++..  .++...-.+-+=.+.+||+==-+||        .|+........-|....+
T Consensus       389 ~QplrsENaqLrRrLrilnqqlreqe~--~~k~~~~~~~n~El~sLqSlN~~Lq--------~ql~es~k~~e~lq~kne  458 (861)
T PF15254_consen  389 MQPLRSENAQLRRRLRILNQQLREQEK--AEKTSGSQDCNLELFSLQSLNMSLQ--------NQLQESLKSQELLQSKNE  458 (861)
T ss_pred             hhhhhhhhHHHHHHHHHHHHHHHHHHh--hcccCCCcccchhhHHHHHHHHHHH--------HHHHHHHHhHHHHHHhHH
Confidence            445888888888888888888877221  1122111222233344444333443        333333333444444455


Q ss_pred             HHHHHHHHHHHHHHHHHH
Q 013531          127 NLKKESEKQQKEKEALEA  144 (441)
Q Consensus       127 ~Lkkeie~~ek~~eeLEa  144 (441)
                      +|-+.++.+..+...+-.
T Consensus       459 ellk~~e~q~~Enk~~~~  476 (861)
T PF15254_consen  459 ELLKVIENQKEENKRLRK  476 (861)
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            555555555544444433

>KOG0979 consensus Structural maintenance of chromosome protein SMC5/Spr18, SMC superfamily [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=91.92  E-value=19  Score=42.30  Aligned_cols=56  Identities=18%  Similarity=0.204  Sum_probs=35.0

Q ss_pred             HhHHHHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHH------HHHHHHHhh
Q 013531           45 IELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVS------LQKELSSLQ  100 (441)
Q Consensus        45 ~el~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~------l~~ei~sLq  100 (441)
                      .||.+--.++-.|+..-..+++.++.++..|..++..|....+.+..      +.+.|..|.
T Consensus       174 ~~ll~~h~eL~~lr~~e~~Le~~~~~~~~~l~~L~~~~~~l~kdVE~~rer~~~~~~Ie~l~  235 (1072)
T KOG0979|consen  174 EELLQYHIELMDLREDEKSLEDKLTTKTEKLNRLEDEIDKLEKDVERVRERERKKSKIELLE  235 (1072)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444445555566666666666667777777777777776665543      456677663

>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=91.87  E-value=5.2  Score=34.26  Aligned_cols=26  Identities=15%  Similarity=0.284  Sum_probs=15.3

Q ss_pred             HhHHHHHHHHHHHHhhHHHHhhhhcc
Q 013531           45 IELDQLKSKIRSLESHIDEKTQELKG   70 (441)
Q Consensus        45 ~el~~l~~~i~~Les~i~~~~~~i~~   70 (441)
                      .++..|+.++..|-+++..++.++.+
T Consensus         6 ~~~q~l~~~~~~l~~~~~~l~~~~~E   31 (105)
T cd00632           6 AQLQQLQQQLQAYIVQRQKVEAQLNE   31 (105)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44555666666666666665555544

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

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

Probab=91.85  E-value=15  Score=43.34  Aligned_cols=68  Identities=22%  Similarity=0.347  Sum_probs=48.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          115 HARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALK  182 (441)
Q Consensus       115 ~~~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelEk~lk  182 (441)
                      .++..++++.+..++..++....+...|....++++....++...+..++......+....++...+.
T Consensus       401 ~~~~~elE~r~k~l~~sver~~~~~~~L~~~i~s~~~~~~e~~~d~~~l~~~~~~~~~~~~e~n~eL~  468 (1141)
T KOG0018|consen  401 LERRAELEARIKQLKESVERLDKRRNKLAAKITSLSRSYEELKHDLDSLESLVSSAEEEPYELNEELV  468 (1141)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcHHHHHHHHhhhhhhHHHHHHHHH
Confidence            45567777777777777777777777777777777777777776666666666666666666666665

>PF06120 Phage_HK97_TLTM: Tail length tape measure protein; InterPro: IPR009302 This entry consists of the tail length tape measure protein from Bacteriophage HK97 and related sequences from Escherichia coli (strain K12)

Probab=91.80  E-value=16  Score=37.67  Aligned_cols=48  Identities=27%  Similarity=0.499  Sum_probs=24.5

Q ss_pred             hhHhHHHHHHHH-----HHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531           43 LKIELDQLKSKI-----RSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELS   97 (441)
Q Consensus        43 ~~~el~~l~~~i-----~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~   97 (441)
                      ++..||.++.++     .+|.+.|..++..|.+       ..+.|.+..++|.+++.+|.
T Consensus        53 fA~~ld~~~~kl~~Ms~~ql~~~~~k~~~si~~-------q~~~i~~l~~~i~~l~~~i~  105 (301)
T PF06120_consen   53 FADSLDELKEKLKEMSSTQLRANIAKAEESIAA-------QKRAIEDLQKKIDSLKDQIK  105 (301)
T ss_pred             HHHhhHHHHHHHHhcCHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHH
Confidence            456666776666     3455555555444444       33333334444444444443

>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=91.73  E-value=6.9  Score=35.42  Aligned_cols=15  Identities=27%  Similarity=0.578  Sum_probs=7.8

Q ss_pred             HHHHHHHHHHHHHhh
Q 013531           86 SERIVSLQKELSSLQ  100 (441)
Q Consensus        86 ~~~I~~l~~ei~sLq  100 (441)
                      +..+..+.+++..|+
T Consensus        58 ~~~~~~l~~d~~~l~   72 (151)
T PF11559_consen   58 SDKLRRLRSDIERLQ   72 (151)
T ss_pred             HHHHHHHHhHHHHHH
Confidence            344555555555554

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.

>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]

Probab=91.73  E-value=28  Score=39.65  Aligned_cols=127  Identities=24%  Similarity=0.287  Sum_probs=55.4

Q ss_pred             HHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531           55 RSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEK  134 (441)
Q Consensus        55 ~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~eVe~Lkkeie~  134 (441)
                      ...+++|.-+.+++.++|+.=-.+=..--...+.+..|..+..-|... -.....+....+.+++.|+++...|......
T Consensus       464 ed~Qeqn~kL~~el~ekdd~nfklm~e~~~~~q~~k~L~~ek~~l~~~-i~~l~~~~~~~~~~i~~leeq~~~lt~~~~~  542 (698)
T KOG0978|consen  464 EDMQEQNQKLLQELREKDDKNFKLMSERIKANQKHKLLREEKSKLEEQ-ILTLKASVDKLELKIGKLEEQERGLTSNESK  542 (698)
T ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHhhHhhhh
Confidence            334555555555665555543222111111223333444444444211 1222233344555556666555555444444


Q ss_pred             HHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          135 QQKEKEALE-------ARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALK  182 (441)
Q Consensus       135 ~ek~~eeLE-------ark~eLEkkleELekklEeLek~~aEQk~qIeelEk~lk  182 (441)
                      +..+...+.       ....++......|...++..++.....+..++++...+.
T Consensus       543 l~~el~~~~~~le~~kk~~~e~~~~~~~Lq~~~ek~~~~le~i~~~~~e~~~ele  597 (698)
T KOG0978|consen  543 LIKELTTLTQSLEMLKKKAQEAKQSLEDLQIELEKSEAKLEQIQEQYAELELELE  597 (698)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444443333       333334444444444444444444444444444444444

>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]

Probab=91.71  E-value=8.9  Score=41.33  Aligned_cols=72  Identities=17%  Similarity=0.231  Sum_probs=38.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          112 DKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKEEMM  186 (441)
Q Consensus       112 ~~a~~~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelEk~lkeei~  186 (441)
                      ..++.+...++..+.++.+++..+.+....|.........+   ++...+.......+.+.+|.+++.++..-|.
T Consensus       378 k~~e~k~~q~q~k~~k~~kel~~~~E~n~~l~knq~vw~~k---l~~~~e~~~~~~~s~d~~I~dLqEQlrDlmf  449 (493)
T KOG0804|consen  378 KIVERKLQQLQTKLKKCQKELKEEREENKKLIKNQDVWRGK---LKELEEREKEALGSKDEKITDLQEQLRDLMF  449 (493)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHhHhe
Confidence            34455666666666666666666654444444333333333   3333344445555666666777766664333

>TIGR02680 conserved hypothetical protein TIGR02680

Probab=91.68  E-value=7.4  Score=47.38  Aligned_cols=21  Identities=19%  Similarity=0.262  Sum_probs=10.3

Q ss_pred             hHhHHHHHHHHHHHHhhHHHH
Q 013531           44 KIELDQLKSKIRSLESHIDEK   64 (441)
Q Consensus        44 ~~el~~l~~~i~~Les~i~~~   64 (441)
                      -..+++++.+|..|+..+..+
T Consensus       229 ~~~~~~~~~~le~l~~~~~~l  249 (1353)
T TIGR02680       229 LEQLDEYRDELERLEALERAL  249 (1353)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            344455555555554444444

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.

>PF06005 DUF904: Protein of unknown function (DUF904); InterPro: IPR009252 Cell division protein ZapB is a non-essential, abundant cell division factor that is required for proper Z-ring formation

Probab=91.64  E-value=4.4  Score=33.06  Aligned_cols=18  Identities=22%  Similarity=0.309  Sum_probs=9.3

Q ss_pred             HHHHHHHHHHHHHHHHhh
Q 013531           83 QDKSERIVSLQKELSSLQ  100 (441)
Q Consensus        83 ~ek~~~I~~l~~ei~sLq  100 (441)
                      .+++.+|..+-+.|+.||
T Consensus         7 ~~LE~ki~~aveti~~Lq   24 (72)
T PF06005_consen    7 EQLEEKIQQAVETIALLQ   24 (72)
T ss_dssp             HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            344455555555555555

It is recruited early to the divisome by direct interaction with FtsZ, stimulating Z-ring assembly and thereby promoting cell division earlier in the cell cycle. Its recruitment to the Z-ring requires functional FtsA or ZipA.; GO: 0000917 barrier septum formation, 0043093 cytokinesis by binary fission, 0005737 cytoplasm; PDB: 2JEE_A.

>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=91.59  E-value=18  Score=37.27  Aligned_cols=14  Identities=36%  Similarity=0.596  Sum_probs=6.1

Q ss_pred             HHHHHHHHHHHhhH
Q 013531           48 DQLKSKIRSLESHI   61 (441)
Q Consensus        48 ~~l~~~i~~Les~i   61 (441)
                      ++|+.+|..|+.+-
T Consensus        23 ~~l~~~~~sL~qen   36 (310)
T PF09755_consen   23 EQLRKRIESLQQEN   36 (310)
T ss_pred             HHHHHHHHHHHHHh
Confidence            34444444444433

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

Probab=91.42  E-value=21  Score=38.92  Aligned_cols=40  Identities=15%  Similarity=0.355  Sum_probs=29.9

Q ss_pred             hHhHHHhhcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          337 VDNVRVALKPYTKKVVRAYGKFLKSATTYHHQVQASVQEM  376 (441)
Q Consensus       337 vdkv~~~~~Py~e~v~~~~k~~~~~a~~~H~q~Q~~v~~~  376 (441)
                      +|++...+--|-.++....--++..+..||--+|+++.|.
T Consensus       567 ld~~~~~~n~~r~~i~k~V~~v~~~~~~fk~~IQssledl  606 (622)
T COG5185         567 LDELKVDLNRKRYKIHKQVIHVIDITSKFKINIQSSLEDL  606 (622)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHhhHHHH
Confidence            4556666666666677777778888899999999888774

>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=91.41  E-value=6.6  Score=39.84  Aligned_cols=48  Identities=25%  Similarity=0.388  Sum_probs=24.9

Q ss_pred             HHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013531           52 SKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSL   99 (441)
Q Consensus        52 ~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sL   99 (441)
                      .+|..||++++-+.++-..|---|..+|..++.--.+..+--.+++.|
T Consensus        18 qKIqelE~QldkLkKE~qQrQfQleSlEAaLqKQKqK~e~ek~e~s~L   65 (307)
T PF10481_consen   18 QKIQELEQQLDKLKKERQQRQFQLESLEAALQKQKQKVEEEKNEYSAL   65 (307)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhhhhhhh
Confidence            467777777776655555544444444444444444444444444444

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 [].

>PRK03947 prefoldin subunit alpha; Reviewed

Probab=91.35  E-value=4.5  Score=36.14  Aligned_cols=27  Identities=26%  Similarity=0.548  Sum_probs=18.0

Q ss_pred             hHhHHHHHHHHHHHHhhHHHHhhhhcc
Q 013531           44 KIELDQLKSKIRSLESHIDEKTQELKG   70 (441)
Q Consensus        44 ~~el~~l~~~i~~Les~i~~~~~~i~~   70 (441)
                      ..++.+|...+.+|+..|+.+.+++..
T Consensus         5 ~~~l~~l~~~~~~l~~~~~~l~~~~~~   31 (140)
T PRK03947          5 EQELEELAAQLQALQAQIEALQQQLEE   31 (140)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            356677777777777777766665555

>COG1842 PspA Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]

Probab=91.08  E-value=17  Score=35.84  Aligned_cols=49  Identities=29%  Similarity=0.370  Sum_probs=21.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          113 KAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLE  161 (441)
Q Consensus       113 ~a~~~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklE  161 (441)
                      .|-.+.-.|++.+..++..+..+......+......++.++.+++.+.+
T Consensus        89 ~al~~~~~le~~~~~~~~~~~~~~~~~~~l~~~~~~Le~Ki~e~~~~~~  137 (225)
T COG1842          89 EALEEKQSLEDLAKALEAELQQAEEQVEKLKKQLAALEQKIAELRAKKE  137 (225)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444444444444444444444444444444444444444443333

>PRK04406 hypothetical protein; Provisional

Probab=91.05  E-value=1.9  Score=35.39  Aligned_cols=47  Identities=26%  Similarity=0.263  Sum_probs=38.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          137 KEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKE  183 (441)
Q Consensus       137 k~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelEk~lke  183 (441)
                      +.+..++.+..+||.++.-++..+++|++.+..|+..|+.+.+.++.
T Consensus         4 ~~~~~le~Ri~~LE~~lAfQE~tIe~LN~~v~~Qq~~I~~L~~ql~~   50 (75)
T PRK04406          4 KTIEQLEERINDLECQLAFQEQTIEELNDALSQQQLLITKMQDQMKY   50 (75)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34456777888888888888899999999999999999988887773

>TIGR03017 EpsF chain length determinant protein EpsF

Probab=91.01  E-value=11  Score=39.70  Aligned_cols=18  Identities=28%  Similarity=0.399  Sum_probs=7.9

Q ss_pred             HHHHHHHHHHHHHHHHHh
Q 013531           82 IQDKSERIVSLQKELSSL   99 (441)
Q Consensus        82 i~ek~~~I~~l~~ei~sL   99 (441)
                      |......+.+++.+++.|
T Consensus       256 i~~l~~~l~~le~~l~~l  273 (444)
T TIGR03017       256 IQNLKTDIARAESKLAEL  273 (444)
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            334444444444444444

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.

>PRK10929 putative mechanosensitive channel protein; Provisional

Probab=90.96  E-value=7.2  Score=46.53  Aligned_cols=59  Identities=15%  Similarity=0.137  Sum_probs=32.7

Q ss_pred             hhHhHHHHHHHHHHHHhhHHHHhhhhcch---------hHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013531           43 LKIELDQLKSKIRSLESHIDEKTQELKGK---------DEVVAQKEKAIQDKSERIVSLQKELSSLQK  101 (441)
Q Consensus        43 ~~~el~~l~~~i~~Les~i~~~~~~i~~k---------~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~  101 (441)
                      ...+.++++..|+....++.++.++|+..         ..-+.++|..+.+-+..+.+++.++++.++
T Consensus        63 ~~~~~~~~~~~i~~ap~~~~~~~~~l~~~~~~~~~~~~~~s~~~Leq~l~~~~~~L~~~q~~l~~~~~  130 (1109)
T PRK10929         63 SLERAKQYQQVIDNFPKLSAELRQQLNNERDEPRSVPPNMSTDALEQEILQVSSQLLEKSRQAQQEQD  130 (1109)
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHhhhcccccccccCCHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            34566667776666666666665555421         111455555555555556666666655543

>PF05335 DUF745: Protein of unknown function (DUF745); InterPro: IPR007999 This family consists of several uncharacterised Drosophila melanogaster proteins of unknown function

Probab=90.94  E-value=16  Score=35.19  Aligned_cols=95  Identities=15%  Similarity=0.252  Sum_probs=54.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531           78 KEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLS  157 (441)
Q Consensus        78 ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELe  157 (441)
                      -+..+++-...+..-+..+.+-.        .....+..++..|...+...+..+...+.-......+..+-...++...
T Consensus        79 Ae~vV~ee~~sL~~aq~na~aA~--------~aa~~A~~q~~~L~~~l~~a~~nl~~a~~~a~~AQ~el~eK~qLLeaAk  150 (188)
T PF05335_consen   79 AEAVVQEEKASLQQAQANAQAAQ--------RAAQQAQQQLETLKAALKAAQANLANAEQVAEGAQQELAEKTQLLEAAK  150 (188)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55555555555555555554443        2233455556666666666666666666666655555555555566666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q 013531          158 AKLEKLQKINDEQKSKIRKTERA  180 (441)
Q Consensus       158 kklEeLek~~aEQk~qIeelEk~  180 (441)
                      .+++.|......-+..++...+.
T Consensus       151 ~Rve~L~~QL~~Ar~D~~~tk~a  173 (188)
T PF05335_consen  151 RRVEELQRQLQAARADYEKTKKA  173 (188)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            66666666666666555555543

>COG4372 Uncharacterized protein conserved in bacteria with the myosin-like domain [Function unknown]

Probab=90.91  E-value=25  Score=37.52  Aligned_cols=15  Identities=27%  Similarity=0.381  Sum_probs=6.3

Q ss_pred             HHHHHHHHHHHHHHh
Q 013531           85 KSERIVSLQKELSSL   99 (441)
Q Consensus        85 k~~~I~~l~~ei~sL   99 (441)
                      .++.-..+++++..|
T Consensus       142 ~t~Q~q~lqtrl~~l  156 (499)
T COG4372         142 LTKQAQDLQTRLKTL  156 (499)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            334444444444444

>PF08581 Tup_N: Tup N-terminal; InterPro: IPR013890 The N-terminal region of the Tup protein has been shown to interact with the Ssn6 transcriptional co-repressor []

Probab=90.83  E-value=8.3  Score=32.07  Aligned_cols=74  Identities=22%  Similarity=0.315  Sum_probs=56.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 013531          121 LEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKEEMMRAKFEATS  194 (441)
Q Consensus       121 Le~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelEk~lkeei~k~k~E~~~  194 (441)
                      |++.++.++.+.+.+..+.........+.+.++...-.+++.+.+.+-+.+..-..+...-+++|.+++.+...
T Consensus         2 l~elLd~ir~Ef~~~~~e~~~~k~~~~e~e~ki~~Qi~Em~~ir~~v~eLE~~h~kmK~~YEeEI~rLr~eLe~   75 (79)
T PF08581_consen    2 LNELLDAIRQEFENLSQEANSYKHQKDEYEHKINSQIQEMQQIRQKVYELEQAHRKMKQQYEEEIARLRRELEQ   75 (79)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            56677888888888888888888888888888777777777777777777777777777667888887766543

; PDB: 3VP9_B 3VP8_B.

>PF13863 DUF4200: Domain of unknown function (DUF4200)

Probab=90.76  E-value=10  Score=32.91  Aligned_cols=109  Identities=19%  Similarity=0.298  Sum_probs=56.5

Q ss_pred             HHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHHHHHHHHHHH
Q 013531           52 SKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKE  131 (441)
Q Consensus        52 ~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~eVe~Lkke  131 (441)
                      .++...+..|.....++..+...+...+..+..++..+.+--..+...    ....+.....|..++.+-.........+
T Consensus         7 re~~~~~~~l~~kr~e~~~~~~~~~~~e~~L~~~e~~l~~~~~~f~~f----lken~~k~~rA~k~a~~e~k~~~~k~~e   82 (126)
T PF13863_consen    7 REMFLVQLALDTKREEIERREEQLKQREEELEKKEQELEEDVIKFDKF----LKENEAKRERAEKRAEEEKKKKEEKEAE   82 (126)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444444444444444445555555444433332222222    2333444556666666666666666666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          132 SEKQQKEKEALEARAIEAEKKISDLSAKLEKLQ  164 (441)
Q Consensus       132 ie~~ek~~eeLEark~eLEkkleELekklEeLe  164 (441)
                      |..+..++..+.+....++..+..+..--+=|+
T Consensus        83 i~~l~~~l~~l~~~~~k~e~~l~~~~~Y~~fL~  115 (126)
T PF13863_consen   83 IKKLKAELEELKSEISKLEEKLEEYKKYEEFLE  115 (126)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            666666666666666666666665554444333

>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=90.60  E-value=18  Score=35.30  Aligned_cols=6  Identities=33%  Similarity=0.573  Sum_probs=2.2

Q ss_pred             HHHHHh
Q 013531           94 KELSSL   99 (441)
Q Consensus        94 ~ei~sL   99 (441)
                      .+|..+
T Consensus        69 ~~i~~~   74 (207)
T PF05010_consen   69 AEIQKL   74 (207)
T ss_pred             HHHHHH
Confidence            333333

The human TACC proteins have been linked to cancer and TACC2 has been identified as a possible tumour suppressor (AZU-1) [].

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

Probab=90.59  E-value=40  Score=39.31  Aligned_cols=16  Identities=44%  Similarity=0.690  Sum_probs=6.4

Q ss_pred             HHHHHHHHHHHHHHHH
Q 013531          118 ADELEKQIDNLKKESE  133 (441)
Q Consensus       118 ~~eLe~eVe~Lkkeie  133 (441)
                      ...+...++.|+..++
T Consensus       363 ~~~l~~~~~~l~~~~~  378 (908)
T COG0419         363 LKELEERLEELEKELE  378 (908)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            3333334444444333

>PF05622 HOOK: HOOK protein; InterPro: IPR008636 This family consists of several HOOK1, 2 and 3 proteins from different eukaryotic organisms

Probab=90.59  E-value=0.076  Score=59.73  Aligned_cols=48  Identities=21%  Similarity=0.385  Sum_probs=0.0

Q ss_pred             hHHHHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013531           46 ELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQ  100 (441)
Q Consensus        46 el~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq  100 (441)
                      ++..|+.++.+|+.++..++..+..       .+..+.+.++.|.+|++++..|+
T Consensus       240 ~~~~l~~ql~~L~~el~~~e~~~~d-------~~~~~e~le~ei~~L~q~~~eL~  287 (713)
T PF05622_consen  240 ELADLRAQLRRLREELERLEEQRDD-------LKIELEELEKEIDELRQENEELQ  287 (713)
T ss_dssp             -------------------------------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444455555554444444333333       33333334444444444444444

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.

>PF13166 AAA_13: AAA domain

Probab=90.56  E-value=9  Score=42.73  Aligned_cols=15  Identities=7%  Similarity=0.177  Sum_probs=9.3

Q ss_pred             HHHHHHHHHHHHHhc
Q 013531          366 HHQVQASVQEMLKKH  380 (441)
Q Consensus       366 H~q~Q~~v~~~l~~~  380 (441)
                      ..-+...++..|+.+
T Consensus       633 ~~~~~N~~RriLE~y  647 (712)
T PF13166_consen  633 AYNIPNVMRRILEAY  647 (712)
T ss_pred             HHhhHHHhHHHHHHH
Confidence            445566666666666

>TIGR02338 gimC_beta prefoldin, beta subunit, archaeal

Probab=90.52  E-value=7  Score=33.83  Aligned_cols=23  Identities=4%  Similarity=0.216  Sum_probs=9.6

Q ss_pred             HHHHHHHHHHHhhHHHHhhhhcc
Q 013531           48 DQLKSKIRSLESHIDEKTQELKG   70 (441)
Q Consensus        48 ~~l~~~i~~Les~i~~~~~~i~~   70 (441)
                      ..+-.++.+++.++..+.+++..
T Consensus         6 q~~~~~~q~~q~~~~~l~~q~~~   28 (110)
T TIGR02338         6 QNQLAQLQQLQQQLQAVATQKQQ   28 (110)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            33334444444444444333333

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.

>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=90.45  E-value=3.7  Score=33.51  Aligned_cols=22  Identities=5%  Similarity=0.158  Sum_probs=16.1

Q ss_pred             HHHHHHHHHHHHHHhhhhchhh
Q 013531           85 KSERIVSLQKELSSLQKKETLN  106 (441)
Q Consensus        85 k~~~I~~l~~ei~sLq~~~~~~  106 (441)
                      ..+.|.++-..|+-|+.+|..+
T Consensus         3 l~~~l~EKDe~Ia~L~eEGekL   24 (74)
T PF12329_consen    3 LEKKLAEKDEQIAQLMEEGEKL   24 (74)
T ss_pred             HHHHHHhHHHHHHHHHHHHHHH
Confidence            4677888888888888776443

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.

>PRK10361 DNA recombination protein RmuC; Provisional

Probab=90.44  E-value=23  Score=38.61  Aligned_cols=21  Identities=24%  Similarity=0.226  Sum_probs=10.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHH
Q 013531          353 RAYGKFLKSATTYHHQVQASV  373 (441)
Q Consensus       353 ~~~k~~~~~a~~~H~q~Q~~v  373 (441)
                      ..++.-+..|..-|+++.+.+
T Consensus       390 ~klG~~L~~a~~~y~~A~~~L  410 (475)
T PRK10361        390 SAIGQSLDKAQDNYRQAMKKL  410 (475)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            344444555555555555444

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

Probab=90.32  E-value=24  Score=41.60  Aligned_cols=25  Identities=24%  Similarity=0.073  Sum_probs=13.5

Q ss_pred             CCCchhccch-HHHHHHHHHHHHHHH
Q 013531          381 ELTSPLATKE-LEWFAASALLVLPVI  405 (441)
Q Consensus       381 e~~~~~at~e-l~wflasall~~P~~  405 (441)
                      +.+++++..+ =++-++.-|.-+|.-
T Consensus       637 ee~kel~~ekl~ve~l~e~l~~lp~~  662 (1195)
T KOG4643|consen  637 EETKELMDEKLQVEDLQEKLRELPLE  662 (1195)
T ss_pred             HHHhhccccchhHHHHHHHHHhCchh
Confidence            4455554333 455566666666654

>PF13166 AAA_13: AAA domain

Probab=90.29  E-value=18  Score=40.33  Aligned_cols=14  Identities=7%  Similarity=0.197  Sum_probs=6.0

Q ss_pred             HHHHHHHHHHHHHH
Q 013531          352 VRAYGKFLKSATTY  365 (441)
Q Consensus       352 ~~~~k~~~~~a~~~  365 (441)
                      -+.++++++.=-.|
T Consensus       637 ~N~~RriLE~yf~~  650 (712)
T PF13166_consen  637 PNVMRRILEAYFKF  650 (712)
T ss_pred             HHHhHHHHHHHHhh
Confidence            34444444444333

>PF15254 CCDC14: Coiled-coil domain-containing protein 14

Probab=90.23  E-value=28  Score=40.00  Aligned_cols=63  Identities=21%  Similarity=0.249  Sum_probs=46.4

Q ss_pred             CchhHhHHHHHHHHHHHHhhHHHHhhhhcch-----hHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 013531           41 SPLKIELDQLKSKIRSLESHIDEKTQELKGK-----DEVVAQKEKAIQDKSERIVSLQKELSSLQKKE  103 (441)
Q Consensus        41 ~~~~~el~~l~~~i~~Les~i~~~~~~i~~k-----~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~  103 (441)
                      -.++.|..|||.++.-|+-++.|.++--+.-     +-||-.+...---+.+++.+....++.||.++
T Consensus       390 QplrsENaqLrRrLrilnqqlreqe~~~k~~~~~~~n~El~sLqSlN~~Lq~ql~es~k~~e~lq~kn  457 (861)
T PF15254_consen  390 QPLRSENAQLRRRLRILNQQLREQEKAEKTSGSQDCNLELFSLQSLNMSLQNQLQESLKSQELLQSKN  457 (861)
T ss_pred             hhhhhhhHHHHHHHHHHHHHHHHHHhhcccCCCcccchhhHHHHHHHHHHHHHHHHHHHhHHHHHHhH
Confidence            4579999999999999999999876654332     56676666666666677777777777777543

>PF04871 Uso1_p115_C: Uso1 / p115 like vesicle tethering protein, C terminal region; InterPro: IPR006955 This domain identifies a group of proteins, which are described as: General vesicular transport factor, Transcytosis associate protein (TAP) and Vesicle docking protein

Probab=90.17  E-value=12  Score=33.96  Aligned_cols=29  Identities=21%  Similarity=0.387  Sum_probs=14.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          149 AEKKISDLSAKLEKLQKINDEQKSKIRKT  177 (441)
Q Consensus       149 LEkkleELekklEeLek~~aEQk~qIeel  177 (441)
                      +++.+++|=--+.+++..+..++.++..+
T Consensus        82 ~q~EldDLL~ll~Dle~K~~kyk~rLk~L  110 (136)
T PF04871_consen   82 AQSELDDLLVLLGDLEEKRKKYKERLKEL  110 (136)
T ss_pred             hhhhHHHHHHHHHhHHHHHHHHHHHHHHc
Confidence            44444455555555555555555544443

This myosin-shaped molecule consists of an N-terminal globular head region, a coiled-coil tail which mediates dimerisation, and a short C-terminal acidic region []. p115 tethers COP1 vesicles to the Golgi by binding the coiled coil proteins giantin (on the vesicles) and GM130 (on the Golgi), via its C-terminal acidic region. It is required for intercisternal transport in the Golgi stack. This domain is found in the acidic C-terminal region, which binds to the golgins giantin and GM130. p115 is thought to juxtapose two membranes by binding giantin with one acidic region, and GM130 with another [].; GO: 0008565 protein transporter activity, 0006886 intracellular protein transport, 0005737 cytoplasm, 0016020 membrane

>KOG2077 consensus JNK/SAPK-associated protein-1 [Signal transduction mechanisms]

Probab=89.87  E-value=6.8  Score=43.45  Aligned_cols=105  Identities=21%  Similarity=0.308  Sum_probs=65.1

Q ss_pred             HHHHHHHHHHHHhhhhchhhHHhhHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531           87 ERIVSLQKELSSLQKKETLNAAEQVD-KAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQK  165 (441)
Q Consensus        87 ~~I~~l~~ei~sLq~~~~~~~~~~~~-~a~~~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek  165 (441)
                      .++.+|..|-..|+.+  ..+.+|+. |.++++.+|++++..++.+.++...+....|...--+..+...-..+.+..-=
T Consensus       329 akVDeL~~E~~vLrgE--lea~kqak~Klee~i~elEEElk~~k~ea~~ar~~~~~~e~ddiPmAqRkRFTRvEMaRVLM  406 (832)
T KOG2077|consen  329 AKVDELTCEKDVLRGE--LEAVKQAKLKLEEKIRELEEELKKAKAEAEDARQKAKDDEDDDIPMAQRKRFTRVEMARVLM  406 (832)
T ss_pred             HHHHhhccHHHHHhhH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccccccHHHHhhhHHHHHHHHHH
Confidence            4455666777777633  34445554 88888888888888887666555433222222211133333334445555555


Q ss_pred             HHHHHHHHHHHHHHHHH-HHHHHHHHhhh
Q 013531          166 INDEQKSKIRKTERALK-EEMMRAKFEAT  193 (441)
Q Consensus       166 ~~aEQk~qIeelEk~lk-eei~k~k~E~~  193 (441)
                      ....++.++=+++..+. ++|.|+..+..
T Consensus       407 eRNqYKErLMELqEavrWTEMiRAsre~p  435 (832)
T KOG2077|consen  407 ERNQYKERLMELQEAVRWTEMIRASRENP  435 (832)
T ss_pred             HHhHHHHHHHHHHHHHhHHHHHHHhhcCc
Confidence            56778888999999999 88888877654

>PF07798 DUF1640: Protein of unknown function (DUF1640); InterPro: IPR024461 This family consists of uncharacterised proteins

Probab=89.80  E-value=17  Score=33.98  Aligned_cols=115  Identities=21%  Similarity=0.271  Sum_probs=57.3

Q ss_pred             HHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531           56 SLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQ  135 (441)
Q Consensus        56 ~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~eVe~Lkkeie~~  135 (441)
                      .|++.++...+.+-.|.+    .|+........+.++-+++..+++.              ....+..+.+.|+.+++.+
T Consensus        31 ~l~~~~~~~~~~~vtk~d----~e~~~~~~~a~~~eLr~el~~~~k~--------------~~~~lr~~~e~L~~eie~l   92 (177)
T PF07798_consen   31 VLNDSLEKVAQDLVTKSD----LENQEYLFKAAIAELRSELQNSRKS--------------EFAELRSENEKLQREIEKL   92 (177)
T ss_pred             HHHHHHHHHHHHHHhHHH----HHHHHHHHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHHH
Confidence            344444444444444322    3455555666777777777766521              2344444555555555544


Q ss_pred             HHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013531          136 QKEKEALEARAIEAEKK-ISDLSAKLEKLQKINDEQKSKIRKTERALKEEMMRAKFE  191 (441)
Q Consensus       136 ek~~eeLEark~eLEkk-leELekklEeLek~~aEQk~qIeelEk~lkeei~k~k~E  191 (441)
                      +.++..   +...+... .-+++.....+......++.+|.+++..+.++|..++.+
T Consensus        93 ~~~L~~---ei~~l~a~~klD~n~eK~~~r~e~~~~~~ki~e~~~ki~~ei~~lr~~  146 (177)
T PF07798_consen   93 RQELRE---EINKLRAEVKLDLNLEKGRIREEQAKQELKIQELNNKIDTEIANLRTE  146 (177)
T ss_pred             HHHHHH---HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            433322   11111111 123344444555666666777777777777655544443

>TIGR02977 phageshock_pspA phage shock protein A

Probab=89.78  E-value=20  Score=34.66  Aligned_cols=111  Identities=12%  Similarity=0.149  Sum_probs=55.0

Q ss_pred             HHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHHHHHHHHH
Q 013531           50 LKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLK  129 (441)
Q Consensus        50 l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~eVe~Lk  129 (441)
                      |+.=|..++..|.+..+.+..---.-+..+..+.+....+...++....--..|.   +..+..|-.+....+.++..|+
T Consensus        29 l~q~irem~~~l~~ar~~lA~~~a~~k~~e~~~~~~~~~~~~~~~~A~~Al~~G~---EdLAr~Al~~k~~~~~~~~~l~  105 (219)
T TIGR02977        29 IRLIIQEMEDTLVEVRTTSARTIADKKELERRVSRLEAQVADWQEKAELALSKGR---EDLARAALIEKQKAQELAEALE  105 (219)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC---HHHHHHHHHHHHHHHHHHHHHH
Confidence            4444555555555555544443333344555556666666666655544333342   2233344444455555555555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          130 KESEKQQKEKEALEARAIEAEKKISDLSAKLEKL  163 (441)
Q Consensus       130 keie~~ek~~eeLEark~eLEkkleELekklEeL  163 (441)
                      .+++.+...+..+.....+++.++.+...+...|
T Consensus       106 ~~~~~~~~~v~~l~~~l~~L~~ki~~~k~k~~~l  139 (219)
T TIGR02977       106 RELAAVEETLAKLQEDIAKLQAKLAEARARQKAL  139 (219)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5555555555555555555555544444444333

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.

>PRK15422 septal ring assembly protein ZapB; Provisional

Probab=89.72  E-value=7.1  Score=32.56  Aligned_cols=19  Identities=11%  Similarity=0.212  Sum_probs=10.6

Q ss_pred             HHHHHHHHHHHHHHHHHhh
Q 013531           82 IQDKSERIVSLQKELSSLQ  100 (441)
Q Consensus        82 i~ek~~~I~~l~~ei~sLq  100 (441)
                      +..++.+|+.--+.|+.||
T Consensus         6 leqLE~KIqqAvdtI~LLq   24 (79)
T PRK15422          6 FEKLEAKVQQAIDTITLLQ   24 (79)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            3444555555666666665

>KOG0999 consensus Microtubule-associated protein Bicaudal-D [Intracellular trafficking, secretion, and vesicular transport]

Probab=89.64  E-value=30  Score=38.46  Aligned_cols=12  Identities=17%  Similarity=0.318  Sum_probs=7.0

Q ss_pred             hhhcchhHHhhh
Q 013531          297 KTAVTPHIIRVQ  308 (441)
Q Consensus       297 r~~~~phv~~vk  308 (441)
                      .+.+..||+.+.
T Consensus       362 ~~~l~e~v~al~  373 (772)
T KOG0999|consen  362 VDRLTEHVQALR  373 (772)
T ss_pred             HHHHHHHHHHHH
Confidence            345666766663

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

Probab=89.60  E-value=47  Score=38.70  Aligned_cols=6  Identities=17%  Similarity=0.229  Sum_probs=2.3

Q ss_pred             hhhccC
Q 013531          225 HWNAHG  230 (441)
Q Consensus       225 ~w~~hg  230 (441)
                      .|-.=|
T Consensus       459 ~CPvCg  464 (908)
T COG0419         459 KCPVCG  464 (908)
T ss_pred             CCCCCC
Confidence            343333

>PF12761 End3: Actin cytoskeleton-regulatory complex protein END3

Probab=89.51  E-value=3.1  Score=40.17  Aligned_cols=56  Identities=16%  Similarity=0.201  Sum_probs=34.9

Q ss_pred             HhHHHHHHHHHHHHhhHHHHhhhhcchhHHHHHH-HHHHHHHHHHHHHHHHHHHHhh
Q 013531           45 IELDQLKSKIRSLESHIDEKTQELKGKDEVVAQK-EKAIQDKSERIVSLQKELSSLQ  100 (441)
Q Consensus        45 ~el~~l~~~i~~Les~i~~~~~~i~~k~~~l~~k-e~~i~ek~~~I~~l~~ei~sLq  100 (441)
                      -|...|+.+|+.|+++|+..+++...+...-..+ .-+=.|.+....=++.++..+.
T Consensus        96 wEevrLkrELa~Le~~l~~~~~~~~~~~~~~~~~~~lvk~e~EqLL~YK~~ql~~~~  152 (195)
T PF12761_consen   96 WEEVRLKRELAELEEKLSKVEQAAESRRSDTDSKPALVKREFEQLLDYKERQLRELE  152 (195)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHhcccCCcchHHHHHHHHHHHHHHHHHHHHhhh
Confidence            4677788899999998888877777631111111 1222345666666677777765

>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=89.49  E-value=15  Score=36.30  Aligned_cols=50  Identities=18%  Similarity=0.196  Sum_probs=26.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          118 ADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKIN  167 (441)
Q Consensus       118 ~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~  167 (441)
                      +.++.++.+.|..+.....+++..+..+.+.+|..+.+++...+...+..
T Consensus        34 L~e~~kE~~~L~~Er~~h~eeLrqI~~DIn~lE~iIkqa~~er~~~~~~i   83 (230)
T PF10146_consen   34 LEEYRKEMEELLQERMAHVEELRQINQDINTLENIIKQAESERNKRQEKI   83 (230)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44555555555555555555555555555555555555554444444333

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.

>KOG0963 consensus Transcription factor/CCAAT displacement protein CDP1 [Transcription]

Probab=89.44  E-value=11  Score=41.95  Aligned_cols=55  Identities=18%  Similarity=0.348  Sum_probs=32.2

Q ss_pred             hHHHHHHHHHHHHhhHHHHhhhhcch--------hHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013531           46 ELDQLKSKIRSLESHIDEKTQELKGK--------DEVVAQKEKAIQDKSERIVSLQKELSSLQ  100 (441)
Q Consensus        46 el~~l~~~i~~Les~i~~~~~~i~~k--------~~~l~~ke~~i~ek~~~I~~l~~ei~sLq  100 (441)
                      +++--+.+|-.|+..++.+..++..-        -+.+......+-.|++.|..|..+|..+|
T Consensus       243 eLe~aq~ri~~lE~e~e~L~~ql~~~N~~~~~~~~~~i~~~~~~L~~kd~~i~~L~~di~~~~  305 (629)
T KOG0963|consen  243 ELEDAQQRIVFLEREVEQLREQLAKANSSKKLAKIDDIDALGSVLNQKDSEIAQLSNDIERLE  305 (629)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhccCCchHHHHHHHhHHHHHHHHHHHHHHHHH
Confidence            34444556666666666555554332        23444555556667777777777777776

>PF02994 Transposase_22: L1 transposable element; InterPro: IPR004244 Many human L1 elements are capable of retrotransposition

Probab=89.35  E-value=1.3  Score=46.51  Aligned_cols=49  Identities=20%  Similarity=0.328  Sum_probs=23.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          134 KQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALK  182 (441)
Q Consensus       134 ~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelEk~lk  182 (441)
                      .+..++.++|.+..++|..+.+++..+..+++.+...+..+++++....
T Consensus       141 ~l~~Ri~e~Eeris~lEd~~~~i~~~~~~~~k~i~~l~~kl~DlEnrsR  189 (370)
T PF02994_consen  141 SLNSRIDELEERISELEDRIEEIEQAIKELEKRIKKLEDKLDDLENRSR  189 (370)
T ss_dssp             ---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHhhcc
Confidence            3444555555555555555555555555555555555555555555443

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.

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

Probab=89.26  E-value=8.4  Score=45.36  Aligned_cols=110  Identities=22%  Similarity=0.365  Sum_probs=43.9

Q ss_pred             hHHHHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHHHHH
Q 013531           46 ELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQI  125 (441)
Q Consensus        46 el~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~eV  125 (441)
                      +++.++++|..+...++..+.+|..+..+....-..+...++.|..++..++..+  .....++....-.+++.+.+..+
T Consensus       235 els~~~~ei~~~~~~~d~~e~ei~~~k~e~~ki~re~~~~Dk~i~~ke~~l~erp--~li~~ke~~~~~k~rl~~~~k~i  312 (1141)
T KOG0018|consen  235 ELSRLNAEIPKLKERMDKKEREIRVRKKERGKIRRELQKVDKKISEKEEKLAERP--ELIKVKENASHLKKRLEEIEKDI  312 (1141)
T ss_pred             HHHHHhhhhHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh--HHhhcchhhccchhHHHHhhhhH
Confidence            3344444444444444444444444333332223334444555555555555511  01112222222233444444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          126 DNLKKESEKQQKEKEALEARAIEAEKKISDLS  157 (441)
Q Consensus       126 e~Lkkeie~~ek~~eeLEark~eLEkkleELe  157 (441)
                      +..++...++..+++.++.....++......+
T Consensus       313 ~~~kk~~~~~~~~ie~~ek~l~av~~~~~~fe  344 (1141)
T KOG0018|consen  313 ETAKKDYRALKETIERLEKELKAVEGAKEEFE  344 (1141)
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444444444444444444444333333333

>PF00769 ERM: Ezrin/radixin/moesin family; InterPro: IPR011259 The ERM family consists of three closely-related proteins, ezrin, radixin and moesin []

Probab=89.23  E-value=24  Score=34.97  Aligned_cols=62  Identities=16%  Similarity=0.353  Sum_probs=23.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          121 LEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALK  182 (441)
Q Consensus       121 Le~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelEk~lk  182 (441)
                      |+.....+...+..+..........+..|+.++.+++..+..|.............+...+.
T Consensus        52 Le~k~~eaee~~~rL~~~~~~~~eEk~~Le~e~~e~~~~i~~l~ee~~~ke~Ea~~lq~el~  113 (246)
T PF00769_consen   52 LEQKRQEAEEEKQRLEEEAEMQEEEKEQLEQELREAEAEIARLEEESERKEEEAEELQEELE  113 (246)
T ss_dssp             HHHHHHHHHHHHHHHHH------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333444444444444444444444445555555555555555555555555555544443

Ezrin was first identified as a constituent of microvilli [], radixin as a barbed, end-capping actin-modulating protein from isolated junctional fractions [], and moesin as a heparin binding protein []. A tumour suppressor molecule responsible for neurofibromatosis type 2 (NF2) is highly similar to ERM proteins and has been designated merlin (moesin-ezrin-radixin-like protein). ERM molecules contain 3 domains, an N-terminal globular domain; an extended alpha-helical domain; and a charged C-terminal domain []. Ezrin, radixin and merlin also contain a polyproline region between the helical and C-terminal domains. The N-terminal domain is highly conserved, and is also found in merlin, band 4.1 proteins and members of the band 4.1 superfamily. ERM proteins crosslink actin filaments with plasma membranes. They co-localise with CD44 at actin filament-plasma membrane interaction sites, associating with CD44 via their N-terminal domains and with actin filaments via their C-terminal domains [].; GO: 0008092 cytoskeletal protein binding, 0005737 cytoplasm, 0019898 extrinsic to membrane; PDB: 2I1J_A 2I1K_A 1E5W_A 1EF1_C.

>KOG0288 consensus WD40 repeat protein TipD [General function prediction only]

Probab=89.01  E-value=15  Score=39.37  Aligned_cols=25  Identities=20%  Similarity=0.389  Sum_probs=12.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          117 RADELEKQIDNLKKESEKQQKEKEA  141 (441)
Q Consensus       117 ~~~eLe~eVe~Lkkeie~~ek~~ee  141 (441)
                      .+++.|.++..|+++..+++.+.-.
T Consensus        49 ~~~~~E~~l~~Lq~e~~~l~e~~v~   73 (459)
T KOG0288|consen   49 KLQEKELELNRLQEENTQLNEERVR   73 (459)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444455555555555555544444

>PF14992 TMCO5: TMCO5 family

Probab=88.97  E-value=5.7  Score=40.39  Aligned_cols=123  Identities=24%  Similarity=0.347  Sum_probs=61.4

Q ss_pred             HHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-hchhhHHhhHH-HHHHHHHHHHHHHHHHHHHHH
Q 013531           56 SLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQK-KETLNAAEQVD-KAHARADELEKQIDNLKKESE  133 (441)
Q Consensus        56 ~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~-~~~~~~~~~~~-~a~~~~~eLe~eVe~Lkkeie  133 (441)
                      .|++..+.-.|+|+++.+.+=.   -|.+++..|++|.+||+-.-- -+-++...... .-+.-..+|+.+-+.|++.-+
T Consensus         4 sLn~dle~d~Q~ldE~Nq~lL~---ki~~~E~~iq~Le~Eit~~~~~~~~~e~e~~~~~~~e~~l~~le~e~~~LE~~ne   80 (280)
T PF14992_consen    4 SLNMDLEKDEQRLDEANQSLLQ---KIQEKEGAIQSLEREITKMDHIADRSEEEDIISEERETDLQELELETAKLEKENE   80 (280)
T ss_pred             hhccchHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHccccCchhHHhhhhhchHHHHHHHHhhhHHHhhhhH
Confidence            4566666666666665555443   367777788888888876531 11111111111 122224444444455544444


Q ss_pred             HHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          134 KQQKEKEALEARAIE-----------AEKKISDLSAKLEKLQKINDEQKSKIRKTERAL  181 (441)
Q Consensus       134 ~~ek~~eeLEark~e-----------LEkkleELekklEeLek~~aEQk~qIeelEk~l  181 (441)
                      -+...+.++..+..+           +...+++.+..++.+......|+.++.+.+...
T Consensus        81 ~l~~~~~elq~k~~e~~~~~~~e~~~~~~~lq~sk~~lqql~~~~~~qE~ei~kve~d~  139 (280)
T PF14992_consen   81 HLSKSVQELQRKQDEQETNVQCEDPQLSQSLQFSKNKLQQLLESCASQEKEIAKVEDDY  139 (280)
T ss_pred             hhhhhhhhhhhhhccccCCCCCCccchhcccHHhhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            443334444433322           222345555556666666666666666655433

>PF13514 AAA_27: AAA domain

Probab=88.79  E-value=30  Score=41.23  Aligned_cols=29  Identities=24%  Similarity=0.416  Sum_probs=15.3

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013531           72 DEVVAQKEKAIQDKSERIVSLQKELSSLQ  100 (441)
Q Consensus        72 ~~~l~~ke~~i~ek~~~I~~l~~ei~sLq  100 (441)
                      .+.+...+..+.+....+...+.++..|-
T Consensus       807 ~~~~~~~~~~~~~~~~~l~~~~~~l~~L~  835 (1111)
T PF13514_consen  807 QEQLEELEEELEQAEEELEELEAELAELL  835 (1111)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444455555555555555555555554

>COG1382 GimC Prefoldin, chaperonin cofactor [Posttranslational modification, protein turnover, chaperones]

Probab=88.62  E-value=17  Score=32.56  Aligned_cols=43  Identities=12%  Similarity=0.241  Sum_probs=21.8

Q ss_pred             HhHHHHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHH
Q 013531           45 IELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSE   87 (441)
Q Consensus        45 ~el~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~   87 (441)
                      .+..++=.+..+|...++...-+...-+..|+..++.+.|.++
T Consensus         6 p~~q~~l~q~QqLq~ql~~~~~qk~~le~qL~E~~~al~Ele~   48 (119)
T COG1382           6 PEVQAQLAQLQQLQQQLQKVILQKQQLEAQLKEIEKALEELEK   48 (119)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            3444555566666666665554444433444444544444443

>TIGR00998 8a0101 efflux pump membrane protein (multidrug resistance protein A)

Probab=88.54  E-value=29  Score=34.80  Aligned_cols=13  Identities=31%  Similarity=0.473  Sum_probs=6.1

Q ss_pred             hhhccCCchHHHH
Q 013531          225 HWNAHGKPAMDVA  237 (441)
Q Consensus       225 ~w~~hg~p~~~~~  237 (441)
                      -|-..|.|++...
T Consensus       224 ~~v~~g~~l~~i~  236 (334)
T TIGR00998       224 QVVSPGQPLMAVV  236 (334)
T ss_pred             CEeCCCCeeEEEE
Confidence            3333455655433

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

Probab=88.40  E-value=67  Score=38.85  Aligned_cols=117  Identities=17%  Similarity=0.173  Sum_probs=49.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HH-HHHHHHHHhhhhhhhhHHHh
Q 013531          125 IDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERA-LK-EEMMRAKFEATSRSKELTEV  202 (441)
Q Consensus       125 Ve~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelEk~-lk-eei~k~k~E~~~kAk~l~e~  202 (441)
                      .+........+...+.+++.+...++......+..+..++....+....+++.++. ++ .--.+++.......+.-+|.
T Consensus       611 ~e~~~~~~~~~~e~~~~l~~~i~sL~~~~~~~~~~l~k~~el~r~~~e~~~~~ek~~~e~~~e~~lk~~q~~~eq~~~E~  690 (1317)
T KOG0612|consen  611 LEKERRQRTEISEIIAELKEEISSLEETLKAGKKELLKVEELKRENQERISDSEKEALEIKLERKLKMLQNELEQENAEH  690 (1317)
T ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33334444444444455555555555555555555544444444444445544442 11 00011122222223334444


Q ss_pred             hhccCChhHHHHHHhhhhhhhhhhhccCCchHHHHHHHHHHHHHH
Q 013531          203 HSAWLPPWLAVHLLQCQSLIETHWNAHGKPAMDVAIQKALEKKAQ  247 (441)
Q Consensus       203 h~~wlppw~a~~~~~~q~~~~~~w~~hg~p~~~~~~~ka~~~~~~  247 (441)
                      |+-    =|......+++  ...|-.-++++-..+...+.+.-++
T Consensus       691 ~~~----~L~~~e~~~~e--~~~~lseek~ar~k~e~~~~~i~~e  729 (1317)
T KOG0612|consen  691 HRL----RLQDKEAQMKE--IESKLSEEKSAREKAENLLLEIEAE  729 (1317)
T ss_pred             HHH----HHhhHHHHHHH--HHHHhcccccHHHHHHHHHHHHHHH
Confidence            442    12222222222  2356666666666665554444333

>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]

Probab=88.33  E-value=26  Score=37.95  Aligned_cols=123  Identities=15%  Similarity=0.188  Sum_probs=56.8

Q ss_pred             HHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHHHHHHHHH
Q 013531           50 LKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLK  129 (441)
Q Consensus        50 l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~eVe~Lk  129 (441)
                      |.+...--|+.+.+.++      ..|++......++.....+++++..-+++.. ...+....+-+.++.++.++...++
T Consensus       330 leSqr~y~e~~~~e~~q------sqlen~k~~~e~~~~e~~~l~~~~~~~e~~k-k~~e~k~~q~q~k~~k~~kel~~~~  402 (493)
T KOG0804|consen  330 LESQRKYYEQIMSEYEQ------SQLENQKQYYELLITEADSLKQESSDLEAEK-KIVERKLQQLQTKLKKCQKELKEER  402 (493)
T ss_pred             hhHHHHHHHHHHHHHHH------HHHHhHHHHHHHHHHHHHhhhhhhhHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33433344455555554      1333333333333344444444444444222 1223334455666777777777776


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          130 KESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALK  182 (441)
Q Consensus       130 keie~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelEk~lk  182 (441)
                      +.-..+.+.....-.+..+++   +.++..+...+..+.+++.++.++---++
T Consensus       403 E~n~~l~knq~vw~~kl~~~~---e~~~~~~~s~d~~I~dLqEQlrDlmf~le  452 (493)
T KOG0804|consen  403 EENKKLIKNQDVWRGKLKELE---EREKEALGSKDEKITDLQEQLRDLMFFLE  452 (493)
T ss_pred             HHHHHHHhhHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHhHheehh
Confidence            555555544444443333333   33333444444444455555554443333

>KOG4809 consensus Rab6 GTPase-interacting protein involved in endosome-to-TGN transport [Intracellular trafficking, secretion, and vesicular transport]

Probab=88.20  E-value=28  Score=38.53  Aligned_cols=159  Identities=21%  Similarity=0.270  Sum_probs=0.0

Q ss_pred             hhHhHHHHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHH--
Q 013531           43 LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADE--  120 (441)
Q Consensus        43 ~~~el~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~e--  120 (441)
                      ++.|...|+.+|++|+....+.+..+..-.+.-.++...+..+.+.+.++.--|.+- ++.-++-+.|..+|+.+..+  
T Consensus       336 ~~ke~kdLkEkv~~lq~~l~eke~sl~dlkehassLas~glk~ds~Lk~leIalEqk-kEec~kme~qLkkAh~~~ddar  414 (654)
T KOG4809|consen  336 FRKENKDLKEKVNALQAELTEKESSLIDLKEHASSLASAGLKRDSKLKSLEIALEQK-KEECSKMEAQLKKAHNIEDDAR  414 (654)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhHHHHHHHHH-HHHHHHHHHHHHHHHHhhHhhh


Q ss_pred             ----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 013531          121 ----LEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKEEMMRAKFEATSRS  196 (441)
Q Consensus       121 ----Le~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelEk~lkeei~k~k~E~~~kA  196 (441)
                          ..+++..|++++...++......+.-.++=..+.+.+....+-.+...+.....-.-.+..+.-+-+.+.|.+..+
T Consensus       415 ~~pe~~d~i~~le~e~~~y~de~~kaqaevdrlLeilkeveneKnDkdkkiaeler~~kdqnkkvaNlkHk~q~Ekkk~a  494 (654)
T KOG4809|consen  415 MNPEFADQIKQLEKEASYYRDECGKAQAEVDRLLEILKEVENEKNDKDKKIAELERHMKDQNKKVANLKHKQQLEKKKNA  494 (654)
T ss_pred             cChhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccchhhhcCchhhhhhhHHhhHHHHHHHHHHHHH


Q ss_pred             hhHHHh
Q 013531          197 KELTEV  202 (441)
Q Consensus       197 k~l~e~  202 (441)
                      ..+-++
T Consensus       495 q~lee~  500 (654)
T KOG4809|consen  495 QLLEEV  500 (654)
T ss_pred             HHHHHH

>PRK11020 hypothetical protein; Provisional

Probab=88.18  E-value=3.5  Score=36.61  Aligned_cols=49  Identities=12%  Similarity=0.249  Sum_probs=36.1

Q ss_pred             hhHhHHHHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013531           43 LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQ  100 (441)
Q Consensus        43 ~~~el~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq  100 (441)
                      +..||.+|..+++.++.+.....+.=+.         ..|.+..+.|..|..+|++|.
T Consensus         3 ~K~Eiq~L~drLD~~~~Klaaa~~rgd~---------~~i~qf~~E~~~l~k~I~~lk   51 (118)
T PRK11020          3 EKNEIKRLSDRLDAIRHKLAAASLRGDA---------EKYAQFEKEKATLEAEIARLK   51 (118)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhcCCH---------HHHHHHHHHHHHHHHHHHHHH
Confidence            5678888888888888888876544333         666777777777777887775

>PF06785 UPF0242: Uncharacterised protein family (UPF0242); InterPro: IPR009623 This is a group of proteins of unknown function

Probab=88.02  E-value=33  Score=35.99  Aligned_cols=105  Identities=23%  Similarity=0.327  Sum_probs=59.3

Q ss_pred             HHHHHHHH-HHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHHHHHHH
Q 013531           49 QLKSKIRS-LESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDN  127 (441)
Q Consensus        49 ~l~~~i~~-Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~eVe~  127 (441)
                      ||+.--.+ |+.+|.    .|.++|++|.+.-..++|.......|+..-+-|-+. .....+-..+.-.+...||..+..
T Consensus        64 qlk~aa~~llq~kir----k~~e~~eglr~i~es~~e~q~e~~qL~~qnqkL~nq-L~~~~~vf~k~k~~~q~LE~li~~  138 (401)
T PF06785_consen   64 QLKTAAGQLLQTKIR----KITEKDEGLRKIRESVEERQQESEQLQSQNQKLKNQ-LFHVREVFMKTKGDIQHLEGLIRH  138 (401)
T ss_pred             HHHHHHHHHHHHHHH----HHHhccHHHHHHHHHHHHHHHHHHHHHHhHHHHHHH-HHHHHHHHHHhcchHHHHHHHHHH
Confidence            44433333 355554    466788888888877777777766666655555322 122233344555556666666666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          128 LKKESEKQQKEKEALEARAIEAEKKISDLSA  158 (441)
Q Consensus       128 Lkkeie~~ek~~eeLEark~eLEkkleELek  158 (441)
                      ++++...++-+.+++..+..+.+.+-.+|+.
T Consensus       139 ~~EEn~~lqlqL~~l~~e~~Ekeeesq~Lnr  169 (401)
T PF06785_consen  139 LREENQCLQLQLDALQQECGEKEEESQTLNR  169 (401)
T ss_pred             HHHHHHHHHHhHHHHHHHHhHhHHHHHHHHH
Confidence            6666555555555555555554444444433

>KOG1853 consensus LIS1-interacting protein NUDE [Cytoskeleton]

Probab=87.98  E-value=32  Score=34.78  Aligned_cols=80  Identities=23%  Similarity=0.258  Sum_probs=50.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          113 KAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKK-------ISDLSAKLEKLQKINDEQKSKIRKTERALKEEM  185 (441)
Q Consensus       113 ~a~~~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkk-------leELekklEeLek~~aEQk~qIeelEk~lkeei  185 (441)
                      .-..+..-|+..+..+..+.+.+.+.+.+||....++|.-       +++++.++......++-++..+++.+..+ +.+
T Consensus        88 q~y~q~s~Leddlsqt~aikeql~kyiReLEQaNDdLErakRati~sleDfeqrLnqAIErnAfLESELdEke~ll-esv  166 (333)
T KOG1853|consen   88 QFYQQESQLEDDLSQTHAIKEQLRKYIRELEQANDDLERAKRATIYSLEDFEQRLNQAIERNAFLESELDEKEVLL-ESV  166 (333)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHHHHhhHHHHHH-HHH
Confidence            4444566677777777777777777777777776666653       56666666666666666666666555433 344


Q ss_pred             HHHHHhhh
Q 013531          186 MRAKFEAT  193 (441)
Q Consensus       186 ~k~k~E~~  193 (441)
                      ++++-|++
T Consensus       167 qRLkdEar  174 (333)
T KOG1853|consen  167 QRLKDEAR  174 (333)
T ss_pred             HHHHHHHH
Confidence            55555543

>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=87.81  E-value=56  Score=37.27  Aligned_cols=72  Identities=22%  Similarity=0.367  Sum_probs=37.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531           78 KEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLS  157 (441)
Q Consensus        78 ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELe  157 (441)
                      .+..+..+.+.|.-+.+.+..|.+        |+.--...+.+|..+...|++.+..-.++...++-..+.++..++.+.
T Consensus       578 ~e~e~~~k~kq~k~lenk~~~LrK--------qvEnk~K~ieeLqqeNk~LKKk~~aE~kq~~~~eikVn~L~~E~e~~k  649 (786)
T PF05483_consen  578 IECEILKKEKQMKILENKCNNLRK--------QVENKNKNIEELQQENKALKKKITAESKQSNVYEIKVNKLQEELENLK  649 (786)
T ss_pred             HHHHHhhhHHHHHHHHHHHHHHHH--------HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344455566677777777777653        222223344455555555555555555555555444444444433333

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

>COG1730 GIM5 Predicted prefoldin, molecular chaperone implicated in de novo protein folding [Posttranslational modification, protein turnover, chaperones]

Probab=87.70  E-value=19  Score=33.31  Aligned_cols=26  Identities=23%  Similarity=0.477  Sum_probs=19.9

Q ss_pred             HhHHHHHHHHHHHHhhHHHHhhhhcc
Q 013531           45 IELDQLKSKIRSLESHIDEKTQELKG   70 (441)
Q Consensus        45 ~el~~l~~~i~~Les~i~~~~~~i~~   70 (441)
                      .++++|...+..|++.|+.+.++|..
T Consensus         6 ~~le~l~a~lq~l~~qie~L~~~i~~   31 (145)
T COG1730           6 QELEELAAQLQILQSQIESLQAQIAA   31 (145)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            56778888888888888887666666

>PRK02119 hypothetical protein; Provisional

Probab=87.61  E-value=4.4  Score=33.08  Aligned_cols=44  Identities=34%  Similarity=0.313  Sum_probs=36.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          139 KEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALK  182 (441)
Q Consensus       139 ~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelEk~lk  182 (441)
                      +..++.+..+||.++.-.+..+++|++.+..|+..|+.+.+.++
T Consensus         4 ~~~~e~Ri~~LE~rla~QE~tie~LN~~v~~Qq~~id~L~~ql~   47 (73)
T PRK02119          4 QQNLENRIAELEMKIAFQENLLEELNQALIEQQFVIDKMQVQLR   47 (73)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34577788888888888888899999999999999988888777

>TIGR00634 recN DNA repair protein RecN

Probab=87.59  E-value=37  Score=37.35  Aligned_cols=20  Identities=15%  Similarity=0.142  Sum_probs=8.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHh
Q 013531           80 KAIQDKSERIVSLQKELSSL   99 (441)
Q Consensus        80 ~~i~ek~~~I~~l~~ei~sL   99 (441)
                      +.+...++....+++-+..|
T Consensus       219 ~~L~n~e~i~~~~~~~~~~L  238 (563)
T TIGR00634       219 QRLSNLEKLRELSQNALAAL  238 (563)
T ss_pred             HHHhCHHHHHHHHHHHHHHH
Confidence            33333344444444444444

All proteins in this family for which functions are known are ATP binding proteins involved in the initiation of recombination and recombinational repair.

>PF13514 AAA_27: AAA domain

Probab=87.54  E-value=68  Score=38.32  Aligned_cols=31  Identities=16%  Similarity=0.308  Sum_probs=13.9

Q ss_pred             HHhhhhcchhHHHHHHHHHHHHHHHHHHHHH
Q 013531           63 EKTQELKGKDEVVAQKEKAIQDKSERIVSLQ   93 (441)
Q Consensus        63 ~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~   93 (441)
                      .+..++..-.+.+...+..+......+..|-
T Consensus       805 ~l~~~~~~~~~~~~~~~~~l~~~~~~l~~L~  835 (1111)
T PF13514_consen  805 RLQEQLEELEEELEQAEEELEELEAELAELL  835 (1111)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333444444444444444544445544443

>KOG0243 consensus Kinesin-like protein [Cytoskeleton]

Probab=87.51  E-value=70  Score=38.10  Aligned_cols=26  Identities=23%  Similarity=0.395  Sum_probs=13.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013531           75 VAQKEKAIQDKSERIVSLQKELSSLQ  100 (441)
Q Consensus        75 l~~ke~~i~ek~~~I~~l~~ei~sLq  100 (441)
                      .+.+...|++++.+|+.+...|..++
T Consensus       443 ~~~~~~~ieele~el~~~~~~l~~~~  468 (1041)
T KOG0243|consen  443 KKEMAEQIEELEEELENLEKQLKDLT  468 (1041)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44445555555555555555555554

>KOG4603 consensus TBP-1 interacting protein [Signal transduction mechanisms]

Probab=87.50  E-value=27  Score=33.39  Aligned_cols=30  Identities=23%  Similarity=0.392  Sum_probs=18.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          119 DELEKQIDNLKKESEKQQKEKEALEARAIE  148 (441)
Q Consensus       119 ~eLe~eVe~Lkkeie~~ek~~eeLEark~e  148 (441)
                      .++.+.+.+|+++.....+++..+.+-.+.
T Consensus       119 eemQe~i~~L~kev~~~~erl~~~k~g~~~  148 (201)
T KOG4603|consen  119 EEMQEEIQELKKEVAGYRERLKNIKAGTNH  148 (201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            345566666666666666666666655444

>PF14362 DUF4407: Domain of unknown function (DUF4407)

Probab=87.43  E-value=27  Score=35.09  Aligned_cols=17  Identities=29%  Similarity=0.218  Sum_probs=9.8

Q ss_pred             HhhhccCChhHHHHHHh
Q 013531          201 EVHSAWLPPWLAVHLLQ  217 (441)
Q Consensus       201 e~h~~wlppw~a~~~~~  217 (441)
                      +..++|++.|+-.-+.-
T Consensus       257 ~~~~~~~~~~~i~llfi  273 (301)
T PF14362_consen  257 EDPSALLASLFIFLLFI  273 (301)
T ss_pred             CCCcHHHHHHHHHHHHH
Confidence            34556777776654443

>PF12072 DUF3552: Domain of unknown function (DUF3552); InterPro: IPR022711 This presumed domain is functionally uncharacterised

Probab=87.14  E-value=29  Score=33.23  Aligned_cols=25  Identities=28%  Similarity=0.436  Sum_probs=13.0

Q ss_pred             HhhhhcchhHHHHHHHHHHHHHHHH
Q 013531           64 KTQELKGKDEVVAQKEKAIQDKSER   88 (441)
Q Consensus        64 ~~~~i~~k~~~l~~ke~~i~ek~~~   88 (441)
                      .+++++.+..++...++.+..++..
T Consensus        69 ~E~E~~~~~~el~~~E~rl~~rE~~   93 (201)
T PF12072_consen   69 LERELKERRKELQRLEKRLQQREEQ   93 (201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3345555555555555555555444

This domain is found in bacteria, archaea and eukaryotes. This domain is about 200 amino acids in length. This domain is found associated with PF00013 from PFAM, PF01966 from PFAM. This domain has a single completely conserved residue A that may be functionally important. ; GO: 0008663 2',3'-cyclic-nucleotide 2'-phosphodiesterase activity

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=87.08  E-value=8.5  Score=38.44  Aligned_cols=17  Identities=29%  Similarity=0.260  Sum_probs=8.9

Q ss_pred             HHHHHHHHHHHHhcCCC
Q 013531          367 HQVQASVQEMLKKHELT  383 (441)
Q Consensus       367 ~q~Q~~v~~~l~~~e~~  383 (441)
                      .++..+.+..++.++=+
T Consensus       234 ~~A~~~~~~vi~~yP~s  250 (263)
T PRK10803        234 AKAKAVYQQVIKKYPGT  250 (263)
T ss_pred             HHHHHHHHHHHHHCcCC
Confidence            45555555555555533

>PRK09343 prefoldin subunit beta; Provisional

Probab=87.08  E-value=21  Score=31.63  Aligned_cols=27  Identities=11%  Similarity=0.215  Sum_probs=13.1

Q ss_pred             hHhHHHHHHHHHHHHhhHHHHhhhhcc
Q 013531           44 KIELDQLKSKIRSLESHIDEKTQELKG   70 (441)
Q Consensus        44 ~~el~~l~~~i~~Les~i~~~~~~i~~   70 (441)
                      ..++.++-.++..|+.+|....+++..
T Consensus         6 ~~~~q~~~~~~q~lq~~l~~~~~q~~~   32 (121)
T PRK09343          6 PPEVQAQLAQLQQLQQQLERLLQQKSQ   32 (121)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444445555555555554444444

>PRK10361 DNA recombination protein RmuC; Provisional

Probab=87.05  E-value=51  Score=36.04  Aligned_cols=19  Identities=11%  Similarity=0.202  Sum_probs=9.1

Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q 013531          357 KFLKSATTYHHQVQASVQE  375 (441)
Q Consensus       357 ~~~~~a~~~H~q~Q~~v~~  375 (441)
                      .+...+...|.++-.++.+
T Consensus       370 eIa~~a~~Lydkl~~f~~~  388 (475)
T PRK10361        370 QIADRASKLYDKMRLFVDD  388 (475)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            3445555555555444433

>PF04375 HemX: HemX; InterPro: IPR007470 The majority of proteins in this family are annotated as uroporphyrin-III C-methyltransferase (2

Probab=87.03  E-value=42  Score=35.15  Aligned_cols=24  Identities=25%  Similarity=0.583  Sum_probs=13.7

Q ss_pred             hHHHHHHHHHHHHhhHHHHhhhhc
Q 013531           46 ELDQLKSKIRSLESHIDEKTQELK   69 (441)
Q Consensus        46 el~~l~~~i~~Les~i~~~~~~i~   69 (441)
                      ...++..++.+|+.++..+.+.+.
T Consensus        54 q~~~~~~~~~~L~~ql~~~~~~~~   77 (372)
T PF04375_consen   54 QLQQLQQQLQALQQQLQQLQQQLE   77 (372)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHh
Confidence            344456666666666665555554

1.1.107 from EC) []; however, there is no direct evidence to support this annotation for these proteins, which come from mainly pathogenic Gram-negative organisms. There is some evidence to suggest that the proteins are membrane anchored as they have a predicted N-terminal signal peptide and transmembrane domain and may be involved in haem transport [].

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

Probab=87.00  E-value=0.19  Score=57.94  Aligned_cols=120  Identities=21%  Similarity=0.341  Sum_probs=0.0

Q ss_pred             HHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531           62 DEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEA  141 (441)
Q Consensus        62 ~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~eVe~Lkkeie~~ek~~ee  141 (441)
                      .++..+|..-...-...|+.=......|.+|.+.+.++++ .-...++.....++.+.+|...+++....+.++...+..
T Consensus       134 ~eL~eqle~lqk~k~~lEK~k~~l~~e~~dL~~~l~~~~k-~k~~~Ek~~K~lE~qL~El~~klee~er~~~el~~~k~k  212 (859)
T PF01576_consen  134 AELNEQLEQLQKQKAKLEKEKSQLEAELDDLQAQLDSLQK-AKQEAEKKRKQLEAQLNELQAKLEESERQRNELTEQKAK  212 (859)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH-HHHHHHhHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333455555556677777777777763 334456666677777888888888888888888888888


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          142 LEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALK  182 (441)
Q Consensus       142 LEark~eLEkkleELekklEeLek~~aEQk~qIeelEk~lk  182 (441)
                      ++++..++...+++.+..+..+.........+++++...++
T Consensus       213 L~~E~~eL~~qLee~e~~~~~l~r~k~~L~~qLeelk~~le  253 (859)
T PF01576_consen  213 LQSENSELTRQLEEAESQLSQLQREKSSLESQLEELKRQLE  253 (859)
T ss_dssp             -----------------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHH
Confidence            88888888888888888888888777777788888777777

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.

>KOG1853 consensus LIS1-interacting protein NUDE [Cytoskeleton]

Probab=86.98  E-value=37  Score=34.38  Aligned_cols=56  Identities=20%  Similarity=0.230  Sum_probs=29.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          114 AHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDE  169 (441)
Q Consensus       114 a~~~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~aE  169 (441)
                      ....+.+|+..-+.|+.-.+.-.--.++++.+.+.+-.+.+-|++++.+-+....+
T Consensus       110 l~kyiReLEQaNDdLErakRati~sleDfeqrLnqAIErnAfLESELdEke~lles  165 (333)
T KOG1853|consen  110 LRKYIRELEQANDDLERAKRATIYSLEDFEQRLNQAIERNAFLESELDEKEVLLES  165 (333)
T ss_pred             HHHHHHHHHHhccHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHH
Confidence            34456666666666655555555555555555555444445555555444433333

>PF15397 DUF4618: Domain of unknown function (DUF4618)

Probab=86.91  E-value=37  Score=34.27  Aligned_cols=33  Identities=24%  Similarity=0.259  Sum_probs=16.5

Q ss_pred             HHHHHHHHHHHHhhHHHHhhhhcchhHHHHHHH
Q 013531           47 LDQLKSKIRSLESHIDEKTQELKGKDEVVAQKE   79 (441)
Q Consensus        47 l~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke   79 (441)
                      +.+|+.....|...=.++-++|.+-++-...+-
T Consensus         8 l~el~~h~~~L~~~N~~L~~~IqdtE~st~~~V   40 (258)
T PF15397_consen    8 LQELKKHEDFLTKLNKELIKEIQDTEDSTALKV   40 (258)
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHhHHhhHHHHH
Confidence            444555555555555555555555444444443

>PF04728 LPP: Lipoprotein leucine-zipper; InterPro: IPR006817 This repeating sequence, NAKVDQLSNDV, is found in the enterobacterial outer membrane lipoprotein LPP

Probab=86.83  E-value=7.2  Score=30.55  Aligned_cols=45  Identities=20%  Similarity=0.369  Sum_probs=21.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          116 ARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKL  160 (441)
Q Consensus       116 ~~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekkl  160 (441)
                      +++..|..+|..|...++.+..++..+......+..+.+..+.++
T Consensus         3 akid~Ls~dVq~L~~kvdqLs~dv~~lr~~v~~ak~EAaRAN~Rl   47 (56)
T PF04728_consen    3 AKIDQLSSDVQTLNSKVDQLSSDVNALRADVQAAKEEAARANQRL   47 (56)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344555555555555555555555544444444333333334433

The outer membrane lipoprotein is the most abundant protein in an Escherichia coli cell. The messenger RNA for the lipoprotein of the E. coli outer membrane codes for a putative precursor, prolipoprotein, which has 20 additional amino acid residues extending from the amino terminus of the lipoprotein.; GO: 0019867 outer membrane; PDB: 1JCC_A 2GUV_C 2GUS_A 1JCD_A 1KFM_A 1T8Z_D 1KFN_A 1EQ7_A.

>KOG4360 consensus Uncharacterized coiled coil protein [Function unknown]

Probab=86.76  E-value=54  Score=36.20  Aligned_cols=75  Identities=21%  Similarity=0.295  Sum_probs=50.5

Q ss_pred             HHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          107 AAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERAL  181 (441)
Q Consensus       107 ~~~~~~~a~~~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelEk~l  181 (441)
                      -.++..++|.++.-+.++++++-+++..+..++..|.+...++.+++..+.-+.+.+.....+.+..-+++...+
T Consensus       203 ~~KelrdtN~q~~s~~eel~~kt~el~~q~Ee~skLlsql~d~qkk~k~~~~Ekeel~~~Lq~~~da~~ql~aE~  277 (596)
T KOG4360|consen  203 CVKELRDTNTQARSGQEELQSKTKELSRQQEENSKLLSQLVDLQKKIKYLRHEKEELDEHLQAYKDAQRQLTAEL  277 (596)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHH
Confidence            355666778888888888888888888888888888888888877766665555555544444444444444333

>PF05266 DUF724: Protein of unknown function (DUF724); InterPro: IPR007930 This family contains several uncharacterised proteins found exclusively in Arabidopsis thaliana

Probab=86.71  E-value=15  Score=35.31  Aligned_cols=9  Identities=44%  Similarity=0.645  Sum_probs=3.7

Q ss_pred             HHHHHHHHH
Q 013531           77 QKEKAIQDK   85 (441)
Q Consensus        77 ~ke~~i~ek   85 (441)
                      .+|+.|.+.
T Consensus       114 ~le~~~~~~  122 (190)
T PF05266_consen  114 KLEKKIEEK  122 (190)
T ss_pred             HHHHHHHHH
Confidence            334444444

>PRK04325 hypothetical protein; Provisional

Probab=86.69  E-value=5.1  Score=32.75  Aligned_cols=43  Identities=16%  Similarity=0.229  Sum_probs=35.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          140 EALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALK  182 (441)
Q Consensus       140 eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelEk~lk  182 (441)
                      ..++.+..+||.++.-++..+++|++.+.+|+..|+.+.+.++
T Consensus         5 ~~~e~Ri~~LE~klAfQE~tIe~LN~vv~~Qq~~I~~L~~ql~   47 (74)
T PRK04325          5 QEMEDRITELEIQLAFQEDLIDGLNATVARQQQTLDLLQAQLR   47 (74)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3466677788888888888889999999999999988888777

>PRK15178 Vi polysaccharide export inner membrane protein VexD; Provisional

Probab=86.68  E-value=51  Score=35.65  Aligned_cols=104  Identities=18%  Similarity=0.224  Sum_probs=78.5

Q ss_pred             HHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc-hhhHHhhHHHHHHHHHHHHHHHHHHHHHHH
Q 013531           55 RSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKE-TLNAAEQVDKAHARADELEKQIDNLKKESE  133 (441)
Q Consensus        55 ~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~-~~~~~~~~~~a~~~~~eLe~eVe~Lkkeie  133 (441)
                      ..=|.-|++++..+..  +-+.--+..+.+-+.....-+..+..+|++. -.|-+.++..-..-++.|+.++.+++.++.
T Consensus       226 ~~sE~~VN~Ls~rar~--D~v~~Ae~ev~~Ae~rl~~Ar~aL~~fRn~~gvlDP~~~a~~~~~lI~~Le~qLa~~~aeL~  303 (434)
T PRK15178        226 SFAEQHVNTVSARMQK--ERILWLENDVKSAQENLGAARLELLKIQHIQKDIDPKETITAIYQLIAGFETQLAEAKAEYA  303 (434)
T ss_pred             HHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcChHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4457777777766655  7788888889999999999999999999854 667777777777778888888888877777


Q ss_pred             HHHH-------HHHHHHHHHHHHHHHHHHHHHHH
Q 013531          134 KQQK-------EKEALEARAIEAEKKISDLSAKL  160 (441)
Q Consensus       134 ~~ek-------~~eeLEark~eLEkkleELekkl  160 (441)
                      .+..       ++..+..+...+++++++...++
T Consensus       304 ~L~~~~~p~sPqV~~l~~rI~aLe~QIa~er~kl  337 (434)
T PRK15178        304 QLMVNGLDQNPLIPRLSAKIKVLEKQIGEQRNRL  337 (434)
T ss_pred             HHHhhcCCCCCchhHHHHHHHHHHHHHHHHHHHh
Confidence            6643       46666777777777766666665

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

Probab=86.63  E-value=0.2  Score=57.67  Aligned_cols=30  Identities=20%  Similarity=0.436  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          153 ISDLSAKLEKLQKINDEQKSKIRKTERALK  182 (441)
Q Consensus       153 leELekklEeLek~~aEQk~qIeelEk~lk  182 (441)
                      +.+|+.....|+....+++..+++++..++
T Consensus       456 v~eLek~kr~LE~e~~El~~~leE~E~~l~  485 (859)
T PF01576_consen  456 VHELEKAKRRLEQEKEELQEQLEEAEDALE  485 (859)
T ss_dssp             ------------------------------
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444444444555555555555555555554

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.

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

Probab=86.61  E-value=30  Score=35.32  Aligned_cols=23  Identities=22%  Similarity=0.488  Sum_probs=12.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhh
Q 013531           78 KEKAIQDKSERIVSLQKELSSLQ  100 (441)
Q Consensus        78 ke~~i~ek~~~I~~l~~ei~sLq  100 (441)
                      -++.+++.+..|.+|-+.+..+|
T Consensus        80 s~~~l~dRetEI~eLksQL~RMr  102 (305)
T PF15290_consen   80 SENRLHDRETEIDELKSQLARMR  102 (305)
T ss_pred             HHHHHHhhHHHHHHHHHHHHHHH
Confidence            34445555555566666565555

>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=86.52  E-value=11  Score=42.88  Aligned_cols=65  Identities=17%  Similarity=0.331  Sum_probs=36.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          117 RADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERAL  181 (441)
Q Consensus       117 ~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelEk~l  181 (441)
                      -..+++..+..|+.++++|-.++..++.++..+....+.|..+++++.+..+....+++.+-+.+
T Consensus       559 ar~ei~~rv~~Lk~~~e~Ql~~L~~l~e~~~~l~~~ae~LaeR~e~a~d~Qe~L~~R~~~vl~~l  623 (717)
T PF10168_consen  559 AREEIQRRVKLLKQQKEQQLKELQELQEERKSLRESAEKLAERYEEAKDKQEKLMKRVDRVLQLL  623 (717)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34455566666666666666666666666666555555555555555555555555444444433

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 [].

>PF08826 DMPK_coil: DMPK coiled coil domain like; InterPro: IPR014930 This domain is found in the myotonic dystrophy protein kinase (DMPK) and adopts a coiled coil structure

Probab=86.29  E-value=6.8  Score=31.11  Aligned_cols=31  Identities=35%  Similarity=0.519  Sum_probs=19.5

Q ss_pred             hHHhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          106 NAAEQVDKAHARADELEKQIDNLKKESEKQQ  136 (441)
Q Consensus       106 ~~~~~~~~a~~~~~eLe~eVe~Lkkeie~~e  136 (441)
                      ..+.....|+.+..+|+.+|+.|+++++...
T Consensus        29 ~~e~kLqeaE~rn~eL~~ei~~L~~e~ee~r   59 (61)
T PF08826_consen   29 AFESKLQEAEKRNRELEQEIERLKKEMEELR   59 (61)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            3445555666677777777777766666543

It plays a role in dimerisation []. ; GO: 0004674 protein serine/threonine kinase activity, 0005524 ATP binding, 0006468 protein phosphorylation; PDB: 1WT6_D.

>PF07889 DUF1664: Protein of unknown function (DUF1664); InterPro: IPR012458 The members of this family are hypothetical plant proteins of unknown function

Probab=86.29  E-value=25  Score=31.75  Aligned_cols=22  Identities=0%  Similarity=0.341  Sum_probs=8.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q 013531          122 EKQIDNLKKESEKQQKEKEALE  143 (441)
Q Consensus       122 e~eVe~Lkkeie~~ek~~eeLE  143 (441)
                      .++|..++..++.+..+++.+.
T Consensus        88 ~~eV~~v~~dv~~i~~dv~~v~  109 (126)
T PF07889_consen   88 KDEVTEVREDVSQIGDDVDSVQ  109 (126)
T ss_pred             HHHHHHHHhhHHHHHHHHHHHH
Confidence            3344444444444444443333

The region featured in this family is approximately 100 amino acids long.

>KOG0239 consensus Kinesin (KAR3 subfamily) [Cytoskeleton]

Probab=86.28  E-value=40  Score=38.35  Aligned_cols=10  Identities=10%  Similarity=0.541  Sum_probs=5.1

Q ss_pred             HHHHHHHHhc
Q 013531          371 ASVQEMLKKH  380 (441)
Q Consensus       371 ~~v~~~l~~~  380 (441)
                      ..|.|+|-..
T Consensus       453 e~i~DlL~~~  462 (670)
T KOG0239|consen  453 EAIRDLLSDE  462 (670)
T ss_pred             HHHHHhcccc
Confidence            4455665443

>PF09787 Golgin_A5: Golgin subfamily A member 5; InterPro: IPR019177 This entry represents a family of proteins involved in maintaining Golgi structure

Probab=86.28  E-value=24  Score=38.57  Aligned_cols=38  Identities=29%  Similarity=0.388  Sum_probs=23.8

Q ss_pred             CCchhHhHHHHHHHHHHHHhhHHHHhhhhcchhHHHHH
Q 013531           40 SSPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQ   77 (441)
Q Consensus        40 ~~~~~~el~~l~~~i~~Les~i~~~~~~i~~k~~~l~~   77 (441)
                      -..++.|.+.++.++..|+.+|..+.-++......+.+
T Consensus       276 l~~l~~E~~~~~ee~~~l~~Qi~~l~~e~~d~e~~~~~  313 (511)
T PF09787_consen  276 LEELKQERDHLQEEIQLLERQIEQLRAELQDLEAQLEG  313 (511)
T ss_pred             chhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            34566677777777777777776666666554444433

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 [].

>PRK00736 hypothetical protein; Provisional

Probab=86.22  E-value=4.7  Score=32.43  Aligned_cols=41  Identities=22%  Similarity=0.317  Sum_probs=34.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          142 LEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALK  182 (441)
Q Consensus       142 LEark~eLEkkleELekklEeLek~~aEQk~qIeelEk~lk  182 (441)
                      ++.+..+||.++.-++..+++|++.+..|+..|+.+.+.++
T Consensus         3 ~e~Ri~~LE~klafqe~tie~Ln~~v~~Qq~~i~~L~~ql~   43 (68)
T PRK00736          3 AEERLTELEIRVAEQEKTIEELSDQLAEQWKTVEQMRKKLD   43 (68)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45667788888888888888999999999999988888777

>PF01442 Apolipoprotein: Apolipoprotein A1/A4/E domain; InterPro: IPR000074 Exchangeable apolipoproteins (apoA, apoC and apoE) have the same genomic structure and are members of a multi-gene family that probably evolved from a common ancestral gene

Probab=86.20  E-value=25  Score=31.59  Aligned_cols=25  Identities=24%  Similarity=0.383  Sum_probs=15.2

Q ss_pred             HHHHHHHHHhhHHHHhhhhcchhHH
Q 013531           50 LKSKIRSLESHIDEKTQELKGKDEV   74 (441)
Q Consensus        50 l~~~i~~Les~i~~~~~~i~~k~~~   74 (441)
                      |...++.|...+++++..|....++
T Consensus         3 l~~~~~~l~~~~~~l~~~l~~~~~~   27 (202)
T PF01442_consen    3 LDDRLDSLSSRTEELEERLEELSDE   27 (202)
T ss_dssp             HHHHHHHHHHHHHHHHHCHCSCCHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4556666666666666666664433

This entry includes the ApoA1, ApoA4 and ApoE proteins. ApoA1 and ApoA4 are part of the APOA1/C3/A4/A5 gene cluster on chromosome 11 []. Apolipoproteins function in lipid transport as structural components of lipoprotein particles, cofactors for enzymes and ligands for cell-surface receptors. In particular, apoA1 is the major protein component of high-density lipoproteins; apoA4 is thought to act primarily in intestinal lipid absorption; and apoE is a blood plasma protein that mediates the transport and uptake of cholesterol and lipid by way of its high affinity interaction with different cellular receptors, including the low-density lipoprotein (LDL) receptor. Recent findings with apoA1 and apoE suggest that the tertiary structures of these two members of the human exchangeable apolipoprotein gene family are related []. The three-dimensional structure of the LDL receptor-binding domain of apoE indicates that the protein forms an unusually elongated four-helix bundle that may be stabilised by a tightly packed hydrophobic core that includes leucine zipper-type interactions and by numerous salt bridges on the mostly charged surface. Basic amino acids important for LDL receptor binding are clustered into a surface patch on one long helix [].; GO: 0008289 lipid binding, 0006869 lipid transport, 0042157 lipoprotein metabolic process, 0005576 extracellular region; PDB: 1YA9_A 3S84_A 1NFN_A 1LE2_A 1B68_A 1BZ4_A 1OEG_A 2L7B_A 1LE4_A 1EA8_A ....

>PF15619 Lebercilin: Ciliary protein causing Leber congenital amaurosis disease

Probab=85.88  E-value=34  Score=32.90  Aligned_cols=26  Identities=23%  Similarity=0.556  Sum_probs=11.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          119 DELEKQIDNLKKESEKQQKEKEALEA  144 (441)
Q Consensus       119 ~eLe~eVe~Lkkeie~~ek~~eeLEa  144 (441)
                      .+|..+++.++..+++.+.++..|+.
T Consensus       121 eeL~~kL~~~~~~l~~~~~ki~~Lek  146 (194)
T PF15619_consen  121 EELQRKLSQLEQKLQEKEKKIQELEK  146 (194)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444444444443

>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=85.85  E-value=23  Score=35.89  Aligned_cols=66  Identities=15%  Similarity=0.286  Sum_probs=46.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          117 RADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALK  182 (441)
Q Consensus       117 ~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelEk~lk  182 (441)
                      .+..+..+++.+++.+..+..+...|+++.......++..++.++.|+...=..-...+.+|..++
T Consensus       170 ai~~~~~~~~~~~~~l~~l~~de~~Le~KIekkk~ELER~qKRL~sLq~vRPAfmdEyEklE~EL~  235 (267)
T PF10234_consen  170 AIKAVQQQLQQTQQQLNNLASDEANLEAKIEKKKQELERNQKRLQSLQSVRPAFMDEYEKLEEELQ  235 (267)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHHHH
Confidence            345556677777777777777777777776666666666777777777776666667777776665

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 [].

>PRK11546 zraP zinc resistance protein; Provisional

Probab=85.84  E-value=12  Score=34.58  Aligned_cols=50  Identities=14%  Similarity=0.290  Sum_probs=27.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531           79 EKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQ  136 (441)
Q Consensus        79 e~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~eVe~Lkkeie~~e  136 (441)
                      .....++-+++.+++.|+.+|......|.+        ++..|.+||..|+..+.++.
T Consensus        60 ~~~t~~LRqqL~aKr~ELnALl~~~~pD~~--------kI~aL~kEI~~Lr~kL~e~r  109 (143)
T PRK11546         60 YAQTSALRQQLVSKRYEYNALLTANPPDSS--------KINAVAKEMENLRQSLDELR  109 (143)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHcCCCCCHH--------HHHHHHHHHHHHHHHHHHHH
Confidence            334444445666677777777665555533        35555555555555554443

>PRK04406 hypothetical protein; Provisional

Probab=85.80  E-value=7.2  Score=32.05  Aligned_cols=50  Identities=16%  Similarity=0.224  Sum_probs=25.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          132 SEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERAL  181 (441)
Q Consensus       132 ie~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelEk~l  181 (441)
                      ++.++.++..||.+..-.+.-+++|+..+-..++.++.+..++..+...+
T Consensus         6 ~~~le~Ri~~LE~~lAfQE~tIe~LN~~v~~Qq~~I~~L~~ql~~L~~rl   55 (75)
T PRK04406          6 IEQLEERINDLECQLAFQEQTIEELNDALSQQQLLITKMQDQMKYVVGKV   55 (75)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444555555555555555555555555555555555555555554433

>PF04102 SlyX: SlyX; InterPro: IPR007236 The SlyX protein has no known function

Probab=85.79  E-value=4.3  Score=32.58  Aligned_cols=41  Identities=32%  Similarity=0.444  Sum_probs=30.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          142 LEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALK  182 (441)
Q Consensus       142 LEark~eLEkkleELekklEeLek~~aEQk~qIeelEk~lk  182 (441)
                      ++.+..+||.++.-++..+++|++.+..|+..|+.+++.++
T Consensus         2 le~Ri~~LE~~la~qe~~ie~Ln~~v~~Qq~~I~~L~~~l~   42 (69)
T PF04102_consen    2 LEERIEELEIKLAFQEDTIEELNDVVTEQQRQIDRLQRQLR   42 (69)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45666677777777777777777777888888887777776

It is short, less than 80 amino acids, and its gene is found close to the slyD gene. The SlyX protein has a conserved PPH(Y/W) motif at its C terminus. The protein may be a coiled-coil structure.; PDB: 3EFG_A.

>PRK12705 hypothetical protein; Provisional

Probab=85.77  E-value=22  Score=39.13  Aligned_cols=41  Identities=20%  Similarity=0.152  Sum_probs=23.8

Q ss_pred             chHHHHHHHHHHHHHHhcccccchHHHHHhhhhhhHHHHHH
Q 013531          232 PAMDVAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWV  272 (441)
Q Consensus       232 p~~~~~~~ka~~~~~~~~~w~~P~l~~~~~K~~pv~~~~w~  272 (441)
                      |.-.+....+++.....|.-.|=-++.+..+....+.++..
T Consensus       248 p~rreia~~~l~~Li~dgri~p~rIeevv~~~~~~~~~~i~  288 (508)
T PRK12705        248 PIRREIARLTLEKLLADGRIHPARIEEYVQKANEEFKQKIY  288 (508)
T ss_pred             ccchHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHHHH
Confidence            66666666666666666665555555555554444444333

>PRK02793 phi X174 lysis protein; Provisional

Probab=85.76  E-value=6.2  Score=32.07  Aligned_cols=42  Identities=24%  Similarity=0.317  Sum_probs=35.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          141 ALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALK  182 (441)
Q Consensus       141 eLEark~eLEkkleELekklEeLek~~aEQk~qIeelEk~lk  182 (441)
                      .++++..+||.++.-.+..+++|++.+..|+..|+.+.+.++
T Consensus         5 ~~e~Ri~~LE~~lafQe~tIe~Ln~~v~~Qq~~I~~L~~~l~   46 (72)
T PRK02793          5 SLEARLAELESRLAFQEITIEELNVTVTAHEMEMAKLRDHLR   46 (72)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            467788888888888888888999999999999988888776

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

Probab=85.60  E-value=61  Score=35.54  Aligned_cols=91  Identities=18%  Similarity=0.272  Sum_probs=40.1

Q ss_pred             HHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHHHHHHHHH
Q 013531           50 LKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLK  129 (441)
Q Consensus        50 l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~eVe~Lk  129 (441)
                      +..+|+.|.+..+.+...|++    -.+....|+++..+-.+|++...-+++..+..    -+|.+...|.    +..|+
T Consensus       269 i~~~i~~lk~~n~~l~e~i~e----a~k~s~~i~~l~ek~r~l~~D~nk~~~~~~~m----k~K~~~~~g~----l~kl~  336 (622)
T COG5185         269 INTDIANLKTQNDNLYEKIQE----AMKISQKIKTLREKWRALKSDSNKYENYVNAM----KQKSQEWPGK----LEKLK  336 (622)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHH----HHHHHhcchH----HHHHH
Confidence            445555555554444433333    22233444444444445555554444222111    1233333333    33445


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q 013531          130 KESEKQQKEKEALEARAIEAEKK  152 (441)
Q Consensus       130 keie~~ek~~eeLEark~eLEkk  152 (441)
                      .+++.-+.++..|.+...++..+
T Consensus       337 ~eie~kEeei~~L~~~~d~L~~q  359 (622)
T COG5185         337 SEIELKEEEIKALQSNIDELHKQ  359 (622)
T ss_pred             HHHHHHHHHHHHHHhhHHHHHHH
Confidence            55555555555555555554444

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

Probab=85.58  E-value=38  Score=39.24  Aligned_cols=27  Identities=15%  Similarity=0.142  Sum_probs=13.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013531           74 VVAQKEKAIQDKSERIVSLQKELSSLQ  100 (441)
Q Consensus        74 ~l~~ke~~i~ek~~~I~~l~~ei~sLq  100 (441)
                      +..+.++++...-..|.++.-+|++|+
T Consensus       651 ~~e~l~~~~~kyK~lI~~lD~~~e~lk  677 (970)
T KOG0946|consen  651 YHEELDDIQQKYKGLIRELDYQIENLK  677 (970)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhHHHHHH
Confidence            334445555555555555555555553

>PF04102 SlyX: SlyX; InterPro: IPR007236 The SlyX protein has no known function

Probab=85.57  E-value=4.4  Score=32.48  Aligned_cols=47  Identities=15%  Similarity=0.198  Sum_probs=19.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          116 ARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEK  162 (441)
Q Consensus       116 ~~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEe  162 (441)
                      +|+.+|+.++.-++..++.++.-+..+......++.++..+..++.+
T Consensus         4 ~Ri~~LE~~la~qe~~ie~Ln~~v~~Qq~~I~~L~~~l~~L~~rl~~   50 (69)
T PF04102_consen    4 ERIEELEIKLAFQEDTIEELNDVVTEQQRQIDRLQRQLRLLRERLRE   50 (69)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT---
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444444444444444444444444444433333

It is short, less than 80 amino acids, and its gene is found close to the slyD gene. The SlyX protein has a conserved PPH(Y/W) motif at its C terminus. The protein may be a coiled-coil structure.; PDB: 3EFG_A.

>KOG1899 consensus LAR transmembrane tyrosine phosphatase-interacting protein liprin [General function prediction only]

Probab=85.54  E-value=23  Score=39.87  Aligned_cols=86  Identities=20%  Similarity=0.299  Sum_probs=42.4

Q ss_pred             hhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHH----HHHHHHHhhhhchhhHHhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531           59 SHIDEKTQELKGKDEVVAQKEKAIQDKSERIVS----LQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEK  134 (441)
Q Consensus        59 s~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~----l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~eVe~Lkkeie~  134 (441)
                      =+++-++.+....-+.|..+|-.|+++..++.+    ||+++-|-+            ..+.+--+|..+|.+|+=-+..
T Consensus       125 LQvsvLteqVeaQgEKIrDLE~cie~kr~kLnatEEmLQqellsrt------------sLETqKlDLmaevSeLKLklta  192 (861)
T KOG1899|consen  125 LQVSVLTEQVEAQGEKIRDLETCIEEKRNKLNATEEMLQQELLSRT------------SLETQKLDLMAEVSELKLKLTA  192 (861)
T ss_pred             ehHHHHHHHHHHhhhhHHHHHHHHHHHHhhhchHHHHHHHHHHhhh------------hHHHHHhHHHHHHHHhHHHHHH
Confidence            345555566666666667777777777666543    233322221            2233334444555555444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q 013531          135 QQKEKEALEARAIEAEKKISDL  156 (441)
Q Consensus       135 ~ek~~eeLEark~eLEkkleEL  156 (441)
                      ++++..+.|.+....|..+.++
T Consensus       193 lEkeq~e~E~K~R~se~l~qev  214 (861)
T KOG1899|consen  193 LEKEQNETEKKLRLSENLMQEV  214 (861)
T ss_pred             HHHHhhhHHHHHHhHHHHHHHH
Confidence            4444444444444444433333

>TIGR00634 recN DNA repair protein RecN

Probab=85.51  E-value=42  Score=36.96  Aligned_cols=22  Identities=9%  Similarity=0.193  Sum_probs=8.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHh
Q 013531           78 KEKAIQDKSERIVSLQKELSSL   99 (441)
Q Consensus        78 ke~~i~ek~~~I~~l~~ei~sL   99 (441)
                      ..+.+.+....+.++..++..+
T Consensus       271 ~~~~l~~~~~~l~d~~~~l~~~  292 (563)
T TIGR00634       271 LAEQVGNALTEVEEATRELQNY  292 (563)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333444444444443

All proteins in this family for which functions are known are ATP binding proteins involved in the initiation of recombination and recombinational repair.

>PRK00295 hypothetical protein; Provisional

Probab=85.49  E-value=6.1  Score=31.79  Aligned_cols=41  Identities=22%  Similarity=0.277  Sum_probs=33.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          142 LEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALK  182 (441)
Q Consensus       142 LEark~eLEkkleELekklEeLek~~aEQk~qIeelEk~lk  182 (441)
                      ++++..+||.++.-++..+++|++.+..|+..|+.+++.++
T Consensus         3 ~e~Ri~~LE~kla~qE~tie~Ln~~v~~Qq~~I~~L~~ql~   43 (68)
T PRK00295          3 LEERVTELESRQAFQDDTIQALNDVLVEQQRVIERLQLQMA   43 (68)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45667778888888888888888888888888888887776

>PF06005 DUF904: Protein of unknown function (DUF904); InterPro: IPR009252 Cell division protein ZapB is a non-essential, abundant cell division factor that is required for proper Z-ring formation

Probab=85.45  E-value=19  Score=29.46  Aligned_cols=59  Identities=20%  Similarity=0.268  Sum_probs=24.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          121 LEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTER  179 (441)
Q Consensus       121 Le~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelEk  179 (441)
                      |+..|..+=..|..+..+++.|..+...+.....+|....+.+.........+|+.+-.
T Consensus         9 LE~ki~~aveti~~Lq~e~eeLke~n~~L~~e~~~L~~en~~L~~e~~~~~~rl~~LL~   67 (72)
T PF06005_consen    9 LEEKIQQAVETIALLQMENEELKEKNNELKEENEELKEENEQLKQERNAWQERLRSLLG   67 (72)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333333333333333444444444444444444444444433

It is recruited early to the divisome by direct interaction with FtsZ, stimulating Z-ring assembly and thereby promoting cell division earlier in the cell cycle. Its recruitment to the Z-ring requires functional FtsA or ZipA.; GO: 0000917 barrier septum formation, 0043093 cytokinesis by binary fission, 0005737 cytoplasm; PDB: 2JEE_A.

>PF10205 KLRAQ: Predicted coiled-coil domain-containing protein; InterPro: IPR019343 This entry represents a N-terminal 100 residues long domain, which contains a conserved KLRAQ motif

Probab=85.36  E-value=12  Score=32.78  Aligned_cols=70  Identities=26%  Similarity=0.432  Sum_probs=45.2

Q ss_pred             hhHhHHHHHHHHHHHHh-hHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHH
Q 013531           43 LKIELDQLKSKIRSLES-HIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADEL  121 (441)
Q Consensus        43 ~~~el~~l~~~i~~Les-~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eL  121 (441)
                      ++.|-..||+...-|.. .|++..+        -..+.+.+..++..|..+++|++||.               =|..-|
T Consensus         3 la~eYsKLraQ~~vLKKaVieEQ~k--------~~~L~e~Lk~ke~~LRk~eqE~dSL~---------------FrN~QL   59 (102)
T PF10205_consen    3 LAQEYSKLRAQNQVLKKAVIEEQAK--------NAELKEQLKEKEQALRKLEQENDSLT---------------FRNQQL   59 (102)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHH---------------HHHHHH
Confidence            34566677777777743 3333211        12355666777788888888888885               255667


Q ss_pred             HHHHHHHHHHHHHH
Q 013531          122 EKQIDNLKKESEKQ  135 (441)
Q Consensus       122 e~eVe~Lkkeie~~  135 (441)
                      +++|+.|+.+++..
T Consensus        60 ~kRV~~LQ~El~~~   73 (102)
T PF10205_consen   60 TKRVEVLQEELEES   73 (102)
T ss_pred             HHHHHHHHHHHHHh
Confidence            78888887777743

This domain is found in a family of coiled-coil domain-containing proteins that are conserved from nematodes to humans. These proteins also contain a C-terminal TTKRSYEDQ motif domain (IPR019348 from INTERPRO). The function of these proteins is not known.

>PF00769 ERM: Ezrin/radixin/moesin family; InterPro: IPR011259 The ERM family consists of three closely-related proteins, ezrin, radixin and moesin []

Probab=85.35  E-value=41  Score=33.36  Aligned_cols=68  Identities=26%  Similarity=0.387  Sum_probs=41.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          115 HARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALK  182 (441)
Q Consensus       115 ~~~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelEk~lk  182 (441)
                      +.+..+++.....|+.+..+.......|+.+..+++..+..+....+.-+......+..+........
T Consensus        53 e~k~~eaee~~~rL~~~~~~~~eEk~~Le~e~~e~~~~i~~l~ee~~~ke~Ea~~lq~el~~ar~~~~  120 (246)
T PF00769_consen   53 EQKRQEAEEEKQRLEEEAEMQEEEKEQLEQELREAEAEIARLEEESERKEEEAEELQEELEEAREDEE  120 (246)
T ss_dssp             HHHHHHHHHHHHHHHH------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34567777778888887778888888888888888877777777777777777777777776666555

Ezrin was first identified as a constituent of microvilli [], radixin as a barbed, end-capping actin-modulating protein from isolated junctional fractions [], and moesin as a heparin binding protein []. A tumour suppressor molecule responsible for neurofibromatosis type 2 (NF2) is highly similar to ERM proteins and has been designated merlin (moesin-ezrin-radixin-like protein). ERM molecules contain 3 domains, an N-terminal globular domain; an extended alpha-helical domain; and a charged C-terminal domain []. Ezrin, radixin and merlin also contain a polyproline region between the helical and C-terminal domains. The N-terminal domain is highly conserved, and is also found in merlin, band 4.1 proteins and members of the band 4.1 superfamily. ERM proteins crosslink actin filaments with plasma membranes. They co-localise with CD44 at actin filament-plasma membrane interaction sites, associating with CD44 via their N-terminal domains and with actin filaments via their C-terminal domains [].; GO: 0008092 cytoskeletal protein binding, 0005737 cytoplasm, 0019898 extrinsic to membrane; PDB: 2I1J_A 2I1K_A 1E5W_A 1EF1_C.

>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=85.19  E-value=76  Score=36.26  Aligned_cols=24  Identities=13%  Similarity=0.446  Sum_probs=11.2

Q ss_pred             HHhhHHHHHHHHHHHHHHHHHHHH
Q 013531          107 AAEQVDKAHARADELEKQIDNLKK  130 (441)
Q Consensus       107 ~~~~~~~a~~~~~eLe~eVe~Lkk  130 (441)
                      +.+....+++...-|..++...+-
T Consensus       280 q~E~Lkes~~~qe~L~~eL~~~K~  303 (786)
T PF05483_consen  280 QHENLKESNEEQEHLLQELEDIKQ  303 (786)
T ss_pred             HHHHHHHhHHhHHHHHHHHHHHHH
Confidence            334444555555555555444433

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

>KOG0288 consensus WD40 repeat protein TipD [General function prediction only]

Probab=85.17  E-value=30  Score=37.18  Aligned_cols=77  Identities=17%  Similarity=0.129  Sum_probs=41.9

Q ss_pred             hHhHHHHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHHH
Q 013531           44 KIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEK  123 (441)
Q Consensus        44 ~~el~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~  123 (441)
                      ...+.+|+-+++|-++..+++..+..-..-+       -.-.-.+.+.++.+|.-||.+++...++-+. +++-...+..
T Consensus        12 dqr~~~~~~~laq~~k~~s~~~aq~~~~~a~-------~~ai~a~~~~~E~~l~~Lq~e~~~l~e~~v~-~~a~~~~~t~   83 (459)
T KOG0288|consen   12 DQRLIDLNTELAQCEKAQSRLSAQLVILRAE-------SRAIKAKLQEKELELNRLQEENTQLNEERVR-EEATEKTLTV   83 (459)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHH
Confidence            3445556777777776666665444432222       2222345566677777777666666666554 4444444444


Q ss_pred             HHHHH
Q 013531          124 QIDNL  128 (441)
Q Consensus       124 eVe~L  128 (441)
                      .+..+
T Consensus        84 ~~~~~   88 (459)
T KOG0288|consen   84 DVLIA   88 (459)
T ss_pred             HHHHH
Confidence            44443

>PHA03332 membrane glycoprotein; Provisional

Probab=85.07  E-value=27  Score=41.39  Aligned_cols=24  Identities=17%  Similarity=0.134  Sum_probs=12.2

Q ss_pred             HhHHHHHHHHHHHHhhHHHHhhhh
Q 013531           45 IELDQLKSKIRSLESHIDEKTQEL   68 (441)
Q Consensus        45 ~el~~l~~~i~~Les~i~~~~~~i   68 (441)
                      ..+-|....|..+.|.|..++..|
T Consensus       884 ~~llqnaaaia~mksaIg~tNaAV  907 (1328)
T PHA03332        884 NQLLQATAATAEMASKIGGLNARV  907 (1328)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344445555555666555543333

>PF01920 Prefoldin_2: Prefoldin subunit; InterPro: IPR002777 Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea

Probab=85.06  E-value=9  Score=31.95  Aligned_cols=24  Identities=21%  Similarity=0.558  Sum_probs=12.4

Q ss_pred             hHHHHHHHHHHHHhhHHHHhhhhc
Q 013531           46 ELDQLKSKIRSLESHIDEKTQELK   69 (441)
Q Consensus        46 el~~l~~~i~~Les~i~~~~~~i~   69 (441)
                      +...|+.++..+.++|..++.++.
T Consensus         6 ~~~~l~~~l~~~~~q~~~l~~~~~   29 (106)
T PF01920_consen    6 KFQELNQQLQQLEQQIQQLERQLR   29 (106)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344455555555555555444433

Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal beta subunit, eukaryotic prefoldin subunits 1, 2, 4 and 6. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 2ZDI_B 3AEI_B 2ZQM_A 1FXK_A.

>TIGR01010 BexC_CtrB_KpsE polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family

Probab=85.04  E-value=49  Score=34.00  Aligned_cols=64  Identities=16%  Similarity=0.250  Sum_probs=41.9

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc-hhhHHhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531           72 DEVVAQKEKAIQDKSERIVSLQKELSSLQKKE-TLNAAEQVDKAHARADELEKQIDNLKKESEKQ  135 (441)
Q Consensus        72 ~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~-~~~~~~~~~~a~~~~~eLe~eVe~Lkkeie~~  135 (441)
                      .+-+.-.++.+.+..+.+.+.+..+...|++. ..+.+.+.......+.+|+.++..++.++..+
T Consensus       169 ~~a~~fl~~ql~~~~~~l~~ae~~l~~fr~~~~~~d~~~~~~~~~~~i~~L~~~l~~~~~~l~~l  233 (362)
T TIGR01010       169 KDTIAFAENEVKEAEQRLNATKAELLKYQIKNKVFDPKAQSSAQLSLISTLEGELIRVQAQLAQL  233 (362)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcChHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45556678888888888888888888888755 33444444445555666666666665555444

This family contains gamma proteobacterial proteins involved in capsule polysaccharide export.

>PRK00295 hypothetical protein; Provisional

Probab=85.00  E-value=7.2  Score=31.35  Aligned_cols=41  Identities=12%  Similarity=0.055  Sum_probs=18.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          116 ARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDL  156 (441)
Q Consensus       116 ~~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleEL  156 (441)
                      +|+.+|+.++.-.+..|+.+|.-+..+......++.++..+
T Consensus         5 ~Ri~~LE~kla~qE~tie~Ln~~v~~Qq~~I~~L~~ql~~L   45 (68)
T PRK00295          5 ERVTELESRQAFQDDTIQALNDVLVEQQRVIERLQLQMAAL   45 (68)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444444444444444433333333333

>PF13747 DUF4164: Domain of unknown function (DUF4164)

Probab=84.91  E-value=23  Score=29.98  Aligned_cols=42  Identities=33%  Similarity=0.475  Sum_probs=21.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          119 DELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKL  160 (441)
Q Consensus       119 ~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekkl  160 (441)
                      ++++.+++.|......+..++...+++.+.++.--.++...+
T Consensus        35 ~~~e~ei~~l~~dr~rLa~eLD~~~ar~~~Le~~~~Evs~rL   76 (89)
T PF13747_consen   35 DELEEEIQRLDADRSRLAQELDQAEARANRLEEANREVSRRL   76 (89)
T ss_pred             hhHHHHHHHHHhhHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence            455555555555555555555555555555554444444333

>TIGR02231 conserved hypothetical protein

Probab=84.88  E-value=9.8  Score=41.32  Aligned_cols=41  Identities=32%  Similarity=0.320  Sum_probs=17.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          120 ELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKL  160 (441)
Q Consensus       120 eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekkl  160 (441)
                      ++.+..+.+..++..+...+.+++.+..++++++++++.++
T Consensus       128 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~l  168 (525)
T TIGR02231       128 EWFQAFDFNGSEIERLLTEDREAERRIRELEKQLSELQNEL  168 (525)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444444444444444444444443333

This family consists of proteins over 500 amino acids long in Caenorhabditis elegans and several bacteria (Pseudomonas aeruginosa, Nostoc sp. PCC 7120, Leptospira interrogans, etc.). The function is unknown.

>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=84.78  E-value=47  Score=33.91  Aligned_cols=69  Identities=23%  Similarity=0.279  Sum_probs=32.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHhh
Q 013531          124 QIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALK---EEMMRAKFEA  192 (441)
Q Consensus       124 eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelEk~lk---eei~k~k~E~  192 (441)
                      ++.-|+.+...+...-+.++..+..+.-.+.--+..+.-|+.....-+.+|+.++..+.   .++-+.+..+
T Consensus        61 e~s~LkREnq~l~e~c~~lek~rqKlshdlq~Ke~qv~~lEgQl~s~Kkqie~Leqelkr~KsELErsQ~~~  132 (307)
T PF10481_consen   61 EYSALKRENQSLMESCENLEKTRQKLSHDLQVKESQVNFLEGQLNSCKKQIEKLEQELKRCKSELERSQQAA  132 (307)
T ss_pred             hhhhhhhhhhhHHHHHHHHHHHHHHhhHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            33334444444444444444444443333333344444455555555556666666665   4444444433

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 [].

>KOG1003 consensus Actin filament-coating protein tropomyosin [Cytoskeleton]

Probab=84.64  E-value=41  Score=32.74  Aligned_cols=54  Identities=28%  Similarity=0.359  Sum_probs=31.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          129 KKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALK  182 (441)
Q Consensus       129 kkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelEk~lk  182 (441)
                      ..+++..+.+.+.-++...+++....-+.+.+..+......+..+.+..+..++
T Consensus        94 E~dLE~~eeraE~~Es~~~eLeEe~~~~~~nlk~l~~~ee~~~q~~d~~e~~ik  147 (205)
T KOG1003|consen   94 EGELERAEERAEAAESQSEELEEDLRILDSNLKSLSAKEEKLEQKEEKYEEELK  147 (205)
T ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHHHhHhHHHHHHHHHHHHhhhHHHHHHHHH
Confidence            555666666666666666666665555555555665555555555555555555

>COG3206 GumC Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]

Probab=84.38  E-value=43  Score=35.69  Aligned_cols=45  Identities=16%  Similarity=0.318  Sum_probs=28.8

Q ss_pred             hHHHHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHH
Q 013531           46 ELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIV   90 (441)
Q Consensus        46 el~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~   90 (441)
                      -+..||.+..++...|.++..++..+-..+...+..+.+.+..|.
T Consensus       286 ~i~~Lr~~~~~~~~~~~~l~~~~~~~~p~~~~~~~q~~~~~~~~~  330 (458)
T COG3206         286 TIQDLRQQYAQVRQQIADLSTELGAKHPQLVALEAQLAELRQQIA  330 (458)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhcccChHHHhHHHHHHHHHHHHH
Confidence            355666666666666666666666666666666666666655543

>PRK00846 hypothetical protein; Provisional

Probab=84.35  E-value=9.8  Score=31.61  Aligned_cols=45  Identities=22%  Similarity=0.307  Sum_probs=37.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          138 EKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALK  182 (441)
Q Consensus       138 ~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelEk~lk  182 (441)
                      +-+.++++..+||.++.-.+..+++|++.+..|+..|+.+...++
T Consensus         7 ~~~~le~Ri~~LE~rlAfQe~tIe~LN~~v~~qq~~I~~L~~ql~   51 (77)
T PRK00846          7 RDQALEARLVELETRLSFQEQALTELSEALADARLTGARNAELIR   51 (77)
T ss_pred             HHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345677888888888888888889999999999999998888877

>TIGR02338 gimC_beta prefoldin, beta subunit, archaeal

Probab=84.32  E-value=26  Score=30.25  Aligned_cols=26  Identities=15%  Similarity=0.169  Sum_probs=10.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013531           74 VVAQKEKAIQDKSERIVSLQKELSSL   99 (441)
Q Consensus        74 ~l~~ke~~i~ek~~~I~~l~~ei~sL   99 (441)
                      .+......+..++..+.+..-.+..|
T Consensus        18 ~~~~l~~q~~~le~~~~E~~~v~~eL   43 (110)
T TIGR02338        18 QLQAVATQKQQVEAQLKEAEKALEEL   43 (110)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33334444444444444444444444

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.

>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89

Probab=84.06  E-value=16  Score=29.54  Aligned_cols=9  Identities=33%  Similarity=0.733  Sum_probs=4.0

Q ss_pred             HHHHHHHhh
Q 013531           92 LQKELSSLQ  100 (441)
Q Consensus        92 l~~ei~sLq  100 (441)
                      |+.+|.+||
T Consensus         3 Lea~~~~Lr   11 (69)
T PF14197_consen    3 LEAEIATLR   11 (69)
T ss_pred             HHHHHHHHH
Confidence            344444444

>KOG0982 consensus Centrosomal protein Nuf [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]

Probab=84.04  E-value=68  Score=34.75  Aligned_cols=65  Identities=15%  Similarity=0.193  Sum_probs=43.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          113 KAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKT  177 (441)
Q Consensus       113 ~a~~~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeel  177 (441)
                      .-+.++.-|+.++..|+..+-.+....+.|.........+++.+..++-..++....+...+...
T Consensus       301 nlqmr~qqleeentelRs~~arlksl~dklaee~qr~sd~LE~lrlql~~eq~l~~rm~d~Lrrf  365 (502)
T KOG0982|consen  301 NLQMRDQQLEEENTELRSLIARLKSLADKLAEEDQRSSDLLEALRLQLICEQKLRVRMNDILRRF  365 (502)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44566777777777787777777777777777776677666666666655555555544444443

>PRK09841 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional

Probab=84.02  E-value=53  Score=37.38  Aligned_cols=53  Identities=6%  Similarity=0.207  Sum_probs=25.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhc-hhhHHhhHHHHHHHHHHHHHHHHHHHH
Q 013531           78 KEKAIQDKSERIVSLQKELSSLQKKE-TLNAAEQVDKAHARADELEKQIDNLKK  130 (441)
Q Consensus        78 ke~~i~ek~~~I~~l~~ei~sLq~~~-~~~~~~~~~~a~~~~~eLe~eVe~Lkk  130 (441)
                      .++.+.+..+...+.+..++..+++. ..+...+....-.++.+|+.|+..|+.
T Consensus       272 L~~qL~~l~~~L~~aE~~l~~fr~~~~~~d~~~ea~~~l~~~~~l~~ql~~l~~  325 (726)
T PRK09841        272 LQRQLPEVRSELDQAEEKLNVYRQQRDSVDLNLEAKAVLEQIVNVDNQLNELTF  325 (726)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            44555555555555555555555433 223222333333445555555555443

>PF11570 E2R135: Coiled-coil receptor-binding R-domain of colicin E2; InterPro: IPR024566 Bacteriocins are protein antibiotics that kill bacteria closely related to the producing species

Probab=84.02  E-value=19  Score=32.83  Aligned_cols=94  Identities=15%  Similarity=0.224  Sum_probs=47.4

Q ss_pred             chhHhHHHHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-hchhhHHhhHHHHHHHHHH
Q 013531           42 PLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQK-KETLNAAEQVDKAHARADE  120 (441)
Q Consensus        42 ~~~~el~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~-~~~~~~~~~~~~a~~~~~e  120 (441)
                      ..+.||++-+..|.+|.+.+..-++-+.++--       .+.+-++.+.+  .||--+.- .......-+.+-+      
T Consensus        12 ~a~aeL~~a~~~I~~~q~r~a~a~~~~~~r~s-------eldqA~~~~~e--ae~k~~~~~a~~P~~~~~~~wq------   76 (136)
T PF11570_consen   12 AARAELDQADEDIATLQERQASAEQALNGRRS-------ELDQANKKVKE--AEIKQDEFFANNPPHEYGRGWQ------   76 (136)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHH--HHHHHCCCCTT-TTSSCHHHHH------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHH-------HHHHHHHHHHH--HHhcccccccCCCccccccHHH------
Confidence            34677888888888888777776666555444       44444455554  33433210 1111122222222      


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          121 LEKQIDNLKKESEKQQKEKEALEARAIEAEKK  152 (441)
Q Consensus       121 Le~eVe~Lkkeie~~ek~~eeLEark~eLEkk  152 (441)
                        .+|..+++++...+......+.++++++..
T Consensus        77 --lkvr~a~~dv~nkq~~l~AA~~~l~~~~~e  106 (136)
T PF11570_consen   77 --LKVRRAQKDVQNKQNKLKAAQKELNAADEE  106 (136)
T ss_dssp             --HHHHHHHHHHHHHHHHHHHHHHHHHHHH--
T ss_pred             --HHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence              445555555555555555555555554433

Colicins are a subgroup of bacteriocins that are produced by and target Escherichia coli. The lethal action of most colicins is exerted either by formation of a pore in the cytoplasmic membrane of the target cell, or by an enzymatic nuclease digestion mechanism. Most colicins are able to translocate the outer membrane by a two-receptor system, where one receptor is used for the initial binding and the second for translocation. The initial binding is to cell surface receptors such as the porins OmpF, FepA, BtuB, Cir and FhuA. The presence of specific periplasmic proteins, such as TolA, TolB, TolC, or TonB, are required for translocation across the membrane []. Colicins are composed of domains with distinct functional roles. In general they contain a central R (receptor) domain that mediates receptor binding, an N-terminal T (translocation) domain that mediates translocation of the protein from the outer membrane receptor to the colicin's target within the cell, and a C-terminal C (catalytic) domain that performs the catalytic cleavage []. This entry represents the central R domain found in colicin-E2 and other colicins.; PDB: 2YSU_B 1UJW_B 2B5U_C 1JCH_A.

>TIGR03545 conserved hypothetical protein TIGR03545

Probab=83.94  E-value=25  Score=39.01  Aligned_cols=97  Identities=14%  Similarity=0.217  Sum_probs=52.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhHHHhhhccCChhHHHHHH
Q 013531          137 KEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKEEMMRAKFEATSRSKELTEVHSAWLPPWLAVHLL  216 (441)
Q Consensus       137 k~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelEk~lkeei~k~k~E~~~kAk~l~e~h~~wlppw~a~~~~  216 (441)
                      ..+++++.-+.+.+..++..++..++++......+.+++++++.-+..+.++.........-+.++-+.-+-+-+...+.
T Consensus       216 ~~~~e~d~lk~e~~~~~~~i~~~~~~l~~~~~~~~~~~~~lk~ap~~D~~~L~~~~~~~~~~~~~~~~~L~g~~i~~~~~  295 (555)
T TIGR03545       216 KIKEEFDKLKKEGKADKQKIKSAKNDLQNDKKQLKADLAELKKAPQNDLKRLENKYAIKSGDLKNFAVDLFGPEIRKYLQ  295 (555)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhccHhHHHHHHHHhCCCcccHHHHHHHHhhHHHHHHHH
Confidence            33334444444444444555555556666666666666666666666665555444444444555555555554444444


Q ss_pred             hhhhhhhhhhhccCCchHHHHH
Q 013531          217 QCQSLIETHWNAHGKPAMDVAI  238 (441)
Q Consensus       217 ~~q~~~~~~w~~hg~p~~~~~~  238 (441)
                      .+.     .|-.-+.|-+....
T Consensus       296 ~~~-----~~y~~~~p~i~~~~  312 (555)
T TIGR03545       296 KFL-----KYYDQAEPLLNKSK  312 (555)
T ss_pred             HHH-----HHHHHHhHhhccch
Confidence            443     46555666665553

This model represents a relatively rare but broadly distributed uncharacterized protein family, distributed in 1-2 percent of bacterial genomes, all of which have outer membranes. In many of these genomes, it is part of a two-gene pair.

>PF03962 Mnd1: Mnd1 family; InterPro: IPR005647 This family of proteins includes meiotic nuclear division protein 1 (MND1) from Saccharomyces cerevisiae (Baker's yeast)

Probab=83.93  E-value=21  Score=34.03  Aligned_cols=18  Identities=44%  Similarity=0.654  Sum_probs=9.0

Q ss_pred             HHHHHHHHHHHHHHHHHH
Q 013531          116 ARADELEKQIDNLKKESE  133 (441)
Q Consensus       116 ~~~~eLe~eVe~Lkkeie  133 (441)
                      +++.+|+.++..|++++.
T Consensus       110 ~~l~~l~~~~~~l~~el~  127 (188)
T PF03962_consen  110 EELEELKKELKELKKELE  127 (188)
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            344445555555555544

The mnd1 protein forms a complex with hop2 to promote homologous chromosome pairing and meiotic double-strand break repair [].

>PRK11519 tyrosine kinase; Provisional

Probab=83.80  E-value=63  Score=36.77  Aligned_cols=51  Identities=8%  Similarity=0.250  Sum_probs=21.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhc-hhhHHhhHHHHHHHHHHHHHHHHHH
Q 013531           78 KEKAIQDKSERIVSLQKELSSLQKKE-TLNAAEQVDKAHARADELEKQIDNL  128 (441)
Q Consensus        78 ke~~i~ek~~~I~~l~~ei~sLq~~~-~~~~~~~~~~a~~~~~eLe~eVe~L  128 (441)
                      .++.+.+..+...+.+..++..+.+. ..+...+....-.++.+++.++.+|
T Consensus       272 L~~ql~~l~~~L~~aE~~l~~fr~~~~~vd~~~ea~~~l~~~~~l~~ql~~l  323 (719)
T PRK11519        272 LAQQLPEVRSRLDVAENKLNAFRQDKDSVDLPLEAKAVLDSMVNIDAQLNEL  323 (719)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHcCCCCchHHHHHHHHHHHHHHHHHHHH
Confidence            34444444455555555555554433 2222222223333344444444444

>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=83.64  E-value=73  Score=36.59  Aligned_cols=9  Identities=56%  Similarity=0.586  Sum_probs=3.5

Q ss_pred             HHHHHHHHh
Q 013531           91 SLQKELSSL   99 (441)
Q Consensus        91 ~l~~ei~sL   99 (441)
                      .+++++.+|
T Consensus       583 ~l~e~~~~l  591 (717)
T PF10168_consen  583 ELQEERKSL  591 (717)
T ss_pred             HHHHHHHHH
Confidence            333333333

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 [].

>PF09787 Golgin_A5: Golgin subfamily A member 5; InterPro: IPR019177 This entry represents a family of proteins involved in maintaining Golgi structure

Probab=83.58  E-value=73  Score=34.81  Aligned_cols=70  Identities=29%  Similarity=0.416  Sum_probs=41.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHH---H-----------HHHHHHHHHHHHHHH
Q 013531          113 KAHARADELEKQIDNLKKESEKQQKEKEALEARAIE----AEKKISDLSA---K-----------LEKLQKINDEQKSKI  174 (441)
Q Consensus       113 ~a~~~~~eLe~eVe~Lkkeie~~ek~~eeLEark~e----LEkkleELek---k-----------lEeLek~~aEQk~qI  174 (441)
                      .--.+.+++..+++-++...+..+.....+..++..    .|+.++.|..   .           ++.|....+..+..+
T Consensus       211 ~~l~~~~e~~~~l~l~~~~~~~~~~el~~Yk~kA~~iLq~kEklI~~LK~~~~~~~~~~~~~~~el~~l~~E~~~~~ee~  290 (511)
T PF09787_consen  211 EYLRESGELQEQLELLKAEGESEEAELQQYKQKAQRILQSKEKLIESLKEGCLEEGFDSSTNSIELEELKQERDHLQEEI  290 (511)
T ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhcccccccccccchhcchhhHHHHHHHHHHH
Confidence            333456677777777777777666666666643322    4555555554   1           455556666666666


Q ss_pred             HHHHHHHH
Q 013531          175 RKTERALK  182 (441)
Q Consensus       175 eelEk~lk  182 (441)
                      +.++.+++
T Consensus       291 ~~l~~Qi~  298 (511)
T PF09787_consen  291 QLLERQIE  298 (511)
T ss_pred             HHHHHHHH
Confidence            66666663

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 [].

>PF02994 Transposase_22: L1 transposable element; InterPro: IPR004244 Many human L1 elements are capable of retrotransposition

Probab=83.57  E-value=4.1  Score=42.74  Aligned_cols=21  Identities=10%  Similarity=0.047  Sum_probs=14.5

Q ss_pred             chhHHHhhhHHHHHHHHhhhh
Q 013531          279 EPHVQTLKTKTIEACEATKTA  299 (441)
Q Consensus       279 ~p~Ve~~ktk~~p~~ea~r~~  299 (441)
                      -|-+..-+.+|.++...+|..
T Consensus       289 S~~~l~kRr~~~~i~~~Lr~~  309 (370)
T PF02994_consen  289 SPETLQKRRKFNPIKKKLREK  309 (370)
T ss_dssp             THHHHHHHHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHHHHHHHc
Confidence            556667777888877766644

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.

>PRK00736 hypothetical protein; Provisional

Probab=83.44  E-value=7.8  Score=31.17  Aligned_cols=41  Identities=22%  Similarity=0.229  Sum_probs=18.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          116 ARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDL  156 (441)
Q Consensus       116 ~~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleEL  156 (441)
                      +|+.+|+.++.-++..++.+|.-+..+......+..++..+
T Consensus         5 ~Ri~~LE~klafqe~tie~Ln~~v~~Qq~~i~~L~~ql~~L   45 (68)
T PRK00736          5 ERLTELEIRVAEQEKTIEELSDQLAEQWKTVEQMRKKLDAL   45 (68)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444445544444444444444444444433333333333

>PF13863 DUF4200: Domain of unknown function (DUF4200)

Probab=83.36  E-value=29  Score=30.07  Aligned_cols=25  Identities=36%  Similarity=0.438  Sum_probs=9.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          121 LEKQIDNLKKESEKQQKEKEALEAR  145 (441)
Q Consensus       121 Le~eVe~Lkkeie~~ek~~eeLEar  145 (441)
                      .+.++..|..++..+..++..++..
T Consensus        79 k~~ei~~l~~~l~~l~~~~~k~e~~  103 (126)
T PF13863_consen   79 KEAEIKKLKAELEELKSEISKLEEK  103 (126)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333333333

>KOG0962 consensus DNA repair protein RAD50, ABC-type ATPase/SMC superfamily [Replication, recombination and repair]

Probab=83.17  E-value=99  Score=37.74  Aligned_cols=53  Identities=25%  Similarity=0.363  Sum_probs=30.9

Q ss_pred             HHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHH---HHHHHHHHHHHhhhh
Q 013531           50 LKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSE---RIVSLQKELSSLQKK  102 (441)
Q Consensus        50 l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~---~I~~l~~ei~sLq~~  102 (441)
                      +-..+......|+.+.+++.+.-+++...+..-.|+++   +...+..+|..+|++
T Consensus       793 ~~~d~~~~~k~ie~~~s~l~~~~d~i~t~~E~~~Ek~~~~~~~~~~rke~E~~~k~  848 (1294)
T KOG0962|consen  793 FLKDLKLREKEIEELVSELDSSVDGIRTVDELRKEKSKKQESLDKLRKEIECLQKE  848 (1294)
T ss_pred             HHHHHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444555666777777777766666666666665554   334455566666543

>PF07989 Microtub_assoc: Microtubule associated; InterPro: IPR012943 Proteins with this domain associate with the spindle body during cell division []

Probab=83.14  E-value=13  Score=30.59  Aligned_cols=67  Identities=18%  Similarity=0.269  Sum_probs=34.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531           77 QKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALE  143 (441)
Q Consensus        77 ~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~eVe~Lkkeie~~ek~~eeLE  143 (441)
                      ..+..|.++.+....|-=.|..|.........++...+.....+|.-++..|++++....+.+..++
T Consensus         4 Eqe~~i~~L~KENF~LKLrI~fLee~l~~~~~~~~~~~~keNieLKve~~~L~~el~~~~~~l~~a~   70 (75)
T PF07989_consen    4 EQEEQIDKLKKENFNLKLRIYFLEERLQKLGPESIEELLKENIELKVEVESLKRELQEKKKLLKEAE   70 (75)
T ss_pred             HHHHHHHHHHHhhhhHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3455555555555555555555543332233344445555555566666666555555555554443

>PF14282 FlxA: FlxA-like protein

Probab=83.11  E-value=8.8  Score=33.28  Aligned_cols=21  Identities=24%  Similarity=0.555  Sum_probs=9.7

Q ss_pred             hHhHHHHHHHHHHHHhhHHHH
Q 013531           44 KIELDQLKSKIRSLESHIDEK   64 (441)
Q Consensus        44 ~~el~~l~~~i~~Les~i~~~   64 (441)
                      ...+..|+..|..|..+|.++
T Consensus        18 ~~~I~~L~~Qi~~Lq~ql~~l   38 (106)
T PF14282_consen   18 DSQIEQLQKQIKQLQEQLQEL   38 (106)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            444444444444444444444

>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=83.08  E-value=77  Score=37.61  Aligned_cols=19  Identities=16%  Similarity=-0.001  Sum_probs=8.6

Q ss_pred             hhcchhHHHHhhhhhhHHH
Q 013531          309 EVVDPYFQEAKKFSKPYID  327 (441)
Q Consensus       309 ~~v~Py~~e~ke~~~py~~  327 (441)
                      .++..+-+-+.-|+++.-+
T Consensus       480 ~Fi~~~~eD~~lf~~~i~d  498 (1072)
T KOG0979|consen  480 AFICCDSEDYLLFVKKIKD  498 (1072)
T ss_pred             eeeeechHHHHHHHHHhhh
Confidence            3444444444444444443

>PF14073 Cep57_CLD: Centrosome localisation domain of Cep57

Probab=82.98  E-value=45  Score=31.92  Aligned_cols=136  Identities=26%  Similarity=0.382  Sum_probs=75.3

Q ss_pred             HHHHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHHHHHH
Q 013531           47 LDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQID  126 (441)
Q Consensus        47 l~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~eVe  126 (441)
                      |--|..||.+||-.-..-+..++.-+.+...-.++.......-..-.++. +   +..-+-..+...|++|-.-|++|++
T Consensus         6 LK~LQeKIrrLELER~qAe~nl~~LS~et~~yk~vl~~~~~~~~~~~~e~-~---~q~~dl~~qL~aAEtRCslLEKQLe   81 (178)
T PF14073_consen    6 LKNLQEKIRRLELERSQAEDNLKQLSRETSHYKKVLQSEQNERERAHQEL-S---KQNQDLSSQLSAAETRCSLLEKQLE   81 (178)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHhHHHHHHHhhhhhcccchh-h---hccHHHHHHHHHHHHHHHHHHHHHH
Confidence            33466777777655554444444444444433333321111000000000 0   0022445667789999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHH
Q 013531          127 NLKKESEKQQKEKEALEARAIEAEKK--------------ISDLSAKLEKLQKINDEQKSKIRKTERALK-EEMM  186 (441)
Q Consensus       127 ~Lkkeie~~ek~~eeLEark~eLEkk--------------leELekklEeLek~~aEQk~qIeelEk~lk-eei~  186 (441)
                      ..++-+...+.+...+-.+...++..              ++-|+.+.-.|.....--+..|..+|..+. ++-+
T Consensus        82 yMRkmv~~ae~er~~~le~q~~l~~e~~~~~~~~~~klekLe~LE~E~~rLt~~Q~~ae~Ki~~LE~KL~eEehq  156 (178)
T PF14073_consen   82 YMRKMVESAEKERNAVLEQQVSLQRERQQDQSELQAKLEKLEKLEKEYLRLTATQSLAETKIKELEEKLQEEEHQ  156 (178)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHhccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99988888776666665555554443              333444444444455556677888888887 4433

>KOG1003 consensus Actin filament-coating protein tropomyosin [Cytoskeleton]

Probab=82.97  E-value=48  Score=32.27  Aligned_cols=35  Identities=14%  Similarity=0.162  Sum_probs=15.3

Q ss_pred             HHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHH
Q 013531           56 SLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIV   90 (441)
Q Consensus        56 ~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~   90 (441)
                      .+..++.+.++.-++....++-.++.....+..+.
T Consensus        29 ~a~~KL~Eaeq~~dE~er~~Kv~enr~~kdEE~~e   63 (205)
T KOG1003|consen   29 TALQKLEEAEQAADESERGMKVIENRAQKLEEKME   63 (205)
T ss_pred             HHHHHHHHHhhcccHHHHHHHHHHHHHHhhHHHHH
Confidence            33444444444444444444444444444443333

>TIGR03752 conj_TIGR03752 integrating conjugative element protein, PFL_4705 family

Probab=82.93  E-value=15  Score=39.88  Aligned_cols=31  Identities=19%  Similarity=0.383  Sum_probs=15.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          151 KKISDLSAKLEKLQKINDEQKSKIRKTERAL  181 (441)
Q Consensus       151 kkleELekklEeLek~~aEQk~qIeelEk~l  181 (441)
                      ....++..+.++|+......+..++++.+++
T Consensus       109 ~~~~~~~~~~~ql~~~~~~~~~~l~~l~~~l  139 (472)
T TIGR03752       109 SETQELTKEIEQLKSERQQLQGLIDQLQRRL  139 (472)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334455555555555555555555555444

Members of this protein family are found occasionally on plasmids such as the Pseudomonas putida toluene catabolic TOL plasmid pWWO_p085. Usually, however, they are found on the bacterial main chromosome in regions flanked by markers of conjugative transfer and/or transposition.

>PRK10698 phage shock protein PspA; Provisional

Probab=82.86  E-value=49  Score=32.30  Aligned_cols=108  Identities=18%  Similarity=0.170  Sum_probs=45.6

Q ss_pred             HHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhh----HHHHHHHHHHHHHHH
Q 013531           50 LKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQ----VDKAHARADELEKQI  125 (441)
Q Consensus        50 l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~----~~~a~~~~~eLe~eV  125 (441)
                      |+.=|..++..+.+..+.+..---.-+..+..+.+....|...+..-..--.+|.-+....    ...+..++..|+.++
T Consensus        29 l~q~i~em~~~l~~~r~alA~~~A~~k~~er~~~~~~~~~~~~e~kA~~Al~~G~EdLAr~AL~~K~~~~~~~~~l~~~~  108 (222)
T PRK10698         29 VRLMIQEMEDTLVEVRSTSARALAEKKQLTRRIEQAEAQQVEWQEKAELALRKEKEDLARAALIEKQKLTDLIATLEHEV  108 (222)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444455555555544444332222333444455555555555544333223332221111    112334444444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          126 DNLKKESEKQQKEKEALEARAIEAEKKISDLS  157 (441)
Q Consensus       126 e~Lkkeie~~ek~~eeLEark~eLEkkleELe  157 (441)
                      +.....++.+..++..|+.+..++..+...|-
T Consensus       109 ~~~~~~~~~L~~~l~~L~~ki~eak~k~~~L~  140 (222)
T PRK10698        109 TLVDETLARMKKEIGELENKLSETRARQQALM  140 (222)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444444444444444444444444444433

>PRK15422 septal ring assembly protein ZapB; Provisional

Probab=82.85  E-value=27  Score=29.24  Aligned_cols=26  Identities=27%  Similarity=0.371  Sum_probs=14.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013531           75 VAQKEKAIQDKSERIVSLQKELSSLQ  100 (441)
Q Consensus        75 l~~ke~~i~ek~~~I~~l~~ei~sLq  100 (441)
                      +.++|.-|+..-..|.-|+-||+-|.
T Consensus         6 leqLE~KIqqAvdtI~LLqmEieELK   31 (79)
T PRK15422          6 FEKLEAKVQQAIDTITLLQMEIEELK   31 (79)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34445555555556666666666663

>PRK09343 prefoldin subunit beta; Provisional

Probab=82.64  E-value=34  Score=30.30  Aligned_cols=34  Identities=12%  Similarity=0.256  Sum_probs=13.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          149 AEKKISDLSAKLEKLQKINDEQKSKIRKTERALK  182 (441)
Q Consensus       149 LEkkleELekklEeLek~~aEQk~qIeelEk~lk  182 (441)
                      ++++++.++.++..+++.....+.++.+++..+.
T Consensus        76 l~~r~E~ie~~ik~lekq~~~l~~~l~e~q~~l~  109 (121)
T PRK09343         76 LKERKELLELRSRTLEKQEKKLREKLKELQAKIN  109 (121)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333334444444444444444444444333

>PRK04325 hypothetical protein; Provisional

Probab=82.56  E-value=10  Score=31.01  Aligned_cols=30  Identities=17%  Similarity=0.080  Sum_probs=12.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          117 RADELEKQIDNLKKESEKQQKEKEALEARA  146 (441)
Q Consensus       117 ~~~eLe~eVe~Lkkeie~~ek~~eeLEark  146 (441)
                      |+.+|+.++.-++..|++++.-+..+....
T Consensus        10 Ri~~LE~klAfQE~tIe~LN~vv~~Qq~~I   39 (74)
T PRK04325         10 RITELEIQLAFQEDLIDGLNATVARQQQTL   39 (74)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444444444444444444444444333333

>PF08647 BRE1: BRE1 E3 ubiquitin ligase; InterPro: IPR013956 BRE1 is an E3 ubiquitin ligase that has been shown to act as a transcriptional activator through direct activator interactions []

Probab=82.49  E-value=28  Score=29.61  Aligned_cols=22  Identities=14%  Similarity=0.249  Sum_probs=9.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhh
Q 013531           79 EKAIQDKSERIVSLQKELSSLQ  100 (441)
Q Consensus        79 e~~i~ek~~~I~~l~~ei~sLq  100 (441)
                      ...+..+-..+..+++.+.-|.
T Consensus        16 ~~~~~~k~~~~~~lE~k~~rl~   37 (96)
T PF08647_consen   16 SEQADKKVKELTILEQKKLRLE   37 (96)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333344444444444444

>TIGR01069 mutS2 MutS2 family protein

Probab=82.28  E-value=33  Score=39.55  Aligned_cols=43  Identities=23%  Similarity=0.335  Sum_probs=30.3

Q ss_pred             ccHHHHHHHHHHHHHHHHHHH------------HHHHHHHHHHHHhcCCCchhcc
Q 013531          346 PYTKKVVRAYGKFLKSATTYH------------HQVQASVQEMLKKHELTSPLAT  388 (441)
Q Consensus       346 Py~e~v~~~~k~~~~~a~~~H------------~q~Q~~v~~~l~~~e~~~~~at  388 (441)
                      =.++.+...+..|+..|....            -.+...|.++|.+|++.+.|-.
T Consensus       701 ~~~~eA~~~l~~~ld~a~~~g~~~v~IIHGkGtG~Lr~~v~~~L~~~~~V~~f~~  755 (771)
T TIGR01069       701 QRSEEALDRLEKFLNDALLAGYEVVLIIHGKGSGKLRKGVQELLKNHPKVKSFRD  755 (771)
T ss_pred             CCHHHHHHHHHHHHHHHHHCCCCEEEEEcCCChhHHHHHHHHHhcCCcceeeecc
Confidence            345556666666666655443            3688899999999999888744

Function of MutS2 is unknown. It should not be considered a DNA mismatch repair protein. It is likely a DNA mismatch binding protein of unknown cellular function.

>KOG3433 consensus Protein involved in meiotic recombination/predicted coiled-coil protein [Cell cycle control, cell division, chromosome partitioning; General function prediction only]

Probab=82.15  E-value=29  Score=33.50  Aligned_cols=32  Identities=31%  Similarity=0.435  Sum_probs=19.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          113 KAHARADELEKQIDNLKKESEKQQKEKEALEA  144 (441)
Q Consensus       113 ~a~~~~~eLe~eVe~Lkkeie~~ek~~eeLEa  144 (441)
                      +-+++.++|+.+...|+++++.+.-+...++.
T Consensus       113 ~tEer~~el~kklnslkk~~e~lr~el~k~~e  144 (203)
T KOG3433|consen  113 ETEERTDELTKKLNSLKKILESLRWELAKIQE  144 (203)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            45556666666666666666666655554443

>PRK02793 phi X174 lysis protein; Provisional

Probab=82.09  E-value=10  Score=30.85  Aligned_cols=42  Identities=21%  Similarity=0.165  Sum_probs=19.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          115 HARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDL  156 (441)
Q Consensus       115 ~~~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleEL  156 (441)
                      ++|+.+|+.++.-.+..|+.+|+-+..+......+..++..+
T Consensus         7 e~Ri~~LE~~lafQe~tIe~Ln~~v~~Qq~~I~~L~~~l~~L   48 (72)
T PRK02793          7 EARLAELESRLAFQEITIEELNVTVTAHEMEMAKLRDHLRLL   48 (72)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344555555555555555554444444444443333333333

>PF08172 CASP_C: CASP C terminal; InterPro: IPR012955 This domain is the C-terminal region of the CASP family of proteins

Probab=81.98  E-value=10  Score=37.80  Aligned_cols=45  Identities=18%  Similarity=0.286  Sum_probs=29.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          123 KQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKIN  167 (441)
Q Consensus       123 ~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~  167 (441)
                      ..+.=+..+-|....+..+||.+.......+..|..+++.|...+
T Consensus        79 siLpIVtsQRDRFR~Rn~ELE~elr~~~~~~~~L~~Ev~~L~~DN  123 (248)
T PF08172_consen   79 SILPIVTSQRDRFRQRNAELEEELRKQQQTISSLRREVESLRADN  123 (248)
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344555666667777777777777666666677776666666443

These are Golgi membrane proteins which are thought to have a role in vesicle transport [].; GO: 0006891 intra-Golgi vesicle-mediated transport, 0030173 integral to Golgi membrane

>KOG2991 consensus Splicing regulator [RNA processing and modification]

Probab=81.94  E-value=32  Score=34.85  Aligned_cols=105  Identities=17%  Similarity=0.246  Sum_probs=52.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHHH------------HHHHHHHHHHHHHHHHHHH
Q 013531           75 VAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEK------------QIDNLKKESEKQQKEKEAL  142 (441)
Q Consensus        75 l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~------------eVe~Lkkeie~~ek~~eeL  142 (441)
                      ...+.+.+++..++|.++|++|+.-.=.  .+.+.|. ...|+-..|..            +|.+|.-++.-+++..+++
T Consensus       179 F~rlK~ele~tk~Klee~QnelsAwkFT--PdS~tGK-~LMAKCR~L~qENeElG~q~s~Gria~Le~eLAmQKs~seEl  255 (330)
T KOG2991|consen  179 FLRLKGELEQTKDKLEEAQNELSAWKFT--PDSKTGK-MLMAKCRTLQQENEELGHQASEGRIAELEIELAMQKSQSEEL  255 (330)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhheeeec--CCCcchH-HHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHHhhHHHH
Confidence            3445677788888999999998764211  1111100 12222222222            2334444444444455555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          143 EARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALK  182 (441)
Q Consensus       143 Eark~eLEkkleELekklEeLek~~aEQk~qIeelEk~lk  182 (441)
                      .+...++-.-+.+|...++.++..+--++.++.+.++.|+
T Consensus       256 kssq~eL~dfm~eLdedVEgmqsTiliLQq~Lketr~~Iq  295 (330)
T KOG2991|consen  256 KSSQEELYDFMEELDEDVEGMQSTILILQQKLKETRKEIQ  295 (330)
T ss_pred             HHhHHHHHHHHHHHHHHHhcchhhHHHHHHHHHHHHHHHH
Confidence            5555555555555555555555555545555555554443

>PRK00846 hypothetical protein; Provisional

Probab=81.85  E-value=8.9  Score=31.84  Aligned_cols=22  Identities=18%  Similarity=0.167  Sum_probs=9.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhh
Q 013531           79 EKAIQDKSERIVSLQKELSSLQ  100 (441)
Q Consensus        79 e~~i~ek~~~I~~l~~ei~sLq  100 (441)
                      |+.|.++++.|...+..|+.|+
T Consensus        26 e~tIe~LN~~v~~qq~~I~~L~   47 (77)
T PRK00846         26 EQALTELSEALADARLTGARNA   47 (77)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            4444444444444444444443

>KOG1899 consensus LAR transmembrane tyrosine phosphatase-interacting protein liprin [General function prediction only]

Probab=81.75  E-value=36  Score=38.40  Aligned_cols=112  Identities=20%  Similarity=0.204  Sum_probs=53.4

Q ss_pred             HhHHHHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHHHH
Q 013531           45 IELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQ  124 (441)
Q Consensus        45 ~el~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~e  124 (441)
                      .+-+.+..+++.|+-.-+.+--+..--++.+..--+-|.+++--|...++.+.+-        +|....-.=....||.|
T Consensus       104 ~~~~~yQerLaRLe~dkesL~LQvsvLteqVeaQgEKIrDLE~cie~kr~kLnat--------EEmLQqellsrtsLETq  175 (861)
T KOG1899|consen  104 PEYPEYQERLARLEMDKESLQLQVSVLTEQVEAQGEKIRDLETCIEEKRNKLNAT--------EEMLQQELLSRTSLETQ  175 (861)
T ss_pred             CcchHHHHHHHHHhcchhhheehHHHHHHHHHHhhhhHHHHHHHHHHHHhhhchH--------HHHHHHHHHhhhhHHHH
Confidence            3444456666666666666555555544444444444444555544444444322        22222222223444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          125 IDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQ  164 (441)
Q Consensus       125 Ve~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLe  164 (441)
                      --+|=.++..++-+...+|.++++-|++....+..+++++
T Consensus       176 KlDLmaevSeLKLkltalEkeq~e~E~K~R~se~l~qevn  215 (861)
T KOG1899|consen  176 KLDLMAEVSELKLKLTALEKEQNETEKKLRLSENLMQEVN  215 (861)
T ss_pred             HhHHHHHHHHhHHHHHHHHHHhhhHHHHHHhHHHHHHHHH
Confidence            4444444555555555555555554444444444444444

>PF15450 DUF4631: Domain of unknown function (DUF4631)

Probab=81.60  E-value=86  Score=34.67  Aligned_cols=31  Identities=13%  Similarity=0.290  Sum_probs=15.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          114 AHARADELEKQIDNLKKESEKQQKEKEALEA  144 (441)
Q Consensus       114 a~~~~~eLe~eVe~Lkkeie~~ek~~eeLEa  144 (441)
                      +.+...++.+.|++|-.+|+.++.+.....+
T Consensus       410 ~~~~l~~v~eKVd~LpqqI~~vs~Kc~~~Ks  440 (531)
T PF15450_consen  410 MEKHLKEVQEKVDSLPQQIEEVSDKCDLHKS  440 (531)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh
Confidence            3344555555555555555555554444433

>KOG0962 consensus DNA repair protein RAD50, ABC-type ATPase/SMC superfamily [Replication, recombination and repair]

Probab=81.48  E-value=62  Score=39.39  Aligned_cols=92  Identities=20%  Similarity=0.297  Sum_probs=50.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531           73 EVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVD--KAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAE  150 (441)
Q Consensus        73 ~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~--~a~~~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLE  150 (441)
                      +.+...-+.|+..-+.+.+...+|.-|++.+......++.  -+-+++.-|++.+.+|.+.+..+..++..+.++..-+.
T Consensus       833 ~~~~~~rke~E~~~k~~~~~~~~i~~l~~~~~e~k~~~~~~~~~l~~~~qle~~~~~l~e~~~~~~s~~~e~~~~~~~~~  912 (1294)
T KOG0962|consen  833 ESLDKLRKEIECLQKEVIEQEREISRLINLRNELKEEKQKIERSLARLQQLEEDIEELSEEITRLDSKVKELLERIQPLK  912 (1294)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHhhhcchh
Confidence            3333334444555555556666666666655444444333  33345566666777777777777777666666665555


Q ss_pred             HHHHHHHHHHHHHH
Q 013531          151 KKISDLSAKLEKLQ  164 (441)
Q Consensus       151 kkleELekklEeLe  164 (441)
                      ..+.++.+..+++.
T Consensus       913 ~~l~e~~s~~e~~k  926 (1294)
T KOG0962|consen  913 VELEEAQSEKEELK  926 (1294)
T ss_pred             hhHHHHHHHHHHHH
Confidence            44444444444443

>PF05377 FlaC_arch: Flagella accessory protein C (FlaC); InterPro: IPR008039 Although archaeal flagella appear superficially similar to those of bacteria, they are quite distinct []

Probab=81.38  E-value=5.9  Score=30.92  Aligned_cols=17  Identities=0%  Similarity=0.319  Sum_probs=7.9

Q ss_pred             HHHHHHHHHHHHHHHhh
Q 013531           84 DKSERIVSLQKELSSLQ  100 (441)
Q Consensus        84 ek~~~I~~l~~ei~sLq  100 (441)
                      +.++.+..+++.|.+++
T Consensus         4 elEn~~~~~~~~i~tvk   20 (55)
T PF05377_consen    4 ELENELPRIESSINTVK   20 (55)
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            34444444444444444

In several archaea, the flagellin genes are followed immediately by the flagellar accessory genes flaCDEFGHIJ. The gene products may have a role in translocation, secretion, or assembly of the flagellum. FlaC is a protein whose exact role is unknown but it has been shown to be membrane-associated (by immuno-blotting fractionated cells) [].

>PF10211 Ax_dynein_light: Axonemal dynein light chain; InterPro: IPR019347 Axonemal dynein light chain proteins play a dynamic role in flagellar and cilial motility

Probab=81.31  E-value=51  Score=31.43  Aligned_cols=14  Identities=14%  Similarity=0.190  Sum_probs=6.4

Q ss_pred             chhHhHHHHHHHHH
Q 013531           42 PLKIELDQLKSKIR   55 (441)
Q Consensus        42 ~~~~el~~l~~~i~   55 (441)
                      +.+.+.-+|...++
T Consensus        30 ~tR~dVi~L~e~Ld   43 (189)
T PF10211_consen   30 ATRQDVIQLQEWLD   43 (189)
T ss_pred             CCHHHHHHHHHHHH
Confidence            34445544444443

Eukaryotic cilia and flagella are complex organelles consisting of a core structure, the axoneme, which is composed of nine microtubule doublets forming a cylinder that surrounds a pair of central singlet microtubules. This ultra-structural arrangement seems to be one of the most stable micro-tubular assemblies known and is responsible for the flagellar and ciliary movement of a large number of organisms ranging from protozoan to mammals. This light chain interacts directly with the N-terminal half of the heavy chains [].

>PF02403 Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal domain; InterPro: IPR015866 The aminoacyl-tRNA synthetases (6

Probab=81.28  E-value=23  Score=30.06  Aligned_cols=14  Identities=36%  Similarity=0.468  Sum_probs=5.7

Q ss_pred             HHHHHHHHHHHHhh
Q 013531           87 ERIVSLQKELSSLQ  100 (441)
Q Consensus        87 ~~I~~l~~ei~sLq  100 (441)
                      ..-.++..+++.|+
T Consensus        36 ~~~r~l~~~~e~lr   49 (108)
T PF02403_consen   36 QERRELQQELEELR   49 (108)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
Confidence            33334444444443

1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the N-terminal domain of Seryl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Seryl-tRNA synthetase (6.1.1.11 from EC) exists as monomer and belongs to class IIa [].; GO: 0000166 nucleotide binding, 0004828 serine-tRNA ligase activity, 0005524 ATP binding, 0006434 seryl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 3QO8_A 3QO5_A 3QO7_A 3QNE_A 3LSQ_A 3LSS_A 2DQ3_B 1SET_A 1SER_A 1SRY_B ....

>PRK10869 recombination and repair protein; Provisional

Probab=81.20  E-value=71  Score=35.34  Aligned_cols=13  Identities=23%  Similarity=0.340  Sum_probs=4.9

Q ss_pred             HHHHHHHHHHHHH
Q 013531          118 ADELEKQIDNLKK  130 (441)
Q Consensus       118 ~~eLe~eVe~Lkk  130 (441)
                      +.++++++..|.+
T Consensus       298 l~~ie~Rl~~l~~  310 (553)
T PRK10869        298 LAELEQRLSKQIS  310 (553)
T ss_pred             HHHHHHHHHHHHH
Confidence            3333333333333

>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]

Probab=81.18  E-value=45  Score=33.23  Aligned_cols=8  Identities=38%  Similarity=0.526  Sum_probs=4.1

Q ss_pred             HHHHHHhh
Q 013531           93 QKELSSLQ  100 (441)
Q Consensus        93 ~~ei~sLq  100 (441)
                      -.-+.+||
T Consensus       118 RAGLktL~  125 (290)
T COG4026         118 RAGLKTLQ  125 (290)
T ss_pred             HHHHHHHh
Confidence            34455565

>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=81.13  E-value=29  Score=28.51  Aligned_cols=62  Identities=23%  Similarity=0.386  Sum_probs=28.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531           76 AQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKK  152 (441)
Q Consensus        76 ~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkk  152 (441)
                      .++|.-|+..-..|.=||-||.-|..++               +.|..++.+++...+.++.+.+.+..+......+
T Consensus         7 ekLE~KiqqAvdTI~LLQmEieELKEkn---------------n~l~~e~q~~q~~reaL~~eneqlk~e~~~WQer   68 (79)
T COG3074           7 EKLEAKVQQAIDTITLLQMEIEELKEKN---------------NSLSQEVQNAQHQREALERENEQLKEEQNGWQER   68 (79)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHh---------------hHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444455555555555553222               2333444444444444444444444444444433

>KOG0244 consensus Kinesin-like protein [Cytoskeleton]

Probab=81.11  E-value=24  Score=41.16  Aligned_cols=54  Identities=26%  Similarity=0.278  Sum_probs=24.6

Q ss_pred             HHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 013531           50 LKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKE  103 (441)
Q Consensus        50 l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~  103 (441)
                      +..++..|+.+|++.+...+....+..++..+-+..++.+..|..++.-||.+.
T Consensus       472 ls~el~el~k~l~~Ke~l~rr~~~~~~~~~~~~~~~e~~~~~le~e~~~le~E~  525 (913)
T KOG0244|consen  472 LSGELSELEKRLAEKEPLTRRKAYEKAEKSKAKEQYESDSGTLEAEKSPLESER  525 (913)
T ss_pred             hhHHHHHHHhhhccccHHHHHHHHhhhhhhHHHHHHhhhhhhHHHHhccccccc
Confidence            444444444444444444444443333444444444555555555554444433

>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=81.09  E-value=1.1e+02  Score=35.08  Aligned_cols=111  Identities=25%  Similarity=0.318  Sum_probs=61.9

Q ss_pred             CchhHhHHHHHHHHHHHHhhHHHHhhhhcchh-HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHH
Q 013531           41 SPLKIELDQLKSKIRSLESHIDEKTQELKGKD-EVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARAD  119 (441)
Q Consensus        41 ~~~~~el~~l~~~i~~Les~i~~~~~~i~~k~-~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~  119 (441)
                      ..+..||.+||.+=+.|-+++.--..-|..+= .--.+-+..+...+.....|+.++.--++.. .....|...|.....
T Consensus       474 ~dL~~ELqqLReERdRl~aeLqlSa~liqqeV~~ArEqgeaE~~~Lse~aqqLE~~Lq~~qe~l-a~l~~QL~~Ar~~lq  552 (739)
T PF07111_consen  474 TDLSLELQQLREERDRLDAELQLSARLIQQEVGRAREQGEAERQQLSEVAQQLEQELQEKQESL-AELEEQLEAARKSLQ  552 (739)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHhhHH
Confidence            34577788877777776666543222222211 1111224445555555666666654444322 233566667777777


Q ss_pred             HHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHH
Q 013531          120 ELEKQIDNLKKESEKQQKEKE-ALEARAIEAEKK  152 (441)
Q Consensus       120 eLe~eVe~Lkkeie~~ek~~e-eLEark~eLEkk  152 (441)
                      +.+.+...|+.++..+....+ +++.+.+++|.+
T Consensus       553 es~eea~~lR~EL~~QQ~~y~~alqekvsevEsr  586 (739)
T PF07111_consen  553 ESTEEAAELRRELTQQQEVYERALQEKVSEVESR  586 (739)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            777888888777777765554 455555555543

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

>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=81.09  E-value=56  Score=36.08  Aligned_cols=32  Identities=19%  Similarity=0.286  Sum_probs=20.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          147 IEAEKKISDLSAKLEKLQKINDEQKSKIRKTE  178 (441)
Q Consensus       147 ~eLEkkleELekklEeLek~~aEQk~qIeelE  178 (441)
                      ..=|.++..+...+..|++....|...|+.+.
T Consensus       483 ~NYE~QLs~MSEHLasmNeqL~~Q~eeI~~LK  514 (518)
T PF10212_consen  483 RNYEEQLSMMSEHLASMNEQLAKQREEIQTLK  514 (518)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            33455666666666666666666666666654

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.

>PF05557 MAD: Mitotic checkpoint protein; InterPro: IPR008672 This family consists of several eukaryotic mitotic checkpoint (Mitotic arrest deficient or MAD) proteins

Probab=80.98  E-value=0.49  Score=53.36  Aligned_cols=17  Identities=35%  Similarity=0.593  Sum_probs=0.0

Q ss_pred             hHHHHHHHHHHHHhhHH
Q 013531           46 ELDQLKSKIRSLESHID   62 (441)
Q Consensus        46 el~~l~~~i~~Les~i~   62 (441)
                      ++..++.+|.+|+..|.
T Consensus        62 e~~~~k~~l~~Le~e~~   78 (722)
T PF05557_consen   62 ELIELKAQLNQLEYELE   78 (722)
T ss_dssp             -----------------
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            33444444444444333

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.

>KOG4603 consensus TBP-1 interacting protein [Signal transduction mechanisms]

Probab=80.93  E-value=44  Score=32.01  Aligned_cols=53  Identities=21%  Similarity=0.261  Sum_probs=33.6

Q ss_pred             hhHhHHHHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013531           43 LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQ  100 (441)
Q Consensus        43 ~~~el~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq  100 (441)
                      ...|+..|+-+|..|+.++.++-+++..-+.+|+.+++.+     .+.++|.+|++|.
T Consensus        77 ~~eel~~ld~~i~~l~ek~q~l~~t~s~veaEik~L~s~L-----t~eemQe~i~~L~  129 (201)
T KOG4603|consen   77 SDEELQVLDGKIVALTEKVQSLQQTCSYVEAEIKELSSAL-----TTEEMQEEIQELK  129 (201)
T ss_pred             ChHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc-----ChHHHHHHHHHHH
Confidence            3467777888888887777777666666444444444332     3455666666664

>COG1382 GimC Prefoldin, chaperonin cofactor [Posttranslational modification, protein turnover, chaperones]

Probab=80.89  E-value=20  Score=32.20  Aligned_cols=36  Identities=19%  Similarity=0.322  Sum_probs=19.3

Q ss_pred             HhHHHHHHHHHHHHhhHHHHhhhhcchhHHHHHHHH
Q 013531           45 IELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEK   80 (441)
Q Consensus        45 ~el~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~   80 (441)
                      .++.+|..+++.+--....++.+|++-+..+.+++.
T Consensus        13 ~q~QqLq~ql~~~~~qk~~le~qL~E~~~al~Ele~   48 (119)
T COG1382          13 AQLQQLQQQLQKVILQKQQLEAQLKEIEKALEELEK   48 (119)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            445555555555555555555555555555555543

>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=80.89  E-value=21  Score=39.18  Aligned_cols=49  Identities=16%  Similarity=0.253  Sum_probs=20.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          118 ADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDE  169 (441)
Q Consensus       118 ~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~aE  169 (441)
                      +.++...+..|+++++...   ...|...+.+-..+..++.++....+.++.
T Consensus       464 L~~a~~~i~~LqDEL~TTr---~NYE~QLs~MSEHLasmNeqL~~Q~eeI~~  512 (518)
T PF10212_consen  464 LKEANQNISRLQDELETTR---RNYEEQLSMMSEHLASMNEQLAKQREEIQT  512 (518)
T ss_pred             HHHHHHHHHHHHHHHHHHH---hhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444444444444444333   233344444444444444444444444333

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=80.87  E-value=46  Score=33.99  Aligned_cols=80  Identities=25%  Similarity=0.356  Sum_probs=41.1

Q ss_pred             CchhHhHHHHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHH---HHHHHHHHHHHHhhhhchhhHHhhHHHHHHH
Q 013531           41 SPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKS---ERIVSLQKELSSLQKKETLNAAEQVDKAHAR  117 (441)
Q Consensus        41 ~~~~~el~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~---~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~  117 (441)
                      ..+.-|++.|+.+-..|++++..+++.-..          .+.|++   ..+.+++........+...      .--...
T Consensus       128 ~ll~kEi~rLq~EN~kLk~rl~~le~~at~----------~l~Ek~kl~~~L~~lq~~~~~~~~k~~~------~~~~q~  191 (278)
T PF15294_consen  128 ELLNKEIDRLQEENEKLKERLKSLEKQATS----------ALDEKSKLEAQLKELQDEQGDQKGKKDL------SFKAQD  191 (278)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHhhhccccc------cccccc
Confidence            335677777888888887777766544333          233332   2333333322222211111      112235


Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q 013531          118 ADELEKQIDNLKKESEKQQ  136 (441)
Q Consensus       118 ~~eLe~eVe~Lkkeie~~e  136 (441)
                      +.+|+..+..++.+++..-
T Consensus       192 l~dLE~k~a~lK~e~ek~~  210 (278)
T PF15294_consen  192 LSDLENKMAALKSELEKAL  210 (278)
T ss_pred             hhhHHHHHHHHHHHHHHHH
Confidence            6777777777766555443

>PF03148 Tektin: Tektin family; InterPro: IPR000435 Tektin heteropolymers form unique protofilaments of flagellar microtubules []

Probab=80.75  E-value=80  Score=33.29  Aligned_cols=22  Identities=18%  Similarity=0.352  Sum_probs=9.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHh
Q 013531           78 KEKAIQDKSERIVSLQKELSSL   99 (441)
Q Consensus        78 ke~~i~ek~~~I~~l~~ei~sL   99 (441)
                      ++..+.+-.+.|.+++.+|..|
T Consensus       263 Le~ql~~~~~ei~~~e~~i~~L  284 (384)
T PF03148_consen  263 LEWQLKKTLQEIAEMEKNIEDL  284 (384)
T ss_pred             HHHHHHhHHHHHHHHHHHHHHH
Confidence            3444444444444444444444

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

>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed

Probab=80.53  E-value=53  Score=37.94  Aligned_cols=42  Identities=26%  Similarity=0.392  Sum_probs=27.1

Q ss_pred             cHHHHHHHHHHHHHHHHH--------HH----HHHHHHHHHHHHhcCCCchhcc
Q 013531          347 YTKKVVRAYGKFLKSATT--------YH----HQVQASVQEMLKKHELTSPLAT  388 (441)
Q Consensus       347 y~e~v~~~~k~~~~~a~~--------~H----~q~Q~~v~~~l~~~e~~~~~at  388 (441)
                      .++.+...+..|+..|..        .|    -.+...|.++|.+|++.+.|-.
T Consensus       713 ~~eeA~~~l~~fl~~a~~~g~~~v~IIHGkGtG~Lr~~v~~~L~~~~~V~~f~~  766 (782)
T PRK00409        713 RYEEALERLDKYLDDALLAGYGEVLIIHGKGTGKLRKGVQEFLKKHPSVKSFRD  766 (782)
T ss_pred             CHHHHHHHHHHHHHHHHHcCCCEEEEEcCCChhHHHHHHHHHHcCCCceeeeee
Confidence            345555555555555442        11    2678889999999998887743

>PRK10698 phage shock protein PspA; Provisional

Probab=80.51  E-value=60  Score=31.72  Aligned_cols=16  Identities=13%  Similarity=0.073  Sum_probs=9.3

Q ss_pred             HHHHHHHHHHHHHhcc
Q 013531          235 DVAIQKALEKKAQAGK  250 (441)
Q Consensus       235 ~~~~~ka~~~~~~~~~  250 (441)
                      +.+.+++.+.-+++.+
T Consensus       169 ~rmE~ki~~~Ea~aea  184 (222)
T PRK10698        169 ESFERRIDQMEAEAES  184 (222)
T ss_pred             HHHHHHHHHHHHHHhH
Confidence            4466666666666554

>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=80.48  E-value=7.2  Score=40.27  Aligned_cols=92  Identities=21%  Similarity=0.334  Sum_probs=0.0

Q ss_pred             HHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHHHHHHHHH
Q 013531           50 LKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLK  129 (441)
Q Consensus        50 l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~eVe~Lk  129 (441)
                      ++.++.+++..+.+.+..+.....+|...+..|..+.........+...|+                      .+++..+
T Consensus       219 ~~~~l~~a~~~l~~~~~~L~~~~~~l~~l~~~l~~l~~~~~~~~~e~~~l~----------------------~~~~~~~  276 (344)
T PF12777_consen  219 KRQKLEEAEAELEEAEEQLAEKQAELAELEEKLAALQKEYEEAQKEKQELE----------------------EEIEETE  276 (344)
T ss_dssp             HHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------------------HHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------------------HHHHHHH


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          130 KESEKQQKEKEALEARAIEAEKKISDLSAKLEKL  163 (441)
Q Consensus       130 keie~~ek~~eeLEark~eLEkkleELekklEeL  163 (441)
                      ..++..+.=+..|..+.......+.+++.....+
T Consensus       277 ~kl~rA~~Li~~L~~E~~RW~~~~~~l~~~~~~l  310 (344)
T PF12777_consen  277 RKLERAEKLISGLSGEKERWSEQIEELEEQLKNL  310 (344)
T ss_dssp             HHHHHHHHHHHCCHHHHHCCHCHHHHHHHHHHHH
T ss_pred             hhhccHHHHHhhhcchhhhHHHHHHHHHHHhccc

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.

>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=80.47  E-value=36  Score=35.76  Aligned_cols=20  Identities=15%  Similarity=0.142  Sum_probs=12.9

Q ss_pred             HHHHHHHHhhHHHHhhhhcc
Q 013531           51 KSKIRSLESHIDEKTQELKG   70 (441)
Q Consensus        51 ~~~i~~Les~i~~~~~~i~~   70 (441)
                      -++++.|+.+|..+|+-|=.
T Consensus       208 la~~a~LE~RL~~LE~~lG~  227 (388)
T PF04912_consen  208 LARAADLEKRLARLESALGI  227 (388)
T ss_pred             HHHHHHHHHHHHHHHHHhCC
Confidence            45667777777776666555

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

>KOG2391 consensus Vacuolar sorting protein/ubiquitin receptor VPS23 [Posttranslational modification, protein turnover, chaperones; Intracellular trafficking, secretion, and vesicular transport]

Probab=80.44  E-value=16  Score=38.15  Aligned_cols=57  Identities=19%  Similarity=0.297  Sum_probs=34.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          113 KAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDE  169 (441)
Q Consensus       113 ~a~~~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~aE  169 (441)
                      .++++++.+.++.++|+..-+.++..+.+|+....+||.+...++..++-|.....+
T Consensus       222 r~eeeme~~~aeq~slkRt~EeL~~G~~kL~~~~etLEqq~~~L~~niDIL~~k~~e  278 (365)
T KOG2391|consen  222 RREEEMERLQAEQESLKRTEEELNIGKQKLVAMKETLEQQLQSLQKNIDILKSKVRE  278 (365)
T ss_pred             HHHHHHHHHHHHHHHHHhhHHHHHhhHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHH
Confidence            344445555566666666666666666666666666666666666666666555444

>TIGR01069 mutS2 MutS2 family protein

Probab=80.37  E-value=25  Score=40.45  Aligned_cols=18  Identities=11%  Similarity=0.102  Sum_probs=9.4

Q ss_pred             hHHHHhhhhhhHHHHHHh
Q 013531          314 YFQEAKKFSKPYIDQVAT  331 (441)
Q Consensus       314 y~~e~ke~~~py~~qa~~  331 (441)
                      .+.+|...++.|+++|..
T Consensus       702 ~~~eA~~~l~~~ld~a~~  719 (771)
T TIGR01069       702 RSEEALDRLEKFLNDALL  719 (771)
T ss_pred             CHHHHHHHHHHHHHHHHH
Confidence            445555555555555443

Function of MutS2 is unknown. It should not be considered a DNA mismatch repair protein. It is likely a DNA mismatch binding protein of unknown cellular function.

>PRK10246 exonuclease subunit SbcC; Provisional

Probab=80.32  E-value=95  Score=37.03  Aligned_cols=25  Identities=16%  Similarity=0.252  Sum_probs=9.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          157 SAKLEKLQKINDEQKSKIRKTERAL  181 (441)
Q Consensus       157 ekklEeLek~~aEQk~qIeelEk~l  181 (441)
                      +..+..++.........+..+...+
T Consensus       828 ~~~~~~~~~~~~~~~~~~~~~~~~l  852 (1047)
T PRK10246        828 QQELAQLAQQLRENTTRQGEIRQQL  852 (1047)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444433333333443333333

>TIGR02971 heterocyst_DevB ABC exporter membrane fusion protein, DevB family

Probab=80.06  E-value=69  Score=32.14  Aligned_cols=27  Identities=15%  Similarity=0.263  Sum_probs=16.9

Q ss_pred             hHhHHHHHHHHHHHHhhHHHHhhhhcc
Q 013531           44 KIELDQLKSKIRSLESHIDEKTQELKG   70 (441)
Q Consensus        44 ~~el~~l~~~i~~Les~i~~~~~~i~~   70 (441)
                      ...+.+++..+.++++.+..+...++.
T Consensus        54 ~~~~~~a~a~l~~a~a~~~~~~~~~~~   80 (327)
T TIGR02971        54 TAELDVARTQLDEAKARLAQVRAGAKK   80 (327)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhccccH
Confidence            345566667777777777666555444

Members of this protein family are found mostly in the Cyanobacteria, but also in the Planctomycetes. DevB from Anabaena sp. strain PCC 7120 is partially characterized as a membrane fusion protein of the DevBCA ABC exporter, probably a glycolipid exporter, required for heterocyst formation. Most Cyanobacteria have one member only, but Nostoc sp. PCC 7120 has seven members.

>PRK00286 xseA exodeoxyribonuclease VII large subunit; Reviewed

Probab=80.03  E-value=36  Score=36.15  Aligned_cols=17  Identities=12%  Similarity=0.397  Sum_probs=9.8

Q ss_pred             hHHHHHHHHHHHHhhHH
Q 013531           46 ELDQLKSKIRSLESHID   62 (441)
Q Consensus        46 el~~l~~~i~~Les~i~   62 (441)
                      ...++..+++.++..+.
T Consensus       261 ~~~e~~q~Ld~l~~rL~  277 (438)
T PRK00286        261 DRAELLQRLQQLQQRLA  277 (438)
T ss_pred             cHHHHHHHHHHHHHHHH
Confidence            34556666666665554

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	441
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	5e-15
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	8e-13
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	4e-10
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	5e-09
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	1e-08
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	2e-08
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	2e-07
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	8e-12
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	2e-11
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	4e-11
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	9e-11
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	1e-10
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	2e-10
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	6e-10
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	9e-09
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	6e-07
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-08
3lvg_D	190	LCB, clathrin light chain B; SELF assembly, coated	2e-06
2zuo_A	861	MVP, major vault protein; repeat domains, protein-	1e-05
2xs1_A	704	Programmed cell death 6-interacting protein; prote	2e-05
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	1e-04
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	3e-04
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	1e-04
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	3e-04
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	4e-04
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	4e-04
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	2e-04
2v71_A	189	Nuclear distribution protein NUDE-like 1; developm	3e-04
3hnw_A	138	Uncharacterized protein; coiled-coil, structural g	5e-04
2fxo_A	129	Myosin heavy chain, cardiac muscle beta isoform; c	8e-04

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus} Length = 1080

 Score = 76.7 bits (189), Expect = 5e-15
 Identities = 36/160 (22%), Positives = 71/160 (44%), Gaps = 12/160 (7%)

Query: 43   LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKK 102
             K     L++KI  L+  IDE+ +E K    ++ +        S     L+ ++  L+  
Sbjct: 919  YKKLHIGLENKIMQLQRKIDEQNKEYK---SLLEKMNNLEITYSTETEKLRSDVERLRMS 975

Query: 103  ETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEK 162
            E     E+   A  R   L+++I  L+KE  + Q EK+ +E  A + + +   L ++L++
Sbjct: 976  E-----EEAKNATNRVLSLQEEIAKLRKELHQTQTEKKTIEEWADKYKHETEQLVSELKE 1030

Query: 163  ----LQKINDEQKSKIRKTERALKEEMMRAKFEATSRSKE 198
                L+   +E   +I    + + E M +   E T + + 
Sbjct: 1031 QNTLLKTEKEELNRRIHDQAKEITETMEKKLVEETKQLEL 1070

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus} Length = 1080

 Score = 69.8 bits (171), Expect = 8e-13
 Identities = 31/150 (20%), Positives = 72/150 (48%), Gaps = 19/150 (12%)

Query: 43   LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKK 102
               E   L  K+ +LE     +T++L+   E +   E+  ++ + R++SLQ+E++ L+K 
Sbjct: 940  QNKEYKSLLEKMNNLEITYSTETEKLRSDVERLRMSEEEAKNATNRVLSLQEEIAKLRK- 998

Query: 103  ETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEK 162
                             + + +   +++ ++K + E E L +   E +++ + L  + E+
Sbjct: 999  --------------ELHQTQTEKKTIEEWADKYKHETEQLVS---ELKEQNTLLKTEKEE 1041

Query: 163  L-QKINDEQKSKIRKTERALKEEMMRAKFE 191
            L ++I+D+ K      E+ L EE  + + +
Sbjct: 1042 LNRRIHDQAKEITETMEKKLVEETKQLELD 1071

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus} Length = 1080

 Score = 61.3 bits (149), Expect = 4e-10
 Identities = 27/159 (16%), Positives = 55/159 (34%), Gaps = 4/159 (2%)

Query: 46  ELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETL 105
               ++    +L++ +       K +  +   K   IQ      ++      +L+    L
Sbjct: 834 RYQCMRDATIALQALLRGYLVRNKYQMMLREHKSIIIQKHVRGWLARVHYHRTLKAIVYL 893

Query: 106 NAAEQVDKAHARADEL---EKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEK 162
               +   A     +L    + ++  KK     + +   L+ +  E  K+   L  K+  
Sbjct: 894 QCCYRRMMAKRELKKLKIEARSVERYKKLHIGLENKIMQLQRKIDEQNKEYKSLLEKMNN 953

Query: 163 LQKINDEQKSKIRKTERALKEEMMRAKFEATSRSKELTE 201
           L+     +  K+R     L+     AK  AT+R   L E
Sbjct: 954 LEITYSTETEKLRSDVERLRMSEEEAK-NATNRVLSLQE 991

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus} Length = 1080

 Score = 57.4 bits (139), Expect = 5e-09
 Identities = 23/125 (18%), Positives = 47/125 (37%), Gaps = 3/125 (2%)

Query: 43   LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQK- 101
            L+I       K+RS    +    +E K     V   ++ I    + +   Q E  ++++ 
Sbjct: 954  LEITYSTETEKLRSDVERLRMSEEEAKNATNRVLSLQEEIAKLRKELHQTQTEKKTIEEW 1013

Query: 102  --KETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAK 159
              K      + V +   +   L+ + + L +    Q KE      + +  E K  +L   
Sbjct: 1014 ADKYKHETEQLVSELKEQNTLLKTEKEELNRRIHDQAKEITETMEKKLVEETKQLELDLN 1073

Query: 160  LEKLQ 164
             E+L+
Sbjct: 1074 DERLR 1078

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus} Length = 1080

 Score = 56.7 bits (137), Expect = 1e-08
 Identities = 31/171 (18%), Positives = 65/171 (38%), Gaps = 15/171 (8%)

Query: 43   LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQK-------EKAIQDKSERIVSLQKE 95
            ++     L++ +R      ++    L+    ++ QK               + IV LQ  
Sbjct: 838  MRDATIALQALLRGYLVR-NKYQMMLREHKSIIIQKHVRGWLARVHYHRTLKAIVYLQCC 896

Query: 96   LSSLQKKETLN----AAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEK 151
               +  K  L      A  V++       LE +I  L+++ ++Q KE ++L  +    E 
Sbjct: 897  YRRMMAKRELKKLKIEARSVERYKKLHIGLENKIMQLQRKIDEQNKEYKSLLEKMNNLEI 956

Query: 152  KISDLSAKLEKLQ---KINDEQKSKIRKTERALKEEMMRAKFEATSRSKEL 199
              S  + KL       ++++E+         +L+EE+ + + E      E 
Sbjct: 957  TYSTETEKLRSDVERLRMSEEEAKNATNRVLSLQEEIAKLRKELHQTQTEK 1007

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus} Length = 1080

 Score = 55.9 bits (135), Expect = 2e-08
 Identities = 21/159 (13%), Positives = 64/159 (40%), Gaps = 3/159 (1%)

Query: 49   QLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAA 108
            +           +            ++A++E        R V   K+L    + + +   
Sbjct: 875  RGWLARVHYHRTLKAIVYLQCCYRRMMAKRELKKLKIEARSVERYKKLHIGLENKIMQLQ 934

Query: 109  EQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKIND 168
             ++D+ +     L ++++NL+     + ++  +   R   +E++  + + ++  LQ+   
Sbjct: 935  RKIDEQNKEYKSLLEKMNNLEITYSTETEKLRSDVERLRMSEEEAKNATNRVLSLQEEIA 994

Query: 169  EQKSKIRKTE---RALKEEMMRAKFEATSRSKELTEVHS 204
            + + ++ +T+   + ++E   + K E      EL E ++
Sbjct: 995  KLRKELHQTQTEKKTIEEWADKYKHETEQLVSELKEQNT 1033

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus} Length = 1080

 Score = 52.8 bits (127), Expect = 2e-07
 Identities = 24/166 (14%), Positives = 62/166 (37%), Gaps = 12/166 (7%)

Query: 44   KIELDQLKSKIRSLESHIDEKT-----QELKGKDEVVAQKEKAIQDKSERIVSLQKELSS 98
            ++   +    I  L+            ++LK +   V + +K       +I+ LQ+++  
Sbjct: 880  RVHYHRTLKAIVYLQCCYRRMMAKRELKKLKIEARSVERYKKLHIGLENKIMQLQRKIDE 939

Query: 99   LQKKETLNAAEQVDKAHARADELEKQIDNLKKESE---KQQKEKEALEARAIEAEKKISD 155
              K+        ++K +        + + L+ + E     ++E +    R +  +++I+ 
Sbjct: 940  QNKE----YKSLLEKMNNLEITYSTETEKLRSDVERLRMSEEEAKNATNRVLSLQEEIAK 995

Query: 156  LSAKLEKLQKINDEQKSKIRKTERALKEEMMRAKFEATSRSKELTE 201
            L  +L + Q      +    K +   ++ +   K + T    E  E
Sbjct: 996  LRKELHQTQTEKKTIEEWADKYKHETEQLVSELKEQNTLLKTEKEE 1041

>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 = 66.4 bits (162), Expect = 8e-12
 Identities = 31/162 (19%), Positives = 67/162 (41%), Gaps = 4/162 (2%)

Query: 43   LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKK 102
            L+ E  +++ ++  LE  ++E+    +         +  I+   + I+ ++ + + L K 
Sbjct: 946  LQAEKKKMQQQMLDLEEQLEEEEAARQKLQLEKVTADGKIKKMEDDILIMEDQNNKLTK- 1004

Query: 103  ETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEK 162
            E     E+V        E E++  NL K   K +     LE R  + EK   +L     K
Sbjct: 1005 ERKLLEERVSDLTTNLAEEEEKAKNLTKLKNKHESMISELEVRLKKEEKSRQELEKIKRK 1064

Query: 163  LQKINDEQKSKIRKTER---ALKEEMMRAKFEATSRSKELTE 201
            L+  + +   +I + +     LK ++ + + E  +    L +
Sbjct: 1065 LEGESSDLHEQIAELQAQIAELKAQLAKKEEELQAALARLED 1106

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 65.2 bits (159), Expect = 2e-11
 Identities = 23/142 (16%), Positives = 59/142 (41%), Gaps = 1/142 (0%)

Query: 43   LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKK 102
            L++ L + +   + LE    +   E     E +A+ +  I +   ++   ++EL +   +
Sbjct: 1044 LEVRLKKEEKSRQELEKIKRKLEGESSDLHEQIAELQAQIAELKAQLAKKEEELQAALAR 1103

Query: 103  ETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEK 162
               +   Q + A  +  ELE  I +L+++ E ++  +   E +  +  +++  L  +LE 
Sbjct: 1104 LE-DETSQKNNALKKIRELESHISDLQEDLESEKAARNKAEKQKRDLSEELEALKTELED 1162

Query: 163  LQKINDEQKSKIRKTERALKEE 184
                   Q+       +   ++
Sbjct: 1163 TLDTTATQQELRGSDYKDDDDK 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 = 64.1 bits (156), Expect = 4e-11
 Identities = 29/156 (18%), Positives = 70/156 (44%), Gaps = 3/156 (1%)

Query: 46   ELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETL 105
               +L +K + LE  + E    ++ ++E   Q +   +   ++++ L+++L   +     
Sbjct: 914  MRVRLAAKKQELEEILHEMEARIEEEEERSQQLQAEKKKMQQQMLDLEEQLEEEEAARQ- 972

Query: 106  NAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQK 165
                +   A  +  ++E  I  ++ ++ K  KE++ LE R  +    +++   K + L K
Sbjct: 973  KLQLEKVTADGKIKKMEDDILIMEDQNNKLTKERKLLEERVSDLTTNLAEEEEKAKNLTK 1032

Query: 166  INDEQKSKIRKTERALKEEMMRAKFEATSRSKELTE 201
            + ++ +S I + E  LK+E      +   + K   E
Sbjct: 1033 LKNKHESMISELEVRLKKE--EKSRQELEKIKRKLE 1066

>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 = 63.3 bits (154), Expect = 9e-11
 Identities = 29/160 (18%), Positives = 63/160 (39%), Gaps = 8/160 (5%)

Query: 43   LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKK 102
            L  E + L+ K+++      E  +          + E+ + +   RI   ++    LQ +
Sbjct: 890  LCEEKNLLQEKLQAETELYAEAEEMRVRLAAKKQELEEILHEMEARIEEEEERSQQLQAE 949

Query: 103  ETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEK 162
            +         K   +  +LE+Q++  +   +K Q EK   + +  + E  I  +  +  K
Sbjct: 950  K--------KKMQQQMLDLEEQLEEEEAARQKLQLEKVTADGKIKKMEDDILIMEDQNNK 1001

Query: 163  LQKINDEQKSKIRKTERALKEEMMRAKFEATSRSKELTEV 202
            L K     + ++      L EE  +AK     ++K  + +
Sbjct: 1002 LTKERKLLEERVSDLTTNLAEEEEKAKNLTKLKNKHESMI 1041

>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 = 62.9 bits (153), Expect = 1e-10
 Identities = 38/172 (22%), Positives = 79/172 (45%), Gaps = 15/172 (8%)

Query: 43   LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKK 102
            L  E   L+ ++  L +++ E+ ++ K   ++  + E  I +   R+   +K    L+K 
Sbjct: 1002 LTKERKLLEERVSDLTTNLAEEEEKAKNLTKLKNKHESMISELEVRLKKEEKSRQELEKI 1061

Query: 103  ------ETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDL 156
                  E+ +  EQ+ +  A+  EL+ Q+   ++E +      E   ++   A KKI +L
Sbjct: 1062 KRKLEGESSDLHEQIAELQAQIAELKAQLAKKEEELQAALARLEDETSQKNNALKKIREL 1121

Query: 157  SAKLEKLQ-KINDEQ--KSKIRKTERALKEEM------MRAKFEATSRSKEL 199
             + +  LQ  +  E+  ++K  K +R L EE+      +    + T+  +EL
Sbjct: 1122 ESHISDLQEDLESEKAARNKAEKQKRDLSEELEALKTELEDTLDTTATQQEL 1173

>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 = 62.2 bits (151), Expect = 2e-10
 Identities = 31/160 (19%), Positives = 68/160 (42%), Gaps = 5/160 (3%)

Query: 48   DQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNA 107
            +++++K   L+   + + +      E+  +  +  ++K+     LQ E     + E +  
Sbjct: 857  EEMQAKDEELQRTKERQQKAEAELKELEQKHTQLCEEKNLLQEKLQAETELYAEAEEMRV 916

Query: 108  AEQVDKAH--ARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQK 165
                 K        E+E +I+  ++ S++ Q EK+ ++ + ++ E+++ +  A  +KLQ 
Sbjct: 917  RLAAKKQELEEILHEMEARIEEEEERSQQLQAEKKKMQQQMLDLEEQLEEEEAARQKLQL 976

Query: 166  INDEQKSKIRKTERALKE-EMMRAKFEATSRSKELTEVHS 204
                   KI+K E  +   E    K       K L E  S
Sbjct: 977  EKVTADGKIKKMEDDILIMEDQNNKLTK--ERKLLEERVS 1014

>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 = 60.6 bits (147), Expect = 6e-10
 Identities = 31/166 (18%), Positives = 70/166 (42%), Gaps = 10/166 (6%)

Query: 43   LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKK 102
               ++ +++  I  +E   ++ T+E K  +E V+     + ++ E+  +L K  +   + 
Sbjct: 981  ADGKIKKMEDDILIMEDQNNKLTKERKLLEERVSDLTTNLAEEEEKAKNLTKLKNKH-ES 1039

Query: 103  ETLNAAEQVDKAHARADELEKQIDNLKKESE-------KQQKEKEALEARAIEAEKKISD 155
                   ++ K      ELEK    L+ ES        + Q +   L+A+  + E+++  
Sbjct: 1040 MISELEVRLKKEEKSRQELEKIKRKLEGESSDLHEQIAELQAQIAELKAQLAKKEEELQA 1099

Query: 156  LSAKLEKLQKINDEQKSKIRKTERALKEEMMRAKFEATSRSKELTE 201
              A+LE      +    KIR+ E  + +  ++   E+   ++   E
Sbjct: 1100 ALARLEDETSQKNNALKKIRELESHISD--LQEDLESEKAARNKAE 1143

>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 = 55.1 bits (132), Expect = 9e-09
 Identities = 35/154 (22%), Positives = 77/154 (50%), Gaps = 1/154 (0%)

Query: 43  LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQK- 101
            + +LD+  +   +    I    +E       V++ E+ +QD + +I S+QK++S ++  
Sbjct: 30  KRKDLDKALNDKEAKNKAILNLEEEKLALKLQVSKNEQTLQDTNAKIASIQKKMSEIKSE 89

Query: 102 KETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLE 161
           +E  +   + D A  R+++  ++I+NL+ E +++ +++E L+   +E EK   +L + +E
Sbjct: 90  RELRSLNIEEDIAKERSNQANREIENLQNEIKRKSEKQEDLKKEMLELEKLALELESLVE 149

Query: 162 KLQKINDEQKSKIRKTERALKEEMMRAKFEATSR 195
              K   E +  I K +  L E+     +    R
Sbjct: 150 NEVKNIKETQQIIFKKKEDLVEKTEPKIYSFYER 183

>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 = 49.3 bits (117), Expect = 6e-07
 Identities = 31/160 (19%), Positives = 75/160 (46%), Gaps = 10/160 (6%)

Query: 45  IELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKET 104
           IE+  L  +I SLE  I EK ++L         K KAI +  E  ++L+ ++S  +    
Sbjct: 11  IEISHLDKEIDSLEPLIREKRKDLDKALNDKEAKNKAILNLEEEKLALKLQVSKNE---- 66

Query: 105 LNAAEQVDKAHARADELEKQIDNLK--KESEKQQKEKEALEARAIEAEKKISDLSAKLEK 162
               + +   +A+   ++K++  +K  +E      E++  + R+ +A ++I +L  ++++
Sbjct: 67  ----QTLQDTNAKIASIQKKMSEIKSERELRSLNIEEDIAKERSNQANREIENLQNEIKR 122

Query: 163 LQKINDEQKSKIRKTERALKEEMMRAKFEATSRSKELTEV 202
             +  ++ K ++ + E+   E     + E  +  +    +
Sbjct: 123 KSEKQEDLKKEMLELEKLALELESLVENEVKNIKETQQII 162

>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 = 54.5 bits (130), Expect = 5e-08
 Identities = 58/433 (13%), Positives = 128/433 (29%), Gaps = 95/433 (21%)

Query: 48  DQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSL------QK 101
           + +   ++ L   ID            +  +  +IQ +  R++  +   + L      Q 
Sbjct: 196 ETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQN 255

Query: 102 KETLNA----------------AEQVDKAHARADELEKQIDNL-KKESE-------KQQK 137
            +  NA                 + +  A      L+     L   E +         + 
Sbjct: 256 AKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRP 315

Query: 138 EKEALEARAIE-------AEKKISDLSAKLEKLQKINDEQKSKIRKTE-RALKEEMMRAK 189
           +    E            AE  I D  A  +  + +N ++ + I ++    L+    R  
Sbjct: 316 QDLPREVLTTNPRRLSIIAES-IRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKM 374

Query: 190 FEATSRSKELTEVHSAWLPPWLAVHLLQCQSLIETHWNAHGKPAMDVAIQKALEKKAQAG 249
           F+  S         SA +P            L+   W      +  + +   L K +   
Sbjct: 375 FDRLSVFPP-----SAHIPT----------ILLSLIWFD-VIKSDVMVVVNKLHKYSLVE 418

Query: 250 KWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQE 309
           K  +    +I + ++    +           +   L    ++     KT  +  +I    
Sbjct: 419 KQPKESTISIPSIYLELKVKL---------ENEYALHRSIVDHYNIPKTFDSDDLIPPYL 469

Query: 310 VVDPYF--------------QEAKKFSKPYID----QVATVAKPHVDNVRVALKPYTKKV 351
             D YF              +    F   ++D    +          N   ++   T + 
Sbjct: 470 --DQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILN-TLQQ 526

Query: 352 VRAYGKFLKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAASALLVLPVIILFRIG 411
           ++ Y  ++      + ++  ++ + L K E  + + +K  +         L  I L    
Sbjct: 527 LKFYKPYICDNDPKYERLVNAILDFLPKIE-ENLICSKYTD---------LLRIALMAED 576

Query: 412 SAIFCKKARKPVR 424
            AIF +  ++  R
Sbjct: 577 EAIFEEAHKQVQR 589

>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} Length = 190

 Score = 47.5 bits (112), Expect = 2e-06
 Identities = 16/76 (21%), Positives = 34/76 (44%), Gaps = 7/76 (9%)

Query: 116 ARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAK----LEKLQKINDEQK 171
           A+AD L ++ ++++K  E+Q+K    L+     ++    +   K    LE+  +   EQ 
Sbjct: 75  AQADRLTQEPESIRKWREEQRKR---LQELDAASKVMEQEWREKAKKDLEEWNQRQSEQV 131

Query: 172 SKIRKTERALKEEMMR 187
            K +   R   +   +
Sbjct: 132 EKNKINNRIADKAFYQ 147

>2zuo_A MVP, major vault protein; repeat domains, protein-protein complex, cytoplasm, ribonucleoprotein, structural protein; 3.50A {Rattus norvegicus} PDB: 2zv4_N 2zv5_a 2qzv_A Length = 861

 Score = 46.7 bits (110), Expect = 1e-05
 Identities = 25/151 (16%), Positives = 57/151 (37%), Gaps = 2/151 (1%)

Query: 54  IRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDK 113
           ++S+E         L+   ++  +     Q+ + +  + + E  +  + E     +Q + 
Sbjct: 640 VQSVEPVDQRTRDALQRSVQLAIEITTNSQEAAAKHEAQRLEQEARGRLERQKILDQSEA 699

Query: 114 AHARADELEKQIDNLKKESEKQQKE--KEALEARAIEAEKKISDLSAKLEKLQKINDEQK 171
             AR + LE +  ++  ES    K   +   EA  IE E  +     K + L    + + 
Sbjct: 700 EKARKELLELEAMSMAVESTGNAKAEAESRAEAARIEGEGSVLQAKLKAQALAIETEAEL 759

Query: 172 SKIRKTERALKEEMMRAKFEATSRSKELTEV 202
            +++K                 S++++L  V
Sbjct: 760 ERVKKVREMELIYARAQLELEVSKAQQLANV 790

>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 = 46.1 bits (108), Expect = 2e-05
 Identities = 23/161 (14%), Positives = 55/161 (34%), Gaps = 7/161 (4%)

Query: 29  VPPLTASDAVDSSPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSER 88
           +P    +  +  S +   L  L S +  ++   +    +LK  +  +  K      +   
Sbjct: 540 IPSANPAKTMQGSEVVNVLKSLLSNLDEVKKEREGLENDLKSVNFDMTSKFLTALAQDGV 599

Query: 89  IVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLK------KESEKQQKEKEAL 142
           I      ++ L +        +V ++  + + L K I          K+S  +   +E +
Sbjct: 600 INEEALSVTELDRVYG-GLTTKVQESLKKQEGLLKNIQVSHQEFSKMKQSNNEANLREEV 658

Query: 143 EARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKE 183
                 A     +L A L++  K  +E    + + +    +
Sbjct: 659 LKNLATAYDNFVELVANLKEGTKFYNELTEILVRFQNKCSD 699

>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 = 44.1 bits (104), Expect = 1e-04
 Identities = 24/163 (14%), Positives = 54/163 (33%), Gaps = 24/163 (14%)

Query: 43   LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKE------- 95
               ELD    +       + +  Q  + K +   + +  +  +++ I   + +       
Sbjct: 1946 KNRELDVKNEQANQKLKQMVQDQQAAEIKQKDARELQVQLDVRNKEIAVQKVKAYADLEK 2005

Query: 96   -LSSLQKKETLNAAEQVDKAHARAD--------ELEKQIDNLKKESEKQQKEKEALEARA 146
               +   +E +   E                   LEK I   K+E     +E E ++  +
Sbjct: 2006 AEPTGPLREEVEQLENAANELKLKQDEIVATITALEKSIATYKEEYATLIRETEQIKTES 2065

Query: 147  IEAEKKISDLSAKLEKLQKINDEQKSKIRKTERA--LKEEMMR 187
             + + K+    A L+ L   N E   + R  +++     +M  
Sbjct: 2066 SKVKNKVDRSIALLDNL---NSE---RGRWEQQSENFNTQMST 2102

>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 = 42.2 bits (99), Expect = 3e-04
 Identities = 26/169 (15%), Positives = 65/169 (38%), Gaps = 18/169 (10%)

Query: 47   LDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQK----- 101
            LD +   +  +     EK  +L+ +   +    K ++D   ++  LQ  L+   +     
Sbjct: 1898 LDFINQVVLLIN----EKRDQLEEEQLHLNIGLKKLRDTEAQVKDLQVSLAQKNRELDVK 1953

Query: 102  -KETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARA---IEAEKKISDLS 157
             ++     +Q+ +    A+  +K    L+ + + + KE    + +A   +E  +    L 
Sbjct: 1954 NEQANQKLKQMVQDQQAAEIKQKDARELQVQLDVRNKEIAVQKVKAYADLEKAEPTGPLR 2013

Query: 158  AKLEKLQKINDEQKSKIRKTERALKE-----EMMRAKFEATSRSKELTE 201
             ++E+L+   +E K K  +    +          + ++    R  E  +
Sbjct: 2014 EEVEQLENAANELKLKQDEIVATITALEKSIATYKEEYATLIRETEQIK 2062

>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 = 1e-04
 Identities = 25/147 (17%), Positives = 67/147 (45%), Gaps = 1/147 (0%)

Query: 43  LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKK 102
           L+ +L   + ++      + +  ++L+  ++     E  +   + RI   ++EL   Q++
Sbjct: 46  LQKKLKATEDELDKYSEALKDAQEKLELAEKKATDAEADVASLNRRIQLFEEELDRAQER 105

Query: 103 ETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEK 162
               A +++++A   ADE E+ +  ++  ++K +++ E  E +  EA+    D   K E+
Sbjct: 106 LA-TALQKLEEAEKAADESERGMKVIESRAQKDEEKMEIQEIQLKEAKHIAEDADRKYEE 164

Query: 163 LQKINDEQKSKIRKTERALKEEMMRAK 189
           + +     +S + + E   +    +  
Sbjct: 165 VARKLVIIESDLERAEERAELSEGKCA 191

>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1 PDB: 2tma_A 2w49_A 2w4u_A Length = 284

 Score = 41.6 bits (97), Expect = 3e-04
 Identities = 25/143 (17%), Positives = 63/143 (44%), Gaps = 1/143 (0%)

Query: 47  LDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLN 106
           +D +K K++ L+   +         +      E   +   + +VSLQK+L + +  E   
Sbjct: 1   MDAIKKKMQMLKLDKENALDRADEAEADKKAAEDRSKQLEDELVSLQKKLKATED-ELDK 59

Query: 107 AAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKI 166
            +E +  A  + +  EK+  + + +     +  +  E     A+++++    KLE+ +K 
Sbjct: 60  YSEALKDAQEKLELAEKKATDAEADVASLNRRIQLFEEELDRAQERLATALQKLEEAEKA 119

Query: 167 NDEQKSKIRKTERALKEEMMRAK 189
            DE +  ++  E   +++  + +
Sbjct: 120 ADESERGMKVIESRAQKDEEKME 142

>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1 PDB: 2tma_A 2w49_A 2w4u_A Length = 284

 Score = 41.2 bits (96), Expect = 4e-04
 Identities = 28/160 (17%), Positives = 66/160 (41%), Gaps = 1/160 (0%)

Query: 43  LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKK 102
            + ELD+ + ++ +    ++E  +     +  +   E   Q   E++   + +L    K 
Sbjct: 95  FEEELDRAQERLATALQKLEEAEKAADESERGMKVIESRAQKDEEKMEIQEIQLKEA-KH 153

Query: 103 ETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEK 162
              +A  + ++   +   +E  ++  ++ +E  + +   LE         +  L A+ EK
Sbjct: 154 IAEDADRKYEEVARKLVIIESDLERAEERAELSEGKCAELEEEIKTVTNNLKSLEAQAEK 213

Query: 163 LQKINDEQKSKIRKTERALKEEMMRAKFEATSRSKELTEV 202
             +  D+ + +I+     LKE   RA+F   S +K    +
Sbjct: 214 YSQKEDKYEEEIKVLSDKLKEAETRAEFAERSVTKLEKSI 253

>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1 PDB: 2tma_A 2w49_A 2w4u_A Length = 284

 Score = 41.2 bits (96), Expect = 4e-04
 Identities = 22/141 (15%), Positives = 56/141 (39%), Gaps = 1/141 (0%)

Query: 43  LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKK 102
            +I+L + K      +   +E  ++L   +  + + E+  +    +   L++E+ ++   
Sbjct: 144 QEIQLKEAKHIAEDADRKYEEVARKLVIIESDLERAEERAELSEGKCAELEEEIKTVTNN 203

Query: 103 ETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEK 162
              +   Q +K   + D+ E++I  L  + ++ +   E  E    + EK I DL  +L  
Sbjct: 204 LK-SLEAQAEKYSQKEDKYEEEIKVLSDKLKEAETRAEFAERSVTKLEKSIDDLEDELYA 262

Query: 163 LQKINDEQKSKIRKTERALKE 183
            +        ++      +  
Sbjct: 263 QKLKYKAISEELDHALNDMTS 283

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 Length = 854

 Score = 42.9 bits (102), Expect = 2e-04
 Identities = 32/173 (18%), Positives = 72/173 (41%), Gaps = 39/173 (22%)

Query: 38  VDSSPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELS 97
           ++S+P   E+D L+ K   LE  I+   + LK        KEK    + ER+ +++ E++
Sbjct: 396 LESAP--EEIDALERKKLQLE--IER--EALK--------KEKDPDSQ-ERLKAIEAEIA 440

Query: 98  SLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEK--KISD 155
            L ++                 +L  + +  ++   K ++ +  L+    E E   +  D
Sbjct: 441 KLTEE---------------IAKLRAEWEREREILRKLREAQHRLDEVRREIELAERQYD 485

Query: 156 LSAKLEKLQ--KINDEQKSKIRKTERALKEEMMRAKFEATSRSKELTEVHSAW 206
           L  +  +L+  ++   +  ++      L+      + E T   +++ E+ S W
Sbjct: 486 L-NRAAELRYGELPKLEA-EVEALSEKLRGARF-VRLEVT--EEDIAEIVSRW 533

>2v71_A Nuclear distribution protein NUDE-like 1; developmental protein, nuclear protein, neurogenesis, cytosk LIS1 binding, differentiation; 2.24A {Rattus norvegicus} Length = 189

 Score = 40.5 bits (94), Expect = 3e-04
 Identities = 19/138 (13%), Positives = 45/138 (32%)

Query: 46  ELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETL 105
           E    K      +    E   EL    E   + E  ++ +  +     ++L +  ++   
Sbjct: 11  ETAYWKELSMKYKQSFQEARDELVEFQEGSRELEAELEAQLVQAEQRNRDLQADNQRLKY 70

Query: 106 NAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQK 165
                 +K   +  +  KQ+  L+ +  + +  KE L     E E+   DL         
Sbjct: 71  EVEALKEKLEHQYAQSYKQVSVLEDDLSQTRAIKEQLHKYVRELEQANDDLERAKRATIM 130

Query: 166 INDEQKSKIRKTERALKE 183
             ++ + ++ +       
Sbjct: 131 SLEDFEQRLNQAIERNAF 148

>3hnw_A Uncharacterized protein; coiled-coil, structural genomics, PSI-2, protein structure initiative, midwest center for structural genomics, MCSG; 2.20A {Eubacterium eligens} Length = 138

 Score = 39.2 bits (91), Expect = 5e-04
 Identities = 20/119 (16%), Positives = 45/119 (37%), Gaps = 12/119 (10%)

Query: 54  IRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQ-KKETLNAAEQVD 112
           ++ + S+I+ K  E   ++                   L+ ++  L    +   A +  D
Sbjct: 30  LQRVASYINNKITEFNKEESYRRMSA-----------ELRTDMMYLNIADDYFKAKKMAD 78

Query: 113 KAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQK 171
                 +  +K+I +LK E    Q + E+      E + +I+     + KL+   ++ K
Sbjct: 79  SLSLDIENKDKEIYDLKHELIAAQIKAESSAKEIKELKSEINKYQKNIVKLETELNDSK 137

>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 Length = 129

 Score = 38.3 bits (89), Expect = 8e-04
 Identities = 22/109 (20%), Positives = 48/109 (44%), Gaps = 1/109 (0%)

Query: 75  VAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEK 134
            A++EK +    E    L++ L    +       E++       ++L+ Q+   +     
Sbjct: 8   SAEREKEMASMKEEFTRLKEALEKS-EARRKELEEKMVSLLQEKNDLQLQVQAEQDNLAD 66

Query: 135 QQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKE 183
            ++  + L    I+ E K+ +++ +LE  +++N E  +K RK E    E
Sbjct: 67  AEERCDQLIKNKIQLEAKVKEMNKRLEDEEEMNAELTAKKRKLEDECSE 115

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	441
2a01_A	243	Apolipoprotein A-I; four-helix bundle, lipid trans	99.05
3s84_A	273	Apolipoprotein A-IV; four helix bundle, transport	98.76
2lem_A	216	Apolipoprotein A-I; lipid transport; NMR {Mus musc	98.75
3s84_A	273	Apolipoprotein A-IV; four helix bundle, transport	98.73
1nfn_A	191	Apolipoprotein E3; lipid transport, heparin-bindin	98.67
2a01_A	243	Apolipoprotein A-I; four-helix bundle, lipid trans	98.64
1nfn_A	191	Apolipoprotein E3; lipid transport, heparin-bindin	98.55
3r2p_A	185	Apolipoprotein A-I; amphipathic alpha-helix, major	98.54
2l7b_A	307	Apolipoprotein E, APO-E; lipid transport, atherosc	98.51
3r2p_A	185	Apolipoprotein A-I; amphipathic alpha-helix, major	98.44
2lem_A	216	Apolipoprotein A-I; lipid transport; NMR {Mus musc	98.33
1gs9_A	165	Apolipoprotein E, APOE4; lipid transport, heparin-	98.32
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	98.25
2l7b_A	307	Apolipoprotein E, APO-E; lipid transport, atherosc	98.17
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	98.03
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	98.0
1gs9_A	165	Apolipoprotein E, APOE4; lipid transport, heparin-	97.76
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	97.62
2v71_A	189	Nuclear distribution protein NUDE-like 1; developm	97.41
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	97.21
2efr_A	155	General control protein GCN4 and tropomyosin 1 Al;	97.19
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	97.12
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	97.06
2fxo_A	129	Myosin heavy chain, cardiac muscle beta isoform; c	96.96
2v71_A	189	Nuclear distribution protein NUDE-like 1; developm	96.96
2efr_A	155	General control protein GCN4 and tropomyosin 1 Al;	96.89
2fxo_A	129	Myosin heavy chain, cardiac muscle beta isoform; c	96.86
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	96.79
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	96.52
3o0z_A	168	RHO-associated protein kinase 1; coiled-coil, tran	96.47
3u1c_A	101	Tropomyosin alpha-1 chain; anti-parallel coiled co	96.45
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	96.36
2v66_B	111	Nuclear distribution protein NUDE-like 1; structur	96.23
3u59_A	101	Tropomyosin beta chain; muscle contraction, actin,	96.15
3tnu_B	129	Keratin, type II cytoskeletal 5; coiled-coil, stru	96.14
3o0z_A	168	RHO-associated protein kinase 1; coiled-coil, tran	96.13
3tnu_A	131	Keratin, type I cytoskeletal 14; coiled-coil, stru	96.11
3a7p_A	152	Autophagy protein 16; coiled-coil, coiled coil, cy	95.87
3u1c_A	101	Tropomyosin alpha-1 chain; anti-parallel coiled co	95.74
2eqb_B	97	RAB guanine nucleotide exchange factor SEC2; coile	95.63
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	95.42
3nmd_A	72	CGMP dependent protein kinase; leucine zipper, coi	95.37
3u59_A	101	Tropomyosin beta chain; muscle contraction, actin,	95.23
3nmd_A	72	CGMP dependent protein kinase; leucine zipper, coi	94.9
2oto_A	155	M protein; helical coiled coil, fibrinogen-binding	94.35
3hnw_A	138	Uncharacterized protein; coiled-coil, structural g	94.34
2jee_A	81	YIIU; FTSZ, septum, coiled-coil, cell division, ce	93.56
3a7o_A	75	Autophagy protein 16; coiled-coil, coiled coil, cy	93.51
3a7p_A	152	Autophagy protein 16; coiled-coil, coiled coil, cy	93.42
3ghg_A	562	Fibrinogen alpha chain; triple-stranded coiled coi	93.39
1ic2_A	81	Tropomyosin alpha chain, skeletal muscle; alpha-he	93.26
2ocy_A	154	RAB guanine nucleotide exchange factor SEC2; RAB,	92.98
3ghg_A	562	Fibrinogen alpha chain; triple-stranded coiled coi	92.86
2xzr_A	114	Immunoglobulin-binding protein EIBD; cell adhesion	92.72
3hnw_A	138	Uncharacterized protein; coiled-coil, structural g	92.7
2e7s_A	135	RAB guanine nucleotide exchange factor SEC2; coile	92.64
1l8d_A	112	DNA double-strand break repair RAD50 ATPase; zinc	92.45
3tnu_B	129	Keratin, type II cytoskeletal 5; coiled-coil, stru	92.36
2b9c_A	147	Striated-muscle alpha tropomyosin; alpha-helix, co	92.18
2ocy_A	154	RAB guanine nucleotide exchange factor SEC2; RAB,	92.09
3tnu_A	131	Keratin, type I cytoskeletal 14; coiled-coil, stru	91.86
2v4h_A	110	NF-kappa-B essential modulator; transcription, met	91.69
2b9c_A	147	Striated-muscle alpha tropomyosin; alpha-helix, co	91.59
2v66_B	111	Nuclear distribution protein NUDE-like 1; structur	91.42
3ol1_A	119	Vimentin; structural genomics, PSI-2, protein stru	91.36
3swk_A	86	Vimentin; cytoskeleton, intermediate filament, alp	90.52
3qh9_A	81	Liprin-beta-2; coiled-coil, dimerization, structur	90.36
1deq_A	390	Fibrinogen (alpha chain); coiled-coil, blood clott	90.01
2e7s_A	135	RAB guanine nucleotide exchange factor SEC2; coile	89.79
3s4r_A	93	Vimentin; alpha-helix, cytoskeleton, intermediate	89.48
2pms_C	125	Pneumococcal surface protein A (PSPA); lactoferrin	89.35
2jee_A	81	YIIU; FTSZ, septum, coiled-coil, cell division, ce	89.09
1m1j_B	464	Fibrinogen beta chain; coiled coils, disulfide rin	88.91
1m1j_C	409	Fibrinogen gamma chain; coiled coils, disulfide ri	88.79
1d7m_A	101	Cortexillin I; coiled-coil, coiled-coil trigger si	88.79
2zqm_A	117	Prefoldin beta subunit 1; chaperone; HET: CIT; 1.9	88.2
1ic2_A	81	Tropomyosin alpha chain, skeletal muscle; alpha-he	88.04
3swk_A	86	Vimentin; cytoskeleton, intermediate filament, alp	87.92
1deq_A	390	Fibrinogen (alpha chain); coiled-coil, blood clott	87.76
2pms_C	125	Pneumococcal surface protein A (PSPA); lactoferrin	87.44
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	87.36
3efg_A	78	Protein SLYX homolog; xanthomonas campestris PV. c	86.73
1l8d_A	112	DNA double-strand break repair RAD50 ATPase; zinc	86.45
4gkw_A	167	Spindle assembly abnormal protein 6; double helix,	86.42
2zqm_A	117	Prefoldin beta subunit 1; chaperone; HET: CIT; 1.9	86.36
3mq9_A	471	Bone marrow stromal antigen 2 fused to maltose-BI	86.32
2eqb_B	97	RAB guanine nucleotide exchange factor SEC2; coile	85.53
1m1j_A	491	Fibrinogen alpha subunit; coiled coils, disulfide	85.17
3i00_A	120	HIP-I, huntingtin-interacting protein 1; transcrip	84.09
1m1j_B	464	Fibrinogen beta chain; coiled coils, disulfide rin	83.31
1fxk_A	107	Prefoldin; archaeal protein, chaperone; 2.30A {Met	83.28
3mov_A	95	Lamin-B1; LMNB1, B-type lamins, intermediate filam	83.21
1gk4_A	84	Vimentin; intermediate filament, dimer, parallel c	82.57
1m1j_A	491	Fibrinogen alpha subunit; coiled coils, disulfide	82.53
1fxk_A	107	Prefoldin; archaeal protein, chaperone; 2.30A {Met	82.05
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	81.2
2oto_A	155	M protein; helical coiled coil, fibrinogen-binding	81.13
2xnx_M	146	M protein, M1-BC1; cell adhesion, virulence factor	81.07
1x8y_A	86	Lamin A/C; structural protein, intermediate filame	80.07

>2a01_A Apolipoprotein A-I; four-helix bundle, lipid transport; HET: AC9; 2.40A {Homo sapiens} PDB: 3k2s_A* 1av1_A 3j00_0*

Probab=99.05  E-value=2.9e-10  Score=109.62  Aligned_cols=106  Identities=16%  Similarity=0.247  Sum_probs=99.4

Q ss_pred             chHHHHHhhhhhhHHHHHHhhhcccchhHHHhhhHHHHHHHHhhhhcchhHHhhhhhcchhHHHHhhhhhhHHHHHHhhc
Q 013531          254 PHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVA  333 (441)
Q Consensus       254 P~l~~~~~K~~pv~~~~w~~~~~~v~p~Ve~~ktk~~p~~ea~r~~~~phv~~vk~~v~Py~~e~ke~~~py~~qa~~~s  333 (441)
                      .+++.++.++.|++.+    ++.++..||+++++++.|+.+.+|+.+..|++.+++.+.||++++++.+.|++++++...
T Consensus       132 ~~~eel~~~L~p~~ee----lr~kl~~~veelk~~l~P~~ee~r~kl~~~~~el~~~l~p~~~e~~~kl~~~~e~lr~~l  207 (243)
T 2a01_A          132 QKLHELQEKLSPLGEE----MRDRARAHVDALRTHLAPYSDELRQRLAARLEALKENGGARLAEYHAKATEHLSTLSEKA  207 (243)
T ss_dssp             HHHHHHCCSCCSSTHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTSSSCCHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHhHHHH----HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHHh
Confidence            3677888899999888    899999999999999999999999999999999999999999999999999999999999


Q ss_pred             CcchHhHHHhhcccHHHHHHHHHHHHHHHH
Q 013531          334 KPHVDNVRVALKPYTKKVVRAYGKFLKSAT  363 (441)
Q Consensus       334 kP~vdkv~~~~~Py~e~v~~~~k~~~~~a~  363 (441)
                      .||.+.++..+.||++.++..+..+++..+
T Consensus       208 ~p~~e~lk~~l~p~~e~~~~~l~~~~e~~~  237 (243)
T 2a01_A          208 KPALEDLRQGLLPVLESFKVSFLSALEEYT  237 (243)
T ss_dssp             HHHHHHSSSCSHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999998886654

>3s84_A Apolipoprotein A-IV; four helix bundle, transport protein; 2.40A {Homo sapiens}

Probab=98.76  E-value=2.8e-08  Score=97.63  Aligned_cols=58  Identities=22%  Similarity=0.421  Sum_probs=22.6

Q ss_pred             hhhhcchhHHhhhhhcchhHHHHhhhhhhHHHHHHhhcCcchHhHHHhhcccHHHHHH
Q 013531          296 TKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVR  353 (441)
Q Consensus       296 ~r~~~~phv~~vk~~v~Py~~e~ke~~~py~~qa~~~skP~vdkv~~~~~Py~e~v~~  353 (441)
                      +|..+.||++.+++.++.++++.+..+.||.++++.-..-+++.++..+.||++.++.
T Consensus        93 Lr~~L~p~~eelr~kl~~~veelk~~L~Py~eelr~k~~~~leeLr~~l~P~ae~~~~  150 (273)
T 3s84_A           93 LQASLRPHADELKAKIDQNVEELKGRLTPYADEFKVKIDQTVEELRRSLAPYAQDTQE  150 (273)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHGGGCSSCHH
T ss_pred             HHHHHHHHHHHHHHHHHhhHHHHHHHhHhHHHHHHHHHHHHHHHHHHHhhhHHHHHHH
Confidence            3333333333333333333333333333333333333333333444444444433333

>2lem_A Apolipoprotein A-I; lipid transport; NMR {Mus musculus}

Probab=98.75  E-value=5.5e-09  Score=99.07  Aligned_cols=101  Identities=14%  Similarity=0.188  Sum_probs=76.4

Q ss_pred             chHHHHHhhhhhhHHHHHHhhhcccchhHHHhhhHHHHHHHHhhhhcchhHHhhhhhcchhHHHHhhhhhhHHHHHHhhc
Q 013531          254 PHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVA  333 (441)
Q Consensus       254 P~l~~~~~K~~pv~~~~w~~~~~~v~p~Ve~~ktk~~p~~ea~r~~~~phv~~vk~~v~Py~~e~ke~~~py~~qa~~~s  333 (441)
                      .+++.++.++.|++.+    +++.+..+++++++++.|+.+.+|+.+..|++.+++.+.||+++++..+...+++.+.. 
T Consensus       109 ~~~e~lr~~L~Py~~e----l~~~~~~~~e~Lr~~L~p~~e~lr~kl~~~~e~lk~~l~P~~ee~~~kl~~~leeL~~~-  183 (216)
T 2lem_A          109 EDVELYRQKASPQGAE----LQESARQKLQELQGRLSPVAEEFRDRMRTHVDSLRTQLAPHSEQMRESLAQRLAELKSN-  183 (216)
T ss_dssp             HHHHHHHHHTSCHHHH----HHHHHHCSCCSSCCSCSTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC-
T ss_pred             HhHHHHHHHHHHHHHH----HHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhHHHHHHHHHHHHHHHhCC-
Confidence            4677777888888877    77788888888888888888888888888888888888888888888888888888875 


Q ss_pred             CcchHhHHHhhcccHHHHHHHHHHHHH
Q 013531          334 KPHVDNVRVALKPYTKKVVRAYGKFLK  360 (441)
Q Consensus       334 kP~vdkv~~~~~Py~e~v~~~~k~~~~  360 (441)
                       ||++.+++.+.|+++.++..+.||++
T Consensus       184 -p~~~e~~~ki~~~~e~Lr~~l~P~~e  209 (216)
T 2lem_A          184 -PTLNEYHSSAKSHLKSLGEKARPALE  209 (216)
T ss_dssp             -CCCCCCCCCSSSHHHHHHHTSCTTTH
T ss_pred             -cchHHHHHHHHHHHHHHHHHhhhhHH
Confidence             76666666666666666665555543

>3s84_A Apolipoprotein A-IV; four helix bundle, transport protein; 2.40A {Homo sapiens}

Probab=98.73  E-value=2.5e-06  Score=83.78  Aligned_cols=47  Identities=9%  Similarity=0.163  Sum_probs=17.9

Q ss_pred             cchhHHhhhhhcchhHHHHhhhhhhHHHHHHhhcCcchHhHHHhhcc
Q 013531          300 VTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKP  346 (441)
Q Consensus       300 ~~phv~~vk~~v~Py~~e~ke~~~py~~qa~~~skP~vdkv~~~~~P  346 (441)
                      +.+++..+++.++|++++.+..+.||.+.+++-....+|.++..+.|
T Consensus       163 l~~~a~~L~~~l~~~~eeLr~~L~p~ae~lr~~l~~~~e~l~~~l~~  209 (273)
T 3s84_A          163 MKKNAEELKARISASAEELRQRLAPLAEDVRGNLRGNTEGLQKSLAE  209 (273)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSSSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHH
Confidence            33333333333444444444444444333333333333333333333

>1nfn_A Apolipoprotein E3; lipid transport, heparin-binding, plasma protein, HDL, VLDL; 1.80A {Homo sapiens} SCOP: a.24.1.1 PDB: 1h7i_A 1ea8_A 1b68_A 1nfo_A 2kc3_A 1ya9_A

Probab=98.67  E-value=4.1e-08  Score=91.75  Aligned_cols=84  Identities=11%  Similarity=0.133  Sum_probs=48.2

Q ss_pred             chHHHHHhhhhhhHHHHHHhhhcccchhHHHhhhHHHHHHHHhhhhcchhHHhhhhhcchhHHHHhhhhhhHHHHHHhhc
Q 013531          254 PHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVA  333 (441)
Q Consensus       254 P~l~~~~~K~~pv~~~~w~~~~~~v~p~Ve~~ktk~~p~~ea~r~~~~phv~~vk~~v~Py~~e~ke~~~py~~qa~~~s  333 (441)
                      -.|+.++.++.|+..+    ++..+.+||++++.++.|+.+.+|+.+..+++.++..+.||+++++..+.+.+++++...
T Consensus       106 kdlEelr~kL~P~~eE----L~~~l~~~~Eelr~~L~Py~eelr~kl~~~~eeLr~~l~P~~eelk~~l~~~veel~~~L  181 (191)
T 1nfn_A          106 ADMEDVCGRLVQYRGE----VQAMLGQSTEELRVRLASHLRKLRKRLLRDADDLQKRLAVYQAGAREGAERGLSAIRERL  181 (191)
T ss_dssp             HHHHHHHHHHHHHHHH----HHHTTTCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTC-----------------
T ss_pred             HHHHHHHHHhhHHHHH----HHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHh
Confidence            4677888888888877    888888888888888888888888888888888888888888877777777666555555


Q ss_pred             CcchHhHH
Q 013531          334 KPHVDNVR  341 (441)
Q Consensus       334 kP~vdkv~  341 (441)
                      .||++.++
T Consensus       182 ~P~~e~~r  189 (191)
T 1nfn_A          182 GPLVEQGR  189 (191)
T ss_dssp             --------
T ss_pred             HhHHHHHh
Confidence            55555544

>2a01_A Apolipoprotein A-I; four-helix bundle, lipid transport; HET: AC9; 2.40A {Homo sapiens} PDB: 3k2s_A* 1av1_A 3j00_0*

Probab=98.64  E-value=3.2e-08  Score=95.34  Aligned_cols=105  Identities=14%  Similarity=0.198  Sum_probs=68.7

Q ss_pred             hHHHHHhhhhhhHHHHHHhhhcccchhHHHhhhHHHHHHHHhhhhcchhHHhhhhhcchhHHHHhhhhhhHHHHHHhhcC
Q 013531          255 HVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAK  334 (441)
Q Consensus       255 ~l~~~~~K~~pv~~~~w~~~~~~v~p~Ve~~ktk~~p~~ea~r~~~~phv~~vk~~v~Py~~e~ke~~~py~~qa~~~sk  334 (441)
                      +|+.++.++.|++.+    +++.+..|++++++++.|+.+.+|+.+..+|+.+++.+.||+++++..+...+++.+....
T Consensus       111 ~~eelr~~L~P~~ee----l~~~~~~~~eel~~~L~p~~eelr~kl~~~veelk~~l~P~~ee~r~kl~~~~~el~~~l~  186 (243)
T 2a01_A          111 EMELYRQKVEPLRAE----LQEGARQKLHELQEKLSPLGEEMRDRARAHVDALRTHLAPYSDELRQRLAARLEALKENGG  186 (243)
T ss_dssp             HHHHHHTTHHHHHHH----HHHHHHHHHHHHCCSCCSSTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHH----HHHHHHhhHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHhcc
Confidence            566666667776666    6666666666666666666666666666666666666666666666666666666666555


Q ss_pred             cc-----------hHhHHHhhcccHHHHHHHHHHHHHHHH
Q 013531          335 PH-----------VDNVRVALKPYTKKVVRAYGKFLKSAT  363 (441)
Q Consensus       335 P~-----------vdkv~~~~~Py~e~v~~~~k~~~~~a~  363 (441)
                      ||           ++.++..+.||++.++..|.++++...
T Consensus       187 p~~~e~~~kl~~~~e~lr~~l~p~~e~lk~~l~p~~e~~~  226 (243)
T 2a01_A          187 ARLAEYHAKATEHLSTLSEKAKPALEDLRQGLLPVLESFK  226 (243)
T ss_dssp             HTTTSSSCCHHHHHHHHHHHHHHHHHHSSSCSHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHhHHHHHHHH
Confidence            55           666777777777777776666654433

>1nfn_A Apolipoprotein E3; lipid transport, heparin-binding, plasma protein, HDL, VLDL; 1.80A {Homo sapiens} SCOP: a.24.1.1 PDB: 1h7i_A 1ea8_A 1b68_A 1nfo_A 2kc3_A 1ya9_A

Probab=98.55  E-value=6.7e-08  Score=90.28  Aligned_cols=112  Identities=6%  Similarity=0.063  Sum_probs=67.8

Q ss_pred             hcccccchHHHHHhhhhhhHHHHHHhhhcccchhHHHhhhHHHHHHHHhhhhcchhHHhhhhhcchhHHHHhhhhhhHHH
Q 013531          248 AGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYID  327 (441)
Q Consensus       248 ~~~w~~P~l~~~~~K~~pv~~~~w~~~~~~v~p~Ve~~ktk~~p~~ea~r~~~~phv~~vk~~v~Py~~e~ke~~~py~~  327 (441)
                      ...=+.|+.+.+..++.+.+.+    ++..+.-+++++++++.|+.+.+++.+.+|++.++..+.||+.++++.+..-.+
T Consensus        78 l~~qL~P~~~e~~~~l~~~~e~----lr~~l~kdlEelr~kL~P~~eEL~~~l~~~~Eelr~~L~Py~eelr~kl~~~~e  153 (191)
T 1nfn_A           78 LEEQLTPVAEETRARLSKELQA----AQARLGADMEDVCGRLVQYRGEVQAMLGQSTEELRVRLASHLRKLRKRLLRDAD  153 (191)
T ss_dssp             HTTC----------CHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhcchhHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            3445778877777887777777    777888899999999999999999999999999999999999999999999999


Q ss_pred             HHHhhcCcchHhHHHhhcccHHHHHHHHHHHHHHHH
Q 013531          328 QVATVAKPHVDNVRVALKPYTKKVVRAYGKFLKSAT  363 (441)
Q Consensus       328 qa~~~skP~vdkv~~~~~Py~e~v~~~~k~~~~~a~  363 (441)
                      +.+....||++.+++.+..+++.++..+.||++...
T Consensus       154 eLr~~l~P~~eelk~~l~~~veel~~~L~P~~e~~r  189 (191)
T 1nfn_A          154 DLQKRLAVYQAGAREGAERGLSAIRERLGPLVEQGR  189 (191)
T ss_dssp             HHHHHHHHHTC-------------------------
T ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHHHHhHhHHHHHh
Confidence            999999999999999999999999999999877653

>3r2p_A Apolipoprotein A-I; amphipathic alpha-helix, major protein of high density lipop (HDL), lipid binding, plasma, lipid transport; 2.20A {Homo sapiens} PDB: 1gw3_A 1gw4_A

Probab=98.54  E-value=1.1e-07  Score=87.98  Aligned_cols=113  Identities=8%  Similarity=0.138  Sum_probs=72.9

Q ss_pred             chHHHHHhhhhhhHHHHHHhhhcccchhHHHhhhHHHHHHHHhhhhcchhHHhhhhhcchhHHHHhhhhhhHHHHHHhhc
Q 013531          254 PHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVA  333 (441)
Q Consensus       254 P~l~~~~~K~~pv~~~~w~~~~~~v~p~Ve~~ktk~~p~~ea~r~~~~phv~~vk~~v~Py~~e~ke~~~py~~qa~~~s  333 (441)
                      |+.+.+..++.+....    +++.+..++++++.++.|+....+..+..|++.++..+.||+.++++.+..-.++.+...
T Consensus        67 p~~~e~~~~l~~~~~~----Lr~~l~kdlee~r~~l~P~~~e~~~~~~~~~e~lr~~l~Py~~el~~~~~~~~e~Lr~~L  142 (185)
T 3r2p_A           67 PVTQEFWDNLEKETEG----LRQEMSKDLEEVKAKVQPYLDDFQKKWQEEMELYRQKVEPLRAELQEGARQKLHELQEKL  142 (185)
T ss_dssp             SCCHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTTTTS
T ss_pred             chHHHHHHHHHHHHHH----HHHHHhccHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhHHHHHHHH
Confidence            4444444444444433    566666667777777777777777777777777777777777777777776667777777


Q ss_pred             CcchHhHHHhhcccHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          334 KPHVDNVRVALKPYTKKVVRAYGKFLKSATTYHHQVQASV  373 (441)
Q Consensus       334 kP~vdkv~~~~~Py~e~v~~~~k~~~~~a~~~H~q~Q~~v  373 (441)
                      .||++.+++.+..+++.++..+.||   |..|+.++...|
T Consensus       143 ~p~~e~lr~~l~~~~e~lk~~l~Py---~ee~k~kl~~~l  179 (185)
T 3r2p_A          143 SPLGEEMRDRARAHVDALRTHLAPY---SDELRQRLAARL  179 (185)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhh---HHHHHHHHHHHH
Confidence            7777777777777777777777777   334444444443

>2l7b_A Apolipoprotein E, APO-E; lipid transport, atherosclerosis, alzheime disease; NMR {Homo sapiens}

Probab=98.51  E-value=1.5e-07  Score=93.92  Aligned_cols=102  Identities=8%  Similarity=0.106  Sum_probs=71.5

Q ss_pred             hHHHHHhhhhhhHHHHHHhhhcccchhHHHhhhHHHHHHHHh---------------hhhcchhHHhhhhhcchhH----
Q 013531          255 HVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEAT---------------KTAVTPHIIRVQEVVDPYF----  315 (441)
Q Consensus       255 ~l~~~~~K~~pv~~~~w~~~~~~v~p~Ve~~ktk~~p~~ea~---------------r~~~~phv~~vk~~v~Py~----  315 (441)
                      +++.++.++.|++.+    ++..+..||+++++.+.|+.+..               +..+.|+++.|++-+.||.    
T Consensus       159 ~~eeLr~~L~py~ee----Lr~kl~~~veelr~~L~Py~e~~~~~~~~v~~~k~~~L~~ki~~~~e~Lr~~L~p~~~~~~  234 (307)
T 2l7b_A          159 DADDLQKRLAVYQAG----AREGAERGLSAIRERLGPLVEQGRVRAATVGSLAGQPLQERAQAWGERLRARMEEMGSRTR  234 (307)
T ss_dssp             HHHHHHHHHHHHTSC----CSSHHHHHHHHHHHHCSSSCTTTTTHHHHHHHHHCCCCSSCSCCHHHHHHHHHHHHHHTCS
T ss_pred             hHHHHHHHHhhHHHH----HHHHHHHHHHHHHHHhhhHHHHHHHHHhhhhhhhhHHHHHHHHHhHHHHHHHHHHHHHHHH
Confidence            345555666666666    66666666666666666655443               3344666666666655544    


Q ss_pred             ----------HHHhhhhhhHHHHHHhhcCcchHhHHHhhcccHHHHHHHHHHHHH
Q 013531          316 ----------QEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVRAYGKFLK  360 (441)
Q Consensus       316 ----------~e~ke~~~py~~qa~~~skP~vdkv~~~~~Py~e~v~~~~k~~~~  360 (441)
                                ++++..++--.++++....|+++.++..+.||++.++..|.++++
T Consensus       235 ~~l~~l~~q~ee~~~ql~~~aeel~~kl~~~~eeLr~~l~P~~e~lk~~l~~l~E  289 (307)
T 2l7b_A          235 DRLDEVKEQVAEVRAKLEEQAQQIRLQAEAAQARLKSRFEPLAEDMQRQWAGQVE  289 (307)
T ss_dssp             CSSCCCCSSCSSHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSCHHHHHHTTSSC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhHhHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence                      667788888888888888889999999999998888888877653

>3r2p_A Apolipoprotein A-I; amphipathic alpha-helix, major protein of high density lipop (HDL), lipid binding, plasma, lipid transport; 2.20A {Homo sapiens} PDB: 1gw3_A 1gw4_A

Probab=98.44  E-value=1.9e-07  Score=86.40  Aligned_cols=86  Identities=23%  Similarity=0.344  Sum_probs=39.8

Q ss_pred             hhcccchhHHHhhhHHHHHHHHhhhhcchhHHhhhhhcchhHHHHhhhhhhHHHHHHhhcCcchHhHHHhhcccHHHHHH
Q 013531          274 FTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVR  353 (441)
Q Consensus       274 ~~~~v~p~Ve~~ktk~~p~~ea~r~~~~phv~~vk~~v~Py~~e~ke~~~py~~qa~~~skP~vdkv~~~~~Py~e~v~~  353 (441)
                      ++..+.||++.+++++-+-.+.+|..+.||+..+++.+...+++-+..+.||.++.+.....++|.+++.+.||++.++.
T Consensus        94 ~r~~l~P~~~e~~~~~~~~~e~lr~~l~Py~~el~~~~~~~~e~Lr~~L~p~~e~lr~~l~~~~e~lk~~l~Py~ee~k~  173 (185)
T 3r2p_A           94 VKAKVQPYLDDFQKKWQEEMELYRQKVEPLRAELQEGARQKLHELQEKLSPLGEEMRDRARAHVDALRTHLAPYSDELRQ  173 (185)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTTTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHH
Confidence            33333333333333333333333333333333333333333333333344444445555555555666666666666666


Q ss_pred             HHHHHH
Q 013531          354 AYGKFL  359 (441)
Q Consensus       354 ~~k~~~  359 (441)
                      ++..-+
T Consensus       174 kl~~~l  179 (185)
T 3r2p_A          174 RLAARL  179 (185)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            655443

>2lem_A Apolipoprotein A-I; lipid transport; NMR {Mus musculus}

Probab=98.33  E-value=3.2e-07  Score=86.87  Aligned_cols=110  Identities=6%  Similarity=0.106  Sum_probs=57.6

Q ss_pred             hhcccchhHHHhhhHHHHHHHHhhhhcchhHHhhhhhcchhHHHHhhhhhhHHHHHHhhcCcchHhHHHhhcccHHHHHH
Q 013531          274 FTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVR  353 (441)
Q Consensus       274 ~~~~v~p~Ve~~ktk~~p~~ea~r~~~~phv~~vk~~v~Py~~e~ke~~~py~~qa~~~skP~vdkv~~~~~Py~e~v~~  353 (441)
                      +++.+..++++++.++.|+...+++.+..|++.++..+.||+.++++.+..-.++.+....||.+.++..+..+++.++.
T Consensus        81 lr~~l~kd~ee~r~~l~py~~el~~~~~~~~e~lr~~L~Py~~el~~~~~~~~e~Lr~~L~p~~e~lr~kl~~~~e~lk~  160 (216)
T 2lem_A           81 VRQEMNKDLEEVKQKVQPYLDEFQKKWKEDVELYRQKASPQGAELQESARQKLQELQGRLSPVAEEFRDRMRTHVDSLRT  160 (216)
T ss_dssp             HHHHHHHHHHHHHHHTTTTCCHHHHHHHHHHHHHHHHTSCHHHHHHHHHHCSCCSSCCSCSTHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhccHHHHHHhhhHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444444444444444444444444444444455555555555555554444555555555555555555555555666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhcCCCchhc
Q 013531          354 AYGKFLKSATTYHHQVQASVQEMLKKHELTSPLA  387 (441)
Q Consensus       354 ~~k~~~~~a~~~H~q~Q~~v~~~l~~~e~~~~~a  387 (441)
                      .+.||   +..|+.++...+.++=.. ++...+-
T Consensus       161 ~l~P~---~ee~~~kl~~~leeL~~~-p~~~e~~  190 (216)
T 2lem_A          161 QLAPH---SEQMRESLAQRLAELKSN-PTLNEYH  190 (216)
T ss_dssp             HHHHH---HHHHHHHHHHHHHHHHHC-CCCCCCC
T ss_pred             HhHhh---HHHHHHHHHHHHHHHhCC-cchHHHH
Confidence            66666   445556666666555444 5555443

>1gs9_A Apolipoprotein E, APOE4; lipid transport, heparin-binding, plasma, lipid binding protein; 1.7A {Homo sapiens} SCOP: a.24.1.1 PDB: 1or3_A 1or2_A 1le4_A 1bz4_A 1lpe_A 1le2_A

Probab=98.32  E-value=1.8e-07  Score=85.69  Aligned_cols=91  Identities=11%  Similarity=0.119  Sum_probs=72.3

Q ss_pred             hHHHHHhhhhhhHHHHHHhhhcccchhHHHhhhHHHHHHHHhhhhcchhHHhhhhhcchhHHHHhhhhhhHHHHHHhhcC
Q 013531          255 HVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAK  334 (441)
Q Consensus       255 ~l~~~~~K~~pv~~~~w~~~~~~v~p~Ve~~ktk~~p~~ea~r~~~~phv~~vk~~v~Py~~e~ke~~~py~~qa~~~sk  334 (441)
                      +++.+..++.|+..+    ++..+.-.++.++.++.|..+.+|+.+.||+..++.++.||+.+++..+.||+++.++-..
T Consensus        74 ~~~~l~~~L~P~t~e----l~~~l~~~~e~Lr~~L~~d~EelR~~l~p~~~el~~~l~~~~EelR~kl~P~~eeL~~~~~  149 (165)
T 1gs9_A           74 YKSELEEQLTPVAEE----TRARLSKELQAAQARLGADMEDVRGRLVQYRGEVQAMLGQSTEELRVRLASHLRKLRKRLL  149 (165)
T ss_dssp             HHHHHTTSCCCCCSH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSTTCCCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhccchHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            466677777777766    5566666777788888888888888888888888888888888888888888888888888


Q ss_pred             cchHhHHHhhcccHH
Q 013531          335 PHVDNVRVALKPYTK  349 (441)
Q Consensus       335 P~vdkv~~~~~Py~e  349 (441)
                      .+++.++..+.||++
T Consensus       150 ~~~eeLr~kL~p~~e  164 (165)
T 1gs9_A          150 RDADDLQKRLAVYQA  164 (165)
T ss_dssp             HHHHHHHHHHHHSSC
T ss_pred             hhHHHHHHHhhhhcc
Confidence            888888888888764

>3na7_A HP0958; flagellar biogenesis, flagellum export, C4 Zn-ribbon, coiled post-transcriptional, gene regulation, chaperone; HET: EPE; 2.20A {Helicobacter pylori}

Probab=98.25  E-value=0.00012  Score=70.72  Aligned_cols=65  Identities=23%  Similarity=0.292  Sum_probs=29.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          118 ADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALK  182 (441)
Q Consensus       118 ~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelEk~lk  182 (441)
                      ...|+.+++.++..+..+++++..+..+...++..+++++..++.++......+..++..-..++
T Consensus        92 ~~aL~kEie~~~~~i~~lE~eile~~e~ie~~~~~l~~~~~~l~~~~~~l~~~~~~~~~~~~e~~  156 (256)
T 3na7_A           92 LRSLNIEEDIAKERSNQANREIENLQNEIKRKSEKQEDLKKEMLELEKLALELESLVENEVKNIK  156 (256)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444444444444444444444444444444444444444444444444444444444333333

>2l7b_A Apolipoprotein E, APO-E; lipid transport, atherosclerosis, alzheime disease; NMR {Homo sapiens}

Probab=98.17  E-value=2.3e-06  Score=85.40  Aligned_cols=102  Identities=10%  Similarity=0.131  Sum_probs=66.4

Q ss_pred             chHHHHHhhhhhhHHHHHHhhhcccchhHHHhhhHHHHHHHHhhhhcchhHHhhhhhcchhHHHHhhhhhhHHHHHHhhc
Q 013531          254 PHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVA  333 (441)
Q Consensus       254 P~l~~~~~K~~pv~~~~w~~~~~~v~p~Ve~~ktk~~p~~ea~r~~~~phv~~vk~~v~Py~~e~ke~~~py~~qa~~~s  333 (441)
                      +.|+.++.++.|++.+    +...+.-|++.++.++.|+.+..|+.+..+++.|+..+.||..+.++.+..-++..+...
T Consensus       114 ~dlEelR~~L~Py~~e----l~~~l~~~~eelr~kL~Py~~EL~~~~~~~~eeLr~~L~py~eeLr~kl~~~veelr~~L  189 (307)
T 2l7b_A          114 ADMEDVCGRLVQYRGE----VQAMLGQSTEELRVRLASHLRKLRKRLLRDADDLQKRLAVYQAGAREGAERGLSAIRERL  189 (307)
T ss_dssp             HHHHHHHHHHHHHHHH----HHHHSSCCSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSCCSSHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHhhHHHHHHHHHHHHHHHHHHHh
Confidence            6677777777777666    666666666666666666666666666666666666666666666666666666666666


Q ss_pred             CcchHhHHHhh---------------cccHHHHHHHHHHHH
Q 013531          334 KPHVDNVRVAL---------------KPYTKKVVRAYGKFL  359 (441)
Q Consensus       334 kP~vdkv~~~~---------------~Py~e~v~~~~k~~~  359 (441)
                      .||.+.++..+               .||++.++..+.++.
T Consensus       190 ~Py~e~~~~~~~~v~~~k~~~L~~ki~~~~e~Lr~~L~p~~  230 (307)
T 2l7b_A          190 GPLVEQGRVRAATVGSLAGQPLQERAQAWGERLRARMEEMG  230 (307)
T ss_dssp             SSSCTTTTTHHHHHHHHHCCCCSSCSCCHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHhhhhhhhhHHHHHHHHHhHHHHHHHHHHHH
Confidence            66666555544               677777777666653

>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1 PDB: 2tma_A 2w49_A 2w4u_A

Probab=98.03  E-value=0.0013  Score=60.03  Aligned_cols=50  Identities=20%  Similarity=0.271  Sum_probs=20.3

Q ss_pred             HHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013531           50 LKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSL   99 (441)
Q Consensus        50 l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sL   99 (441)
                      |+.++..|+..|+.+...+..-...+...+..+.+.+..+..+..++..+
T Consensus         4 ~~~~~~~l~~~~~~~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~   53 (284)
T 1c1g_A            4 IKKKMQMLKLDKENALDRADEAEADKKAAEDRSKQLEDELVSLQKKLKAT   53 (284)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444433333333334444444444444444444333

>3na7_A HP0958; flagellar biogenesis, flagellum export, C4 Zn-ribbon, coiled post-transcriptional, gene regulation, chaperone; HET: EPE; 2.20A {Helicobacter pylori}

Probab=98.00  E-value=0.0011  Score=64.02  Aligned_cols=71  Identities=17%  Similarity=0.161  Sum_probs=53.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013531          123 KQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKEEMMRAKFEAT  193 (441)
Q Consensus       123 ~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelEk~lkeei~k~k~E~~  193 (441)
                      ++.+.|.++++.++.++..++.+..++..++++++..++.++....+.+..+......+.+.+..+..+..
T Consensus        90 kE~~aL~kEie~~~~~i~~lE~eile~~e~ie~~~~~l~~~~~~l~~~~~~l~~~~~~~~~~~~e~~~e~~  160 (256)
T 3na7_A           90 RELRSLNIEEDIAKERSNQANREIENLQNEIKRKSEKQEDLKKEMLELEKLALELESLVENEVKNIKETQQ  160 (256)
T ss_dssp             SHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            56777788888888888888888888777788888888888888888888888777777755555544433

>1gs9_A Apolipoprotein E, APOE4; lipid transport, heparin-binding, plasma, lipid binding protein; 1.7A {Homo sapiens} SCOP: a.24.1.1 PDB: 1or3_A 1or2_A 1le4_A 1bz4_A 1lpe_A 1le2_A

Probab=97.76  E-value=2.5e-05  Score=71.44  Aligned_cols=78  Identities=13%  Similarity=0.168  Sum_probs=49.0

Q ss_pred             hHHHhhhHHHHHHHHhhhhcchhHHhhhhhcchhHHHHhhhhhhHHHHHHhhcCcchHhHHHhhcccHHHHHHHHHHH
Q 013531          281 HVQTLKTKTIEACEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVRAYGKF  358 (441)
Q Consensus       281 ~Ve~~ktk~~p~~ea~r~~~~phv~~vk~~v~Py~~e~ke~~~py~~qa~~~skP~vdkv~~~~~Py~e~v~~~~k~~  358 (441)
                      +++.++.++.|+.+.+++.+...++.+++.+.|++++++..+.||.++.+....||++.++..+.||+++.+.....-
T Consensus        74 ~~~~l~~~L~P~t~el~~~l~~~~e~Lr~~L~~d~EelR~~l~p~~~el~~~l~~~~EelR~kl~P~~eeL~~~~~~~  151 (165)
T 1gs9_A           74 YKSELEEQLTPVAEETRARLSKELQAAQARLGADMEDVRGRLVQYRGEVQAMLGQSTEELRVRLASHLRKLRKRLLRD  151 (165)
T ss_dssp             HHHHHTTSCCCCCSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSTTCCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            455555555555555555566666666666666666666666666666666666666777777777766665554443

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus}

Probab=97.62  E-value=0.00049  Score=78.79  Aligned_cols=125  Identities=19%  Similarity=0.257  Sum_probs=65.7

Q ss_pred             HHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHH----HHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHHHHH
Q 013531           50 LKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQ----DKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQI  125 (441)
Q Consensus        50 l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~----ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~eV  125 (441)
                      |+.....|+++|.+++..|.+..++...+...+.    .+++.+..|+.+++.|+.     .++....+++++..|++++
T Consensus       919 l~~~~~~LE~kl~eLq~rL~~~e~~n~~L~~~~~~~~~~~~~e~~~L~~~l~~le~-----~~~e~~~~~~~v~~L~~e~  993 (1080)
T 2dfs_A          919 YKKLHIGLENKIMQLQRKIDEQNKEYKSLLEKMNNLEITYSTETEKLRSDVERLRM-----SEEEAKNATNRVLSLQEEI  993 (1080)
T ss_dssp             --------------------------------CHHHHHHHHHHHHHHHHTHHHHHH-----HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHH
Confidence            4445567777777777777665555554443332    334555555555555542     2444456778888888888


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          126 DNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALK  182 (441)
Q Consensus       126 e~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelEk~lk  182 (441)
                      +.|++++.++.++...++.+...+.   ++++.++..|++.+..++.++++++..+.
T Consensus       994 ~~l~~~~~~~~ke~~~lee~~~~~~---~~L~~kv~~L~~e~~~L~qq~~~l~~~~~ 1047 (1080)
T 2dfs_A          994 AKLRKELHQTQTEKKTIEEWADKYK---HETEQLVSELKEQNTLLKTEKEELNRRIH 1047 (1080)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            8888888888888888877766655   46777888888888888888888886555

>2v71_A Nuclear distribution protein NUDE-like 1; developmental protein, nuclear protein, neurogenesis, cytosk LIS1 binding, differentiation; 2.24A {Rattus norvegicus}

Probab=97.41  E-value=0.014  Score=54.45  Aligned_cols=99  Identities=19%  Similarity=0.235  Sum_probs=61.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-
Q 013531           74 VVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKK-  152 (441)
Q Consensus        74 ~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkk-  152 (441)
                      +|...++.+.++...+..|..++.++..+.    +.+...++..++.|++++..|+...+.+..++.+||....++|.. 
T Consensus        50 eL~~~Ek~~~~L~~~~~~L~~E~e~~k~K~----~~~~~e~~~~~~~Lq~el~~l~~~~~~l~~~ireLEq~NDdlEr~~  125 (189)
T 2v71_A           50 QLVQAEQRNRDLQADNQRLKYEVEALKEKL----EHQYAQSYKQVSVLEDDLSQTRAIKEQLHKYVRELEQANDDLERAK  125 (189)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHH
Confidence            555566666666666666666666665443    223334556677777777777777777777777777777777665 


Q ss_pred             ------HHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          153 ------ISDLSAKLEKLQKINDEQKSKIRK  176 (441)
Q Consensus       153 ------leELekklEeLek~~aEQk~qIee  176 (441)
                            +.+++.++...-..++-.+..+++
T Consensus       126 R~~~~SleD~e~kln~aiEr~alLE~El~E  155 (189)
T 2v71_A          126 RATIMSLEDFEQRLNQAIERNAFLESELDE  155 (189)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                  555555555555555555555554

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=97.21  E-value=0.0063  Score=63.93  Aligned_cols=26  Identities=15%  Similarity=0.166  Sum_probs=10.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013531           74 VVAQKEKAIQDKSERIVSLQKELSSL   99 (441)
Q Consensus        74 ~l~~ke~~i~ek~~~I~~l~~ei~sL   99 (441)
                      ++...+..+...+..+..++.+|...
T Consensus       464 ~i~~l~~~~~~~~~~l~~~~~~i~~~  489 (597)
T 3oja_B          464 EVQQLTNEQIQQEQLLQGLHAEIDTN  489 (597)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence            33333333444444444444444433

>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=97.19  E-value=0.049  Score=49.29  Aligned_cols=90  Identities=21%  Similarity=0.263  Sum_probs=51.2

Q ss_pred             hHhHHHHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHHH
Q 013531           44 KIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEK  123 (441)
Q Consensus        44 ~~el~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~  123 (441)
                      ..+|...-.+....+++|.+++.+|+.-+..++.++..-..-+..-...+.+|..|+        .+...|+.|+...+.
T Consensus        27 E~dLEraEERae~aE~k~~eLEeeL~~v~~nlKsLE~seekasqrEd~yEeqIk~L~--------~kLKEAE~RAE~AER   98 (155)
T 2efr_A           27 KKLLERAEERAELSEGKSAELEEELKTVTNNLKSLEAQAEKYSQKEDKYEEEIKVLS--------DKLKEAETRAEFAER   98 (155)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccchhhhhHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHH
Confidence            344444455555566666666666666666666666655555666666666666664        333445555555555


Q ss_pred             HHHHHHHHHHHHHHHHHH
Q 013531          124 QIDNLKKESEKQQKEKEA  141 (441)
Q Consensus       124 eVe~Lkkeie~~ek~~ee  141 (441)
                      .|..|++++++++.++..
T Consensus        99 sv~kLEk~id~lEd~L~~  116 (155)
T 2efr_A           99 SVTKLEKSIDDLEDELYA  116 (155)
T ss_dssp             HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            555555555555544443

>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=97.12  E-value=0.0012  Score=76.13  Aligned_cols=18  Identities=6%  Similarity=0.222  Sum_probs=7.0

Q ss_pred             hHHHHHHHHHHHHhhHHH
Q 013531           46 ELDQLKSKIRSLESHIDE   63 (441)
Q Consensus        46 el~~l~~~i~~Les~i~~   63 (441)
                      ++..++.++..|+..+..
T Consensus       858 El~~L~~eL~el~~~L~~  875 (1184)
T 1i84_S          858 EMQAKDEELQRTKERQQK  875 (1184)
T ss_dssp             HCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            333344444444333333

>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=97.06  E-value=0.0011  Score=76.38  Aligned_cols=43  Identities=16%  Similarity=0.119  Sum_probs=23.2

Q ss_pred             CCchhHhHHHHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHH
Q 013531           40 SSPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAI   82 (441)
Q Consensus        40 ~~~~~~el~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i   82 (441)
                      -..+..++..++.++..++..+.+++.++..-..++......+
T Consensus       859 l~~L~~eL~el~~~L~~le~~l~ele~~l~~Le~e~~~l~~~L  901 (1184)
T 1i84_S          859 MQAKDEELQRTKERQQKAEAELKELEQKHTQLCEEKNLLQEKL  901 (1184)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3445666666666666666665555555554444444333333

>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=96.96  E-value=0.092  Score=45.68  Aligned_cols=60  Identities=25%  Similarity=0.308  Sum_probs=28.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          119 DELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTE  178 (441)
Q Consensus       119 ~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelE  178 (441)
                      .+.+.....|.....+++..+..++.+..+.+....+|......++....+.+..|++++
T Consensus        65 ~e~EE~~~~L~~~k~eLe~~l~el~~rleeeee~~~~L~~~kkkle~e~~~Lk~~led~e  124 (129)
T 2fxo_A           65 ADAEERCDQLIKNKIQLEAKVKEMNKRLEDEEEMNAELTAKKRKLEDECSELKRDIDDLE  124 (129)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444444444444444444444444444444444444444444443

>2v71_A Nuclear distribution protein NUDE-like 1; developmental protein, nuclear protein, neurogenesis, cytosk LIS1 binding, differentiation; 2.24A {Rattus norvegicus}

Probab=96.96  E-value=0.13  Score=47.82  Aligned_cols=130  Identities=15%  Similarity=0.107  Sum_probs=78.5

Q ss_pred             HhHHHHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHHHH
Q 013531           45 IELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQ  124 (441)
Q Consensus        45 ~el~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~e  124 (441)
                      ....+...++.+|+....+-...-++-.   ..+|..|...++.+..|++.+..|..+.    +.--.|....-.+...+
T Consensus        17 ~~~~~~~q~~~~le~El~EFqesSrELE---~ELE~eL~~~Ek~~~~L~~~~~~L~~E~----e~~k~K~~~~~~e~~~~   89 (189)
T 2v71_A           17 ELSMKYKQSFQEARDELVEFQEGSRELE---AELEAQLVQAEQRNRDLQADNQRLKYEV----EALKEKLEHQYAQSYKQ   89 (189)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHH
Confidence            3334455555666555555433332211   2357778888888888888888886433    22223445555566666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          125 IDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERAL  181 (441)
Q Consensus       125 Ve~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelEk~l  181 (441)
                      +..|++++..+......+..+..++|..-++++.............+.+++..-...
T Consensus        90 ~~~Lq~el~~l~~~~~~l~~~ireLEq~NDdlEr~~R~~~~SleD~e~kln~aiEr~  146 (189)
T 2v71_A           90 VSVLEDDLSQTRAIKEQLHKYVRELEQANDDLERAKRATIMSLEDFEQRLNQAIERN  146 (189)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHHHHHHHHHHHH
Confidence            788888777777777777777777777666666665555555555555555444333

>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=96.89  E-value=0.18  Score=45.60  Aligned_cols=120  Identities=19%  Similarity=0.270  Sum_probs=68.3

Q ss_pred             HHHHhhHHHHhhhhcchhHHHHHHH-------HHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHHHHHHH
Q 013531           55 RSLESHIDEKTQELKGKDEVVAQKE-------KAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDN  127 (441)
Q Consensus        55 ~~Les~i~~~~~~i~~k~~~l~~ke-------~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~eVe~  127 (441)
                      .+|+.++.+...+-+.|.+++...+       .....-+.+|.+|+.++...-        ......+..-.....+-+.
T Consensus         3 ~~lE~qlkeaae~ad~KyeEvaR~E~dLEraEERae~aE~k~~eLEeeL~~v~--------~nlKsLE~seekasqrEd~   74 (155)
T 2efr_A            3 KQLEDKVEELLSKNYHLENEVARLKKLLERAEERAELSEGKSAELEEELKTVT--------NNLKSLEAQAEKYSQKEDK   74 (155)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------HhhccchhhhhHHHHHHHH
Confidence            3444444444334444444433333       333333444555555544432        1122233334444455566


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          128 LKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALK  182 (441)
Q Consensus       128 Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelEk~lk  182 (441)
                      ++.+|..+..+..+.+.+...++..+..|+..+++++......+.....+...+.
T Consensus        75 yEeqIk~L~~kLKEAE~RAE~AERsv~kLEk~id~lEd~L~~~Kek~~~i~~eLd  129 (155)
T 2efr_A           75 YEEEIKVLSDKLKEAETRAEFAERSVTKLEKSIDDLEDELYAQKLKYKAISEEMK  129 (155)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6666666677777777777778888888888888888777777776666666655

>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=96.86  E-value=0.074  Score=46.31  Aligned_cols=112  Identities=20%  Similarity=0.331  Sum_probs=56.1

Q ss_pred             HhHHHHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHHHH
Q 013531           45 IELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQ  124 (441)
Q Consensus        45 ~el~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~e  124 (441)
                      .++..+..+|..|+..+..-+...++   .=......+.++......|+++-..+     .++++......++-.+|+..
T Consensus        13 ~E~~~~~eel~~lke~l~k~e~~r~e---le~~~~~l~~Ek~~L~~qL~~E~~~l-----~e~EE~~~~L~~~k~eLe~~   84 (129)
T 2fxo_A           13 KEMASMKEEFTRLKEALEKSEARRKE---LEEKMVSLLQEKNDLQLQVQAEQDNL-----ADAEERCDQLIKNKIQLEAK   84 (129)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHH-----HhHHHHHHHHHHHHHHHHHH
Confidence            34444555555555555432222221   11122333444444444444433333     34455555555555566666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          125 IDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQ  164 (441)
Q Consensus       125 Ve~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLe  164 (441)
                      +..+...+++.+.....|.+.+..++..+.+|...+++++
T Consensus        85 l~el~~rleeeee~~~~L~~~kkkle~e~~~Lk~~led~e  124 (129)
T 2fxo_A           85 VKEMNKRLEDEEEMNAELTAKKRKLEDECSELKRDIDDLE  124 (129)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6666666666666666666666666666666666665554

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus}

Probab=96.79  E-value=0.031  Score=64.09  Aligned_cols=59  Identities=17%  Similarity=0.240  Sum_probs=29.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          111 VDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKS  172 (441)
Q Consensus       111 ~~~a~~~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~  172 (441)
                      +...++.+.+|+++++++.++.+.++.+...+..   +++.+++.|++....|+...++.+.
T Consensus       986 v~~L~~e~~~l~~~~~~~~ke~~~lee~~~~~~~---~L~~kv~~L~~e~~~L~qq~~~l~~ 1044 (1080)
T 2dfs_A          986 VLSLQEEIAKLRKELHQTQTEKKTIEEWADKYKH---ETEQLVSELKEQNTLLKTEKEELNR 1044 (1080)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444555666666666666666666555544442   3334444444444444444444333

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=96.52  E-value=0.025  Score=59.29  Aligned_cols=61  Identities=25%  Similarity=0.350  Sum_probs=24.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          118 ADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTE  178 (441)
Q Consensus       118 ~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelE  178 (441)
                      ...++.+...+++++++.+.+.+.++.+..+++.+.++.+..+.++.+.....+.++.+++
T Consensus       518 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~le~~~~~~~~~~~~l~~e~~~~~~~~~~l~  578 (597)
T 3oja_B          518 QAFKLRETQARRTEADAKQKETEDLEQENIALEKQLDNKRAKQAELRQETSLKRQKVKQLE  578 (597)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhhHHHHHHHHHhhhhhhcchhhHHhhhHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHH
Confidence            3333334444444444444444444444444444444444444444333333333333333

>3o0z_A RHO-associated protein kinase 1; coiled-coil, transferase; HET: MSE; 2.33A {Homo sapiens}

Probab=96.47  E-value=0.51  Score=43.15  Aligned_cols=52  Identities=17%  Similarity=0.286  Sum_probs=33.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          113 KAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQ  164 (441)
Q Consensus       113 ~a~~~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLe  164 (441)
                      -+...+.+|+.++..|..+++........++.+...+..++..+++....++
T Consensus        87 q~se~~~elq~ri~~L~~El~~~k~~~~k~~~e~r~L~Ekl~~lEKe~a~~e  138 (168)
T 3o0z_A           87 HDSEMIGDLQARITSLQEEVKHLKHNLEKVEGERKEAQDMLNHSEKEKNNLE  138 (168)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            3444566777777777777777777777666666666666666665555554

>3u1c_A Tropomyosin alpha-1 chain; anti-parallel coiled coil, contractIle protein; 1.80A {Gallus gallus} PDB: 3u1a_A

Probab=96.45  E-value=0.12  Score=43.37  Aligned_cols=95  Identities=21%  Similarity=0.297  Sum_probs=44.9

Q ss_pred             HHHHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHHHHHH
Q 013531           47 LDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQID  126 (441)
Q Consensus        47 l~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~eVe  126 (441)
                      .+.++.++..|.-..+.-....       .+.+..+.+.+..-..+..+|.|||++.               .-++.+++
T Consensus         4 MdaIKkKm~~lk~e~e~a~dra-------e~~e~~~k~~e~~~~~~E~Ei~sL~kk~---------------~~lE~eld   61 (101)
T 3u1c_A            4 MDAIKKKMQMLKLDKENALDRA-------EQAEADKKAAEERSKQLEDDIVQLEKQL---------------RVTEDSRD   61 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHH---------------HHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHhHHHHHHHHHHH---------------HHHHHHHH
Confidence            3455666666555444432222       2344444444455555555555555222               22334444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          127 NLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKL  163 (441)
Q Consensus       127 ~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeL  163 (441)
                      .++..+......++.-+......|..+..|+.+++-|
T Consensus        62 ~~ee~L~ea~~kLee~ek~~~~aE~ev~~L~Rriqll   98 (101)
T 3u1c_A           62 QVLEELHKSEDSLLFAEENAAKAESEVASLNRRIQLV   98 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444444444444444444444555555555554443

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=96.36  E-value=0.71  Score=58.41  Aligned_cols=37  Identities=19%  Similarity=0.230  Sum_probs=17.3

Q ss_pred             HHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013531           63 EKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSL   99 (441)
Q Consensus        63 ~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sL   99 (441)
                      +-..++++-..+|..++..+.++++....+-.+|..-
T Consensus      1931 et~~~V~~l~~~L~~~~~~L~~k~~ea~~~l~~i~~~ 1967 (3245)
T 3vkg_A         1931 DTEAQVKDLQVSLAQKNRELDVKNEQANQKLKQMVQD 1967 (3245)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444444444445555555555544444444433

>2v66_B Nuclear distribution protein NUDE-like 1; structural protein, developmental protein, structural protei phosphorylation, transport, microtubule; 2.10A {Homo sapiens}

Probab=96.23  E-value=0.23  Score=42.57  Aligned_cols=63  Identities=17%  Similarity=0.239  Sum_probs=31.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          114 AHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKK-------ISDLSAKLEKLQKINDEQKSKIRK  176 (441)
Q Consensus       114 a~~~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkk-------leELekklEeLek~~aEQk~qIee  176 (441)
                      ++...+.|++++..|+...+.+...+.+||....++|..       ++++++++...-..++-.+..+++
T Consensus        33 ~~~~~~~Lq~El~~lr~~~~~l~~~iReLEq~NDDLER~~R~t~~SLeD~E~k~n~aiErnalLE~El~E  102 (111)
T 2v66_B           33 SYKQVSVLEDDLSQTRAIKEQLHKYVRELEQANDDLERAKRATIVSLEDFEQRLNQAIERNAFLESELDE  102 (111)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444455555555555555555555555555555443       555555555544444444444443

>3u59_A Tropomyosin beta chain; muscle contraction, actin, contractIle protein; 2.50A {Gallus gallus}

Probab=96.15  E-value=0.18  Score=42.13  Aligned_cols=15  Identities=20%  Similarity=0.412  Sum_probs=6.8

Q ss_pred             HHHHHHHHHHHhhHH
Q 013531           48 DQLKSKIRSLESHID   62 (441)
Q Consensus        48 ~~l~~~i~~Les~i~   62 (441)
                      +.++.++..|.-..+
T Consensus         5 d~iKkKm~~lk~e~e   19 (101)
T 3u59_A            5 EAIKKKMQMLKLDKE   19 (101)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH
Confidence            344455555444433

>3tnu_B Keratin, type II cytoskeletal 5; coiled-coil, structural support, cytosolic protein; 3.00A {Homo sapiens}

Probab=96.14  E-value=0.039  Score=47.96  Aligned_cols=84  Identities=15%  Similarity=0.256  Sum_probs=35.0

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhH----------HhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531           72 DEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNA----------AEQVDKAHARADELEKQIDNLKKESEKQQKEKEA  141 (441)
Q Consensus        72 ~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~----------~~~~~~a~~~~~eLe~eVe~Lkkeie~~ek~~ee  141 (441)
                      .+.+..-...|.+....|.+|+.+|++|++...++.          ..+...+++.+..|+.++..++.++..+..+...
T Consensus        28 ~~~l~~~k~Ei~elrr~iq~L~~el~~l~~~~~~LE~~l~e~e~~~~~~l~~~q~~i~~lE~eL~~~r~e~~~ql~EYq~  107 (129)
T 3tnu_B           28 GDDLRNTKHEISEMNRMIQRLRAEIDNVKKQCANLQNAIADAEQRGELALKDARNKLAELEEALQKAKQDMARLLREYQE  107 (129)
T ss_dssp             ------CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHH
Confidence            333433444455555555566666655543222110          1112233344444555555555555554444444


Q ss_pred             HHHHHHHHHHHHHH
Q 013531          142 LEARAIEAEKKISD  155 (441)
Q Consensus       142 LEark~eLEkkleE  155 (441)
                      |-.-+-.|+.+++.
T Consensus       108 LlnvKl~Ld~EIat  121 (129)
T 3tnu_B          108 LMNTKLALDVEIAT  121 (129)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
Confidence            44444444444333

>3o0z_A RHO-associated protein kinase 1; coiled-coil, transferase; HET: MSE; 2.33A {Homo sapiens}

Probab=96.13  E-value=0.42  Score=43.73  Aligned_cols=50  Identities=20%  Similarity=0.320  Sum_probs=30.6

Q ss_pred             HHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013531           51 KSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQ  100 (441)
Q Consensus        51 ~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq  100 (441)
                      +.+|.+|+.++.+....++.-.+.-...-+...|.++.+..++..+.-||
T Consensus         5 neKi~~LekQL~E~n~kLk~EsE~~~rlkK~~tEl~k~~~~~E~~~rELq   54 (168)
T 3o0z_A            5 NEKLSQLQKQLEEANDLLRTESDTAVRLRKSHTEMSKSISQLESLNRELQ   54 (168)
T ss_dssp             -----CTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45677777777777777777666666666666666666666666665555

>3tnu_A Keratin, type I cytoskeletal 14; coiled-coil, structural support, cytosolic protein; 3.00A {Homo sapiens}

Probab=96.11  E-value=0.039  Score=48.12  Aligned_cols=97  Identities=21%  Similarity=0.257  Sum_probs=33.6

Q ss_pred             hHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhH----------HhhHHHHHHHHHHHHHHHHHHH
Q 013531           60 HIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNA----------AEQVDKAHARADELEKQIDNLK  129 (441)
Q Consensus        60 ~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~----------~~~~~~a~~~~~eLe~eVe~Lk  129 (441)
                      ++.++......-.+.+..-...|.+....|.+|+.+|+++.+...++.          ..+...++..+..|+.++..++
T Consensus        18 K~eel~~~~~~~~~~l~~~k~Ei~elrr~iq~L~~el~~l~~~~~sLE~~l~e~e~~~~~~l~~~q~~i~~lE~eL~~~r   97 (131)
T 3tnu_A           18 KTEELNREVATNSELVQSGKSEISELRRTMQNLEIELQSQLSMKASLENSLEETKGRYCMQLAQIQEMIGSVEEQLAQLR   97 (131)
T ss_dssp             -----------------------CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333343344344444444555566666666666666666653222110          1112233344444444455554


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          130 KESEKQQKEKEALEARAIEAEKKISDL  156 (441)
Q Consensus       130 keie~~ek~~eeLEark~eLEkkleEL  156 (441)
                      .++..+..+...|-.-+-.|+.+++..
T Consensus        98 ~em~~ql~EYq~Ll~vKl~Ld~EIatY  124 (131)
T 3tnu_A           98 CEMEQQNQEYKILLDVKTRLEQEIATY  124 (131)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444444444444444444444443333

>3a7p_A Autophagy protein 16; coiled-coil, coiled coil, cytoplasmic vesicle, protein transport, transport, vacuole; 2.80A {Saccharomyces cerevisiae}

Probab=95.87  E-value=0.11  Score=46.79  Aligned_cols=50  Identities=18%  Similarity=0.185  Sum_probs=34.5

Q ss_pred             hHhHHHHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013531           44 KIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQ  100 (441)
Q Consensus        44 ~~el~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq  100 (441)
                      ....+++...|..|++.+..       ....|..++..|.+|.+.+..+++|+.+||
T Consensus        60 vs~~~~~~~~I~~L~~El~~-------l~~ki~dLeeel~eK~K~~e~l~DEl~aLq  109 (152)
T 3a7p_A           60 VSHDDALLNTLAILQKELKS-------KEQEIRRLKEVIALKNKNTERLNAALISGT  109 (152)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccchhHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33445555555555555554       455555588888888899999999999998

>3u1c_A Tropomyosin alpha-1 chain; anti-parallel coiled coil, contractIle protein; 1.80A {Gallus gallus} PDB: 3u1a_A

Probab=95.74  E-value=0.41  Score=40.00  Aligned_cols=62  Identities=16%  Similarity=0.213  Sum_probs=23.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          114 AHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIR  175 (441)
Q Consensus       114 a~~~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIe  175 (441)
                      ++.+...++.+|.+|.+-+..++.+.+.++....+....+.+.+....+.+..+..+..+|+
T Consensus        35 ~e~~~~~~E~Ei~sL~kk~~~lE~eld~~ee~L~ea~~kLee~ek~~~~aE~ev~~L~Rriq   96 (101)
T 3u1c_A           35 AEERSKQLEDDIVQLEKQLRVTEDSRDQVLEELHKSEDSLLFAEENAAKAESEVASLNRRIQ   96 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333344444444433333333333333333333333333333333333333333333333

>2eqb_B RAB guanine nucleotide exchange factor SEC2; coiled coil, endocytosis/exocytosis complex; 2.70A {Saccharomyces cerevisiae} SCOP: h.1.33.1

Probab=95.63  E-value=0.21  Score=41.89  Aligned_cols=29  Identities=28%  Similarity=0.531  Sum_probs=18.9

Q ss_pred             chhHhHHHHHHHHHHHHhhHHHHhhhhcc
Q 013531           42 PLKIELDQLKSKIRSLESHIDEKTQELKG   70 (441)
Q Consensus        42 ~~~~el~~l~~~i~~Les~i~~~~~~i~~   70 (441)
                      ++..+++.||.+|.+|++.....+.++..
T Consensus         2 ~~~~~~e~lre~l~~le~~~~~~~~e~~~   30 (97)
T 2eqb_B            2 PLGSNYNQLKEDYNTLKRELSDRDDEVKR   30 (97)
T ss_dssp             ---CCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cHhHHHHHHHHHHHHHHHHHHhhhHHHHH
Confidence            35667888888888888777765444444

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=95.42  E-value=0.95  Score=57.30  Aligned_cols=21  Identities=24%  Similarity=0.604  Sum_probs=14.8

Q ss_pred             hhhhhccCCchHHHHHHHHHH
Q 013531          223 ETHWNAHGKPAMDVAIQKALE  243 (441)
Q Consensus       223 ~~~w~~hg~p~~~~~~~ka~~  243 (441)
                      ...|+..|=|.=+--++.+.=
T Consensus      2159 i~~W~~~GLP~D~lSiENaii 2179 (3245)
T 3vkg_A         2159 RLNWHANSLPSDELCIENAIM 2179 (3245)
T ss_dssp             HHHHHHTTCCSSHHHHHHHHH
T ss_pred             HHHHHhCCCCCCchhhhHHHH
Confidence            347999998876666666543

>3nmd_A CGMP dependent protein kinase; leucine zipper, coiled-coil, structural genomics, berkeley S genomics center, BSGC, dimerization; HET: MSE; 2.27A {Homo sapiens}

Probab=95.37  E-value=0.032  Score=44.38  Aligned_cols=47  Identities=32%  Similarity=0.519  Sum_probs=32.1

Q ss_pred             HHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013531           54 IRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQ  100 (441)
Q Consensus        54 i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq  100 (441)
                      |..|+.-+..+..+|..||..|..+|+.|.+++..|..|++++.-+|
T Consensus        21 i~eLq~~L~~K~eELr~kd~~I~eLEk~L~ekd~eI~~LqseLDKfr   67 (72)
T 3nmd_A           21 LRDLQYALQEKIEELRQRDALIDELELELDQKDELIQMLQNELDKYR   67 (72)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            55666666666666666677777777777777777777777776665

>3u59_A Tropomyosin beta chain; muscle contraction, actin, contractIle protein; 2.50A {Gallus gallus}

Probab=95.23  E-value=0.6  Score=38.84  Aligned_cols=63  Identities=21%  Similarity=0.286  Sum_probs=26.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          113 KAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIR  175 (441)
Q Consensus       113 ~a~~~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIe  175 (441)
                      .++.+...++.+|..|++-+..++.+.+.++.+..++...+++.+......+..+..+..+|+
T Consensus        34 ~~e~~~~~~E~ei~sL~kKiq~lE~eld~~~e~l~~a~~kLe~~ek~~~~AE~evasLnRriq   96 (101)
T 3u59_A           34 QAEDRCKQLEEEQQGLQKKLKGTEDEVEKYSESVKEAQEKLEQAEKKATDAEAEVASLNRRIQ   96 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444444444444444444444443344444444444444444444443

>3nmd_A CGMP dependent protein kinase; leucine zipper, coiled-coil, structural genomics, berkeley S genomics center, BSGC, dimerization; HET: MSE; 2.27A {Homo sapiens}

Probab=94.90  E-value=0.04  Score=43.87  Aligned_cols=41  Identities=17%  Similarity=0.194  Sum_probs=37.2

Q ss_pred             hHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013531           60 HIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQ  100 (441)
Q Consensus        60 ~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq  100 (441)
                      -|.++...|..|+++|..+|..|.++++.|.++..+|..||
T Consensus        20 ti~eLq~~L~~K~eELr~kd~~I~eLEk~L~ekd~eI~~Lq   60 (72)
T 3nmd_A           20 SLRDLQYALQEKIEELRQRDALIDELELELDQKDELIQMLQ   60 (72)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            37788889999999999999999999999999999999888

>2oto_A M protein; helical coiled coil, fibrinogen-binding, virulence factor, S active protein, toxin; 3.04A {Streptococcus pyogenes serotype M1} PDB: 2xny_M

Probab=94.35  E-value=2.6  Score=37.35  Aligned_cols=52  Identities=19%  Similarity=0.255  Sum_probs=24.4

Q ss_pred             HHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013531           49 QLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQ  100 (441)
Q Consensus        49 ~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq  100 (441)
                      .|+.+...|.+....+...+.........++..+.+++....+|+..+..++
T Consensus        26 ~l~~eN~~Lk~e~e~l~~~~~~~~~~~~eL~~~~~~Le~~n~~L~~~lke~~   77 (155)
T 2oto_A           26 RLRHENKDLKARLENAMEVAGRDFKRAEELEKAKQALEDQRKDLETKLKELQ   77 (155)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4555555555555555443333233333344444444455555554444443

>3hnw_A Uncharacterized protein; coiled-coil, structural genomics, PSI-2, protein structure initiative, midwest center for structural genomics, MCSG; 2.20A {Eubacterium eligens}

Probab=94.34  E-value=0.38  Score=42.50  Aligned_cols=30  Identities=37%  Similarity=0.418  Sum_probs=15.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          117 RADELEKQIDNLKKESEKQQKEKEALEARA  146 (441)
Q Consensus       117 ~~~eLe~eVe~Lkkeie~~ek~~eeLEark  146 (441)
                      ++.++++++++|++++..+..++..|++..
T Consensus       104 k~e~~~~e~~~l~~~~~~l~~~~~~le~~~  133 (138)
T 3hnw_A          104 KAESSAKEIKELKSEINKYQKNIVKLETEL  133 (138)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444555555555555555555554443

>2jee_A YIIU; FTSZ, septum, coiled-coil, cell division, cell cycle, hypothetical protein; 2.8A {Escherichia coli}

Probab=93.56  E-value=0.98  Score=36.65  Aligned_cols=19  Identities=11%  Similarity=0.212  Sum_probs=9.7

Q ss_pred             HHHHHHHHHHHHHHHHHhh
Q 013531           82 IQDKSERIVSLQKELSSLQ  100 (441)
Q Consensus        82 i~ek~~~I~~l~~ei~sLq  100 (441)
                      +..++.+|...-..|+.||
T Consensus         8 leqLE~KIq~avdtI~lLq   26 (81)
T 2jee_A            8 FEKLEAKVQQAIDTITLLQ   26 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            3344455555555555555

>3a7o_A Autophagy protein 16; coiled-coil, coiled coil, cytoplasmic vesicle, protein transport, transport, vacuole; 2.50A {Saccharomyces cerevisiae}

Probab=93.51  E-value=0.21  Score=39.47  Aligned_cols=50  Identities=20%  Similarity=0.212  Sum_probs=40.3

Q ss_pred             hhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHH
Q 013531           59 SHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAA  108 (441)
Q Consensus        59 s~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~  108 (441)
                      ..|..+.+++.+||++|..++..|.-+++-...|-+||-||--++..+++
T Consensus        18 ~~l~~Lr~eL~~Ke~eI~~L~e~i~lk~kd~ErLNDEiislNIENNlL~~   67 (75)
T 3a7o_A           18 NTLAILQKELKSKEQEIRRLKEVIALKNKNTERLNDELISGTIENNVLQQ   67 (75)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHhhHHHHHhHHHHHHHHH
Confidence            34555566777888999999999999999999999999999766655543

>3a7p_A Autophagy protein 16; coiled-coil, coiled coil, cytoplasmic vesicle, protein transport, transport, vacuole; 2.80A {Saccharomyces cerevisiae}

Probab=93.42  E-value=0.92  Score=40.81  Aligned_cols=49  Identities=20%  Similarity=0.175  Sum_probs=22.6

Q ss_pred             hHhHHHHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013531           44 KIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSL   99 (441)
Q Consensus        44 ~~el~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sL   99 (441)
                      ...+..|+.++.+|+.+|..++.+|++       |.+.++.....+.+|+-+...+
T Consensus        67 ~~~I~~L~~El~~l~~ki~dLeeel~e-------K~K~~e~l~DEl~aLqlq~n~l  115 (152)
T 3a7p_A           67 LNTLAILQKELKSKEQEIRRLKEVIAL-------KNKNTERLNAALISGTIENNVL  115 (152)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHH
Confidence            344455555555555555554333333       4444444444444444444444

>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=93.39  E-value=1.1  Score=47.55  Aligned_cols=38  Identities=16%  Similarity=0.245  Sum_probs=16.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          120 ELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLS  157 (441)
Q Consensus       120 eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELe  157 (441)
                      +|+.++..|+..++.+-..+..|++-..++-.++..|+
T Consensus       114 ELRRrIqyLKekVdnQlsnIrvLQsnLedq~~kIQRLE  151 (562)
T 3ghg_A          114 DLRSRIEVLKRKVIEKVQHIQLLQKNVRAQLVDMKRLE  151 (562)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444444444444444444444433333333333333

>1ic2_A Tropomyosin alpha chain, skeletal muscle; alpha-helical coiled coil, alanine, symmetry, axial stagger, BEND, contractIle protein; 2.00A {Gallus gallus} SCOP: h.1.5.1

Probab=93.26  E-value=1.2  Score=35.59  Aligned_cols=48  Identities=23%  Similarity=0.229  Sum_probs=19.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          113 KAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKL  160 (441)
Q Consensus       113 ~a~~~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekkl  160 (441)
                      .++..+.+.+.....+..++..+.+++..++......+.++.+.+.++
T Consensus        24 ~~e~~l~~~e~~~~~~E~ev~~L~kKiq~lE~eld~~ee~l~~a~~kL   71 (81)
T 1ic2_A           24 QAEADKKAAEERSKQLEDELVALQKKLKGTEDELDKYSESLKDAQEKL   71 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333344444444444444444444444333333333333333

>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=92.98  E-value=1.4  Score=39.74  Aligned_cols=17  Identities=41%  Similarity=0.716  Sum_probs=9.6

Q ss_pred             HHHHHHHHHHHHHHHHH
Q 013531          112 DKAHARADELEKQIDNL  128 (441)
Q Consensus       112 ~~a~~~~~eLe~eVe~L  128 (441)
                      ..|+.....++.+++.|
T Consensus        75 ~~aE~~~~~ie~ElEeL   91 (154)
T 2ocy_A           75 TKAEEEADKLNKEVEDL   91 (154)
T ss_dssp             HHHHTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            35555555555555555

>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=92.86  E-value=1.3  Score=46.86  Aligned_cols=95  Identities=12%  Similarity=0.130  Sum_probs=43.9

Q ss_pred             HHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHHHHHHHHH
Q 013531           50 LKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLK  129 (441)
Q Consensus        50 l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~eVe~Lk  129 (441)
                      ++..|..|+.+++++.+.-++-+.....+-+.+++.-.....+.+.+    +..+...+.++.+...+++.--.++..|+
T Consensus        62 ltkrINELKnqLEdlsKnsKdseqy~k~~~E~Lr~rq~q~~dNdNty----nE~S~ELRRrIqyLKekVdnQlsnIrvLQ  137 (562)
T 3ghg_A           62 FTNRINKLKNSLFEYQKNNKDSHSLTTNIMEILRGDFSSANNRDNTY----NRVSEDLRSRIEVLKRKVIEKVQHIQLLQ  137 (562)
T ss_dssp             HHHHHHHHHHHHTHHHHHHHHHHHHHHHHHHTTSSHHHHHHHHHHHH----HHTTHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhhchhHHHHHHHHHHHHHHHHHhhhccchhH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45555555555555544444444444444444443333333333322    22333344444444444444445555555


Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q 013531          130 KESEKQQKEKEALEARAIE  148 (441)
Q Consensus       130 keie~~ek~~eeLEark~e  148 (441)
                      ..|++|..++..||.....
T Consensus       138 snLedq~~kIQRLEvDIdi  156 (562)
T 3ghg_A          138 KNVRAQLVDMKRLEVDIDI  156 (562)
T ss_dssp             HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            5555555555555555443

>2xzr_A Immunoglobulin-binding protein EIBD; cell adhesion, trimeric autotransporter adhesin, TAA; 2.80A {Enterobacteria phage p-eibd}

Probab=92.72  E-value=3.9  Score=34.24  Aligned_cols=97  Identities=16%  Similarity=0.269  Sum_probs=50.8

Q ss_pred             HHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHHHHHHHHHHHHH
Q 013531           54 IRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESE  133 (441)
Q Consensus        54 i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~eVe~Lkkeie  133 (441)
                      |...-+.|-.++-++.--+.-+-..+..|....+.|..-+.-|+++.        .+....++|.+....|+.+--+++.
T Consensus         8 ~~~~~~~~~~~~~~~~ri~~aig~~d~ri~~NtqaI~~NS~aiaanT--------r~lQqh~aRlnsqQrQI~ENhkEMK   79 (114)
T 2xzr_A            8 IEEILSKIYHIENEIARIKKLIGAIDGRVTRNTQSIEKNSKAIAANT--------RTLQQHSARLDSQQRQINENHKEMK   79 (114)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcchHHHHHHHHhhhhHHHHhhHHHHHhchHHHHHhH--------HHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            33333333333333333333344444444444444444444444332        3344566777777777777777776


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          134 KQQKEKEALEARAIEAEKKISDLSA  158 (441)
Q Consensus       134 ~~ek~~eeLEark~eLEkkleELek  158 (441)
                      +.+.+.++|-++.--+|.++..+.+
T Consensus        80 q~aaqsaaLlsk~yh~ene~ar~kk  104 (114)
T 2xzr_A           80 QIEDKIEEILSKIYHIENEIARIKK  104 (114)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            6666666666665556655554443

>3hnw_A Uncharacterized protein; coiled-coil, structural genomics, PSI-2, protein structure initiative, midwest center for structural genomics, MCSG; 2.20A {Eubacterium eligens}

Probab=92.70  E-value=2  Score=37.90  Aligned_cols=50  Identities=32%  Similarity=0.355  Sum_probs=20.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          117 RADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKI  166 (441)
Q Consensus       117 ~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~  166 (441)
                      +...|+.+++.+.+++.++..++..+.-+..++.+++.++..++..|+..
T Consensus        76 ~~~~L~~~l~~~~kE~~~lK~el~~~~~k~e~~~~e~~~l~~~~~~l~~~  125 (138)
T 3hnw_A           76 MADSLSLDIENKDKEIYDLKHELIAAQIKAESSAKEIKELKSEINKYQKN  125 (138)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444444444444433333444444444444333333

>2e7s_A RAB guanine nucleotide exchange factor SEC2; coiled coil, endocytosis/exocytosis complex; 3.00A {Saccharomyces cerevisiae} SCOP: h.1.33.1

Probab=92.64  E-value=0.52  Score=41.68  Aligned_cols=17  Identities=41%  Similarity=0.716  Sum_probs=9.4

Q ss_pred             HHHHHHHHHHHHHHHHH
Q 013531          112 DKAHARADELEKQIDNL  128 (441)
Q Consensus       112 ~~a~~~~~eLe~eVe~L  128 (441)
                      ..|+.....++.+++.|
T Consensus        63 ~~aE~~~~~ie~ElE~L   79 (135)
T 2e7s_A           63 TKAEEEADKLNKEVEDL   79 (135)
T ss_dssp             HHHHHTTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            34555555555555555

>1l8d_A DNA double-strand break repair RAD50 ATPase; zinc finger, DNA repair, recombination, HOOK motif, replication; HET: DNA CIT; 2.20A {Pyrococcus furiosus} SCOP: h.4.12.1

Probab=92.45  E-value=2.2  Score=35.34  Aligned_cols=24  Identities=21%  Similarity=0.344  Sum_probs=12.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhh
Q 013531           78 KEKAIQDKSERIVSLQKELSSLQK  101 (441)
Q Consensus        78 ke~~i~ek~~~I~~l~~ei~sLq~  101 (441)
                      +...+.+....|..+...+.-|.+
T Consensus        22 L~~~~~~l~~~i~~l~~~l~~l~~   45 (112)
T 1l8d_A           22 ITQRIGELKNKIGDLKTAIEELKK   45 (112)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhc
Confidence            334444455556666666666644

>3tnu_B Keratin, type II cytoskeletal 5; coiled-coil, structural support, cytosolic protein; 3.00A {Homo sapiens}

Probab=92.36  E-value=1.7  Score=37.58  Aligned_cols=69  Identities=16%  Similarity=0.282  Sum_probs=39.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          111 VDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALK  182 (441)
Q Consensus       111 ~~~a~~~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelEk~lk  182 (441)
                      +..+...+.+++..|+.|+-+++.+......||....+++..   ....+.+++..+...+..+.++...+.
T Consensus        31 l~~~k~Ei~elrr~iq~L~~el~~l~~~~~~LE~~l~e~e~~---~~~~l~~~q~~i~~lE~eL~~~r~e~~   99 (129)
T 3tnu_B           31 LRNTKHEISEMNRMIQRLRAEIDNVKKQCANLQNAIADAEQR---GELALKDARNKLAELEEALQKAKQDMA   99 (129)
T ss_dssp             ---CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHhHHHHHHHHH
Confidence            344555677777777777777777777777777777666653   223334444444444444444444443

>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=92.18  E-value=4.2  Score=36.15  Aligned_cols=24  Identities=21%  Similarity=0.280  Sum_probs=10.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          117 RADELEKQIDNLKKESEKQQKEKE  140 (441)
Q Consensus       117 ~~~eLe~eVe~Lkkeie~~ek~~e  140 (441)
                      ++..|+.++...+...++...+.+
T Consensus        53 r~~~lE~qLkeak~~aeeadrKye   76 (147)
T 2b9c_A           53 KMEIQEIQLKEAKHIAEDADRKYE   76 (147)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhHH
Confidence            444444444444444443333333

>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=92.09  E-value=6.5  Score=35.37  Aligned_cols=24  Identities=29%  Similarity=0.361  Sum_probs=14.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          113 KAHARADELEKQIDNLKKESEKQQ  136 (441)
Q Consensus       113 ~a~~~~~eLe~eVe~Lkkeie~~e  136 (441)
                      ...++-.+.+.+...+..+++++-
T Consensus        69 ~E~~~R~~aE~~~~~ie~ElEeLT   92 (154)
T 2ocy_A           69 KENELRTKAEEEADKLNKEVEDLT   92 (154)
T ss_dssp             HHHHHHHHHHTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334456666666666666666665

>3tnu_A Keratin, type I cytoskeletal 14; coiled-coil, structural support, cytosolic protein; 3.00A {Homo sapiens}

Probab=91.86  E-value=1.5  Score=37.98  Aligned_cols=69  Identities=19%  Similarity=0.310  Sum_probs=36.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          111 VDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALK  182 (441)
Q Consensus       111 ~~~a~~~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelEk~lk  182 (441)
                      +..+...+.+|+..|+.|+-+++.+......|+....+++..   ....+.+++..+...+..+.++...+.
T Consensus        33 l~~~k~Ei~elrr~iq~L~~el~~l~~~~~sLE~~l~e~e~~---~~~~l~~~q~~i~~lE~eL~~~r~em~  101 (131)
T 3tnu_A           33 VQSGKSEISELRRTMQNLEIELQSQLSMKASLENSLEETKGR---YCMQLAQIQEMIGSVEEQLAQLRCEME  101 (131)
T ss_dssp             --------CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            445556677777777777777777777777777777766653   223334444444444444444444443

>2v4h_A NF-kappa-B essential modulator; transcription, metal-binding, NEMO - IKK gamma - NFKB pathwa darpin, transcription regulation; 2.9A {Mus musculus}

Probab=91.69  E-value=1.3  Score=37.83  Aligned_cols=15  Identities=20%  Similarity=0.607  Sum_probs=8.4

Q ss_pred             HhHHHHHHHHHHHHh
Q 013531           45 IELDQLKSKIRSLES   59 (441)
Q Consensus        45 ~el~~l~~~i~~Les   59 (441)
                      .+++.|+.++...|.
T Consensus        24 ~ei~~L~~~L~~AEe   38 (110)
T 2v4h_A           24 MQLEDLRQQLQQAEE   38 (110)
T ss_dssp             CHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH
Confidence            466666666655433

>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=91.59  E-value=7  Score=34.72  Aligned_cols=51  Identities=18%  Similarity=0.385  Sum_probs=23.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          114 AHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQ  164 (441)
Q Consensus       114 a~~~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLe  164 (441)
                      |.-+..+..-.+.-+..+++..+.+.+..+++..+++..+......+..|+
T Consensus        71 adrKyeE~~RKl~~~E~dLeraeeRae~aE~k~~eLEeeL~~~~~nlKsLE  121 (147)
T 2b9c_A           71 ADRKYEEVARKLVIIESDLERAEERAELSEGKCAELEEELKTVTNNLKSLE  121 (147)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhH
Confidence            333444444444444444554444444444444444444444444444443

>2v66_B Nuclear distribution protein NUDE-like 1; structural protein, developmental protein, structural protei phosphorylation, transport, microtubule; 2.10A {Homo sapiens}

Probab=91.42  E-value=6.1  Score=33.72  Aligned_cols=94  Identities=19%  Similarity=0.275  Sum_probs=51.4

Q ss_pred             HHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHHHHHHHH
Q 013531           49 QLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNL  128 (441)
Q Consensus        49 ~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~eVe~L  128 (441)
                      .|+.+...|...+++...          ..+..-.+-++.|.+||.+|+.|+....        .-..++.+|+-.-|.|
T Consensus         7 dL~~~~~~L~~E~e~~k~----------K~~~~~~e~~~~~~~Lq~El~~lr~~~~--------~l~~~iReLEq~NDDL   68 (111)
T 2v66_B            7 DLQADNQRLKYEVEALKE----------KLEHQYAQSYKQVSVLEDDLSQTRAIKE--------QLHKYVRELEQANDDL   68 (111)
T ss_dssp             HHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHhchHH
Confidence            355555555555544311          1233445556788888888888873321        2233566666666666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          129 KKESEKQQKEKEALEARAIEAEKKISDLSAKL  160 (441)
Q Consensus       129 kkeie~~ek~~eeLEark~eLEkkleELekkl  160 (441)
                      +..-+....-+++++++.+.+=.+-.=|+..+
T Consensus        69 ER~~R~t~~SLeD~E~k~n~aiErnalLE~El  100 (111)
T 2v66_B           69 ERAKRATIVSLEDFEQRLNQAIERNAFLESEL  100 (111)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            66666666666666665555433333344433

>3swk_A Vimentin; cytoskeleton, intermediate filament, alpha-helix, structural; 1.70A {Homo sapiens}

Probab=90.52  E-value=3  Score=33.86  Aligned_cols=14  Identities=14%  Similarity=0.370  Sum_probs=5.9

Q ss_pred             HHHHHHHHHHHhhH
Q 013531           48 DQLKSKIRSLESHI   61 (441)
Q Consensus        48 ~~l~~~i~~Les~i   61 (441)
                      ..||.+|..+...-
T Consensus         3 ~eLr~qi~~l~~e~   16 (86)
T 3swk_A            3 RELRRQVDQLTNDK   16 (86)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhH
Confidence            34444444443333

>3qh9_A Liprin-beta-2; coiled-coil, dimerization, structural protein; 2.01A {Homo sapiens}

Probab=90.36  E-value=0.83  Score=36.99  Aligned_cols=57  Identities=32%  Similarity=0.357  Sum_probs=49.0

Q ss_pred             CchhHhHHHHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531           41 SPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELS   97 (441)
Q Consensus        41 ~~~~~el~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~   97 (441)
                      ..+-.|+..||.++..||+.-..-+..|++..++|..+...+..++..|.-|++++.
T Consensus        22 E~L~qEi~~Lr~kv~elEnErlQyEkKLKsTK~El~~Lq~qLe~kd~ei~rL~~~l~   78 (81)
T 3qh9_A           22 EELLQELRHLKIKVEELENERNQYEWKLKATKAEVAQLQEQVALKDAEIERLHSQLS   78 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhHHHHHHHHHHHh
Confidence            357788999999999999999999999999889999998888888888877777764

>2e7s_A RAB guanine nucleotide exchange factor SEC2; coiled coil, endocytosis/exocytosis complex; 3.00A {Saccharomyces cerevisiae} SCOP: h.1.33.1

Probab=89.79  E-value=1.4  Score=38.99  Aligned_cols=20  Identities=30%  Similarity=0.360  Sum_probs=9.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q 013531          117 RADELEKQIDNLKKESEKQQ  136 (441)
Q Consensus       117 ~~~eLe~eVe~Lkkeie~~e  136 (441)
                      +-.+.+.+...+..+++++-
T Consensus        61 ~R~~aE~~~~~ie~ElE~LT   80 (135)
T 2e7s_A           61 LRTKAEEEADKLNKEVEDLT   80 (135)
T ss_dssp             HHHHHHHTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444444

>3s4r_A Vimentin; alpha-helix, cytoskeleton, intermediate filament, structural; 2.45A {Homo sapiens} PDB: 3ssu_A

Probab=89.48  E-value=4.7  Score=33.12  Aligned_cols=37  Identities=16%  Similarity=0.338  Sum_probs=23.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          122 EKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSA  158 (441)
Q Consensus       122 e~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELek  158 (441)
                      +.++..|+.+++.+..+...++.+...+...+.++..
T Consensus        55 e~~i~~Lr~~i~~~~~ek~~l~~e~dnl~~~~~~~k~   91 (93)
T 3s4r_A           55 EEEMRELRRQVDQLTNDKARVEVERDNLAEDIMRLRE   91 (93)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            5667777777777777777666666555554444443

>2pms_C Pneumococcal surface protein A (PSPA); lactoferrin, protein-protein metal transport, hydrolase; HET: NAG; 2.91A {Streptococcus pneumoniae} SCOP: h.4.19.1

Probab=89.35  E-value=2.1  Score=37.38  Aligned_cols=26  Identities=38%  Similarity=0.465  Sum_probs=18.5

Q ss_pred             HHHHHHHHHHhhHHHHhhhhcchhHH
Q 013531           49 QLKSKIRSLESHIDEKTQELKGKDEV   74 (441)
Q Consensus        49 ~l~~~i~~Les~i~~~~~~i~~k~~~   74 (441)
                      .|..+|+.|+-++..+++.+++-+..
T Consensus        10 ~l~~KvAElekkv~~lek~lk~~~e~   35 (125)
T 2pms_C           10 APQAKIAELENQVHRLEQELKEIDES   35 (125)
T ss_dssp             SHHHHHHHHHHHHHHHHHHTTTTCC-
T ss_pred             hHHHHHHHHHHHHHHHHHHHHhcchh
Confidence            46778888888888887777775543

>2jee_A YIIU; FTSZ, septum, coiled-coil, cell division, cell cycle, hypothetical protein; 2.8A {Escherichia coli}

Probab=89.09  E-value=7.9  Score=31.33  Aligned_cols=28  Identities=32%  Similarity=0.427  Sum_probs=16.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013531           73 EVVAQKEKAIQDKSERIVSLQKELSSLQ  100 (441)
Q Consensus        73 ~~l~~ke~~i~ek~~~I~~l~~ei~sLq  100 (441)
                      +.+.++|.-|++.-..|.-|+-||.-|.
T Consensus         6 ElleqLE~KIq~avdtI~lLqmEieELK   33 (81)
T 2jee_A            6 EVFEKLEAKVQQAIDTITLLQMEIEELK   33 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3455556666666666666666666664

>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=88.91  E-value=7.5  Score=40.68  Aligned_cols=15  Identities=40%  Similarity=0.519  Sum_probs=6.2

Q ss_pred             HHHHHHHHHHHHHHH
Q 013531          168 DEQKSKIRKTERALK  182 (441)
Q Consensus       168 aEQk~qIeelEk~lk  182 (441)
                      ..+..+|+.++..+.
T Consensus       178 ~~l~~ki~~l~~~~~  192 (464)
T 1m1j_B          178 DSLHKKIQKLENAIA  192 (464)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH
Confidence            333444444444433

>1m1j_C Fibrinogen gamma chain; coiled coils, disulfide rings, fibrinogen, blood clotting; HET: NDG NAG; 2.70A {Gallus gallus} SCOP: d.171.1.1 h.1.8.1 PDB: 1ei3_C

Probab=88.79  E-value=5.1  Score=41.28  Aligned_cols=11  Identities=9%  Similarity=0.205  Sum_probs=4.3

Q ss_pred             HHHHHHHHHHH
Q 013531          120 ELEKQIDNLKK  130 (441)
Q Consensus       120 eLe~eVe~Lkk  130 (441)
                      ++.+++.+|+.
T Consensus        88 kml~~~~~~e~   98 (409)
T 1m1j_C           88 KIIEEIIRYEN   98 (409)
T ss_dssp             HHHHHHHHTHH
T ss_pred             HHHHHHHHHHH
Confidence            33334444433

>1d7m_A Cortexillin I; coiled-coil, coiled-coil trigger site, alpha helix, dimeriza contractIle protein; 2.70A {Dictyostelium discoideum} SCOP: h.1.10.1

Probab=88.79  E-value=9  Score=31.61  Aligned_cols=9  Identities=22%  Similarity=0.556  Sum_probs=5.3

Q ss_pred             HHHHHHHhh
Q 013531           92 LQKELSSLQ  100 (441)
Q Consensus        92 l~~ei~sLq  100 (441)
                      +.+.+++||
T Consensus         2 lan~La~le   10 (101)
T 1d7m_A            2 MANRLAGLE   10 (101)
T ss_dssp             HHHHHHHHH
T ss_pred             HhHHHHHHH
Confidence            455666665

>2zqm_A Prefoldin beta subunit 1; chaperone; HET: CIT; 1.90A {Thermococcus SP} PDB: 2zdi_A

Probab=88.20  E-value=6.3  Score=32.53  Aligned_cols=41  Identities=10%  Similarity=0.196  Sum_probs=23.6

Q ss_pred             HhHHHHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHH
Q 013531           45 IELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDK   85 (441)
Q Consensus        45 ~el~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek   85 (441)
                      .++.++-.++..|..++..+.+++......+...+..+.++
T Consensus         6 ~e~Q~~i~~~~~l~~~~~~l~~q~~~l~~~~~e~~~~~~eL   46 (117)
T 2zqm_A            6 PQVQAMLGQLESYQQQLQLVVQQKQKVQLELTEAKKALDEI   46 (117)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45556666666777777766666666444444455444433

>1ic2_A Tropomyosin alpha chain, skeletal muscle; alpha-helical coiled coil, alanine, symmetry, axial stagger, BEND, contractIle protein; 2.00A {Gallus gallus} SCOP: h.1.5.1

Probab=88.04  E-value=8.6  Score=30.49  Aligned_cols=42  Identities=31%  Similarity=0.283  Sum_probs=15.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          127 NLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKIND  168 (441)
Q Consensus       127 ~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~a  168 (441)
                      .|+.+.+....+.+.++....+.+.....++..+..|++.+.
T Consensus        10 ~lk~e~d~a~~~~~~~e~~l~~~e~~~~~~E~ev~~L~kKiq   51 (81)
T 1ic2_A           10 MLKLDKENALDRAEQAEADKKAAEERSKQLEDELVALQKKLK   51 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            333333333333333333333333333333333333333333

>3swk_A Vimentin; cytoskeleton, intermediate filament, alpha-helix, structural; 1.70A {Homo sapiens}

Probab=87.92  E-value=7.4  Score=31.48  Aligned_cols=63  Identities=13%  Similarity=0.205  Sum_probs=43.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          119 DELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERAL  181 (441)
Q Consensus       119 ~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelEk~l  181 (441)
                      +.|..+++.++..+++...+.+.=-..+..+|..+..+.+.++++.-...+.+.+++.+...+
T Consensus        17 ~~l~~e~dn~~~~~edfk~KyE~E~~~R~~~E~d~~~LrkdvD~a~l~r~dLE~kvesL~eEl   79 (86)
T 3swk_A           17 ARVEVERDNLAEDIMRLREKLQEEMLQREEAENTLQSFRQDVDNASLARLDLERKVESLQEEI   79 (86)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            345567777777777777777666666666777777777777777766666666666665544

>2pms_C Pneumococcal surface protein A (PSPA); lactoferrin, protein-protein metal transport, hydrolase; HET: NAG; 2.91A {Streptococcus pneumoniae} SCOP: h.4.19.1

Probab=87.44  E-value=5.1  Score=34.91  Aligned_cols=21  Identities=19%  Similarity=0.425  Sum_probs=9.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHh
Q 013531           79 EKAIQDKSERIVSLQKELSSL   99 (441)
Q Consensus        79 e~~i~ek~~~I~~l~~ei~sL   99 (441)
                      +.-|.+.++.++.++..+..+
T Consensus        12 ~~KvAElekkv~~lek~lk~~   32 (125)
T 2pms_C           12 QAKIAELENQVHRLEQELKEI   32 (125)
T ss_dssp             HHHHHHHHHHHHHHHHHTTTT
T ss_pred             HHHHHHHHHHHHHHHHHHHhc
Confidence            344444444444444444443

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=87.36  E-value=15  Score=37.43  Aligned_cols=29  Identities=21%  Similarity=0.106  Sum_probs=12.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          154 SDLSAKLEKLQKINDEQKSKIRKTERALK  182 (441)
Q Consensus       154 eELekklEeLek~~aEQk~qIeelEk~lk  182 (441)
                      +....+++.+.++.+.++..++++...+.
T Consensus       438 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  466 (487)
T 3oja_A          438 DMYQHKETQLAEENARLKKLNGEADLALA  466 (487)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhhhHHHHHHHHhhhhhhhhhhhhhhhH
Confidence            33333444444444444444444444444

>3efg_A Protein SLYX homolog; xanthomonas campestris PV. campestris, coiled-coil, structur genomics, PSI-2, protein structure initiative; 2.00A {Xanthomonas campestris PV}

Probab=86.73  E-value=2.1  Score=34.22  Aligned_cols=43  Identities=21%  Similarity=0.296  Sum_probs=36.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          140 EALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALK  182 (441)
Q Consensus       140 eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelEk~lk  182 (441)
                      ..++.+..+||.+++-++..+++|++.+..|+..|+.+.+.+.
T Consensus        10 ~~le~Ri~~LE~klAfqE~tIeeLn~~v~~Qq~~Id~L~~ql~   52 (78)
T 3efg_A           10 QELEARLVELETRLSFQEQALTELSEALADARLTGARNAELIR   52 (78)
T ss_dssp             THHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4567788888888888888999999999999999999988877

>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=86.45  E-value=12  Score=30.67  Aligned_cols=19  Identities=21%  Similarity=0.403  Sum_probs=7.5

Q ss_pred             HHHHHHHHHHHHHHHHHHh
Q 013531           81 AIQDKSERIVSLQKELSSL   99 (441)
Q Consensus        81 ~i~ek~~~I~~l~~ei~sL   99 (441)
                      .|.++...+..+.++|..+
T Consensus        18 ~l~~L~~~~~~l~~~i~~l   36 (112)
T 1l8d_A           18 ERNEITQRIGELKNKIGDL   36 (112)
T ss_dssp             HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            3333333344444444444

>4gkw_A Spindle assembly abnormal protein 6; double helix, SAS-5, centriole, structural protein; 3.30A {Caenorhabditis elegans}

Probab=86.42  E-value=17  Score=32.10  Aligned_cols=40  Identities=20%  Similarity=0.313  Sum_probs=21.7

Q ss_pred             HHHHHHHHHHHHhhhhchhhHHhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531           87 ERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEK  134 (441)
Q Consensus        87 ~~I~~l~~ei~sLq~~~~~~~~~~~~~a~~~~~eLe~eVe~Lkkeie~  134 (441)
                      +-+.+-+..++.||+.++..+.+        ++.|.++...++...++
T Consensus        39 kML~EEqgKVDQlqKRn~~HQKE--------i~~Lrae~~~~QRn~~K   78 (167)
T 4gkw_A           39 NMLREEQGKVDQLQKRNVAHQKE--------IGKLRAELGTAQRNLEK   78 (167)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHhccHHHHH--------HHHHHHHHHHHHHhHHH
Confidence            33445566777787777665544        44444444444444333

>2zqm_A Prefoldin beta subunit 1; chaperone; HET: CIT; 1.90A {Thermococcus SP} PDB: 2zdi_A

Probab=86.36  E-value=9  Score=31.56  Aligned_cols=26  Identities=8%  Similarity=0.188  Sum_probs=10.8

Q ss_pred             HHHHHHHHHHHhhHHHHhhhhcchhH
Q 013531           48 DQLKSKIRSLESHIDEKTQELKGKDE   73 (441)
Q Consensus        48 ~~l~~~i~~Les~i~~~~~~i~~k~~   73 (441)
                      ..|+.++..|.++|..++.++.+-+.
T Consensus        16 ~~l~~~~~~l~~q~~~l~~~~~e~~~   41 (117)
T 2zqm_A           16 ESYQQQLQLVVQQKQKVQLELTEAKK   41 (117)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444444444443333

>3mq9_A Bone marrow stromal antigen 2 fused to maltose-BI periplasmic protein; HIV, antiviral protein; 2.80A {Escherichia coli}

Probab=86.32  E-value=30  Score=34.95  Aligned_cols=22  Identities=32%  Similarity=0.311  Sum_probs=10.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q 013531          127 NLKKESEKQQKEKEALEARAIE  148 (441)
Q Consensus       127 ~Lkkeie~~ek~~eeLEark~e  148 (441)
                      .|++++++.++....++..++.
T Consensus       401 ~~~~~~~~~~~~~~~~~~~~~~  422 (471)
T 3mq9_A          401 LLQQELTEAQKGFQDVEAQAAT  422 (471)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHhhh
Confidence            3444444444444444444443

>2eqb_B RAB guanine nucleotide exchange factor SEC2; coiled coil, endocytosis/exocytosis complex; 2.70A {Saccharomyces cerevisiae} SCOP: h.1.33.1

Probab=85.53  E-value=13  Score=31.10  Aligned_cols=20  Identities=10%  Similarity=0.238  Sum_probs=8.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q 013531          157 SAKLEKLQKINDEQKSKIRK  176 (441)
Q Consensus       157 ekklEeLek~~aEQk~qIee  176 (441)
                      ......++..+...+.+|.+
T Consensus        75 r~e~~~~e~kn~~L~~qL~d   94 (97)
T 2eqb_B           75 RKEKYAIEILNKRLTEQLRE   94 (97)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHhh
Confidence            33344444444444444443

>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=85.17  E-value=24  Score=36.91  Aligned_cols=40  Identities=15%  Similarity=0.295  Sum_probs=23.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          144 ARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKE  183 (441)
Q Consensus       144 ark~eLEkkleELekklEeLek~~aEQk~qIeelEk~lke  183 (441)
                      .+...+...+++.-..+..|+..+..|...|+.||.++..
T Consensus       118 ~ri~yIK~kVd~qi~~IrvLq~~l~~q~skIQRLE~dI~~  157 (491)
T 1m1j_A          118 RRIVTLKQRVATQVNRIKALQNSIQEQVVEMKRLEVDIDI  157 (491)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333344444443355666667777777777777777763

>3i00_A HIP-I, huntingtin-interacting protein 1; transcription; 2.30A {Homo sapiens} PDB: 2qa7_A

Probab=84.09  E-value=12  Score=32.21  Aligned_cols=19  Identities=21%  Similarity=0.345  Sum_probs=8.3

Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q 013531          118 ADELEKQIDNLKKESEKQQ  136 (441)
Q Consensus       118 ~~eLe~eVe~Lkkeie~~e  136 (441)
                      +..|..+|..|+.+++.+.
T Consensus        42 v~ql~~~i~~Le~eL~e~r   60 (120)
T 3i00_A           42 VLQLKGHVSELEADLAEQQ   60 (120)
T ss_dssp             HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            4444444444444444443

>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=83.31  E-value=20  Score=37.46  Aligned_cols=23  Identities=22%  Similarity=0.213  Sum_probs=11.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q 013531          147 IEAEKKISDLSAKLEKLQKINDE  169 (441)
Q Consensus       147 ~eLEkkleELekklEeLek~~aE  169 (441)
                      ..|+..++.+..++..|+.....
T Consensus       171 ~~L~~~~~~l~~ki~~l~~~~~~  193 (464)
T 1m1j_B          171 RVLRAVIDSLHKKIQKLENAIAT  193 (464)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444455555555555544443

>1fxk_A Prefoldin; archaeal protein, chaperone; 2.30A {Methanothermobacter thermautotrophicusorganism_taxid} SCOP: a.2.5.1 PDB: 1fxk_B

Probab=83.28  E-value=10  Score=30.79  Aligned_cols=37  Identities=8%  Similarity=0.204  Sum_probs=16.7

Q ss_pred             HHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHH
Q 013531           49 QLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDK   85 (441)
Q Consensus        49 ~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek   85 (441)
                      ++-.+...|+.++..+.+++......+...+..+.++
T Consensus         5 ~~i~~f~~lq~~~~~l~~q~~~l~~~~~e~~~~~~EL   41 (107)
T 1fxk_A            5 HQLAQFQQLQQQAQAISVQKQTVEMQINETQKALEEL   41 (107)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444455555544444444333333355444443

>1gk4_A Vimentin; intermediate filament, dimer, parallel coiled coil, heptad repeat, stutter; 2.3A {Homo sapiens} SCOP: h.1.20.1

Probab=82.57  E-value=17  Score=29.02  Aligned_cols=48  Identities=19%  Similarity=0.286  Sum_probs=32.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          113 KAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKL  160 (441)
Q Consensus       113 ~a~~~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekkl  160 (441)
                      ..+..+..|+.++..++.++..+..+...|=.-+-.++.+++...+.+
T Consensus        30 ~~q~~i~~lE~eL~~~r~e~~~q~~EYq~LlnvK~~Ld~EIatYRkLL   77 (84)
T 1gk4_A           30 NYQDTIGRLQDEIQNMKEEMARHLREYQDLLNVKMALDIEIATYRKLL   77 (84)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            344556666677777777777777777777766666776666665544

>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=82.53  E-value=30  Score=36.14  Aligned_cols=50  Identities=10%  Similarity=0.267  Sum_probs=32.9

Q ss_pred             HHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013531           50 LKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSL   99 (441)
Q Consensus        50 l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sL   99 (441)
                      ++..|..|+..+.+..+.-+.-..++...-+.+.+.-+.+...++-+..+
T Consensus        63 v~~rI~kLkn~L~~~s~s~~~s~~y~~~~~~~lk~~~~q~~dndn~~~e~  112 (491)
T 1m1j_A           63 YSQRIDNIRQQLADSQNKYKTSNRVIVETINILKPGLEGAQQLDENYGHV  112 (491)
T ss_dssp             HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHhhhccchhHHHHH
Confidence            66777777777777777766666666666666666666666555555333

>1fxk_A Prefoldin; archaeal protein, chaperone; 2.30A {Methanothermobacter thermautotrophicusorganism_taxid} SCOP: a.2.5.1 PDB: 1fxk_B

Probab=82.05  E-value=16  Score=29.59  Aligned_cols=33  Identities=6%  Similarity=0.240  Sum_probs=15.6

Q ss_pred             hHHHHHHHHHHHHhhHHHHhhhhcchhHHHHHH
Q 013531           46 ELDQLKSKIRSLESHIDEKTQELKGKDEVVAQK   78 (441)
Q Consensus        46 el~~l~~~i~~Les~i~~~~~~i~~k~~~l~~k   78 (441)
                      ++..++.++..+.++|..++.++.+-+..+.++
T Consensus         9 ~f~~lq~~~~~l~~q~~~l~~~~~e~~~~~~EL   41 (107)
T 1fxk_A            9 QFQQLQQQAQAISVQKQTVEMQINETQKALEEL   41 (107)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334445555555555555555544444444333

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=81.20  E-value=35  Score=34.66  Aligned_cols=24  Identities=21%  Similarity=0.376  Sum_probs=9.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          159 KLEKLQKINDEQKSKIRKTERALK  182 (441)
Q Consensus       159 klEeLek~~aEQk~qIeelEk~lk  182 (441)
                      +.+.+++...+....+.++...++
T Consensus       450 ~~~~~~~~~~~~~~~~~~~~~~~~  473 (487)
T 3oja_A          450 ENARLKKLNGEADLALASANATLQ  473 (487)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhhhhhhhhhhhhhhhHhcccHHH
Confidence            333333333344444444444333

>2oto_A M protein; helical coiled coil, fibrinogen-binding, virulence factor, S active protein, toxin; 3.04A {Streptococcus pyogenes serotype M1} PDB: 2xny_M

Probab=81.13  E-value=28  Score=30.58  Aligned_cols=45  Identities=16%  Similarity=0.189  Sum_probs=17.9

Q ss_pred             HHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013531           56 SLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQ  100 (441)
Q Consensus        56 ~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l~~ei~sLq  100 (441)
                      .|.+....+.++..+-...+......-.++...+..|......|+
T Consensus        26 ~l~~eN~~Lk~e~e~l~~~~~~~~~~~~eL~~~~~~Le~~n~~L~   70 (155)
T 2oto_A           26 RLRHENKDLKARLENAMEVAGRDFKRAEELEKAKQALEDQRKDLE   70 (155)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence            444444444444433322222333333344444444444444443

>2xnx_M M protein, M1-BC1; cell adhesion, virulence factor, streptococcal toxic shock S; 3.30A {Streptococcus pyogenes}

Probab=81.07  E-value=3.2  Score=37.06  Aligned_cols=66  Identities=18%  Similarity=0.242  Sum_probs=36.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          117 RADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALK  182 (441)
Q Consensus       117 ~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklEeLek~~aEQk~qIeelEk~lk  182 (441)
                      +++-|+..+..|..+++.....+..++++...++..+.+++.....|+..+.-..+....+.+.+.
T Consensus        60 ~~~~le~~~~~l~rdleasr~akk~~ea~la~l~~~~~~LeAE~aKLeEekQIseASRqgLrRDLe  125 (146)
T 2xnx_M           60 RANVLEKELEAITREQEINRNLLGNAKLELDQLSSEKEQLTIEKAKLEEEKQISDASRQSLRRDLD  125 (146)
T ss_dssp             THHHHTTTTTTHHHHHHTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHGGGTTTC------------
T ss_pred             hhhhhHhhHHHHHHHHHHHHHHHHhHHHHHHHHHhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            456667777777777777777777777777777777777776666665444333333344444443

>1x8y_A Lamin A/C; structural protein, intermediate filament protein; 2.20A {Homo sapiens} SCOP: h.1.20.1 PDB: 3v5b_A 3v4w_A 3v4q_A

Probab=80.07  E-value=15  Score=29.61  Aligned_cols=46  Identities=17%  Similarity=0.226  Sum_probs=30.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013531          116 ARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLE  161 (441)
Q Consensus       116 ~~~~eLe~eVe~Lkkeie~~ek~~eeLEark~eLEkkleELekklE  161 (441)
                      ..+..++.++..++.++..+..+...|=.-+..++.+++...+.++
T Consensus        35 ~~i~~lE~el~~~r~e~~~ql~EYq~LlnvK~~Le~EIatYRkLLE   80 (86)
T 1x8y_A           35 RLLAEKEREMAEMRARMQQQLDEYQELLDIKLALDMEIHAYRKLLE   80 (86)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHc
Confidence            4455556777777777777777777666666666666666655554

---

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	441
d1gs9a_	144	a.24.1.1 (A:) Apolipoprotein E {Human (Homo sapien	0.001

>d1gs9a_ a.24.1.1 (A:) Apolipoprotein E {Human (Homo sapiens), E4 [TaxId: 9606]} Length = 144

class: All alpha proteins
fold: Four-helical up-and-down bundle
superfamily: Apolipoprotein
family: Apolipoprotein
domain: Apolipoprotein E
species: Human (Homo sapiens), E4 [TaxId: 9606]

 Score = 37.1 bits (86), Expect = 0.001
 Identities = 10/98 (10%), Positives = 35/98 (35%), Gaps = 4/98 (4%)

Query: 252 VQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVV 311
           ++ +   ++ +  P  +E        +   +Q  + +     E  +  +  +   VQ ++
Sbjct: 50  LKAYKSELEEQLTPVAEE----TRARLSKELQAAQARLGADMEDVRGRLVQYRGEVQAML 105

Query: 312 DPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTK 349
               +E +     ++ ++        D+++  L  Y  
Sbjct: 106 GQSTEELRVRLASHLRKLRKRLLRDADDLQKRLAVYQA 143

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	441
d1gs9a_	144	Apolipoprotein E {Human (Homo sapiens), E4 [TaxId:	98.48
d1gs9a_	144	Apolipoprotein E {Human (Homo sapiens), E4 [TaxId:	98.47
d1fxkc_	133	Prefoldin alpha subunit {Archaeon Methanobacterium	92.73
d1fxkc_	133	Prefoldin alpha subunit {Archaeon Methanobacterium	86.82
d2ap3a1	185	Hypothetical protein MW0975 (SA0943) {Staphylococc	86.78
d1seta1	110	Seryl-tRNA synthetase (SerRS) {Thermus thermophilu	86.07
d1fxka_	107	Prefoldin beta subunit {Archaeon Methanobacterium	85.42
d1seta1	110	Seryl-tRNA synthetase (SerRS) {Thermus thermophilu	84.62
d1gqea_	362	Polypeptide chain release factor 2 (RF2) {Escheric	80.82

>d1gs9a_ a.24.1.1 (A:) Apolipoprotein E {Human (Homo sapiens), E4 [TaxId: 9606]}

class: All alpha proteins
fold: Four-helical up-and-down bundle
superfamily: Apolipoprotein
family: Apolipoprotein
domain: Apolipoprotein E
species: Human (Homo sapiens), E4 [TaxId: 9606]

Probab=98.48  E-value=2e-08  Score=87.11  Aligned_cols=89  Identities=11%  Similarity=0.123  Sum_probs=46.1

Q ss_pred             hHHHHHhhhhhhHHHHHHhhhcccchhHHHhhhHHHHHHHHhhhhcchhHHhhhhhcchhHHHHhhhhhhHHHHHHhhcC
Q 013531          255 HVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAK  334 (441)
Q Consensus       255 ~l~~~~~K~~pv~~~~w~~~~~~v~p~Ve~~ktk~~p~~ea~r~~~~phv~~vk~~v~Py~~e~ke~~~py~~qa~~~sk  334 (441)
                      +++.+..++.|++.+    ++..+.++++.++..+.|..+.+|+.+.||+..+++.+.|++++++..+.||.++.++-..
T Consensus        53 ~~~~l~~~l~p~~~e----~~~~l~~~~e~lr~~l~~~lee~r~kl~~~~eel~~~~~~~~ee~r~~l~p~~eel~~~l~  128 (144)
T d1gs9a_          53 YKSELEEQLTPVAEE----TRARLSKELQAAQARLGADMEDVRGRLVQYRGEVQAMLGQSTEELRVRLASHLRKLRKRLL  128 (144)
T ss_dssp             HHHHHTTSCCCCCSH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSTTCCCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH----HHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444455555555544    4444444555555555555555555555555555555555555555555555555555555


Q ss_pred             cchHhHHHhhccc
Q 013531          335 PHVDNVRVALKPY  347 (441)
Q Consensus       335 P~vdkv~~~~~Py  347 (441)
                      ++++.++..+.||
T Consensus       129 ~~~eel~~kL~py  141 (144)
T d1gs9a_         129 RDADDLQKRLAVY  141 (144)
T ss_dssp             HHHHHHHHHHHHS
T ss_pred             HHHHHHHHHhhCc
Confidence            5555555555554

>d1gs9a_ a.24.1.1 (A:) Apolipoprotein E {Human (Homo sapiens), E4 [TaxId: 9606]}

class: All alpha proteins
fold: Four-helical up-and-down bundle
superfamily: Apolipoprotein
family: Apolipoprotein
domain: Apolipoprotein E
species: Human (Homo sapiens), E4 [TaxId: 9606]

Probab=98.47  E-value=5.9e-08  Score=84.08  Aligned_cols=94  Identities=12%  Similarity=0.151  Sum_probs=63.3

Q ss_pred             hhhhhHHHHHHhhhcccchhHHHhhhHHHHHHHHhhhhcchhHHhhhhhcchhHHHHhhhhhhHHHHHHhhcCcchHhHH
Q 013531          262 KWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVR  341 (441)
Q Consensus       262 K~~pv~~~~w~~~~~~v~p~Ve~~ktk~~p~~ea~r~~~~phv~~vk~~v~Py~~e~ke~~~py~~qa~~~skP~vdkv~  341 (441)
                      ++.|.+.+    ....+.+|++.++.++.|+++.+++.+.+.++.+++.+.|++++++..+.||.++++....|+++.++
T Consensus        38 el~~~l~e----~~~~l~~~~~~l~~~l~p~~~e~~~~l~~~~e~lr~~l~~~lee~r~kl~~~~eel~~~~~~~~ee~r  113 (144)
T d1gs9a_          38 ELRALMDE----TMKELKAYKSELEEQLTPVAEETRARLSKELQAAQARLGADMEDVRGRLVQYRGEVQAMLGQSTEELR  113 (144)
T ss_dssp             HHHHHHHH----HHHHHHHHHHHHTTSCCCCCSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSTTCCCHHHH
T ss_pred             HHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44555555    44455566666666666666666677777777777777777777777777777777777777777777


Q ss_pred             HhhcccHHHHHHHHHHHH
Q 013531          342 VALKPYTKKVVRAYGKFL  359 (441)
Q Consensus       342 ~~~~Py~e~v~~~~k~~~  359 (441)
                      ..+.||++.++..+.+.+
T Consensus       114 ~~l~p~~eel~~~l~~~~  131 (144)
T d1gs9a_         114 VRLASHLRKLRKRLLRDA  131 (144)
T ss_dssp             HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            777777777766655554

>d1fxkc_ a.2.5.1 (C:) Prefoldin alpha subunit {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: All alpha proteins
fold: Long alpha-hairpin
superfamily: Prefoldin
family: Prefoldin
domain: Prefoldin alpha subunit
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=92.73  E-value=1.1  Score=36.17  Aligned_cols=40  Identities=13%  Similarity=0.214  Sum_probs=22.1

Q ss_pred             hHHHHHHHHHHHHhhHHHHhhhhcchhHHHHHHHHHHHHHHHHHHHH
Q 013531           46 ELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSL   92 (441)
Q Consensus        46 el~~l~~~i~~Les~i~~~~~~i~~k~~~l~~ke~~i~ek~~~I~~l   92 (441)
                      .|.+|...+..|+..|+.+.+++..       .+..+.|....+..+
T Consensus         2 ~L~eL~~~~~~l~~~l~~l~~~i~~-------l~~~~~e~~~~~~~L   41 (133)
T d1fxkc_           2 ALAEIVAQLNIYQSQVELIQQQMEA-------VRATISELEILEKTL   41 (133)
T ss_dssp             THHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHH
Confidence            3556666666666666666555554       555555544444443

>d1fxkc_ a.2.5.1 (C:) Prefoldin alpha subunit {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: All alpha proteins
fold: Long alpha-hairpin
superfamily: Prefoldin
family: Prefoldin
domain: Prefoldin alpha subunit
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=86.82  E-value=3.7  Score=32.88  Aligned_cols=20  Identities=10%  Similarity=0.069  Sum_probs=8.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q 013531           78 KEKAIQDKSERIVSLQKELS   97 (441)
Q Consensus        78 ke~~i~ek~~~I~~l~~ei~   97 (441)
                      +...|......+.++++-++
T Consensus        20 l~~~i~~l~~~~~e~~~~~~   39 (133)
T d1fxkc_          20 IQQQMEAVRATISELEILEK   39 (133)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            44444444444444443333

>d2ap3a1 a.24.27.1 (A:12-196) Hypothetical protein MW0975 (SA0943) {Staphylococcus aureus [TaxId: 1280]}

class: All alpha proteins
fold: Four-helical up-and-down bundle
superfamily: MW0975(SA0943)-like
family: MW0975(SA0943)-like
domain: Hypothetical protein MW0975 (SA0943)
species: Staphylococcus aureus [TaxId: 1280]

Probab=86.78  E-value=3.8  Score=31.90  Aligned_cols=24  Identities=17%  Similarity=0.360  Sum_probs=12.5

Q ss_pred             HHHHHHHHHHHHhhHHHHhhhhcc
Q 013531           47 LDQLKSKIRSLESHIDEKTQELKG   70 (441)
Q Consensus        47 l~~l~~~i~~Les~i~~~~~~i~~   70 (441)
                      +..+..++..|+..+..+..++..
T Consensus        24 ~~~~~~k~~~~e~~~~~~~~~~~~   47 (185)
T d2ap3a1          24 IKTVGKKIAELDEKKKKLTEDVNS   47 (185)
T ss_dssp             HHHHHHHHHHHHHHHHTTTTGGGC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344555555555555555544443

>d1seta1 a.2.7.1 (A:1-110) Seryl-tRNA synthetase (SerRS) {Thermus thermophilus, strain hb27 [TaxId: 274]}

class: All alpha proteins
fold: Long alpha-hairpin
superfamily: tRNA-binding arm
family: Seryl-tRNA synthetase (SerRS)
domain: Seryl-tRNA synthetase (SerRS)
species: Thermus thermophilus, strain hb27 [TaxId: 274]

Probab=86.07  E-value=5.4  Score=31.07  Aligned_cols=14  Identities=29%  Similarity=0.491  Sum_probs=6.1

Q ss_pred             HHHHHHHHHHHHhh
Q 013531           87 ERIVSLQKELSSLQ  100 (441)
Q Consensus        87 ~~I~~l~~ei~sLq  100 (441)
                      ....+++.+++.|+
T Consensus        35 ~~rr~l~~~~e~l~   48 (110)
T d1seta1          35 REVQELKKRLQEVQ   48 (110)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
Confidence            34444444444444

>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=85.42  E-value=6.2  Score=30.70  Aligned_cols=6  Identities=33%  Similarity=0.495  Sum_probs=2.2

Q ss_pred             HHHHHH
Q 013531           91 SLQKEL   96 (441)
Q Consensus        91 ~l~~ei   96 (441)
                      .++.++
T Consensus        12 ~lq~el   17 (107)
T d1fxka_          12 QLQQQA   17 (107)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            333333

>d1seta1 a.2.7.1 (A:1-110) Seryl-tRNA synthetase (SerRS) {Thermus thermophilus, strain hb27 [TaxId: 274]}

class: All alpha proteins
fold: Long alpha-hairpin
superfamily: tRNA-binding arm
family: Seryl-tRNA synthetase (SerRS)
domain: Seryl-tRNA synthetase (SerRS)
species: Thermus thermophilus, strain hb27 [TaxId: 274]

Probab=84.62  E-value=2.5  Score=33.16  Aligned_cols=28  Identities=18%  Similarity=0.359  Sum_probs=13.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013531           73 EVVAQKEKAIQDKSERIVSLQKELSSLQ  100 (441)
Q Consensus        73 ~~l~~ke~~i~ek~~~I~~l~~ei~sLq  100 (441)
                      +.+-.++....+....+.+|+++...+.
T Consensus        28 d~i~~ld~~rr~l~~~~e~l~~~rN~~s   55 (110)
T d1seta1          28 EALLALDREVQELKKRLQEVQTERNQVA   55 (110)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444444445555555555544443

>d1gqea_ e.38.1.1 (A:) Polypeptide chain release factor 2 (RF2) {Escherichia coli [TaxId: 562]}

class: Multi-domain proteins (alpha and beta)
fold: Release factor
superfamily: Release factor
family: Release factor
domain: Polypeptide chain release factor 2 (RF2)
species: Escherichia coli [TaxId: 562]

Probab=80.82  E-value=6.8  Score=37.19  Aligned_cols=15  Identities=20%  Similarity=0.353  Sum_probs=7.2

Q ss_pred             HHHHHHHHHhhHHHH
Q 013531           50 LKSKIRSLESHIDEK   64 (441)
Q Consensus        50 l~~~i~~Les~i~~~   64 (441)
                      ++.+|..|...+..+
T Consensus         4 l~~~i~eL~~rl~~L   18 (362)
T d1gqea_           4 VNNRIQDLTERSDVL   18 (362)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH
Confidence            444455554444444