Citrus Sinensis ID: 012833

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-----
Protein Sequence
MAASKLVIFSLFFALILTAADVSIQGEDVPPLTASDAVDSSPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTEVHSAWLPPWLAVHLLQCQSLIETHWNAHGKPAMDVAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVRAYGKFLKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAQSKLLVIQLLQASALLVLPVIILFRIGSAIFCKKARKPVRHSHHHSRRKAKRGHPDK
Secondary Structure (PSIPRED)
cccHHHHHHHHHHHHHHcHHHHHHcccccccccccHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHcccHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccHHHHHHHHHHHHHHHccccccccccccccccccHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHccHHHHHHHHHHcHHHHHHHHHccHHHHHHHHHHcHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccHHHHcccccc
Coil and Loop (DISEMBL)
MAASKLVIFSLFFALILTAadvsiqgedvppltasdavdssplkIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTEVHSAWLPPWLAVHLLQCQSLIEthwnahgkpAMDVAIQKALEKKAqagkwvqphVETIkakwipavKEQWVVFTTnvephvqtLKTKTIEACEatktavtphIIRVQEVVDPYFQEakkfskpyidqvatvakphvdnVRVALKPYTKKVVRAYGKFLKSATTYHHQVQASVQEMLKKheltsplatKELEWFAQSKLLVIQLLQASALLVLPVIILFRIGSAifckkarkpvrhshhhsrrkakrghpdk
Flexible Loop (DISEMBL)
MAASKLVIFSLFFALILTAADVSIQGEDVPPltasdavdssplKIELDQLKSKIRSLEshidektqelkgkdevvAQKEkaiqdkserIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLeklqkindeqkskirkteraLKVAEEEMMRAKFEATSRSKELTEVHSAWLPPWLAVHLLQCQSLIETHWNAHGKPAMDVAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEAtktavtphiiRVQEVVDPYFQEAKKFSKPYIDQVatvakphvdnvrvalkpytkKVVRAYGKFLKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAQSKLLVIQLLQASALLVLPVIILFRIGSAIFCkkarkpvrhshhhsrrkakrghpdk
Low Complexity Region (SEG)
MAASKLVIFSLFFALILTAADVSIQGEDVPPLTASDAVDSSPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNlkkesekqqkekealeaRAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTEVHSAWLPPWLAVHLLQCQSLIETHWNAHGKPAMDVAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVRAYGKFLKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAQSKLLVIQLLQASALLVLPVIILFRIGSAIFCKKArkpvrhshhhsrrkakrghPDK
Disordered region (IsUnstruct)
****KLVIFSLFFALILTAADVSIQ*********************************************************************************************************************************************************************************TEVHSAWLPPWLAVHLLQCQSLIETHWNAHGKPAMDVAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVRAYGKFLKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAQSKLLVIQLLQASALLVLPVIILFRIGSAIFCKK***********************
Disordered Region (DISOPRED)
******V**SLFFALILTA*********************************************************************************************************************************************************************************************WLPPWLAVHLL****************************************************************************CEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVRAYGKFLKSATTYHHQVQ**********ELTSPLATKELEWFAQSKLLVIQLLQASALLVLPVIILFRIGS*****************************
Disordered Region (DISEMBL)
MAASKLVIFSLFFALILTAADVSIQGEDVPPLTASDAVDSSPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLK************LEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRA*************VHSAWLPPWLAVHLLQCQSLIETHWNAHGKPAMDVAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVRAYGKFLKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAQSKLLVIQLLQASALLVLPVIILFRIGSAIFCKK***********************
Disordered Region (DISPRO)
**ASKLVIFSLFFALILTAADVSIQGEDVPPLTASDAVDSSPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTEVHSAWLPPWLAVHLLQCQSLIETHWNAHGKPAMDVAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVRAYGKFLKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAQSKLLVIQLLQASALLVLPVIILFRIGSAIFCKK***********************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
SSSSSSSSSSSSSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
SSSSSSSSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MAASKLVIFSLFFALILTAADVSIQGEDVPPLTASDAVDSSPLKIExxxxxxxxxxxxxxxxxxxxxLKGKDEVxxxxxxxxxxxxxxxxxxxxxxxxxxxxExxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxATSRSKELTEVHSAWLPPWLAVHLLQCQSLIETHWNAHGKPAMDVAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVRAYGKFLKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAQSKLLVIQLLQASALLVLPVIILFRIGSAIFCKKARKPVRHSHHHSRRKAKRGHPDK
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	455
255574131	440	conserved hypothetical protein [Ricinus	0.956	0.988	0.672	1e-169
225429824	449	PREDICTED: uncharacterized protein LOC10	0.975	0.988	0.658	1e-169
224121216	446	predicted protein [Populus trichocarpa]	0.975	0.995	0.676	1e-168
224115694	447	predicted protein [Populus trichocarpa]	0.975	0.993	0.670	1e-166
363806748	446	uncharacterized protein LOC100781922 pre	0.960	0.979	0.629	1e-159
357466595	439	hypothetical protein MTR_3g109330 [Medic	0.951	0.986	0.631	1e-158
449509133	448	PREDICTED: LOW QUALITY PROTEIN: uncharac	0.975	0.991	0.590	1e-147
449437044	448	PREDICTED: uncharacterized protein LOC10	0.975	0.991	0.588	1e-146
388521969	435	unknown [Lotus japonicus]	0.947	0.990	0.610	1e-145
217074086	404	unknown [Medicago truncatula]	0.850	0.957	0.641	1e-142

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

 Score =  601 bits (1550), Expect = e-169,   Method: Compositional matrix adjust.
 Identities = 306/455 (67%), Positives = 370/455 (81%), Gaps = 20/455 (4%)

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 KVAEEEMMRAKFEATSRSKELTEVHSAWLPPWLAVHLLQCQSLIETHWNAHGKPAMDVAI 241
           KVAEEE+M+AKFEATS++KEL EVH AWLPPWLAV L++    I+THWN HG+PAM++ I
Sbjct: 181 KVAEEELMKAKFEATSKTKELMEVHGAWLPPWLAVELVR----IQTHWNEHGRPAMELVI 236

Query: 242 QKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKT 301
           QKAL+KKA A KW +PH++T+K KW+PAVKEQW++  T+VEPHVQ+L TKTIEA EA+KT
Sbjct: 237 QKALDKKAHAEKWAKPHLDTVKTKWVPAVKEQWLLIVTHVEPHVQSLTTKTIEAYEASKT 296

Query: 302 AVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVRAYGKF 361
           A+TPH+ RVQEVV PYFQEAKKFSKPYIDQVATV KPHVD VRVALKPY K+ V AYGKF
Sbjct: 297 AITPHVSRVQEVVGPYFQEAKKFSKPYIDQVATVTKPHVDKVRVALKPYMKQAVHAYGKF 356

Query: 362 LKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAQSKLLVIQLLQASALLVLPVIIL 421
           L+SA+TYHHQVQ +VQE L KHELT PLATKEL WF  S LL + ++  S          
Sbjct: 357 LESASTYHHQVQGTVQETLNKHELTRPLATKELIWFMASALLALPIILLS---------- 406

Query: 422 FRIGSAIFCKKARKPVRHSH-HHSRRKAKRGHPDK 455
            RI SAIFCKKA+KP+RH++ +H+RRKAKRGHPDK
Sbjct: 407 -RICSAIFCKKAKKPIRHANTNHARRKAKRGHPDK 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 =  600 bits (1548), Expect = e-169,   Method: Compositional matrix adjust.
 Identities = 303/460 (65%), Positives = 359/460 (78%), Gaps = 16/460 (3%)

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 ERALKVAEEEMMRAKFEATSRSKELTEVHSAWLPPWLAVHLLQCQSLIETHWNAHGKPAM 237
           ERAL+VAEEEMM+AKF+A S++KEL EVH AWLPPW A HL+ CQS +E HWN HGKPA+
Sbjct: 181 ERALQVAEEEMMKAKFDANSKTKELMEVHGAWLPPWFANHLISCQSFMEVHWNKHGKPAL 240

Query: 238 DVAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACE 297
           D   QKALEKKAQA KW +PHVET K KWIPA+K+QW+  TT +EPHVQ L TKT+EA E
Sbjct: 241 DTLTQKALEKKAQAQKWSEPHVETFKTKWIPAIKDQWLEITTYLEPHVQLLCTKTVEAYE 300

Query: 298 ATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVRA 357
           A+K A+TPH+I+VQE  DPYFQ AKK SKPYIDQVA V KPHVDNV+VALKPYTKKVVR 
Sbjct: 301 ASKNAITPHVIKVQEFGDPYFQVAKKVSKPYIDQVAAVTKPHVDNVKVALKPYTKKVVRG 360

Query: 358 YGKFLKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAQSKLLVIQLLQASALLVLP 417
           YGKFLKSATTYH +VQ +VQE LK HELT PLATKEL WFA           ASALL LP
Sbjct: 361 YGKFLKSATTYHQKVQDTVQEKLKNHELTKPLATKELVWFA-----------ASALLALP 409

Query: 418 VIILFRIGSAIFCKKARKPVR--HSHHHSRRKAKRGHPDK 455
           +I LFRI SAIFCKKA+KP+R  H++HH RRK KRGHPDK
Sbjct: 410 IIFLFRICSAIFCKKAKKPIRNGHTNHHPRRKPKRGHPDK 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 =  597 bits (1538), Expect = e-168,   Method: Compositional matrix adjust.
 Identities = 309/457 (67%), Positives = 358/457 (78%), Gaps = 13/457 (2%)

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 ALKVAEEEMMRAKFEATSRSKELTEVHSAWLPPWLAVHLLQCQSLIETHWNAHGKPAMDV 239
           ALK+AEEE+++ K EATS++KEL EVH AWLPPWLAV L+  QSL +THWN HGKP M++
Sbjct: 181 ALKIAEEELLKTKSEATSKAKELMEVHGAWLPPWLAVQLVHWQSLAQTHWNEHGKPVMEL 240

Query: 240 AIQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEAT 299
           AIQ+ALEKKAQA KW +PHVETIK KW+PA+KEQWVV  T VEPHVQ+L  KT+E  EA+
Sbjct: 241 AIQRALEKKAQAEKWAKPHVETIKTKWVPAIKEQWVVIATQVEPHVQSLTVKTVEIYEAS 300

Query: 300 KTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVRAYG 359
           KT +T HIIRVQE+VDP FQEAKKFS+PYIDQVATV KPHVD VRV LKPYTK+ V AYG
Sbjct: 301 KTTITAHIIRVQEIVDPCFQEAKKFSEPYIDQVATVTKPHVDKVRVVLKPYTKEAVDAYG 360

Query: 360 KFLKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAQSKLLVIQLLQASALLVLPVI 419
           KFL+SATTYH+QVQ++VQE L+KHELT PLATK+  WF            ASAL  LP+ 
Sbjct: 361 KFLESATTYHNQVQSTVQETLEKHELTKPLATKDSIWFI-----------ASALFTLPIF 409

Query: 420 ILFRIGSAIFCKKARKPVRHSH-HHSRRKAKRGHPDK 455
           IL R+ S+IFCKK++KPVR++   HSRRKAKRGHPDK
Sbjct: 410 ILARVCSSIFCKKSKKPVRNAQTSHSRRKAKRGHPDK 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 =  590 bits (1521), Expect = e-166,   Method: Compositional matrix adjust.
 Identities = 307/458 (67%), Positives = 361/458 (78%), Gaps = 14/458 (3%)

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 RALKVAEEEMMRAKFEATSRSKELTEVHSAWLPPWLAVHLLQCQSLIETHWNAHGKPAMD 238
           RALK+AEEE+++ K EA S++KEL EVH AWLPPWLAV L++ QSL +THW+ HGKP M+
Sbjct: 181 RALKIAEEELIKTKSEAISKAKELMEVHGAWLPPWLAVQLIRWQSLAQTHWSEHGKPTME 240

Query: 239 VAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEA 298
           +AIQKALEKKAQA KW +PHVETIK KW+PA+KEQWVV TT V+PHVQ+L  KT++  EA
Sbjct: 241 LAIQKALEKKAQAEKWAEPHVETIKTKWVPAIKEQWVVITTQVKPHVQSLTAKTVQIYEA 300

Query: 299 TKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVRAY 358
           +KT VTPHIIRVQE+ DPYFQEAKKFSKPYIDQVAT+ KPHVD V+VALKPYTK+ V AY
Sbjct: 301 SKTTVTPHIIRVQEIADPYFQEAKKFSKPYIDQVATMTKPHVDKVKVALKPYTKEAVHAY 360

Query: 359 GKFLKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAQSKLLVIQLLQASALLVLPV 418
           GKFL+SATTYH+QVQ +VQE L+KHELT PLA KEL WF            ASALL LPV
Sbjct: 361 GKFLESATTYHNQVQVTVQETLEKHELTKPLAMKELIWFI-----------ASALLALPV 409

Query: 419 IILFRIGSAIFCKKARKPVRHSHHH-SRRKAKRGHPDK 455
           IIL R  S+IFC+KA+KP R++H + SRRKAKRGH DK
Sbjct: 410 IILARACSSIFCQKAKKPARNAHANPSRRKAKRGHSDK 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 =  568 bits (1464), Expect = e-159,   Method: Compositional matrix adjust.
 Identities = 290/461 (62%), Positives = 354/461 (76%), Gaps = 24/461 (5%)

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 TERALKVAEEEMMRAKFEATSRSKELTEVHSAWLPPWLAVHLLQCQSLIETHWNAHGKPA 236
           TERALKVAEEEM++AKFEAT+  KEL E H AWLPPWLAVH +  +S +++HWN HGKPA
Sbjct: 174 TERALKVAEEEMVKAKFEATAIEKELRETHGAWLPPWLAVHYIHSKSFVDSHWNKHGKPA 233

Query: 237 MDVAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEAC 296
           +++  QKALEKKAQAGKW +PHVETIK KW+PAVKEQW V  TN EPHVQ L TKT+   
Sbjct: 234 LEMVTQKALEKKAQAGKWAEPHVETIKTKWVPAVKEQWSVVKTNAEPHVQLLTTKTVGVY 293

Query: 297 EATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVR 356
           EA+K A++PH+ + +E VDPY+QEA+KFSKPYIDQ+A  AKPHVD V+V LKPYTK+VVR
Sbjct: 294 EASKNAISPHLSKAKEFVDPYYQEARKFSKPYIDQIAIAAKPHVDKVQVVLKPYTKEVVR 353

Query: 357 AYGKFLKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAQSKLLVIQLLQASALLVL 416
            YGKFL+SATTYH QVQASVQE LKKHELT PLATKELEWFA           ASALL L
Sbjct: 354 TYGKFLESATTYHRQVQASVQETLKKHELTRPLATKELEWFA-----------ASALLAL 402

Query: 417 PVIILFRIGSAIFC-KKARKPVRH-SHHHSRRKAKRGHPDK 455
           P+I++ R+ SA+FC KK  KP R+ ++HH+RRK KRGH DK
Sbjct: 403 PIILVARVFSAVFCSKKVNKPARNGNNHHARRKHKRGHLDK 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 =  565 bits (1457), Expect = e-158,   Method: Compositional matrix adjust.
 Identities = 291/461 (63%), Positives = 352/461 (76%), Gaps = 28/461 (6%)

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 TERALKVAEEEMMRAKFEATSRSKELTEVHSAWLPPWLAVHLLQCQSLIETHWNAHGKPA 236
           TERALKVAEEEM++AK EAT+++KEL+E H AWLPPWLAVH ++ +S+ E+HWN HGKP 
Sbjct: 170 TERALKVAEEEMLKAKLEATTKAKELSETHGAWLPPWLAVHYIRSKSVAESHWNEHGKPL 229

Query: 237 MDVAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEAC 296
           ++V  QKALEKKAQAGKW +PHVETIK KW+PAVKEQW V  T  EPHVQ L +KT+E  
Sbjct: 230 LEVISQKALEKKAQAGKWAEPHVETIKTKWVPAVKEQWSVVKTKAEPHVQALTSKTVEVY 289

Query: 297 EATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVR 356
           +++K A+ PH+ + +E VDPY+QEA+KFSKPYIDQVAT AKPHV+NV+V LKPYTKKVV 
Sbjct: 290 KSSKDALAPHLNKAKECVDPYYQEARKFSKPYIDQVATAAKPHVENVQVVLKPYTKKVVL 349

Query: 357 AYGKFLKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAQSKLLVIQLLQASALLVL 416
           AYG FL+SAT YH QVQA+VQE LKKHELT PLATKELEWFA           ASALL L
Sbjct: 350 AYGNFLESATAYHRQVQATVQETLKKHELTRPLATKELEWFA-----------ASALLAL 398

Query: 417 PVIILFRIGSAIFC-KKARKPVRHSH-HHSRRKAKRGHPDK 455
           P+I++ R+ SAIFC KKA KP R  + HH+RRKAKRGHPDK
Sbjct: 399 PIILIARVFSAIFCSKKASKPARSGNTHHARRKAKRGHPDK 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 =  526 bits (1356), Expect = e-147,   Method: Compositional matrix adjust.
 Identities = 271/459 (59%), Positives = 342/459 (74%), Gaps = 15/459 (3%)

Query: 1   MAASKLVIFSLFFALILTA--ADVS--IQGEDVPPLTASDAVDSSPLKIELDQLKSKIRS 56
           MA SKL I SLF AL+LT   AD S  ++ + +  +  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 TERALKVAEEEMMRAKFEATSRSKELTEVHSAWLPPWLAVHLLQCQSLIETHWNAHGKPA 236
           TERAL+V++EEM +AKFEA +R KELTEVH AWLPPWLA H  Q QSLI+THWN H KPA
Sbjct: 181 TERALEVSKEEMRKAKFEAATRIKELTEVHGAWLPPWLASHYDQFQSLIKTHWNKHAKPA 240

Query: 237 MDVAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEAC 296
           +DV IQKA +K AQA KW +PHV+T+K K+IP VKE+W+V  TNV+PHV+TL  KT+E  
Sbjct: 241 IDVVIQKASDKTAQAAKWAEPHVKTVKIKYIPIVKERWLVVKTNVKPHVETLTAKTVEFY 300

Query: 297 EATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVR 356
           + +K+ +TP+ ++ +E + PY+ E KKFSKPYIDQVATV KPHV+ VRV LKPYTKK+VR
Sbjct: 301 QTSKSVITPYAVKSKEAISPYYLEVKKFSKPYIDQVATVTKPHVEKVRVVLKPYTKKLVR 360

Query: 357 AYGKFLKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAQSKLLVIQLLQASALLVL 416
            YGKFL+SA  YH +VQ +V+E L KHELT PLAT+ELEWFA           ASA+L L
Sbjct: 361 GYGKFLESAAVYHQKVQGTVKETLNKHELTKPLATRELEWFA-----------ASAILAL 409

Query: 417 PVIILFRIGSAIFCKKARKPVRHSHHHSRRKAKRGHPDK 455
           P+I LF + SA+F KK +KP R++ HH+RRK KRGH DK
Sbjct: 410 PIIFLFNMISALFWKKTKKPTRNTGHHARRKGKRGHSDK 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 =  525 bits (1353), Expect = e-146,   Method: Compositional matrix adjust.
 Identities = 270/459 (58%), Positives = 341/459 (74%), Gaps = 15/459 (3%)

Query: 1   MAASKLVIFSLFFALILTA--ADVS--IQGEDVPPLTASDAVDSSPLKIELDQLKSKIRS 56
           MA SKL I SLF AL+ T   AD S  ++ + +  +  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 TERALKVAEEEMMRAKFEATSRSKELTEVHSAWLPPWLAVHLLQCQSLIETHWNAHGKPA 236
           TERAL+V++EEM +AKFEA +R KELTEVH AWLPPWLA H  Q QSLI+THWN H KPA
Sbjct: 181 TERALEVSKEEMRKAKFEAATRIKELTEVHGAWLPPWLASHYDQFQSLIKTHWNKHAKPA 240

Query: 237 MDVAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEAC 296
           +DV IQKA +K AQA KW +PHV+T+K K+IP VKE+W+V  TNV+PHV+TL  KT+E  
Sbjct: 241 IDVVIQKASDKTAQAAKWAEPHVKTVKIKYIPIVKERWLVVKTNVKPHVETLTAKTVEFY 300

Query: 297 EATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVR 356
           + +K+ +TP+ ++ +E + PY+ E KKFSKPYIDQVATV KPHV+ VRV LKPYTKK+VR
Sbjct: 301 QTSKSVITPYAVKSKEAISPYYLEVKKFSKPYIDQVATVTKPHVEKVRVVLKPYTKKLVR 360

Query: 357 AYGKFLKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAQSKLLVIQLLQASALLVL 416
            YGKFL+SA  YH +VQ +V+E L KHELT PLAT+ELEWFA           ASA+L L
Sbjct: 361 GYGKFLESAAVYHQKVQGTVKETLNKHELTKPLATRELEWFA-----------ASAILAL 409

Query: 417 PVIILFRIGSAIFCKKARKPVRHSHHHSRRKAKRGHPDK 455
           P+I LF + SA+F KK +KP R++ HH+RRK KRGH DK
Sbjct: 410 PIIFLFNMISALFWKKTKKPTRNTGHHARRKGKRGHSDK 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 =  520 bits (1338), Expect = e-145,   Method: Compositional matrix adjust.
 Identities = 280/459 (61%), Positives = 339/459 (73%), Gaps = 28/459 (6%)

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 RALKVAEEEMMRAKFEATSRSKELTEVHSAWLPPWLAVHLLQCQSLIETHWNAHGKPAMD 238
           RALKVAEEEM++AK EA S+++EL E H  WLPPWLAVH ++ +SL+E HWN HGKP ++
Sbjct: 168 RALKVAEEEMVKAKLEANSKARELIEAHGNWLPPWLAVHYIRSKSLVEAHWNKHGKPVLE 227

Query: 239 VAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEA 298
           V  QKALEKKAQA KW +PH+ET+K KWIPAVK+QW    T  EP VQ L+TK+ E  E 
Sbjct: 228 VVTQKALEKKAQAEKWAEPHLETVKTKWIPAVKQQWSEVKTQAEPRVQLLRTKSFEVYET 287

Query: 299 TKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVRAY 358
           +K A+ PH    +E VDPY+QEA+K SKPYIDQVA  AKPHVD  +V LKPYTKKVV AY
Sbjct: 288 SKKAIDPHFSNAKEFVDPYYQEARKLSKPYIDQVAVAAKPHVDKAQVVLKPYTKKVVHAY 347

Query: 359 GKFLKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAQSKLLVIQLLQASALLVLPV 418
             FL+SATTYH QVQA+VQE LKKHELT PLATKELEWFA           ASALL LP+
Sbjct: 348 RNFLQSATTYHRQVQATVQETLKKHELTRPLATKELEWFA-----------ASALLALPI 396

Query: 419 IILFRIGSAIFC-KKARKPVRHSH-HHSRRKAKRGHPDK 455
           I+L R  SAIFC KK  KP R  + HH+RRKAKR HPDK
Sbjct: 397 ILLARAFSAIFCSKKVNKPARSGNTHHARRKAKRVHPDK 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 =  510 bits (1313), Expect = e-142,   Method: Compositional matrix adjust.
 Identities = 258/402 (64%), Positives = 313/402 (77%), Gaps = 15/402 (3%)

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 TERALKVAEEEMMRAKFEATSRSKELTEVHSAWLPPWLAVHLLQCQSLIETHWNAHGKPA 236
           TERALKVAEEEM++AK EAT+++KEL+E H AWLPPWLAVH ++ +S+ E+HWN HGKP 
Sbjct: 170 TERALKVAEEEMLKAKLEATTKAKELSETHGAWLPPWLAVHYIRSKSVAESHWNEHGKPL 229

Query: 237 MDVAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEAC 296
           ++V  QKALEKKAQAGKW +PHVETIK KW+PAVKEQW V  T  EPHVQ L +KT+E  
Sbjct: 230 LEVISQKALEKKAQAGKWAEPHVETIKTKWVPAVKEQWSVVKTKAEPHVQALTSKTVEVY 289

Query: 297 EATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVR 356
           +++K A+ PH+ + +E VDPY+QEA+KFSKPYIDQVAT AKPHV+NV+V LKPYTKKVV 
Sbjct: 290 KSSKDALAPHLNKAKECVDPYYQEARKFSKPYIDQVATAAKPHVENVQVVLKPYTKKVVL 349

Query: 357 AYGKFLKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFA 398
           AYG FL+SAT YH QVQA+VQE LKKHELT PLATKELEWFA
Sbjct: 350 AYGNFLESATAYHRQVQATVQETLKKHELTRPLATKELEWFA 391

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	455
TAIR|locus:2128166	437	AT4G31340 "AT4G31340" [Arabido	0.909	0.947	0.541	3.3e-118
TAIR|locus:2061067	440	AT2G24420 [Arabidopsis thalian	0.905	0.936	0.521	1.9e-113
TAIR|locus:2126470	388	AT4G30090 "AT4G30090" [Arabido	0.564	0.662	0.325	1.9e-35
UNIPROTKB|F1PCW0	2240	GOLGA4 "Uncharacterized protei	0.685	0.139	0.225	1.3e-08
SGD|S000002764	944	SPC110 "Inner plaque spindle p	0.364	0.175	0.248	7.2e-06
UNIPROTKB|H0Y6I0	2099	GOLGA4 "Golgin subfamily A mem	0.679	0.147	0.214	1.1e-05
UNIPROTKB|Q13439	2230	GOLGA4 "Golgin subfamily A mem	0.679	0.138	0.214	1.2e-05
TAIR|locus:2099114	318	PMD1 "peroxisomal and mitochon	0.457	0.654	0.235	2.1e-05
DICTYBASE|DDB_G0286985	1024	zipA "zipper-like domain-conta	0.406	0.180	0.228	2.8e-05
WB|WBGene00002978	284	lev-11 [Caenorhabditis elegans	0.378	0.605	0.186	3.6e-05

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

 Score = 1164 (414.8 bits), Expect = 3.3e-118, P = 3.3e-118
 Identities = 234/432 (54%), Positives = 306/432 (70%)

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 LKVAEEEMMRAKFEATSRSKELTEVHSAWLPPWLAVHLLQCQSLIETHWNAHGKPAMDVA 240
             +K+AEEEM+R K EAT+++KEL E H +WLPPWLAVH  + Q+  ETHW AHGKPA++  
Sbjct:   177 IKIAEEEMLRTKLEATTKAKELLEAHGSWLPPWLAVHWFKFQTYTETHWEAHGKPAVETV 236

Query:   241 IQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATK 300
             I K  E KAQA KW +PHVE +K K+IPA+KE     T +VEPH +TL  K  EA  ++K
Sbjct:   237 ILKVTEAKAQAEKWAEPHVENVKTKYIPAIKE---TVTIHVEPHFRTLSIKAKEAYHSSK 293

Query:   301 TAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVRAYGK 360
             +AV+PHI+ VQE VDPY+QEAKKFSKPY+DQVAT  KPHVD ++VA+KPYT KV+  Y +
Sbjct:   294 SAVSPHIVTVQEFVDPYYQEAKKFSKPYVDQVATTTKPHVDKMKVAMKPYTTKVIIVYTE 353

Query:   361 FLKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAQSKLLVIQLLQASALLVLPVII 420
             FL+SATTYH+QVQA V+  LK HELT P AT E  WFA           ASALLV P+ +
Sbjct:   354 FLESATTYHNQVQAHVERKLKSHELTEPFATNEFVWFA-----------ASALLVFPIFV 402

Query:   421 LFRIGSAIFCKK 432
              +R+ S++FC K
Sbjct:   403 AYRVLSSLFCTK 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 = 1119 (399.0 bits), Expect = 1.9e-113, P = 1.9e-113
 Identities = 228/437 (52%), Positives = 298/437 (68%)

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 KTERALKVAEEEMMRAKFEATSRSKELTEVHSAWLPPWLAVHLLQCQSLIETHWNAHGKP 235
             K ERALK++EEEM+R K EAT+++KEL EVH AWLPPW AVH    Q++  THW+AHGKP
Sbjct:   175 KLERALKISEEEMLRTKHEATTKAKELMEVHGAWLPPWFAVHWSSFQTVAGTHWDAHGKP 234

Query:   236 AMDVAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEA 295
              M+   QK    K QA KW +PH+  +K K+IPA+KE      T+VEPHVQTL TK  EA
Sbjct:   235 VMEKVTQKVTLAKNQAEKWAKPHMANVKTKYIPAIKE---TVKTHVEPHVQTLSTKAKEA 291

Query:   296 CEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVV 355
               A+K+AVTPHI++ QE VDPY+QEAKKFSKPY+DQVAT  KPHVD VR  +KPYT K V
Sbjct:   292 YHASKSAVTPHIVKFQEHVDPYYQEAKKFSKPYVDQVATATKPHVDKVRATMKPYTTKTV 351

Query:   356 RAYGKFLKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAQSKLLVIQLLQASALLV 415
               Y +FL+SA+TYHHQ+QA+V+  LK HEL  P ATKE  WFA           ASALL 
Sbjct:   352 HYYKEFLESASTYHHQLQANVESKLKSHELLEPFATKEFIWFA-----------ASALLA 400

Query:   416 LPVIILFRIGSAIFCKK 432
             LP+ I+++   ++FC K
Sbjct:   401 LPIFIVYKFLCSLFCTK 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 = 383 (139.9 bits), Expect = 1.9e-35, P = 1.9e-35
 Identities = 86/264 (32%), Positives = 142/264 (53%)

Query:   151 KKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTEVHSAWL 210
             K  S++  K+ +LQK     K ++ +T+R  ++  E  +  K  A   SK L  +   W 
Sbjct:   100 KHASEVEEKVYELQKQVFGLKREV-ETQRKRRLEVEAELADKKVAQLSSK-LENI-DGWF 156

Query:   211 PPWLAVHLLQCQSLIETHWNAHGKPAMDVAIQKALEKKAQAGKWVQPHVETIKAKWIPAV 270
                L ++  + Q+ + T W+ H  P +   +Q    K  Q  KW +PH+ET+ ++WIP++
Sbjct:   157 LSKLGLNPTESQAYLMTLWHQHLSPTLHTTLQMVSMKIEQVQKWSEPHIETLNSQWIPSI 216

Query:   271 KEQWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYID 330
             K+  V  T  +EP VQ +  K+IE    +K A+TPH+I+  +    Y +  +  + PY  
Sbjct:   217 KDACVTITIYLEPKVQYITDKSIELLYTSKQALTPHLIQGFDASYYYLEVIRTHTHPYTT 276

Query:   331 QVATVAKPHVDNVRVALKPYTKKVVRAYGKFLKSATTYHHQVQASVQEMLKKHELTSPLA 390
             ++ T+ KPH++ V+VAL+PYT+ V   + K + S   YH Q Q    EMLK +E+T P+A
Sbjct:   277 RIMTLTKPHLERVQVALEPYTENVRHGFQKLVNSTKIYHQQAQ----EMLKNNEITKPVA 332

Query:   391 TKELEWFAQSKLLVIQLLQASALL 414
             T +L W   + L+   L+    LL
Sbjct:   333 TMDLAWVGATALIGFPLIFIIKLL 356

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 = 168 (64.2 bits), Expect = 1.3e-08, P = 1.3e-08
 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 KINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTEVHSAWLPPWLAVHLLQCQSL 224
             ++ DE+  ++++ E  +   E+++   K E  ++ KEL   +S+          L+ +  
Sbjct:  1589 ELGDEKDCRVKEAEEKVSRLEKQVSSMKSELETKKKELDHANSSMKGKEEEFKALEDRLE 1648

Query:   225 IETHWN-AHGKPAMD---VAIQKAL-----EKKAQAGKWVQPHVETIKAKWIPAVKEQWV 275
             +E+    A  K   +   VAI+K L     EK+ Q  K  + H+  +  K    ++E+  
Sbjct:  1649 LESAAKLAELKKKAEQKIVAIKKQLLSQMEEKEQQYKKDTEGHLGELNTK----LQEK-- 1702

Query:   276 VFTTNVEPHVQTL--KTKTIEACEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVA 333
                   E  +Q L  K K++E    ++ +V P  ++       Y       ++  ID  +
Sbjct:  1703 ------EREIQVLEEKLKSVEGLPQSEASVVPTSVK-------YMVAC---AEQGIDPES 1746

Query:   334 TVAKPHVDNVRVALKPYTKK--VVRAYGKFLKSATTYHHQVQASVQEMLKKHELT 386
             +V K + +N+    +   +K  +++   +  +   + H ++Q   QE+L K E T
Sbjct:  1747 SVQKAYEENISTLQRSLMEKEKLLQRLEQEKEEMVSSHSEMQCRYQELLIKIEHT 1801

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

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

 Score = 139 (54.0 bits), Expect = 7.2e-06, P = 7.2e-06
 Identities = 43/173 (24%), Positives = 83/173 (47%)

Query:    39 DSSPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSS 98
             +S  LK EL++L++K     S    K  ELK     +A+ E+ I  K+ ++++ + +L+S
Sbjct:   326 ESKRLKDELNELETKFSENGSQSSAKENELKMLKNKIAELEEEISTKNSQLIAKEGKLAS 385

Query:    99 LQKKETL--NAAEQVD-KAHARADELEKQIDNXXXXXXXXXXXXXXXXXRAIEAEKKISD 155
             L  + T   +   Q D +  +R +EL+K  D                  R I+ +KK+  
Sbjct:   386 LMAQLTQLESKLNQRDSQLGSREEELKKTNDKLQKDIRIAREETVSKDERIIDLQKKVKQ 445

Query:   156 LSAKLEKLQKINDEQKS----KIRKTERALKVAEEEMMRAKFEATSRSKELTE 204
             L   L  ++K + E K+    ++   ++ +K+ E ++  A+ + +   KEL E
Sbjct:   446 LENDLFVIKKTHSESKTITDNELESKDKLIKILENDLKVAQEKYSKMEKELKE 498

GO:0005816 "spindle pole body" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

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

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

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

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

GO:0005856 "cytoskeleton" evidence=IEA

GO:0007020 "microtubule nucleation" evidence=IPI

GO:0005737 "cytoplasm" evidence=IEA

UNIPROTKB|H0Y6I0 GOLGA4 "Golgin subfamily A member 4" [Homo sapiens (taxid:9606)]

 Score = 141 (54.7 bits), Expect = 1.1e-05, P = 1.1e-05
 Identities = 76/354 (21%), Positives = 155/354 (43%)

Query:    49 QLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKEL----SSLQKKET 104
             Q ++ ++ L+  ++ K++E   KDE +   ++ +  +++R   L+ E+    S ++KKE+
Sbjct:  1326 QHQNTVKELQIQLELKSKEAYEKDEQINLLKEELDQQNKRFDCLKGEMEDDKSKMEKKES 1385

Query:   105 LNAAEQVDKAHARADELEKQIDNXXXXXXXXXXXXXXXXXRAIEAEKKISDLSAKLEKLQ 164
              N   ++    AR  ELE  I                   +  + E K  +L  KL+  Q
Sbjct:  1386 -NLETELKSQTARIMELEDHITQKTIEIESLNEVLKNYNQQK-DIEHK--ELVQKLQHFQ 1441

Query:   165 KINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTEVHSAWLPPWLAVHLLQ---- 220
             ++ +E+ +++++ E  +   E ++   K E  ++ KEL  V+ +       +  L+    
Sbjct:  1442 ELGEEKDNRVKEAEEKILTLENQVYSMKAELETKKKELEHVNLSVKSKEEELKALEDRLE 1501

Query:   221 ---CQSLIETHWNAHGKPAMDVAIQKAL-----EKKAQAGKWVQPHVETIKAKWIPAVKE 272
                   L E    A  K A   AI+K L     EK+ Q  K  + H+  +  K    ++E
Sbjct:  1502 SESAAKLAELKRKAEQKIA---AIKKQLLSQMEEKEEQYKKGTESHLSELNTK----LQE 1554

Query:   273 QWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQV 332
             +        E H+   K K++E+ ++ +T + P   R  + V  Y ++ +       D  
Sbjct:  1555 R------EREVHILEEKLKSVESSQS-ETLIVP---RSAKNVAAYTEQEEA------DSQ 1598

Query:   333 ATVAKPHVDNVRVALKPYTKK--VVRAYGKFLKSATTYHHQVQASVQEMLKKHE 384
               V K + + + V  +  T+K  +++  G+  +   + H +++   QE L K E
Sbjct:  1599 GCVQKTYEEKISVLQRNLTEKEKLLQRVGQEKEETVSSHFEMRCQYQERLIKLE 1652

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

UNIPROTKB|Q13439 GOLGA4 "Golgin subfamily A member 4" [Homo sapiens (taxid:9606)]

 Score = 141 (54.7 bits), Expect = 1.2e-05, P = 1.2e-05
 Identities = 76/354 (21%), Positives = 155/354 (43%)

Query:    49 QLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKEL----SSLQKKET 104
             Q ++ ++ L+  ++ K++E   KDE +   ++ +  +++R   L+ E+    S ++KKE+
Sbjct:  1455 QHQNTVKELQIQLELKSKEAYEKDEQINLLKEELDQQNKRFDCLKGEMEDDKSKMEKKES 1514

Query:   105 LNAAEQVDKAHARADELEKQIDNXXXXXXXXXXXXXXXXXRAIEAEKKISDLSAKLEKLQ 164
              N   ++    AR  ELE  I                   +  + E K  +L  KL+  Q
Sbjct:  1515 -NLETELKSQTARIMELEDHITQKTIEIESLNEVLKNYNQQK-DIEHK--ELVQKLQHFQ 1570

Query:   165 KINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTEVHSAWLPPWLAVHLLQ---- 220
             ++ +E+ +++++ E  +   E ++   K E  ++ KEL  V+ +       +  L+    
Sbjct:  1571 ELGEEKDNRVKEAEEKILTLENQVYSMKAELETKKKELEHVNLSVKSKEEELKALEDRLE 1630

Query:   221 ---CQSLIETHWNAHGKPAMDVAIQKAL-----EKKAQAGKWVQPHVETIKAKWIPAVKE 272
                   L E    A  K A   AI+K L     EK+ Q  K  + H+  +  K    ++E
Sbjct:  1631 SESAAKLAELKRKAEQKIA---AIKKQLLSQMEEKEEQYKKGTESHLSELNTK----LQE 1683

Query:   273 QWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQV 332
             +        E H+   K K++E+ ++ +T + P   R  + V  Y ++ +       D  
Sbjct:  1684 R------EREVHILEEKLKSVESSQS-ETLIVP---RSAKNVAAYTEQEEA------DSQ 1727

Query:   333 ATVAKPHVDNVRVALKPYTKK--VVRAYGKFLKSATTYHHQVQASVQEMLKKHE 384
               V K + + + V  +  T+K  +++  G+  +   + H +++   QE L K E
Sbjct:  1728 GCVQKTYEEKISVLQRNLTEKEKLLQRVGQEKEETVSSHFEMRCQYQERLIKLE 1781

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

GO:0000139 "Golgi membrane" evidence=IEA

GO:0005794 "Golgi apparatus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0043001 "Golgi to plasma membrane protein transport" evidence=IDA

GO:0051020 "GTPase binding" evidence=IPI

GO:0016192 "vesicle-mediated transport" evidence=TAS

GO:0005802 "trans-Golgi network" evidence=TAS

TAIR|locus:2099114 PMD1 "peroxisomal and mitochondrial division factor 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 128 (50.1 bits), Expect = 2.1e-05, P = 2.1e-05
 Identities = 52/221 (23%), Positives = 102/221 (46%)

Query:    39 DSSPLKIELDQLKSKI---RSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKE 95
             ++  LK  L++L  +I   + +E+ ++++  E++ + E   +++KA++  S R V L+ E
Sbjct:    42 ENRELKERLERLTGEIEEMKDVEAEMNQRFGEMEKEIEEYEEEKKALEAISTRAVELETE 101

Query:    96 LSSLQKKETLNAAEQVDKAHARADELEKQIDNXXXXXXXXXXXXXXXXXRAIEAEKKISD 155
             +S+L   + + +   VDK      EL+K +                      E EK++ D
Sbjct:   102 VSNLHD-DLITSLNGVDKTAEEVAELKKALAEIVEKLEGCEKEAEGLRKDRAEVEKRVRD 160

Query:   156 LSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRA--KFEATSRSKELTEVHSAW-LPP 212
             L  K+  L+    E+KSK  ++E  ++  ++E  R   + + T     L  V +   L  
Sbjct:   161 LERKIGVLEVREMEEKSKKLRSEEEMREIDDEKKREIEELQKTVIVLNLELVKNVEELKK 220

Query:   213 WLAVHLLQCQSLIETHWNAHGKPAMDVAIQK-ALEKKAQAG 252
             W +   L  ++L ET      K   ++ ++K  L KK + G
Sbjct:   221 WKSKKKLTEEALSETQ-----KREKELELKKDELLKKVEEG 256

GO:0005737 "cytoplasm" evidence=ISM

GO:0005739 "mitochondrion" evidence=IDA

GO:0009536 "plastid" evidence=IDA

GO:0005777 "peroxisome" evidence=IDA

GO:0005778 "peroxisomal membrane" evidence=IDA

GO:0007005 "mitochondrion organization" evidence=IMP

GO:0007031 "peroxisome organization" evidence=IMP

GO:0031966 "mitochondrial membrane" evidence=IDA

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

 Score = 134 (52.2 bits), Expect = 2.8e-05, P = 2.8e-05
 Identities = 45/197 (22%), Positives = 87/197 (44%)

Query:    17 LTAADVSIQGEDVPPLTASDAVDSSPLKIELDQLKSKIRSLESHIDE---KTQELKGKDE 73
             L++ D  +  +D    T   +++S    ++ DQL SK + L+S  D+   K QEL+   +
Sbjct:   699 LSSKDEQLSNKD----TQIKSIESDLQSVK-DQLSSKDQELQSTKDQLSSKDQELQSTKD 753

Query:    74 VVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNXXXXXX 133
              ++ K++ +Q   +++         L  K+T       D+  ++  EL+   D       
Sbjct:   754 QLSTKDQELQSAKDQLSCQSSTTDQLSAKDT-ELQSTKDQLSSKDSELQSIKDQLSTKDS 812

Query:   134 XXXXXXXXXXXRAIEAEKKISDLSAKLEKLQKINDEQKSK---IRKTERALKVAEEEMMR 190
                        +  E +     LS+K   LQ + D+  SK   ++ T+  L   ++E+  
Sbjct:   813 ELQSSKDQLSSKDSELQSIKDQLSSKDSDLQSVKDQLSSKDSDLQSTKDQLSSKDQELQS 872

Query:   191 AKFEATSRSKELTEVHS 207
              K E TS+ +EL ++ S
Sbjct:   873 VKDELTSKDQELQQITS 889

GO:0005615 "extracellular space" evidence=IDA

GO:0008150 "biological_process" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0003674 "molecular_function" evidence=ND

GO:0044351 "macropinocytosis" evidence=RCA

WB|WBGene00002978 lev-11 [Caenorhabditis elegans (taxid:6239)]

 Score = 125 (49.1 bits), Expect = 3.6e-05, P = 3.6e-05
 Identities = 33/177 (18%), Positives = 90/177 (50%)

Query:    32 LTASDAVDSSPLKI--ELDQLKSKIRSLESHIDEKTQEL-KGKDEVVAQKEKAIQDKSER 88
             L  +DA +    +I  +L++++ ++R  +  + +   +L K ++++ A   K +++K + 
Sbjct:    19 LDRADAAEEKVRQITEKLERVEEELRDTQKKMTQTGDDLDKAQEDLSAATSK-LEEKEKT 77

Query:    89 IVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNXXXXXXXXXXXXXXXXXRAIE 148
             +   + E++SL ++ TL   E++++A  R     ++++                  R+++
Sbjct:    78 VQEAEAEVASLNRRMTL-LEEELERAEERLKIATEKLEEATHNVDESERVRKVMENRSLQ 136

Query:   149 AEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTEV 205
              E++ + + A+L++ Q + +E   K  +  R L + E ++ RA+  A +   ++ E+
Sbjct:   137 DEERANTVEAQLKEAQLLAEEADRKYDEVARKLAMVEADLERAEERAEAGENKIVEL 193

GO:0040015 "negative regulation of multicellular organism growth" evidence=IMP

GO:0002119 "nematode larval development" evidence=IMP

GO:0010171 "body morphogenesis" evidence=IMP

GO:0000003 "reproduction" evidence=IMP

GO:0040011 "locomotion" evidence=IMP

GO:0040035 "hermaphrodite genitalia development" evidence=IMP

GO:0060465 "pharynx development" evidence=IMP

GO:0018991 "oviposition" evidence=IMP

GO:0040017 "positive regulation of locomotion" evidence=IMP

GO:0018996 "molting cycle, collagen and cuticulin-based cuticle" evidence=IMP

GO:0009792 "embryo development ending in birth or egg hatching" evidence=IMP

GO:0030728 "ovulation" evidence=IMP

GO:0000910 "cytokinesis" evidence=IMP

GO:0030833 "regulation of actin filament polymerization" evidence=IDA

GO:0043393 "regulation of protein binding" evidence=IDA

GO:0005865 "striated muscle thin filament" evidence=IDA

GO:0051015 "actin filament binding" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

GO:0030835 "negative regulation of actin filament depolymerization" evidence=IDA

---

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	455
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	7e-14
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	5e-12
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	2e-11
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	3e-10
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	4e-10
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	1e-09
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	1e-09
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	1e-09
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	2e-09
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	3e-09
PRK12704	520	PRK12704, PRK12704, phosphodiesterase; Provisional	6e-09
COG1579	239	COG1579, COG1579, Zn-ribbon protein, possibly nucl	6e-09
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	7e-09
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	1e-08
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	2e-08
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	4e-08
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	7e-08
PRK02224	880	PRK02224, PRK02224, chromosome segregation protein	1e-07
TIGR03319	514	TIGR03319, RNase_Y, ribonuclease Y	1e-07
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	2e-07
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	2e-07
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	2e-07
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	2e-07
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	4e-07
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	6e-07
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	9e-07
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	9e-07
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	1e-06
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	1e-06
COG0419	908	COG0419, SbcC, ATPase involved in DNA repair [DNA	1e-06
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	2e-06
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	2e-06
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	2e-06
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	2e-06
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	3e-06
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	4e-06
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	5e-06
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	6e-06
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	7e-06
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	8e-06
PRK00106	535	PRK00106, PRK00106, hypothetical protein; Provisio	9e-06
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	1e-05
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	1e-05
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	2e-05
COG1579	239	COG1579, COG1579, Zn-ribbon protein, possibly nucl	2e-05
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	2e-05
pfam05262	489	pfam05262, Borrelia_P83, Borrelia P83/100 protein	2e-05
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	5e-05
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	5e-05
pfam12329	74	pfam12329, TMF_DNA_bd, TATA element modulatory fac	5e-05
TIGR04211	198	TIGR04211, SH3_and_anchor, SH3 domain protein	5e-05
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	6e-05
COG0419	908	COG0419, SbcC, ATPase involved in DNA repair [DNA	7e-05
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	8e-05
TIGR03319	514	TIGR03319, RNase_Y, ribonuclease Y	9e-05
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	9e-05
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	1e-04
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	1e-04
TIGR04211	198	TIGR04211, SH3_and_anchor, SH3 domain protein	1e-04
PRK09039	343	PRK09039, PRK09039, hypothetical protein; Validate	1e-04
PRK00409	782	PRK00409, PRK00409, recombination and DNA strand e	1e-04
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	2e-04
PRK02224	880	PRK02224, PRK02224, chromosome segregation protein	2e-04
TIGR04211	198	TIGR04211, SH3_and_anchor, SH3 domain protein	2e-04
COG5185	622	COG5185, HEC1, Protein involved in chromosome segr	2e-04
pfam13166	713	pfam13166, AAA_13, AAA domain	2e-04
PRK11637	428	PRK11637, PRK11637, AmiB activator; Provisional	2e-04
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	3e-04
COG0419	908	COG0419, SbcC, ATPase involved in DNA repair [DNA	3e-04
pfam08614	194	pfam08614, ATG16, Autophagy protein 16 (ATG16)	3e-04
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	4e-04
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	4e-04
COG2433	652	COG2433, COG2433, Uncharacterized conserved protei	4e-04
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	5e-04
PRK10636	638	PRK10636, PRK10636, putative ABC transporter ATP-b	5e-04
TIGR04211	198	TIGR04211, SH3_and_anchor, SH3 domain protein	7e-04
PRK00409	782	PRK00409, PRK00409, recombination and DNA strand e	8e-04
COG4372	499	COG4372, COG4372, Uncharacterized protein conserve	8e-04
pfam03962	188	pfam03962, Mnd1, Mnd1 family	8e-04
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	0.001
PRK12704	520	PRK12704, PRK12704, phosphodiesterase; Provisional	0.001
PRK02224	880	PRK02224, PRK02224, chromosome segregation protein	0.001
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	0.001
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	0.001
COG3096	1480	COG3096, MukB, Uncharacterized protein involved in	0.001
pfam08317	321	pfam08317, Spc7, Spc7 kinetochore protein	0.001
TIGR01554	384	TIGR01554, major_cap_HK97, phage major capsid prot	0.001
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	0.002
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	0.002
COG0419	908	COG0419, SbcC, ATPase involved in DNA repair [DNA	0.002
TIGR04211	198	TIGR04211, SH3_and_anchor, SH3 domain protein	0.002
PRK11281	1113	PRK11281, PRK11281, hypothetical protein; Provisio	0.002
pfam01576	859	pfam01576, Myosin_tail_1, Myosin tail	0.002
COG1283	533	COG1283, NptA, Na+/phosphate symporter [Inorganic	0.002
smart00787	312	smart00787, Spc7, Spc7 kinetochore protein	0.002
PRK11448	1123	PRK11448, hsdR, type I restriction enzyme EcoKI su	0.002
COG4499	434	COG4499, COG4499, Predicted membrane protein [Func	0.002
PRK02224	880	PRK02224, PRK02224, chromosome segregation protein	0.003
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	0.003
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	0.003
COG1322	448	COG1322, COG1322, Predicted nuclease of restrictio	0.003
pfam05667	536	pfam05667, DUF812, Protein of unknown function (DU	0.003
pfam00261	237	pfam00261, Tropomyosin, Tropomyosin	0.003
pfam04156	186	pfam04156, IncA, IncA protein	0.003
pfam08317	321	pfam08317, Spc7, Spc7 kinetochore protein	0.004
TIGR02680	1353	TIGR02680, TIGR02680, TIGR02680 family protein	0.004
TIGR04320	356	TIGR04320, Surf_Exclu_PgrA, SEC10/PgrA surface exc	0.004
pfam00012	598	pfam00012, HSP70, Hsp70 protein	0.004
PRK05771	646	PRK05771, PRK05771, V-type ATP synthase subunit I;	0.004
pfam14235	158	pfam14235, DUF4337, Domain of unknown function (DU	0.004
pfam12072	201	pfam12072, DUF3552, Domain of unknown function (DU	0.004

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

 Score = 74.0 bits (182), Expect = 7e-14
 Identities = 46/166 (27%), Positives = 91/166 (54%), Gaps = 1/166 (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 LQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTEVHSA 208
           L+    E K +I K    L+  E ++ R + E     +EL E +  
Sbjct: 896 LESELAELKEEIEKLRERLEELEAKLERLEVELPELEEELEEEYED 941

Length = 1163

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

 Score = 68.2 bits (167), Expect = 5e-12
 Identities = 48/175 (27%), Positives = 100/175 (57%), Gaps = 6/175 (3%)

Query: 39  DSSPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSS 98
           + + L+ EL+QL+S++  LE  ++E  +EL+   E + + E+ ++   E +  L++E+  
Sbjct: 724 ELAALEEELEQLQSRLEELEEELEELEEELEELQERLEELEEELESLEEALAKLKEEIEE 783

Query: 99  L------QKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKK 152
           L       ++E     E++++A  R D LE+++++L++  E+ ++E E LE    E E+K
Sbjct: 784 LEEKRQALQEELEELEEELEEAERRLDALERELESLEQRRERLEQEIEELEEEIEELEEK 843

Query: 153 ISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTEVHS 207
           + +L  +LE+L+K  +E K ++ + E   +  E+E+   + E     +EL E+ S
Sbjct: 844 LDELEEELEELEKELEELKEELEELEAEKEELEDELKELEEEKEELEEELRELES 898

Length = 1163

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

 Score = 65.8 bits (161), Expect = 2e-11
 Identities = 40/168 (23%), Positives = 89/168 (52%), Gaps = 6/168 (3%)

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 SAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTE 204
            A+LE+L+   +E +S++ + E  L+    ++ + + +  S + E+  
Sbjct: 357 EAELEELEAELEELESRLEELEEQLETLRSKVAQLELQIASLNNEIER 404

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 = 62.0 bits (151), Expect = 3e-10
 Identities = 42/185 (22%), Positives = 86/185 (46%), Gaps = 10/185 (5%)

Query: 34  ASDAVDSSPL--KIELDQLKSKIRSLESHIDEKTQELKGK-------DEVVAQKEKAIQD 84
            S   +SS L  + E+++L+ KI  LE  I E  + L          +E + Q  K +++
Sbjct: 664 GSAKTNSSILERRREIEELEEKIEELEEKIAELEKALAELRKELEELEEELEQLRKELEE 723

Query: 85  KSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEA 144
            S +I +L+K+L+ L+ +      E++ +      ELE +I+ L++  E+ ++E    EA
Sbjct: 724 LSRQISALRKDLARLEAEVE-QLEERIAQLSKELTELEAEIEELEERLEEAEEELAEAEA 782

Query: 145 RAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTE 204
              E E +I  L  +L+ L++  DE ++++           E +   +    +  + L +
Sbjct: 783 EIEELEAQIEQLKEELKALREALDELRAELTLLNEEAANLRERLESLERRIAATERRLED 842

Query: 205 VHSAW 209
           +    
Sbjct: 843 LEEQI 847

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 = 62.0 bits (151), Expect = 4e-10
 Identities = 40/161 (24%), Positives = 82/161 (50%), Gaps = 1/161 (0%)

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

Query: 104 TLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKL 163
                E ++       ELE +I  L++  E+ + E E LE R  E ++KI  L  +LE+ 
Sbjct: 284 EELQEELLELKEEIE-ELEGEISLLRERLEELENELEELEERLEELKEKIEALKEELEER 342

Query: 164 QKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTE 204
           + + +E +  + + E A +  EE++     E     + L E
Sbjct: 343 ETLLEELEQLLAELEEAKEELEEKLSALLEELEELFEALRE 383

Length = 1163

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

 Score = 60.5 bits (147), Expect = 1e-09
 Identities = 38/169 (22%), Positives = 82/169 (48%), Gaps = 3/169 (1%)

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 LEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTEVHSA 208
           LE+L +  ++ K ++++ E  L+  + E+     E     ++L E+   
Sbjct: 413 LERLSERLEDLKEELKELEAELEELQTELEELNEELEELEEQLEELRDR 461

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 = 37/172 (21%), Positives = 84/172 (48%), Gaps = 6/172 (3%)

Query: 43  LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKK 102
           L+ EL++L+ ++  L   ++E ++++    + +A+ E  ++   ERI  L KEL+ L+ +
Sbjct: 703 LRKELEELEEELEQLRKELEELSRQISALRKDLARLEAEVEQLEERIAQLSKELTELEAE 762

Query: 103 ETLNAAE------QVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDL 156
                        ++ +A A  +ELE QI+ LK+E +  ++  + L A      ++ ++L
Sbjct: 763 IEELEERLEEAEEELAEAEAEIEELEAQIEQLKEELKALREALDELRAELTLLNEEAANL 822

Query: 157 SAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTEVHSA 208
             +LE L++     + ++   E  ++   E++     E     + + E+ S 
Sbjct: 823 RERLESLERRIAATERRLEDLEEQIEELSEDIESLAAEIEELEELIEELESE 874

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 = 60.5 bits (147), Expect = 1e-09
 Identities = 41/177 (23%), Positives = 87/177 (49%), Gaps = 14/177 (7%)

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 KISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTEVHSA 208
           ++ DL A+LE++ K   E + +++     L+  + 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 = 59.3 bits (144), Expect = 2e-09
 Identities = 35/159 (22%), Positives = 82/159 (51%), Gaps = 1/159 (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 QKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKEL 202
           ++     + ++ + E  L+ AE  +   + E  S  +  
Sbjct: 785 EEKRQALQEELEELEEELEEAERRLDALERELESLEQRR 823

Length = 1163

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

 Score = 58.9 bits (143), Expect = 3e-09
 Identities = 42/170 (24%), Positives = 84/170 (49%), Gaps = 6/170 (3%)

Query: 41  SPLKIELDQLKSKIRSLESH-----IDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKE 95
             L+ +L +L+  +  LE+      I E   EL   +E V++ E  +++  +++  L  E
Sbjct: 768 EELEEDLHKLEEALNDLEARLSHSRIPEIQAELSKLEEEVSRIEARLREIEQKLNRLTLE 827

Query: 96  LSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISD 155
              L+K E     EQ      +   +EK+I+NL  + E+ ++E E LEA   + E ++ D
Sbjct: 828 KEYLEK-EIQELQEQRIDLKEQIKSIEKEIENLNGKKEELEEELEELEAALRDLESRLGD 886

Query: 156 LSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTEV 205
           L  + ++L+    E + KI + E  ++   + +   K +  +  +EL+E+
Sbjct: 887 LKKERDELEAQLRELERKIEELEAQIEKKRKRLSELKAKLEALEEELSEI 936

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

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

 Score = 57.9 bits (141), Expect = 6e-09
 Identities = 43/144 (29%), Positives = 78/144 (54%), Gaps = 11/144 (7%)

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 RALKVAEEEMMRAKFEATSRSKEL 202
             +K  EEE   AK EA  ++KE+
Sbjct: 175 --IKEIEEE---AKEEADKKAKEI 193

Length = 520

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

 Score = 56.2 bits (136), Expect = 6e-09
 Identities = 41/158 (25%), Positives = 84/158 (53%), Gaps = 3/158 (1%)

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 QKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKE 201
            +I +E +  +      LK   +  + +++E   ++K+
Sbjct: 152 AEIREEGQE-LSSKREELKEKLDPELLSEYERIRKNKK 188

Length = 239

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

 Score = 57.8 bits (140), Expect = 7e-09
 Identities = 44/167 (26%), Positives = 83/167 (49%), Gaps = 20/167 (11%)

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

Query: 103 ETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKL-- 160
           E        +        LE++I+N+K E ++ +   E LE    + E+ ++DL A+L  
Sbjct: 732 EEKLKERLEELE-EDLSSLEQEIENVKSELKELEARIEELEEDLHKLEEALNDLEARLSH 790

Query: 161 EKLQKINDE---QKSKIRKTERALKVAEEEMMRAKFEATSRSKELTE 204
            ++ +I  E    + ++ + E  L+  E+++ R   E     KE+ E
Sbjct: 791 SRIPEIQAELSKLEEEVSRIEARLREIEQKLNRLTLEKEYLEKEIQE 837

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 = 57.4 bits (139), Expect = 1e-08
 Identities = 42/154 (27%), Positives = 80/154 (51%), Gaps = 19/154 (12%)

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 ------QKINDEQKSKIRKTERALKVAEEEMMRA 191
                 ++   E +++I   ER++   E E+  A
Sbjct: 287 EEQLRVKEKIGELEAEIASLERSIAEKERELEDA 320

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 = 56.2 bits (136), Expect = 2e-08
 Identities = 40/171 (23%), Positives = 83/171 (48%), Gaps = 4/171 (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 DLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTEV 205
            +  ++E L    +E + ++ + E AL+  E  +   K E      +L E+
Sbjct: 851 SIEKEIENLNGKKEELEEELEELEAALRDLESRLGDLKKERDELEAQLREL 901

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

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

 Score = 55.7 bits (134), Expect = 4e-08
 Identities = 36/165 (21%), Positives = 73/165 (44%), Gaps = 1/165 (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 INDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTEVHSAWL 210
             ++ +    K E+  +    +        +S +K   E      
Sbjct: 358 EEEQLEKLQEKLEQLEEELLAKKKLESERLSSAAKLKEEELELKN 402

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

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

 Score = 54.7 bits (132), Expect = 7e-08
 Identities = 44/170 (25%), Positives = 99/170 (58%), Gaps = 10/170 (5%)

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-QVDKAHARADELEKQIDNLKKE-------SEKQQKEKEALEARAIEAEKK 152
            +E L   E ++ +     +EL+++I++L++         E  ++E + LEA   E + +
Sbjct: 381 LREELAELEAELAEIRNELEELKREIESLEERLERLSERLEDLKEELKELEAELEELQTE 440

Query: 153 ISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKEL 202
           + +L+ +LE+L++  +E + ++++ ER L   +EE+ R + E +S    L
Sbjct: 441 LEELNEELEELEEQLEELRDRLKELERELAELQEELQRLEKELSSLEARL 490

Length = 1163

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

 Score = 54.3 bits (131), Expect = 1e-07
 Identities = 39/157 (24%), Positives = 82/157 (52%), Gaps = 14/157 (8%)

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 KKISDLSAKLEKLQKINDEQKSKIR-KTERALKVAEE 186
            +I  L  K E L ++NDE++ ++  K ER  ++  E
Sbjct: 606 DEIERLREKREALAELNDERRERLAEKRERKRELEAE 642

Length = 880

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

 Score = 53.4 bits (129), Expect = 1e-07
 Identities = 40/147 (27%), Positives = 75/147 (51%), Gaps = 5/147 (3%)

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 KTERALKVAEEEMMRAKFEATSRSKEL 202
             E A  + E E   AK EA  ++KE+
Sbjct: 163 -HEAAKLIKEIE-EEAKEEADKKAKEI 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 = 53.6 bits (129), Expect = 2e-07
 Identities = 34/162 (20%), Positives = 81/162 (50%), Gaps = 1/162 (0%)

Query: 41  SPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQ 100
           S  K      K +++ LE  + E   +L+  +E +   +  ++   + +  L+++L  L+
Sbjct: 656 SRNKRSSLAQKRELKELEEELAELEAQLEKLEEELKSLKNELRSLEDLLEELRRQLEELE 715

Query: 101 KKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKL 160
           ++       ++       ++L+ +++ L++E E+ ++E E L+ R  E E+++  L   L
Sbjct: 716 RQLEE-LKRELAALEEELEQLQSRLEELEEELEELEEELEELQERLEELEEELESLEEAL 774

Query: 161 EKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKEL 202
            KL++  +E + K +  +  L+  EEE+  A+    +  +EL
Sbjct: 775 AKLKEEIEELEEKRQALQEELEELEEELEEAERRLDALEREL 816

Length = 1163

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

 Score = 53.2 bits (128), Expect = 2e-07
 Identities = 39/170 (22%), Positives = 89/170 (52%), Gaps = 15/170 (8%)

Query: 43  LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKK 102
           L+ EL+ L+  +  L+  I+E  ++ +   E + + E+ +++   R+ +L++EL SL+  
Sbjct: 763 LEEELESLEEALAKLKEEIEELEEKRQALQEELEELEEELEEAERRLDALERELESLE-- 820

Query: 103 ETLNAAEQVDKAHARADELEKQI-------DNLKKESEKQQKEKEALEARAIEAEKKISD 155
                 ++ ++     +ELE++I       D L++E E+ +KE E L+    E E +  +
Sbjct: 821 ------QRRERLEQEIEELEEEIEELEEKLDELEEELEELEKELEELKEELEELEAEKEE 874

Query: 156 LSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTEV 205
           L  +L++L++  +E + ++R+ E  L   +EE+ + +        +L  +
Sbjct: 875 LEDELKELEEEKEELEEELRELESELAELKEEIEKLRERLEELEAKLERL 924

Length = 1163

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

 Score = 53.1 bits (128), Expect = 2e-07
 Identities = 32/162 (19%), Positives = 83/162 (51%), Gaps = 1/162 (0%)

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 LQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTE 204
           L+   +  + +I +  + L+ AE + ++A+ E      E  +
Sbjct: 412 LEDRRERLQQEIEELLKKLEEAELKELQAELEELEEELEELQ 453

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

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

 Score = 53.5 bits (129), Expect = 2e-07
 Identities = 41/166 (24%), Positives = 78/166 (46%), Gaps = 15/166 (9%)

Query: 43  LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKK 102
           +K ++ +L+++I SLE  I EK +EL+  +E +A+ E  I      I  L++E+   +K 
Sbjct: 292 VKEKIGELEAEIASLERSIAEKERELEDAEERLAKLEAEIDKLLAEIEELEREIEEERK- 350

Query: 103 ETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEK 162
                         R D+L ++   LK+E E  + E E ++    E   ++ D   KLEK
Sbjct: 351 --------------RRDKLTEEYAELKEELEDLRAELEEVDKEFAETRDELKDYREKLEK 396

Query: 163 LQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTEVHSA 208
           L++  +E K ++ + +  L+   EE+            ++ E+   
Sbjct: 397 LKREINELKRELDRLQEELQRLSEELADLNAAIAGIEAKINELEEE 442

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 = 52.5 bits (125), Expect = 4e-07
 Identities = 43/164 (26%), Positives = 79/164 (48%), Gaps = 15/164 (9%)

Query: 48   DQLKSKIRSLESHIDE---KTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKET 104
            D+ K K    +   D    K +E K   E    + +A  D++E      +E +   +K+ 
Sbjct: 1318 DEAKKKAEEAKKKADAAKKKAEEAKKAAEAAKAEAEAAADEAEA----AEEKAEAAEKKK 1373

Query: 105  LNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQ 164
              A ++ D A  +A+E +K  D  KK++E+ +K+ + L+  A  A+KK  +   K E+ +
Sbjct: 1374 EEAKKKADAAKKKAEEKKKA-DEAKKKAEEDKKKADELKKAA-AAKKKADEAKKKAEEKK 1431

Query: 165  KINDEQK--SKIRKTERALKVAEE----EMMRAKFEATSRSKEL 202
            K ++ +K   + +K + A K AEE    E  + K E   ++ E 
Sbjct: 1432 KADEAKKKAEEAKKADEAKKKAEEAKKAEEAKKKAEEAKKADEA 1475

Length = 2084

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

 Score = 51.6 bits (124), Expect = 6e-07
 Identities = 31/159 (19%), Positives = 68/159 (42%), Gaps = 8/159 (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 SAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEA 195
           +A L K ++   + K +  + E+ L   + E+  A+ +A
Sbjct: 461 AADLSKYEQELYDLKEEYDRVEKELSKLQRELAEAEAQA 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|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 51.3 bits (123), Expect = 9e-07
 Identities = 35/133 (26%), Positives = 76/133 (57%), Gaps = 1/133 (0%)

Query: 76  AQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQ 135
            + E+ + +   ++  L++EL SL K E  +  + +++   + +ELE+Q++ LK+E    
Sbjct: 670 KELEEELAELEAQLEKLEEELKSL-KNELRSLEDLLEELRRQLEELERQLEELKRELAAL 728

Query: 136 QKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEA 195
           ++E E L++R  E E+++ +L  +LE+LQ+  +E + ++   E AL   +EE+   + + 
Sbjct: 729 EEELEQLQSRLEELEEELEELEEELEELQERLEELEEELESLEEALAKLKEEIEELEEKR 788

Query: 196 TSRSKELTEVHSA 208
            +  +EL E+   
Sbjct: 789 QALQEELEELEEE 801

Length = 1163

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

 Score = 51.3 bits (123), Expect = 9e-07
 Identities = 37/150 (24%), Positives = 81/150 (54%), Gaps = 3/150 (2%)

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-KINDEQKSKIRKT-ERALKVAEEEMMR 190
           L+ ++ +E +  +    ER ++  EEE+  
Sbjct: 931 LEEELEEEYEDTLETELEREIERLEEEIEA 960

Length = 1163

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

 Score = 50.9 bits (122), Expect = 1e-06
 Identities = 31/181 (17%), Positives = 78/181 (43%), Gaps = 24/181 (13%)

Query: 43   LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKK 102
            L+ E+++L+ K+  LE  ++E  +EL+   E + + E   ++  + +  L++E   L++ 
Sbjct: 833  LEEEIEELEEKLDELEEELEELEKELEELKEELEELEAEKEELEDELKELEEEKEELEE- 891

Query: 103  ETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARA---------------- 146
                   ++ +  +   EL+++I+ L++  E+ + + E LE                   
Sbjct: 892  -------ELRELESELAELKEEIEKLRERLEELEAKLERLEVELPELEEELEEEYEDTLE 944

Query: 147  IEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTEVH 206
             E E++I  L  ++E L  +N     +  + E   +  + +    +       + + E+ 
Sbjct: 945  TELEREIERLEEEIEALGPVNLRAIEEYEEVEERYEELKSQREDLEEAKEKLLEVIEELD 1004

Query: 207  S 207
             
Sbjct: 1005 K 1005

Length = 1163

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

 Score = 50.8 bits (122), Expect = 1e-06
 Identities = 47/166 (28%), Positives = 86/166 (51%), Gaps = 12/166 (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 SAKLEKLQKINDEQKSKIRKTERALKVAEE-EMMRAKFEATSRSKE 201
             +LE+L+K   E++ +    E  L+++ E   +RA+ E   + +E
Sbjct: 646 RKELEELEKKYSEEEYE-ELREEYLELSRELAGLRAELEELEKRRE 690

Length = 880

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

 Score = 50.9 bits (122), Expect = 1e-06
 Identities = 49/177 (27%), Positives = 92/177 (51%), Gaps = 11/177 (6%)

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 SDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTEVHSAWL 210
           ++LSA LE++Q+  +E + ++ + ER L+  EEE+   K E      E  E+  A L
Sbjct: 399 AELSAALEEIQEELEELEKELEELERELEELEEEI--KKLEEQINQLESKELMIAEL 453

Length = 908

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

 Score = 50.1 bits (120), Expect = 2e-06
 Identities = 38/171 (22%), Positives = 90/171 (52%), Gaps = 12/171 (7%)

Query: 46  ELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSER-----------IVSLQK 94
           +L++ +  +  LE  ++E  ++L+  +    + E+  + K+E            +  L+K
Sbjct: 180 KLERTEENLERLEDLLEELEKQLEKLERQAEKAERYQELKAELRELELALLLAKLKELRK 239

Query: 95  ELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKIS 154
           EL  L+++ +    E++++     +E EK+I+ LK E E+ ++E E L+   +E +++I 
Sbjct: 240 ELEELEEELS-RLEEELEELQEELEEAEKEIEELKSELEELREELEELQEELLELKEEIE 298

Query: 155 DLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTEV 205
           +L  ++  L++  +E ++++ + E  L+  +E++   K E   R   L E+
Sbjct: 299 ELEGEISLLRERLEELENELEELEERLEELKEKIEALKEELEERETLLEEL 349

Length = 1163

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

 Score = 50.1 bits (120), Expect = 2e-06
 Identities = 45/172 (26%), Positives = 88/172 (51%), Gaps = 8/172 (4%)

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 SAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTEVHSA 208
             KLE+ +    E ++++ + E  L+  +EE+ R +       +EL E   A
Sbjct: 427 LKKLEEAEL--KELQAELEELEEELEELQEELERLEEALEELREELEEAEQA 476

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 = 50.5 bits (120), Expect = 2e-06
 Identities = 45/166 (27%), Positives = 80/166 (48%), Gaps = 11/166 (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  LEKLQKINDEQKSK---IRKTERALKVAEEEMMRAKFEATSRSKEL 202
             E+L+K   E+K K   ++K E   K+  EE  +   E   +++E 
Sbjct: 1704 AEELKKKEAEEKKKAEELKKAEEENKIKAEEAKKEAEEDKKKAEEA 1749

Length = 2084

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

 Score = 49.7 bits (119), Expect = 2e-06
 Identities = 37/160 (23%), Positives = 71/160 (44%), Gaps = 16/160 (10%)

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 LQKINDEQKSKIRKTERALKVAEE-EMMRAKFEATSRSKE 201
           L+++  + K   ++ E   +  E  E  +AK E   R K+
Sbjct: 340 LEELKKKLKELEKRLEELEERHELYEEAKAKKEELERLKK 379

Length = 880

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

 Score = 49.3 bits (118), Expect = 3e-06
 Identities = 47/169 (27%), Positives = 90/169 (53%), Gaps = 15/169 (8%)

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-KINDEQKSKIRKTERA------LKVAEEEMMRAKFEATSRSKELTE 204
           L  +  +E + ++++ E        LK AE+E+ R + E     +EL +
Sbjct: 582 LGFESVEELEERLKELEPFYNEYLELKDAEKELEREEKELKKLEEELDK 630

Length = 880

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

 Score = 48.9 bits (117), Expect = 4e-06
 Identities = 35/176 (19%), Positives = 88/176 (50%), Gaps = 10/176 (5%)

Query: 43  LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSL--- 99
           L+ E+  L+ ++  LE+ ++E  + L+   E +   ++ ++++   +  L++ L+ L   
Sbjct: 300 LEGEISLLRERLEELENELEELEERLEELKEKIEALKEELEERETLLEELEQLLAELEEA 359

Query: 100 --QKKETLNAAEQVDKAH-----ARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKK 152
             + +E L+A  +  +           ELE ++  ++ E E+ ++E E+LE R     ++
Sbjct: 360 KEELEEKLSALLEELEELFEALREELAELEAELAEIRNELEELKREIESLEERLERLSER 419

Query: 153 ISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTEVHSA 208
           + DL  +L++L+   +E ++++ +    L+  EE++   +       +EL E+   
Sbjct: 420 LEDLKEELKELEAELEELQTELEELNEELEELEEQLEELRDRLKELERELAELQEE 475

Length = 1163

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

 Score = 48.9 bits (117), Expect = 5e-06
 Identities = 37/165 (22%), Positives = 81/165 (49%), Gaps = 1/165 (0%)

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 LQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTEVHS 207
           L+    E + ++ +    L   E  +   +    +  + L+E +S
Sbjct: 906 LESKRSELRRELEELREKLAQLELRLEGLEVRIDNLQERLSEEYS 950

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 = 48.5 bits (116), Expect = 6e-06
 Identities = 33/142 (23%), Positives = 72/142 (50%), Gaps = 8/142 (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 KINDEQKSKIRKTERALKVAEE 186
           +   E K    K E  +K++E 
Sbjct: 280 EKVKELKELKEKAEEYIKLSEF 301

Length = 880

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

 Score = 48.1 bits (115), Expect = 7e-06
 Identities = 46/167 (27%), Positives = 86/167 (51%), Gaps = 18/167 (10%)

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 LEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTEVH 206
           + +L+K   E           LK A EE+ +AK +     +ELTE H
Sbjct: 414 IGELKKEIKE-----------LKKAIEELKKAKGKCPVCGRELTEEH 449

Length = 880

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

 Score = 48.2 bits (115), Expect = 8e-06
 Identities = 33/153 (21%), Positives = 66/153 (43%), Gaps = 15/153 (9%)

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  EAEKKISDLSAKLEKLQKINDEQKSKIRKTERA 180
            E + +  DL    EKL ++ +E   + R+  + 
Sbjct: 981  ELKSQREDLEEAKEKLLEVIEELDKEKRERFKE 1013

Length = 1163

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

 Score = 47.4 bits (113), Expect = 1e-05
 Identities = 41/170 (24%), Positives = 91/170 (53%), Gaps = 5/170 (2%)

Query: 43  LKIELDQLKSKIRSLESHID--EKTQELKGKDEVV--AQKEKAIQDKSERIVSLQKELSS 98
           L+  L++L+ ++  LE   +  E+ QELK +   +  A     +++  + +  L++ELS 
Sbjct: 191 LEDLLEELEKQLEKLERQAEKAERYQELKAELRELELALLLAKLKELRKELEELEEELSR 250

Query: 99  LQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSA 158
           L++ E     E++++A    +EL+ +++ L++E E+ Q+E   L+    E E +IS L  
Sbjct: 251 LEE-ELEELQEELEEAEKEIEELKSELEELREELEELQEELLELKEEIEELEGEISLLRE 309

Query: 159 KLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTEVHSA 208
           +LE+L+   +E + ++ + +  ++  +EE+   +       + L E+  A
Sbjct: 310 RLEELENELEELEERLEELKEKIEALKEELEERETLLEELEQLLAELEEA 359

Length = 1163

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

 Score = 47.4 bits (113), Expect = 1e-05
 Identities = 40/145 (27%), Positives = 75/145 (51%), Gaps = 8/145 (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 DNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAE 185
           + L++E EK ++  E LE      E++I ++ ++L++L+   +E +  + K E AL   E
Sbjct: 726 EQLEQEEEKLKERLEELEEDLSSLEQEIENVKSELKELEARIEELEEDLHKLEEALNDLE 785

Query: 186 EEMMRAKF-EATSRSKELTEVHSAW 209
             +  ++  E  +   +L E  S  
Sbjct: 786 ARLSHSRIPEIQAELSKLEEEVSRI 810

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 = 47.0 bits (112), Expect = 2e-05
 Identities = 28/134 (20%), Positives = 61/134 (45%), Gaps = 12/134 (8%)

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

Query: 134 KQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKF 193
           +   E + LE +  E   ++S+L  ++E+LQK      ++I + E+  ++  E +   + 
Sbjct: 257 ELTAELQELEEKLEELRLEVSELEEEIEELQKELYALANEISRLEQQKQILRERLANLER 316

Query: 194 EATSRSKELTEVHS 207
           +      +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|224495 COG1579, COG1579, Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]

 Score = 45.8 bits (109), Expect = 2e-05
 Identities = 30/145 (20%), Positives = 65/145 (44%), Gaps = 10/145 (6%)

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 LQKINDEQKSKIRKTERALKVAEEE 187
           L+K  ++ K ++ + E+ L  AE  
Sbjct: 122 LEKEIEDLKERLERLEKNLAEAEAR 146

Length = 239

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

 Score = 47.1 bits (111), Expect = 2e-05
 Identities = 36/144 (25%), Positives = 70/144 (48%), Gaps = 4/144 (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  KVAEEEMMRAKFEATSRSKELTEV 205
            + AEE+   A+ +     K+    
Sbjct: 1360 EAAEEKAEAAEKKKEEAKKKADAA 1383

Length = 2084

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

 Score = 46.9 bits (111), Expect = 2e-05
 Identities = 29/122 (23%), Positives = 55/122 (45%), Gaps = 6/122 (4%)

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

Query: 144 ARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAK----FEATSRS 199
             A    K     S K +K  ++ + QK +I K +  +K  +EE ++AK    F+    S
Sbjct: 255 QEAKNLPKPADTSSPKEDK--QVAENQKREIEKAQIEIKKNDEEALKAKDHKAFDLKQES 312

Query: 200 KE 201
           K 
Sbjct: 313 KA 314

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

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

 Score = 45.4 bits (108), Expect = 5e-05
 Identities = 41/162 (25%), Positives = 78/162 (48%), Gaps = 12/162 (7%)

Query: 49  QLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKK-ETLNA 107
           +LK+++R LE  +      L+   E + + ++ +++  E +  L  EL  L++K E L  
Sbjct: 217 ELKAELRELELAL--LVLRLEELREELEELQEELKEAEEELEELTAELQELEEKLEELRL 274

Query: 108 AEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKIN 167
                       ELE++I+ L+KE      E   LE +     +++++L  +LE+L+   
Sbjct: 275 EVS---------ELEEEIEELQKELYALANEISRLEQQKQILRERLANLERQLEELEAQL 325

Query: 168 DEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTEVHSAW 209
           +E +SK+ +    L   EE++   K E  S   EL E+ +  
Sbjct: 326 EELESKLDELAEELAELEEKLEELKEELESLEAELEELEAEL 367

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

 Score = 45.7 bits (108), Expect = 5e-05
 Identities = 34/146 (23%), Positives = 64/146 (43%), Gaps = 1/146 (0%)

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

Query: 103 ETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEK 162
                 E+      +    + + + L K+  + ++   A + +  E E K  +       
Sbjct: 352 REAEEEEEEQLEKLQEKLEQLEEELLAKKKLESERLSSAAKLKEEELELKNEEEKEAKLL 411

Query: 163 LQKINDEQK-SKIRKTERALKVAEEE 187
           L+    E+   K  K E    V E E
Sbjct: 412 LELSEQEEDLLKEEKKEELKIVEELE 437

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

 Score = 41.1 bits (97), Expect = 5e-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|234501 TIGR04211, SH3_and_anchor, SH3 domain protein

 Score = 43.8 bits (104), Expect = 5e-05
 Identities = 27/97 (27%), Positives = 55/97 (56%), Gaps = 4/97 (4%)

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

Query: 144 -ARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTER 179
            A AIE +++  +L  +L +L++ N+  +++  + + 
Sbjct: 124 SANAIELDEENRELREELAELKQENEALEAENERLQE 160

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|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 45.5 bits (107), Expect = 6e-05
 Identities = 39/135 (28%), Positives = 65/135 (48%), Gaps = 7/135 (5%)

Query: 64   KTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDK----AHARAD 119
            K +E +  DE+   +EK   D++++    +K   + +K E    A++  K    A  +AD
Sbjct: 1273 KAEEARKADELKKAEEKKKADEAKKAEEKKKADEAKKKAEEAKKADEAKKKAEEAKKKAD 1332

Query: 120  ELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSK---IRK 176
              +K+ +  KK +E  + E EA    A  AE+K      K E+ +K  D  K K    +K
Sbjct: 1333 AAKKKAEEAKKAAEAAKAEAEAAADEAEAAEEKAEAAEKKKEEAKKKADAAKKKAEEKKK 1392

Query: 177  TERALKVAEEEMMRA 191
             + A K AEE+  +A
Sbjct: 1393 ADEAKKKAEEDKKKA 1407

Length = 2084

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

 Score = 45.1 bits (107), Expect = 7e-05
 Identities = 35/176 (19%), Positives = 75/176 (42%), Gaps = 14/176 (7%)

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 ISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTEVHSA 208
           + +L   LEKL+      + ++ K E  L+  E E+     E    +K L E    
Sbjct: 314 LEELEELLEKLK----SLEERLEKLEEKLEKLESELEELAEEKNELAKLLEERLKE 365

Length = 908

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

 Score = 45.0 bits (107), Expect = 8e-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|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|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 44.7 bits (105), Expect = 9e-05
 Identities = 43/163 (26%), Positives = 78/163 (47%), Gaps = 13/163 (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---IRKTERALKVAEE 186
             +  KK ++ + K ++ +K  +E K K    +K   A K A+E
Sbjct: 1472 ADEAKKKAEEAKKADEAKKKAEEAKKKADEAKKAAEAKKKADE 1514

Length = 2084

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

 Score = 44.3 bits (105), Expect = 1e-04
 Identities = 31/149 (20%), Positives = 60/149 (40%), Gaps = 19/149 (12%)

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

Query: 100 QKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAK 159
             +  +   E          +LE+   +L K     ++E   L+      EK++S L  +
Sbjct: 447 ALE--IKKQEW---------KLEQLAADLSKY----EQELYDLKEEYDRVEKELSKLQRE 491

Query: 160 LEKLQKINDEQKSKIRKTERALKVAEEEM 188
           L + +     Q     +  R  +  EE +
Sbjct: 492 LAEAEA----QARASEERVRGGRAVEEVL 516

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

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

 Score = 44.7 bits (106), Expect = 1e-04
 Identities = 37/147 (25%), Positives = 75/147 (51%), Gaps = 9/147 (6%)

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 EKLQKINDE-QKSKIRKTERALKVAEE 186
           E+++++ ++ +K K    ERAL    E
Sbjct: 721 ERVEELREKVKKYKALLKERALSKVGE 747

Length = 880

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

 Score = 42.7 bits (101), Expect = 1e-04
 Identities = 25/104 (24%), Positives = 54/104 (51%), Gaps = 5/104 (4%)

Query: 50  LKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAE 109
            + ++  L+  + E  +EL    E +A+ ++  Q+  + + +L+ EL  LQK+       
Sbjct: 64  ARERLPELQQELAELQEELAELQEQLAELQQENQELKQELSTLEAELERLQKE-----LA 118

Query: 110 QVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKI 153
           ++ +  A A EL+++   L++E  + ++E EALEA     ++  
Sbjct: 119 RIKQLSANAIELDEENRELREELAELKQENEALEAENERLQENE 162

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|181619 PRK09039, PRK09039, hypothetical protein; Validated

 Score = 43.8 bits (104), Expect = 1e-04
 Identities = 31/140 (22%), Positives = 62/140 (44%), Gaps = 20/140 (14%)

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 KINDEQKSKIRKTERALKVA 184
           K + E ++KI    R L VA
Sbjct: 165 KRDRESQAKIADLGRRLNVA 184

Length = 343

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

 Score = 44.0 bits (105), Expect = 1e-04
 Identities = 35/143 (24%), Positives = 73/143 (51%), Gaps = 15/143 (10%)

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+++      EK 
Sbjct: 575 ---AQQAIKEAKKEADEIIKELRQLQKGGYASVKAHELIEAR-----KRLNK---ANEKK 623

Query: 164 QKINDEQKSKIRKTERALKVAEE 186
           +K     K K ++ +  LKV +E
Sbjct: 624 EKK----KKKQKEKQEELKVGDE 642

Length = 782

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

 Score = 43.5 bits (103), Expect = 2e-04
 Identities = 37/149 (24%), Positives = 71/149 (47%), Gaps = 9/149 (6%)

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

Query: 103 ETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEK 162
             L   E+      + +ELE QI+  +K   + + + EALE    E E    +     E+
Sbjct: 898 --LRELER------KIEELEAQIEKKRKRLSELKAKLEALEEELSEIEDPKGEDEEIPEE 949

Query: 163 LQKINDEQKSKIRKTERALKVAEEEMMRA 191
              + D Q  ++++ E  ++  E   M A
Sbjct: 950 ELSLEDVQA-ELQRVEEEIRALEPVNMLA 977

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 = 43.9 bits (104), Expect = 2e-04
 Identities = 29/140 (20%), Positives = 62/140 (44%), Gaps = 15/140 (10%)

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

Query: 114 AHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISD-------LSAKLEKLQKI 166
               A ELE +++  ++  E +++E E LE    E  ++  D           LE+L++ 
Sbjct: 361 LREEAAELESELEEAREAVEDRREEIEELEEEIEELRERFGDAPVDLGNAEDFLEELREE 420

Query: 167 NDEQKSKIRKTERALKVAEE 186
            DE + +  + E  L+ A E
Sbjct: 421 RDELREREAELEATLRTARE 440

Length = 880

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

 Score = 42.3 bits (100), Expect = 2e-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|227512 COG5185, HEC1, Protein involved in chromosome segregation, interacts with SMC proteins [Cell division and chromosome partitioning]

 Score = 43.8 bits (103), Expect = 2e-04
 Identities = 30/167 (17%), Positives = 69/167 (41%), Gaps = 10/167 (5%)

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 KLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTEVHSA 208
           K+   +D+    ++  +   +   + + +   +  S  + +T   S 
Sbjct: 386 KINIQSDKLTKSVKSRKLEAQGIFKSLEKTLRQYDSLIQNITRSRSQ 432

Length = 622

>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|236942 PRK11637, PRK11637, AmiB activator; Provisional

 Score = 43.1 bits (102), Expect = 2e-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|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common bacterial type

 Score = 43.1 bits (102), Expect = 3e-04
 Identities = 30/120 (25%), Positives = 62/120 (51%), Gaps = 10/120 (8%)

Query: 100 QKKETLNAAEQVDKAHARAD----ELEKQIDNLKKESEKQQKEKEALEARAIEAEKKIS- 154
           ++KET    E+  +   R +    ELE+Q+ +L++++EK ++ KE L+A   E E  +  
Sbjct: 173 RRKETERKLERTRENLDRLEDILNELERQLKSLERQAEKAERYKE-LKAELRELELALLV 231

Query: 155 ----DLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTEVHSAWL 210
               +L  +LE+LQ+   E + ++ +    L+  EE++   + E +   +E+ E+     
Sbjct: 232 LRLEELREELEELQEELKEAEEELEELTAELQELEEKLEELRLEVSELEEEIEELQKELY 291

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

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

 Score = 42.8 bits (101), Expect = 3e-04
 Identities = 48/245 (19%), Positives = 109/245 (44%), Gaps = 18/245 (7%)

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 SAKLEKL-----QKINDEQKSKIRKTERALKVAEEEMMR---AKFEATSRSKELTEVHSA 208
             +LE+L      +   E+  ++    + LK   EE+      K E     + L E+   
Sbjct: 542 LEELEELKEKLQLQQLKEELRQLEDRLQELKELLEELRLLRTRKEELEELRERLKELKKK 601

Query: 209 WLPPWLAVHLLQCQSLIETHWNAHGKPAMDVAIQKALEKKAQAGKWVQPHVETIKAKWIP 268
                L   L Q + L+++   +  +  ++ A ++   +  +     Q  +E +    + 
Sbjct: 602 L--KELEERLSQLEELLQSLELSEAENELEEAEEELESELEKLNL--QAELEELLQAALE 657

Query: 269 AVKEQ 273
            ++E+
Sbjct: 658 ELEEK 662

Length = 908

>gnl|CDD|219934 pfam08614, ATG16, Autophagy protein 16 (ATG16)

 Score = 41.4 bits (97), Expect = 3e-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|235175 PRK03918, PRK03918, chromosome segregation protein; Provisional

 Score = 42.7 bits (101), Expect = 4e-04
 Identities = 40/191 (20%), Positives = 88/191 (46%), Gaps = 25/191 (13%)

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 EKKISDLSAKLEKLQKI------------NDEQKSKIRKTERALKVAEEEMMRAKFEATS 197
           +K+I +L   +E+L+K              + +K  + +    LK  E+E+   + +   
Sbjct: 418 KKEIKELKKAIEELKKAKGKCPVCGRELTEEHRKELLEEYTAELKRIEKELKEIEEKERK 477

Query: 198 RSKELTEVHSA 208
             KEL E+   
Sbjct: 478 LRKELRELEKV 488

Length = 880

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

 Score = 42.7 bits (101), Expect = 4e-04
 Identities = 49/180 (27%), Positives = 88/180 (48%), Gaps = 26/180 (14%)

Query: 46  ELDQLKSKIRSLESHIDEKTQELKG-KDEVVAQKEKAIQDKSERIVSLQ----------- 93
           +L++LK K+  LE  +DE  +EL     E+     +++++  ER+  L+           
Sbjct: 550 KLEELKKKLAELEKKLDELEEELAELLKELEELGFESVEELEERLKELEPFYNEYLELKD 609

Query: 94  --KELSSLQKK------ETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEAR 145
             KEL   +K+      E   A E++ +   R +EL K+++ L+K+    ++E E L   
Sbjct: 610 AEKELEREEKELKKLEEELDKAFEELAETEKRLEELRKELEELEKKYS--EEEYEELREE 667

Query: 146 AIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTEV 205
            +E  ++++ L A+LE+L+K  +E K  + K +  L    EE  +AK E     K L  V
Sbjct: 668 YLELSRELAGLRAELEELEKRREEIKKTLEKLKEEL----EEREKAKKELEKLEKALERV 723

Length = 880

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

 Score = 42.8 bits (101), Expect = 4e-04
 Identities = 31/161 (19%), Positives = 65/161 (40%), Gaps = 19/161 (11%)

Query: 47  LDQLKSKIRSLESHIDE---KTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKE 103
               K K+  +E  + E        + K  V+                L + LS ++++E
Sbjct: 354 YLAYKPKLEKVERKLPELGIWKDVERIKALVIRGY------------PLAEALSKVKEEE 401

Query: 104 TLNAAEQVDKAHARADE--LEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLE 161
                ++  +   R +    EK+I  L++  E+ ++E   L+    E +++I  L ++LE
Sbjct: 402 -RPREKEGTEEEERREITVYEKRIKKLEETVERLEEENSELKRELEELKREIEKLESELE 460

Query: 162 KLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKEL 202
           + ++     K +  +  RA     E + +   E   R +EL
Sbjct: 461 RFRR-EVRDKVRKDREIRARDRRIERLEKELEEKKKRVEEL 500

Length = 652

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

 Score = 42.4 bits (100), Expect = 5e-04
 Identities = 29/131 (22%), Positives = 54/131 (41%), Gaps = 2/131 (1%)

Query: 100 QKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAK 159
           +++E     E++++   +  ELEK +  L+KE E+ ++E E L     E  ++IS L   
Sbjct: 675 RRREIEELEEKIEELEEKIAELEKALAELRKELEELEEELEQLRKELEELSRQISALRKD 734

Query: 160 LEKLQKI--NDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTEVHSAWLPPWLAVH 217
           L +L+      E++      E     AE E +  + E         E     L   +   
Sbjct: 735 LARLEAEVEQLEERIAQLSKELTELEAEIEELEERLEEAEEELAEAEAEIEELEAQIEQL 794

Query: 218 LLQCQSLIETH 228
             + ++L E  
Sbjct: 795 KEELKALREAL 805

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

 Score = 42.1 bits (99), Expect = 5e-04
 Identities = 35/122 (28%), Positives = 54/122 (44%), Gaps = 19/122 (15%)

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-------AKLEKLQKINDEQKSKIRKTERALKVAEE--EMMRAKF 193
            A+  +AE+K+ D         A+L    +     KS + + E A   A+E  E M  + 
Sbjct: 576 NAQLAQAEEKLGDSELYDQSRKAELTACLQQQASAKSGLEECEMAWLEAQEQLEQMLLEG 635

Query: 194 EA 195
           ++
Sbjct: 636 QS 637

Length = 638

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

 Score = 40.4 bits (95), Expect = 7e-04
 Identities = 13/93 (13%), Positives = 45/93 (48%), Gaps = 2/93 (2%)

Query: 46  ELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETL 105
           EL +L+ ++  L+  + E  QE +   + ++  E  ++   + +  +++  ++  + +  
Sbjct: 74  ELAELQEELAELQEQLAELQQENQELKQELSTLEAELERLQKELARIKQLSANAIELDEE 133

Query: 106 NA--AEQVDKAHARADELEKQIDNLKKESEKQQ 136
           N    E++ +     + LE + + L++  +++ 
Sbjct: 134 NRELREELAELKQENEALEAENERLQENEQRRW 166

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

 Score = 41.4 bits (98), Expect = 8e-04
 Identities = 29/112 (25%), Positives = 57/112 (50%), Gaps = 14/112 (12%)

Query: 111 VDKAHARADELEKQIDNLKKESEKQQK--EKEALEARAI--EAEKKISDLSAKLEKLQKI 166
           +++A     E +++++ L    E+ ++  E++A EA A+  EAEK   +L  K EKLQ+ 
Sbjct: 504 IEEAKKLIGEDKEKLNELIASLEELERELEQKAEEAEALLKEAEKLKEELEEKKEKLQEE 563

Query: 167 NDEQKSKIRKT-ERALKVAEEE---------MMRAKFEATSRSKELTEVHSA 208
            D+   +  K  ++A+K A++E          ++    A+ ++ EL E    
Sbjct: 564 EDKLLEEAEKEAQQAIKEAKKEADEIIKELRQLQKGGYASVKAHELIEARKR 615

Length = 782

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

 Score = 41.5 bits (97), Expect = 8e-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|202833 pfam03962, Mnd1, Mnd1 family

 Score = 39.9 bits (94), Expect = 8e-04
 Identities = 32/103 (31%), Positives = 54/103 (52%), Gaps = 12/103 (11%)

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

Query: 145 RAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEE 187
              + EK++  L A+LEK +K + E   +I K +   KVA+E 
Sbjct: 112 LK-QLEKELKKLKAELEKYEKNDPE---RIEKLKEETKVAKEA 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|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 40.9 bits (96), 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|237177 PRK12704, PRK12704, phosphodiesterase; Provisional

 Score = 40.9 bits (97), Expect = 0.001
 Identities = 26/118 (22%), Positives = 64/118 (54%), Gaps = 15/118 (12%)

Query: 46  ELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETL 105
           EL + +++++ LE  + +K + L  K E++ ++E+ ++ K + +   Q+EL   +++   
Sbjct: 76  ELRERRNELQKLEKRLLQKEENLDRKLELLEKREEELEKKEKELEQKQQELEKKEEELEE 135

Query: 106 NAAEQVDK----AHARADELEKQI-DNLKKESEKQ------QKEKEALEARAIEAEKK 152
              EQ+ +    +   A+E ++ + + +++E+  +      + E+EA E    EA+KK
Sbjct: 136 LIEEQLQELERISGLTAEEAKEILLEKVEEEARHEAAVLIKEIEEEAKE----EADKK 189

Length = 520

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

 Score = 40.8 bits (96), Expect = 0.001
 Identities = 46/184 (25%), Positives = 78/184 (42%), Gaps = 24/184 (13%)

Query: 45  IELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQ-------------DKSERIVS 91
            E   L  ++  LES + E  +E++  +E   Q+E+A +             ++ E + +
Sbjct: 199 KEEKDLHERLNGLESELAELDEEIERYEE---QREQARETRDEADEVLEEHEERREELET 255

Query: 92  LQKELSSLQ------KKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEAR 145
           L+ E+  L+      ++E    AE+V     R +ELE++ D+L  E+     + EA+EAR
Sbjct: 256 LEAEIEDLRETIAETEREREELAEEVRDLRERLEELEEERDDLLAEAGLDDADAEAVEAR 315

Query: 146 AIEAEKKISDLSAKL-EKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTE 204
             E E +  +L  +L E         +      E A    EE     + EA     EL E
Sbjct: 316 REELEDRDEELRDRLEECRVAAQAHNEEAESLREDADD-LEERAEELREEAAELESELEE 374

Query: 205 VHSA 208
              A
Sbjct: 375 AREA 378

Length = 880

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

 Score = 41.3 bits (96), Expect = 0.001
 Identities = 33/151 (21%), Positives = 72/151 (47%), Gaps = 8/151 (5%)

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

Query: 116  ARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKI----SDLSAKLEKLQKINDEQK 171
             +  E  K+ D  KK++E+ +K+ +A + +A EA+K      ++  A  ++ +   ++ +
Sbjct: 1308 KKKAEEAKKADEAKKKAEEAKKKADAAKKKAEEAKKAAEAAKAEAEAAADEAEAAEEKAE 1367

Query: 172  SKIRKTERALKVAEEEMMRAKFEATSRSKEL 202
            +  +K E A K A+    + K E   ++ E 
Sbjct: 1368 AAEKKKEEAKKKADA--AKKKAEEKKKADEA 1396

Length = 2084

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

 Score = 41.3 bits (96), Expect = 0.001
 Identities = 42/170 (24%), Positives = 74/170 (43%), Gaps = 6/170 (3%)

Query: 44   KIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKE 103
            K + D+ K    + +   + K  E   K +   + E+A +    +    +K+   L+K E
Sbjct: 1496 KKKADEAKKAAEAKKKADEAKKAEEAKKADEAKKAEEAKKADEAKKAEEKKKADELKKAE 1555

Query: 104  TLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEA--RAIEAEKKISDLSAKLE 161
             L  AE+  KA       E +   L+K  E ++ E+  +E   +  E EKK+    AK  
Sbjct: 1556 ELKKAEEKKKAEEAKKAEEDKNMALRKAEEAKKAEEARIEEVMKLYEEEKKMKAEEAKKA 1615

Query: 162  KLQKINDEQKSK---IRKTERALKVAEEEMMRAKFEATSRSKELTEVHSA 208
            +  KI  E+  K    +K    LK  E E  + K E   +++E  ++ +A
Sbjct: 1616 EEAKIKAEELKKAEEEKKKVEQLKKKEAEEKK-KAEELKKAEEENKIKAA 1664

Length = 2084

>gnl|CDD|225638 COG3096, MukB, Uncharacterized protein involved in chromosome partitioning [Cell division and chromosome partitioning]

 Score = 41.4 bits (97), Expect = 0.001
 Identities = 35/166 (21%), Positives = 72/166 (43%), Gaps = 32/166 (19%)

Query: 35   SDAVDSSPLKIEL-DQLKSKIRSLESHIDEKTQELKGK-------DEVVAQKEKAIQDKS 86
            SD+ +      +L ++L+ ++   E+      ++L+         ++V+A  + +   K 
Sbjct: 973  SDSAEMLSENSDLNEKLRQRLEQAEAERTRAREQLRQHQAQLSQYNQVLASLKSSYDTKK 1032

Query: 87   ERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARA 146
            E +  LQ+EL  +  +    A E   +A  R DEL  Q+   +              +R 
Sbjct: 1033 ELLNELQQELQDIGVRADSGAEE---RARIRRDELHAQLSTNR--------------SRR 1075

Query: 147  IEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAK 192
             + EK+++   A+++ L +       K+RK ER      E+++ AK
Sbjct: 1076 NQLEKQLTFCEAEMDNLTR-------KLRKLERDYFEMREQVVTAK 1114

Length = 1480

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

 Score = 40.4 bits (95), 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|233467 TIGR01554, major_cap_HK97, phage major capsid protein, HK97 family

 Score = 40.4 bits (95), Expect = 0.001
 Identities = 28/116 (24%), Positives = 52/116 (44%), Gaps = 8/116 (6%)

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

Query: 142 LEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATS 197
           LEA+   A  +      + E+ +    E ++ +R  +     A  E  +A    T 
Sbjct: 58  LEAKP-AASGEGGGGEEEEEEAKAEAAEFRAYLRGGDD----ALAEERKALSTGTD 108

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

 Score = 40.1 bits (94), Expect = 0.002
 Identities = 26/96 (27%), Positives = 51/96 (53%), Gaps = 4/96 (4%)

Query: 119 DELEKQIDNLKKESEK----QQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKI 174
           +ELEKQ++ L++++EK    Q+ + E  E        K+ +L  +LE+L++     + ++
Sbjct: 196 EELEKQLEKLERQAEKAERYQELKAELRELELALLLAKLKELRKELEELEEELSRLEEEL 255

Query: 175 RKTERALKVAEEEMMRAKFEATSRSKELTEVHSAWL 210
            + +  L+ AE+E+   K E     +EL E+    L
Sbjct: 256 EELQEELEEAEKEIEELKSELEELREELEELQEELL 291

Length = 1163

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

 Score = 40.9 bits (95), Expect = 0.002
 Identities = 32/141 (22%), Positives = 65/141 (46%), Gaps = 3/141 (2%)

Query: 63   EKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELE 122
            +K  E K  +E     E   + +  +     K+ +   KK+   A ++ ++A   A+  +
Sbjct: 1290 KKADEAKKAEEKKKADEAKKKAEEAKKADEAKKKAEEAKKKADAAKKKAEEAKKAAEAAK 1349

Query: 123  KQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQK--SKIRKTERA 180
             + +    E+E  +++ EA E +  EA+KK      K E+ +K ++ +K   + +K    
Sbjct: 1350 AEAEAAADEAEAAEEKAEAAEKKKEEAKKKADAAKKKAEEKKKADEAKKKAEEDKKKADE 1409

Query: 181  LKVAEEEMMRAKFEATSRSKE 201
            LK A     +A  EA  +++E
Sbjct: 1410 LKKAAAAKKKAD-EAKKKAEE 1429

Length = 2084

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

 Score = 40.5 bits (95), Expect = 0.002
 Identities = 34/162 (20%), Positives = 82/162 (50%), Gaps = 9/162 (5%)

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

Query: 106 NAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEAL---EARAIEAEKKISDLSAKLEK 162
              ++ ++     + LE+++  L++E E+ ++ K  L   E+  +EA K   +   +LE+
Sbjct: 222 QEEQEEEELEQEIEALEERLAELEEEKERLEELKARLLEIESLELEALKIREEELRELER 281

Query: 163 LQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTE 204
           L +  +E+  ++ + ER ++  EEE+   +       + L +
Sbjct: 282 LLEELEEKIERLEELEREIEELEEELEGLRALLEELEELLEK 323

Length = 908

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

 Score = 39.2 bits (92), Expect = 0.002
 Identities = 16/96 (16%), Positives = 46/96 (47%), Gaps = 10/96 (10%)

Query: 107 AAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKI 166
           A E++ +      EL++++  L+++  + Q+E + L+      E ++  L  +L +++++
Sbjct: 64  ARERLPELQQELAELQEELAELQEQLAELQQENQELKQELSTLEAELERLQKELARIKQL 123

Query: 167 ----------NDEQKSKIRKTERALKVAEEEMMRAK 192
                     N E + ++ + ++  +  E E  R +
Sbjct: 124 SANAIELDEENRELREELAELKQENEALEAENERLQ 159

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|236892 PRK11281, PRK11281, hypothetical protein; Provisional

 Score = 40.7 bits (96), Expect = 0.002
 Identities = 28/102 (27%), Positives = 54/102 (52%), Gaps = 9/102 (8%)

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 KKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAK 192
            K+    A+LE L+  NDE+    R+T   L + + E   A+
Sbjct: 94  AKLRQAQAELEALKDDNDEET---RETLSTLSLRQLESRLAQ 132

Length = 1113

>gnl|CDD|144972 pfam01576, Myosin_tail_1, Myosin tail

 Score = 40.4 bits (95), Expect = 0.002
 Identities = 44/163 (26%), Positives = 82/163 (50%), Gaps = 21/163 (12%)

Query: 49  QLKSKIRSLESHIDEKTQELKGKDE----------VVAQKEKAIQDKSERIVSLQKELSS 98
           +L+ ++ +L+S +DE   ELK  +E           +A++ +  Q+ S+ +  L+K+L S
Sbjct: 662 KLEGELAALQSDLDEAVNELKAAEERAKKAQADAARLAEELRQEQEHSQHLERLRKQLES 721

Query: 99  LQK--KETLNAAE---------QVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAI 147
             K  +  L+ AE          + K  AR  ELE ++D  ++   + QK    +E R  
Sbjct: 722 QVKELQVRLDEAEAAALKGGKKMIQKLEARVRELEAELDGEQRRHAETQKNLRKMERRVK 781

Query: 148 EAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMR 190
           E + ++ +    LE+LQ + D+ ++KI+  +R L+ AEE    
Sbjct: 782 ELQFQVEEDKKNLERLQDLVDKLQAKIKTYKRQLEEAEEVAQI 824

The myosin molecule is a multi-subunit complex made up of two heavy chains and four light chains it is a fundamental contractile protein found in all eukaryote cell types. 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 the thick filament. Length = 859

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

 Score = 40.3 bits (95), Expect = 0.002
 Identities = 38/220 (17%), Positives = 81/220 (36%), Gaps = 44/220 (20%)

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-LQKINDEQKSKIRKTERALK 182
           A  +E  +    +    +  L +   E+K ++R+ ER   
Sbjct: 449 ALTLENLRLAISVLVTGDLELARRLVERKKRVRRLERRSS 488

Length = 533

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

 Score = 39.6 bits (93), 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|236912 PRK11448, hsdR, type I restriction enzyme EcoKI subunit R; Provisional

 Score = 40.3 bits (95), Expect = 0.002
 Identities = 27/105 (25%), Positives = 47/105 (44%), Gaps = 11/105 (10%)

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

Query: 160 LEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTE 204
           LE+LQ+    + S+ RK +R              +A  R  EL+E
Sbjct: 200 LEQLQE-KAAETSQERKQKR---------KEITDQAAKRL-ELSE 233

Length = 1123

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

 Score = 39.6 bits (93), Expect = 0.003
 Identities = 28/175 (16%), Positives = 71/175 (40%), Gaps = 16/175 (9%)

Query: 43  LKIELDQLKSKIRSLESHIDEKTQELKGKDEVV---------AQKEKAIQDKSERIVSLQ 93
           L+ E++ L+  I   E   +E  +E++   E +            E  + D     V  +
Sbjct: 256 LEAEIEDLRETIAETEREREELAEEVRDLRERLEELEEERDDLLAEAGLDDADAEAVEAR 315

Query: 94  KELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKI 153
           +E    + +E     +++++    A    ++ ++L+++++  ++  E L   A E E ++
Sbjct: 316 REELEDRDEEL---RDRLEECRVAAQAHNEEAESLREDADDLEERAEELREEAAELESEL 372

Query: 154 SDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTEVHSA 208
            +    +E  ++  +E + +I +       A  ++      A    +EL E    
Sbjct: 373 EEAREAVEDRREEIEELEEEIEELRERFGDAPVDLG----NAEDFLEELREERDE 423

Length = 880

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

 Score = 40.1 bits (93), Expect = 0.003
 Identities = 34/146 (23%), Positives = 65/146 (44%), Gaps = 4/146 (2%)

Query: 63   EKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELE 122
            +K +E K   E   + E+   ++  R     +     +++  + A E       +  E +
Sbjct: 1230 KKAEEAKKDAEEAKKAEEERNNEEIRKFEEARMAHFARRQAAIKAEEARKADELKKAEEK 1289

Query: 123  KQIDNLKKESEKQQKE---KEALEAR-AIEAEKKISDLSAKLEKLQKINDEQKSKIRKTE 178
            K+ D  KK  EK++ +   K+A EA+ A EA+KK  +   K +  +K  +E K      +
Sbjct: 1290 KKADEAKKAEEKKKADEAKKKAEEAKKADEAKKKAEEAKKKADAAKKKAEEAKKAAEAAK 1349

Query: 179  RALKVAEEEMMRAKFEATSRSKELTE 204
               + A +E   A+ +A +  K+  E
Sbjct: 1350 AEAEAAADEAEAAEEKAEAAEKKKEE 1375

Length = 2084

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

 Score = 40.1 bits (93), Expect = 0.003
 Identities = 37/142 (26%), Positives = 72/142 (50%), Gaps = 4/142 (2%)

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

Query: 123  KQIDNLKK--ESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKS-KIRKTER 179
            K  +  KK  E++K ++ K+A EA+  E E K +D + K E+ +K ++ +K+ +++K E 
Sbjct: 1504 KAAEAKKKADEAKKAEEAKKADEAKKAE-EAKKADEAKKAEEKKKADELKKAEELKKAEE 1562

Query: 180  ALKVAEEEMMRAKFEATSRSKE 201
              K  E +          R  E
Sbjct: 1563 KKKAEEAKKAEEDKNMALRKAE 1584

Length = 2084

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

 Score = 39.7 bits (93), Expect = 0.003
 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|218681 pfam05667, DUF812, Protein of unknown function (DUF812)

 Score = 39.4 bits (92), Expect = 0.003
 Identities = 35/182 (19%), Positives = 76/182 (41%), Gaps = 13/182 (7%)

Query: 26  GEDVPPLTASDAVDSSPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDK 85
            E  P    ++   +   + EL+ L+ +I  LES I+E   E+K     + Q  + +   
Sbjct: 251 AEVPPAEMDTEEDRTKEREAELEALQEQIDELESSIEEVLSEIKALASKIKQVNEELTTV 310

Query: 86  SERIVSLQKELSSLQKKET----LNAAEQVDKAHARADELEKQIDNLKKESEKQQKE-KE 140
            +    L++E     KK T     +A   V K  A      +++  L ++ E  +    +
Sbjct: 311 RQENEELEEEYKI--KKRTVELLPDAENNVAKLQALVVASSERLLELAQQWEAHRTPLID 368

Query: 141 ALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMR--AKFEATSR 198
              +   +   K  +   +L++++K+    ++KI + E  L+  E+   +   ++E   +
Sbjct: 369 EYRSLKEKNRNKEDETQRQLDEIKKL----RNKIEELESELQTKEQLYKQLLDEYENAPK 424

Query: 199 SK 200
           S 
Sbjct: 425 SV 426

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

>gnl|CDD|189476 pfam00261, Tropomyosin, Tropomyosin

 Score = 38.8 bits (91), Expect = 0.003
 Identities = 38/139 (27%), Positives = 74/139 (53%), Gaps = 8/139 (5%)

Query: 53  KIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVD 112
           KI+ LE  +D+  + L+   E + + EK  +     + SL + +  L +++   + E++ 
Sbjct: 2   KIKQLEEELDKAEERLEEAQEKLEEAEKRAEKAEAEVASLNRRIQ-LLEEDLERSEERLA 60

Query: 113 KAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKS 172
            A  + +E EK  D    ESE+ +K    LE R+++ ++K+  L A+L++ ++I +E   
Sbjct: 61  TALEKLEEAEKAAD----ESERGRK---VLENRSLKDDEKMEQLEAQLKEAKEIAEEADR 113

Query: 173 KIRKTERALKVAEEEMMRA 191
           K  +  R L V E ++ RA
Sbjct: 114 KYEEVARKLVVVEGDLERA 132

Length = 237

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

 Score = 38.2 bits (89), Expect = 0.003
 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|219791 pfam08317, Spc7, Spc7 kinetochore protein

 Score = 38.9 bits (91), Expect = 0.004
 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|233973 TIGR02680, TIGR02680, TIGR02680 family protein

 Score = 39.8 bits (93), Expect = 0.004
 Identities = 43/213 (20%), Positives = 91/213 (42%), Gaps = 39/213 (18%)

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 KTERALKVAEEEMMRAKFEATSRSKELTEVHSA 208
             ER L+ A E++ RA   A      L+  H+A
Sbjct: 379 DAERELRAAREQLARAAERAG-----LSPAHTA 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 = 38.9 bits (91), Expect = 0.004
 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|215656 pfam00012, HSP70, Hsp70 protein

 Score = 39.1 bits (92), Expect = 0.004
 Identities = 24/89 (26%), Positives = 48/89 (53%), Gaps = 8/89 (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 TERALKVAEEEMMRAKFEATSRSKELTEV 205
               LK   E   + + EA  +++EL +V
Sbjct: 562 AIEWLKEELEGEDKEEIEA--KTEELQKV 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

>gnl|CDD|235600 PRK05771, PRK05771, V-type ATP synthase subunit I; Validated

 Score = 39.1 bits (92), Expect = 0.004
 Identities = 44/233 (18%), Positives = 90/233 (38%), Gaps = 59/233 (25%)

Query: 34  ASDAVDSSPLKIELDQLKSKIRSLESHIDEKTQEL-KGKDEVVAQKEKAIQDKSERIVSL 92
            S+A+D   L+  L +L       +    +  +EL K  +E + + EK I++  E I  L
Sbjct: 55  LSEALDK--LRSYLPKLNPLREEKKKVSVKSLEELIKDVEEELEKIEKEIKELEEEISEL 112

Query: 93  QKELSSLQKKETLNAAE-----------------------QVDKAHARADELEKQIDN-- 127
           + E+  L+++  +   E                        V +      +LE  ++N  
Sbjct: 113 ENEIKELEQE--IERLEPWGNFDLDLSLLLGFKYVSVFVGTVPEDKLEELKLESDVENVE 170

Query: 128 ---------------LKKESEKQQKEKEALEARAIEAEKK------ISDLSAKLEKLQKI 166
                          LK+ S++ ++E + L    +E E++      I ++  +LE+++K 
Sbjct: 171 YISTDKGYVYVVVVVLKELSDEVEEELKKLGFERLELEEEGTPSELIREIKEELEEIEKE 230

Query: 167 NDEQKSKIR----KTERALKVAEE--EMMRAKFEATSRSK--ELTEVHSAWLP 211
            +    +++    K    L    E  E+   + EA S+    + T     W+P
Sbjct: 231 RESLLEELKELAKKYLEELLALYEYLEIELERAEALSKFLKTDKTFAIEGWVP 283

Length = 646

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

 Score = 37.6 bits (88), Expect = 0.004
 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|221408 pfam12072, DUF3552, Domain of unknown function (DUF3552)

 Score = 37.9 bits (89), Expect = 0.004
 Identities = 40/138 (28%), Positives = 78/138 (56%), Gaps = 5/138 (3%)

Query: 67  ELKGKDEVVAQKEKAIQDKSERIVSLQK-ELSSLQKKETL-NAAEQVDKAHARADELEKQ 124
            L+ K+E+   + +A ++  ER   LQ+ E   LQK+ETL    E ++K     +E EK+
Sbjct: 55  LLEAKEEIHKLRAEAERELKERRNELQRQEKRLLQKEETLDRKDESLEKKEESLEEKEKE 114

Query: 125 IDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVA 184
           +   +++ E++++E E L     +  ++IS L+A+ E  + + +E +++++  E A  + 
Sbjct: 115 LAARQQQLEEKEEELEELIEEQQQELERISGLTAE-EAKEILLEEVEAELK-HEAAKMIK 172

Query: 185 EEEMMRAKFEATSRSKEL 202
           E E   AK EA  ++KE+
Sbjct: 173 EIE-EEAKEEADKKAKEI 189

This presumed domain is functionally uncharacterized. This domain is found in bacteria, archaea and eukaryotes. This domain is about 200 amino acids in length. This domain is found associated with pfam00013, pfam01966. This domain has a single completely conserved residue A that may be functionally important. Length = 201

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	455
PRK11637	428	AmiB activator; Provisional	99.19
PRK11637	428	AmiB activator; Provisional	98.79
COG3883	265	Uncharacterized protein conserved in bacteria [Fun	98.66
PRK09039	343	hypothetical protein; Validated	98.45
COG1579	239	Zn-ribbon protein, possibly nucleic acid-binding [	98.43
PF12718	143	Tropomyosin_1: Tropomyosin like; InterPro: IPR0005	98.42
COG4942	420	Membrane-bound metallopeptidase [Cell division and	98.36
TIGR02169	1164	SMC_prok_A chromosome segregation protein SMC, pri	98.35
PF12718	143	Tropomyosin_1: Tropomyosin like; InterPro: IPR0005	98.28
PF00261	237	Tropomyosin: Tropomyosin; InterPro: IPR000533 Trop	98.21
COG3883	265	Uncharacterized protein conserved in bacteria [Fun	98.15
PRK02224	880	chromosome segregation protein; Provisional	98.12
PHA02562	562	46 endonuclease subunit; Provisional	98.06
PF00261	237	Tropomyosin: Tropomyosin; InterPro: IPR000533 Trop	98.02
COG1579	239	Zn-ribbon protein, possibly nucleic acid-binding [	98.02
COG4942	420	Membrane-bound metallopeptidase [Cell division and	98.0
KOG0250	1074	consensus DNA repair protein RAD18 (SMC family pro	97.98
COG1196	1163	Smc Chromosome segregation ATPases [Cell division	97.98
COG1196	1163	Smc Chromosome segregation ATPases [Cell division	97.98
KOG0250	1074	consensus DNA repair protein RAD18 (SMC family pro	97.94
TIGR01843	423	type_I_hlyD type I secretion membrane fusion prote	97.87
PHA02562	562	46 endonuclease subunit; Provisional	97.87
PRK02224	880	chromosome segregation protein; Provisional	97.84
PRK03918	880	chromosome segregation protein; Provisional	97.83
PF07888	546	CALCOCO1: Calcium binding and coiled-coil domain (	97.79
KOG0161	1930	consensus Myosin class II heavy chain [Cytoskeleto	97.78
PRK09039	343	hypothetical protein; Validated	97.77
KOG0996	1293	consensus Structural maintenance of chromosome pro	97.71
PF09726	697	Macoilin: Transmembrane protein; InterPro: IPR0191	97.69
PRK04863	1486	mukB cell division protein MukB; Provisional	97.65
KOG0933	1174	consensus Structural maintenance of chromosome pro	97.64
TIGR00606	1311	rad50 rad50. This family is based on the phylogeno	97.62
KOG0996	1293	consensus Structural maintenance of chromosome pro	97.59
PF07888	546	CALCOCO1: Calcium binding and coiled-coil domain (	97.59
KOG0161	1930	consensus Myosin class II heavy chain [Cytoskeleto	97.56
KOG0933	1174	consensus Structural maintenance of chromosome pro	97.55
PF12128	1201	DUF3584: Protein of unknown function (DUF3584); In	97.55
PF15619	194	Lebercilin: Ciliary protein causing Leber congenit	97.54
PF05667	594	DUF812: Protein of unknown function (DUF812); Inte	97.51
PF10174	775	Cast: RIM-binding protein of the cytomatrix active	97.47
PF00038	312	Filament: Intermediate filament protein; InterPro:	97.47
COG4372	499	Uncharacterized protein conserved in bacteria with	97.45
PF12128	1201	DUF3584: Protein of unknown function (DUF3584); In	97.43
PF05667	594	DUF812: Protein of unknown function (DUF812); Inte	97.4
KOG0243	1041	consensus Kinesin-like protein [Cytoskeleton]	97.39
TIGR00606	1311	rad50 rad50. This family is based on the phylogeno	97.34
PF00038	312	Filament: Intermediate filament protein; InterPro:	97.33
KOG0995	581	consensus Centromere-associated protein HEC1 [Cell	97.31
PRK04778	569	septation ring formation regulator EzrA; Provision	97.28
PF09726	697	Macoilin: Transmembrane protein; InterPro: IPR0191	97.27
PRK04863	1486	mukB cell division protein MukB; Provisional	97.26
PF12795	240	MscS_porin: Mechanosensitive ion channel porin dom	97.26
PF08317	325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	97.25
TIGR01843	423	type_I_hlyD type I secretion membrane fusion prote	97.24
KOG1029	1118	consensus Endocytic adaptor protein intersectin [S	97.23
PF15070	617	GOLGA2L5: Putative golgin subfamily A member 2-lik	97.19
PF05701	522	WEMBL: Weak chloroplast movement under blue light;	97.19
PF07926	132	TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro:	97.17
PF13851	201	GAS: Growth-arrest specific micro-tubule binding	97.16
PF15619	194	Lebercilin: Ciliary protein causing Leber congenit	97.14
PRK01156	895	chromosome segregation protein; Provisional	97.13
KOG0946	970	consensus ER-Golgi vesicle-tethering protein p115	97.1
PRK04778	569	septation ring formation regulator EzrA; Provision	97.09
PF08614	194	ATG16: Autophagy protein 16 (ATG16); InterPro: IPR	97.09
PRK01156	895	chromosome segregation protein; Provisional	97.06
PF10473	140	CENP-F_leu_zip: Leucine-rich repeats of kinetochor	97.02
KOG0994	1758	consensus Extracellular matrix glycoprotein Lamini	97.02
KOG0995	581	consensus Centromere-associated protein HEC1 [Cell	97.01
COG1340	294	Uncharacterized archaeal coiled-coil protein [Func	97.0
TIGR01000	457	bacteriocin_acc bacteriocin secretion accessory pr	96.95
PF10174	775	Cast: RIM-binding protein of the cytomatrix active	96.92
PRK11281	1113	hypothetical protein; Provisional	96.9
COG4372	499	Uncharacterized protein conserved in bacteria with	96.9
PF08317	325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	96.88
PF08614	194	ATG16: Autophagy protein 16 (ATG16); InterPro: IPR	96.86
COG1340	294	Uncharacterized archaeal coiled-coil protein [Func	96.85
PF05701	522	WEMBL: Weak chloroplast movement under blue light;	96.81
KOG1029	1118	consensus Endocytic adaptor protein intersectin [S	96.8
KOG4643	1195	consensus Uncharacterized coiled-coil protein [Fun	96.78
PRK10929	1109	putative mechanosensitive channel protein; Provisi	96.77
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	96.75
PF05911	769	DUF869: Plant protein of unknown function (DUF869)	96.74
PF09730	717	BicD: Microtubule-associated protein Bicaudal-D; I	96.74
KOG0980	980	consensus Actin-binding protein SLA2/Huntingtin-in	96.69
smart00787	312	Spc7 Spc7 kinetochore protein. This domain is foun	96.69
TIGR03007	498	pepcterm_ChnLen polysaccharide chain length determ	96.68
PF12795	240	MscS_porin: Mechanosensitive ion channel porin dom	96.66
KOG4643	1195	consensus Uncharacterized coiled-coil protein [Fun	96.64
KOG1003	205	consensus Actin filament-coating protein tropomyos	96.63
KOG0964	1200	consensus Structural maintenance of chromosome pro	96.61
PF04849	306	HAP1_N: HAP1 N-terminal conserved region; InterPro	96.61
KOG4674	1822	consensus Uncharacterized conserved coiled-coil pr	96.59
smart00787	312	Spc7 Spc7 kinetochore protein. This domain is foun	96.58
KOG4360	596	consensus Uncharacterized coiled coil protein [Fun	96.56
PF15070	617	GOLGA2L5: Putative golgin subfamily A member 2-lik	96.55
KOG0980	980	consensus Actin-binding protein SLA2/Huntingtin-in	96.55
KOG4673	961	consensus Transcription factor TMF, TATA element m	96.53
TIGR01005	754	eps_transp_fam exopolysaccharide transport protein	96.51
PF06008	264	Laminin_I: Laminin Domain I; InterPro: IPR009254 L	96.47
KOG0977	546	consensus Nuclear envelope protein lamin, intermed	96.45
TIGR01000	457	bacteriocin_acc bacteriocin secretion accessory pr	96.45
PF13870	177	DUF4201: Domain of unknown function (DUF4201)	96.45
KOG0964	1200	consensus Structural maintenance of chromosome pro	96.44
PF13851	201	GAS: Growth-arrest specific micro-tubule binding	96.44
PF11932	251	DUF3450: Protein of unknown function (DUF3450); In	96.43
PF04849	306	HAP1_N: HAP1 N-terminal conserved region; InterPro	96.41
PF05911	769	DUF869: Plant protein of unknown function (DUF869)	96.37
KOG0243	1041	consensus Kinesin-like protein [Cytoskeleton]	96.36
PF04012	221	PspA_IM30: PspA/IM30 family; InterPro: IPR007157 T	96.35
PF04111	314	APG6: Autophagy protein Apg6; InterPro: IPR007243	96.31
KOG0979	1072	consensus Structural maintenance of chromosome pro	96.29
PF04111	314	APG6: Autophagy protein Apg6; InterPro: IPR007243	96.28
PF05384	159	DegS: Sensor protein DegS; InterPro: IPR008595 Thi	96.26
COG5185	622	HEC1 Protein involved in chromosome segregation, i	96.23
KOG0976	1265	consensus Rho/Rac1-interacting serine/threonine ki	96.22
PF07926	132	TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro:	96.22
KOG0971	1243	consensus Microtubule-associated protein dynactin	96.21
TIGR03007	498	pepcterm_ChnLen polysaccharide chain length determ	96.2
TIGR02680	1353	conserved hypothetical protein TIGR02680. Members	96.13
PF05010	207	TACC: Transforming acidic coiled-coil-containing p	96.13
KOG0971	1243	consensus Microtubule-associated protein dynactin	96.11
PF10186	302	Atg14: UV radiation resistance protein and autopha	96.09
KOG4674	1822	consensus Uncharacterized conserved coiled-coil pr	96.07
KOG0994	1758	consensus Extracellular matrix glycoprotein Lamini	96.06
PRK11281	1113	hypothetical protein; Provisional	96.04
PF12325	120	TMF_TATA_bd: TATA element modulatory factor 1 TATA	95.97
KOG0963	629	consensus Transcription factor/CCAAT displacement	95.96
PRK10929	1109	putative mechanosensitive channel protein; Provisi	95.93
TIGR03017	444	EpsF chain length determinant protein EpsF. Sequen	95.9
PF04582	326	Reo_sigmaC: Reovirus sigma C capsid protein; Inter	95.89
PF15397	258	DUF4618: Domain of unknown function (DUF4618)	95.84
KOG0612	1317	consensus Rho-associated, coiled-coil containing p	95.83
KOG0977	546	consensus Nuclear envelope protein lamin, intermed	95.82
PF06160	560	EzrA: Septation ring formation regulator, EzrA ; I	95.81
PF09304	107	Cortex-I_coil: Cortexillin I, coiled coil; InterPr	95.81
KOG0612	1317	consensus Rho-associated, coiled-coil containing p	95.78
PF10186	302	Atg14: UV radiation resistance protein and autopha	95.78
KOG0963	629	consensus Transcription factor/CCAAT displacement	95.74
KOG0018	1141	consensus Structural maintenance of chromosome pro	95.73
PF12325	120	TMF_TATA_bd: TATA element modulatory factor 1 TATA	95.68
PF04582	326	Reo_sigmaC: Reovirus sigma C capsid protein; Inter	95.67
PRK10884	206	SH3 domain-containing protein; Provisional	95.67
KOG0976	1265	consensus Rho/Rac1-interacting serine/threonine ki	95.6
KOG0979	1072	consensus Structural maintenance of chromosome pro	95.59
PF09755	310	DUF2046: Uncharacterized conserved protein H4 (DUF	95.56
PF01576	859	Myosin_tail_1: Myosin tail; InterPro: IPR002928 Mu	95.5
KOG4360	596	consensus Uncharacterized coiled coil protein [Fun	95.48
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	95.48
PF01576	859	Myosin_tail_1: Myosin tail; InterPro: IPR002928 Mu	95.44
TIGR03185	650	DNA_S_dndD DNA sulfur modification protein DndD. T	95.42
PF00769	246	ERM: Ezrin/radixin/moesin family; InterPro: IPR011	95.36
COG5185	622	HEC1 Protein involved in chromosome segregation, i	95.35
PF12329	74	TMF_DNA_bd: TATA element modulatory factor 1 DNA b	95.34
PF10481	307	CENP-F_N: Cenp-F N-terminal domain; InterPro: IPR0	95.29
PF04012	221	PspA_IM30: PspA/IM30 family; InterPro: IPR007157 T	95.28
PRK10476	346	multidrug resistance protein MdtN; Provisional	95.27
KOG1003	205	consensus Actin filament-coating protein tropomyos	95.22
PF09789	319	DUF2353: Uncharacterized coiled-coil protein (DUF2	95.2
PF09730	717	BicD: Microtubule-associated protein Bicaudal-D; I	95.18
COG0419	908	SbcC ATPase involved in DNA repair [DNA replicatio	95.14
TIGR03185	650	DNA_S_dndD DNA sulfur modification protein DndD. T	95.13
PRK10884	206	SH3 domain-containing protein; Provisional	95.11
PF13870	177	DUF4201: Domain of unknown function (DUF4201)	95.11
COG2433	652	Uncharacterized conserved protein [Function unknow	95.07
PF07106	169	TBPIP: Tat binding protein 1(TBP-1)-interacting pr	95.07
PF00769	246	ERM: Ezrin/radixin/moesin family; InterPro: IPR011	94.96
PF10146	230	zf-C4H2: Zinc finger-containing protein ; InterPro	94.93
COG0419	908	SbcC ATPase involved in DNA repair [DNA replicatio	94.92
KOG0999	772	consensus Microtubule-associated protein Bicaudal-	94.84
TIGR02680	1353	conserved hypothetical protein TIGR02680. Members	94.81
KOG1899	861	consensus LAR transmembrane tyrosine phosphatase-i	94.8
PRK10361	475	DNA recombination protein RmuC; Provisional	94.79
PF14362	301	DUF4407: Domain of unknown function (DUF4407)	94.78
PF13166	712	AAA_13: AAA domain	94.78
KOG1853	333	consensus LIS1-interacting protein NUDE [Cytoskele	94.71
KOG0946	970	consensus ER-Golgi vesicle-tethering protein p115	94.66
PF06818	202	Fez1: Fez1; InterPro: IPR009638 This family repres	94.64
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	94.62
PF10146	230	zf-C4H2: Zinc finger-containing protein ; InterPro	94.61
TIGR03319	514	YmdA_YtgF conserved hypothetical protein YmdA/YtgF	94.56
PF05483	786	SCP-1: Synaptonemal complex protein 1 (SCP-1); Int	94.48
TIGR02977	219	phageshock_pspA phage shock protein A. Members of	94.41
PRK12704	520	phosphodiesterase; Provisional	94.38
TIGR00998	334	8a0101 efflux pump membrane protein (multidrug res	94.36
PF06818	202	Fez1: Fez1; InterPro: IPR009638 This family repres	94.35
TIGR02338	110	gimC_beta prefoldin, beta subunit, archaeal. Chape	94.34
PF07106	169	TBPIP: Tat binding protein 1(TBP-1)-interacting pr	94.32
PF06008	264	Laminin_I: Laminin Domain I; InterPro: IPR009254 L	94.29
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	94.24
KOG4809	654	consensus Rab6 GTPase-interacting protein involved	94.18
KOG4673	961	consensus Transcription factor TMF, TATA element m	94.13
PRK03947	140	prefoldin subunit alpha; Reviewed	94.12
COG1382	119	GimC Prefoldin, chaperonin cofactor [Posttranslati	94.1
PF11932	251	DUF3450: Protein of unknown function (DUF3450); In	94.03
TIGR00634	563	recN DNA repair protein RecN. All proteins in this	94.03
COG2433	652	Uncharacterized conserved protein [Function unknow	94.01
PF13166	712	AAA_13: AAA domain	94.01
TIGR03017	444	EpsF chain length determinant protein EpsF. Sequen	93.98
PF05622	713	HOOK: HOOK protein; InterPro: IPR008636 This famil	93.94
PF11559	151	ADIP: Afadin- and alpha -actinin-Binding; InterPro	93.9
TIGR01010	362	BexC_CtrB_KpsE polysaccharide export inner-membran	93.89
KOG0288	459	consensus WD40 repeat protein TipD [General functi	93.87
PF13514	1111	AAA_27: AAA domain	93.84
PF06785	401	UPF0242: Uncharacterised protein family (UPF0242);	93.84
PF14915	305	CCDC144C: CCDC144C protein coiled-coil region	93.81
PF05335	188	DUF745: Protein of unknown function (DUF745); Inte	93.78
PRK09343	121	prefoldin subunit beta; Provisional	93.77
COG4477	570	EzrA Negative regulator of septation ring formatio	93.68
PRK00106	535	hypothetical protein; Provisional	93.58
PF09755	310	DUF2046: Uncharacterized conserved protein H4 (DUF	93.45
PHA03332	1328	membrane glycoprotein; Provisional	93.21
KOG2991	330	consensus Splicing regulator [RNA processing and m	93.19
PF10481	307	CENP-F_N: Cenp-F N-terminal domain; InterPro: IPR0	93.18
PRK10698	222	phage shock protein PspA; Provisional	93.17
TIGR02971	327	heterocyst_DevB ABC exporter membrane fusion prote	93.14
PF01442	202	Apolipoprotein: Apolipoprotein A1/A4/E domain; Int	93.1
PF01442	202	Apolipoprotein: Apolipoprotein A1/A4/E domain; Int	93.09
PF10168	717	Nup88: Nuclear pore component; InterPro: IPR019321	93.07
PRK03947	140	prefoldin subunit alpha; Reviewed	93.06
PF13514	1111	AAA_27: AAA domain	93.05
PF11570	136	E2R135: Coiled-coil receptor-binding R-domain of c	93.03
PF10498	359	IFT57: Intra-flagellar transport protein 57 ; Inte	93.01
PF14073	178	Cep57_CLD: Centrosome localisation domain of Cep57	93.01
PF15254	861	CCDC14: Coiled-coil domain-containing protein 14	92.93
PF02994	370	Transposase_22: L1 transposable element; InterPro:	92.78
PRK15178	434	Vi polysaccharide export inner membrane protein Ve	92.69
KOG1937	521	consensus Uncharacterized conserved protein [Funct	92.62
PRK04406	75	hypothetical protein; Provisional	92.51
PF10498	359	IFT57: Intra-flagellar transport protein 57 ; Inte	92.47
PRK09841	726	cryptic autophosphorylating protein tyrosine kinas	92.23
PRK10869	553	recombination and repair protein; Provisional	92.19
TIGR03794	421	NHPM_micro_HlyD NHPM bacteriocin system secretion	92.14
PF05278	269	PEARLI-4: Arabidopsis phospholipase-like protein (	92.08
COG1842	225	PspA Phage shock protein A (IM30), suppresses sigm	92.04
COG3206	458	GumC Uncharacterized protein involved in exopolysa	92.0
PF05557	722	MAD: Mitotic checkpoint protein; InterPro: IPR0086	91.99
PF15450	531	DUF4631: Domain of unknown function (DUF4631)	91.96
TIGR02977	219	phageshock_pspA phage shock protein A. Members of	91.96
PF12761	195	End3: Actin cytoskeleton-regulatory complex protei	91.9
PF08647	96	BRE1: BRE1 E3 ubiquitin ligase; InterPro: IPR01395	91.9
PF04102	69	SlyX: SlyX; InterPro: IPR007236 The SlyX protein h	91.88
PRK02119	73	hypothetical protein; Provisional	91.88
KOG1962	216	consensus B-cell receptor-associated protein and r	91.86
PF15294	278	Leu_zip: Leucine zipper	91.86
PRK00106	535	hypothetical protein; Provisional	91.84
KOG4809	654	consensus Rab6 GTPase-interacting protein involved	91.77
COG1730	145	GIM5 Predicted prefoldin, molecular chaperone impl	91.75
COG1842	225	PspA Phage shock protein A (IM30), suppresses sigm	91.74
PRK09343	121	prefoldin subunit beta; Provisional	91.71
PF12329	74	TMF_DNA_bd: TATA element modulatory factor 1 DNA b	91.64
PF09728	309	Taxilin: Myosin-like coiled-coil protein; InterPro	91.54
PF05266	190	DUF724: Protein of unknown function (DUF724); Inte	91.46
TIGR02971	327	heterocyst_DevB ABC exporter membrane fusion prote	91.42
KOG0999	772	consensus Microtubule-associated protein Bicaudal-	91.33
KOG0239	670	consensus Kinesin (KAR3 subfamily) [Cytoskeleton]	91.33
PRK00295	68	hypothetical protein; Provisional	91.32
PRK02793	72	phi X174 lysis protein; Provisional	91.32
TIGR00634	563	recN DNA repair protein RecN. All proteins in this	91.21
PRK00736	68	hypothetical protein; Provisional	91.21
PF05483	786	SCP-1: Synaptonemal complex protein 1 (SCP-1); Int	91.06
PF05384	159	DegS: Sensor protein DegS; InterPro: IPR008595 Thi	91.04
PF05557	722	MAD: Mitotic checkpoint protein; InterPro: IPR0086	91.03
PRK10246	1047	exonuclease subunit SbcC; Provisional	91.01
PF15397	258	DUF4618: Domain of unknown function (DUF4618)	91.0
KOG2991	330	consensus Splicing regulator [RNA processing and m	90.9
PF12777	344	MT: Microtubule-binding stalk of dynein motor; Int	90.77
COG4026	290	Uncharacterized protein containing TOPRIM domain,	90.72
PRK04325	74	hypothetical protein; Provisional	90.68
PF11559	151	ADIP: Afadin- and alpha -actinin-Binding; InterPro	90.53
PRK00846	77	hypothetical protein; Provisional	90.53
cd00632	105	Prefoldin_beta Prefoldin beta; Prefoldin is a hexa	90.4
KOG4302	660	consensus Microtubule-associated protein essential	90.35
TIGR02231	525	conserved hypothetical protein. This family consis	90.26
COG4026	290	Uncharacterized protein containing TOPRIM domain,	90.24
PF10805	106	DUF2730: Protein of unknown function (DUF2730); In	90.22
cd00632	105	Prefoldin_beta Prefoldin beta; Prefoldin is a hexa	90.22
PF09787	511	Golgin_A5: Golgin subfamily A member 5; InterPro:	90.08
PF14915	305	CCDC144C: CCDC144C protein coiled-coil region	90.06
KOG1937	521	consensus Uncharacterized conserved protein [Funct	89.98
COG3096	1480	MukB Uncharacterized protein involved in chromosom	89.95
PRK11519	719	tyrosine kinase; Provisional	89.92
TIGR01010	362	BexC_CtrB_KpsE polysaccharide export inner-membran	89.91
KOG0962	1294	consensus DNA repair protein RAD50, ABC-type ATPas	89.89
COG3206	458	GumC Uncharacterized protein involved in exopolysa	89.85
PF15254	861	CCDC14: Coiled-coil domain-containing protein 14	89.84
PF08581	79	Tup_N: Tup N-terminal; InterPro: IPR013890 The N-t	89.5
PRK03598	331	putative efflux pump membrane fusion protein; Prov	89.41
KOG2264	907	consensus Exostosin EXT1L [Signal transduction mec	89.16
PF06785	401	UPF0242: Uncharacterised protein family (UPF0242);	89.03
PF13863	126	DUF4200: Domain of unknown function (DUF4200)	88.99
PF10211	189	Ax_dynein_light: Axonemal dynein light chain; Inte	88.87
PF05266	190	DUF724: Protein of unknown function (DUF724); Inte	88.8
KOG4603	201	consensus TBP-1 interacting protein [Signal transd	88.75
PF14197	69	Cep57_CLD_2: Centrosome localisation domain of PPC	88.7
PRK11519	719	tyrosine kinase; Provisional	88.69
TIGR03794	421	NHPM_micro_HlyD NHPM bacteriocin system secretion	88.56
PF03962	188	Mnd1: Mnd1 family; InterPro: IPR005647 This family	88.52
TIGR02338	110	gimC_beta prefoldin, beta subunit, archaeal. Chape	88.52
PF04108	412	APG17: Autophagy protein Apg17 ; InterPro: IPR0072	88.44
KOG1899	861	consensus LAR transmembrane tyrosine phosphatase-i	88.32
PF12072	201	DUF3552: Domain of unknown function (DUF3552); Int	88.32
PF15066	527	CAGE1: Cancer-associated gene protein 1 family	88.3
KOG0239	670	consensus Kinesin (KAR3 subfamily) [Cytoskeleton]	88.29
PF05335	188	DUF745: Protein of unknown function (DUF745); Inte	88.27
PF08172	248	CASP_C: CASP C terminal; InterPro: IPR012955 This	88.15
KOG0249	916	consensus LAR-interacting protein and related prot	88.15
PF03148	384	Tektin: Tektin family; InterPro: IPR000435 Tektin	88.08
PF02403	108	Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal dom	88.05
PF14282	106	FlxA: FlxA-like protein	88.02
PF10212	518	TTKRSYEDQ: Predicted coiled-coil domain-containing	87.59
TIGR03495	135	phage_LysB phage lysis regulatory protein, LysB fa	87.53
PF09787	511	Golgin_A5: Golgin subfamily A member 5; InterPro:	87.47
PF15290	305	Syntaphilin: Golgi-localised syntaxin-1-binding cl	87.45
PF05008	79	V-SNARE: Vesicle transport v-SNARE protein N-termi	87.32
PF04375	372	HemX: HemX; InterPro: IPR007470 The majority of pr	87.28
KOG2264	907	consensus Exostosin EXT1L [Signal transduction mec	87.2
COG0497	557	RecN ATPase involved in DNA repair [DNA replicatio	87.15
PF07111	739	HCR: Alpha helical coiled-coil rod protein (HCR);	87.13
PRK04406	75	hypothetical protein; Provisional	87.1
PRK15396	78	murein lipoprotein; Provisional	86.99
PF05010	207	TACC: Transforming acidic coiled-coil-containing p	86.9
PRK10246	1047	exonuclease subunit SbcC; Provisional	86.75
PF09403	126	FadA: Adhesion protein FadA; InterPro: IPR018543 F	86.64
PF14282	106	FlxA: FlxA-like protein	86.64
TIGR00998	334	8a0101 efflux pump membrane protein (multidrug res	86.6
KOG0288	459	consensus WD40 repeat protein TipD [General functi	86.55
PRK15422	79	septal ring assembly protein ZapB; Provisional	86.5
TIGR02231	525	conserved hypothetical protein. This family consis	86.48
PF02050	123	FliJ: Flagellar FliJ protein; InterPro: IPR012823	86.37
PRK10476	346	multidrug resistance protein MdtN; Provisional	86.31
PRK10869	553	recombination and repair protein; Provisional	86.27
PF10205	102	KLRAQ: Predicted coiled-coil domain-containing pro	86.17
PF07851	330	TMPIT: TMPIT-like protein; InterPro: IPR012926 A n	85.92
PF06248	593	Zw10: Centromere/kinetochore Zw10; InterPro: IPR00	85.83
COG3352	157	FlaC Putative archaeal flagellar protein C [Cell m	85.81
KOG4460	741	consensus Nuclear pore complex, Nup88/rNup84 compo	85.75
PF10212	518	TTKRSYEDQ: Predicted coiled-coil domain-containing	85.67
PF15450	531	DUF4631: Domain of unknown function (DUF4631)	85.67
PF11570	136	E2R135: Coiled-coil receptor-binding R-domain of c	85.67
TIGR00293	126	prefoldin, archaeal alpha subunit/eukaryotic subun	85.64
COG2900	72	SlyX Uncharacterized protein conserved in bacteria	85.46
PF07889	126	DUF1664: Protein of unknown function (DUF1664); In	85.45
PRK11546	143	zraP zinc resistance protein; Provisional	85.4
TIGR00293	126	prefoldin, archaeal alpha subunit/eukaryotic subun	85.25
KOG0982	502	consensus Centrosomal protein Nuf [Cell cycle cont	85.22
PF14197	69	Cep57_CLD_2: Centrosome localisation domain of PPC	85.19
COG4477	570	EzrA Negative regulator of septation ring formatio	85.04
PF14712	92	Snapin_Pallidin: Snapin/Pallidin	85.02
PF09486	158	HrpB7: Bacterial type III secretion protein (HrpB7	84.64
PLN03229	762	acetyl-coenzyme A carboxylase carboxyl transferase	84.62
PF14362	301	DUF4407: Domain of unknown function (DUF4407)	84.57
KOG2391	365	consensus Vacuolar sorting protein/ubiquitin recep	84.54
PF07851	330	TMPIT: TMPIT-like protein; InterPro: IPR012926 A n	84.43
KOG0249	916	consensus LAR-interacting protein and related prot	84.35
PF08702	146	Fib_alpha: Fibrinogen alpha/beta chain family; Int	84.33
PF05791	184	Bacillus_HBL: Bacillus haemolytic enterotoxin (HBL	84.3
PF06005	72	DUF904: Protein of unknown function (DUF904); Inte	84.28
PF06120	301	Phage_HK97_TLTM: Tail length tape measure protein;	84.09
PF07989	75	Microtub_assoc: Microtubule associated; InterPro:	84.01
PF04102	69	SlyX: SlyX; InterPro: IPR007236 The SlyX protein h	83.76
cd00890	129	Prefoldin Prefoldin is a hexameric molecular chape	83.73
PF01920	106	Prefoldin_2: Prefoldin subunit; InterPro: IPR00277	83.71
PRK02119	73	hypothetical protein; Provisional	83.62
KOG0998	847	consensus Synaptic vesicle protein EHS-1 and relat	83.54
PF15456	124	Uds1: Up-regulated During Septation	83.08
PF07989	75	Microtub_assoc: Microtubule associated; InterPro:	82.96
PF13747	89	DUF4164: Domain of unknown function (DUF4164)	82.85
PF03904	230	DUF334: Domain of unknown function (DUF334); Inter	82.77
PF06103	90	DUF948: Bacterial protein of unknown function (DUF	82.76
KOG2077	832	consensus JNK/SAPK-associated protein-1 [Signal tr	82.74
PF07058	351	Myosin_HC-like: Myosin II heavy chain-like; InterP	82.63
cd00890	129	Prefoldin Prefoldin is a hexameric molecular chape	82.53
COG3352	157	FlaC Putative archaeal flagellar protein C [Cell m	82.51
KOG2751	447	consensus Beclin-like protein [Signal transduction	82.51
PF06476	115	DUF1090: Protein of unknown function (DUF1090); In	82.36
PRK00409	782	recombination and DNA strand exchange inhibitor pr	82.28
PRK00295	68	hypothetical protein; Provisional	82.15
PF07798	177	DUF1640: Protein of unknown function (DUF1640); In	82.13
PF03148	384	Tektin: Tektin family; InterPro: IPR000435 Tektin	81.92
KOG4603	201	consensus TBP-1 interacting protein [Signal transd	81.92
PF09738	302	DUF2051: Double stranded RNA binding protein (DUF2	81.74
PRK00286	438	xseA exodeoxyribonuclease VII large subunit; Revie	81.74
PF06705	247	SF-assemblin: SF-assemblin/beta giardin	81.57
PF10205	102	KLRAQ: Predicted coiled-coil domain-containing pro	81.53
PF05529	192	Bap31: B-cell receptor-associated protein 31-like	81.33
KOG0982	502	consensus Centrosomal protein Nuf [Cell cycle cont	81.29
PRK04325	74	hypothetical protein; Provisional	81.28
PF02403	108	Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal dom	81.18
PRK14011	144	prefoldin subunit alpha; Provisional	80.97
PF09789	319	DUF2353: Uncharacterized coiled-coil protein (DUF2	80.44
PF10211	189	Ax_dynein_light: Axonemal dynein light chain; Inte	80.42
KOG4302	660	consensus Microtubule-associated protein essential	80.31
KOG2751	447	consensus Beclin-like protein [Signal transduction	80.27
PF02050	123	FliJ: Flagellar FliJ protein; InterPro: IPR012823	80.24
KOG1853	333	consensus LIS1-interacting protein NUDE [Cytoskele	80.11

>PRK11637 AmiB activator; Provisional

Probab=99.19  E-value=1.3e-08  Score=107.48  Aligned_cols=53  Identities=11%  Similarity=0.142  Sum_probs=28.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          140 EALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAK  192 (455)
Q Consensus       140 eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq  192 (455)
                      .+++.+..+++....+.+..++.|+....+++..+.+++...+.++..|.+++
T Consensus       201 ~e~~~~k~~L~~~k~e~~~~l~~L~~~~~~~~~~l~~l~~~~~~L~~~I~~l~  253 (428)
T PRK11637        201 YEQQAQQQKLEQARNERKKTLTGLESSLQKDQQQLSELRANESRLRDSIARAE  253 (428)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444445555555555555666666666666665555544

>PRK11637 AmiB activator; Provisional

Probab=98.79  E-value=1.5e-06  Score=91.82  Aligned_cols=79  Identities=18%  Similarity=0.316  Sum_probs=51.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhh
Q 012833          125 IDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELT  203 (455)
Q Consensus       125 Ie~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq~E~~~~a~ei~  203 (455)
                      ++.+.+..+.+...+.+++.++.+++....+++.+..+|+....+.+..+..++.+++..+.++..++.+...+...|.
T Consensus       172 l~~l~~~~~~L~~~k~~le~~~~~l~~~~~e~~~~k~~L~~~k~e~~~~l~~L~~~~~~~~~~l~~l~~~~~~L~~~I~  250 (428)
T PRK11637        172 IAELKQTREELAAQKAELEEKQSQQKTLLYEQQAQQQKLEQARNERKKTLTGLESSLQKDQQQLSELRANESRLRDSIA  250 (428)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444555555555555666666666777777777777777777777777777777777777666666666655554443

>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=98.66  E-value=8.5e-06  Score=80.85  Aligned_cols=151  Identities=19%  Similarity=0.253  Sum_probs=87.3

Q ss_pred             ccHHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh---------------
Q 012833           42 PLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLN---------------  106 (455)
Q Consensus        42 ~l~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~---------------  106 (455)
                      .+..+..++..+|+.|..+++++.+++++.+.++.+.+..|.+++++|.++.+.|.+.+.....-               
T Consensus        42 ~~~~~~~~~q~ei~~L~~qi~~~~~k~~~~~~~i~~~~~eik~l~~eI~~~~~~I~~r~~~l~~raRAmq~nG~~t~Yid  121 (265)
T COG3883          42 ELQKEKKNIQNEIESLDNQIEEIQSKIDELQKEIDQSKAEIKKLQKEIAELKENIVERQELLKKRARAMQVNGTATSYID  121 (265)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChhHHHH
Confidence            34555556667777777777777777777777777777777777777777777765544322110               


Q ss_pred             ---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          107 ---AAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKV  183 (455)
Q Consensus       107 ---~~eei~~Ae~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~  183 (455)
                         ..+.+.+.-.|+.-+..=++--++.++.+..+...|+.....++.+.+.+.....+++.....++.+..+++.-+..
T Consensus       122 vil~SkSfsD~IsRvtAi~~iv~aDk~ile~qk~dk~~Le~kq~~l~~~~e~l~al~~e~e~~~~~L~~qk~e~~~l~~~  201 (265)
T COG3883         122 VILNSKSFSDLISRVTAISVIVDADKKILEQQKEDKKSLEEKQAALEDKLETLVALQNELETQLNSLNSQKAEKNALIAA  201 (265)
T ss_pred             HHHccCcHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence               11134455556666666666667777777777776666655555555555554444444444444444444444444


Q ss_pred             HHHHHHHHH
Q 012833          184 AEEEMMRAK  192 (455)
Q Consensus       184 lEeeL~kaq  192 (455)
                      +......+.
T Consensus       202 ~aa~~a~~~  210 (265)
T COG3883         202 LAAKEASAL  210 (265)
T ss_pred             HHHHHHHhH
Confidence            433333333

>PRK09039 hypothetical protein; Validated

Probab=98.45  E-value=5.4e-05  Score=78.28  Aligned_cols=161  Identities=24%  Similarity=0.285  Sum_probs=85.2

Q ss_pred             hhhhHHHHHHHHHHHHhhhhccCCCCCCCccCccCCCCccHHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHH
Q 012833            4 SKLVIFSLFFALILTAADVSIQGEDVPPLTASDAVDSSPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQ   83 (455)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~   83 (455)
                      +-||+..+|++.||..+.+.                   +..+++..+.+|++++++|.++..-+.--......++..|.
T Consensus        24 ~~ll~~~~f~l~~f~~~q~f-------------------Ls~~i~~~~~eL~~L~~qIa~L~e~L~le~~~~~~l~~~l~   84 (343)
T PRK09039         24 STLLLVIMFLLTVFVVAQFF-------------------LSREISGKDSALDRLNSQIAELADLLSLERQGNQDLQDSVA   84 (343)
T ss_pred             HHHHHHHHHHHHHHHHHHHH-------------------HHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHH
Confidence            45666666665566553332                   33456666677777777777666555444445555555555


Q ss_pred             HHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           84 DKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKL  163 (455)
Q Consensus        84 e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeL  163 (455)
                      +....+..++..-+.++.-... ..+....++.++..+..++...+........++..|..+...++.++..++..++..
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 NLRASLSAAEAERSRLQALLAE-LAGAGAAAEGRAGELAQELDSEKQVSARALAQVELLNQQIAALRRQLAALEAALDAS  163 (343)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhh-hhhhcchHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5555555555444444432211 011122444555555555555555555555555555555555555555555555555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHH
Q 012833          164 QKINDEQKSKIRKTERALKVA  184 (455)
Q Consensus       164 ek~~eEqekkI~elE~~Lq~l  184 (455)
                      +....+++.+|++++.+|+.+
T Consensus       164 e~~~~~~~~~i~~L~~~L~~a  184 (343)
T PRK09039        164 EKRDRESQAKIADLGRRLNVA  184 (343)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            555555555555555554444

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

Probab=98.43  E-value=5.8e-05  Score=74.16  Aligned_cols=67  Identities=7%  Similarity=0.226  Sum_probs=53.2

Q ss_pred             ccHHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHH
Q 012833           42 PLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAA  108 (455)
Q Consensus        42 ~l~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~  108 (455)
                      .+.+.++..+..+.+++.+++.++..+.++..++.++++++...+..|.++..+++..+.+++.+++
T Consensus        21 rl~~~~~~~~~~l~k~~~e~e~~~~~~~~~~~e~e~le~qv~~~e~ei~~~r~r~~~~e~kl~~v~~   87 (239)
T COG1579          21 RLEPRIKEIRKALKKAKAELEALNKALEALEIELEDLENQVSQLESEIQEIRERIKRAEEKLSAVKD   87 (239)
T ss_pred             HHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            3456666677778888888888888888888888888888888888888888888888888766533

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

Probab=98.42  E-value=5.5e-05  Score=69.00  Aligned_cols=135  Identities=24%  Similarity=0.359  Sum_probs=71.6

Q ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHH
Q 012833           43 LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELE  122 (455)
Q Consensus        43 l~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eLe  122 (455)
                      ++.+.++...+...++.++..++++...++.+|.++...+..++.+|..++.++........     ...........|+
T Consensus         5 lk~E~d~a~~r~e~~e~~~K~le~~~~~~E~EI~sL~~K~~~lE~eld~~~~~l~~~k~~le-----e~~~~~~~~E~l~   79 (143)
T PF12718_consen    5 LKLEADNAQDRAEELEAKVKQLEQENEQKEQEITSLQKKNQQLEEELDKLEEQLKEAKEKLE-----ESEKRKSNAEQLN   79 (143)
T ss_pred             HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----hHHHHHHhHHHHH
Confidence            34444555555555555555555555555555555555555555555555555554433221     1122222333555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          123 KQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALK  182 (455)
Q Consensus       123 ~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq  182 (455)
                      ..|+-|+.+++.....+.....++.+++.....++.++..|+...+..+.+++++..++.
T Consensus        80 rriq~LEeele~ae~~L~e~~ekl~e~d~~ae~~eRkv~~le~~~~~~E~k~eel~~k~~  139 (143)
T PF12718_consen   80 RRIQLLEEELEEAEKKLKETTEKLREADVKAEHFERKVKALEQERDQWEEKYEELEEKYK  139 (143)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhhHHHHHHHHHHHHHHHH
Confidence            556666666666655555555555555555555555555555555555555555555444

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 [].

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

Probab=98.36  E-value=0.00013  Score=76.63  Aligned_cols=82  Identities=17%  Similarity=0.283  Sum_probs=61.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhh
Q 012833          123 KQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKEL  202 (455)
Q Consensus       123 ~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq~E~~~~a~ei  202 (455)
                      .+++.|.+.+..+......++++..++...+.+...+...+...+.+.++...+++..+..-+..++.+......+..+|
T Consensus       161 ~~i~~l~~~~~~l~~~~~~iaaeq~~l~~~~~eq~~q~~kl~~~~~E~kk~~~~l~~~l~~~q~~l~eL~~~~~~L~~~I  240 (420)
T COG4942         161 ERIDALKATLKQLAAVRAEIAAEQAELTTLLSEQRAQQAKLAQLLEERKKTLAQLNSELSADQKKLEELRANESRLKNEI  240 (420)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHH
Confidence            34666677777777777777777777777777777778888888888888888888888888877777777777776666


Q ss_pred             hh
Q 012833          203 TE  204 (455)
Q Consensus       203 ~~  204 (455)
                      +.
T Consensus       241 as  242 (420)
T COG4942         241 AS  242 (420)
T ss_pred             HH
Confidence            54

>TIGR02169 SMC_prok_A chromosome segregation protein SMC, primarily archaeal type

Probab=98.35  E-value=8.4e-05  Score=86.48  Aligned_cols=13  Identities=31%  Similarity=0.519  Sum_probs=4.8

Q ss_pred             HHHHHHHHHHHHH
Q 012833           45 IELDQLKSKIRSL   57 (455)
Q Consensus        45 ~eL~~lr~kI~~L   57 (455)
                      .++..++.++..+
T Consensus       294 ~~~~~~~~~~~~~  306 (1164)
T TIGR02169       294 EKIGELEAEIASL  306 (1164)
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. 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.

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

Probab=98.28  E-value=0.00015  Score=66.09  Aligned_cols=53  Identities=23%  Similarity=0.317  Sum_probs=26.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           47 LDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSL   99 (455)
Q Consensus        47 L~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sL   99 (455)
                      ++.++.+.+......++++.+++...+...+++..|..++..+..++.+|+.+
T Consensus         2 m~~lk~E~d~a~~r~e~~e~~~K~le~~~~~~E~EI~sL~~K~~~lE~eld~~   54 (143)
T PF12718_consen    2 MQALKLEADNAQDRAEELEAKVKQLEQENEQKEQEITSLQKKNQQLEEELDKL   54 (143)
T ss_pred             hHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34555555555555555555555544444444444444444444444444444

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 [].

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

Probab=98.21  E-value=0.00011  Score=71.97  Aligned_cols=149  Identities=23%  Similarity=0.357  Sum_probs=73.8

Q ss_pred             HHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           53 KIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKES  132 (455)
Q Consensus        53 kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eLe~qIe~LkkeL  132 (455)
                      |+..++.++++.+..+......++..+....+.+..+.+|+.+|..+......+ ++.+..+..++..++...+.....+
T Consensus         2 K~~~l~~eld~~~~~~~~~~~~l~~~~~~~~~aE~e~~~l~rri~~lE~~le~~-eerL~~~~~kL~~~e~~~de~er~~   80 (237)
T PF00261_consen    2 KIQQLKDELDEAEERLEEAEEKLKEAEKRAEKAEAEVASLQRRIQLLEEELERA-EERLEEATEKLEEAEKRADESERAR   80 (237)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHH-HCCCCHHHHHHHHHHHHHHHHCHHH
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH-HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455566666666666666666666666666666666666666666665544432 3334444444444444444444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhh
Q 012833          133 EKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKEL  202 (455)
Q Consensus       133 E~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq~E~~~~a~ei  202 (455)
                      ..+.......+.++..++.++.+.....++.....++...++..++..+..++.....++.....+..++
T Consensus        81 k~lE~r~~~~eeri~~lE~~l~ea~~~~ee~e~k~~E~~rkl~~~E~~Le~aEeR~e~~E~ki~eLE~el  150 (237)
T PF00261_consen   81 KVLENREQSDEERIEELEQQLKEAKRRAEEAERKYEEVERKLKVLEQELERAEERAEAAESKIKELEEEL  150 (237)
T ss_dssp             HHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhchhHHHHHHHH
Confidence            4444444444444444444444444444444444444444444444444444444444444444333333

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 ....

>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=98.15  E-value=0.0016  Score=64.85  Aligned_cols=156  Identities=17%  Similarity=0.234  Sum_probs=96.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHH-------
Q 012833           44 KIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHA-------  116 (455)
Q Consensus        44 ~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~-------  116 (455)
                      ..+|+++..+...++.+|+.+..+|++....+++++..|.+...+|..++.+|+.+...+..  .+++..-..       
T Consensus        37 ds~l~~~~~~~~~~q~ei~~L~~qi~~~~~k~~~~~~~i~~~~~eik~l~~eI~~~~~~I~~--r~~~l~~raRAmq~nG  114 (265)
T COG3883          37 DSKLSELQKEKKNIQNEIESLDNQIEEIQSKIDELQKEIDQSKAEIKKLQKEIAELKENIVE--RQELLKKRARAMQVNG  114 (265)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHcC
Confidence            34555555556666666666666666666666666666666666666666666555444332  111111111       


Q ss_pred             -------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          117 -------------RADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKV  183 (455)
Q Consensus       117 -------------~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~  183 (455)
                                   -++++=.++..+...++..+.-++.+......++..-..++.+++.|..-..+++.+...|+.+...
T Consensus       115 ~~t~Yidvil~SkSfsD~IsRvtAi~~iv~aDk~ile~qk~dk~~Le~kq~~l~~~~e~l~al~~e~e~~~~~L~~qk~e  194 (265)
T COG3883         115 TATSYIDVILNSKSFSDLISRVTAISVIVDADKKILEQQKEDKKSLEEKQAALEDKLETLVALQNELETQLNSLNSQKAE  194 (265)
T ss_pred             ChhHHHHHHHccCcHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                         2233334555566666666777777778888888888888888888888888888888888777777


Q ss_pred             HHHHHHHHHHHHhhhhHh
Q 012833          184 AEEEMMRAKFEATSRSKE  201 (455)
Q Consensus       184 lEeeL~kaq~E~~~~a~e  201 (455)
                      .+.-+..+..+......+
T Consensus       195 ~~~l~~~~aa~~a~~~~e  212 (265)
T COG3883         195 KNALIAALAAKEASALGE  212 (265)
T ss_pred             HHHHHHHHHHHHHHhHHH
Confidence            777777666655544333

>PRK02224 chromosome segregation protein; Provisional

Probab=98.12  E-value=0.0079  Score=69.00  Aligned_cols=138  Identities=22%  Similarity=0.387  Sum_probs=74.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHH
Q 012833           45 IELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQ  124 (455)
Q Consensus        45 ~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eLe~q  124 (455)
                      .-++.++..+..+...+.+++.++++....+..++..+. ....+..++..++.++..+.. ..+++.....++..++++
T Consensus       468 ~~~~~~~~~~~~~~~~~~~le~~l~~~~~~~e~l~~~~~-~~~~l~~l~~~~~~l~~~~~~-~~e~le~~~~~~~~l~~e  545 (880)
T PRK02224        468 ETIEEDRERVEELEAELEDLEEEVEEVEERLERAEDLVE-AEDRIERLEERREDLEELIAE-RRETIEEKRERAEELRER  545 (880)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHH-HHHHHHhHHHHHHHHHHH
Confidence            445566677777777777777777776666666555433 355566666666666554322 234555666666666666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          125 IDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAE  185 (455)
Q Consensus       125 Ie~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lE  185 (455)
                      +..|+..++........+++...++..++.++..++.+++..+..++ .+.++..++..++
T Consensus       546 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~le-~~~~~~~~i~~~~  605 (880)
T PRK02224        546 AAELEAEAEEKREAAAEAEEEAEEAREEVAELNSKLAELKERIESLE-RIRTLLAAIADAE  605 (880)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHH
Confidence            66666666555554444444444444444444444444444444333 2333333333333

>PHA02562 46 endonuclease subunit; Provisional

Probab=98.06  E-value=0.00053  Score=74.32  Aligned_cols=88  Identities=18%  Similarity=0.227  Sum_probs=36.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          111 VDKAHARADELEKQIDNLKKESE---KQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEE  187 (455)
Q Consensus       111 i~~Ae~~i~eLe~qIe~LkkeLE---~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEee  187 (455)
                      +..+++++.+++.++..+...+.   ....+...+..+..+++..+.+....++++......++..+.+++......+.+
T Consensus       301 ~~~l~d~i~~l~~~l~~l~~~i~~~~~~~~~~~~~~~~i~el~~~i~~~~~~i~~~~~~~~~l~~ei~~l~~~~~~~~~~  380 (562)
T PHA02562        301 ITKIKDKLKELQHSLEKLDTAIDELEEIMDEFNEQSKKLLELKNKISTNKQSLITLVDKAKKVKAAIEELQAEFVDNAEE  380 (562)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchHHH
Confidence            33444444444444444433333   222222233333444444444444444444444444444444444444444444


Q ss_pred             HHHHHHHHhhh
Q 012833          188 MMRAKFEATSR  198 (455)
Q Consensus       188 L~kaq~E~~~~  198 (455)
                      +.++..+....
T Consensus       381 l~~l~~~l~~~  391 (562)
T PHA02562        381 LAKLQDELDKI  391 (562)
T ss_pred             HHHHHHHHHHH
Confidence            44444444433

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

Probab=98.02  E-value=0.00069  Score=66.48  Aligned_cols=149  Identities=21%  Similarity=0.344  Sum_probs=68.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHH
Q 012833           47 LDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQID  126 (455)
Q Consensus        47 L~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eLe~qIe  126 (455)
                      +..++.+++..+.++......++.........+..+...+..|..+..++...+.....+ +.++..+.....+.+....
T Consensus         3 ~~~l~~eld~~~~~~~~~~~~l~~~~~~~~~aE~e~~~l~rri~~lE~~le~~eerL~~~-~~kL~~~e~~~de~er~~k   81 (237)
T PF00261_consen    3 IQQLKDELDEAEERLEEAEEKLKEAEKRAEKAEAEVASLQRRIQLLEEELERAEERLEEA-TEKLEEAEKRADESERARK   81 (237)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHCCCCHH-HHHHHHHHHHHHHHCHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHH-HHHHHHHHHHHHHHHHHHH
Confidence            444555555555555555555555555555555555555555555555555554444332 4444444444444444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 012833          127 NLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEAT  196 (455)
Q Consensus       127 ~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq~E~~  196 (455)
                      .|+.........+..++.++.++.....+...+.++....+...+..+...+.+...++..+..++.+..
T Consensus        82 ~lE~r~~~~eeri~~lE~~l~ea~~~~ee~e~k~~E~~rkl~~~E~~Le~aEeR~e~~E~ki~eLE~el~  151 (237)
T PF00261_consen   82 VLENREQSDEERIEELEQQLKEAKRRAEEAERKYEEVERKLKVLEQELERAEERAEAAESKIKELEEELK  151 (237)
T ss_dssp             HHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhchhHHHHHHHHH
Confidence            4444444444444444444444444333333333333333333333333333333333333333333333

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 ....

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

Probab=98.02  E-value=0.0017  Score=64.03  Aligned_cols=8  Identities=25%  Similarity=0.327  Sum_probs=2.9

Q ss_pred             HHHHHHHH
Q 012833          115 HARADELE  122 (455)
Q Consensus       115 e~~i~eLe  122 (455)
                      ++++..++
T Consensus        72 r~r~~~~e   79 (239)
T COG1579          72 RERIKRAE   79 (239)
T ss_pred             HHHHHHHH
Confidence            33333333

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

Probab=98.00  E-value=0.0023  Score=67.45  Aligned_cols=52  Identities=12%  Similarity=0.148  Sum_probs=25.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          141 ALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAK  192 (455)
Q Consensus       141 eLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq  192 (455)
                      ++.++...+...+.|-.+.+..++..+...++.+.++...-..+..+|.+++
T Consensus       193 eq~~q~~kl~~~~~E~kk~~~~l~~~l~~~q~~l~eL~~~~~~L~~~Ias~e  244 (420)
T COG4942         193 EQRAQQAKLAQLLEERKKTLAQLNSELSADQKKLEELRANESRLKNEIASAE  244 (420)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            3334444444444444455555555555555555555444444444444444

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

Probab=97.98  E-value=0.0022  Score=73.62  Aligned_cols=76  Identities=25%  Similarity=0.375  Sum_probs=31.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          110 QVDKAHARADELEKQIDNLKKESEKQQKEKEALEARA-IEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAE  185 (455)
Q Consensus       110 ei~~Ae~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~-~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lE  185 (455)
                      +..+++.++.+.++.+..+++.++.+++.+..++++. +++..++.+.+.+++.|+.+++.++..+..+..+++...
T Consensus       352 e~~~~~~~~~~~~n~i~~~k~~~d~l~k~I~~~~~~~~~~~~~~~~e~e~k~~~L~~evek~e~~~~~L~~e~~~~~  428 (1074)
T KOG0250|consen  352 EVNDLKEEIREIENSIRKLKKEVDRLEKQIADLEKQTNNELGSELEERENKLEQLKKEVEKLEEQINSLREELNEVK  428 (1074)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444445555555544444444444444443 333333333333333333333333333333333333333

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

Probab=97.98  E-value=0.0012  Score=78.23  Aligned_cols=11  Identities=9%  Similarity=0.247  Sum_probs=5.1

Q ss_pred             HHHHHHHHHHH
Q 012833          371 QVQASVQEMLK  381 (455)
Q Consensus       371 q~q~~~~~~l~  381 (455)
                      +++...+.+..
T Consensus      1021 ~F~~if~~L~~ 1031 (1163)
T COG1196        1021 NFSEIFKELFG 1031 (1163)
T ss_pred             HHHHHHHHhCC
Confidence            44544444433

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

Probab=97.98  E-value=0.0012  Score=78.37  Aligned_cols=11  Identities=27%  Similarity=0.465  Sum_probs=4.0

Q ss_pred             HHHHHHHHHHH
Q 012833           83 QDKSERIVSLQ   93 (455)
Q Consensus        83 ~e~e~~I~eLq   93 (455)
                      ...+..|..++
T Consensus       761 ~~~~~~l~~~~  771 (1163)
T COG1196         761 EELEEELESLE  771 (1163)
T ss_pred             HHHHHHHHHHH
Confidence            33333333333

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

Probab=97.94  E-value=0.0013  Score=75.52  Aligned_cols=93  Identities=19%  Similarity=0.345  Sum_probs=42.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          110 QVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKL-EKLQKINDEQKSKIRKTERALKVAEEEM  188 (455)
Q Consensus       110 ei~~Ae~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~Eleskv-eeLek~~eEqekkI~elE~~Lq~lEeeL  188 (455)
                      ++..+.+.+..+..+...++.++........++..+...+++.+.+++... ..++....+.+.++..++.++..++..+
T Consensus       338 Ei~~~r~~~~~~~re~~~~~~~~~~~~n~i~~~k~~~d~l~k~I~~~~~~~~~~~~~~~~e~e~k~~~L~~evek~e~~~  417 (1074)
T KOG0250|consen  338 EIEEARKDLDDLRREVNDLKEEIREIENSIRKLKKEVDRLEKQIADLEKQTNNELGSELEERENKLEQLKKEVEKLEEQI  417 (1074)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444444444444444444444444444444444444444444 4444444445555555555555555555


Q ss_pred             HHHHHHHhhhhHhh
Q 012833          189 MRAKFEATSRSKEL  202 (455)
Q Consensus       189 ~kaq~E~~~~a~ei  202 (455)
                      .++..+.+....++
T Consensus       418 ~~L~~e~~~~~~~~  431 (1074)
T KOG0250|consen  418 NSLREELNEVKEKA  431 (1074)
T ss_pred             HHHHHHHHHHHHHH
Confidence            55555444444433

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

Probab=97.87  E-value=0.012  Score=61.04  Aligned_cols=29  Identities=17%  Similarity=0.326  Sum_probs=18.9

Q ss_pred             CccHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 012833           41 SPLKIELDQLKSKIRSLESHIDEKTQELK   69 (455)
Q Consensus        41 ~~l~~eL~~lr~kI~~Leski~ele~eI~   69 (455)
                      ..+..++..++.++..++.++..++..++
T Consensus        77 ~~~~~~l~~l~~~~~~l~a~~~~l~~~~~  105 (423)
T TIGR01843        77 TDVEADAAELESQVLRLEAEVARLRAEAD  105 (423)
T ss_pred             chhhhHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            44566777777777777776665544443

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.

>PHA02562 46 endonuclease subunit; Provisional

Probab=97.87  E-value=0.0011  Score=71.96  Aligned_cols=20  Identities=25%  Similarity=0.476  Sum_probs=8.8

Q ss_pred             cHHHHHHHHHHHHHHHHHHH
Q 012833           43 LKIELDQLKSKIRSLESHID   62 (455)
Q Consensus        43 l~~eL~~lr~kI~~Leski~   62 (455)
                      +..+++.++.++..++.++.
T Consensus       179 ~~~~i~~l~~~i~~l~~~i~  198 (562)
T PHA02562        179 LNQQIQTLDMKIDHIQQQIK  198 (562)
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444443

>PRK02224 chromosome segregation protein; Provisional

Probab=97.84  E-value=0.0025  Score=73.09  Aligned_cols=27  Identities=19%  Similarity=0.348  Sum_probs=11.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhc
Q 012833           44 KIELDQLKSKIRSLESHIDEKTQELKG   70 (455)
Q Consensus        44 ~~eL~~lr~kI~~Leski~ele~eI~~   70 (455)
                      ...+.+++.++..++.+++.+++++..
T Consensus       205 ~~~l~~~~~~l~el~~~i~~~~~~~~~  231 (880)
T PRK02224        205 HERLNGLESELAELDEEIERYEEQREQ  231 (880)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444444444443333333

>PRK03918 chromosome segregation protein; Provisional

Probab=97.83  E-value=0.0027  Score=72.59  Aligned_cols=37  Identities=22%  Similarity=0.307  Sum_probs=15.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          151 KKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEE  187 (455)
Q Consensus       151 kkl~EleskveeLek~~eEqekkI~elE~~Lq~lEee  187 (455)
                      ..+.+++..+..+...++.++..+..++..++.++..
T Consensus       666 ~~~~~l~~~l~~l~~~~~~l~~~i~~l~~~i~~~~~~  702 (880)
T PRK03918        666 EEYLELSRELAGLRAELEELEKRREEIKKTLEKLKEE  702 (880)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333334444444444444444444444444444333

>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=97.79  E-value=0.012  Score=64.14  Aligned_cols=162  Identities=15%  Similarity=0.238  Sum_probs=85.7

Q ss_pred             ccHHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHH
Q 012833           42 PLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADEL  121 (455)
Q Consensus        42 ~l~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eL  121 (455)
                      .++.+++.+..+...|......++.+......++..++..+.........|..+...+......+ .++.+.+..+..++
T Consensus       140 ~lQ~qlE~~qkE~eeL~~~~~~Le~e~~~l~~~v~~l~~eL~~~~ee~e~L~~~~kel~~~~e~l-~~E~~~L~~q~~e~  218 (546)
T PF07888_consen  140 LLQNQLEECQKEKEELLKENEQLEEEVEQLREEVERLEAELEQEEEEMEQLKQQQKELTESSEEL-KEERESLKEQLAEA  218 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHH
Confidence            35666677667766676666666666666666666666666666666666666665554433332 33444444444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          122 EKQIDNLKKESEKQQKEKEALEARAIEA--------------EKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEE  187 (455)
Q Consensus       122 e~qIe~LkkeLE~~~~e~eeLEae~~el--------------Ekkl~EleskveeLek~~eEqekkI~elE~~Lq~lEee  187 (455)
                      ..+|..|+.++..+.....+.+.....+              ..++.+....+..........+...+.+..++..+++.
T Consensus       219 ~~ri~~LEedi~~l~qk~~E~e~~~~~lk~~~~elEq~~~eLk~rLk~~~~~~~~~~~~~~~~~~e~e~LkeqLr~~qe~  298 (546)
T PF07888_consen  219 RQRIRELEEDIKTLTQKEKEQEKELDKLKELKAELEQLEAELKQRLKETVVQLKQEETQAQQLQQENEALKEQLRSAQEQ  298 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHH
Confidence            4555555444444433332222222111              12222222222222222234455556666666666677


Q ss_pred             HHHHHHHHhhhhHhhhh
Q 012833          188 MMRAKFEATSRSKELTE  204 (455)
Q Consensus       188 L~kaq~E~~~~a~ei~~  204 (455)
                      +...+.+..-++.+++.
T Consensus       299 lqaSqq~~~~L~~EL~~  315 (546)
T PF07888_consen  299 LQASQQEAELLRKELSD  315 (546)
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            77666666666666644

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 [].

>KOG0161 consensus Myosin class II heavy chain [Cytoskeleton]

Probab=97.78  E-value=0.0037  Score=76.38  Aligned_cols=21  Identities=29%  Similarity=0.414  Sum_probs=8.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHH
Q 012833          113 KAHARADELEKQIDNLKKESE  133 (455)
Q Consensus       113 ~Ae~~i~eLe~qIe~LkkeLE  133 (455)
                      .+......++.++++++..++
T Consensus      1010 ~l~k~~~kle~~l~~le~~le 1030 (1930)
T KOG0161|consen 1010 SLNKAKAKLEQQLDDLEVTLE 1030 (1930)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            333333333344444433333

>PRK09039 hypothetical protein; Validated

Probab=97.77  E-value=0.004  Score=64.53  Aligned_cols=20  Identities=15%  Similarity=0.287  Sum_probs=8.4

Q ss_pred             HHHHHHHHHHHHHHHHhhhc
Q 012833           51 KSKIRSLESHIDEKTQELKG   70 (455)
Q Consensus        51 r~kI~~Leski~ele~eI~~   70 (455)
                      ..+|...++++++++.+|.+
T Consensus        45 s~~i~~~~~eL~~L~~qIa~   64 (343)
T PRK09039         45 SREISGKDSALDRLNSQIAE   64 (343)
T ss_pred             HHHHhhHHHHHHHHHHHHHH
Confidence            34444444444444444433

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

Probab=97.71  E-value=0.0033  Score=72.56  Aligned_cols=89  Identities=24%  Similarity=0.298  Sum_probs=48.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          110 QVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMM  189 (455)
Q Consensus       110 ei~~Ae~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~  189 (455)
                      ++.++.++++.++..|.++.-.+......+..+....++++..+...+.+++.|.......+....+++..+...++-+.
T Consensus       908 kv~~~~~~~~~l~~~i~k~~~~i~~s~~~i~k~q~~l~~le~~~~~~e~e~~~L~e~~~~~~~k~~E~~~~~~e~~~~~~  987 (1293)
T KOG0996|consen  908 KVEKINEQLDKLEADIAKLTVAIKTSDRNIAKAQKKLSELEREIEDTEKELDDLTEELKGLEEKAAELEKEYKEAEESLK  987 (1293)
T ss_pred             HHHHHHHHHHHHHHHHHHhHHHHhcCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHH
Confidence            45555555555555555554444444444445555556666666666665555555555555555555555555555555


Q ss_pred             HHHHHHhhh
Q 012833          190 RAKFEATSR  198 (455)
Q Consensus       190 kaq~E~~~~  198 (455)
                      .++.+....
T Consensus       988 E~k~~~~~~  996 (1293)
T KOG0996|consen  988 EIKKELRDL  996 (1293)
T ss_pred             HHHHHHHHH
Confidence            555544444

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

Probab=97.69  E-value=0.0078  Score=67.77  Aligned_cols=163  Identities=22%  Similarity=0.328  Sum_probs=96.3

Q ss_pred             CccHHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh----H---------
Q 012833           41 SPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLN----A---------  107 (455)
Q Consensus        41 ~~l~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~----~---------  107 (455)
                      -.++.+|++++.+.++|+.++..+.+....=.+.|..+|..+.+-...=..++.+|....+.-...    +         
T Consensus       456 r~lk~eL~qlr~ene~Lq~Kl~~L~~aRq~DKq~l~~LEkrL~eE~~~R~~lEkQL~eErk~r~~ee~~aar~~~~~~~~  535 (697)
T PF09726_consen  456 RSLKSELSQLRQENEQLQNKLQNLVQARQQDKQSLQQLEKRLAEERRQRASLEKQLQEERKARKEEEEKAARALAQAQAT  535 (697)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHhhhhccccchhc
Confidence            356677777777777777777777777666666677777777777776677777665554322110    0         


Q ss_pred             -HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHH-----------
Q 012833          108 -AEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKK-------ISDLSAKLEKLQKIND-----------  168 (455)
Q Consensus       108 -~eei~~Ae~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkk-------l~EleskveeLek~~e-----------  168 (455)
                       .+--+.+..+..+|+.++..|+.++...++.+..+|.+..++...       .+.+-.-+..++++..           
T Consensus       536 r~e~~e~~r~r~~~lE~E~~~lr~elk~kee~~~~~e~~~~~lr~~~~e~~~~~e~L~~aL~amqdk~~~LE~sLsaEtr  615 (697)
T PF09726_consen  536 RQECAESCRQRRRQLESELKKLRRELKQKEEQIRELESELQELRKYEKESEKDTEVLMSALSAMQDKNQHLENSLSAETR  615 (697)
T ss_pred             cchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHhhhHHHH
Confidence             011223566778888888888888888887777777776544432       2333333344444444           


Q ss_pred             ---HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhh
Q 012833          169 ---EQKSKIRKTERALKVAEEEMMRAKFEATSRSKELT  203 (455)
Q Consensus       169 ---EqekkI~elE~~Lq~lEeeL~kaq~E~~~~a~ei~  203 (455)
                         ++-..+.+..++++.++..+.+-..|..++..+|+
T Consensus       616 iKldLfsaLg~akrq~ei~~~~~~~~d~ei~~lk~ki~  653 (697)
T PF09726_consen  616 IKLDLFSALGDAKRQLEIAQGQLRKKDKEIEELKAKIA  653 (697)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence               33333445555555555555555555554444443

; GO: 0016021 integral to membrane

>PRK04863 mukB cell division protein MukB; Provisional

Probab=97.65  E-value=0.023  Score=68.88  Aligned_cols=35  Identities=14%  Similarity=0.148  Sum_probs=15.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 012833          162 KLQKINDEQKSKIRKTERALKVAEEEMMRAKFEAT  196 (455)
Q Consensus       162 eLek~~eEqekkI~elE~~Lq~lEeeL~kaq~E~~  196 (455)
                      +|+..++....++.+.+.++...+.++..++....
T Consensus       439 eLe~~LenF~aklee~e~qL~elE~kL~~lea~le  473 (1486)
T PRK04863        439 NAEDWLEEFQAKEQEATEELLSLEQKLSVAQAAHS  473 (1486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333334444444444444444444444444443

>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=97.64  E-value=0.017  Score=66.02  Aligned_cols=126  Identities=25%  Similarity=0.335  Sum_probs=59.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           77 QKEKAIQDKSERIVSLQKELSSLQKKETLNAA---EQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKI  153 (455)
Q Consensus        77 ~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~---eei~~Ae~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl  153 (455)
                      +.+..|.++...+..-+.+|..+++++.....   .+..+++++|..+..+++.-.++.+.-..+...+.-+..++++.+
T Consensus       752 e~~~~Ike~~~~~k~~~~~i~~lE~~~~d~~~~re~rlkdl~keik~~k~~~e~~~~~~ek~~~e~e~l~lE~e~l~~e~  831 (1174)
T KOG0933|consen  752 ESEQQIKEKERALKKCEDKISTLEKKMKDAKANRERRLKDLEKEIKTAKQRAEESSKELEKRENEYERLQLEHEELEKEI  831 (1174)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333334444444444444333211   123333333333333333333444444444444444555555555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhh
Q 012833          154 SDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKEL  202 (455)
Q Consensus       154 ~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq~E~~~~a~ei  202 (455)
                      ...++.+..++..++.+...+..+...+...+....+++.+.+......
T Consensus       832 ~~~k~~l~~~~~~~~~l~~e~~~l~~kv~~~~~~~~~~~~el~~~k~k~  880 (1174)
T KOG0933|consen  832 SSLKQQLEQLEKQISSLKSELGNLEAKVDKVEKDVKKAQAELKDQKAKQ  880 (1174)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhHHHHHHHHHHHHHHHH
Confidence            5555555555555556666666666666666666666666655443333

>TIGR00606 rad50 rad50

Probab=97.62  E-value=0.023  Score=68.33  Aligned_cols=33  Identities=9%  Similarity=0.050  Sum_probs=22.5

Q ss_pred             hhhcCcchHHHHHHHHHHHHHHcCccccchHHHHHhhhhhhHHHHHHh
Q 012833          229 WNAHGKPAMDVAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVV  276 (455)
Q Consensus       229 w~~~g~P~~~~~~~k~~~~~~~~~~w~~p~~~~~~~k~~p~~~~~w~~  276 (455)
                      -..++.-+=..+..=|+.+|+               .+..++.+-|..
T Consensus      1120 ~~~~~~~~~~~~~~~~~~~~~---------------~~n~~~~~~w~~ 1152 (1311)
T TIGR00606      1120 LDIYYKTLDQAIMKFHSMKME---------------EINKIIRDLWRS 1152 (1311)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH---------------HHHHHHHHHHHH
Confidence            333444455566677888888               677788898873

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

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

Probab=97.59  E-value=0.017  Score=66.88  Aligned_cols=82  Identities=21%  Similarity=0.242  Sum_probs=34.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          115 HARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFE  194 (455)
Q Consensus       115 e~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq~E  194 (455)
                      ++++..+..++.....++.-.+.++.-|..+.+..-+++.++++.+........+.+..+..++..|...+.++.....+
T Consensus       485 ekel~~~~~~~n~~~~e~~vaesel~~L~~~~~~~~~~~e~lk~~L~~~~~~~~e~~~~l~~~k~~l~~~k~e~~~~~k~  564 (1293)
T KOG0996|consen  485 EKELMPLLKQVNEARSELDVAESELDILLSRHETGLKKVEELKGKLLASSESLKEKKTELDDLKEELPSLKQELKEKEKE  564 (1293)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHh
Confidence            33333333333333333333333333444444444444444444444444444444444444444444444444444433


Q ss_pred             Hh
Q 012833          195 AT  196 (455)
Q Consensus       195 ~~  196 (455)
                      ..
T Consensus       565 l~  566 (1293)
T KOG0996|consen  565 LP  566 (1293)
T ss_pred             HH
Confidence            33

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

Probab=97.59  E-value=0.02  Score=62.44  Aligned_cols=103  Identities=15%  Similarity=0.237  Sum_probs=50.2

Q ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHH
Q 012833           43 LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELE  122 (455)
Q Consensus        43 l~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eLe  122 (455)
                      ..+.-.-++.++...+.+..++.+....+..+..++...+.+.+..+.....+...|+.+...        .......+.
T Consensus       134 V~~ka~~lQ~qlE~~qkE~eeL~~~~~~Le~e~~~l~~~v~~l~~eL~~~~ee~e~L~~~~ke--------l~~~~e~l~  205 (546)
T PF07888_consen  134 VTTKAQLLQNQLEECQKEKEELLKENEQLEEEVEQLREEVERLEAELEQEEEEMEQLKQQQKE--------LTESSEELK  205 (546)
T ss_pred             EehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHH
Confidence            334444456666666666666666555555555555555555555555555555555433322        222233333


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          123 KQIDNLKKESEKQQKEKEALEARAIEAEKKI  153 (455)
Q Consensus       123 ~qIe~LkkeLE~~~~e~eeLEae~~elEkkl  153 (455)
                      .+.+.|..+.+.....+..|+.....+..+.
T Consensus       206 ~E~~~L~~q~~e~~~ri~~LEedi~~l~qk~  236 (546)
T PF07888_consen  206 EERESLKEQLAEARQRIRELEEDIKTLTQKE  236 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444444444444444444444444444433

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 [].

>KOG0161 consensus Myosin class II heavy chain [Cytoskeleton]

Probab=97.56  E-value=0.012  Score=71.96  Aligned_cols=8  Identities=25%  Similarity=0.243  Sum_probs=3.0

Q ss_pred             hhhhHHHH
Q 012833          288 LKTKTIEA  295 (455)
Q Consensus       288 ~k~k~~p~  295 (455)
                      -+.+...+
T Consensus      1155 ~~k~e~e~ 1162 (1930)
T KOG0161|consen 1155 NKKREAEV 1162 (1930)
T ss_pred             HHHHHHHH
Confidence            33333333

>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=97.55  E-value=0.094  Score=60.30  Aligned_cols=129  Identities=22%  Similarity=0.363  Sum_probs=54.4

Q ss_pred             HHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHhhhhhhHHH-------------HHHHHH
Q 012833           53 KIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVS----LQKELSSLQKKETLNAAE-------------QVDKAH  115 (455)
Q Consensus        53 kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~e----Lq~eI~sLQkK~s~~~~e-------------ei~~Ae  115 (455)
                      .+..+.+.+.+.+++|++...-+++.+..|...++.+.+    -..++.++++++...+.+             ....+.
T Consensus       742 ~~~~~~e~v~e~~~~Ike~~~~~k~~~~~i~~lE~~~~d~~~~re~rlkdl~keik~~k~~~e~~~~~~ek~~~e~e~l~  821 (1174)
T KOG0933|consen  742 DLKELLEEVEESEQQIKEKERALKKCEDKISTLEKKMKDAKANRERRLKDLEKEIKTAKQRAEESSKELEKRENEYERLQ  821 (1174)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444455555555555555555555555444433322    223334444444333111             222223


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          116 ARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERAL  181 (455)
Q Consensus       116 ~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~L  181 (455)
                      -+..+++.++..++.+++.....+..+..+...++.++...+..+..++..+.++...+..+..++
T Consensus       822 lE~e~l~~e~~~~k~~l~~~~~~~~~l~~e~~~l~~kv~~~~~~~~~~~~el~~~k~k~~~~dt~i  887 (1174)
T KOG0933|consen  822 LEHEELEKEISSLKQQLEQLEKQISSLKSELGNLEAKVDKVEKDVKKAQAELKDQKAKQRDIDTEI  887 (1174)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhHHHHHHHHHHHHHHHHHhhhHHH
Confidence            333344444444444444444444444444444444444444444444444444444444433333

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

Probab=97.55  E-value=0.21  Score=59.87  Aligned_cols=34  Identities=9%  Similarity=0.253  Sum_probs=20.4

Q ss_pred             hhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          346 ALKPYTKKVVRAYGKFLKSATTYHHQVQASVQEM  379 (455)
Q Consensus       346 ~~~P~~~~v~~~~~~~~~~a~~~h~q~q~~~~~~  379 (455)
                      .+.=+...+...+..|+..-..+++.++...++.
T Consensus       982 ~l~e~~~~~~~~i~~f~~~l~~~~r~I~~~s~~l 1015 (1201)
T PF12128_consen  982 ALIEQGRNIGNDISNFYGVLEDFDRRIKSQSRRL 1015 (1201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            3444444555666667777777777776664443

>PF15619 Lebercilin: Ciliary protein causing Leber congenital amaurosis disease

Probab=97.54  E-value=0.057  Score=51.81  Aligned_cols=153  Identities=18%  Similarity=0.291  Sum_probs=71.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHH
Q 012833           45 IELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAI-------QDKSERIVSLQKELSSLQKKETLNAAEQVDKAHAR  117 (455)
Q Consensus        45 ~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I-------~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~  117 (455)
                      -+|..++++|..++.++.++..+-..+..--.--+..|       .+....|+...++|..|....... .+....++.+
T Consensus        12 ~ki~~L~n~l~elq~~l~~l~~ENk~Lk~lq~Rq~kAL~k~e~~e~~Lpqll~~h~eEvr~Lr~~LR~~-q~~~r~~~~k   90 (194)
T PF15619_consen   12 HKIKELQNELAELQRKLQELRKENKTLKQLQKRQEKALQKYEDTEAELPQLLQRHNEEVRVLRERLRKS-QEQERELERK   90 (194)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHH
Confidence            45556666666666666666555544443322222333       444445555555555554433322 3344444445


Q ss_pred             HHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHH
Q 012833          118 ADELEKQIDNLKKESEKQQK--------EKEALEARAIEAEKKISDLSAKLEKLQKIND----EQKSKIRKTERALKVAE  185 (455)
Q Consensus       118 i~eLe~qIe~LkkeLE~~~~--------e~eeLEae~~elEkkl~EleskveeLek~~e----EqekkI~elE~~Lq~lE  185 (455)
                      +.+.+.++.+++.++..+..        +.++|..++..++.++.+.+.++..|+..++    ....++..-......++
T Consensus        91 lk~~~~el~k~~~~l~~L~~L~~dknL~eReeL~~kL~~~~~~l~~~~~ki~~Lek~leL~~k~~~rql~~e~kK~~~~~  170 (194)
T PF15619_consen   91 LKDKDEELLKTKDELKHLKKLSEDKNLAEREELQRKLSQLEQKLQEKEKKIQELEKQLELENKSFRRQLASEKKKHKEAQ  170 (194)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHcCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHH
Confidence            55555555444444444332        1234555555555555555555555544443    23333333333444444


Q ss_pred             HHHHHHHHHHhhh
Q 012833          186 EEMMRAKFEATSR  198 (455)
Q Consensus       186 eeL~kaq~E~~~~  198 (455)
                      .++..++.+...+
T Consensus       171 ~~~~~l~~ei~~L  183 (194)
T PF15619_consen  171 EEVKSLQEEIQRL  183 (194)
T ss_pred             HHHHHHHHHHHHH
Confidence            4444444444433

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

Probab=97.51  E-value=0.017  Score=63.96  Aligned_cols=150  Identities=20%  Similarity=0.239  Sum_probs=69.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHH
Q 012833           44 KIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEK  123 (455)
Q Consensus        44 ~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eLe~  123 (455)
                      ..++++++.+|+.+..++.+++.+++.....+++++..+.+......+++.++.-.. +..    +-+.++++++..|+.
T Consensus       327 ~~el~~l~~~l~~l~~~i~~~~~~~~~l~~~~~q~~~e~~~~~~~~~~le~~~~l~~-k~~----~lL~d~e~ni~kL~~  401 (594)
T PF05667_consen  327 EQELEELQEQLDELESQIEELEAEIKMLKSSLKQLEEELEEKEAENEELEEELKLKK-KTV----ELLPDAEENIAKLQA  401 (594)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHH----HHhcCcHHHHHHHHH
Confidence            344444555555555555555555555544455444444444444444444443221 111    112344555555555


Q ss_pred             HHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 012833          124 QIDNLKKESEKQQKEKE----ALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSR  198 (455)
Q Consensus       124 qIe~LkkeLE~~~~e~e----eLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq~E~~~~  198 (455)
                      .++.-...+..+..+=+    .|..+...++........+....-..+.+....++++..+++.-++.+.++..+....
T Consensus       402 ~v~~s~~rl~~L~~qWe~~R~pL~~e~r~lk~~~~~~~~e~~~~~~~ik~~r~~~k~~~~e~~~Kee~~~qL~~e~e~~  480 (594)
T PF05667_consen  402 LVEASEQRLVELAQQWEKHRAPLIEEYRRLKEKASNRESESKQKLQEIKELREEIKEIEEEIRQKEELYKQLVKELEKL  480 (594)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            55555555554443333    2233333333333333333333444444555555555555555555555555544433

>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=97.47  E-value=0.044  Score=62.38  Aligned_cols=102  Identities=21%  Similarity=0.320  Sum_probs=52.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHH
Q 012833           44 KIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEK  123 (455)
Q Consensus        44 ~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eLe~  123 (455)
                      +..|+-++..+...+...+-+.++++.+...+..++..+.+++..|..++.+.+.++.++... .+..+..+.++..|..
T Consensus       321 r~hi~~lkesl~~ke~~~~~Lqsdve~Lr~rle~k~~~l~kk~~~~~~~qeE~~~~~~Ei~~l-~d~~d~~e~ki~~Lq~  399 (775)
T PF10174_consen  321 RQHIEVLKESLRAKEQEAEMLQSDVEALRFRLEEKNSQLEKKQAQIEKLQEEKSRLQGEIEDL-RDMLDKKERKINVLQK  399 (775)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHH
Confidence            334444444444445555555555555555555555555555555555555555555444432 3344445555555555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q 012833          124 QIDNLKKESEKQQKEKEALEARA  146 (455)
Q Consensus       124 qIe~LkkeLE~~~~e~eeLEae~  146 (455)
                      .|+.|...+.....++.....++
T Consensus       400 kie~Lee~l~ekd~ql~~~k~Rl  422 (775)
T PF10174_consen  400 KIENLEEQLREKDRQLDEEKERL  422 (775)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            55555555554444444444443

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 [].

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

Probab=97.47  E-value=0.11  Score=52.30  Aligned_cols=32  Identities=28%  Similarity=0.406  Sum_probs=13.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          146 AIEAEKKISDLSAKLEKLQKINDEQKSKIRKT  177 (455)
Q Consensus       146 ~~elEkkl~EleskveeLek~~eEqekkI~el  177 (455)
                      ..++...+..+..+++.+...+..++..+.++
T Consensus       218 ~~~~r~~~~~l~~el~~l~~~~~~Le~~l~~l  249 (312)
T PF00038_consen  218 LKELRRQIQSLQAELESLRAKNASLERQLREL  249 (312)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhhhhHhhhhhhccccchhhhhhhHHHH
Confidence            33333444444444444444444444444433

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 ....

>COG4372 Uncharacterized protein conserved in bacteria with the myosin-like domain [Function unknown]

Probab=97.45  E-value=0.21  Score=52.31  Aligned_cols=58  Identities=14%  Similarity=0.269  Sum_probs=31.8

Q ss_pred             cHHHHHHHHHHHHHHHHHHHHHHH-------hhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           43 LKIELDQLKSKIRSLESHIDEKTQ-------ELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQ  100 (455)
Q Consensus        43 l~~eL~~lr~kI~~Leski~ele~-------eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQ  100 (455)
                      +.++|..++-++...+.++.+.+.       ++....+|-+..+....+..+++..-+.++..++
T Consensus        79 i~~qlr~~rtel~~a~~~k~~~e~er~~~~~El~~~r~e~~~v~~~~~~a~~n~~kAqQ~lar~t  143 (499)
T COG4372          79 IRPQLRALRTELGTAQGEKRAAETEREAARSELQKARQEREAVRQELAAARQNLAKAQQELARLT  143 (499)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            456666666666655555555555       4544444555555555555555555555554443

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

Probab=97.43  E-value=0.52  Score=56.55  Aligned_cols=100  Identities=20%  Similarity=0.359  Sum_probs=55.8

Q ss_pred             CCCccHHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHhhhhhhHHHHH
Q 012833           39 DSSPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKEL-------SSLQKKETLNAAEQV  111 (455)
Q Consensus        39 ~~~~l~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI-------~sLQkK~s~~~~eei  111 (455)
                      +...+..++..+...|..+....+++++.+......++.....+.+....+.....++       ..++.+.....++..
T Consensus       601 ~ee~L~~~l~~~~~~l~~~~~~~~~~e~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~  680 (1201)
T PF12128_consen  601 SEEELRERLEQAEDQLQSAEERQEELEKQLKQINKKIEELKREITQAEQELKQAEQDLQRLKNEREQLKQEIEEAKEERK  680 (1201)
T ss_pred             ChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3345667777777776666666666666655555555555555555544444444444       444444444444455


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          112 DKAHARADELEKQIDNLKKESEKQQKE  138 (455)
Q Consensus       112 ~~Ae~~i~eLe~qIe~LkkeLE~~~~e  138 (455)
                      ..++.++..++.++..++++++.....
T Consensus       681 ~~~~~~l~~l~~~l~~~~~e~~~~~~~  707 (1201)
T PF12128_consen  681 EQIEEQLNELEEELKQLKQELEELLEE  707 (1201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            555556666666665555555554433

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

Probab=97.40  E-value=0.03  Score=62.02  Aligned_cols=155  Identities=15%  Similarity=0.201  Sum_probs=109.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHH
Q 012833           44 KIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEK  123 (455)
Q Consensus        44 ~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eLe~  123 (455)
                      ..+...-..++..|+.+++++..+|.....+++.+...+.+...++.....+...++.....     ...+-.=+.+.++
T Consensus       320 ~~~~~~~~~el~~l~~~l~~l~~~i~~~~~~~~~l~~~~~q~~~e~~~~~~~~~~le~~~~l-----~~k~~~lL~d~e~  394 (594)
T PF05667_consen  320 EDEQEEQEQELEELQEQLDELESQIEELEAEIKMLKSSLKQLEEELEEKEAENEELEEELKL-----KKKTVELLPDAEE  394 (594)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHhcCcHH
Confidence            44456678888999999999999999988888888888888888888888888777654332     1233334566678


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 012833          124 QIDNLKKESEKQQKEKEALEAR----AIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRS  199 (455)
Q Consensus       124 qIe~LkkeLE~~~~e~eeLEae----~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq~E~~~~a  199 (455)
                      .|..|+..++.-...+..|..+    ...+..++..+.........+.......+..+...++.+..++.........+.
T Consensus       395 ni~kL~~~v~~s~~rl~~L~~qWe~~R~pL~~e~r~lk~~~~~~~~e~~~~~~~ik~~r~~~k~~~~e~~~Kee~~~qL~  474 (594)
T PF05667_consen  395 NIAKLQALVEASEQRLVELAQQWEKHRAPLIEEYRRLKEKASNRESESKQKLQEIKELREEIKEIEEEIRQKEELYKQLV  474 (594)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            8999998888888887766555    444445555555555555555666667777777777777777777666666555


Q ss_pred             Hhhh
Q 012833          200 KELT  203 (455)
Q Consensus       200 ~ei~  203 (455)
                      .+..
T Consensus       475 ~e~e  478 (594)
T PF05667_consen  475 KELE  478 (594)
T ss_pred             HHHH
Confidence            5553

>KOG0243 consensus Kinesin-like protein [Cytoskeleton]

Probab=97.39  E-value=0.24  Score=57.53  Aligned_cols=68  Identities=9%  Similarity=0.177  Sum_probs=46.1

Q ss_pred             hhhhHHHHHHhhccchhHhHHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCcccccccc
Q 012833          324 FSKPYIDQVATVAKPHVDNVRVALKPYTKKVVRAYGKFLKSATTYHHQVQASVQEMLKKHELTSPLATKEL  394 (455)
Q Consensus       324 ~~~py~~qa~~~~~p~~~~~~~~~~P~~~~v~~~~~~~~~~a~~~h~q~q~~~~~~l~~~e~~~~~a~~el  394 (455)
                      ..+......++-+..-++.+.+-.-|+...+...+..++..+..+...+|+..+   .+-++++-+++.++
T Consensus       636 ~~q~~~~~~k~~~~s~l~~i~s~~~~~~~~~~~~l~~~~~~~~~~~~~i~~~l~---~q~~~~~l~~~qe~  703 (1041)
T KOG0243|consen  636 SLQQLQEVLKKDSESCLEVINSSITSSINELESMLETIANTADDLLQNISSRLS---NQQEILSLFANQEL  703 (1041)
T ss_pred             HHHHHHHHHhhhHHHHHHHHhccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHh---hhhhHHHHhhHHHH
Confidence            333444444455555566677777788888888899999999999888887777   44555555555443

>TIGR00606 rad50 rad50

Probab=97.34  E-value=0.7  Score=55.95  Aligned_cols=36  Identities=11%  Similarity=0.243  Sum_probs=17.0

Q ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHH
Q 012833           43 LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQK   78 (455)
Q Consensus        43 l~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~   78 (455)
                      +..+++.++.++..+...++.+..+...+..+|..+
T Consensus       827 le~ei~~~~~el~~l~~~~e~l~~e~e~~~~eI~~L  862 (1311)
T TIGR00606       827 VNQEKQEKQHELDTVVSKIELNRKLIQDQQEQIQHL  862 (1311)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455555555555555444444444444444444444

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=97.33  E-value=0.14  Score=51.74  Aligned_cols=40  Identities=23%  Similarity=0.308  Sum_probs=21.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          146 AIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAE  185 (455)
Q Consensus       146 ~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lE  185 (455)
                      +..+...+.++...++.++..++.++.....++..+..++
T Consensus       211 ~~~~~~E~~~~r~~~~~l~~el~~l~~~~~~Le~~l~~le  250 (312)
T PF00038_consen  211 LESAKEELKELRRQIQSLQAELESLRAKNASLERQLRELE  250 (312)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cchhHhHHHHHHhhhhHhhhhhhccccchhhhhhhHHHHH
Confidence            3344445555555555555555555555555555555544

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 ....

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

Probab=97.31  E-value=0.39  Score=52.50  Aligned_cols=151  Identities=20%  Similarity=0.294  Sum_probs=82.8

Q ss_pred             cHHHHHHHHHHHHHHHHHHHHHH---HhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHH
Q 012833           43 LKIELDQLKSKIRSLESHIDEKT---QELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARAD  119 (455)
Q Consensus        43 l~~eL~~lr~kI~~Leski~ele---~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~  119 (455)
                      ...+++.++..-..|..+|++++   +.++...+..+.+.+.++....-...+.++-..+.+++... .+++..-++++.
T Consensus       233 i~~~ie~l~~~n~~l~e~i~e~ek~~~~~eslre~~~~L~~D~nK~~~y~~~~~~k~~~~~~~l~~l-~~Eie~kEeE~e  311 (581)
T KOG0995|consen  233 IANEIEDLKKTNRELEEMINEREKDPGKEESLREKKARLQDDVNKFQAYVSQMKSKKQHMEKKLEML-KSEIEEKEEEIE  311 (581)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhcCcchHHHHHHHHHHHHhHHHHHHHHHHHHHhhhHHHHHHHHHH-HHHHHHHHHHHH
Confidence            44566666666666666666543   23444444444455555555544444444444444444433 334444455555


Q ss_pred             HHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHH
Q 012833          120 ELEKQIDNLKKESEKQ---QKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKT----ERALKVAEEEMMRAK  192 (455)
Q Consensus       120 eLe~qIe~LkkeLE~~---~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~el----E~~Lq~lEeeL~kaq  192 (455)
                      .+..++++|++.++.+   -++.+....+.+.+...++.++.+++.+.+.+-+++.+++..    +..+..+...+.++.
T Consensus       312 ~lq~~~d~Lk~~Ie~Q~iS~~dve~mn~Er~~l~r~l~~i~~~~d~l~k~vw~~~l~~~~~f~~le~~~~~~~~l~~~i~  391 (581)
T KOG0995|consen  312 KLQKENDELKKQIELQGISGEDVERMNLERNKLKRELNKIQSELDRLSKEVWELKLEIEDFFKELEKKFIDLNSLIRRIK  391 (581)
T ss_pred             HHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5666666666666555   234446666677777777777777777777766655544443    333344444444444


Q ss_pred             HH
Q 012833          193 FE  194 (455)
Q Consensus       193 ~E  194 (455)
                      .-
T Consensus       392 l~  393 (581)
T KOG0995|consen  392 LG  393 (581)
T ss_pred             HH
Confidence            33

>PRK04778 septation ring formation regulator EzrA; Provisional

Probab=97.28  E-value=0.43  Score=52.74  Aligned_cols=57  Identities=14%  Similarity=0.211  Sum_probs=26.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhh
Q 012833          146 AIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKEL  202 (455)
Q Consensus       146 ~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq~E~~~~a~ei  202 (455)
                      .++++..+.++..+++.++....+....+..+......+...+.+.+.......+.+
T Consensus       378 ysel~e~leel~e~leeie~eq~ei~e~l~~Lrk~E~eAr~kL~~~~~~L~~ikr~l  434 (569)
T PRK04778        378 YSELQEELEEILKQLEEIEKEQEKLSEMLQGLRKDELEAREKLERYRNKLHEIKRYL  434 (569)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444444444444444444444444444444444444443333

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

Probab=97.27  E-value=0.033  Score=62.83  Aligned_cols=98  Identities=14%  Similarity=0.254  Sum_probs=57.3

Q ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHH
Q 012833           43 LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELE  122 (455)
Q Consensus        43 l~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eLe  122 (455)
                      +..++..|+.+|...+..=+|+.++|...+..=..+...|.++..+...|+.++..|......+ ...+..+|.++.+..
T Consensus       423 LE~dvkkLraeLq~~Rq~E~ELRsqis~l~~~Er~lk~eL~qlr~ene~Lq~Kl~~L~~aRq~D-Kq~l~~LEkrL~eE~  501 (697)
T PF09726_consen  423 LEADVKKLRAELQSSRQSEQELRSQISSLTNNERSLKSELSQLRQENEQLQNKLQNLVQARQQD-KQSLQQLEKRLAEER  501 (697)
T ss_pred             HHHHHHHHHHHHHhhhhhHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHH
Confidence            3444555555555555555555555554444434445555555555556666665554332222 335567888888888


Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q 012833          123 KQIDNLKKESEKQQKEKEA  141 (455)
Q Consensus       123 ~qIe~LkkeLE~~~~e~ee  141 (455)
                      .+...++++|...++.+.+
T Consensus       502 ~~R~~lEkQL~eErk~r~~  520 (697)
T PF09726_consen  502 RQRASLEKQLQEERKARKE  520 (697)
T ss_pred             HHHHHHHHHHHHHHHHHhH
Confidence            8888888888777655543

; GO: 0016021 integral to membrane

>PRK04863 mukB cell division protein MukB; Provisional

Probab=97.26  E-value=0.055  Score=65.66  Aligned_cols=9  Identities=22%  Similarity=0.335  Sum_probs=4.3

Q ss_pred             hchhHHHHh
Q 012833          314 VDPYFQEAK  322 (455)
Q Consensus       314 ~~Py~~e~k  322 (455)
                      ..|-|..+.
T Consensus       601 ~ap~W~~a~  609 (1486)
T PRK04863        601 RAPAWLAAQ  609 (1486)
T ss_pred             hChHHHhhH
Confidence            445555443

>PF12795 MscS_porin: Mechanosensitive ion channel porin domain

Probab=97.26  E-value=0.15  Score=50.07  Aligned_cols=123  Identities=10%  Similarity=0.150  Sum_probs=58.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHH
Q 012833           76 AQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQ---------QKEKEALEARA  146 (455)
Q Consensus        76 k~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eLe~qIe~LkkeLE~~---------~~e~eeLEae~  146 (455)
                      .+++..|.+....+.+++..+...+..+... ......+...+.++..+++.+...+...         ......++.+.
T Consensus        81 ~eLeq~l~~~~~~L~~~q~~l~~~~~~l~~~-~~~p~~aq~~l~~~~~~l~ei~~~L~~~~~~~~~~l~~a~~~~l~ae~  159 (240)
T PF12795_consen   81 EELEQRLSQEQAQLQELQEQLQQENSQLIEI-QTRPERAQQQLSEARQRLQEIRNQLQNLPPNGESPLSEAQRWLLQAEL  159 (240)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HccHHHHHHHHHHHHHHHHHHHHHHhccCCCCcchhhHHHHHHHHHHH
Confidence            3444444444444444444444444433332 2334444445555555555444444432         33333555555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 012833          147 IEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRS  199 (455)
Q Consensus       147 ~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq~E~~~~a  199 (455)
                      .-+..++..++..+.......+=.+.+.+-+..+++.++..+..++...+.+.
T Consensus       160 ~~l~~~~~~le~el~s~~~rq~L~~~qrdl~~~~~~~l~~~l~~Lq~~ln~~R  212 (240)
T PF12795_consen  160 AALEAQIEMLEQELLSNNNRQELLQLQRDLLKARIQRLQQQLQALQNLLNQKR  212 (240)
T ss_pred             HHHHHHHHHHHHHHHCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55555555555555444444444444444455555555555555444444443

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

Probab=97.25  E-value=0.055  Score=55.60  Aligned_cols=73  Identities=23%  Similarity=0.374  Sum_probs=31.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHhh
Q 012833          125 IDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVA----EEEMMRAKFEATS  197 (455)
Q Consensus       125 Ie~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~l----EeeL~kaq~E~~~  197 (455)
                      +..++.++.....+++....++.+++.+++.++..++.+...+.++..+|.++++.....    ..++.+++.+...
T Consensus       211 L~~lr~eL~~~~~~i~~~k~~l~el~~el~~l~~~i~~~~~~k~~l~~eI~e~~~~~~~~r~~t~~Ev~~Lk~~~~~  287 (325)
T PF08317_consen  211 LEALRQELAEQKEEIEAKKKELAELQEELEELEEKIEELEEQKQELLAEIAEAEKIREECRGWTRSEVKRLKAKVDA  287 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHH
Confidence            333333333333344444444444444444444444444444444444444444443322    2445555554443

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

Probab=97.24  E-value=0.041  Score=57.09  Aligned_cols=24  Identities=13%  Similarity=0.201  Sum_probs=11.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          172 SKIRKTERALKVAEEEMMRAKFEA  195 (455)
Q Consensus       172 kkI~elE~~Lq~lEeeL~kaq~E~  195 (455)
                      ..+.+++.++..++..+..++...
T Consensus       246 ~~l~~~~~~l~~~~~~l~~~~~~l  269 (423)
T TIGR01843       246 EELTEAQARLAELRERLNKARDRL  269 (423)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444555555555554444433

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.

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

Probab=97.23  E-value=0.029  Score=62.66  Aligned_cols=64  Identities=20%  Similarity=0.258  Sum_probs=37.0

Q ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 012833           43 LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLN  106 (455)
Q Consensus        43 l~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~  106 (455)
                      +..+|..|+-++.+|..++.++.-.|.+...+|......++-.-.+|..|+.+|..+|.++..+
T Consensus       442 l~~eletLn~k~qqls~kl~Dvr~~~tt~kt~ie~~~~q~e~~isei~qlqarikE~q~kl~~l  505 (1118)
T KOG1029|consen  442 LQQELETLNFKLQQLSGKLQDVRVDITTQKTEIEEVTKQRELMISEIDQLQARIKELQEKLQKL  505 (1118)
T ss_pred             HHHHHHHHHHHHHHHhhhhhhheeccchHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            3445555555555555555555555555666666666665555566666666666666555443

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

Probab=97.19  E-value=0.59  Score=52.27  Aligned_cols=130  Identities=18%  Similarity=0.337  Sum_probs=79.6

Q ss_pred             HHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhH-HHHHHHHHHHHHHHHHHHHHH
Q 012833           50 LKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNA-AEQVDKAHARADELEKQIDNL  128 (455)
Q Consensus        50 lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~-~eei~~Ae~~i~eLe~qIe~L  128 (455)
                      ++.+...++.++..+..++..+.++....-..|.+++..|.+|.+++........... .+....++.++..|..+++.|
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            5555566666777777777777777777777777777777777766654432211111 122235667777777777777


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          129 KKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTER  179 (455)
Q Consensus       129 kkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~  179 (455)
                      ..++..+..+...|..-..+.+.++.+++..++.++....+..+.+..++.
T Consensus       100 ~~qlqaqv~~ne~Ls~L~~EqEerL~ELE~~le~~~e~~~D~~kLLe~lqs  150 (617)
T PF15070_consen  100 EEQLQAQVENNEQLSRLNQEQEERLAELEEELERLQEQQEDRQKLLEQLQS  150 (617)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence            777777666666555555566666666666666666555555554444443

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

Probab=97.19  E-value=0.06  Score=58.89  Aligned_cols=38  Identities=32%  Similarity=0.515  Sum_probs=17.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          110 QVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAI  147 (455)
Q Consensus       110 ei~~Ae~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~  147 (455)
                      .+..+++.+..+...++.|+.+++..+.++..+..+..
T Consensus       296 ~L~~~k~E~~~L~~~vesL~~ELe~~K~el~~lke~e~  333 (522)
T PF05701_consen  296 ELEKAKEEASSLRASVESLRSELEKEKEELERLKEREK  333 (522)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444444444444444444444433

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

>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=97.17  E-value=0.069  Score=47.89  Aligned_cols=121  Identities=24%  Similarity=0.415  Sum_probs=54.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHH
Q 012833           46 ELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQI  125 (455)
Q Consensus        46 eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eLe~qI  125 (455)
                      ++..+..++..+...+.....++.....++...-....+......   .++   .+-..  ..+.+..+++++..++.++
T Consensus         4 e~~~l~~e~~~~~~~~~~~~~~~~~~~~dl~~q~~~a~~Aq~~YE---~El---~~Ha~--~~~~L~~lr~e~~~~~~~~   75 (132)
T PF07926_consen    4 ELSSLQSELQRLKEQEEDAEEQLQSLREDLESQAKIAQEAQQKYE---REL---VKHAE--DIKELQQLREELQELQQEI   75 (132)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHH---HHhHH--HHHHHHHHHHHHHHHHHHH
Confidence            444555555555555555444444444444433333333333211   111   11111  1234444555555555555


Q ss_pred             HHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          126 DNLKKESEKQQKEKE----ALEARAIEAEKKISDLSAKLEKLQKINDEQKSKI  174 (455)
Q Consensus       126 e~LkkeLE~~~~e~e----eLEae~~elEkkl~EleskveeLek~~eEqekkI  174 (455)
                      ..|+.+.+.....+.    .++.+...+++.+.+++.++++|...+.-+-.+|
T Consensus        76 ~~l~~~~~~a~~~l~~~e~sw~~qk~~le~e~~~~~~r~~dL~~QN~lLh~Ql  128 (132)
T PF07926_consen   76 NELKAEAESAKAELEESEASWEEQKEQLEKELSELEQRIEDLNEQNKLLHDQL  128 (132)
T ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            555555554444433    4445555555555555555555555544443333

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

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

Probab=97.16  E-value=0.16  Score=48.93  Aligned_cols=103  Identities=22%  Similarity=0.339  Sum_probs=63.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHH
Q 012833           47 LDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQID  126 (455)
Q Consensus        47 L~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eLe~qIe  126 (455)
                      |..++.+|.++..+....+..+.+...+...+-.-+.....++.+|+.++...++.-     .....++.++..++.++.
T Consensus        29 IksLKeei~emkk~e~~~~k~m~ei~~eN~~L~epL~~a~~e~~eL~k~L~~y~kdK-----~~L~~~k~rl~~~ek~l~  103 (201)
T PF13851_consen   29 IKSLKEEIAEMKKKEERNEKLMAEISQENKRLSEPLKKAEEEVEELRKQLKNYEKDK-----QSLQNLKARLKELEKELK  103 (201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHH
Confidence            444556666666665555555666666666666666666666666666666554321     133456667777777777


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          127 NLKKESEKQQKEKEALEARAIEAEKKIS  154 (455)
Q Consensus       127 ~LkkeLE~~~~e~eeLEae~~elEkkl~  154 (455)
                      .|+-+-+.+......++.+..++..+..
T Consensus       104 ~Lk~e~evL~qr~~kle~ErdeL~~kf~  131 (201)
T PF13851_consen  104 DLKWEHEVLEQRFEKLEQERDELYRKFE  131 (201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            7777777777777766666666655444

>PF15619 Lebercilin: Ciliary protein causing Leber congenital amaurosis disease

Probab=97.14  E-value=0.24  Score=47.53  Aligned_cols=63  Identities=27%  Similarity=0.346  Sum_probs=26.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 012833          134 KQQKEKEALEARAIEAEKKISDLSAKLEKLQ----KINDEQKSKIRKTERALKVAEEEMMRAKFEAT  196 (455)
Q Consensus       134 ~~~~e~eeLEae~~elEkkl~EleskveeLe----k~~eEqekkI~elE~~Lq~lEeeL~kaq~E~~  196 (455)
                      .+...++.++.++.+.+.++..++.+++-.+    ..+..-..+..++...++.++.++..+.....
T Consensus       122 eL~~kL~~~~~~l~~~~~ki~~Lek~leL~~k~~~rql~~e~kK~~~~~~~~~~l~~ei~~L~~klk  188 (194)
T PF15619_consen  122 ELQRKLSQLEQKLQEKEKKIQELEKQLELENKSFRRQLASEKKKHKEAQEEVKSLQEEIQRLNQKLK  188 (194)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444444444444444444444332222    22223334444444444444444444444433

>PRK01156 chromosome segregation protein; Provisional

Probab=97.13  E-value=0.049  Score=62.85  Aligned_cols=41  Identities=10%  Similarity=0.127  Sum_probs=16.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          147 IEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEE  187 (455)
Q Consensus       147 ~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEee  187 (455)
                      ..++.....++..++.+...++.+...+.++..++..++.+
T Consensus       677 ~~~~~~~~~l~~~l~~l~~~~~~l~~~i~~l~~~~~~l~ee  717 (895)
T PRK01156        677 NDIEDNLKKSRKALDDAKANRARLESTIEILRTRINELSDR  717 (895)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHH
Confidence            33333444444444444444444444444444433333333

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

Probab=97.10  E-value=0.12  Score=58.31  Aligned_cols=93  Identities=19%  Similarity=0.261  Sum_probs=46.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHH
Q 012833          107 AAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAK------LEKLQKINDEQKSKIRKTERA  180 (455)
Q Consensus       107 ~~eei~~Ae~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~Elesk------veeLek~~eEqekkI~elE~~  180 (455)
                      +.+++..+..+...+..+...+.+++++.+..+..+.+...+.+.....+...      +-++.....+...++++++.+
T Consensus       735 ~~eel~a~~~e~k~l~~~q~~l~~~L~k~~~~~es~k~~~~~a~~~~~~~~~~~~~qeqv~El~~~l~e~~~~l~~~q~e  814 (970)
T KOG0946|consen  735 QNEELNAALSENKKLENDQELLTKELNKKNADIESFKATQRSAELSQGSLNDNLGDQEQVIELLKNLSEESTRLQELQSE  814 (970)
T ss_pred             ChHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhhcccchhhhhhhhHHHHHHHHHhhhhhhhHHHHHHHH
Confidence            34455666666666666666777777666666666665555443322222222      222222233444444444444


Q ss_pred             HHHHHHHHHHHHHHHhhhh
Q 012833          181 LKVAEEEMMRAKFEATSRS  199 (455)
Q Consensus       181 Lq~lEeeL~kaq~E~~~~a  199 (455)
                      +..++++++.+-.+....+
T Consensus       815 ~~~~keq~~t~~~~tsa~a  833 (970)
T KOG0946|consen  815 LTQLKEQIQTLLERTSAAA  833 (970)
T ss_pred             HHHHHHHHHHHHHHHHhhh
Confidence            4444444444444433333

>PRK04778 septation ring formation regulator EzrA; Provisional

Probab=97.09  E-value=0.058  Score=59.48  Aligned_cols=20  Identities=20%  Similarity=0.365  Sum_probs=10.7

Q ss_pred             cHHHHHHHHHHHHHHHHHHH
Q 012833           43 LKIELDQLKSKIRSLESHID   62 (455)
Q Consensus        43 l~~eL~~lr~kI~~Leski~   62 (455)
                      ...+++.++.+|......|.
T Consensus       254 i~~~i~~l~~~i~~~~~~l~  273 (569)
T PRK04778        254 IEKEIQDLKEQIDENLALLE  273 (569)
T ss_pred             hHHHHHHHHHHHHHHHHHHH
Confidence            44566666666655444443

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

Probab=97.09  E-value=0.011  Score=56.43  Aligned_cols=62  Identities=26%  Similarity=0.399  Sum_probs=12.7

Q ss_pred             CCccHHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 012833           40 SSPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQK  101 (455)
Q Consensus        40 ~~~l~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQk  101 (455)
                      ..++...+..++.++..+.....++.+++.+...++..++..+...+..|.++..++..|+.
T Consensus        69 ~~~le~~~~~l~~ELael~r~~~el~~~L~~~~~~l~~l~~~~~~~~~~l~~l~~~~~~L~~  130 (194)
T PF08614_consen   69 ISSLEQKLAKLQEELAELYRSKGELAQQLVELNDELQELEKELSEKERRLAELEAELAQLEE  130 (194)
T ss_dssp             ---------------------------------------------HHHHHHHHHHHHHHHHH
T ss_pred             ccccccccccccccccccccccccccccccccccccchhhhhHHHHHHHHHHHHHHHHHHHH
Confidence            34456677778888888888888888888888888888888888888888888777777753

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.

>PRK01156 chromosome segregation protein; Provisional

Probab=97.06  E-value=0.1  Score=60.24  Aligned_cols=16  Identities=13%  Similarity=0.227  Sum_probs=8.4

Q ss_pred             HHHHHHHHHHHHhccc
Q 012833          370 HQVQASVQEMLKKHEL  385 (455)
Q Consensus       370 ~q~q~~~~~~l~~~e~  385 (455)
                      ..++....+++..-.+
T Consensus       760 ~~~~~~~~e~~~~~~~  775 (895)
T PRK01156        760 QAMTSLTRKYLFEFNL  775 (895)
T ss_pred             HHHHHHHHHHHHHhCC
Confidence            3455556666554444

>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=97.02  E-value=0.22  Score=45.46  Aligned_cols=17  Identities=24%  Similarity=0.487  Sum_probs=6.1

Q ss_pred             HHHHHHHHHHHHHHHHH
Q 012833          151 KKISDLSAKLEKLQKIN  167 (455)
Q Consensus       151 kkl~EleskveeLek~~  167 (455)
                      +.+++.+.++.+|+...
T Consensus        87 k~lq~~q~kv~eLE~~~  103 (140)
T PF10473_consen   87 KELQKKQEKVSELESLN  103 (140)
T ss_pred             HHHHHHHHHHHHHHHHh
Confidence            33333333333333333

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

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

Probab=97.02  E-value=0.45  Score=55.63  Aligned_cols=154  Identities=21%  Similarity=0.254  Sum_probs=91.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHH
Q 012833           44 KIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEK  123 (455)
Q Consensus        44 ~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eLe~  123 (455)
                      ..+-...+++-..++.+.+++...+++-+.-....++.|++....|...++-|..++..... .++-...+..++.+|+.
T Consensus      1548 ~s~A~~a~~~A~~v~~~ae~V~eaL~~Ad~Aq~~a~~ai~~a~~~~~~a~~~l~kv~~~t~~-aE~~~~~a~q~~~eL~~ 1626 (1758)
T KOG0994|consen 1548 QSEAERARSRAEDVKGQAEDVVEALEEADVAQGEAQDAIQGADRDIRLAQQLLAKVQEETAA-AEKLATSATQQLGELET 1626 (1758)
T ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHH
Confidence            33333445555555555555555555555555566667777777777777777777655443 35566677777777777


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 012833          124 QIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSR  198 (455)
Q Consensus       124 qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq~E~~~~  198 (455)
                      .++.|+...-....+-...+..+..+.....+.++..+.|++..+.....++.-.+......+..+.++.|+..+
T Consensus      1627 ~~e~lk~~~~qns~~A~~a~~~a~sa~~~A~~a~q~~~~lq~~~~~~~~l~~~r~~g~~~ar~rAe~L~~eA~~L 1701 (1758)
T KOG0994|consen 1627 RMEELKHKAAQNSAEAKQAEKTAGSAKEQALSAEQGLEILQKYYELVDRLLEKRMEGSQAARERAEQLRTEAEKL 1701 (1758)
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHH
Confidence            777777666666655555555555555555556666665655555555555544444444544455555544433

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

Probab=97.01  E-value=0.16  Score=55.47  Aligned_cols=94  Identities=16%  Similarity=0.223  Sum_probs=52.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          110 QVDKAHARADELEKQIDNLKKESEKQQKEKEALEA---RAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEE  186 (455)
Q Consensus       110 ei~~Ae~~i~eLe~qIe~LkkeLE~~~~e~eeLEa---e~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEe  186 (455)
                      .+...+.++..-+.+++.++.+.+.++..++.+.=   +......+.+++...++.++.+++.+.+.+-+++..++..-.
T Consensus       295 ~l~~l~~Eie~kEeE~e~lq~~~d~Lk~~Ie~Q~iS~~dve~mn~Er~~l~r~l~~i~~~~d~l~k~vw~~~l~~~~~f~  374 (581)
T KOG0995|consen  295 KLEMLKSEIEEKEEEIEKLQKENDELKKQIELQGISGEDVERMNLERNKLKRELNKIQSELDRLSKEVWELKLEIEDFFK  374 (581)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Confidence            33444445555555555555555555444443321   122333345556666666666667777777666666666666


Q ss_pred             HHHHHHHHHhhhhHhhh
Q 012833          187 EMMRAKFEATSRSKELT  203 (455)
Q Consensus       187 eL~kaq~E~~~~a~ei~  203 (455)
                      ++...-.+.+..+..|.
T Consensus       375 ~le~~~~~~~~l~~~i~  391 (581)
T KOG0995|consen  375 ELEKKFIDLNSLIRRIK  391 (581)
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            66666666666665553

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

Probab=97.00  E-value=0.46  Score=48.31  Aligned_cols=46  Identities=20%  Similarity=0.290  Sum_probs=17.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHH
Q 012833           45 IELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIV   90 (455)
Q Consensus        45 ~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~   90 (455)
                      .+.+++++++..+..++.++..+-+.+.+++.++...-.+.+..++
T Consensus        41 ekRdeln~kvrE~~e~~~elr~~rdeineev~elK~kR~ein~kl~   86 (294)
T COG1340          41 EKRDELNAKVRELREKAQELREERDEINEEVQELKEKRDEINAKLQ   86 (294)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333444443333333333333333333333333333333333333

>TIGR01000 bacteriocin_acc bacteriocin secretion accessory protein

Probab=96.95  E-value=0.33  Score=52.01  Aligned_cols=26  Identities=8%  Similarity=0.060  Sum_probs=13.6

Q ss_pred             ccHHHHHHHHHHHHHHHHHHHHHHHh
Q 012833           42 PLKIELDQLKSKIRSLESHIDEKTQE   67 (455)
Q Consensus        42 ~l~~eL~~lr~kI~~Leski~ele~e   67 (455)
                      .+..+++.++.++..++.++..+...
T Consensus        94 ~~~~~~~~~~~~~~~~~~~~~rL~a~  119 (457)
T TIGR01000        94 NEENQKQLLEQQLDNLKDQKKSLDTL  119 (457)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34555555555555555555554433

This family represents an accessory protein that works with the bacteriocin maturation and ABC transport secretion protein described by TIGR01193.

>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=96.92  E-value=0.091  Score=59.90  Aligned_cols=16  Identities=31%  Similarity=0.484  Sum_probs=8.6

Q ss_pred             ccHHHHHHHHHHHHHH
Q 012833           42 PLKIELDQLKSKIRSL   57 (455)
Q Consensus        42 ~l~~eL~~lr~kI~~L   57 (455)
                      +++.-|+.-..+|..+
T Consensus       228 alq~~ie~Kd~ki~~l  243 (775)
T PF10174_consen  228 ALQTVIEEKDTKIASL  243 (775)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            4555555555555554

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 [].

>PRK11281 hypothetical protein; Provisional

Probab=96.90  E-value=1.5  Score=52.12  Aligned_cols=48  Identities=17%  Similarity=0.278  Sum_probs=26.6

Q ss_pred             HHHHHHHHHHHHHHHHHHH---HHHH---HHHHHHHHhcccCccc-ccccchhhh
Q 012833          351 TKKVVRAYGKFLKSATTYH---HQVQ---ASVQEMLKKHELTSPL-ATKELEWFA  398 (455)
Q Consensus       351 ~~~v~~~~~~~~~~a~~~h---~q~q---~~~~~~l~~~e~~~~~-a~~el~w~~  398 (455)
                      .+.....+..++..+++..   +|+.   ..++++|.+|=|=-|= .--.+.||.
T Consensus       416 L~~l~~~~~~~l~~~~~l~~~q~Ql~~~~~~l~~~L~~~lfWv~s~~pid~~w~~  470 (1113)
T PRK11281        416 LDQLNKQLNNQLNLAINLQLNQQQLLSVSDSLQSTLTQQIFWVNSNKPMDLDWLK  470 (1113)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCCCCCcCHHHHH
Confidence            3445556666666666663   5654   4566777777664221 223556654

>COG4372 Uncharacterized protein conserved in bacteria with the myosin-like domain [Function unknown]

Probab=96.90  E-value=0.44  Score=49.93  Aligned_cols=50  Identities=18%  Similarity=0.299  Sum_probs=24.2

Q ss_pred             HHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           50 LKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSL   99 (455)
Q Consensus        50 lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sL   99 (455)
                      .++++.....+.....++......++..-...+...+++-.+|++.+..+
T Consensus       107 ~~~El~~~r~e~~~v~~~~~~a~~n~~kAqQ~lar~t~Q~q~lqtrl~~l  156 (499)
T COG4372         107 ARSELQKARQEREAVRQELAAARQNLAKAQQELARLTKQAQDLQTRLKTL  156 (499)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444444444444444444444444444444555555555555554443

>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=0.21  Score=51.41  Aligned_cols=83  Identities=30%  Similarity=0.351  Sum_probs=37.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          111 VDKAHARADELEKQIDNLKKESEKQ----QKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEE  186 (455)
Q Consensus       111 i~~Ae~~i~eLe~qIe~LkkeLE~~----~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEe  186 (455)
                      ...+.++...|..++..|+......    ..++..+..++......++....++++++.+++.++..++++..+.+.+..
T Consensus       179 ~~~l~~~~~~L~~e~~~Lk~~~~e~~~~D~~eL~~lr~eL~~~~~~i~~~k~~l~el~~el~~l~~~i~~~~~~k~~l~~  258 (325)
T PF08317_consen  179 LPKLRERKAELEEELENLKQLVEEIESCDQEELEALRQELAEQKEEIEAKKKELAELQEELEELEEKIEELEEQKQELLA  258 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444444444333322    233334444444444444444444455555555555555555555555555


Q ss_pred             HHHHHHH
Q 012833          187 EMMRAKF  193 (455)
Q Consensus       187 eL~kaq~  193 (455)
                      +|..++.
T Consensus       259 eI~e~~~  265 (325)
T PF08317_consen  259 EIAEAEK  265 (325)
T ss_pred             HHHHHHH
Confidence            5444443

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

Probab=96.86  E-value=0.018  Score=54.81  Aligned_cols=54  Identities=22%  Similarity=0.246  Sum_probs=21.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          134 KQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEE  187 (455)
Q Consensus       134 ~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEee  187 (455)
                      .+..++..++.+...++..+.+.+..++.++++...++.+...++.++..++.+
T Consensus       120 ~l~~~~~~L~~~~~~l~~~l~ek~k~~e~l~DE~~~L~l~~~~~e~k~~~l~~E  173 (194)
T PF08614_consen  120 ELEAELAQLEEKIKDLEEELKEKNKANEILQDELQALQLQLNMLEEKLRKLEEE  173 (194)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333333344444444444444444444444444444444333

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.

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

Probab=96.85  E-value=0.52  Score=47.91  Aligned_cols=52  Identities=29%  Similarity=0.356  Sum_probs=28.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhh
Q 012833          153 ISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTE  204 (455)
Q Consensus       153 l~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq~E~~~~a~ei~~  204 (455)
                      +.++.+++..+.....++...|.++-++++.+-.+|.++..+..+...+.-+
T Consensus       160 ~~el~aei~~lk~~~~e~~eki~~la~eaqe~he~m~k~~~~~De~Rkeade  211 (294)
T COG1340         160 LKELKAEIDELKKKAREIHEKIQELANEAQEYHEEMIKLFEEADELRKEADE  211 (294)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334445555555555555566666666666666666666665555544443

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

Probab=96.81  E-value=0.28  Score=53.67  Aligned_cols=74  Identities=20%  Similarity=0.341  Sum_probs=45.9

Q ss_pred             HhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           66 QELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKE  140 (455)
Q Consensus        66 ~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eLe~qIe~LkkeLE~~~~e~e  140 (455)
                      ..+.....++.+....|.....++..|...+.+|..++... ...+..+.++.......|..|+.++...+.++.
T Consensus       281 ~~l~s~~~ELe~ak~~L~~~k~E~~~L~~~vesL~~ELe~~-K~el~~lke~e~~a~~~v~~L~~eL~~~r~eLe  354 (522)
T PF05701_consen  281 SSLASAKKELEEAKKELEKAKEEASSLRASVESLRSELEKE-KEELERLKEREKEASSEVSSLEAELNKTRSELE  354 (522)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHhHHhhHHHHHHHHHHHHH
Confidence            34666666777777777777777777777777776666543 334555555555555556666555555555554

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

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

Probab=96.80  E-value=0.18  Score=56.63  Aligned_cols=56  Identities=7%  Similarity=0.089  Sum_probs=35.3

Q ss_pred             HHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 012833           50 LKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETL  105 (455)
Q Consensus        50 lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~  105 (455)
                      -++++.++..+++.-...|--.....++++..+.-++.+++.|+.+|.+..-++..
T Consensus       414 Erar~qem~~Qk~reqe~iv~~nak~~ql~~eletLn~k~qqls~kl~Dvr~~~tt  469 (1118)
T KOG1029|consen  414 ERARRQEMLNQKNREQEWIVYLNAKKKQLQQELETLNFKLQQLSGKLQDVRVDITT  469 (1118)
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhheeccch
Confidence            45666666666666666665556666666666666666666666666666554443

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

Probab=96.78  E-value=0.12  Score=59.34  Aligned_cols=146  Identities=23%  Similarity=0.291  Sum_probs=83.5

Q ss_pred             CCccHHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhH------------
Q 012833           40 SSPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNA------------  107 (455)
Q Consensus        40 ~~~l~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~------------  107 (455)
                      ...+..+|..++++|..|+.++.|....+-...++|.+++..|..+.++|.++..+-.+...-...+.            
T Consensus       172 ~~hL~velAdle~kir~LrqElEEK~enll~lr~eLddleae~~klrqe~~e~l~ea~ra~~yrdeldalre~aer~d~~  251 (1195)
T KOG4643|consen  172 NLHLEVELADLEKKIRTLRQELEEKFENLLRLRNELDDLEAEISKLRQEIEEFLDEAHRADRYRDELDALREQAERPDTT  251 (1195)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHhhhcCCCc
Confidence            34456666666666666666666666666666666666666666666666666554433222111110            


Q ss_pred             -HH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          108 -AE---QVDKAHARADELEKQIDNLKKESEKQQKEKEALEARA--IEAEKKISDLSAKLEKLQKINDEQKSKIRKTERAL  181 (455)
Q Consensus       108 -~e---ei~~Ae~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~--~elEkkl~EleskveeLek~~eEqekkI~elE~~L  181 (455)
                       .+   .++-.+.++.+|+..-..|..+.+.++.++..++++-  .++|.++-.++++++.|+...+..+.++.++..+.
T Consensus       252 ykerlmDs~fykdRveelkedN~vLleekeMLeeQLq~lrarse~~tleseiiqlkqkl~dm~~erdtdr~kteeL~eEn  331 (1195)
T KOG4643|consen  252 YKERLMDSDFYKDRVEELKEDNRVLLEEKEMLEEQLQKLRARSEGATLESEIIQLKQKLDDMRSERDTDRHKTEELHEEN  331 (1195)
T ss_pred             cchhhhhhHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence             00   2223455555555555555556666666666666554  56666666666666666666666666666655555


Q ss_pred             HHHH
Q 012833          182 KVAE  185 (455)
Q Consensus       182 q~lE  185 (455)
                      ..++
T Consensus       332 stLq  335 (1195)
T KOG4643|consen  332 STLQ  335 (1195)
T ss_pred             HHHH
Confidence            4444

>PRK10929 putative mechanosensitive channel protein; Provisional

Probab=96.77  E-value=0.43  Score=56.54  Aligned_cols=55  Identities=15%  Similarity=0.100  Sum_probs=28.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          139 KEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKF  193 (455)
Q Consensus       139 ~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq~  193 (455)
                      ...++.+...++......+...+=.+...+....+++.++..++.+++.++....
T Consensus       182 ~~~l~~~~~~l~~~l~s~~~~~~L~~~q~dl~~~~~~~l~~~~~~Lq~~in~kR~  236 (1109)
T PRK10929        182 SAALKALVDELELAQLSANNRQELARLRSELAKKRSQQLDAYLQALRNQLNSQRQ  236 (1109)
T ss_pred             HHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444444444444444444445555555555666666666666655554333

>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]

Probab=96.75  E-value=0.62  Score=52.43  Aligned_cols=103  Identities=22%  Similarity=0.228  Sum_probs=57.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhH
Q 012833          121 LEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSK  200 (455)
Q Consensus       121 Le~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq~E~~~~a~  200 (455)
                      +......+.+++.....-++.......++...+..+..+++..+.+.++.+..+.+....+........++++|...+..
T Consensus       536 lt~~~~~l~~el~~~~~~le~~kk~~~e~~~~~~~Lq~~~ek~~~~le~i~~~~~e~~~ele~~~~k~~rleEE~e~L~~  615 (698)
T KOG0978|consen  536 LTSNESKLIKELTTLTQSLEMLKKKAQEAKQSLEDLQIELEKSEAKLEQIQEQYAELELELEIEKFKRKRLEEELERLKR  615 (698)
T ss_pred             hhHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33334444444444444444444455555555555555555555666666666666666665555555666677666666


Q ss_pred             hhhhhc----cccCChHHHHHHHHHHH
Q 012833          201 ELTEVH----SAWLPPWLAVHLLQCQS  223 (455)
Q Consensus       201 ei~~~g----Gawl~Pw~~~~~~~~~~  223 (455)
                      ++.+++    |+=--|-|+.++..|+.
T Consensus       616 kle~~k~~~~~~s~d~~L~EElk~yK~  642 (698)
T KOG0978|consen  616 KLERLKKEESGASADEVLAEELKEYKE  642 (698)
T ss_pred             HHHHhccccccccccHHHHHHHHHHHh
Confidence            664443    23334666777766665

>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=0.19  Score=57.31  Aligned_cols=121  Identities=23%  Similarity=0.312  Sum_probs=72.2

Q ss_pred             ccHHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHH
Q 012833           42 PLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADEL  121 (455)
Q Consensus        42 ~l~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eL  121 (455)
                      +.......+..++..+++.+..++..+..-.+++......+.+.+..|.+|+.++.+. ++..+..+.++...+.....+
T Consensus       586 a~~~~~~el~eelE~le~eK~~Le~~L~~~~d~lE~~~~qL~E~E~~L~eLq~eL~~~-keS~s~~E~ql~~~~e~~e~l  664 (769)
T PF05911_consen  586 ADTSEKKELEEELEKLESEKEELEMELASCQDQLESLKNQLKESEQKLEELQSELESA-KESNSLAETQLKAMKESYESL  664 (769)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHH
Confidence            3445555677778888888888888777777788888888888888888888888765 344444444444444444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          122 EKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKL  163 (455)
Q Consensus       122 e~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeL  163 (455)
                      +.+...++.+++.+...+..|+.++..-.....++..+..+|
T Consensus       665 e~~~~~~e~E~~~l~~Ki~~Le~Ele~er~~~~e~~~kc~~L  706 (769)
T PF05911_consen  665 ETRLKDLEAEAEELQSKISSLEEELEKERALSEELEAKCREL  706 (769)
T ss_pred             hhhhhHHHHHHHHHHHHHHHHHHHHHHHHhcchhhhhHHHHH
Confidence            444444444444444444444444433333333333333333

The function of this family is unknown.

>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=96.74  E-value=0.78  Score=51.99  Aligned_cols=160  Identities=21%  Similarity=0.291  Sum_probs=103.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh-----hhhhHH----------
Q 012833           44 KIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKK-----ETLNAA----------  108 (455)
Q Consensus        44 ~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK-----~s~~~~----------  108 (455)
                      -.+|..++..+.+++.++..+...+.+....+..-...+.+....|..|-..+..+..-     ..+...          
T Consensus       264 ~~EiqKL~qQL~qve~EK~~L~~~L~e~Q~qLe~a~~als~q~eki~~L~e~l~aL~~l~~~ke~~~~~d~~~~~~s~~d  343 (717)
T PF09730_consen  264 LSEIQKLKQQLLQVEREKSSLLSNLQESQKQLEHAQGALSEQQEKINRLTEQLDALRKLQEDKEQQSAEDSEKERDSHED  343 (717)
T ss_pred             hHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccchhhhhhhhcccccccccc
Confidence            45667788889999989888888888888888888888887777888888877777651     000000          


Q ss_pred             --------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          109 --------EQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARA----IEAEKKISDLSAKLEKLQKINDEQKSKIRK  176 (455)
Q Consensus       109 --------eei~~Ae~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~----~elEkkl~EleskveeLek~~eEqekkI~e  176 (455)
                              .....++.++..+..++..|+.++..++.+...++...    ..++..++.+..++..+++...+-+.++..
T Consensus       344 ~~~ye~Di~~~eiLe~Ky~vav~Ev~~Lk~ELk~Lk~k~~~~~~~~~~ek~~~~~e~q~L~ekl~~lek~~re~qeri~~  423 (717)
T PF09730_consen  344 GDYYEVDINGLEILECKYKVAVSEVIQLKAELKALKSKYNELEERYKQEKDRLESEVQNLKEKLMSLEKSSREDQERISE  423 (717)
T ss_pred             cchhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHH
Confidence                    11234566777777778888777777766666554443    333555666666666666655444555555


Q ss_pred             HHHHHHHHH-------HHHHHHHHHHhhhhHhhh
Q 012833          177 TERALKVAE-------EEMMRAKFEATSRSKELT  203 (455)
Q Consensus       177 lE~~Lq~lE-------eeL~kaq~E~~~~a~ei~  203 (455)
                      ++.++..+.       ..+..++.++.....+++
T Consensus       424 LE~ELr~l~~~A~E~q~~LnsAQDELvtfSEeLA  457 (717)
T PF09730_consen  424 LEKELRALSKLAGESQGSLNSAQDELVTFSEELA  457 (717)
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Confidence            555555554       445555555555555553

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

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

Probab=96.69  E-value=0.44  Score=54.35  Aligned_cols=50  Identities=18%  Similarity=0.397  Sum_probs=25.0

Q ss_pred             HHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           90 VSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKE  140 (455)
Q Consensus        90 ~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eLe~qIe~LkkeLE~~~~e~e  140 (455)
                      .+|-.+.+++++..++ .+..+++.+++...|+.++++++.+....+...+
T Consensus       441 ~~lL~K~~di~kQle~-~~~s~~~~~~~~~~L~d~le~~~~~~~~~~~K~e  490 (980)
T KOG0980|consen  441 ADLLRKYDDIQKQLES-AEQSIDDVEEENTNLNDQLEELQRAAGRAETKTE  490 (980)
T ss_pred             HHHHHHHHHHHHHHHH-HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhH
Confidence            3333444444444333 2344456666666666666666555555433333

>smart00787 Spc7 Spc7 kinetochore protein

Probab=96.69  E-value=0.33  Score=49.92  Aligned_cols=52  Identities=23%  Similarity=0.387  Sum_probs=22.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHh
Q 012833          145 RAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAE----EEMMRAKFEAT  196 (455)
Q Consensus       145 e~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lE----eeL~kaq~E~~  196 (455)
                      +..+++.++++++..++.....+.+...+|++++..+....    .++.+++....
T Consensus       226 ~l~e~~~~l~~l~~~I~~~~~~k~e~~~~I~~ae~~~~~~r~~t~~Ei~~Lk~~~~  281 (312)
T smart00787      226 KLEELEEELQELESKIEDLTNKKSELNTEIAEAEKKLEQCRGFTFKEIEKLKEQLK  281 (312)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHH
Confidence            33333344444444444444444444444444444333322    44555554444

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

>TIGR03007 pepcterm_ChnLen polysaccharide chain length determinant protein, PEP-CTERM locus subfamily

Probab=96.68  E-value=0.5  Score=50.84  Aligned_cols=60  Identities=8%  Similarity=0.179  Sum_probs=32.8

Q ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHhhh--------chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 012833           43 LKIELDQLKSKIRSLESHIDEKTQELK--------GKDEVVAQKEKAIQDKSERIVSLQKELSSLQKK  102 (455)
Q Consensus        43 l~~eL~~lr~kI~~Leski~ele~eI~--------~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK  102 (455)
                      +..+++.++.++.+.+.++.+..++-.        ...+.+.+++..+.+.+.++.+.+..++.+++.
T Consensus       166 l~~ql~~~~~~L~~ae~~l~~f~~~~~~~~~~~~~~~~~~l~~l~~~l~~~~~~l~~~~a~~~~l~~~  233 (498)
T TIGR03007       166 IDEQIKTYEKKLEAAENRLKAFKQENGGILPDQEGDYYSEISEAQEELEAARLELNEAIAQRDALKRQ  233 (498)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhCcccCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345566666666666666655432211        123455555566666666666666666666554

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.

>PF12795 MscS_porin: Mechanosensitive ion channel porin domain

Probab=96.66  E-value=0.58  Score=45.94  Aligned_cols=60  Identities=23%  Similarity=0.227  Sum_probs=26.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          134 KQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKF  193 (455)
Q Consensus       134 ~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq~  193 (455)
                      .+..+...++.+...++..+.......+=.+...+....++..++..++.++..+.....
T Consensus       154 ~l~ae~~~l~~~~~~le~el~s~~~rq~L~~~qrdl~~~~~~~l~~~l~~Lq~~ln~~R~  213 (240)
T PF12795_consen  154 LLQAELAALEAQIEMLEQELLSNNNRQELLQLQRDLLKARIQRLQQQLQALQNLLNQKRR  213 (240)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333344444444444444444444444444444444444444455545444444433

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

Probab=96.64  E-value=0.16  Score=58.49  Aligned_cols=152  Identities=18%  Similarity=0.197  Sum_probs=106.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHH
Q 012833           44 KIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEK  123 (455)
Q Consensus        44 ~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eLe~  123 (455)
                      ...-..+.-+|+.++++|.-+.++++++.+.+.++...|..++.+|..|..++......-.+     ......++..+..
T Consensus       169 ~~~~~hL~velAdle~kir~LrqElEEK~enll~lr~eLddleae~~klrqe~~e~l~ea~r-----a~~yrdeldalre  243 (1195)
T KOG4643|consen  169 VKKNLHLEVELADLEKKIRTLRQELEEKFENLLRLRNELDDLEAEISKLRQEIEEFLDEAHR-----ADRYRDELDALRE  243 (1195)
T ss_pred             cchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-----hhhhhhHHHHHHH
Confidence            34445688999999999999999999999999999999999999999999988877643322     2222333333333


Q ss_pred             H--------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          124 Q--------------IDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKL--EKLQKINDEQKSKIRKTERALKVAEEE  187 (455)
Q Consensus       124 q--------------Ie~LkkeLE~~~~e~eeLEae~~elEkkl~Eleskv--eeLek~~eEqekkI~elE~~Lq~lEee  187 (455)
                      +              ++.++.+++.++.+...|-++..-++.+++.+...-  ..++.++-.+++++..+.......+..
T Consensus       244 ~aer~d~~ykerlmDs~fykdRveelkedN~vLleekeMLeeQLq~lrarse~~tleseiiqlkqkl~dm~~erdtdr~k  323 (1195)
T KOG4643|consen  244 QAERPDTTYKERLMDSDFYKDRVEELKEDNRVLLEEKEMLEEQLQKLRARSEGATLESEIIQLKQKLDDMRSERDTDRHK  323 (1195)
T ss_pred             hhhcCCCccchhhhhhHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHhhhhHHHH
Confidence            2              444677777777777777777777777777766655  556666666666666666666666666


Q ss_pred             HHHHHHHHhhhhH
Q 012833          188 MMRAKFEATSRSK  200 (455)
Q Consensus       188 L~kaq~E~~~~a~  200 (455)
                      +.++..|...++.
T Consensus       324 teeL~eEnstLq~  336 (1195)
T KOG4643|consen  324 TEELHEENSTLQV  336 (1195)
T ss_pred             HHHHHHHHHHHHH
Confidence            6666655554443

>KOG1003 consensus Actin filament-coating protein tropomyosin [Cytoskeleton]

Probab=96.63  E-value=0.7  Score=44.35  Aligned_cols=55  Identities=16%  Similarity=0.252  Sum_probs=29.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           44 KIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSS   98 (455)
Q Consensus        44 ~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~s   98 (455)
                      ..+++..+.++.-+..+..+.++.-++....++.+++.-.+.+..+..+..++..
T Consensus        17 eeele~aqErl~~a~~KL~Eaeq~~dE~er~~Kv~enr~~kdEE~~e~~e~qLkE   71 (205)
T KOG1003|consen   17 EEELDRAQERLATALQKLEEAEQAADESERGMKVIENRAQKLEEKMEAQEAQLKE   71 (205)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            3444444555555555555555555555555655555555555555555555543

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

Probab=96.61  E-value=0.29  Score=56.34  Aligned_cols=46  Identities=22%  Similarity=0.273  Sum_probs=28.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 012833          152 KISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATS  197 (455)
Q Consensus       152 kl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq~E~~~  197 (455)
                      +..++..+.+++.....++|..-..+...+..++..+.+.+..+..
T Consensus       454 ~~~~~k~~~del~~~Rk~lWREE~~l~~~i~~~~~dl~~~~~~L~~  499 (1200)
T KOG0964|consen  454 ENTELKRELDELQDKRKELWREEKKLRSLIANLEEDLSRAEKNLRA  499 (1200)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344455556666666666666677777777777777776666553

>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=96.61  E-value=0.53  Score=48.14  Aligned_cols=39  Identities=26%  Similarity=0.281  Sum_probs=27.4

Q ss_pred             CccHHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHH
Q 012833           41 SPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKE   79 (455)
Q Consensus        41 ~~l~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e   79 (455)
                      ......++.++.++..|+.+-..+..+...+..+....+
T Consensus       156 ~~~~~~le~Lq~Klk~LEeEN~~LR~Ea~~L~~et~~~E  194 (306)
T PF04849_consen  156 SQKCIQLEALQEKLKSLEEENEQLRSEASQLKTETDTYE  194 (306)
T ss_pred             cccchhHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhhcc
Confidence            445678888888888888877777776666655554444

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 [].

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

Probab=96.59  E-value=3.1  Score=51.38  Aligned_cols=50  Identities=14%  Similarity=0.178  Sum_probs=22.7

Q ss_pred             HHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           50 LKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSL   99 (455)
Q Consensus        50 lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sL   99 (455)
                      +|.+......++.++...|+.+..++.-++..+.++..+|.....++..|
T Consensus      1234 LRee~~~~~~k~qEl~~~i~kl~~el~plq~~l~el~~e~~~~~ael~~l 1283 (1822)
T KOG4674|consen 1234 LREENEANLEKIQELRDKIEKLNFELAPLQNELKELKAELQEKVAELKKL 1283 (1822)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhHhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444444444444444444444444444444444444

>smart00787 Spc7 Spc7 kinetochore protein

Probab=96.58  E-value=0.43  Score=49.07  Aligned_cols=81  Identities=23%  Similarity=0.246  Sum_probs=36.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          113 KAHARADELEKQIDNLKKESEKQ----QKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEM  188 (455)
Q Consensus       113 ~Ae~~i~eLe~qIe~LkkeLE~~----~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL  188 (455)
                      .+.++...|+.++..|++..+.+    ..++..+.+++.+....+....+++++++.++.+....|++...+...++.+|
T Consensus       176 ~l~~~~~~L~~e~~~L~~~~~e~~~~d~~eL~~lk~~l~~~~~ei~~~~~~l~e~~~~l~~l~~~I~~~~~~k~e~~~~I  255 (312)
T smart00787      176 KLRDRKDALEEELRQLKQLEDELEDCDPTELDRAKEKLKKLLQEIMIKVKKLEELEEELQELESKIEDLTNKKSELNTEI  255 (312)
T ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444444333332    12333444444444444444444444555555555555555555555555555


Q ss_pred             HHHHH
Q 012833          189 MRAKF  193 (455)
Q Consensus       189 ~kaq~  193 (455)
                      ..++.
T Consensus       256 ~~ae~  260 (312)
T smart00787      256 AEAEK  260 (312)
T ss_pred             HHHHH
Confidence            44444

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

>KOG4360 consensus Uncharacterized coiled coil protein [Function unknown]

Probab=96.56  E-value=0.16  Score=54.67  Aligned_cols=163  Identities=18%  Similarity=0.180  Sum_probs=78.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhchHHHHH---HHHH-HHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHH
Q 012833           47 LDQLKSKIRSLESHIDEKTQELKGKDEVVA---QKEK-AIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELE  122 (455)
Q Consensus        47 L~~lr~kI~~Leski~ele~eI~~k~~eIk---~~e~-~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eLe  122 (455)
                      ++.|+.++..+++++..+.++..-+..|--   ..++ ......+++.++..++.++|+.+.+ ++++.....++++.|.
T Consensus       161 ~EaL~ekLk~~~een~~lr~k~~llk~Et~~~~~keq~~y~~~~KelrdtN~q~~s~~eel~~-kt~el~~q~Ee~skLl  239 (596)
T KOG4360|consen  161 LEALQEKLKPLEEENTQLRSKAMLLKTETLTYEEKEQQLYGDCVKELRDTNTQARSGQEELQS-KTKELSRQQEENSKLL  239 (596)
T ss_pred             HHHHHhhcCChHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHH
Confidence            444555555555555555444332222110   1111 1123334444444444444433333 2445555566677777


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-hhhHh
Q 012833          123 KQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEAT-SRSKE  201 (455)
Q Consensus       123 ~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq~E~~-~~a~e  201 (455)
                      ++|.++++.+..+.-+++++.       .-+......-+.++.+..+.+.+..+....+..++++++.+..-.+ .....
T Consensus       240 sql~d~qkk~k~~~~Ekeel~-------~~Lq~~~da~~ql~aE~~EleDkyAE~m~~~~EaeeELk~lrs~~~p~~~s~  312 (596)
T KOG4360|consen  240 SQLVDLQKKIKYLRHEKEELD-------EHLQAYKDAQRQLTAELEELEDKYAECMQMLHEAEEELKCLRSCDAPKLISQ  312 (596)
T ss_pred             HHHHhhHHHHHHHHHHHHHHH-------HHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCcchhHH
Confidence            777766666555554444443       3334444444555555555555666666666666666666554333 22223


Q ss_pred             hhhhccc-cCChHHHHH
Q 012833          202 LTEVHSA-WLPPWLAVH  217 (455)
Q Consensus       202 i~~~gGa-wl~Pw~~~~  217 (455)
                      -+..||. |.+-=++++
T Consensus       313 ~~~~~~~~fp~~~~aae  329 (596)
T KOG4360|consen  313 EALSHGHHFPQLSLAAE  329 (596)
T ss_pred             HHHHhhhhCChhhHHHH
Confidence            3556674 444333333

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

Probab=96.55  E-value=0.43  Score=53.31  Aligned_cols=99  Identities=19%  Similarity=0.283  Sum_probs=53.8

Q ss_pred             ccHHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHH--HHHHHHHHHHH
Q 012833           42 PLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAA--EQVDKAHARAD  119 (455)
Q Consensus        42 ~l~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~--eei~~Ae~~i~  119 (455)
                      .+..++..|+.++..|..++.....+-..++.-..+.+..|.+.+..+..++....+..+-...+..  .-+..|-.+..
T Consensus        84 ~Lq~E~~~L~kElE~L~~qlqaqv~~ne~Ls~L~~EqEerL~ELE~~le~~~e~~~D~~kLLe~lqsdk~t~SRAlsQN~  163 (617)
T PF15070_consen   84 QLQAEAEHLRKELESLEEQLQAQVENNEQLSRLNQEQEERLAELEEELERLQEQQEDRQKLLEQLQSDKATASRALSQNR  163 (617)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccchHHHHHHHhHH
Confidence            3555666677777777666665544444444444555556666665555555554433221111111  13344555666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHH
Q 012833          120 ELEKQIDNLKKESEKQQKEKE  140 (455)
Q Consensus       120 eLe~qIe~LkkeLE~~~~e~e  140 (455)
                      +|..++.+++.....+.+++.
T Consensus       164 eLK~QL~Elq~~Fv~ltne~~  184 (617)
T PF15070_consen  164 ELKEQLAELQDAFVKLTNENM  184 (617)
T ss_pred             HHHHHHHHHHHHHHHHHHhhh
Confidence            777777777766666655553

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

Probab=96.55  E-value=0.46  Score=54.22  Aligned_cols=124  Identities=19%  Similarity=0.236  Sum_probs=72.4

Q ss_pred             HHHHHHHHHHHHHHHHHHhh---hchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHH
Q 012833           49 QLKSKIRSLESHIDEKTQEL---KGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQI  125 (455)
Q Consensus        49 ~lr~kI~~Leski~ele~eI---~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eLe~qI  125 (455)
                      +|+.+++++.......++-.   ++........++.+++....+.++.++=..+=.|...+ ..+...++.-+.+.+++.
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 QLRNELAQLLASRTQLEKAQVLVEEAENKALAAENRYEKLKEKYTELRQEHADLLRKYDDI-QKQLESAEQSIDDVEEEN  468 (980)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHhHHHHHHHH
Confidence            45556655555555554443   55555555555555555555555555544444444433 445556666666666677


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          126 DNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSK  173 (455)
Q Consensus       126 e~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekk  173 (455)
                      ..|...++........++.+.++..+.++.++.++..+..+.++++..
T Consensus       469 ~~L~d~le~~~~~~~~~~~K~e~~~~~le~l~~El~~l~~e~~~lq~~  516 (980)
T KOG0980|consen  469 TNLNDQLEELQRAAGRAETKTESQAKALESLRQELALLLIELEELQRT  516 (980)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            777777777776666766666666666666666665555555554444

>KOG4673 consensus Transcription factor TMF, TATA element modulatory factor [Transcription]

Probab=96.53  E-value=1.5  Score=49.05  Aligned_cols=39  Identities=15%  Similarity=0.190  Sum_probs=19.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          113 KAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEK  151 (455)
Q Consensus       113 ~Ae~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~elEk  151 (455)
                      ...+.|..++.++.+-++.+-..+...+.+++++..++.
T Consensus       520 ~~~E~I~k~~ae~~rq~~~~~~sr~~~~~le~~~~a~qa  558 (961)
T KOG4673|consen  520 LLQETIEKHQAELTRQKDYYSNSRALAAALEAQALAEQA  558 (961)
T ss_pred             HHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHH
Confidence            334445555555555555555544555555555444433

>TIGR01005 eps_transp_fam exopolysaccharide transport protein family

Probab=96.51  E-value=0.41  Score=54.36  Aligned_cols=22  Identities=5%  Similarity=-0.019  Sum_probs=10.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q 012833          171 KSKIRKTERALKVAEEEMMRAK  192 (455)
Q Consensus       171 ekkI~elE~~Lq~lEeeL~kaq  192 (455)
                      +.++.+++++.+..+..+..+-
T Consensus       375 ~~e~~~L~Re~~~~~~~Y~~ll  396 (754)
T TIGR01005       375 QVDLDALQRDAAAKRQLYESYL  396 (754)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            4444455555544444444333

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.

>PF06008 Laminin_I: Laminin Domain I; InterPro: IPR009254 Laminins are glycoproteins that are major constituents of the basement membrane of cells

Probab=96.47  E-value=1.1  Score=44.62  Aligned_cols=178  Identities=18%  Similarity=0.223  Sum_probs=87.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHH
Q 012833           45 IELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQ  124 (455)
Q Consensus        45 ~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eLe~q  124 (455)
                      +.+.-+...+..+..++....+.+......+...+..+..++.++..|..+......++..+ ....+....+..+|...
T Consensus        17 ~~~~~l~~~~e~~~~~L~~~~~~~~~~~~~~~~~e~~l~~L~~d~~~L~~k~~~~~~~~~~l-~~~t~~t~~~a~~L~~~   95 (264)
T PF06008_consen   17 PAPYKLLSSIEDLTNQLRSYRSKLNPQKQQLDPLEKELESLEQDVENLQEKATKVSRKAQQL-NNNTERTLQRAQDLEQF   95 (264)
T ss_pred             hhHHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHH
Confidence            44444555555555555555555555444555555555555555555555554443333332 33445555566666666


Q ss_pred             HHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 012833          125 IDNLKKESEKQQKEKEALEA-----RAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRS  199 (455)
Q Consensus       125 Ie~LkkeLE~~~~e~eeLEa-----e~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq~E~~~~a  199 (455)
                      |..+...+..+-.+...+..     .-.++...+.+.+.-+++++...  ........+.++..++.-+.+.+.......
T Consensus        96 i~~l~~~i~~l~~~~~~l~~~~~~~~~~~l~~~l~ea~~mL~emr~r~--f~~~~~~Ae~El~~A~~LL~~v~~~~~~~~  173 (264)
T PF06008_consen   96 IQNLQDNIQELIEQVESLNENGDQLPSEDLQRALAEAQRMLEEMRKRD--FTPQRQNAEDELKEAEDLLSRVQKWFQKPQ  173 (264)
T ss_pred             HHHHHHHHHHHHHHHHHhCcccCCCCHHHHHHHHHHHHHHHHHHHhcc--chhHHHHHHHHHHHHHHHHHHHHHHHhhHH
Confidence            66666666666655554444     23444444555555554444431  344444444444444444444444332222


Q ss_pred             HhhhhhccccCChHHHHHHHHHHHHHH
Q 012833          200 KELTEVHSAWLPPWLAVHLLQCQSLIE  226 (455)
Q Consensus       200 ~ei~~~gGawl~Pw~~~~~~~~~~~~~  226 (455)
                      .+... --.-+|-+|+.|-.+++++-.
T Consensus       174 ~~~~~-l~~~i~~~L~~~~~kL~Dl~~  199 (264)
T PF06008_consen  174 QENES-LAEAIRDDLNDYNAKLQDLRD  199 (264)
T ss_pred             HhhHH-HHHHHHHHHHHHHHHHHHHHH
Confidence            11100 000145567777777776443

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

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

Probab=96.45  E-value=0.2  Score=54.87  Aligned_cols=82  Identities=26%  Similarity=0.313  Sum_probs=33.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          113 KAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAK  192 (455)
Q Consensus       113 ~Ae~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq  192 (455)
                      .+......++.+|..|+.+++.+.....+.+........++.+....+.+++.+....+..+..++.++..+..+..++.
T Consensus       103 e~~~~ra~~e~ei~kl~~e~~elr~~~~~~~k~~~~~re~~~~~~~~l~~leAe~~~~krr~~~le~e~~~Lk~en~rl~  182 (546)
T KOG0977|consen  103 ETARERAKLEIEITKLREELKELRKKLEKAEKERRGAREKLDDYLSRLSELEAEINTLKRRIKALEDELKRLKAENSRLR  182 (546)
T ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhhhHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhhhhH
Confidence            33333444444444444444444444443333333333333333334444444444444444444444333333333333


Q ss_pred             HH
Q 012833          193 FE  194 (455)
Q Consensus       193 ~E  194 (455)
                      .+
T Consensus       183 ~~  184 (546)
T KOG0977|consen  183 EE  184 (546)
T ss_pred             HH
Confidence            33

>TIGR01000 bacteriocin_acc bacteriocin secretion accessory protein

Probab=96.45  E-value=0.21  Score=53.54  Aligned_cols=25  Identities=28%  Similarity=0.369  Sum_probs=15.7

Q ss_pred             CCccHHHHHHHHHHHHHHHHHHHHH
Q 012833           40 SSPLKIELDQLKSKIRSLESHIDEK   64 (455)
Q Consensus        40 ~~~l~~eL~~lr~kI~~Leski~el   64 (455)
                      -..+..++..++.++..|+..++.+
T Consensus        99 ~~~~~~~~~~~~~~~~rL~a~~~~~  123 (457)
T TIGR01000        99 KQLLEQQLDNLKDQKKSLDTLKQSI  123 (457)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3445666677777777776665543

This family represents an accessory protein that works with the bacteriocin maturation and ABC transport secretion protein described by TIGR01193.

>PF13870 DUF4201: Domain of unknown function (DUF4201)

Probab=96.45  E-value=0.8  Score=42.85  Aligned_cols=120  Identities=23%  Similarity=0.302  Sum_probs=67.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhchHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHH
Q 012833           44 KIELDQLKSKIRSLESHIDEKTQELKGKDE--------VVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAH  115 (455)
Q Consensus        44 ~~eL~~lr~kI~~Leski~ele~eI~~k~~--------eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae  115 (455)
                      ..+++.++.+...+..++..++.++..+++        +-.++..........|.+-..+|..+..+.... -..+....
T Consensus         5 ~~~i~~~Rl~~~~lk~~l~k~~~ql~~ke~lge~L~~iDFeqLkien~~l~~kIeERn~eL~~Lk~~~~~~-v~~L~h~k   83 (177)
T PF13870_consen    5 RNEISKLRLKNITLKHQLAKLEEQLRQKEELGEGLHLIDFEQLKIENQQLNEKIEERNKELLKLKKKIGKT-VQILTHVK   83 (177)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHH
Confidence            456777777777777777777777766554        233444455555555555555555554443322 22334455


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          116 ARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQ  164 (455)
Q Consensus       116 ~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLe  164 (455)
                      +++..+..+...++.++......+..+..++..+......+......+.
T Consensus        84 eKl~~~~~~~~~l~~~l~~~~~~~~~~r~~l~~~k~~r~k~~~~~~~l~  132 (177)
T PF13870_consen   84 EKLHFLSEELERLKQELKDREEELAKLREELYRVKKERDKLRKQNKKLR  132 (177)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5555555555555555555555555555555555555544444444443

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

Probab=96.44  E-value=0.4  Score=55.27  Aligned_cols=39  Identities=21%  Similarity=0.211  Sum_probs=26.3

Q ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHH
Q 012833           43 LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKA   81 (455)
Q Consensus        43 l~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~   81 (455)
                      ...+++....++.++..++.+++..+..+..+..+++..
T Consensus       256 ~~~~~~~~~d~~~~~~~~i~ele~~l~~l~~ekeq~~a~  294 (1200)
T KOG0964|consen  256 YIDALDKVEDESEDLKCEIKELENKLTNLREEKEQLKAR  294 (1200)
T ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence            455666677777777777777777777766666665554

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

Probab=96.44  E-value=0.64  Score=44.79  Aligned_cols=18  Identities=17%  Similarity=0.340  Sum_probs=7.0

Q ss_pred             HHHHHHHHHHHHHHHHHH
Q 012833          178 ERALKVAEEEMMRAKFEA  195 (455)
Q Consensus       178 E~~Lq~lEeeL~kaq~E~  195 (455)
                      +++++.+.+.+.....+.
T Consensus       149 EkKl~~l~~~lE~keaqL  166 (201)
T PF13851_consen  149 EKKLQALSEQLEKKEAQL  166 (201)
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            333444444443333333

>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=96.43  E-value=0.68  Score=45.73  Aligned_cols=7  Identities=0%  Similarity=0.292  Sum_probs=2.5

Q ss_pred             HHHHHHH
Q 012833          173 KIRKTER  179 (455)
Q Consensus       173 kI~elE~  179 (455)
                      .++.+..
T Consensus       132 Rl~~L~~  138 (251)
T PF11932_consen  132 RLARLRA  138 (251)
T ss_pred             HHHHHHH
Confidence            3333333

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.

>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=96.41  E-value=0.42  Score=48.89  Aligned_cols=86  Identities=16%  Similarity=0.268  Sum_probs=37.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHH
Q 012833          111 VDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKIND-------EQKSKIRKTERALKV  183 (455)
Q Consensus       111 i~~Ae~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~e-------EqekkI~elE~~Lq~  183 (455)
                      ...|+.+|..|..++.+-..+...+.+++..|-++..+++.++..+..+.++|...+.       .+..++.+++.+...
T Consensus       208 L~~An~qia~LseELa~k~Ee~~rQQEEIt~LlsqivdlQ~r~k~~~~EnEeL~q~L~~ske~Q~~L~aEL~elqdkY~E  287 (306)
T PF04849_consen  208 LSEANQQIASLSEELARKTEENRRQQEEITSLLSQIVDLQQRCKQLAAENEELQQHLQASKESQRQLQAELQELQDKYAE  287 (306)
T ss_pred             hhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444444444444444444444444444444444444443333333333       333333444444444


Q ss_pred             HHHHHHHHHHHHh
Q 012833          184 AEEEMMRAKFEAT  196 (455)
Q Consensus       184 lEeeL~kaq~E~~  196 (455)
                      ....+..+++++.
T Consensus       288 ~~~mL~EaQEElk  300 (306)
T PF04849_consen  288 CMAMLHEAQEELK  300 (306)
T ss_pred             HHHHHHHHHHHHH
Confidence            4444444554444

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 [].

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

Probab=96.37  E-value=0.38  Score=54.92  Aligned_cols=130  Identities=18%  Similarity=0.245  Sum_probs=74.5

Q ss_pred             HHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           50 LKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLK  129 (455)
Q Consensus        50 lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eLe~qIe~Lk  129 (455)
                      .......++.+...++.+.++....+....+.++....++.+++..|.+|+.               ++..+++--...+
T Consensus       587 ~~~~~~el~eelE~le~eK~~Le~~L~~~~d~lE~~~~qL~E~E~~L~eLq~---------------eL~~~keS~s~~E  651 (769)
T PF05911_consen  587 DTSEKKELEEELEKLESEKEELEMELASCQDQLESLKNQLKESEQKLEELQS---------------ELESAKESNSLAE  651 (769)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------------HHHHHHHHHHHHH
Confidence            3344444444555554444444444444444444444444444444444443               3333334444445


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          130 KESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFE  194 (455)
Q Consensus       130 keLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq~E  194 (455)
                      .++.........++.++..++.+++++..++..|+.+++.-...-.++..+-..++.++.+...+
T Consensus       652 ~ql~~~~e~~e~le~~~~~~e~E~~~l~~Ki~~Le~Ele~er~~~~e~~~kc~~Le~el~r~~~~  716 (769)
T PF05911_consen  652 TQLKAMKESYESLETRLKDLEAEAEELQSKISSLEEELEKERALSEELEAKCRELEEELERMKKE  716 (769)
T ss_pred             HHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHhcchhhhhHHHHHHHHHHhhhcc
Confidence            55555556666666777777777777777777777777766666666666677777777766554

The function of this family is unknown.

>KOG0243 consensus Kinesin-like protein [Cytoskeleton]

Probab=96.36  E-value=3.1  Score=48.78  Aligned_cols=31  Identities=13%  Similarity=0.219  Sum_probs=13.6

Q ss_pred             HHhhhhhhHHHHHHhhccchhHhHHHhhcch
Q 012833          320 EAKKFSKPYIDQVATVAKPHVDNVRVALKPY  350 (455)
Q Consensus       320 e~k~~~~py~~qa~~~~~p~~~~~~~~~~P~  350 (455)
                      ..+.-+.-+++..-.-..+++..+...++-.
T Consensus       643 ~~k~~~~s~l~~i~s~~~~~~~~~~~~l~~~  673 (1041)
T KOG0243|consen  643 VLKKDSESCLEVINSSITSSINELESMLETI  673 (1041)
T ss_pred             HHhhhHHHHHHHHhccchhhHHHHHHHHHHH
Confidence            3344444444444444444444444444333

>PF04012 PspA_IM30: PspA/IM30 family; InterPro: IPR007157 This family includes PspA a protein that suppresses sigma54-dependent transcription

Probab=96.35  E-value=1.1  Score=43.27  Aligned_cols=117  Identities=21%  Similarity=0.283  Sum_probs=73.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHH
Q 012833           48 DQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDN  127 (455)
Q Consensus        48 ~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eLe~qIe~  127 (455)
                      ..++.-|..++..+......+......-..++..+.+.+..+...+.+....-..+..   .-.-.+-.+...++.++..
T Consensus        26 ~~l~q~ird~e~~l~~a~~~~a~~~a~~~~le~~~~~~~~~~~~~~~~A~~Al~~g~e---dLAr~al~~k~~~e~~~~~  102 (221)
T PF04012_consen   26 KMLEQAIRDMEEQLRKARQALARVMANQKRLERKLDEAEEEAEKWEKQAELALAAGRE---DLAREALQRKADLEEQAER  102 (221)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCH---HHHHHHHHHHHHHHHHHHH
Confidence            5677788888888888888888888888888888888888888888877655444432   2223444455555555555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          128 LKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKIN  167 (455)
Q Consensus       128 LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~  167 (455)
                      ++..++........+...+..++.++.++..+...+....
T Consensus       103 l~~~~~~~~~~~~~l~~~l~~l~~kl~e~k~k~~~l~ar~  142 (221)
T PF04012_consen  103 LEQQLDQAEAQVEKLKEQLEELEAKLEELKSKREELKARE  142 (221)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5555555555555555555555555555555554444333

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 [].

>PF04111 APG6: Autophagy protein Apg6; InterPro: IPR007243 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells

Probab=96.31  E-value=0.11  Score=53.29  Aligned_cols=84  Identities=18%  Similarity=0.234  Sum_probs=37.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          115 HARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFE  194 (455)
Q Consensus       115 e~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq~E  194 (455)
                      .+++..++.+..++.++++.++.+.+.++.++..++.+..++...-+..-.....++.++.+..++.+.++.++.....+
T Consensus        49 ~~el~~le~Ee~~l~~eL~~LE~e~~~l~~el~~le~e~~~l~~eE~~~~~~~n~~~~~l~~~~~e~~sl~~q~~~~~~~  128 (314)
T PF04111_consen   49 EEELEKLEQEEEELLQELEELEKEREELDQELEELEEELEELDEEEEEYWREYNELQLELIEFQEERDSLKNQYEYASNQ  128 (314)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33334444444444444444444444444444444444444444444444444444444444444444444444444444


Q ss_pred             Hhhh
Q 012833          195 ATSR  198 (455)
Q Consensus       195 ~~~~  198 (455)
                      ...+
T Consensus       129 L~~L  132 (314)
T PF04111_consen  129 LDRL  132 (314)
T ss_dssp             HHCH
T ss_pred             HHHH
Confidence            4433

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.

>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=96.29  E-value=0.7  Score=53.48  Aligned_cols=58  Identities=21%  Similarity=0.256  Sum_probs=36.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHhh
Q 012833           45 IELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSL------QKELSSLQKK  102 (455)
Q Consensus        45 ~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eL------q~eI~sLQkK  102 (455)
                      ++|...-.+|..|+..-..++...+...+.|..+++.++...+.+..+      .++|..+..+
T Consensus       174 ~~ll~~h~eL~~lr~~e~~Le~~~~~~~~~l~~L~~~~~~l~kdVE~~rer~~~~~~Ie~l~~k  237 (1072)
T KOG0979|consen  174 EELLQYHIELMDLREDEKSLEDKLTTKTEKLNRLEDEIDKLEKDVERVRERERKKSKIELLEKK  237 (1072)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            455555666666666666666666677777777777777666666544      4455555433

>PF04111 APG6: Autophagy protein Apg6; InterPro: IPR007243 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells

Probab=96.28  E-value=0.11  Score=53.34  Aligned_cols=77  Identities=21%  Similarity=0.242  Sum_probs=44.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          117 RADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKF  193 (455)
Q Consensus       117 ~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq~  193 (455)
                      +..++..++..|+++.+.+..++..++.+..+++.+-.+.-.....++....+.+...+.++.++......+.+++.
T Consensus        58 Ee~~l~~eL~~LE~e~~~l~~el~~le~e~~~l~~eE~~~~~~~n~~~~~l~~~~~e~~sl~~q~~~~~~~L~~L~k  134 (314)
T PF04111_consen   58 EEEELLQELEELEKEREELDQELEELEEELEELDEEEEEYWREYNELQLELIEFQEERDSLKNQYEYASNQLDRLRK  134 (314)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            33444444455555555555555555555555555555555555666666666666666666666666666766654

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.

>PF05384 DegS: Sensor protein DegS; InterPro: IPR008595 This is a group of Bacillus DegS proteins

Probab=96.26  E-value=1  Score=42.08  Aligned_cols=128  Identities=16%  Similarity=0.278  Sum_probs=68.4

Q ss_pred             HHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           50 LKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLK  129 (455)
Q Consensus        50 lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eLe~qIe~Lk  129 (455)
                      .+.++..++.++.++..++...-.+...++..-......+.+.+....       ...++.+-.|-++..++.-++.-++
T Consensus        25 ~R~E~~~l~~EL~evk~~v~~~I~evD~Le~~er~aR~rL~eVS~~f~-------~ysE~dik~AYe~A~~lQ~~L~~~r   97 (159)
T PF05384_consen   25 ARQEYERLRKELEEVKEEVSEVIEEVDKLEKRERQARQRLAEVSRNFD-------RYSEEDIKEAYEEAHELQVRLAMLR   97 (159)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc-------ccCHHHHHHHHHHHHHHHHHHHHHH
Confidence            455555555555555555444444444444444444444444444333       2235566666666666666666666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          130 KESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVA  184 (455)
Q Consensus       130 keLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~l  184 (455)
                      .+-..+......|+-++..++.-+...+..+..+.-.++=+...+..+...++.+
T Consensus        98 e~E~qLr~rRD~LErrl~~l~~tierAE~l~sqi~vvl~yL~~dl~~v~~~~e~~  152 (159)
T PF05384_consen   98 EREKQLRERRDELERRLRNLEETIERAENLVSQIGVVLNYLSGDLQQVSEQIEDA  152 (159)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            6666666666666666666655555555555555555554444444444444443

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

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

Probab=96.23  E-value=0.9  Score=48.79  Aligned_cols=43  Identities=14%  Similarity=0.324  Sum_probs=32.3

Q ss_pred             cchhHhHHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          337 KPHVDNVRVALKPYTKKVVRAYGKFLKSATTYHHQVQASVQEM  379 (455)
Q Consensus       337 ~p~~~~~~~~~~P~~~~v~~~~~~~~~~a~~~h~q~q~~~~~~  379 (455)
                      .=-+|++...+--|-.++....--++.-++.+|--+|+++.|.
T Consensus       564 ~i~ld~~~~~~n~~r~~i~k~V~~v~~~~~~fk~~IQssledl  606 (622)
T COG5185         564 EIKLDELKVDLNRKRYKIHKQVIHVIDITSKFKINIQSSLEDL  606 (622)
T ss_pred             HhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHhhHHHH
Confidence            3345677777777777777777777888888998899888764

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

Probab=96.22  E-value=1.7  Score=49.51  Aligned_cols=88  Identities=19%  Similarity=0.277  Sum_probs=42.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhhh---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           81 AIQDKSERIVSLQKELSSLQKKETLN---AAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLS  157 (455)
Q Consensus        81 ~I~e~e~~I~eLq~eI~sLQkK~s~~---~~eei~~Ae~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~Ele  157 (455)
                      ++.+++..+.+++.+++.++......   .++.-..++....++..|+..++-.+-..+...+.+..+++++|++-.++.
T Consensus       285 ElSqkeelVk~~qeeLd~lkqt~t~a~gdseqatkylh~enmkltrqkadirc~LlEarrk~egfddk~~eLEKkrd~al  364 (1265)
T KOG0976|consen  285 ELSQKEELVKELQEELDTLKQTRTRADGDSEQATKYLHLENMKLTRQKADIRCALLEARRKAEGFDDKLNELEKKRDMAL  364 (1265)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHH
Confidence            33444445555555555554322111   122222344455555566666665555555555555555666665555554


Q ss_pred             HHHHHHHHHHH
Q 012833          158 AKLEKLQKIND  168 (455)
Q Consensus       158 skveeLek~~e  168 (455)
                      ..+..++..++
T Consensus       365 ~dvr~i~e~k~  375 (1265)
T KOG0976|consen  365 MDVRSIQEKKE  375 (1265)
T ss_pred             HhHHHHHHHHH
Confidence            44444444333

>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=96.22  E-value=0.85  Score=40.86  Aligned_cols=60  Identities=23%  Similarity=0.322  Sum_probs=24.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          125 IDNLKKESEKQQKEKEALEARAIEAEKKISDLS----AKLEKLQKINDEQKSKIRKTERALKVA  184 (455)
Q Consensus       125 Ie~LkkeLE~~~~e~eeLEae~~elEkkl~Ele----skveeLek~~eEqekkI~elE~~Lq~l  184 (455)
                      +..++.++...+..+..+...+..+...+...+    .....|+..+.+.+.+++++..+-.-+
T Consensus        61 L~~lr~e~~~~~~~~~~l~~~~~~a~~~l~~~e~sw~~qk~~le~e~~~~~~r~~dL~~QN~lL  124 (132)
T PF07926_consen   61 LQQLREELQELQQEINELKAEAESAKAELEESEASWEEQKEQLEKELSELEQRIEDLNEQNKLL  124 (132)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333444444444444444444333333332222    223334444444444444444443333

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

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

Probab=96.21  E-value=0.93  Score=52.02  Aligned_cols=39  Identities=13%  Similarity=0.243  Sum_probs=19.4

Q ss_pred             HHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 012833           63 EKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQK  101 (455)
Q Consensus        63 ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQk  101 (455)
                      .+.++++.+..|+.++...-+.++.++..+++.|.+++.
T Consensus       400 K~~kelE~k~sE~~eL~r~kE~Lsr~~d~aEs~iadlkE  438 (1243)
T KOG0971|consen  400 KLQKELEKKNSELEELRRQKERLSRELDQAESTIADLKE  438 (1243)
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444555555555555555555555555555555543

>TIGR03007 pepcterm_ChnLen polysaccharide chain length determinant protein, PEP-CTERM locus subfamily

Probab=96.20  E-value=0.65  Score=49.95  Aligned_cols=22  Identities=9%  Similarity=0.217  Sum_probs=9.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q 012833          171 KSKIRKTERALKVAEEEMMRAK  192 (455)
Q Consensus       171 ekkI~elE~~Lq~lEeeL~kaq  192 (455)
                      +.++..++++.+..+..+..+.
T Consensus       354 ~~el~~L~Re~~~~~~~Y~~l~  375 (498)
T TIGR03007       354 EAELTQLNRDYEVNKSNYEQLL  375 (498)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444444443333

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.

>TIGR02680 conserved hypothetical protein TIGR02680

Probab=96.13  E-value=0.98  Score=54.94  Aligned_cols=33  Identities=18%  Similarity=0.224  Sum_probs=23.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhcccCcccccc
Q 012833          360 KFLKSATTYHHQVQASVQEMLKKHELTSPLATK  392 (455)
Q Consensus       360 ~~~~~a~~~h~q~q~~~~~~l~~~e~~~~~a~~  392 (455)
                      +++..+-..=.-.|+.|...|..-.|+-.|.+-
T Consensus       606 ~l~df~e~v~~~~ra~IEaAL~~~GLLDA~v~p  638 (1353)
T TIGR02680       606 QLVDFADDVPADVRAGLEAALEAAGLLDAWVTA  638 (1353)
T ss_pred             hheecCCCCCHHHHHHHHHHHHHCCCcceeeCC
Confidence            344444444456789999999999999887443

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.

>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=96.13  E-value=1.5  Score=42.69  Aligned_cols=127  Identities=17%  Similarity=0.216  Sum_probs=55.9

Q ss_pred             HHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           50 LKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLK  129 (455)
Q Consensus        50 lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eLe~qIe~Lk  129 (455)
                      ++.++...+.++.++...+..+.....+....|.+.++.|..+-.+-                  +.+-...+.++.++.
T Consensus        14 ~~~e~~~~E~e~~~l~~k~~e~~~~~~~m~~i~~e~Ek~i~~~i~e~------------------~~~~~~~~~~i~~~~   75 (207)
T PF05010_consen   14 VQEEVAEKEEEEQELKKKYEELHKENQEMRKIMEEYEKTIAQMIEEK------------------QKQKELSEAEIQKLL   75 (207)
T ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH------------------HhhHHhHHHHHHHHH
Confidence            44444444444455555555544444445555555554444433321                  111222233444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          130 KESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFE  194 (455)
Q Consensus       130 keLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq~E  194 (455)
                      .+.+....++..++.-..++-.+......-++.+...-+.+.+.+.++...+...+..+..++..
T Consensus        76 ~erdq~~~dL~s~E~sfsdl~~ryek~K~vi~~~k~NEE~Lkk~~~ey~~~l~~~eqry~aLK~h  140 (207)
T PF05010_consen   76 KERDQAYADLNSLEKSFSDLHKRYEKQKEVIEGYKKNEETLKKCIEEYEERLKKEEQRYQALKAH  140 (207)
T ss_pred             hhHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444444444444444444444444444444444444444444444444444444444444433

The human TACC proteins have been linked to cancer and TACC2 has been identified as a possible tumour suppressor (AZU-1) [].

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

Probab=96.11  E-value=1.3  Score=51.00  Aligned_cols=33  Identities=21%  Similarity=0.323  Sum_probs=19.2

Q ss_pred             CCCccHHHHHHHHHHHHHHHHHHHHHHHhhhch
Q 012833           39 DSSPLKIELDQLKSKIRSLESHIDEKTQELKGK   71 (455)
Q Consensus        39 ~~~~l~~eL~~lr~kI~~Leski~ele~eI~~k   71 (455)
                      .+..+++++.+|..++..|+-+.+|=...+.++
T Consensus       225 te~eLr~QvrdLtEkLetlR~kR~EDk~Kl~El  257 (1243)
T KOG0971|consen  225 TEEELRAQVRDLTEKLETLRLKRAEDKAKLKEL  257 (1243)
T ss_pred             chHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHH
Confidence            334477777777777776665555444444433

>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=96.09  E-value=1  Score=44.57  Aligned_cols=80  Identities=18%  Similarity=0.303  Sum_probs=35.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          114 AHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKF  193 (455)
Q Consensus       114 Ae~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq~  193 (455)
                      .+.++..+...++.++++++..+..+.++...+......+.......+.......+....+...+..+..++..+...+.
T Consensus        68 ~~~r~~~l~~~i~~~~~~i~~~r~~l~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~l~~~r~  147 (302)
T PF10186_consen   68 LRERLERLRERIERLRKRIEQKRERLEELRESLEQRRSRLSASQDLVESRQEQLEELQNELEERKQRLSQLQSQLARRRR  147 (302)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344444444444444444444444444444444333333333333444444444444445555554444444444433

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

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

Probab=96.07  E-value=1.2  Score=54.78  Aligned_cols=125  Identities=21%  Similarity=0.269  Sum_probs=72.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           74 VVAQKEKAIQDKSERIVSLQKELSSLQKKETLN------AAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAI  147 (455)
Q Consensus        74 eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~------~~eei~~Ae~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~  147 (455)
                      .+..+.+.|.-...++.+|...-..++.-+...      ...++..++..+..++.+++.|+++..-+..-...|-.+..
T Consensus       690 kle~L~~~ie~~K~e~~tL~er~~~l~~~i~~~~q~~~~~s~eL~~a~~k~~~le~ev~~LKqE~~ll~~t~~rL~~e~~  769 (1822)
T KOG4674|consen  690 KLENLEKNLELTKEEVETLEERNKNLQSTISKQEQTVHTLSQELLSANEKLEKLEAELSNLKQEKLLLKETEERLSQELE  769 (1822)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444444444444444444333322      22366677778888888888888777777777777777777


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHhhh
Q 012833          148 EAEKKISDLSAKLEKLQKINDEQKSKI----RKTERALKVAEEEMMRAKFEATSR  198 (455)
Q Consensus       148 elEkkl~EleskveeLek~~eEqekkI----~elE~~Lq~lEeeL~kaq~E~~~~  198 (455)
                      .+..+...+...+..++.....++.-.    +.++.++..++.++.+++......
T Consensus       770 ~l~~e~~~L~~~l~~lQt~~~~~e~s~~~~k~~~e~~i~eL~~el~~lk~klq~~  824 (1822)
T KOG4674|consen  770 KLSAEQESLQLLLDNLQTQKNELEESEMATKDKCESRIKELERELQKLKKKLQEK  824 (1822)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            777777777776666666555433322    334445555555555555544433

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

Probab=96.06  E-value=0.91  Score=53.26  Aligned_cols=51  Identities=22%  Similarity=0.268  Sum_probs=27.0

Q ss_pred             HHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 012833           53 KIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKE  103 (455)
Q Consensus        53 kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~  103 (455)
                      -|.+..+.|....+.|...+++...-|.......+.+.+|...++.|+.+.
T Consensus      1585 ai~~a~~~~~~a~~~l~kv~~~t~~aE~~~~~a~q~~~eL~~~~e~lk~~~ 1635 (1758)
T KOG0994|consen 1585 AIQGADRDIRLAQQLLAKVQEETAAAEKLATSATQQLGELETRMEELKHKA 1635 (1758)
T ss_pred             HHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444455555555555555555555556666666655555444

>PRK11281 hypothetical protein; Provisional

Probab=96.04  E-value=1.1  Score=53.32  Aligned_cols=112  Identities=14%  Similarity=0.181  Sum_probs=47.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHH
Q 012833           78 KEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQ--------QKEKEALEARAIEA  149 (455)
Q Consensus        78 ~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eLe~qIe~LkkeLE~~--------~~e~eeLEae~~el  149 (455)
                      +|..+.+.+.++++.+..++++++.... .+.+-..+.+++.+...+++.+.+++...        ......++++..-+
T Consensus       126 LEq~L~q~~~~Lq~~Q~~La~~NsqLi~-~qT~PERAQ~~lsea~~RlqeI~~~L~~~~~~~~~l~~~~~~~l~ae~~~l  204 (1113)
T PRK11281        126 LESRLAQTLDQLQNAQNDLAEYNSQLVS-LQTQPERAQAALYANSQRLQQIRNLLKGGKVGGKALRPSQRVLLQAEQALL  204 (1113)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHh-hhcchHHHHHHHHHHHHHHHHHHHHHhCCCCCCCcCCHHHHHHHHHHHHHH
Confidence            3334444444444444444444333322 23334444444444444444444444321        12233344444444


Q ss_pred             HHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          150 EKKISDLSAK-------LEKLQKINDEQKSKIRKTERALKVAEEEMMR  190 (455)
Q Consensus       150 Ekkl~Elesk-------veeLek~~eEqekkI~elE~~Lq~lEeeL~k  190 (455)
                      +.+.......       .+-.+...+....+++.++..++.+++.+..
T Consensus       205 ~~~~~~~~~~l~~~~~l~~l~~~q~d~~~~~~~~~~~~~~~lq~~in~  252 (1113)
T PRK11281        205 NAQNDLQRKSLEGNTQLQDLLQKQRDYLTARIQRLEHQLQLLQEAINS  252 (1113)
T ss_pred             HHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4333333333       3333444444445555555555555544444

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

Probab=95.97  E-value=0.44  Score=42.45  Aligned_cols=7  Identities=43%  Similarity=0.785  Sum_probs=2.5

Q ss_pred             HHHHHHH
Q 012833           50 LKSKIRS   56 (455)
Q Consensus        50 lr~kI~~   56 (455)
                      +.+.|.+
T Consensus        21 L~s~lr~   27 (120)
T PF12325_consen   21 LQSQLRR   27 (120)
T ss_pred             HHHHHHH
Confidence            3333333

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 [].

>KOG0963 consensus Transcription factor/CCAAT displacement protein CDP1 [Transcription]

Probab=95.96  E-value=1.4  Score=48.67  Aligned_cols=121  Identities=23%  Similarity=0.333  Sum_probs=67.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHH-----------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           78 KEKAIQDKSERIVSLQKELSSLQKKETLNAAE-----------------QVDKAHARADELEKQIDNLKKESEKQQKEKE  140 (455)
Q Consensus        78 ~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~e-----------------ei~~Ae~~i~eLe~qIe~LkkeLE~~~~e~e  140 (455)
                      ....+...++.|..|+..|...+++.......                 ++..++.+|..|+.+++.|..++...+....
T Consensus       194 ~~~q~~~le~ki~~lq~a~~~t~~el~~~~s~~dee~~~k~aev~lim~eLe~aq~ri~~lE~e~e~L~~ql~~~N~~~~  273 (629)
T KOG0963|consen  194 LQEQLEELEKKISSLQSAIEDTQNELFDLKSKYDEEVAAKAAEVSLIMTELEDAQQRIVFLEREVEQLREQLAKANSSKK  273 (629)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhh
Confidence            34455555566666666655555544333111                 4555666666666666666655555443332


Q ss_pred             --------HHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 012833          141 --------ALEARAIEAEKKISDLSAKLE----KLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSR  198 (455)
Q Consensus       141 --------eLEae~~elEkkl~Eleskve----eLek~~eEqekkI~elE~~Lq~lEeeL~kaq~E~~~~  198 (455)
                              .+...+...+..+..+...++    .+....+....+|..++..+.....+++.++..++..
T Consensus       274 ~~~~~~i~~~~~~L~~kd~~i~~L~~di~~~~~S~~~e~e~~~~qI~~le~~l~~~~~~leel~~kL~~~  343 (629)
T KOG0963|consen  274 LAKIDDIDALGSVLNQKDSEIAQLSNDIERLEASLVEEREKHKAQISALEKELKAKISELEELKEKLNSR  343 (629)
T ss_pred             hccCCchHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence                    333334444555555444443    3444555666777777777777777777776666543

>PRK10929 putative mechanosensitive channel protein; Provisional

Probab=95.93  E-value=0.89  Score=54.00  Aligned_cols=64  Identities=8%  Similarity=0.070  Sum_probs=40.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhh
Q 012833          139 KEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKEL  202 (455)
Q Consensus       139 ~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq~E~~~~a~ei  202 (455)
                      ...++++..-++.++..++......+...+-.+.+.+-...+++..+.+++.++...+.+..+.
T Consensus       175 ~~~lqae~~~l~~~~~~l~~~l~s~~~~~~L~~~q~dl~~~~~~~l~~~~~~Lq~~in~kR~~~  238 (1109)
T PRK10929        175 LTALQAESAALKALVDELELAQLSANNRQELARLRSELAKKRSQQLDAYLQALRNQLNSQRQRE  238 (1109)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3455566666666666666666666666666666666666666666666666666666554444

>TIGR03017 EpsF chain length determinant protein EpsF

Probab=95.90  E-value=2.7  Score=44.49  Aligned_cols=15  Identities=13%  Similarity=0.233  Sum_probs=6.0

Q ss_pred             HHHHHHHHHHHHHHH
Q 012833          114 AHARADELEKQIDNL  128 (455)
Q Consensus       114 Ae~~i~eLe~qIe~L  128 (455)
                      +..++.+++.++..+
T Consensus       259 l~~~l~~le~~l~~l  273 (444)
T TIGR03017       259 LKTDIARAESKLAEL  273 (444)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            334444444443333

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.

>PF04582 Reo_sigmaC: Reovirus sigma C capsid protein; InterPro: IPR007662 Protein sigmaC in its native state was shown to be a homotrimer

Probab=95.89  E-value=0.015  Score=59.53  Aligned_cols=124  Identities=17%  Similarity=0.280  Sum_probs=20.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHH
Q 012833           47 LDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQID  126 (455)
Q Consensus        47 L~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eLe~qIe  126 (455)
                      |..++.++..|+..+..+...+......|.+++..|......|.+++.+|.++..               .|..++..+.
T Consensus        30 Ls~I~eRLsaLEssv~sL~~SVs~lss~iSdLss~L~~l~~sl~~~~s~L~sLss---------------tV~~lq~Sl~   94 (326)
T PF04582_consen   30 LSPIRERLSALESSVASLSDSVSSLSSTISDLSSDLQDLASSLADMTSELNSLSS---------------TVTSLQSSLS   94 (326)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------------HHHHHHHHHH
Confidence            3444455555555555444444444444444444444444444444444444432               2222333344


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          127 NLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAE  185 (455)
Q Consensus       127 ~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lE  185 (455)
                      .+...+..+...+...+..+..+...++.+...+.+|+..+..+.-.|..++++++.+|
T Consensus        95 ~lsssVs~lS~~ls~h~ssIS~Lqs~v~~lsTdvsNLksdVSt~aL~ItdLe~RV~~LE  153 (326)
T PF04582_consen   95 SLSSSVSSLSSTLSDHSSSISDLQSSVSALSTDVSNLKSDVSTQALNITDLESRVKALE  153 (326)
T ss_dssp             -----------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhhhHHhhhhhhhhhhhhHHHHHHhhhhhhhhhhhhhhhhhhhcchHhhHHHHHHHHh
Confidence            44444444444444444444445455555555555555555555555555555555443

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.

>PF15397 DUF4618: Domain of unknown function (DUF4618)

Probab=95.84  E-value=2.3  Score=42.63  Aligned_cols=30  Identities=17%  Similarity=0.173  Sum_probs=14.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 012833          169 EQKSKIRKTERALKVAEEEMMRAKFEATSR  198 (455)
Q Consensus       169 EqekkI~elE~~Lq~lEeeL~kaq~E~~~~  198 (455)
                      ...+.+....+.++.++++|..++.+...+
T Consensus       190 ~m~kei~~~re~i~el~e~I~~L~~eV~~L  219 (258)
T PF15397_consen  190 VMQKEIVQFREEIDELEEEIPQLRAEVEQL  219 (258)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444444445555555444443

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

Probab=95.83  E-value=1.1  Score=52.82  Aligned_cols=95  Identities=20%  Similarity=0.249  Sum_probs=57.8

Q ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHhhhhhhHHHHHHHHHHHHHHH
Q 012833           43 LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQ-KELSSLQKKETLNAAEQVDKAHARADEL  121 (455)
Q Consensus        43 l~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq-~eI~sLQkK~s~~~~eei~~Ae~~i~eL  121 (455)
                      +.+.+.+....+..+..+...+    ++++...++++..|.++.....+++ .++..+|...+.. +++....+++...+
T Consensus       439 le~~l~~~~~~~~~~~~~~~~~----~~~~~~~keL~e~i~~lk~~~~el~~~q~~l~q~~~ke~-~ek~~~~~~~~~~l  513 (1317)
T KOG0612|consen  439 LEQSLVNEMQEKEKLDEKCQAV----AELEEMDKELEETIEKLKSEESELQREQKALLQHEQKEV-EEKLSEEEAKKRKL  513 (1317)
T ss_pred             cccchhhHHHHhhhHHHHHHHH----hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHH-HHHHHHHHHHHHHH
Confidence            3333333334444444444333    3666777778888888877777777 4666666665553 55666667777777


Q ss_pred             HHHHHHHHHHHHHHHHHHHHH
Q 012833          122 EKQIDNLKKESEKQQKEKEAL  142 (455)
Q Consensus       122 e~qIe~LkkeLE~~~~e~eeL  142 (455)
                      ..++..++.+++..+......
T Consensus       514 ~~~~~~~~eele~~q~~~~~~  534 (1317)
T KOG0612|consen  514 EALVRQLEEELEDAQKKNDNA  534 (1317)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            777777777666665544433

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

Probab=95.82  E-value=0.57  Score=51.37  Aligned_cols=142  Identities=15%  Similarity=0.210  Sum_probs=67.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHhhhhhhHHHHHHHHH
Q 012833           44 KIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDK--------SERIVSLQKELSSLQKKETLNAAEQVDKAH  115 (455)
Q Consensus        44 ~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~--------e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae  115 (455)
                      +.+|.+|+..|+..-.++.-++.+=..++.+|..+......-        +.+|.+.-.-|++..++.... +.++..+.
T Consensus        41 K~El~~LNDRLA~YIekVR~LEaqN~~L~~di~~lr~~~~~~ts~ik~~ye~El~~ar~~l~e~~~~ra~~-e~ei~kl~  119 (546)
T KOG0977|consen   41 KKELQELNDRLAVYIEKVRFLEAQNRKLEHDINLLRGVVGRETSGIKAKYEAELATARKLLDETARERAKL-EIEITKLR  119 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCcchhHHhhhhHHHHHHHHHHHHHHHHHH-HHHHHHhH
Confidence            445555555555555555444444444444444444332222        223333333333332222221 22333344


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          116 ARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEE  186 (455)
Q Consensus       116 ~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEe  186 (455)
                      .++.++.....+..+....-..++..+...+.+++.+++-+...+..++.++..+..++..+...|..+..
T Consensus       120 ~e~~elr~~~~~~~k~~~~~re~~~~~~~~l~~leAe~~~~krr~~~le~e~~~Lk~en~rl~~~l~~~r~  190 (546)
T KOG0977|consen  120 EELKELRKKLEKAEKERRGAREKLDDYLSRLSELEAEINTLKRRIKALEDELKRLKAENSRLREELARARK  190 (546)
T ss_pred             HHHHHHHHHHHHHHHHHhhhHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHH
Confidence            44444444444444444444444455555566666666666666666666666666666666665555543

>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=95.81  E-value=1.2  Score=49.14  Aligned_cols=20  Identities=10%  Similarity=0.346  Sum_probs=10.7

Q ss_pred             cHHHHHHHHHHHHHHHHHHH
Q 012833           43 LKIELDQLKSKIRSLESHID   62 (455)
Q Consensus        43 l~~eL~~lr~kI~~Leski~   62 (455)
                      ...++++++.++.+....+.
T Consensus       250 i~~~i~~i~~~l~~~~~~L~  269 (560)
T PF06160_consen  250 IEEEIEQIEEQLEEALALLK  269 (560)
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            44566666655555544443

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

>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=95.81  E-value=0.69  Score=40.33  Aligned_cols=33  Identities=33%  Similarity=0.550  Sum_probs=13.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          117 RADELEKQIDNLKKESEKQQKEKEALEARAIEA  149 (455)
Q Consensus       117 ~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~el  149 (455)
                      ++.+|+.+|+++...++..+.-+..++.++...
T Consensus        59 r~~eLqaki~ea~~~le~eK~ak~~l~~r~~k~   91 (107)
T PF09304_consen   59 RIAELQAKIDEARRNLEDEKQAKLELESRLLKA   91 (107)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444444444333333333333333

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.

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

Probab=95.78  E-value=2.4  Score=50.17  Aligned_cols=41  Identities=24%  Similarity=0.285  Sum_probs=29.4

Q ss_pred             HhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 012833           66 QELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLN  106 (455)
Q Consensus        66 ~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~  106 (455)
                      ++++..++...+.+..++.++.++.+++.+++.+|++....
T Consensus       494 ~~~ke~~ek~~~~~~~~~~l~~~~~~~~eele~~q~~~~~~  534 (1317)
T KOG0612|consen  494 HEQKEVEEKLSEEEAKKRKLEALVRQLEEELEDAQKKNDNA  534 (1317)
T ss_pred             HhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55666666677777777777777888888887777666554

>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=95.78  E-value=1.3  Score=43.91  Aligned_cols=24  Identities=21%  Similarity=0.396  Sum_probs=11.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhc
Q 012833           47 LDQLKSKIRSLESHIDEKTQELKG   70 (455)
Q Consensus        47 L~~lr~kI~~Leski~ele~eI~~   70 (455)
                      |..++.++.++....+.+..+|++
T Consensus        22 L~~~~~~l~~~~~~~~~l~~~i~~   45 (302)
T PF10186_consen   22 LLELRSELQQLKEENEELRRRIEE   45 (302)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444444444444444444444433

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

>KOG0963 consensus Transcription factor/CCAAT displacement protein CDP1 [Transcription]

Probab=95.74  E-value=1  Score=49.87  Aligned_cols=23  Identities=17%  Similarity=0.398  Sum_probs=10.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhc
Q 012833           48 DQLKSKIRSLESHIDEKTQELKG   70 (455)
Q Consensus        48 ~~lr~kI~~Leski~ele~eI~~   70 (455)
                      ..++.++..++++|+.+...|.+
T Consensus       192 ~~~~~q~~~le~ki~~lq~a~~~  214 (629)
T KOG0963|consen  192 QNLQEQLEELEKKISSLQSAIED  214 (629)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHh
Confidence            33444444444444444443333

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

Probab=95.73  E-value=1.1  Score=52.25  Aligned_cols=68  Identities=13%  Similarity=0.213  Sum_probs=30.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          116 ARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKV  183 (455)
Q Consensus       116 ~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~  183 (455)
                      .++..+|.+...-+..++.......+++++...++..+.+.......|...+.+......++...++.
T Consensus       381 ~el~~ln~~~r~~~~~ld~~~~~~~elE~r~k~l~~sver~~~~~~~L~~~i~s~~~~~~e~~~d~~~  448 (1141)
T KOG0018|consen  381 EELEVLNRNMRSDQDTLDHELERRAELEARIKQLKESVERLDKRRNKLAAKITSLSRSYEELKHDLDS  448 (1141)
T ss_pred             HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcHHH
Confidence            34444444444444444444444445555555544444444444443433333333333333333333

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

Probab=95.68  E-value=0.65  Score=41.35  Aligned_cols=23  Identities=26%  Similarity=0.413  Sum_probs=10.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q 012833           78 KEKAIQDKSERIVSLQKELSSLQ  100 (455)
Q Consensus        78 ~e~~I~e~e~~I~eLq~eI~sLQ  100 (455)
                      +...|+.++.++..++.++..++
T Consensus        21 L~s~lr~~E~E~~~l~~el~~l~   43 (120)
T PF12325_consen   21 LQSQLRRLEGELASLQEELARLE   43 (120)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444444444443

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 [].

>PF04582 Reo_sigmaC: Reovirus sigma C capsid protein; InterPro: IPR007662 Protein sigmaC in its native state was shown to be a homotrimer

Probab=95.67  E-value=0.021  Score=58.53  Aligned_cols=60  Identities=20%  Similarity=0.350  Sum_probs=0.0

Q ss_pred             ccHHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 012833           42 PLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQK  101 (455)
Q Consensus        42 ~l~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQk  101 (455)
                      ++..+|..++.-+..|...+..+.+.|.++...|..+...|.+....|..++.+|..++.
T Consensus        32 ~I~eRLsaLEssv~sL~~SVs~lss~iSdLss~L~~l~~sl~~~~s~L~sLsstV~~lq~   91 (326)
T PF04582_consen   32 PIRERLSALESSVASLSDSVSSLSSTISDLSSDLQDLASSLADMTSELNSLSSTVTSLQS   91 (326)
T ss_dssp             ------------------------------------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344445554444444444444444444444444444444444444444444444444443

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.

>PRK10884 SH3 domain-containing protein; Provisional

Probab=95.67  E-value=0.23  Score=48.06  Aligned_cols=50  Identities=14%  Similarity=0.257  Sum_probs=23.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          144 ARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKF  193 (455)
Q Consensus       144 ae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq~  193 (455)
                      ++..++..++++.++.+.+|+.++++++.++..++.++..++.++...+.
T Consensus       118 ~~~~~l~~~~~~~~~~~~~L~~~n~~L~~~l~~~~~~~~~l~~~~~~~~~  167 (206)
T PRK10884        118 QRTAEMQQKVAQSDSVINGLKEENQKLKNQLIVAQKKVDAANLQLDDKQR  167 (206)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333444444444444445555555555555555554444444444443

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

Probab=95.60  E-value=1.7  Score=49.34  Aligned_cols=54  Identities=20%  Similarity=0.314  Sum_probs=34.9

Q ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           43 LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKEL   96 (455)
Q Consensus        43 l~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI   96 (455)
                      .+.+|..|+.++..++.++..+..-|....+++++.+..|++.+..+..+.+++
T Consensus       104 ~~sQiriLQn~c~~lE~ekq~lQ~ti~~~q~d~ke~etelE~~~srlh~le~eL  157 (1265)
T KOG0976|consen  104 HESQIRILQNKCLRLEMEKQKLQDTIQGAQDDKKENEIEIENLNSRLHKLEDEL  157 (1265)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            456666677777777777776666666666666666666666665555554444

>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=95.59  E-value=2.2  Score=49.58  Aligned_cols=40  Identities=30%  Similarity=0.488  Sum_probs=25.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHH
Q 012833           44 KIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQ   83 (455)
Q Consensus        44 ~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~   83 (455)
                      -.+|-+++.+-.+|+.....-+..|+.+.+++..++..++
T Consensus       180 h~eL~~lr~~e~~Le~~~~~~~~~l~~L~~~~~~l~kdVE  219 (1072)
T KOG0979|consen  180 HIELMDLREDEKSLEDKLTTKTEKLNRLEDEIDKLEKDVE  219 (1072)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence            3456666666666666666666666666666666655544

>PF09755 DUF2046: Uncharacterized conserved protein H4 (DUF2046); InterPro: IPR019152 This is the conserved N-terminal 350 residues of a family of proteins of unknown function possibly containing a coiled-coil domain

Probab=95.56  E-value=3.3  Score=42.48  Aligned_cols=100  Identities=18%  Similarity=0.203  Sum_probs=43.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHH
Q 012833          113 KAHARADELEKQIDNLKKESEKQQ-KEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIR-KTERALKVAEEEMMR  190 (455)
Q Consensus       113 ~Ae~~i~eLe~qIe~LkkeLE~~~-~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~-elE~~Lq~lEeeL~k  190 (455)
                      .+..++..+..+...|...++.-. .....|..++..++.........++.|.....+++..+. +.+.-+..+...+.+
T Consensus       110 ~L~rkl~qLr~EK~~lE~~Le~EqE~~V~kL~k~i~~Le~e~~~~q~~le~Lr~EKVdlEn~LE~EQE~lvN~L~Kqm~~  189 (310)
T PF09755_consen  110 DLSRKLNQLRQEKVELENQLEQEQEYLVNKLQKKIERLEKEKSAKQEELERLRREKVDLENTLEQEQEALVNRLWKQMDK  189 (310)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence            444455555555555555554422 223344444444444444444444444444444443332 222222333444445


Q ss_pred             HHHHHhhhhHhhhhhccccCCh
Q 012833          191 AKFEATSRSKELTEVHSAWLPP  212 (455)
Q Consensus       191 aq~E~~~~a~ei~~~gGawl~P  212 (455)
                      +..+...++.++..++.....|
T Consensus       190 l~~eKr~Lq~~l~~~~s~~~s~  211 (310)
T PF09755_consen  190 LEAEKRRLQEKLEQPVSAPPSP  211 (310)
T ss_pred             HHHHHHHHHHHHccccCCCCCc
Confidence            5555555555554444333333

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

Probab=95.50  E-value=0.0037  Score=72.02  Aligned_cols=100  Identities=20%  Similarity=0.325  Sum_probs=0.0

Q ss_pred             HHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           61 IDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKE  140 (455)
Q Consensus        61 i~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eLe~qIe~LkkeLE~~~~e~e  140 (455)
                      +.++..+|+........++..-...+..+.+|...++++++.... .+.....++.++.+++..++.....+..+...+.
T Consensus       133 ~~eL~eqle~lqk~k~~lEK~k~~l~~e~~dL~~~l~~~~k~k~~-~Ek~~K~lE~qL~El~~klee~er~~~el~~~k~  211 (859)
T PF01576_consen  133 VAELNEQLEQLQKQKAKLEKEKSQLEAELDDLQAQLDSLQKAKQE-AEKKRKQLEAQLNELQAKLEESERQRNELTEQKA  211 (859)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH-HHhHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444444444445555555555555555555432222 1333334444444444444444444444444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHH
Q 012833          141 ALEARAIEAEKKISDLSAKLE  161 (455)
Q Consensus       141 eLEae~~elEkkl~Eleskve  161 (455)
                      .+.++..++...+.+.+..+.
T Consensus       212 kL~~E~~eL~~qLee~e~~~~  232 (859)
T PF01576_consen  212 KLQSENSELTRQLEEAESQLS  232 (859)
T ss_dssp             ---------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            444443333333333333333

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.

>KOG4360 consensus Uncharacterized coiled coil protein [Function unknown]

Probab=95.48  E-value=1.7  Score=47.14  Aligned_cols=51  Identities=24%  Similarity=0.253  Sum_probs=32.7

Q ss_pred             HHHHHHHHHHHHHHhcccCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHH-HHhhhc
Q 012833          368 YHHQVQASVQEMLKKHELTSPLATKELEWFAQSKLLVIQLLQASALLVLPVIILFRIGS-AIFCKK  432 (455)
Q Consensus       368 ~h~q~q~~~~~~l~~~e~~~~~a~~el~w~~~~~~~~~~~~~asal~~~p~~~~~~~~~-~~~~~~  432 (455)
                      +-...|..|+..-.+-|+.++=+|.--  ++            .-|.++|=|-=+--++ +.||.+
T Consensus       459 ~~~e~q~~~q~l~~q~~l~sgs~t~t~--~l------------~~l~t~~~f~E~~~~e~~asc~R  510 (596)
T KOG4360|consen  459 FLEEMQRKVQTLAQQPELSSGSATPTE--SL------------VSLETLPGFSETTAEELRASCRR  510 (596)
T ss_pred             ccHHHHHHHHHHHhcCCCCCCCCCCCc--hh------------hhhhcccchHHHHHHHHHHHHHh
Confidence            344677788888888899888877532  22            2355666555555555 678843

>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]

Probab=95.48  E-value=3.2  Score=46.96  Aligned_cols=94  Identities=26%  Similarity=0.273  Sum_probs=53.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          111 VDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMR  190 (455)
Q Consensus       111 i~~Ae~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~k  190 (455)
                      .+.....++.++.+...+.........++..+...+....+...++....+.|+...+...+++.+++........++..
T Consensus       519 ~~~~~~~i~~leeq~~~lt~~~~~l~~el~~~~~~le~~kk~~~e~~~~~~~Lq~~~ek~~~~le~i~~~~~e~~~ele~  598 (698)
T KOG0978|consen  519 VDKLELKIGKLEEQERGLTSNESKLIKELTTLTQSLEMLKKKAQEAKQSLEDLQIELEKSEAKLEQIQEQYAELELELEI  598 (698)
T ss_pred             HHHHHHHHHHHHHHHHHhhHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444445555555555555555555555555555555556666666666666666666666666666666666666666


Q ss_pred             HHHHHhhhhHhhhh
Q 012833          191 AKFEATSRSKELTE  204 (455)
Q Consensus       191 aq~E~~~~a~ei~~  204 (455)
                      .......+..++..
T Consensus       599 ~~~k~~rleEE~e~  612 (698)
T KOG0978|consen  599 EKFKRKRLEEELER  612 (698)
T ss_pred             HHHHHHHHHHHHHH
Confidence            65555555544444

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

Probab=95.44  E-value=0.004  Score=71.74  Aligned_cols=159  Identities=21%  Similarity=0.318  Sum_probs=0.0

Q ss_pred             ccHHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh-------------HH
Q 012833           42 PLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLN-------------AA  108 (455)
Q Consensus        42 ~l~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~-------------~~  108 (455)
                      .+..+++..+..+..++.....+..++++...++..........++....+...+.....+....             ..
T Consensus       332 el~e~le~~~~~~~~LeK~k~rL~~EleDl~~eLe~~~~~~~~LeKKqr~fDk~l~e~k~~~~~~~~e~d~~q~e~r~~~  411 (859)
T PF01576_consen  332 ELQEQLEEANAKVSSLEKTKKRLQGELEDLTSELEKAQAAAAELEKKQRKFDKQLAEWKAKVEELQAERDAAQREARELE  411 (859)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Confidence            34555556666666666666666666666555555554444444444344444443333322211             11


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          109 EQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEM  188 (455)
Q Consensus       109 eei~~Ae~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL  188 (455)
                      .++..+...+.++..+++.++++...+..++..+.....+..+.+.+++.....|+..+++++..+.+++..++..+...
T Consensus       412 te~~~Lk~~lee~~e~~e~lere~k~L~~El~dl~~q~~~~~k~v~eLek~kr~LE~e~~El~~~leE~E~~l~~~E~~~  491 (859)
T PF01576_consen  412 TELFKLKNELEELQEQLEELERENKQLQDELEDLTSQLDDAGKSVHELEKAKRRLEQEKEELQEQLEEAEDALEAEEQKK  491 (859)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHHHHHHHHhhccchhhhhhhccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            13444444444444444444444444444454555555555555666666666777777777777777777777777777


Q ss_pred             HHHHHHHhhhhH
Q 012833          189 MRAKFEATSRSK  200 (455)
Q Consensus       189 ~kaq~E~~~~a~  200 (455)
                      .+++.++.....
T Consensus       492 lRl~~el~~~r~  503 (859)
T PF01576_consen  492 LRLQVELQQLRQ  503 (859)
T ss_dssp             ------------
T ss_pred             HHHHHHHHHHHH
Confidence            777776665543

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

>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD

Probab=95.42  E-value=1.4  Score=49.32  Aligned_cols=22  Identities=27%  Similarity=0.360  Sum_probs=8.5

Q ss_pred             HHHHHHhhhchHHHHHHHHHHH
Q 012833           61 IDEKTQELKGKDEVVAQKEKAI   82 (455)
Q Consensus        61 i~ele~eI~~k~~eIk~~e~~I   82 (455)
                      +.++..++...+.+|.+++..|
T Consensus       393 ~~~~~~~~~~~e~el~~l~~~l  414 (650)
T TIGR03185       393 KSQLLKELRELEEELAEVDKKI  414 (650)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333333

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.

>PF00769 ERM: Ezrin/radixin/moesin family; InterPro: IPR011259 The ERM family consists of three closely-related proteins, ezrin, radixin and moesin []

Probab=95.36  E-value=1.6  Score=43.25  Aligned_cols=121  Identities=19%  Similarity=0.327  Sum_probs=56.0

Q ss_pred             HHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           61 IDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKE  140 (455)
Q Consensus        61 i~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eLe~qIe~LkkeLE~~~~e~e  140 (455)
                      ..+++..+....++.......+.+.+..+..|..+....+        +....++.+..+++..+.+|+....       
T Consensus         7 k~Ele~rL~q~eee~~~a~~~L~e~e~~a~~Leek~k~ae--------eea~~Le~k~~eaee~~~rL~~~~~-------   71 (246)
T PF00769_consen    7 KQELEERLRQMEEEMRRAQEALEESEETAEELEEKLKQAE--------EEAEELEQKRQEAEEEKQRLEEEAE-------   71 (246)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHH----------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHH-------
Confidence            3344444444444444444444444444444444333332        2222333344444444444444443       


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 012833          141 ALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEAT  196 (455)
Q Consensus       141 eLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq~E~~  196 (455)
                      ....+...++.++.++...+..|.............++.++..+...+.++..++.
T Consensus        72 ~~~eEk~~Le~e~~e~~~~i~~l~ee~~~ke~Ea~~lq~el~~ar~~~~~ak~~L~  127 (246)
T PF00769_consen   72 MQEEEKEQLEQELREAEAEIARLEEESERKEEEAEELQEELEEAREDEEEAKEELL  127 (246)
T ss_dssp             ---------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444455556666666666666666666667777777777767666666665553

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.

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

Probab=95.35  E-value=3.2  Score=44.77  Aligned_cols=66  Identities=18%  Similarity=0.296  Sum_probs=31.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          111 VDKAHARADELEKQIDNLKKESEKQQ---KEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRK  176 (455)
Q Consensus       111 i~~Ae~~i~eLe~qIe~LkkeLE~~~---~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~e  176 (455)
                      +..-+++|..|.++++.|..+++.+.   ++.+...++...+-..++..+.+.++|.+.+-+.+-.++.
T Consensus       339 ie~kEeei~~L~~~~d~L~~q~~kq~Is~e~fe~mn~Ere~L~reL~~i~~~~~~L~k~V~~~~leaq~  407 (622)
T COG5185         339 IELKEEEIKALQSNIDELHKQLRKQGISTEQFELMNQEREKLTRELDKINIQSDKLTKSVKSRKLEAQG  407 (622)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHhHHHHHHH
Confidence            33444444444444444444444442   2223444555555555555555556655555544444433

>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=95.34  E-value=0.2  Score=40.77  Aligned_cols=67  Identities=43%  Similarity=0.534  Sum_probs=30.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           79 EKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARA  146 (455)
Q Consensus        79 e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~  146 (455)
                      +..|.++...|+.|..+-..|.++... ..+.+.++...+.+++.++..+.+.++....++..++.++
T Consensus         4 ~~~l~EKDe~Ia~L~eEGekLSk~el~-~~~~IKKLr~~~~e~e~~~~~l~~~~~~~e~~~~~l~~~l   70 (74)
T PF12329_consen    4 EKKLAEKDEQIAQLMEEGEKLSKKELK-LNNTIKKLRAKIKELEKQIKELKKKLEELEKELESLEERL   70 (74)
T ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHHHh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            344445555555555555544332211 1233334444555555555555555555544444444443

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.

>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=95.29  E-value=1.1  Score=44.98  Aligned_cols=75  Identities=23%  Similarity=0.268  Sum_probs=48.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 012833          124 QIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSR  198 (455)
Q Consensus       124 qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq~E~~~~  198 (455)
                      +...|+.+.-.+-..-+.++.....+.-.+.--+..+.-|+..+...+.+|+.++.++..++.++++.+......
T Consensus        61 e~s~LkREnq~l~e~c~~lek~rqKlshdlq~Ke~qv~~lEgQl~s~Kkqie~Leqelkr~KsELErsQ~~~~~~  135 (307)
T PF10481_consen   61 EYSALKRENQSLMESCENLEKTRQKLSHDLQVKESQVNFLEGQLNSCKKQIEKLEQELKRCKSELERSQQAASSG  135 (307)
T ss_pred             hhhhhhhhhhhHHHHHHHHHHHHHHhhHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccC
Confidence            334444444444444444444455555555555666677777777778888888888888888888888777643

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 [].

>PF04012 PspA_IM30: PspA/IM30 family; InterPro: IPR007157 This family includes PspA a protein that suppresses sigma54-dependent transcription

Probab=95.28  E-value=3  Score=40.17  Aligned_cols=46  Identities=9%  Similarity=0.206  Sum_probs=21.8

Q ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHH
Q 012833           43 LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSER   88 (455)
Q Consensus        43 l~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~   88 (455)
                      +...|.++...|.+++..+......-.....++.+.+..+.+.+..
T Consensus        28 l~q~ird~e~~l~~a~~~~a~~~a~~~~le~~~~~~~~~~~~~~~~   73 (221)
T PF04012_consen   28 LEQAIRDMEEQLRKARQALARVMANQKRLERKLDEAEEEAEKWEKQ   73 (221)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444455555554444444444444444444444444444443

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 [].

>PRK10476 multidrug resistance protein MdtN; Provisional

Probab=95.27  E-value=1.8  Score=44.38  Aligned_cols=20  Identities=10%  Similarity=0.184  Sum_probs=9.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q 012833           46 ELDQLKSKIRSLESHIDEKT   65 (455)
Q Consensus        46 eL~~lr~kI~~Leski~ele   65 (455)
                      +++++++.+...+.+++...
T Consensus        87 ~l~~a~a~l~~a~a~l~~~~  106 (346)
T PRK10476         87 TVAQAQADLALADAQIMTTQ  106 (346)
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            44444444444444444433

>KOG1003 consensus Actin filament-coating protein tropomyosin [Cytoskeleton]

Probab=95.22  E-value=3.1  Score=40.05  Aligned_cols=52  Identities=15%  Similarity=0.311  Sum_probs=26.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           46 ELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELS   97 (455)
Q Consensus        46 eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~   97 (455)
                      ++..++.+|..++.+.+.-+..+....+.+.+.+..-.+.+..+..+.+...
T Consensus         5 ~va~lnrri~~leeele~aqErl~~a~~KL~Eaeq~~dE~er~~Kv~enr~~   56 (205)
T KOG1003|consen    5 DVAALNRRIQLLEEELDRAQERLATALQKLEEAEQAADESERGMKVIENRAQ   56 (205)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccHHHHHHHHHHHHHH
Confidence            3444555555555555555555555555555555555555555444444333

>PF09789 DUF2353: Uncharacterized coiled-coil protein (DUF2353); InterPro: IPR019179 Members of this family have been annotated as being coiled-coil domain-containing protein 149, however they currently have no known function

Probab=95.20  E-value=4.5  Score=41.80  Aligned_cols=81  Identities=17%  Similarity=0.243  Sum_probs=40.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHHHHHH
Q 012833          116 ARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAK--------------LEKLQKINDEQKSKIRKTERAL  181 (455)
Q Consensus       116 ~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~Elesk--------------veeLek~~eEqekkI~elE~~L  181 (455)
                      .++..++.++..|+.++...-.+++++..+......++..++.+              ++.|-.++--++.++..++.+.
T Consensus       133 ~qLEk~~~q~~qLe~d~qs~lDEkeEl~~ERD~yk~K~~RLN~ELn~~L~g~~~rivDIDaLi~ENRyL~erl~q~qeE~  212 (319)
T PF09789_consen  133 EQLEKLREQIEQLERDLQSLLDEKEELVTERDAYKCKAHRLNHELNYILNGDENRIVDIDALIMENRYLKERLKQLQEEK  212 (319)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444444444444444444444444444433              3444444445566666666666


Q ss_pred             HHHHHHHHHHHHHHh
Q 012833          182 KVAEEEMMRAKFEAT  196 (455)
Q Consensus       182 q~lEeeL~kaq~E~~  196 (455)
                      .-+...+.+.+.-+.
T Consensus       213 ~l~k~~i~KYK~~le  227 (319)
T PF09789_consen  213 ELLKQTINKYKSALE  227 (319)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            666666666665444

>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=95.18  E-value=3.8  Score=46.68  Aligned_cols=80  Identities=19%  Similarity=0.248  Sum_probs=39.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          117 RADELEKQIDNLKKESEKQQKEKEALE---ARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKF  193 (455)
Q Consensus       117 ~i~eLe~qIe~LkkeLE~~~~e~eeLE---ae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq~  193 (455)
                      ..++|+.+-..|++++..++...-+.|   -+...++....-+++.++++..-.+-.+.++++.-..++.-.++-..++.
T Consensus        98 dyselEeENislQKqvs~Lk~sQvefE~~Khei~rl~Ee~~~l~~qlee~~rLk~iae~qleEALesl~~EReqk~~Lrk  177 (717)
T PF09730_consen   98 DYSELEEENISLQKQVSVLKQSQVEFEGLKHEIKRLEEEIELLNSQLEEAARLKEIAEKQLEEALESLKSEREQKNALRK  177 (717)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455555555555555555544443333   33444444555555555555555555555555544444444444444444


Q ss_pred             HHh
Q 012833          194 EAT  196 (455)
Q Consensus       194 E~~  196 (455)
                      |+.
T Consensus       178 EL~  180 (717)
T PF09730_consen  178 ELD  180 (717)
T ss_pred             HHH
Confidence            444

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

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

Probab=95.14  E-value=4.6  Score=47.17  Aligned_cols=79  Identities=32%  Similarity=0.450  Sum_probs=32.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          115 HARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKF  193 (455)
Q Consensus       115 e~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq~  193 (455)
                      +.+...++..++.++..+.........+......+..+..+....+.++...+.+......+++..+...+..+..++.
T Consensus       360 ~~~~~~l~~~~~~l~~~~~~~le~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~l~~~~~~~~~~~~  438 (908)
T COG0419         360 EERLKELEERLEELEKELEKALERLKQLEEAIQELKEELAELSAALEEIQEELEELEKELEELERELEELEEEIKKLEE  438 (908)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444444444444444322333333333334444444444444444444444444444444444444444443333

>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD

Probab=95.13  E-value=1.4  Score=49.46  Aligned_cols=43  Identities=16%  Similarity=0.162  Sum_probs=17.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          110 QVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKK  152 (455)
Q Consensus       110 ei~~Ae~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkk  152 (455)
                      .+....+++..++.++.+++.+++....++..++.+...++++
T Consensus       422 ~i~~l~e~l~~l~~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~  464 (650)
T TIGR03185       422 QIAQLLEELGEAQNELFRSEAEIEELLRQLETLKEAIEALRKT  464 (650)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444444444444444444444444444433333333333

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.

>PRK10884 SH3 domain-containing protein; Provisional

Probab=95.11  E-value=0.48  Score=45.91  Aligned_cols=24  Identities=13%  Similarity=0.454  Sum_probs=10.3

Q ss_pred             ccHHHHHHHHHHHHHHHHHHHHHH
Q 012833           42 PLKIELDQLKSKIRSLESHIDEKT   65 (455)
Q Consensus        42 ~l~~eL~~lr~kI~~Leski~ele   65 (455)
                      ..+.++..++.++++++.+++++.
T Consensus        90 ~~~~rlp~le~el~~l~~~l~~~~  113 (206)
T PRK10884         90 SLRTRVPDLENQVKTLTDKLNNID  113 (206)
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444444433

>PF13870 DUF4201: Domain of unknown function (DUF4201)

Probab=95.11  E-value=2.9  Score=39.08  Aligned_cols=110  Identities=16%  Similarity=0.174  Sum_probs=57.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          110 QVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMM  189 (455)
Q Consensus       110 ei~~Ae~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~  189 (455)
                      ...+++-+...+.+.|++-..++..+......--.-++-...++..+......+...+...+..+..+...+.....+..
T Consensus        43 DFeqLkien~~l~~kIeERn~eL~~Lk~~~~~~v~~L~h~keKl~~~~~~~~~l~~~l~~~~~~~~~~r~~l~~~k~~r~  122 (177)
T PF13870_consen   43 DFEQLKIENQQLNEKIEERNKELLKLKKKIGKTVQILTHVKEKLHFLSEELERLKQELKDREEELAKLREELYRVKKERD  122 (177)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344445555555555555555555544444444444555555555555555555555555555555555555555555


Q ss_pred             HHHHHHhhhhHhhhhhccccCChHHHHHHHHHHH
Q 012833          190 RAKFEATSRSKELTEVHSAWLPPWLAVHLLQCQS  223 (455)
Q Consensus       190 kaq~E~~~~a~ei~~~gGawl~Pw~~~~~~~~~~  223 (455)
                      ++......    +...||-+--|=|...+.++..
T Consensus       123 k~~~~~~~----l~~~~~~~~~P~ll~Dy~~~~~  152 (177)
T PF13870_consen  123 KLRKQNKK----LRQQGGLLGVPALLRDYDKTKE  152 (177)
T ss_pred             HHHHHHHH----HHHhcCCCCCcHHHHHHHHHHH
Confidence            54444432    3455677666644444444443

>COG2433 Uncharacterized conserved protein [Function unknown]

Probab=95.07  E-value=0.39  Score=52.91  Aligned_cols=12  Identities=25%  Similarity=0.285  Sum_probs=6.6

Q ss_pred             HHHHhhhhhhHH
Q 012833          260 ETIKAKWIPAVK  271 (455)
Q Consensus       260 ~~~~~k~~p~~~  271 (455)
                      ++|...=+|++.
T Consensus       584 e~f~~~~iPv~~  595 (652)
T COG2433         584 EEFFKNEIPVLP  595 (652)
T ss_pred             HHHhhcCCceee
Confidence            355555566654

>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=95.07  E-value=0.21  Score=46.45  Aligned_cols=74  Identities=23%  Similarity=0.349  Sum_probs=38.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHH---------HHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHH
Q 012833           44 KIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQ---------KEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKA  114 (455)
Q Consensus        44 ~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~---------~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~A  114 (455)
                      ..++..++.+|.+|+.++.++..+++.+..+++.         +...|.+++.+|..++++|..+......+..+++..+
T Consensus        71 ~eel~~ld~ei~~L~~el~~l~~~~k~l~~eL~~L~~~~t~~el~~~i~~l~~e~~~l~~kL~~l~~~~~~vs~ee~~~~  150 (169)
T PF07106_consen   71 PEELAELDAEIKELREELAELKKEVKSLEAELASLSSEPTNEELREEIEELEEEIEELEEKLEKLRSGSKPVSPEEKEKL  150 (169)
T ss_pred             chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHH
Confidence            3455555555555555555555555555555544         3455555555666666666555543333333333333


Q ss_pred             HHH
Q 012833          115 HAR  117 (455)
Q Consensus       115 e~~  117 (455)
                      ...
T Consensus       151 ~~~  153 (169)
T PF07106_consen  151 EKE  153 (169)
T ss_pred             HHH
Confidence            333

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 [].

>PF00769 ERM: Ezrin/radixin/moesin family; InterPro: IPR011259 The ERM family consists of three closely-related proteins, ezrin, radixin and moesin []

Probab=94.96  E-value=2.3  Score=42.25  Aligned_cols=83  Identities=20%  Similarity=0.274  Sum_probs=32.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          114 AHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKF  193 (455)
Q Consensus       114 Ae~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq~  193 (455)
                      .+..+..|+.+...++.+-..+......++.....|+............|...+.+....+..+....+.-+.+-..++.
T Consensus        31 ~e~~a~~Leek~k~aeeea~~Le~k~~eaee~~~rL~~~~~~~~eEk~~Le~e~~e~~~~i~~l~ee~~~ke~Ea~~lq~  110 (246)
T PF00769_consen   31 SEETAEELEEKLKQAEEEAEELEQKRQEAEEEKQRLEEEAEMQEEEKEQLEQELREAEAEIARLEEESERKEEEAEELQE  110 (246)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344444444444444444444444444444444444444444444444444444444454444444444444444444


Q ss_pred             HHh
Q 012833          194 EAT  196 (455)
Q Consensus       194 E~~  196 (455)
                      ++.
T Consensus       111 el~  113 (246)
T PF00769_consen  111 ELE  113 (246)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            433

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.

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

Probab=94.93  E-value=1.7  Score=42.97  Aligned_cols=57  Identities=18%  Similarity=0.228  Sum_probs=26.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHh
Q 012833          145 RAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKE  201 (455)
Q Consensus       145 e~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq~E~~~~a~e  201 (455)
                      +.......+...+..+..|+..+.+.+..-......+..+.+++..++.+.++...+
T Consensus        47 Er~~h~eeLrqI~~DIn~lE~iIkqa~~er~~~~~~i~r~~eey~~Lk~~in~~R~e  103 (230)
T PF10146_consen   47 ERMAHVEELRQINQDINTLENIIKQAESERNKRQEKIQRLYEEYKPLKDEINELRKE  103 (230)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333344444444444444444444444444555555555555555554433

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.

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

Probab=94.92  E-value=4.6  Score=47.16  Aligned_cols=16  Identities=44%  Similarity=0.756  Sum_probs=7.0

Q ss_pred             HHHHHHHHHHHHHHHH
Q 012833           47 LDQLKSKIRSLESHID   62 (455)
Q Consensus        47 L~~lr~kI~~Leski~   62 (455)
                      .++++.++..+++.+.
T Consensus       554 ~~~l~~e~~~le~~~~  569 (908)
T COG0419         554 LQQLKEELRQLEDRLQ  569 (908)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            4444555553333333

>KOG0999 consensus Microtubule-associated protein Bicaudal-D [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.84  E-value=7.5  Score=42.81  Aligned_cols=39  Identities=13%  Similarity=0.184  Sum_probs=18.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHh
Q 012833          158 AKLEKLQKINDEQKSKIRKTERAL---KVAEEEMMRAKFEAT  196 (455)
Q Consensus       158 skveeLek~~eEqekkI~elE~~L---q~lEeeL~kaq~E~~  196 (455)
                      +...+|+.++-.++++...+...-   +-+..++.++.++..
T Consensus       170 seYSELEEENIsLQKqVs~LR~sQVEyEglkheikRleEe~e  211 (772)
T KOG0999|consen  170 SEYSELEEENISLQKQVSNLRQSQVEYEGLKHEIKRLEEETE  211 (772)
T ss_pred             HHHHHHHHhcchHHHHHHHHhhhhhhhhHHHHHHHHHHHHHH
Confidence            344455555555555554444332   222355555555443

>TIGR02680 conserved hypothetical protein TIGR02680

Probab=94.81  E-value=2  Score=52.43  Aligned_cols=156  Identities=17%  Similarity=0.232  Sum_probs=75.7

Q ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHH
Q 012833           43 LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVA----QKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARA  118 (455)
Q Consensus        43 l~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk----~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i  118 (455)
                      ...++++++.++..++..+..++.=....+....    ..-.........+..+..++..++.+.... .+++..+++++
T Consensus       228 ~~~~~~~~~~~le~l~~~~~~l~~i~~~y~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~  306 (1353)
T TIGR02680       228 ALEQLDEYRDELERLEALERALRNFLQRYRRYARTMLRRRATRLRSAQTQYDQLSRDLGRARDELETA-REEERELDART  306 (1353)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHH
Confidence            4556677778888877777776553333322222    112222333344444555554444433332 34445555555


Q ss_pred             HHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          119 DELEKQIDNLKKESEKQQ--------KEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMR  190 (455)
Q Consensus       119 ~eLe~qIe~LkkeLE~~~--------~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~k  190 (455)
                      ..++.+++.++.+++.++        .++..++.++.++.+............+...++....+++.+......+..+..
T Consensus       307 ~~le~~~~~l~~~~~~l~~~~a~~~~~eL~el~~ql~~~~~~a~~~~~~~~~a~~~~e~~~~~~~~~~~r~~~~~~~l~~  386 (1353)
T TIGR02680       307 EALEREADALRTRLEALQGSPAYQDAEELERARADAEALQAAAADARQAIREAESRLEEERRRLDEEAGRLDDAERELRA  386 (1353)
T ss_pred             HHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            555555555555555553        333333344444444444444444444444444444455555555555544444


Q ss_pred             HHHHHhhhh
Q 012833          191 AKFEATSRS  199 (455)
Q Consensus       191 aq~E~~~~a  199 (455)
                      ...++...+
T Consensus       387 ~~~el~~~a  395 (1353)
T TIGR02680       387 AREQLARAA  395 (1353)
T ss_pred             HHHHHHHHH
Confidence            444444333

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.

>KOG1899 consensus LAR transmembrane tyrosine phosphatase-interacting protein liprin [General function prediction only]

Probab=94.80  E-value=1.3  Score=48.95  Aligned_cols=144  Identities=20%  Similarity=0.225  Sum_probs=74.4

Q ss_pred             CCccHHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHH
Q 012833           40 SSPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARAD  119 (455)
Q Consensus        40 ~~~l~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~  119 (455)
                      ....+..|..|...-..|.=+.+-+..+++..-+.|.++|--|+++..++...++-+   |.+.-+            ..
T Consensus       106 ~~~yQerLaRLe~dkesL~LQvsvLteqVeaQgEKIrDLE~cie~kr~kLnatEEmL---Qqells------------rt  170 (861)
T KOG1899|consen  106 YPEYQERLARLEMDKESLQLQVSVLTEQVEAQGEKIRDLETCIEEKRNKLNATEEML---QQELLS------------RT  170 (861)
T ss_pred             chHHHHHHHHHhcchhhheehHHHHHHHHHHhhhhHHHHHHHHHHHHhhhchHHHHH---HHHHHh------------hh
Confidence            334444454444444455555555666666666666666666666666555544433   232222            24


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 012833          120 ELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKI-NDEQKSKIRKTERALKVAEEEMMRAKFEATSR  198 (455)
Q Consensus       120 eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~-~eEqekkI~elE~~Lq~lEeeL~kaq~E~~~~  198 (455)
                      .|+.|.-+|=.++..++-....+|.+..+.|+++...+..++++++. ..+...+--+.+..+..+..++..+++...++
T Consensus       171 sLETqKlDLmaevSeLKLkltalEkeq~e~E~K~R~se~l~qevn~~kv~e~~~erlqye~klkstk~e~a~L~Eq~~eK  250 (861)
T KOG1899|consen  171 SLETQKLDLMAEVSELKLKLTALEKEQNETEKKLRLSENLMQEVNQSKVGEVVQERLQYETKLKSTKGEMAPLREQRSEK  250 (861)
T ss_pred             hHHHHHhHHHHHHHHhHHHHHHHHHHhhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhhcccccchhhhHHHHHhhh
Confidence            45555555555555555555555555555555555555555555422 33444444455555555555555555444433

>PRK10361 DNA recombination protein RmuC; Provisional

Probab=94.79  E-value=7.5  Score=42.28  Aligned_cols=63  Identities=10%  Similarity=0.099  Sum_probs=30.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           74 VVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKE  140 (455)
Q Consensus        74 eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eLe~qIe~LkkeLE~~~~e~e  140 (455)
                      ++...+..+......+..+..++..++...    +.....+++++..++.--++|..+.+.+..++-
T Consensus        61 ~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l----e~~~~~~~ek~~~l~~~~~~L~~~F~~LA~~il  123 (475)
T PRK10361         61 ECELLNNEVRSLQSINTSLEADLREVTTRM----EAAQQHADDKIRQMINSEQRLSEQFENLANRIF  123 (475)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444444444443222    223334455666666666666666665554443

>PF14362 DUF4407: Domain of unknown function (DUF4407)

Probab=94.78  E-value=2.2  Score=43.08  Aligned_cols=20  Identities=25%  Similarity=0.165  Sum_probs=13.4

Q ss_pred             hhccccCChHHHHHHHHHHH
Q 012833          204 EVHSAWLPPWLAVHLLQCQS  223 (455)
Q Consensus       204 ~~gGawl~Pw~~~~~~~~~~  223 (455)
                      ..+++|++.|+-.-+.-+=+
T Consensus       257 ~~~~~~~~~~~i~llfi~ie  276 (301)
T PF14362_consen  257 EDPSALLASLFIFLLFIAIE  276 (301)
T ss_pred             CCCcHHHHHHHHHHHHHHHH
Confidence            34467888888776665555

>PF13166 AAA_13: AAA domain

Probab=94.78  E-value=5.3  Score=44.89  Aligned_cols=15  Identities=7%  Similarity=0.177  Sum_probs=9.4

Q ss_pred             HHHHHHHHHHHHHhc
Q 012833          369 HHQVQASVQEMLKKH  383 (455)
Q Consensus       369 h~q~q~~~~~~l~~~  383 (455)
                      .--+.+.++..|+-+
T Consensus       633 ~~~~~N~~RriLE~y  647 (712)
T PF13166_consen  633 AYNIPNVMRRILEAY  647 (712)
T ss_pred             HHhhHHHhHHHHHHH
Confidence            334666677777766

>KOG1853 consensus LIS1-interacting protein NUDE [Cytoskeleton]

Probab=94.71  E-value=5.2  Score=40.03  Aligned_cols=98  Identities=19%  Similarity=0.207  Sum_probs=44.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHH
Q 012833           47 LDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQID  126 (455)
Q Consensus        47 L~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eLe~qIe  126 (455)
                      ..+.+.++...+..-.+++.+++.   ++.+++.....++...+-|.-++..+..+    .+.+..+.-.++..|+....
T Consensus        29 f~~~reEl~EFQegSrE~Eaeles---qL~q~etrnrdl~t~nqrl~~E~e~~Kek----~e~q~~q~y~q~s~Leddls  101 (333)
T KOG1853|consen   29 FLQMREELNEFQEGSREIEAELES---QLDQLETRNRDLETRNQRLTTEQERNKEK----QEDQRVQFYQQESQLEDDLS  101 (333)
T ss_pred             HHHHHHHHHHHhhhhHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHH
Confidence            344555665555555555543333   44444444444444333333333332111    11233333444555555555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          127 NLKKESEKQQKEKEALEARAIEAEK  151 (455)
Q Consensus       127 ~LkkeLE~~~~e~eeLEae~~elEk  151 (455)
                      .+....+.+.+.+.+||.....+|.
T Consensus       102 qt~aikeql~kyiReLEQaNDdLEr  126 (333)
T KOG1853|consen  102 QTHAIKEQLRKYIRELEQANDDLER  126 (333)
T ss_pred             HHHHHHHHHHHHHHHHHHhccHHHH
Confidence            5555555555555555555444443

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

Probab=94.66  E-value=3.3  Score=47.25  Aligned_cols=29  Identities=10%  Similarity=0.131  Sum_probs=14.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhhHhh
Q 012833          174 IRKTERALKVAEEEMMRAKFEATSRSKEL  202 (455)
Q Consensus       174 I~elE~~Lq~lEeeL~kaq~E~~~~a~ei  202 (455)
                      +.+...+++..+.++.+.+.+..++-..+
T Consensus       801 l~e~~~~l~~~q~e~~~~keq~~t~~~~t  829 (970)
T KOG0946|consen  801 LSEESTRLQELQSELTQLKEQIQTLLERT  829 (970)
T ss_pred             hhhhhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444445555555555555555443333

>PF06818 Fez1: Fez1; InterPro: IPR009638 This family represents the eukaryotic Fez1 protein

Probab=94.64  E-value=4.6  Score=39.11  Aligned_cols=40  Identities=23%  Similarity=0.305  Sum_probs=15.5

Q ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHH
Q 012833           43 LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAI   82 (455)
Q Consensus        43 l~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I   82 (455)
                      ++.+|.+.+.++++-.+.|-.+..++.+....+...+..+
T Consensus        15 LKqQLke~q~E~~~K~~Eiv~Lr~ql~e~~~~l~~~~~~~   54 (202)
T PF06818_consen   15 LKQQLKESQAEVNQKDSEIVSLRAQLRELRAELRNKESQI   54 (202)
T ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhhHHHH
Confidence            3444444444444433333333333333333333333333

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

>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]

Probab=94.62  E-value=2  Score=46.04  Aligned_cols=71  Identities=14%  Similarity=0.211  Sum_probs=34.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          112 DKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAE  185 (455)
Q Consensus       112 ~~Ae~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lE  185 (455)
                      ..++.++..++..+.++.+++...++.-..+.+.+.....++.+++.   .+...+...+.+|.++++++..+-
T Consensus       378 k~~e~k~~q~q~k~~k~~kel~~~~E~n~~l~knq~vw~~kl~~~~e---~~~~~~~s~d~~I~dLqEQlrDlm  448 (493)
T KOG0804|consen  378 KIVERKLQQLQTKLKKCQKELKEEREENKKLIKNQDVWRGKLKELEE---REKEALGSKDEKITDLQEQLRDLM  448 (493)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHhHh
Confidence            34455556666666666666555554444444444333333333332   233333444445555555555543

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

Probab=94.61  E-value=1.5  Score=43.24  Aligned_cols=52  Identities=13%  Similarity=0.218  Sum_probs=24.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          143 EARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFE  194 (455)
Q Consensus       143 Eae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq~E  194 (455)
                      ..++..+..-++.++.-+...+.+.+..+..+..+.+++..+.+++.++..+
T Consensus        52 ~eeLrqI~~DIn~lE~iIkqa~~er~~~~~~i~r~~eey~~Lk~~in~~R~e  103 (230)
T PF10146_consen   52 VEELRQINQDINTLENIIKQAESERNKRQEKIQRLYEEYKPLKDEINELRKE  103 (230)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333444444444444444455555555555555555555555

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.

>TIGR03319 YmdA_YtgF conserved hypothetical protein YmdA/YtgF

Probab=94.56  E-value=3.8  Score=44.98  Aligned_cols=39  Identities=26%  Similarity=0.278  Sum_probs=20.6

Q ss_pred             cchHHHHHHHHHHHHHHcCccccchHHHHHhhhhhhHHH
Q 012833          234 KPAMDVAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKE  272 (455)
Q Consensus       234 ~P~~~~~~~k~~~~~~~~~~w~~p~~~~~~~k~~p~~~~  272 (455)
                      .|+=.+....+-++.-.-|.=-|--++....|..--+..
T Consensus       253 dp~rreia~~~l~~li~dgrihp~riee~~~~~~~~~~~  291 (514)
T TIGR03319       253 DPVRREIARMALEKLIQDGRIHPARIEEMVEKATKEVDN  291 (514)
T ss_pred             chHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHH
Confidence            455566666666666655654444444444444444443

>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=94.48  E-value=11  Score=42.62  Aligned_cols=12  Identities=25%  Similarity=0.249  Sum_probs=5.4

Q ss_pred             HHHhhhhhhHHH
Q 012833          261 TIKAKWIPAVKE  272 (455)
Q Consensus       261 ~~~~k~~p~~~~  272 (455)
                      -|+..|.-+|.+
T Consensus       711 KHK~qYDkiVEE  722 (786)
T PF05483_consen  711 KHKHQYDKIVEE  722 (786)
T ss_pred             HhHHHHHHHHHH
Confidence            444444444444

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

>TIGR02977 phageshock_pspA phage shock protein A

Probab=94.41  E-value=5.3  Score=38.80  Aligned_cols=109  Identities=11%  Similarity=0.131  Sum_probs=57.5

Q ss_pred             HHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           50 LKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLK  129 (455)
Q Consensus        50 lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eLe~qIe~Lk  129 (455)
                      ++.-|.+++..+.+....+...-..-+..+..+.+....+.+.+++....-.++...   -...+-.+....+.++..|+
T Consensus        29 l~q~irem~~~l~~ar~~lA~~~a~~k~~e~~~~~~~~~~~~~~~~A~~Al~~G~Ed---LAr~Al~~k~~~~~~~~~l~  105 (219)
T TIGR02977        29 IRLIIQEMEDTLVEVRTTSARTIADKKELERRVSRLEAQVADWQEKAELALSKGRED---LARAALIEKQKAQELAEALE  105 (219)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHH---HHHHHHHHHHHHHHHHHHHH
Confidence            455555556666666666666666666677777777777777777765544444332   11122223333444444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          130 KESEKQQKEKEALEARAIEAEKKISDLSAKLE  161 (455)
Q Consensus       130 keLE~~~~e~eeLEae~~elEkkl~Eleskve  161 (455)
                      .+++.+......+...+.+++.++.+...+..
T Consensus       106 ~~~~~~~~~v~~l~~~l~~L~~ki~~~k~k~~  137 (219)
T TIGR02977       106 RELAAVEETLAKLQEDIAKLQAKLAEARARQK  137 (219)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444444444444444444444444444433

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.

>PRK12704 phosphodiesterase; Provisional

Probab=94.38  E-value=4.3  Score=44.67  Aligned_cols=10  Identities=40%  Similarity=0.235  Sum_probs=3.7

Q ss_pred             HHHHHHHHHH
Q 012833          239 VAIQKALEKK  248 (455)
Q Consensus       239 ~~~~k~~~~~  248 (455)
                      +....+-+..
T Consensus       264 e~a~~~l~~l  273 (520)
T PRK12704        264 EIARLALEKL  273 (520)
T ss_pred             HHHHHHHHHH
Confidence            3333333333

>TIGR00998 8a0101 efflux pump membrane protein (multidrug resistance protein A)

Probab=94.36  E-value=5.2  Score=40.46  Aligned_cols=54  Identities=9%  Similarity=0.214  Sum_probs=23.9

Q ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           43 LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKEL   96 (455)
Q Consensus        43 l~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI   96 (455)
                      +..++++.+..+..++.++..++..+.....++...+..++.....+...+.++
T Consensus        78 ~~~~l~~a~a~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~a~~~l~~a~~~~  131 (334)
T TIGR00998        78 AELALAKAEANLAALVRQTKQLEITVQQLQAKVESLKIKLEQAREKLLQAELDL  131 (334)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Confidence            334444555555555555554444444444444444444444444333333333

>PF06818 Fez1: Fez1; InterPro: IPR009638 This family represents the eukaryotic Fez1 protein

Probab=94.35  E-value=5.4  Score=38.68  Aligned_cols=92  Identities=12%  Similarity=0.224  Sum_probs=39.3

Q ss_pred             HHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           53 KIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKES  132 (455)
Q Consensus        53 kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eLe~qIe~LkkeL  132 (455)
                      +|+=|..++.+...++..+..+|-.+...+.+....+...+..+..++.... .++-++...++++....++++-|...+
T Consensus        11 EIsLLKqQLke~q~E~~~K~~Eiv~Lr~ql~e~~~~l~~~~~~~~~l~~~~~-~K~~ELE~ce~ELqr~~~Ea~lLrekl   89 (202)
T PF06818_consen   11 EISLLKQQLKESQAEVNQKDSEIVSLRAQLRELRAELRNKESQIQELQDSLR-TKQLELEVCENELQRKKNEAELLREKL   89 (202)
T ss_pred             hHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH-HhhHhHHHhHHHHHHHhCHHHHhhhhh
Confidence            3444444444444444444444444444444444444444444444432211 123334444444444444444444444


Q ss_pred             HHHHHHHHHHHHH
Q 012833          133 EKQQKEKEALEAR  145 (455)
Q Consensus       133 E~~~~e~eeLEae  145 (455)
                      ..+..++..+...
T Consensus        90 ~~le~El~~Lr~~  102 (202)
T PF06818_consen   90 GQLEAELAELREE  102 (202)
T ss_pred             hhhHHHHHHHHHH
Confidence            4444344333333

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

>TIGR02338 gimC_beta prefoldin, beta subunit, archaeal

Probab=94.34  E-value=1.1  Score=38.87  Aligned_cols=40  Identities=10%  Similarity=0.287  Sum_probs=22.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHH
Q 012833           45 IELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQD   84 (455)
Q Consensus        45 ~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e   84 (455)
                      |++.++-.++..++.++..+.+++..++.++.+.+..+.+
T Consensus         3 ~~~q~~~~~~q~~q~~~~~l~~q~~~le~~~~E~~~v~~e   42 (110)
T TIGR02338         3 PQVQNQLAQLQQLQQQLQAVATQKQQVEAQLKEAEKALEE   42 (110)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5566666666666666666655555544444444444333

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.

>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=94.32  E-value=0.25  Score=45.90  Aligned_cols=63  Identities=25%  Similarity=0.404  Sum_probs=33.4

Q ss_pred             hhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           68 LKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQ  136 (455)
Q Consensus        68 I~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eLe~qIe~LkkeLE~~~  136 (455)
                      +.+.+.+|.++..++.+....+..+.+++.+|.+..+.      .++...+..++.++..++..++.+.
T Consensus        74 l~~ld~ei~~L~~el~~l~~~~k~l~~eL~~L~~~~t~------~el~~~i~~l~~e~~~l~~kL~~l~  136 (169)
T PF07106_consen   74 LAELDAEIKELREELAELKKEVKSLEAELASLSSEPTN------EELREEIEELEEEIEELEEKLEKLR  136 (169)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCH------HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444455556666666666666666667666554443      2334444444444444444444443

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 [].

>PF06008 Laminin_I: Laminin Domain I; InterPro: IPR009254 Laminins are glycoproteins that are major constituents of the basement membrane of cells

Probab=94.29  E-value=6.2  Score=39.19  Aligned_cols=54  Identities=17%  Similarity=0.246  Sum_probs=25.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 012833           48 DQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQK  101 (455)
Q Consensus        48 ~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQk  101 (455)
                      +.+..+..........+....+..-..-.++...|......|.++-+++..+..
T Consensus        62 ~~L~~k~~~~~~~~~~l~~~t~~t~~~a~~L~~~i~~l~~~i~~l~~~~~~l~~  115 (264)
T PF06008_consen   62 ENLQEKATKVSRKAQQLNNNTERTLQRAQDLEQFIQNLQDNIQELIEQVESLNE  115 (264)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCc
Confidence            333333333333333344444444444445555555555555555555555543

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

>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]

Probab=94.24  E-value=3  Score=44.69  Aligned_cols=88  Identities=14%  Similarity=0.251  Sum_probs=42.4

Q ss_pred             HHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           87 ERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKI  166 (455)
Q Consensus        87 ~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~  166 (455)
                      .+..+++++...+++.... .+....+.+.++.+..++...++.....+.++......++.+++...++...   ..+..
T Consensus       361 ~e~~~l~~~~~~~e~~kk~-~e~k~~q~q~k~~k~~kel~~~~E~n~~l~knq~vw~~kl~~~~e~~~~~~~---s~d~~  436 (493)
T KOG0804|consen  361 TEADSLKQESSDLEAEKKI-VERKLQQLQTKLKKCQKELKEEREENKKLIKNQDVWRGKLKELEEREKEALG---SKDEK  436 (493)
T ss_pred             HHHHhhhhhhhHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHH---HHHHH
Confidence            3333344444444332222 2445556666666666666666655555555555555555554444433332   33333


Q ss_pred             HHHHHHHHHHHH
Q 012833          167 NDEQKSKIRKTE  178 (455)
Q Consensus       167 ~eEqekkI~elE  178 (455)
                      +.+++.++..+-
T Consensus       437 I~dLqEQlrDlm  448 (493)
T KOG0804|consen  437 ITDLQEQLRDLM  448 (493)
T ss_pred             HHHHHHHHHhHh
Confidence            444444444443

>KOG4809 consensus Rab6 GTPase-interacting protein involved in endosome-to-TGN transport [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.18  E-value=9.6  Score=41.91  Aligned_cols=39  Identities=28%  Similarity=0.234  Sum_probs=21.6

Q ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHH
Q 012833           43 LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKA   81 (455)
Q Consensus        43 l~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~   81 (455)
                      .+.++.-++..+...+-.|+...+.|+.+++-|+++...
T Consensus       241 ~~~e~~llr~t~~~~e~riEtqkqtl~ardesIkkLlEm  279 (654)
T KOG4809|consen  241 TKEEQFLLRSTDPSGEQRIETQKQTLDARDESIKKLLEM  279 (654)
T ss_pred             HHHHHHHHHhcCchHHHHHHHHHhhhhhHHHHHHHHHHH
Confidence            344455555555555555555555566666655555443

>KOG4673 consensus Transcription factor TMF, TATA element modulatory factor [Transcription]

Probab=94.13  E-value=13  Score=42.10  Aligned_cols=41  Identities=22%  Similarity=0.328  Sum_probs=24.4

Q ss_pred             hHhHHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          340 VDNVRVALKPYTKKVVRAYGKFLKSATTYHHQVQASVQEMLK  381 (455)
Q Consensus       340 ~~~~~~~~~P~~~~v~~~~~~~~~~a~~~h~q~q~~~~~~l~  381 (455)
                      +..|-..++|....+ ..++.-+.++++.++..-..+.+-|.
T Consensus       632 ~q~v~~TTrPLlRQI-E~lQ~tl~~~~tawereE~~l~~rL~  672 (961)
T KOG4673|consen  632 IQQVPETTRPLLRQI-EALQETLSKAATAWEREERSLNERLS  672 (961)
T ss_pred             HhhccccccHHHHHH-HHHHHHHhhhhhHHHHHHHHHHHhhh
Confidence            334444555555444 45677777777777765555555554

>PRK03947 prefoldin subunit alpha; Reviewed

Probab=94.12  E-value=1.4  Score=39.48  Aligned_cols=38  Identities=21%  Similarity=0.437  Sum_probs=21.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHH
Q 012833           44 KIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKA   81 (455)
Q Consensus        44 ~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~   81 (455)
                      .++|.++...+.+++..++.+.+++......+.+....
T Consensus         5 ~~~l~~l~~~~~~l~~~~~~l~~~~~~l~~~~~e~~~~   42 (140)
T PRK03947          5 EQELEELAAQLQALQAQIEALQQQLEELQASINELDTA   42 (140)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45666666666666666666666555544444444333

>COG1382 GimC Prefoldin, chaperonin cofactor [Posttranslational modification, protein turnover, chaperones]

Probab=94.10  E-value=1.6  Score=38.86  Aligned_cols=44  Identities=11%  Similarity=0.231  Sum_probs=28.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHH
Q 012833           44 KIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSE   87 (455)
Q Consensus        44 ~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~   87 (455)
                      .+++.+.=.++.+|+.+++.+.-+....+.+|+++++.+.+.+.
T Consensus         5 pp~~q~~l~q~QqLq~ql~~~~~qk~~le~qL~E~~~al~Ele~   48 (119)
T COG1382           5 PPEVQAQLAQLQQLQQQLQKVILQKQQLEAQLKEIEKALEELEK   48 (119)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            36666666777777777777766666666666665555555443

>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=94.03  E-value=3.9  Score=40.34  Aligned_cols=50  Identities=12%  Similarity=0.078  Sum_probs=21.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           47 LDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKEL   96 (455)
Q Consensus        47 L~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI   96 (455)
                      ++++.....+....-....+.++..+++...+...++..+.++..++...
T Consensus        23 ~~~~~~~~~~~~~~~~~sQ~~id~~~~e~~~L~~e~~~l~~e~e~L~~~~   72 (251)
T PF11932_consen   23 LDQAQQVQQQWVQAAQQSQKRIDQWDDEKQELLAEYRQLEREIENLEVYN   72 (251)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444443333333444444444444444444444444444444433

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.

>TIGR00634 recN DNA repair protein RecN

Probab=94.03  E-value=5  Score=44.30  Aligned_cols=43  Identities=5%  Similarity=0.017  Sum_probs=20.4

Q ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHH
Q 012833           43 LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDK   85 (455)
Q Consensus        43 l~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~   85 (455)
                      +..+..++..++..+..++.++..+..+..+++..++.++++.
T Consensus       159 ~~~~~~~~~~~~~~~~~~L~~l~~~~~~~~~eld~L~~ql~EL  201 (563)
T TIGR00634       159 KVKAYRELYQAWLKARQQLKDRQQKEQELAQRLDFLQFQLEEL  201 (563)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHH
Confidence            3444444445555555555544444444444444444444443

All proteins in this family for which functions are known are ATP binding proteins involved in the initiation of recombination and recombinational repair.

>COG2433 Uncharacterized conserved protein [Function unknown]

Probab=94.01  E-value=1  Score=49.74  Aligned_cols=47  Identities=23%  Similarity=0.390  Sum_probs=28.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          108 AEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKIS  154 (455)
Q Consensus       108 ~eei~~Ae~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~  154 (455)
                      .+.+....+.+..|+.++..|+.+++.++.+++.|++++.++..++.
T Consensus       421 ~~~i~~~~~~ve~l~~e~~~L~~~~ee~k~eie~L~~~l~~~~r~~~  467 (652)
T COG2433         421 EKRIKKLEETVERLEEENSELKRELEELKREIEKLESELERFRREVR  467 (652)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34555566666666666666666666666666666666666655443

>PF13166 AAA_13: AAA domain

Probab=94.01  E-value=6.3  Score=44.27  Aligned_cols=24  Identities=21%  Similarity=0.267  Sum_probs=8.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          157 SAKLEKLQKINDEQKSKIRKTERA  180 (455)
Q Consensus       157 eskveeLek~~eEqekkI~elE~~  180 (455)
                      ...+..++..+...+..+.+++.+
T Consensus       430 ~~~~~~~~~~~~~~~~~i~~l~~~  453 (712)
T PF13166_consen  430 EKKLKKAKEEIKKIEKEIKELEAQ  453 (712)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333333333333

>TIGR03017 EpsF chain length determinant protein EpsF

Probab=93.98  E-value=3.4  Score=43.73  Aligned_cols=145  Identities=17%  Similarity=0.258  Sum_probs=59.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhchHH--HHH--HHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHH
Q 012833           44 KIELDQLKSKIRSLESHIDEKTQELKGKDE--VVA--QKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARAD  119 (455)
Q Consensus        44 ~~eL~~lr~kI~~Leski~ele~eI~~k~~--eIk--~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~  119 (455)
                      ..++++++..+...+.+..+..........  .+.  .....|.....++.+++.++..+...... .--.+-.++.++.
T Consensus       214 ~~~l~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~l~~~l~~le~~l~~l~~~y~~-~hP~v~~l~~~i~  292 (444)
T TIGR03017       214 RARLNELSAQLVAAQAQVMDASSKEGGSSGKDALPEVIANPIIQNLKTDIARAESKLAELSQRLGP-NHPQYKRAQAEIN  292 (444)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhccCCcccchhhhcChHHHHHHHHHHHHHHHHHHHHHHhCC-CCcHHHHHHHHHH
Confidence            345666666666666555544443322100  000  01123444445555555555444322211 1114445555555


Q ss_pred             HHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          120 ELEKQIDNL-KKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKF  193 (455)
Q Consensus       120 eLe~qIe~L-kkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq~  193 (455)
                      .++.++... .+.......+...+..+..+++..+++++..+..+...    ..++..++++.+..+..+..+-.
T Consensus       293 ~l~~~l~~e~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~l~~~----~~~~~~L~r~~~~~~~~y~~ll~  363 (444)
T TIGR03017       293 SLKSQLNAEIKKVTSSVGTNSRILKQREAELREALENQKAKVLELNRQ----RDEMSVLQRDVENAQRAYDAAMQ  363 (444)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHH
Confidence            555554332 11112222233333444444444444444443333332    33444555555555544444333

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.

>PF05622 HOOK: HOOK protein; InterPro: IPR008636 This family consists of several HOOK1, 2 and 3 proteins from different eukaryotic organisms

Probab=93.94  E-value=0.016  Score=65.53  Aligned_cols=12  Identities=17%  Similarity=0.371  Sum_probs=0.0

Q ss_pred             HhhhcchhHHHH
Q 012833          299 TKTAVTPHIIRV  310 (455)
Q Consensus       299 ~k~~~~p~~~~~  310 (455)
                      .+..+..|+.++
T Consensus       538 lk~~le~~~~~l  549 (713)
T PF05622_consen  538 LKQKLEEHLEKL  549 (713)
T ss_dssp             ------------
T ss_pred             HHHHHHHHHHHH
Confidence            344455555544

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.

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

Probab=93.90  E-value=3.1  Score=37.80  Aligned_cols=13  Identities=31%  Similarity=0.447  Sum_probs=5.1

Q ss_pred             HHHHHHHHHHHHH
Q 012833          180 ALKVAEEEMMRAK  192 (455)
Q Consensus       180 ~Lq~lEeeL~kaq  192 (455)
                      ++..-+.++.+++
T Consensus       134 e~rkke~E~~kLk  146 (151)
T PF11559_consen  134 ELRKKEREIEKLK  146 (151)
T ss_pred             HHHHHHHHHHHHH
Confidence            3333334444443

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.

>TIGR01010 BexC_CtrB_KpsE polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family

Probab=93.89  E-value=4.7  Score=41.70  Aligned_cols=127  Identities=16%  Similarity=0.178  Sum_probs=66.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHH
Q 012833           72 DEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNA-AEQVDKAHARADELEKQIDNLKKESEKQQKE-------KEALE  143 (455)
Q Consensus        72 ~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~-~eei~~Ae~~i~eLe~qIe~LkkeLE~~~~e-------~eeLE  143 (455)
                      .+.+.-++.++.+....+.+.+.++...+++...+. +.+.......+..++.++..++.++..+...       ...+.
T Consensus       169 ~~a~~fl~~ql~~~~~~l~~ae~~l~~fr~~~~~~d~~~~~~~~~~~i~~L~~~l~~~~~~l~~l~~~~~~~~P~v~~l~  248 (362)
T TIGR01010       169 KDTIAFAENEVKEAEQRLNATKAELLKYQIKNKVFDPKAQSSAQLSLISTLEGELIRVQAQLAQLRSITPEQNPQVPSLQ  248 (362)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCchHHHH
Confidence            345556666777777777777777777666554432 2223334445666666666666555544322       22455


Q ss_pred             HHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 012833          144 ARAIEAEKKISDLSAKLEKL-QKINDEQKSKIRKTERALKVAEEEMMRAKFEATSR  198 (455)
Q Consensus       144 ae~~elEkkl~EleskveeL-ek~~eEqekkI~elE~~Lq~lEeeL~kaq~E~~~~  198 (455)
                      ++...++.++.+..+++..- .........++.+++.+.+..+..+..+-....+.
T Consensus       249 ~~i~~l~~~i~~e~~~i~~~~~~~l~~~~~~~~~L~re~~~a~~~y~~~l~r~~~a  304 (362)
T TIGR01010       249 ARIKSLRKQIDEQRNQLSGGLGDSLNEQTADYQRLVLQNELAQQQLKAALTSLQQT  304 (362)
T ss_pred             HHHHHHHHHHHHHHHHhhcCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55556655555554444221 11233444455666666666555555444444433

This family contains gamma proteobacterial proteins involved in capsule polysaccharide export.

>KOG0288 consensus WD40 repeat protein TipD [General function prediction only]

Probab=93.87  E-value=3.6  Score=43.71  Aligned_cols=36  Identities=22%  Similarity=0.288  Sum_probs=19.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          114 AHARADELEKQIDNLKKESEKQQKEKEALEARAIEA  149 (455)
Q Consensus       114 Ae~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~el  149 (455)
                      ..+.+.+.|.++.+|+++...++++.-..++....+
T Consensus        46 i~a~~~~~E~~l~~Lq~e~~~l~e~~v~~~a~~~~~   81 (459)
T KOG0288|consen   46 IKAKLQEKELELNRLQEENTQLNEERVREEATEKTL   81 (459)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344555566666666666666666555544443333

>PF13514 AAA_27: AAA domain

Probab=93.84  E-value=5.6  Score=47.50  Aligned_cols=38  Identities=26%  Similarity=0.398  Sum_probs=17.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          148 EAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAE  185 (455)
Q Consensus       148 elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lE  185 (455)
                      +++..+.+++..++.++..++++...+..++..+..++
T Consensus       893 ~l~~~l~~l~~~l~~l~~~~~~l~~~~~~~~~~l~~l~  930 (1111)
T PF13514_consen  893 ELEAELEELEEELEELEEELEELQEERAELEQELEALE  930 (1111)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            34444444444444444444444444444444444443

>PF06785 UPF0242: Uncharacterised protein family (UPF0242); InterPro: IPR009623 This is a group of proteins of unknown function

Probab=93.84  E-value=9  Score=39.76  Aligned_cols=123  Identities=15%  Similarity=0.177  Sum_probs=56.5

Q ss_pred             hhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           67 ELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAA------EQVDKAHARADELEKQIDNLKKESEKQQKEKE  140 (455)
Q Consensus        67 eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~------eei~~Ae~~i~eLe~qIe~LkkeLE~~~~e~e  140 (455)
                      .|.+.++.+.++-..+++...+-..|+..=+.|-+...-..+      .....++.-+..++++-..++-.++++..+..
T Consensus        79 k~~e~~eglr~i~es~~e~q~e~~qL~~qnqkL~nqL~~~~~vf~k~k~~~q~LE~li~~~~EEn~~lqlqL~~l~~e~~  158 (401)
T PF06785_consen   79 KITEKDEGLRKIRESVEERQQESEQLQSQNQKLKNQLFHVREVFMKTKGDIQHLEGLIRHLREENQCLQLQLDALQQECG  158 (401)
T ss_pred             HHHhccHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHHHhHHHHHHHHh
Confidence            344556666666666666666666665544444333222211      12223333333333444444444444444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHH
Q 012833          141 ALEARAIEAEKKISDLSAKLEKLQKI-----------NDEQKSKIRKTERALKVAEEEMM  189 (455)
Q Consensus       141 eLEae~~elEkkl~EleskveeLek~-----------~eEqekkI~elE~~Lq~lEeeL~  189 (455)
                      +.+.+..++..++.|.-.-...|.+.           ++..+..|.+++.+.+++.-|+.
T Consensus       159 Ekeeesq~LnrELaE~layqq~L~~eyQatf~eq~~ml~kRQ~yI~~LEsKVqDLm~Eir  218 (401)
T PF06785_consen  159 EKEEESQTLNRELAEALAYQQELNDEYQATFVEQHSMLDKRQAYIGKLESKVQDLMYEIR  218 (401)
T ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHHhhcccccchhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444444444444443333333332           33455555666666665544443

>PF14915 CCDC144C: CCDC144C protein coiled-coil region

Probab=93.81  E-value=8.9  Score=39.21  Aligned_cols=54  Identities=19%  Similarity=0.281  Sum_probs=25.6

Q ss_pred             HHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 012833           50 LKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKE  103 (455)
Q Consensus        50 lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~  103 (455)
                      ++..-.-|-.+++..++.++++..++-..-+.++++.--+..++.++...|-.+
T Consensus       142 lkd~ne~LsQqLskaesK~nsLe~elh~trdaLrEKtL~lE~~QrdL~Qtq~q~  195 (305)
T PF14915_consen  142 LKDNNEILSQQLSKAESKFNSLEIELHHTRDALREKTLALESVQRDLSQTQCQI  195 (305)
T ss_pred             HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333444444444444444444555555555555555555555554444333

>PF05335 DUF745: Protein of unknown function (DUF745); InterPro: IPR007999 This family consists of several uncharacterised Drosophila melanogaster proteins of unknown function

Probab=93.78  E-value=6.6  Score=37.65  Aligned_cols=78  Identities=15%  Similarity=0.236  Sum_probs=47.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          110 QVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEE  187 (455)
Q Consensus       110 ei~~Ae~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEee  187 (455)
                      ....+..-......++..|+.-+...+..+...+.-.......+.+-...++..+..++.+..++.....+++.++..
T Consensus        96 na~aA~~aa~~A~~q~~~L~~~l~~a~~nl~~a~~~a~~AQ~el~eK~qLLeaAk~Rve~L~~QL~~Ar~D~~~tk~a  173 (188)
T PF05335_consen   96 NAQAAQRAAQQAQQQLETLKAALKAAQANLANAEQVAEGAQQELAEKTQLLEAAKRRVEELQRQLQAARADYEKTKKA  173 (188)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344455556666667777777777766666666666666666666666666666555555555555555555555443

>PRK09343 prefoldin subunit beta; Provisional

Probab=93.77  E-value=1.8  Score=38.45  Aligned_cols=38  Identities=13%  Similarity=0.203  Sum_probs=19.1

Q ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHH
Q 012833           43 LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEK   80 (455)
Q Consensus        43 l~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~   80 (455)
                      +.+++.+.-.++..++.++..+..++..++.++.+.+.
T Consensus         5 ~~~~~q~~~~~~q~lq~~l~~~~~q~~~le~q~~e~~~   42 (121)
T PRK09343          5 IPPEVQAQLAQLQQLQQQLERLLQQKSQIDLELREINK   42 (121)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44555555555555555555555544444444433333

>COG4477 EzrA Negative regulator of septation ring formation [Cell division and chromosome partitioning]

Probab=93.68  E-value=7.8  Score=42.50  Aligned_cols=21  Identities=24%  Similarity=0.555  Sum_probs=11.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHH
Q 012833          109 EQVDKAHARADELEKQIDNLK  129 (455)
Q Consensus       109 eei~~Ae~~i~eLe~qIe~Lk  129 (455)
                      .-+..+++....|..+|+.++
T Consensus       316 ~~l~k~ke~n~~L~~Eie~V~  336 (570)
T COG4477         316 DYLEKAKENNEHLKEEIERVK  336 (570)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            345555555555555555554

>PRK00106 hypothetical protein; Provisional

Probab=93.58  E-value=8  Score=42.74  Aligned_cols=38  Identities=16%  Similarity=0.172  Sum_probs=17.3

Q ss_pred             cchHHHHHHHHHHHHHHcCccccchHHHHHhhhhhhHH
Q 012833          234 KPAMDVAIQKALEKKAQAGKWVQPHVETIKAKWIPAVK  271 (455)
Q Consensus       234 ~P~~~~~~~k~~~~~~~~~~w~~p~~~~~~~k~~p~~~  271 (455)
                      .|+=.+....+-++.-.-|.==|--++....|...-+.
T Consensus       274 dpvRReiAr~~le~Li~dgrIhp~rIEe~v~k~~~e~~  311 (535)
T PRK00106        274 DPIRREIARMTLESLIKDGRIHPARIEELVEKNRLEMD  311 (535)
T ss_pred             ChHHHHHHHHHHHHHHHcCCcCHHHHHHHHHHHHHHHH
Confidence            34445555555555554444444344444444333333

>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=93.45  E-value=11  Score=38.94  Aligned_cols=31  Identities=23%  Similarity=0.307  Sum_probs=15.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhchHHHHHHH
Q 012833           48 DQLKSKIRSLESHIDEKTQELKGKDEVVAQK   78 (455)
Q Consensus        48 ~~lr~kI~~Leski~ele~eI~~k~~eIk~~   78 (455)
                      ++++..+..|+.+-..+..++.......+.+
T Consensus        23 ~~l~~~~~sL~qen~~Lk~El~~ek~~~~~L   53 (310)
T PF09755_consen   23 EQLRKRIESLQQENRVLKRELETEKARCKHL   53 (310)
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHH
Confidence            5555666666555444444444433333333

>PHA03332 membrane glycoprotein; Provisional

Probab=93.21  E-value=2.9  Score=48.91  Aligned_cols=18  Identities=22%  Similarity=0.554  Sum_probs=9.8

Q ss_pred             HHHHHHHHHHHHHHHHHH
Q 012833          109 EQVDKAHARADELEKQID  126 (455)
Q Consensus       109 eei~~Ae~~i~eLe~qIe  126 (455)
                      +.|+..+.||++|++++.
T Consensus       930 ~nI~avNgRIs~Led~VN  947 (1328)
T PHA03332        930 NNIRAVNGRVSDLEDQVN  947 (1328)
T ss_pred             hhHHHhcccHHHHHHHHH
Confidence            445555555555555554

>KOG2991 consensus Splicing regulator [RNA processing and modification]

Probab=93.19  E-value=10  Score=38.07  Aligned_cols=44  Identities=23%  Similarity=0.208  Sum_probs=20.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          152 KISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEA  195 (455)
Q Consensus       152 kl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq~E~  195 (455)
                      ..+++...+++|...++..+..|--++++|+..+.+|++++...
T Consensus       258 sq~eL~dfm~eLdedVEgmqsTiliLQq~Lketr~~Iq~l~k~~  301 (330)
T KOG2991|consen  258 SQEELYDFMEELDEDVEGMQSTILILQQKLKETRKEIQRLKKGL  301 (330)
T ss_pred             hHHHHHHHHHHHHHHHhcchhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333344444444444444444444455555555555544433

>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=93.18  E-value=5  Score=40.52  Aligned_cols=36  Identities=14%  Similarity=0.316  Sum_probs=13.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          150 EKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAE  185 (455)
Q Consensus       150 Ekkl~EleskveeLek~~eEqekkI~elE~~Lq~lE  185 (455)
                      |..++-++..+......++.++..+..++.+++..+
T Consensus        94 e~qv~~lEgQl~s~Kkqie~Leqelkr~KsELErsQ  129 (307)
T PF10481_consen   94 ESQVNFLEGQLNSCKKQIEKLEQELKRCKSELERSQ  129 (307)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333333333333333333333333

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 [].

>PRK10698 phage shock protein PspA; Provisional

Probab=93.17  E-value=9.1  Score=37.43  Aligned_cols=112  Identities=17%  Similarity=0.163  Sum_probs=60.5

Q ss_pred             HHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHH----HHHHHHHHHHHHHHH
Q 012833           49 QLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAE----QVDKAHARADELEKQ  124 (455)
Q Consensus        49 ~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~e----ei~~Ae~~i~eLe~q  124 (455)
                      .++.=|.+++..+.++.+.+...-..-+.++..+.+....+.+.+.+-...-.++....-.    +-..+.+++..|+.+
T Consensus        28 ~l~q~i~em~~~l~~~r~alA~~~A~~k~~er~~~~~~~~~~~~e~kA~~Al~~G~EdLAr~AL~~K~~~~~~~~~l~~~  107 (222)
T PRK10698         28 LVRLMIQEMEDTLVEVRSTSARALAEKKQLTRRIEQAEAQQVEWQEKAELALRKEKEDLARAALIEKQKLTDLIATLEHE  107 (222)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3455555666666666666666666666677777777777777777664444444332111    122344455555555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          125 IDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKL  160 (455)
Q Consensus       125 Ie~LkkeLE~~~~e~eeLEae~~elEkkl~Eleskv  160 (455)
                      ++.....++.+...+..|+.++.+++.+...+..+.
T Consensus       108 ~~~~~~~~~~L~~~l~~L~~ki~eak~k~~~L~aR~  143 (222)
T PRK10698        108 VTLVDETLARMKKEIGELENKLSETRARQQALMLRH  143 (222)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            555555555555555555555555555444444433

>TIGR02971 heterocyst_DevB ABC exporter membrane fusion protein, DevB family

Probab=93.14  E-value=8.6  Score=38.90  Aligned_cols=26  Identities=15%  Similarity=0.272  Sum_probs=15.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhc
Q 012833           45 IELDQLKSKIRSLESHIDEKTQELKG   70 (455)
Q Consensus        45 ~eL~~lr~kI~~Leski~ele~eI~~   70 (455)
                      ..+.+++..+...+.++..+...++.
T Consensus        55 ~~~~~a~a~l~~a~a~~~~~~~~~~~   80 (327)
T TIGR02971        55 AELDVARTQLDEAKARLAQVRAGAKK   80 (327)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhccccH
Confidence            45556666666666666655544433

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.

>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=93.10  E-value=6.7  Score=35.65  Aligned_cols=19  Identities=26%  Similarity=0.438  Sum_probs=8.3

Q ss_pred             HHHHHHHHHHHHHHHhhhc
Q 012833           52 SKIRSLESHIDEKTQELKG   70 (455)
Q Consensus        52 ~kI~~Leski~ele~eI~~   70 (455)
                      ..++.+...+.++...+..
T Consensus         5 ~~~~~l~~~~~~l~~~l~~   23 (202)
T PF01442_consen    5 DRLDSLSSRTEELEERLEE   23 (202)
T ss_dssp             HHHHHHHHHHHHHHHCHCS
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            3344444444444444444

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 ....

>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=93.09  E-value=6.7  Score=35.65  Aligned_cols=42  Identities=14%  Similarity=0.235  Sum_probs=16.8

Q ss_pred             hHHHhhhhHHHHHHHHhhhcchhHHHHHhhhchhHHHHhhhh
Q 012833          284 HVQTLKTKTIEACEATKTAVTPHIIRVQEVVDPYFQEAKKFS  325 (455)
Q Consensus       284 ~ve~~k~k~~p~~e~~k~~~~p~~~~~~~~~~Py~~e~k~~~  325 (455)
                      +++.++..+......+...+..++..+.+.++..+..++...
T Consensus       134 ~l~~~~~~l~~~~~~~~~~i~~~~~~l~~~l~~~~~~l~~~l  175 (202)
T PF01442_consen  134 RLEELSEELTERAEELEAKISERLEELRESLEEKAEELKETL  175 (202)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333444444444444444444444333333

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 ....

>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=93.07  E-value=5.7  Score=45.40  Aligned_cols=41  Identities=27%  Similarity=0.426  Sum_probs=16.9

Q ss_pred             HHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHH
Q 012833           87 ERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNL  128 (455)
Q Consensus        87 ~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eLe~qIe~L  128 (455)
                      .+|.++++++.+++..-..+ .+++..+.++=..|.++++.+
T Consensus       579 ~~L~~l~e~~~~l~~~ae~L-aeR~e~a~d~Qe~L~~R~~~v  619 (717)
T PF10168_consen  579 KELQELQEERKSLRESAEKL-AERYEEAKDKQEKLMKRVDRV  619 (717)
T ss_pred             HHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444443222221 234444444444444444444

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 [].

>PRK03947 prefoldin subunit alpha; Reviewed

Probab=93.06  E-value=3.7  Score=36.80  Aligned_cols=39  Identities=5%  Similarity=0.222  Sum_probs=19.7

Q ss_pred             HHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHH
Q 012833           51 KSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERI   89 (455)
Q Consensus        51 r~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I   89 (455)
                      +.++.++..+.+.+.++++.+...+..++..+.+...-+
T Consensus         5 ~~~l~~l~~~~~~l~~~~~~l~~~~~~l~~~~~e~~~~~   43 (140)
T PRK03947          5 EQELEELAAQLQALQAQIEALQQQLEELQASINELDTAK   43 (140)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344555555555555555555555555444444444433

>PF13514 AAA_27: AAA domain

Probab=93.05  E-value=10  Score=45.37  Aligned_cols=39  Identities=26%  Similarity=0.342  Sum_probs=23.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHH
Q 012833           45 IELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQ   83 (455)
Q Consensus        45 ~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~   83 (455)
                      .++.....++..++.++..++.++......+..+-..+.
T Consensus       736 ~~l~~~~~~~~~~~~ri~~~~~~~~~f~~~~~~L~~~l~  774 (1111)
T PF13514_consen  736 EELREALAEIRELRRRIEQMEADLAAFEEQVAALAERLG  774 (1111)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence            344445566666666666666666666666665554433

>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=93.03  E-value=3.1  Score=37.55  Aligned_cols=36  Identities=28%  Similarity=0.421  Sum_probs=16.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHH
Q 012833           44 KIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKE   79 (455)
Q Consensus        44 ~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e   79 (455)
                      +.||++.+..|+.+++.+....+-+..+..++.+-+
T Consensus        14 ~aeL~~a~~~I~~~q~r~a~a~~~~~~r~seldqA~   49 (136)
T PF11570_consen   14 RAELDQADEDIATLQERQASAEQALNGRRSELDQAN   49 (136)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            444555555555555444444444444333333333

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.

>PF10498 IFT57: Intra-flagellar transport protein 57 ; InterPro: IPR019530 Eukaryotic cilia and flagella are specialised organelles found at the periphery of cells of diverse organisms

Probab=93.01  E-value=6.7  Score=41.21  Aligned_cols=122  Identities=15%  Similarity=0.242  Sum_probs=75.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           73 EVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKK  152 (455)
Q Consensus        73 ~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkk  152 (455)
                      .-+.+........+..+.+....|..++..++    ..+++...+=..+|+|++.+-.+......++.+...+..++...
T Consensus       220 ~hleqm~~~~~~I~~~~~~~~~~L~kl~~~i~----~~lekI~sREk~iN~qle~l~~eYr~~~~~ls~~~~~y~~~s~~  295 (359)
T PF10498_consen  220 SHLEQMKQHKKSIESALPETKSQLDKLQQDIS----KTLEKIESREKYINNQLEPLIQEYRSAQDELSEVQEKYKQASEG  295 (359)
T ss_pred             HHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhhH
Confidence            33444444444444444555555555544332    34555666667777788888777777777777777777777777


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHhhh
Q 012833          153 ISDLSAKLEKLQKINDEQKSKIRKTERA------LKVAEEEMMRAKFEATSR  198 (455)
Q Consensus       153 l~EleskveeLek~~eEqekkI~elE~~------Lq~lEeeL~kaq~E~~~~  198 (455)
                      +.+....+..+..+++..+.++++-...      +..+...+.+++.|....
T Consensus       296 V~~~t~~L~~IseeLe~vK~emeerg~~mtD~sPlv~IKqAl~kLk~EI~qM  347 (359)
T PF10498_consen  296 VSERTRELAEISEELEQVKQEMEERGSSMTDGSPLVKIKQALTKLKQEIKQM  347 (359)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHh
Confidence            7777777777777777777776665433      234555566666555543

Intra-flagellar transport (IFT) is required for the assembly and maintenance of eukaryotic cilia and flagella, and consists of the bi-directional movement of large protein particles between the base and the distal tip of the organelle. IFT particles contain multiple copies of two distinct protein complexes, A and B, which contain at least 6 and 11 protein subunits. IFT57 is part of complex B but is not, however, required for the core subunits to stay associated []. This protein is known as Huntington-interacting protein-1 in humans.

>PF14073 Cep57_CLD: Centrosome localisation domain of Cep57

Probab=93.01  E-value=8.5  Score=36.61  Aligned_cols=141  Identities=24%  Similarity=0.335  Sum_probs=74.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHH
Q 012833           47 LDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSE----RIVSLQKELSSLQKKETLNAAEQVDKAHARADELE  122 (455)
Q Consensus        47 L~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~----~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eLe  122 (455)
                      |..|+.||..|+-+....+..+..++.+...-......-..    ...++...-        ..-.-++..|+.+..-|+
T Consensus         6 LK~LQeKIrrLELER~qAe~nl~~LS~et~~yk~vl~~~~~~~~~~~~e~~~q~--------~dl~~qL~aAEtRCslLE   77 (178)
T PF14073_consen    6 LKNLQEKIRRLELERSQAEDNLKQLSRETSHYKKVLQSEQNERERAHQELSKQN--------QDLSSQLSAAETRCSLLE   77 (178)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHhHHHHHHHhhhhhcccchhhhcc--------HHHHHHHHHHHHHHHHHH
Confidence            56678888888877777777777777666554443321111    111111111        111335566777777777


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          123 KQIDNLKKESEKQQKEKEALEARAIEAEK--------------KISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEM  188 (455)
Q Consensus       123 ~qIe~LkkeLE~~~~e~eeLEae~~elEk--------------kl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL  188 (455)
                      +|++-..+-+..-+.+....-.+...++.              +++-++.+...|.....-.+.+|..++.++..-+.+-
T Consensus        78 KQLeyMRkmv~~ae~er~~~le~q~~l~~e~~~~~~~~~~klekLe~LE~E~~rLt~~Q~~ae~Ki~~LE~KL~eEehqR  157 (178)
T PF14073_consen   78 KQLEYMRKMVESAEKERNAVLEQQVSLQRERQQDQSELQAKLEKLEKLEKEYLRLTATQSLAETKIKELEEKLQEEEHQR  157 (178)
T ss_pred             HHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            77777776666655555533333333333              3333444444444444455556666666665555444


Q ss_pred             HHHHHHH
Q 012833          189 MRAKFEA  195 (455)
Q Consensus       189 ~kaq~E~  195 (455)
                      .-.+..+
T Consensus       158 KlvQdkA  164 (178)
T PF14073_consen  158 KLVQDKA  164 (178)
T ss_pred             HHHHHHH
Confidence            4444433

>PF15254 CCDC14: Coiled-coil domain-containing protein 14

Probab=92.93  E-value=20  Score=41.11  Aligned_cols=59  Identities=8%  Similarity=0.103  Sum_probs=38.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 012833          141 ALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRS  199 (455)
Q Consensus       141 eLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq~E~~~~a  199 (455)
                      ..+.+...+.-++++.-.++..++-.+++-+++-.-+.-.+.+-+.|+.|+.+=...++
T Consensus       491 ~~d~e~~rik~ev~eal~~~k~~q~kLe~sekEN~iL~itlrQrDaEi~RL~eLtR~LQ  549 (861)
T PF15254_consen  491 QFDIETTRIKIEVEEALVNVKSLQFKLEASEKENQILGITLRQRDAEIERLRELTRTLQ  549 (861)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhhhhHhhhHHHHHHHHHHHHHHHHHHHH
Confidence            34444555666667777777777777777777766677777777777777765444443

>PF02994 Transposase_22: L1 transposable element; InterPro: IPR004244 Many human L1 elements are capable of retrotransposition

Probab=92.78  E-value=0.36  Score=50.67  Aligned_cols=19  Identities=11%  Similarity=0.060  Sum_probs=9.5

Q ss_pred             chhHHHhhhhHHHHHHHHh
Q 012833          282 EPHVQTLKTKTIEACEATK  300 (455)
Q Consensus       282 ~p~ve~~k~k~~p~~e~~k  300 (455)
                      -|-+..-+.+|.++...+|
T Consensus       289 S~~~l~kRr~~~~i~~~Lr  307 (370)
T PF02994_consen  289 SPETLQKRRKFNPIKKKLR  307 (370)
T ss_dssp             THHHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHH
Confidence            3444445555555555444

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.

>PRK15178 Vi polysaccharide export inner membrane protein VexD; Provisional

Probab=92.69  E-value=15  Score=39.66  Aligned_cols=150  Identities=15%  Similarity=0.161  Sum_probs=96.9

Q ss_pred             HHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh-HHHHHHHHHHHHHHHHHHHHHHH
Q 012833           51 KSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLN-AAEQVDKAHARADELEKQIDNLK  129 (455)
Q Consensus        51 r~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~-~~eei~~Ae~~i~eLe~qIe~Lk  129 (455)
                      +.=+..-+.-|++++..+..  +.+.-.+.++...+..+.+.+..+...+++...+ -+.+....-.-|+.|+.|+..++
T Consensus       222 ~aLL~~sE~~VN~Ls~rar~--D~v~~Ae~ev~~Ae~rl~~Ar~aL~~fRn~~gvlDP~~~a~~~~~lI~~Le~qLa~~~  299 (434)
T PRK15178        222 QRILSFAEQHVNTVSARMQK--ERILWLENDVKSAQENLGAARLELLKIQHIQKDIDPKETITAIYQLIAGFETQLAEAK  299 (434)
T ss_pred             HHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcChHHHHHHHHHHHHHHHHHHHHHH
Confidence            33445556777777665544  6777788888888888888888888888766544 33344455556666666666666


Q ss_pred             HHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHH------HHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          130 KESEKQQK-------EKEALEARAIEAEKKISDLSAKLE------KLQKIN---DEQKSKIRKTERALKVAEEEMMRAKF  193 (455)
Q Consensus       130 keLE~~~~-------e~eeLEae~~elEkkl~Eleskve------eLek~~---eEqekkI~elE~~Lq~lEeeL~kaq~  193 (455)
                      .++..+..       ++..++.+...+++++.+...++.      .+....   +.+.-+.+=.++.+..+-..++.+..
T Consensus       300 aeL~~L~~~~~p~sPqV~~l~~rI~aLe~QIa~er~kl~~~~g~~~la~~laeYe~L~le~efAe~~y~sAlaaLE~AR~  379 (434)
T PRK15178        300 AEYAQLMVNGLDQNPLIPRLSAKIKVLEKQIGEQRNRLSNKLGSQGSSESLSLFEDLRLQSEIAKARWESALQTLQQGKL  379 (434)
T ss_pred             HHHHHHHhhcCCCCCchhHHHHHHHHHHHHHHHHHHHhhcCCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            66665543       344777777777777777766663      344334   44444555555566666666777777


Q ss_pred             HHhhhhHhh
Q 012833          194 EATSRSKEL  202 (455)
Q Consensus       194 E~~~~a~ei  202 (455)
                      |+++..+-+
T Consensus       380 EA~RQ~~YL  388 (434)
T PRK15178        380 QALRERQYL  388 (434)
T ss_pred             HHHhhhhhe
Confidence            777665544

>KOG1937 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.62  E-value=17  Score=39.16  Aligned_cols=44  Identities=11%  Similarity=0.161  Sum_probs=28.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhccccCCh
Q 012833          169 EQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTEVHSAWLPP  212 (455)
Q Consensus       169 EqekkI~elE~~Lq~lEeeL~kaq~E~~~~a~ei~~~gGawl~P  212 (455)
                      .+...|.++-..+.+.+..|-+...+..++++++-..+|+.=.-
T Consensus       386 ~ytqrikEi~gniRKq~~DI~Kil~etreLqkq~ns~se~L~Rs  429 (521)
T KOG1937|consen  386 VYTQRIKEIDGNIRKQEQDIVKILEETRELQKQENSESEALNRS  429 (521)
T ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            44556666666677777777777777777777775544444333

>PRK04406 hypothetical protein; Provisional

Probab=92.51  E-value=1.1  Score=36.74  Aligned_cols=50  Identities=22%  Similarity=0.244  Sum_probs=37.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          140 EALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMM  189 (455)
Q Consensus       140 eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~  189 (455)
                      ..++++..+||.++.-.+.-+++|++.+.++++.|+.+.++++.+-+.+.
T Consensus         7 ~~le~Ri~~LE~~lAfQE~tIe~LN~~v~~Qq~~I~~L~~ql~~L~~rl~   56 (75)
T PRK04406          7 EQLEERINDLECQLAFQEQTIEELNDALSQQQLLITKMQDQMKYVVGKVK   56 (75)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            35677777788888888888888888888888888888877776655443

>PF10498 IFT57: Intra-flagellar transport protein 57 ; InterPro: IPR019530 Eukaryotic cilia and flagella are specialised organelles found at the periphery of cells of diverse organisms

Probab=92.47  E-value=3.8  Score=43.04  Aligned_cols=8  Identities=38%  Similarity=0.422  Sum_probs=2.8

Q ss_pred             HHHHHHHH
Q 012833          180 ALKVAEEE  187 (455)
Q Consensus       180 ~Lq~lEee  187 (455)
                      .+..++.+
T Consensus       336 Al~kLk~E  343 (359)
T PF10498_consen  336 ALTKLKQE  343 (359)
T ss_pred             HHHHHHHH
Confidence            33333333

Intra-flagellar transport (IFT) is required for the assembly and maintenance of eukaryotic cilia and flagella, and consists of the bi-directional movement of large protein particles between the base and the distal tip of the organelle. IFT particles contain multiple copies of two distinct protein complexes, A and B, which contain at least 6 and 11 protein subunits. IFT57 is part of complex B but is not, however, required for the core subunits to stay associated []. This protein is known as Huntington-interacting protein-1 in humans.

>PRK09841 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional

Probab=92.23  E-value=8.1  Score=44.06  Aligned_cols=72  Identities=10%  Similarity=0.214  Sum_probs=34.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          116 ARADELEKQIDNLKKESEKQQK-------EKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEM  188 (455)
Q Consensus       116 ~~i~eLe~qIe~LkkeLE~~~~-------e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL  188 (455)
                      .++.+++.|+..++.....+..       ....+..+...++.+++.++.++..+.    +.+.++.+++++.+..+..+
T Consensus       311 ~~~~~l~~ql~~l~~~~~~l~~~~~~~hP~v~~l~~~~~~L~~~~~~l~~~~~~~p----~~e~~~~~L~R~~~~~~~lY  386 (726)
T PRK09841        311 EQIVNVDNQLNELTFREAEISQLYKKDHPTYRALLEKRQTLEQERKRLNKRVSAMP----STQQEVLRLSRDVEAGRAVY  386 (726)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHHHHHHHHHHHhcc----HHHHHHHHHHHHHHHHHHHH
Confidence            3445555555554433333222       122444445555555555554444333    34555556666666555544


Q ss_pred             HHH
Q 012833          189 MRA  191 (455)
Q Consensus       189 ~ka  191 (455)
                      ..+
T Consensus       387 ~~l  389 (726)
T PRK09841        387 LQL  389 (726)
T ss_pred             HHH
Confidence            443

>PRK10869 recombination and repair protein; Provisional

Probab=92.19  E-value=9.9  Score=42.09  Aligned_cols=44  Identities=14%  Similarity=0.160  Sum_probs=21.1

Q ss_pred             HHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHhhhhHhhh
Q 012833          160 LEKLQKINDEQKSKIRKT---ERALKVAEEEMMRAKFEATSRSKELT  203 (455)
Q Consensus       160 veeLek~~eEqekkI~el---E~~Lq~lEeeL~kaq~E~~~~a~ei~  203 (455)
                      ++++-.-.++.+.+++.+   +..++.++.++.++..+....+.+++
T Consensus       319 ~~~~~~~~~~l~~eL~~L~~~e~~l~~Le~e~~~l~~~l~~~A~~LS  365 (553)
T PRK10869        319 PEELPQHHQQLLEEQQQLDDQEDDLETLALAVEKHHQQALETAQKLH  365 (553)
T ss_pred             HHHHHHHHHHHHHHHHHhhCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444444332   33455555555555555555554443

>TIGR03794 NHPM_micro_HlyD NHPM bacteriocin system secretion protein

Probab=92.14  E-value=18  Score=38.24  Aligned_cols=24  Identities=21%  Similarity=0.390  Sum_probs=14.3

Q ss_pred             cHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           43 LKIELDQLKSKIRSLESHIDEKTQ   66 (455)
Q Consensus        43 l~~eL~~lr~kI~~Leski~ele~   66 (455)
                      +..++..++..+.+++.++..++.
T Consensus        94 ~~~~~~~~~~~l~~~~~q~~~l~~  117 (421)
T TIGR03794        94 LRERLQESYQKLTQLQEQLEEVRN  117 (421)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            445555666666666666665544

Members of this protein family are homologs of the HlyD membrane fusion protein of type I secretion systems. Their occurrence in prokaryotic genomes is associated with the occurrence of a novel class of microcin (small bacteriocins) with a propeptide region related to nitrile hydratase. We designate the class of bacteriocin as Nitrile Hydratase Propeptide Microcin, or NHPM. This family, therefore, is designated as NHPM bacteriocin system secretion protein. Some but not all NHPM-class putative microcins belong to the TOMM (thiazole/oxazole modified microcin) class as assessed by the presence of the scaffolding protein and/or cyclodehydratase in the same gene clusters.

>PF05278 PEARLI-4: Arabidopsis phospholipase-like protein (PEARLI 4); InterPro: IPR007942 This family contains several phospholipase-like proteins from Arabidopsis thaliana and other members of the Streptophyta which are homologous to PEARLI 4

Probab=92.08  E-value=15  Score=37.17  Aligned_cols=64  Identities=16%  Similarity=0.254  Sum_probs=46.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhh
Q 012833          141 ALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTE  204 (455)
Q Consensus       141 eLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq~E~~~~a~ei~~  204 (455)
                      ..+.+.+..+.++.....+++.+..++.+.++.+.++..++......+.+++.+...+...+..
T Consensus       190 ~~e~eke~~~r~l~~~~~ELe~~~EeL~~~Eke~~e~~~~i~e~~~rl~~l~~~~~~l~k~~~~  253 (269)
T PF05278_consen  190 TREEEKEEKDRKLELKKEELEELEEELKQKEKEVKEIKERITEMKGRLGELEMESTRLSKTIKS  253 (269)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3455566666677777777777778888888888888888888888888888877766655533

>COG1842 PspA Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]

Probab=92.04  E-value=13  Score=36.54  Aligned_cols=116  Identities=22%  Similarity=0.286  Sum_probs=64.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHH
Q 012833           48 DQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDN  127 (455)
Q Consensus        48 ~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eLe~qIe~  127 (455)
                      ..++.-|...++.+.+..+.+...-..-+.++..+++....+..++++-...=.++.   +.-...+-.++..+++++..
T Consensus        27 ~~l~Q~ird~~~~l~~ar~~~A~~~a~~k~~e~~~~~~~~~~~k~e~~A~~Al~~g~---E~LAr~al~~~~~le~~~~~  103 (225)
T COG1842          27 KMLEQAIRDMESELAKARQALAQAIARQKQLERKLEEAQARAEKLEEKAELALQAGN---EDLAREALEEKQSLEDLAKA  103 (225)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC---HHHHHHHHHHHHHHHHHHHH
Confidence            556666666666666666666666666666666666666666666655433222222   22233444555555566666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          128 LKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKI  166 (455)
Q Consensus       128 LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~  166 (455)
                      ++..+.........++.....++.++.++..+.+.+...
T Consensus       104 ~~~~~~~~~~~~~~l~~~~~~Le~Ki~e~~~~~~~l~ar  142 (225)
T COG1842         104 LEAELQQAEEQVEKLKKQLAALEQKIAELRAKKEALKAR  142 (225)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            655555555555555555555555555555555444333

>COG3206 GumC Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]

Probab=92.00  E-value=14  Score=39.49  Aligned_cols=144  Identities=18%  Similarity=0.235  Sum_probs=62.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHH---HHHHHHHH-HHHHHHHHHHHHHhhhhhhHHH------HHHH
Q 012833           44 KIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKE---KAIQDKSE-RIVSLQKELSSLQKKETLNAAE------QVDK  113 (455)
Q Consensus        44 ~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e---~~I~e~e~-~I~eLq~eI~sLQkK~s~~~~e------ei~~  113 (455)
                      ..++.+++..+...+......+..+......+....   ......+. .|++|.++..+++..+....++      +.-.
T Consensus       238 ~~~~~~ln~ql~~~~~~~~~~~a~l~~~~~~~~~~~~~~~~~~~~~s~~i~~Lr~~~~~~~~~~~~l~~~~~~~~p~~~~  317 (458)
T COG3206         238 EQQLSALNTQLQSARARLAQAEARLASLLQLLPLGREAAALREVLESPTIQDLRQQYAQVRQQIADLSTELGAKHPQLVA  317 (458)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccchhhhHHhccHHHHHHHHHHHHHHHHHHHHHHhhcccChHHHh
Confidence            444455555555555555554444444443333332   11111111 2555555544444333332111      3344


Q ss_pred             HHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          114 AHARADELEKQIDNL-KKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRA  191 (455)
Q Consensus       114 Ae~~i~eLe~qIe~L-kkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~ka  191 (455)
                      ++.++.+++.++... ...+.....+...++.+.+.++++++.+++.+..+.    ..+.++.+++++.+..+..++.+
T Consensus       318 ~~~q~~~~~~~~~~e~~~~~~~~~~~~~~l~~~~~~L~~~~~~l~~~~~~~~----~~~~~l~~L~Re~~~~r~~ye~l  392 (458)
T COG3206         318 LEAQLAELRQQIAAELRQILASLPNELALLEQQEAALEKELAQLKGRLSKLP----KLQVQLRELEREAEAARSLYETL  392 (458)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhchhHHHHHHHHHHHHHHHHHHHHHHHhhch----HhhhHHHHHHHHHHHHHHHHHHH
Confidence            444455544444322 333333344444455555555555555555544433    34444455555555544444433

>PF05557 MAD: Mitotic checkpoint protein; InterPro: IPR008672 This family consists of several eukaryotic mitotic checkpoint (Mitotic arrest deficient or MAD) proteins

Probab=91.99  E-value=0.25  Score=56.10  Aligned_cols=57  Identities=25%  Similarity=0.300  Sum_probs=0.0

Q ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           43 LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSL   99 (455)
Q Consensus        43 l~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sL   99 (455)
                      +...|.+++.+...|..++..++.++..++..+..++..+.+...+|.++...+..+
T Consensus       341 l~~~l~~lq~~~~~L~ek~g~~~~~~~~l~~~~~~Le~e~~~l~~~~~~l~~~~~~~  397 (722)
T PF05557_consen  341 LARALVQLQQENASLTEKLGSLQSELRELEEEIQELEQEKEQLLKEIEELEASLEAL  397 (722)
T ss_dssp             ---------------------------------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334455555555555555555555555555555555555555555555555544443

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.

>PF15450 DUF4631: Domain of unknown function (DUF4631)

Probab=91.96  E-value=22  Score=38.95  Aligned_cols=43  Identities=21%  Similarity=0.223  Sum_probs=20.1

Q ss_pred             HHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           90 VSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESE  133 (455)
Q Consensus        90 ~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eLe~qIe~LkkeLE  133 (455)
                      ++..+.++.++ +.+.+.+..+......+.+|...+..|...+.
T Consensus       333 Qe~~~~ld~Lq-Eksqile~sv~~l~~~lkDLd~~~~aLs~rld  375 (531)
T PF15450_consen  333 QETQSELDLLQ-EKSQILEDSVAELMRQLKDLDDHILALSWRLD  375 (531)
T ss_pred             hhhhhHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Confidence            34455555555 23333344444555555555555544444433

>TIGR02977 phageshock_pspA phage shock protein A

Probab=91.96  E-value=13  Score=36.14  Aligned_cols=35  Identities=17%  Similarity=0.190  Sum_probs=13.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          151 KKISDLSAKLEKLQKINDEQKSKIRKTERALKVAE  185 (455)
Q Consensus       151 kkl~EleskveeLek~~eEqekkI~elE~~Lq~lE  185 (455)
                      ..+..++..++.+...+++++..+..++.++...+
T Consensus        99 ~~~~~l~~~~~~~~~~v~~l~~~l~~L~~ki~~~k  133 (219)
T TIGR02977        99 ELAEALERELAAVEETLAKLQEDIAKLQAKLAEAR  133 (219)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333333333333333333

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.

>PF12761 End3: Actin cytoskeleton-regulatory complex protein END3

Probab=91.90  E-value=1.3  Score=42.63  Aligned_cols=96  Identities=16%  Similarity=0.268  Sum_probs=55.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhchHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHH
Q 012833           46 ELDQLKSKIRSLESHIDEKTQELKGKDE-VVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQ  124 (455)
Q Consensus        46 eL~~lr~kI~~Leski~ele~eI~~k~~-eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eLe~q  124 (455)
                      |.-.|+.+|+.|+.+++..++....... .-......-.+.++.+.-.+.++.++.. +.......+....+.|...+.|
T Consensus        97 EevrLkrELa~Le~~l~~~~~~~~~~~~~~~~~~~lvk~e~EqLL~YK~~ql~~~~~-~~~~~~~~l~~v~~Dl~~ie~Q  175 (195)
T PF12761_consen   97 EEVRLKRELAELEEKLSKVEQAAESRRSDTDSKPALVKREFEQLLDYKERQLRELEE-GRSKSGKNLKSVREDLDTIEEQ  175 (195)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhcccCCcchHHHHHHHHHHHHHHHHHHHHhhhc-cCCCCCCCHHHHHHHHHHHHHH
Confidence            5666777777777777777776665211 1111223344666777777777776643 2222233455666666666666


Q ss_pred             HHHHHHHHHHHHHHHHHH
Q 012833          125 IDNLKKESEKQQKEKEAL  142 (455)
Q Consensus       125 Ie~LkkeLE~~~~e~eeL  142 (455)
                      |+.|+.=|...+.++..|
T Consensus       176 V~~Le~~L~~k~~eL~~L  193 (195)
T PF12761_consen  176 VDGLESHLSSKKQELQQL  193 (195)
T ss_pred             HHHHHHHHHHHHHHHHHh
Confidence            666666665555444433

>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=91.90  E-value=4.4  Score=34.44  Aligned_cols=58  Identities=14%  Similarity=0.216  Sum_probs=23.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           78 KEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQ  136 (455)
Q Consensus        78 ~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eLe~qIe~LkkeLE~~~  136 (455)
                      ....+..+-.++..+++++.-+..+.+.. +.++..+......+..++..|...+....
T Consensus        15 ~~~~~~~k~~~~~~lE~k~~rl~~Ek~ka-dqkyfa~mr~~d~l~~e~k~L~~~~~Ks~   72 (96)
T PF08647_consen   15 LSEQADKKVKELTILEQKKLRLEAEKAKA-DQKYFAAMRSKDALDNEMKKLNTQLSKSS   72 (96)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHhHHHHHHHHHHHHHHHHHhH
Confidence            33333344444444444444443333221 33344444444444444444444444333

>PF04102 SlyX: SlyX; InterPro: IPR007236 The SlyX protein has no known function

Probab=91.88  E-value=0.91  Score=36.36  Aligned_cols=51  Identities=27%  Similarity=0.400  Sum_probs=35.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          142 LEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAK  192 (455)
Q Consensus       142 LEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq  192 (455)
                      +++++.++|.++.-.+.-++.|+..+.+++.+|+.+++.++.+...+..+.
T Consensus         2 le~Ri~~LE~~la~qe~~ie~Ln~~v~~Qq~~I~~L~~~l~~L~~rl~~~~   52 (69)
T PF04102_consen    2 LEERIEELEIKLAFQEDTIEELNDVVTEQQRQIDRLQRQLRLLRERLRELE   52 (69)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT-----
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            466777777777777777888888888888888888877777776666654

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.

>PRK02119 hypothetical protein; Provisional

Probab=91.88  E-value=1.1  Score=36.34  Aligned_cols=51  Identities=29%  Similarity=0.270  Sum_probs=38.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          140 EALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMR  190 (455)
Q Consensus       140 eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~k  190 (455)
                      ..++++..++|.++.-.+.-+++|++.+.++++.|+.+.+.+..+-+.+..
T Consensus         5 ~~~e~Ri~~LE~rla~QE~tie~LN~~v~~Qq~~id~L~~ql~~L~~rl~~   55 (73)
T PRK02119          5 QNLENRIAELEMKIAFQENLLEELNQALIEQQFVIDKMQVQLRYMANKLKD   55 (73)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            446677777888888888888888888888888888888777766555443

>KOG1962 consensus B-cell receptor-associated protein and related proteins [Defense mechanisms]

Probab=91.86  E-value=2.1  Score=41.87  Aligned_cols=32  Identities=28%  Similarity=0.260  Sum_probs=12.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          149 AEKKISDLSAKLEKLQKINDEQKSKIRKTERA  180 (455)
Q Consensus       149 lEkkl~EleskveeLek~~eEqekkI~elE~~  180 (455)
                      ++.++++..++++..+...+.++++.+.+..+
T Consensus       163 L~~el~~~~~~Le~~~~~~~al~Kq~e~~~~E  194 (216)
T KOG1962|consen  163 LETELEKKQKKLEKAQKKVDALKKQSEGLQDE  194 (216)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHcccH
Confidence            33333333333334444444444444333333

>PF15294 Leu_zip: Leucine zipper

Probab=91.86  E-value=6.6  Score=39.83  Aligned_cols=47  Identities=13%  Similarity=0.240  Sum_probs=29.6

Q ss_pred             CccHHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHH
Q 012833           41 SPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSE   87 (455)
Q Consensus        41 ~~l~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~   87 (455)
                      .-+..+|+.++.+-..|...+..++..-...-++-..++..|.++..
T Consensus       128 ~ll~kEi~rLq~EN~kLk~rl~~le~~at~~l~Ek~kl~~~L~~lq~  174 (278)
T PF15294_consen  128 ELLNKEIDRLQEENEKLKERLKSLEKQATSALDEKSKLEAQLKELQD  174 (278)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34677777777777777777777776666555555555544444443

>PRK00106 hypothetical protein; Provisional

Probab=91.84  E-value=15  Score=40.59  Aligned_cols=12  Identities=17%  Similarity=0.063  Sum_probs=5.2

Q ss_pred             HHHHHHHHHhcc
Q 012833          373 QASVQEMLKKHE  384 (455)
Q Consensus       373 q~~~~~~l~~~e  384 (455)
                      +.++-.+||+-.
T Consensus       375 ~a~~AGLLHDIG  386 (535)
T PRK00106        375 LARRAGFLHDMG  386 (535)
T ss_pred             HHHHHHHHHhcc
Confidence            344444444433

>KOG4809 consensus Rab6 GTPase-interacting protein involved in endosome-to-TGN transport [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.77  E-value=14  Score=40.64  Aligned_cols=14  Identities=36%  Similarity=0.432  Sum_probs=7.0

Q ss_pred             hhHhHHHhhcchHH
Q 012833          339 HVDNVRVALKPYTK  352 (455)
Q Consensus       339 ~~~~~~~~~~P~~~  352 (455)
                      |-|-.+++.+|--+
T Consensus       578 ~~d~~~~~~~~~~~  591 (654)
T KOG4809|consen  578 HADMWRETHKPSNE  591 (654)
T ss_pred             CHHHHHHHhhhhhh
Confidence            34455555555433

>COG1730 GIM5 Predicted prefoldin, molecular chaperone implicated in de novo protein folding [Posttranslational modification, protein turnover, chaperones]

Probab=91.75  E-value=5.3  Score=36.78  Aligned_cols=27  Identities=22%  Similarity=0.433  Sum_probs=15.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhch
Q 012833           45 IELDQLKSKIRSLESHIDEKTQELKGK   71 (455)
Q Consensus        45 ~eL~~lr~kI~~Leski~ele~eI~~k   71 (455)
                      ++++++...++.++++++.+.++|..+
T Consensus         6 ~~le~l~a~lq~l~~qie~L~~~i~~l   32 (145)
T COG1730           6 QELEELAAQLQILQSQIESLQAQIAAL   32 (145)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455666666666666666555544443

>COG1842 PspA Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]

Probab=91.74  E-value=14  Score=36.30  Aligned_cols=52  Identities=13%  Similarity=0.128  Sum_probs=30.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          144 ARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEA  195 (455)
Q Consensus       144 ae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq~E~  195 (455)
                      .+...++..+..+...+..+....+.++..+..++.+|..++.....+....
T Consensus        92 ~~~~~le~~~~~~~~~~~~~~~~~~~l~~~~~~Le~Ki~e~~~~~~~l~ar~  143 (225)
T COG1842          92 EEKQSLEDLAKALEAELQQAEEQVEKLKKQLAALEQKIAELRAKKEALKARK  143 (225)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4455556666666666666666666666666666666666665555444433

>PRK09343 prefoldin subunit beta; Provisional

Probab=91.71  E-value=7.8  Score=34.35  Aligned_cols=33  Identities=18%  Similarity=0.213  Sum_probs=12.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          156 LSAKLEKLQKINDEQKSKIRKTERALKVAEEEM  188 (455)
Q Consensus       156 leskveeLek~~eEqekkI~elE~~Lq~lEeeL  188 (455)
                      ++.+++.++..+..++++...++..+...+..+
T Consensus        76 l~~r~E~ie~~ik~lekq~~~l~~~l~e~q~~l  108 (121)
T PRK09343         76 LKERKELLELRSRTLEKQEKKLREKLKELQAKI  108 (121)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333333333333333333333

>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=91.64  E-value=2.4  Score=34.55  Aligned_cols=18  Identities=6%  Similarity=0.322  Sum_probs=8.3

Q ss_pred             HHHHHHHHHHHHHHhhhh
Q 012833           87 ERIVSLQKELSSLQKKET  104 (455)
Q Consensus        87 ~~I~eLq~eI~sLQkK~s  104 (455)
                      ..|.+....|+.|..+|.
T Consensus         5 ~~l~EKDe~Ia~L~eEGe   22 (74)
T PF12329_consen    5 KKLAEKDEQIAQLMEEGE   22 (74)
T ss_pred             HHHHhHHHHHHHHHHHHH
Confidence            344444444444444443

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.

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

Probab=91.54  E-value=18  Score=37.14  Aligned_cols=83  Identities=14%  Similarity=0.192  Sum_probs=54.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          110 QVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMM  189 (455)
Q Consensus       110 ei~~Ae~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~  189 (455)
                      ..+..+..+..-|.-....+++++.+.+.+..+|.+...+..+.+..+..+-++..+.......+..+..+++.++.-..
T Consensus       224 Kf~efq~tL~kSNe~F~tfk~Emekm~Kk~kklEKE~~~~k~k~e~~n~~l~~m~eer~~~~~~~~~~~~k~~kLe~LcR  303 (309)
T PF09728_consen  224 KFEEFQDTLNKSNEVFETFKKEMEKMSKKIKKLEKENQTWKSKWEKSNKALIEMAEERQKLEKELEKLKKKIEKLEKLCR  303 (309)
T ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444455555555566666777777777777777777777777777777777777777776777766666666665554


Q ss_pred             HHH
Q 012833          190 RAK  192 (455)
Q Consensus       190 kaq  192 (455)
                      .++
T Consensus       304 aLQ  306 (309)
T PF09728_consen  304 ALQ  306 (309)
T ss_pred             HHh
Confidence            444

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

>PF05266 DUF724: Protein of unknown function (DUF724); InterPro: IPR007930 This family contains several uncharacterised proteins found exclusively in Arabidopsis thaliana

Probab=91.46  E-value=14  Score=35.51  Aligned_cols=69  Identities=25%  Similarity=0.359  Sum_probs=37.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          125 IDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKF  193 (455)
Q Consensus       125 Ie~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq~  193 (455)
                      ...+++.++....+...++....+++.++-+++.....+....+.....|..++.....+++++..++.
T Consensus       112 ~k~le~~~~~~~~~~~~~e~~i~~Le~ki~el~~~~~~~~~~ke~~~~ei~~lks~~~~l~~~~~~~e~  180 (190)
T PF05266_consen  112 RKKLEKKIEEKEAELKELESEIKELEMKILELQRQAAKLKEKKEAKDKEISRLKSEAEALKEEIENAEL  180 (190)
T ss_pred             HHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333334444444444455555555555555555555555555555556666666655555555555543

>TIGR02971 heterocyst_DevB ABC exporter membrane fusion protein, DevB family

Probab=91.42  E-value=17  Score=36.66  Aligned_cols=21  Identities=14%  Similarity=0.276  Sum_probs=9.6

Q ss_pred             HHHHHHHHHHHHHHHhhhchH
Q 012833           52 SKIRSLESHIDEKTQELKGKD   72 (455)
Q Consensus        52 ~kI~~Leski~ele~eI~~k~   72 (455)
                      ..+.+.+.++.....++....
T Consensus        55 ~~~~~a~a~l~~a~a~~~~~~   75 (327)
T TIGR02971        55 AELDVARTQLDEAKARLAQVR   75 (327)
T ss_pred             HHHHHHHHHHHHHHHHHHHHh
Confidence            444444555554444444333

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.

>KOG0999 consensus Microtubule-associated protein Bicaudal-D [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.33  E-value=27  Score=38.69  Aligned_cols=43  Identities=21%  Similarity=0.234  Sum_probs=21.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          121 LEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKL  163 (455)
Q Consensus       121 Le~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeL  163 (455)
                      .+.+..+|+.++...+..-..+-++..++|.+--.+++.+..|
T Consensus       147 ~E~qR~rlr~elKe~KfRE~RllseYSELEEENIsLQKqVs~L  189 (772)
T KOG0999|consen  147 VEDQRRRLRDELKEYKFREARLLSEYSELEEENISLQKQVSNL  189 (772)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHH
Confidence            3445555555555555555545555555554433344444333

>KOG0239 consensus Kinesin (KAR3 subfamily) [Cytoskeleton]

Probab=91.33  E-value=16  Score=41.48  Aligned_cols=69  Identities=19%  Similarity=0.275  Sum_probs=32.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          121 LEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMM  189 (455)
Q Consensus       121 Le~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~  189 (455)
                      +...+..+....+...+.+..+..++.+++..+.++...+..+....++....+..+...+...+..+.
T Consensus       225 ~~~~~~~l~~~~~~~~~~i~~l~~~l~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~L~~~~~~l~  293 (670)
T KOG0239|consen  225 LRRNIKPLEGLESTIKKKIQALQQELEELKAELKELNDQVSLLTREVQEALKESNTLQSDLESLEENLV  293 (670)
T ss_pred             HHHhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333344444444444444444444555555555555555555555555555444444444444444433

>PRK00295 hypothetical protein; Provisional

Probab=91.32  E-value=1.7  Score=34.88  Aligned_cols=50  Identities=18%  Similarity=0.191  Sum_probs=37.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          142 LEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRA  191 (455)
Q Consensus       142 LEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~ka  191 (455)
                      ++++..++|.++.-.+.-+++|++.+.++++.|+.+++.+..+...+...
T Consensus         3 ~e~Ri~~LE~kla~qE~tie~Ln~~v~~Qq~~I~~L~~ql~~L~~rl~~~   52 (68)
T PRK00295          3 LEERVTELESRQAFQDDTIQALNDVLVEQQRVIERLQLQMAALIKRQEEM   52 (68)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            45667777777778888888888888888888888887777765555443

>PRK02793 phi X174 lysis protein; Provisional

Probab=91.32  E-value=1.5  Score=35.58  Aligned_cols=50  Identities=22%  Similarity=0.307  Sum_probs=38.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          141 ALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMR  190 (455)
Q Consensus       141 eLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~k  190 (455)
                      .+++++.++|.++.-.+.-+++|++.+.++++.|+.+.+.+..+-+.+..
T Consensus         5 ~~e~Ri~~LE~~lafQe~tIe~Ln~~v~~Qq~~I~~L~~~l~~L~~rl~~   54 (72)
T PRK02793          5 SLEARLAELESRLAFQEITIEELNVTVTAHEMEMAKLRDHLRLLTEKLKA   54 (72)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            36777788888888888888888888888888888888777777655544

>TIGR00634 recN DNA repair protein RecN

Probab=91.21  E-value=12  Score=41.26  Aligned_cols=15  Identities=7%  Similarity=0.364  Sum_probs=6.2

Q ss_pred             HHHHHHHHHHHHHHH
Q 012833          110 QVDKAHARADELEKQ  124 (455)
Q Consensus       110 ei~~Ae~~i~eLe~q  124 (455)
                      .+..+++++..++..
T Consensus       302 ~L~ele~RL~~l~~L  316 (563)
T TIGR00634       302 RLNEIEERLAQIKRL  316 (563)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            334444444444443

All proteins in this family for which functions are known are ATP binding proteins involved in the initiation of recombination and recombinational repair.

>PRK00736 hypothetical protein; Provisional

Probab=91.21  E-value=1.6  Score=35.07  Aligned_cols=49  Identities=20%  Similarity=0.313  Sum_probs=37.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          142 LEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMR  190 (455)
Q Consensus       142 LEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~k  190 (455)
                      +++++.+||.++...+.-+++|++.+.++++.|+.+.+++..+-+.+..
T Consensus         3 ~e~Ri~~LE~klafqe~tie~Ln~~v~~Qq~~i~~L~~ql~~L~~rl~~   51 (68)
T PRK00736          3 AEERLTELEIRVAEQEKTIEELSDQLAEQWKTVEQMRKKLDALTERFLS   51 (68)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4566777778888888888888888888888888888777777665544

>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=91.06  E-value=32  Score=39.02  Aligned_cols=62  Identities=23%  Similarity=0.295  Sum_probs=29.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          113 KAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKI  174 (455)
Q Consensus       113 ~Ae~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI  174 (455)
                      ....++..+++.+..|++.++...+.++.+..+-..+.+++.....+...++..+..++..+
T Consensus       584 ~k~kq~k~lenk~~~LrKqvEnk~K~ieeLqqeNk~LKKk~~aE~kq~~~~eikVn~L~~E~  645 (786)
T PF05483_consen  584 KKEKQMKILENKCNNLRKQVENKNKNIEELQQENKALKKKITAESKQSNVYEIKVNKLQEEL  645 (786)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444555555555555555555555555555544444444444444444433333333333

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

>PF05384 DegS: Sensor protein DegS; InterPro: IPR008595 This is a group of Bacillus DegS proteins

Probab=91.04  E-value=13  Score=34.65  Aligned_cols=75  Identities=13%  Similarity=0.218  Sum_probs=35.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          115 HARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMM  189 (455)
Q Consensus       115 e~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~  189 (455)
                      ++.|.++=.+...++-++-.+.++-..|..+..++|..+..+..-++..+........-++=+...+......+.
T Consensus        76 E~dik~AYe~A~~lQ~~L~~~re~E~qLr~rRD~LErrl~~l~~tierAE~l~sqi~vvl~yL~~dl~~v~~~~e  150 (159)
T PF05384_consen   76 EEDIKEAYEEAHELQVRLAMLREREKQLRERRDELERRLRNLEETIERAENLVSQIGVVLNYLSGDLQQVSEQIE  150 (159)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            444444444455555555555544445555555555444444444444444444444444444444444443333

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

>PF05557 MAD: Mitotic checkpoint protein; InterPro: IPR008672 This family consists of several eukaryotic mitotic checkpoint (Mitotic arrest deficient or MAD) proteins

Probab=91.03  E-value=0.065  Score=60.68  Aligned_cols=8  Identities=38%  Similarity=0.630  Sum_probs=0.0

Q ss_pred             HHHHHHHH
Q 012833           46 ELDQLKSK   53 (455)
Q Consensus        46 eL~~lr~k   53 (455)
                      +|..++.+
T Consensus        69 ~l~~Le~e   76 (722)
T PF05557_consen   69 QLNQLEYE   76 (722)
T ss_dssp             --------
T ss_pred             HHHHHHHH
Confidence            33333333

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.

>PRK10246 exonuclease subunit SbcC; Provisional

Probab=91.01  E-value=22  Score=42.38  Aligned_cols=27  Identities=19%  Similarity=0.255  Sum_probs=10.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          157 SAKLEKLQKINDEQKSKIRKTERALKV  183 (455)
Q Consensus       157 eskveeLek~~eEqekkI~elE~~Lq~  183 (455)
                      +..+..++...+.....+..+...+..
T Consensus       828 ~~~~~~~~~~~~~~~~~~~~~~~~l~~  854 (1047)
T PRK10246        828 QQELAQLAQQLRENTTRQGEIRQQLKQ  854 (1047)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333333333333333

>PF15397 DUF4618: Domain of unknown function (DUF4618)

Probab=91.00  E-value=19  Score=36.27  Aligned_cols=42  Identities=14%  Similarity=0.115  Sum_probs=30.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 012833          158 AKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRS  199 (455)
Q Consensus       158 skveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq~E~~~~a  199 (455)
                      ..-..+.+........|++++..+..++.++..+........
T Consensus       186 ~~N~~m~kei~~~re~i~el~e~I~~L~~eV~~L~~~~~~~R  227 (258)
T PF15397_consen  186 LENQVMQKEIVQFREEIDELEEEIPQLRAEVEQLQAQAQDPR  227 (258)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcchH
Confidence            344567777777777888888888888888877777766443

>KOG2991 consensus Splicing regulator [RNA processing and modification]

Probab=90.90  E-value=19  Score=36.21  Aligned_cols=70  Identities=17%  Similarity=0.228  Sum_probs=48.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          124 QIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKF  193 (455)
Q Consensus       124 qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq~  193 (455)
                      .|..|.-++.-++..-+++.+...++-.-+.++...++.++..+--++.++.+.+.+|+.++..+.....
T Consensus       237 ria~Le~eLAmQKs~seElkssq~eL~dfm~eLdedVEgmqsTiliLQq~Lketr~~Iq~l~k~~~q~sq  306 (330)
T KOG2991|consen  237 RIAELEIELAMQKSQSEELKSSQEELYDFMEELDEDVEGMQSTILILQQKLKETRKEIQRLKKGLEQVSQ  306 (330)
T ss_pred             cHHHHHHHHHHHHhhHHHHHHhHHHHHHHHHHHHHHHhcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3666666666777777777777777777777777777777777777777777777777777665555443

>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=90.77  E-value=2.6  Score=43.63  Aligned_cols=63  Identities=30%  Similarity=0.403  Sum_probs=25.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          114 AHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRK  176 (455)
Q Consensus       114 Ae~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~e  176 (455)
                      .+.++.+++.++..|+.+.+....++..++.+....+.++...+..+..|..+...-...+..
T Consensus       240 ~~~~l~~l~~~l~~l~~~~~~~~~e~~~l~~~~~~~~~kl~rA~~Li~~L~~E~~RW~~~~~~  302 (344)
T PF12777_consen  240 KQAELAELEEKLAALQKEYEEAQKEKQELEEEIEETERKLERAEKLISGLSGEKERWSEQIEE  302 (344)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHCCHCHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccHHHHHhhhcchhhhHHHHHHH
Confidence            333333444444444444444444444444444444444444444444444433333333333

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.

>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]

Probab=90.72  E-value=3  Score=40.97  Aligned_cols=70  Identities=26%  Similarity=0.289  Sum_probs=30.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          113 KAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALK  182 (455)
Q Consensus       113 ~Ae~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq  182 (455)
                      .+++++.++.++...|-++++.++.+.++.+.++..++.+.+.++.....+..+...++.+.++++..+.
T Consensus       139 e~kekl~E~~~EkeeL~~eleele~e~ee~~erlk~le~E~s~LeE~~~~l~~ev~~L~~r~~ELe~~~E  208 (290)
T COG4026         139 ELKEKLEELQKEKEELLKELEELEAEYEEVQERLKRLEVENSRLEEMLKKLPGEVYDLKKRWDELEPGVE  208 (290)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchhHHHHHHHHHHHhccccc
Confidence            3444444444444444444444444444444444444444444444444444444444444444444433

>PRK04325 hypothetical protein; Provisional

Probab=90.68  E-value=1.8  Score=35.21  Aligned_cols=50  Identities=16%  Similarity=0.210  Sum_probs=35.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          141 ALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMR  190 (455)
Q Consensus       141 eLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~k  190 (455)
                      .+++++.+||.++.-.+.-+++|++.+.+++++|+.+++.++.+-+.+..
T Consensus         6 ~~e~Ri~~LE~klAfQE~tIe~LN~vv~~Qq~~I~~L~~ql~~L~~rl~~   55 (74)
T PRK04325          6 EMEDRITELEIQLAFQEDLIDGLNATVARQQQTLDLLQAQLRLLYQQMRD   55 (74)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            35566777777777777777888888888888887777776666554443

>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=90.53  E-value=13  Score=33.69  Aligned_cols=11  Identities=18%  Similarity=0.247  Sum_probs=4.2

Q ss_pred             HHHHHHHHHHh
Q 012833          186 EEMMRAKFEAT  196 (455)
Q Consensus       186 eeL~kaq~E~~  196 (455)
                      .++.+...|..
T Consensus       133 ~e~rkke~E~~  143 (151)
T PF11559_consen  133 HELRKKEREIE  143 (151)
T ss_pred             HHHHHHHHHHH
Confidence            33334333333

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.

>PRK00846 hypothetical protein; Provisional

Probab=90.53  E-value=2.7  Score=34.68  Aligned_cols=53  Identities=21%  Similarity=0.288  Sum_probs=39.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          140 EALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAK  192 (455)
Q Consensus       140 eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq  192 (455)
                      ..+++++.++|.++.-.+.-++.|++.+..++..|+.+...++.+-+.+..++
T Consensus         9 ~~le~Ri~~LE~rlAfQe~tIe~LN~~v~~qq~~I~~L~~ql~~L~~rL~~~~   61 (77)
T PRK00846          9 QALEARLVELETRLSFQEQALTELSEALADARLTGARNAELIRHLLEDLGKVR   61 (77)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            35667777777777777888888888888888888888877777766655544

>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=90.40  E-value=9.5  Score=32.67  Aligned_cols=10  Identities=10%  Similarity=0.348  Sum_probs=3.7

Q ss_pred             HHHHHHHHHH
Q 012833           55 RSLESHIDEK   64 (455)
Q Consensus        55 ~~Leski~el   64 (455)
                      +.++.++..+
T Consensus         9 q~l~~~~~~l   18 (105)
T cd00632           9 QQLQQQLQAY   18 (105)
T ss_pred             HHHHHHHHHH
Confidence            3333333333

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

>KOG4302 consensus Microtubule-associated protein essential for anaphase spindle elongation [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]

Probab=90.35  E-value=37  Score=38.55  Aligned_cols=48  Identities=21%  Similarity=0.249  Sum_probs=35.9

Q ss_pred             CCCCccHHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHH
Q 012833           38 VDSSPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDK   85 (455)
Q Consensus        38 ~~~~~l~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~   85 (455)
                      ..+..++.++..+.-.+.++..+.++...++.+...+|..+-..|...
T Consensus        96 k~e~tLke~l~~l~~~le~lr~qk~eR~~ef~el~~qie~l~~~l~g~  143 (660)
T KOG4302|consen   96 KIEGTLKEQLESLKPYLEGLRKQKDERRAEFKELYHQIEKLCEELGGP  143 (660)
T ss_pred             ccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence            455588899999988888888888888777777666666665555544

>TIGR02231 conserved hypothetical protein

Probab=90.26  E-value=4.6  Score=44.09  Aligned_cols=23  Identities=22%  Similarity=0.398  Sum_probs=12.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q 012833           78 KEKAIQDKSERIVSLQKELSSLQ  100 (455)
Q Consensus        78 ~e~~I~e~e~~I~eLq~eI~sLQ  100 (455)
                      ....+.+++++|..++.+++.++
T Consensus        69 ~~~~~~~l~~~l~~l~~~~~~~~   91 (525)
T TIGR02231        69 DPERLAELRKQIRELEAELRDLE   91 (525)
T ss_pred             CcHHHHHHHHHHHHHHHHHHHHH
Confidence            33455555555555555555554

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.

>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]

Probab=90.24  E-value=2.8  Score=41.16  Aligned_cols=76  Identities=21%  Similarity=0.309  Sum_probs=40.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          111 VDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEE  186 (455)
Q Consensus       111 i~~Ae~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEe  186 (455)
                      ..++++...++....+.++++.+.+..++++++++.+++..++..++.....|+.....+.-....++.+...++.
T Consensus       130 ~~d~ke~~ee~kekl~E~~~EkeeL~~eleele~e~ee~~erlk~le~E~s~LeE~~~~l~~ev~~L~~r~~ELe~  205 (290)
T COG4026         130 YMDLKEDYEELKEKLEELQKEKEELLKELEELEAEYEEVQERLKRLEVENSRLEEMLKKLPGEVYDLKKRWDELEP  205 (290)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchhHHHHHHHHHHHhcc
Confidence            4455556666666666666555555555555555555555555555555444444444444444444444444443

>PF10805 DUF2730: Protein of unknown function (DUF2730); InterPro: IPR020269 This entry represents a family of various hypothetical proteins

Probab=90.22  E-value=2.3  Score=36.82  Aligned_cols=60  Identities=8%  Similarity=0.225  Sum_probs=49.6

Q ss_pred             ccHHHHHHHHHHHHHHHHHHHHHHHhhhch--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 012833           42 PLKIELDQLKSKIRSLESHIDEKTQELKGK--DEVVAQKEKAIQDKSERIVSLQKELSSLQK  101 (455)
Q Consensus        42 ~l~~eL~~lr~kI~~Leski~ele~eI~~k--~~eIk~~e~~I~e~e~~I~eLq~eI~sLQk  101 (455)
                      +.+.+++.+...+...+..++.++++++..  ..++.+++..|.+.+..+..++.+|+.+.-
T Consensus        32 a~~~~~~~l~~~~~~~~~Rl~~lE~~l~~LPt~~dv~~L~l~l~el~G~~~~l~~~l~~v~~   93 (106)
T PF10805_consen   32 AKREDIEKLEERLDEHDRRLQALETKLEHLPTRDDVHDLQLELAELRGELKELSARLQGVSH   93 (106)
T ss_pred             ccHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence            345678888888888899999999888888  888888888888888888888888877753

The proteins, which include HI1498 and Gp25, from phage Mu, are currently uncharacterised.

>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=90.22  E-value=4.4  Score=34.73  Aligned_cols=27  Identities=15%  Similarity=0.247  Sum_probs=16.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhc
Q 012833           44 KIELDQLKSKIRSLESHIDEKTQELKG   70 (455)
Q Consensus        44 ~~eL~~lr~kI~~Leski~ele~eI~~   70 (455)
                      ..++..++.++..+..++..++.++.+
T Consensus         5 ~~~~q~l~~~~~~l~~~~~~l~~~~~E   31 (105)
T cd00632           5 LAQLQQLQQQLQAYIVQRQKVEAQLNE   31 (105)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345566666666666666666555544

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

>PF09787 Golgin_A5: Golgin subfamily A member 5; InterPro: IPR019177 This entry represents a family of proteins involved in maintaining Golgi structure

Probab=90.08  E-value=33  Score=37.59  Aligned_cols=27  Identities=30%  Similarity=0.483  Sum_probs=12.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          117 RADELEKQIDNLKKESEKQQKEKEALE  143 (455)
Q Consensus       117 ~i~eLe~qIe~LkkeLE~~~~e~eeLE  143 (455)
                      +.+++..+++-++...+..+.+.....
T Consensus       215 ~~~e~~~~l~l~~~~~~~~~~el~~Yk  241 (511)
T PF09787_consen  215 ESGELQEQLELLKAEGESEEAELQQYK  241 (511)
T ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence            444444445555544444444444333

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 [].

>PF14915 CCDC144C: CCDC144C protein coiled-coil region

Probab=90.06  E-value=25  Score=36.10  Aligned_cols=23  Identities=13%  Similarity=0.228  Sum_probs=9.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q 012833          114 AHARADELEKQIDNLKKESEKQQ  136 (455)
Q Consensus       114 Ae~~i~eLe~qIe~LkkeLE~~~  136 (455)
                      +++++..++++---|..++++..
T Consensus       219 ~eERL~QlqsEN~LLrQQLddA~  241 (305)
T PF14915_consen  219 LEERLSQLQSENMLLRQQLDDAH  241 (305)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344444444333444444333

>KOG1937 consensus Uncharacterized conserved protein [Function unknown]

Probab=89.98  E-value=32  Score=37.24  Aligned_cols=40  Identities=25%  Similarity=0.228  Sum_probs=22.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhh
Q 012833          163 LQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKEL  202 (455)
Q Consensus       163 Lek~~eEqekkI~elE~~Lq~lEeeL~kaq~E~~~~a~ei  202 (455)
                      ....+.+.-..+.+++.++...-.+-..++.+.+.....+
T Consensus       387 ytqrikEi~gniRKq~~DI~Kil~etreLqkq~ns~se~L  426 (521)
T KOG1937|consen  387 YTQRIKEIDGNIRKQEQDIVKILEETRELQKQENSESEAL  426 (521)
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344555555666666666666666666666666555444

>COG3096 MukB Uncharacterized protein involved in chromosome partitioning [Cell division and chromosome partitioning]

Probab=89.95  E-value=29  Score=39.89  Aligned_cols=130  Identities=18%  Similarity=0.244  Sum_probs=64.7

Q ss_pred             HHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           51 KSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKK  130 (455)
Q Consensus        51 r~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eLe~qIe~Lkk  130 (455)
                      +.++=.-..+...-+..+.+...|+.++...-..++...+..++-+.-.++-..  .+++|....+.+.++...+++-.-
T Consensus       292 R~e~~~sr~~~~~~q~r~v~~srE~ael~~~E~~LE~D~Q~A~DhLnLV~~AlR--~QEKI~RYQ~Dl~Elt~RLEEQ~~  369 (1480)
T COG3096         292 RRELYTSRQQLAAEQYRHVDMSRELAELNGAEGDLEADYQAASDHLNLVQTALR--QQEKIERYQADLEELTIRLEEQNE  369 (1480)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccchhhhhHHHHhhHHHHHHHHHH--HHHHHHHHHhhHHHHHHHHHHHHH
Confidence            333333334444444445555555555555545555555555555544443322  245555555555555555555555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          131 ESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALK  182 (455)
Q Consensus       131 eLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq  182 (455)
                      -++..+...++-+++....|.++.++.+.+.+.+..++-++-.--+.++.++
T Consensus       370 VVeeA~e~~~e~e~r~e~~E~EvD~lksQLADYQQALD~QQTRAlQYQQAi~  421 (1480)
T COG3096         370 VVEEANERQEENEARAEAAELEVDELKSQLADYQQALDVQQTRAIQYQQAIA  421 (1480)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence            5555555555555555555555555555555555554444444333333333

>PRK11519 tyrosine kinase; Provisional

Probab=89.92  E-value=13  Score=42.35  Aligned_cols=44  Identities=14%  Similarity=0.267  Sum_probs=20.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          141 ALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEM  188 (455)
Q Consensus       141 eLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL  188 (455)
                      .+..+...++.++++++.++..+..    .+.++.+++++.+..+..+
T Consensus       343 ~l~~~~~~L~~~~~~l~~~~~~lp~----~e~~~~~L~Re~~~~~~lY  386 (719)
T PRK11519        343 TLLEKRKALEDEKAKLNGRVTAMPK----TQQEIVRLTRDVESGQQVY  386 (719)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhccH----HHHHHHHHHHHHHHHHHHH
Confidence            3344444455555555544444333    3444455555555444443

>TIGR01010 BexC_CtrB_KpsE polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family

Probab=89.91  E-value=19  Score=37.25  Aligned_cols=27  Identities=11%  Similarity=0.204  Sum_probs=12.4

Q ss_pred             hhchHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           68 LKGKDEVVAQKEKAIQDKSERIVSLQK   94 (455)
Q Consensus        68 I~~k~~eIk~~e~~I~e~e~~I~eLq~   94 (455)
                      +.-.++++.+.+..+.+.+..+.++++
T Consensus       172 ~~fl~~ql~~~~~~l~~ae~~l~~fr~  198 (362)
T TIGR01010       172 IAFAENEVKEAEQRLNATKAELLKYQI  198 (362)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444444444444

This family contains gamma proteobacterial proteins involved in capsule polysaccharide export.

>KOG0962 consensus DNA repair protein RAD50, ABC-type ATPase/SMC superfamily [Replication, recombination and repair]

Probab=89.89  E-value=55  Score=39.83  Aligned_cols=11  Identities=27%  Similarity=0.492  Sum_probs=5.4

Q ss_pred             CCCccHHHHHH
Q 012833           39 DSSPLKIELDQ   49 (455)
Q Consensus        39 ~~~~l~~eL~~   49 (455)
                      +...++..+|.
T Consensus       166 Ep~~LKkkfD~  176 (1294)
T KOG0962|consen  166 EPKNLKKKFDD  176 (1294)
T ss_pred             ChHHHHHHHHH
Confidence            33445555554

>COG3206 GumC Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]

Probab=89.85  E-value=8.6  Score=41.21  Aligned_cols=47  Identities=15%  Similarity=0.294  Sum_probs=30.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHH
Q 012833           45 IELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVS   91 (455)
Q Consensus        45 ~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~e   91 (455)
                      +-+.+++.+..++..++.++..+.....-.+..++..+.+.+..|..
T Consensus       285 ~~i~~Lr~~~~~~~~~~~~l~~~~~~~~p~~~~~~~q~~~~~~~~~~  331 (458)
T COG3206         285 PTIQDLRQQYAQVRQQIADLSTELGAKHPQLVALEAQLAELRQQIAA  331 (458)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhcccChHHHhHHHHHHHHHHHHHH
Confidence            35666777777777777777776666666666666666666555443

>PF15254 CCDC14: Coiled-coil domain-containing protein 14

Probab=89.84  E-value=15  Score=41.92  Aligned_cols=151  Identities=15%  Similarity=0.141  Sum_probs=66.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhchHH------------HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHH
Q 012833           47 LDQLKSKIRSLESHIDEKTQELKGKDE------------VVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKA  114 (455)
Q Consensus        47 L~~lr~kI~~Leski~ele~eI~~k~~------------eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~A  114 (455)
                      +.-||.+.++|+.++..+++++.+++.            |+-.+...=--++.++.+....++.||.+...+. +-++..
T Consensus       389 ~QplrsENaqLrRrLrilnqqlreqe~~~k~~~~~~~n~El~sLqSlN~~Lq~ql~es~k~~e~lq~kneell-k~~e~q  467 (861)
T PF15254_consen  389 MQPLRSENAQLRRRLRILNQQLREQEKAEKTSGSQDCNLELFSLQSLNMSLQNQLQESLKSQELLQSKNEELL-KVIENQ  467 (861)
T ss_pred             hhhhhhhhHHHHHHHHHHHHHHHHHHhhcccCCCcccchhhHHHHHHHHHHHHHHHHHHHhHHHHHHhHHHHH-HHHHHH
Confidence            344777777777777777777776433            2222222222333344444444444443332220 011111


Q ss_pred             HHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          115 HARADELEKQIDNLKKESEK----QQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMR  190 (455)
Q Consensus       115 e~~i~eLe~qIe~LkkeLE~----~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~k  190 (455)
                      .++...+.+.+.+-..++-.    ..-+...+.-+.+++-.+++.+.-+++.-+++..-+...+++-+.++..+.+-..-
T Consensus       468 ~~Enk~~~~~~~ekd~~l~~~kq~~d~e~~rik~ev~eal~~~k~~q~kLe~sekEN~iL~itlrQrDaEi~RL~eLtR~  547 (861)
T PF15254_consen  468 KEENKRLRKMFQEKDQELLENKQQFDIETTRIKIEVEEALVNVKSLQFKLEASEKENQILGITLRQRDAEIERLRELTRT  547 (861)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhhhhHhhhHHHHHHHHHHHHHHHHHH
Confidence            11111111111111111111    11222244444445555555555555555555555555555555555555554444


Q ss_pred             HHHHHhhh
Q 012833          191 AKFEATSR  198 (455)
Q Consensus       191 aq~E~~~~  198 (455)
                      ++.-...+
T Consensus       548 LQ~Sma~l  555 (861)
T PF15254_consen  548 LQNSMAKL  555 (861)
T ss_pred             HHHHHHHH
Confidence            44444433

>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=89.50  E-value=11  Score=31.24  Aligned_cols=74  Identities=23%  Similarity=0.311  Sum_probs=46.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 012833          121 LEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATS  197 (455)
Q Consensus       121 Le~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq~E~~~  197 (455)
                      ++.-++.++.+.+.+..+.........+.+.++..--++++.+...+-+++..-..++.   .+|++|.++..++..
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 LNELLDAIRQEFENLSQEANSYKHQKDEYEHKINSQIQEMQQIRQKVYELEQAHRKMKQ---QYEEEIARLRRELEQ   75 (79)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHCH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHh
Confidence            34455666666666666666666666666666666666666666666555555555443   457788888777653

; PDB: 3VP9_B 3VP8_B.

>PRK03598 putative efflux pump membrane fusion protein; Provisional

Probab=89.41  E-value=17  Score=36.94  Aligned_cols=22  Identities=18%  Similarity=0.194  Sum_probs=10.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q 012833           44 KIELDQLKSKIRSLESHIDEKT   65 (455)
Q Consensus        44 ~~eL~~lr~kI~~Leski~ele   65 (455)
                      ..++++.+..+..++.++..+.
T Consensus        80 ~~~l~~~~a~l~~~~~~l~~~~  101 (331)
T PRK03598         80 ENALMQAKANVSVAQAQLDLML  101 (331)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444555555554444443

>KOG2264 consensus Exostosin EXT1L [Signal transduction mechanisms]

Probab=89.16  E-value=2.9  Score=46.05  Aligned_cols=72  Identities=14%  Similarity=0.259  Sum_probs=45.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 012833          125 IDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEAT  196 (455)
Q Consensus       125 Ie~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq~E~~  196 (455)
                      +.+++..++.-..++.++|.+.+++...+++++.+++++++.+...+.++..++..+++++..+..+.+..+
T Consensus        81 ~~e~~RI~~sVs~EL~ele~krqel~seI~~~n~kiEelk~~i~~~q~eL~~Lk~~ieqaq~~~~El~~~n~  152 (907)
T KOG2264|consen   81 LREQKRILASVSLELTELEVKRQELNSEIEEINTKIEELKRLIPQKQLELSALKGEIEQAQRQLEELRETNN  152 (907)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhHHHHHHHHhHHHHHHHHHHHHHhhcC
Confidence            334444555555666666666666666666667777777666666666666666666666666655554433

>PF06785 UPF0242: Uncharacterised protein family (UPF0242); InterPro: IPR009623 This is a group of proteins of unknown function

Probab=89.03  E-value=17  Score=37.78  Aligned_cols=33  Identities=21%  Similarity=0.300  Sum_probs=20.6

Q ss_pred             hchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 012833           69 KGKDEVVAQKEKAIQDKSERIVSLQKELSSLQK  101 (455)
Q Consensus        69 ~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQk  101 (455)
                      .++-..|-+.+..+++.-..+++-+.+-+.|+.
T Consensus        74 q~kirk~~e~~eglr~i~es~~e~q~e~~qL~~  106 (401)
T PF06785_consen   74 QTKIRKITEKDEGLRKIRESVEERQQESEQLQS  106 (401)
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHHHHHHHHHH
Confidence            344455556666777776677776666666653

>PF13863 DUF4200: Domain of unknown function (DUF4200)

Probab=88.99  E-value=15  Score=32.05  Aligned_cols=33  Identities=21%  Similarity=0.523  Sum_probs=12.9

Q ss_pred             HHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHH
Q 012833           57 LESHIDEKTQELKGKDEVVAQKEKAIQDKSERI   89 (455)
Q Consensus        57 Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I   89 (455)
                      ++..+.....++......+...+..+...+..|
T Consensus        12 ~~~~l~~kr~e~~~~~~~~~~~e~~L~~~e~~l   44 (126)
T PF13863_consen   12 VQLALDTKREEIERREEQLKQREEELEKKEQEL   44 (126)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333344444444444444433

>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=88.87  E-value=22  Score=33.92  Aligned_cols=45  Identities=9%  Similarity=0.100  Sum_probs=23.4

Q ss_pred             ccHHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHH--HHHHHHHHH
Q 012833           42 PLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQ--KEKAIQDKS   86 (455)
Q Consensus        42 ~l~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~--~e~~I~e~e   86 (455)
                      +.+.+.-.+...++..-.+....+..|-...++|=.  .+..|++.+
T Consensus        30 ~tR~dVi~L~e~Ld~~L~~~~ar~~gIcpvr~~ly~~~F~ELIRQVT   76 (189)
T PF10211_consen   30 ATRQDVIQLQEWLDKMLQQRQARETGICPVREELYSQCFDELIRQVT   76 (189)
T ss_pred             CCHHHHHHHHHHHHHHHHHhcCCcccccHHHHHHHHHHHHHHHHHHH
Confidence            455566666666665555555555555444444433  244444443

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 [].

>PF05266 DUF724: Protein of unknown function (DUF724); InterPro: IPR007930 This family contains several uncharacterised proteins found exclusively in Arabidopsis thaliana

Probab=88.80  E-value=10  Score=36.35  Aligned_cols=29  Identities=28%  Similarity=0.378  Sum_probs=13.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           72 DEVVAQKEKAIQDKSERIVSLQKELSSLQ  100 (455)
Q Consensus        72 ~~eIk~~e~~I~e~e~~I~eLq~eI~sLQ  100 (455)
                      .++.+.++..|.+.+.....++++|..|+
T Consensus       109 ~e~~k~le~~~~~~~~~~~~~e~~i~~Le  137 (190)
T PF05266_consen  109 LEERKKLEKKIEEKEAELKELESEIKELE  137 (190)
T ss_pred             HHHHHHHHHHHHHHHHhhhhHHHHHHHHH
Confidence            33444455555555444444444444443

>KOG4603 consensus TBP-1 interacting protein [Signal transduction mechanisms]

Probab=88.75  E-value=19  Score=34.15  Aligned_cols=19  Identities=32%  Similarity=0.440  Sum_probs=7.4

Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q 012833           46 ELDQLKSKIRSLESHIDEK   64 (455)
Q Consensus        46 eL~~lr~kI~~Leski~el   64 (455)
                      ++..++-+|..|+.++.++
T Consensus        80 el~~ld~~i~~l~ek~q~l   98 (201)
T KOG4603|consen   80 ELQVLDGKIVALTEKVQSL   98 (201)
T ss_pred             HHHHHhHHHHHHHHHHHHH
Confidence            3333444444443333333

>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89

Probab=88.70  E-value=5.7  Score=32.02  Aligned_cols=23  Identities=26%  Similarity=0.357  Sum_probs=10.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q 012833          116 ARADELEKQIDNLKKESEKQQKE  138 (455)
Q Consensus       116 ~~i~eLe~qIe~LkkeLE~~~~e  138 (455)
                      .+++.+-.++.+|+.+++.+..+
T Consensus        40 ~~l~~a~~e~~~Lk~E~e~L~~e   62 (69)
T PF14197_consen   40 RQLGDAYEENNKLKEENEALRKE   62 (69)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444444443

>PRK11519 tyrosine kinase; Provisional

Probab=88.69  E-value=30  Score=39.48  Aligned_cols=6  Identities=17%  Similarity=0.252  Sum_probs=2.7

Q ss_pred             CcchHH
Q 012833          233 GKPAMD  238 (455)
Q Consensus       233 g~P~~~  238 (455)
                      |-|++-
T Consensus       463 g~pvlg  468 (719)
T PRK11519        463 GISVYA  468 (719)
T ss_pred             CCCeEE
Confidence            444443

>TIGR03794 NHPM_micro_HlyD NHPM bacteriocin system secretion protein

Probab=88.56  E-value=36  Score=35.97  Aligned_cols=26  Identities=8%  Similarity=0.261  Sum_probs=17.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhchHH
Q 012833           48 DQLKSKIRSLESHIDEKTQELKGKDE   73 (455)
Q Consensus        48 ~~lr~kI~~Leski~ele~eI~~k~~   73 (455)
                      ..+...+..++..+..+..+++....
T Consensus        92 ~~~~~~~~~~~~~l~~~~~q~~~l~~  117 (421)
T TIGR03794        92 PELRERLQESYQKLTQLQEQLEEVRN  117 (421)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34566677777777777777766544

Members of this protein family are homologs of the HlyD membrane fusion protein of type I secretion systems. Their occurrence in prokaryotic genomes is associated with the occurrence of a novel class of microcin (small bacteriocins) with a propeptide region related to nitrile hydratase. We designate the class of bacteriocin as Nitrile Hydratase Propeptide Microcin, or NHPM. This family, therefore, is designated as NHPM bacteriocin system secretion protein. Some but not all NHPM-class putative microcins belong to the TOMM (thiazole/oxazole modified microcin) class as assessed by the presence of the scaffolding protein and/or cyclodehydratase in the same gene clusters.

>PF03962 Mnd1: Mnd1 family; InterPro: IPR005647 This family of proteins includes meiotic nuclear division protein 1 (MND1) from Saccharomyces cerevisiae (Baker's yeast)

Probab=88.52  E-value=17  Score=34.78  Aligned_cols=21  Identities=38%  Similarity=0.531  Sum_probs=9.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHH
Q 012833          113 KAHARADELEKQIDNLKKESE  133 (455)
Q Consensus       113 ~Ae~~i~eLe~qIe~LkkeLE  133 (455)
                      ..-+++.+|..++..|+++++
T Consensus       107 ~~l~~l~~l~~~~~~l~~el~  127 (188)
T PF03962_consen  107 ELLEELEELKKELKELKKELE  127 (188)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            333444444444444444444

The mnd1 protein forms a complex with hop2 to promote homologous chromosome pairing and meiotic double-strand break repair [].

>TIGR02338 gimC_beta prefoldin, beta subunit, archaeal

Probab=88.52  E-value=13  Score=32.20  Aligned_cols=30  Identities=13%  Similarity=0.198  Sum_probs=11.7

Q ss_pred             HHHHHHHHHHHhhhchHHHHHHHHHHHHHH
Q 012833           56 SLESHIDEKTQELKGKDEVVAQKEKAIQDK   85 (455)
Q Consensus        56 ~Leski~ele~eI~~k~~eIk~~e~~I~e~   85 (455)
                      .+-.+...+.+++......+..++..+++.
T Consensus         7 ~~~~~~q~~q~~~~~l~~q~~~le~~~~E~   36 (110)
T TIGR02338         7 NQLAQLQQLQQQLQAVATQKQQVEAQLKEA   36 (110)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333334444444444333333333333333

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.

>PF04108 APG17: Autophagy protein Apg17 ; InterPro: IPR007240 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells

Probab=88.44  E-value=38  Score=36.11  Aligned_cols=47  Identities=17%  Similarity=0.294  Sum_probs=30.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhccccCCh
Q 012833          166 INDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTEVHSAWLPP  212 (455)
Q Consensus       166 ~~eEqekkI~elE~~Lq~lEeeL~kaq~E~~~~a~ei~~~gGawl~P  212 (455)
                      ++...+.--+.++.-+..+.+++.++..+-...+..=...+|.|||.
T Consensus       354 Ev~RRr~~~~k~~~i~~~~~eeL~~l~eeE~~~Re~F~~e~GdyLP~  400 (412)
T PF04108_consen  354 EVERRRAVRDKMKKIIREANEELDKLREEEQRRREAFLKEYGDYLPE  400 (412)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCcCCh
Confidence            33333344455666666677777777776665555556668999997

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 []. Autophagy protein 17 (Apg17) is required for activating Apg1 protein kinases. This entry also contains Autophagy protein 11 which is involved in cytoplasm to vacuole transport (Cvt) and pexophagy. ; GO: 0006914 autophagy

>KOG1899 consensus LAR transmembrane tyrosine phosphatase-interacting protein liprin [General function prediction only]

Probab=88.32  E-value=13  Score=41.54  Aligned_cols=47  Identities=15%  Similarity=0.318  Sum_probs=21.6

Q ss_pred             CCCccHHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHH
Q 012833           39 DSSPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDK   85 (455)
Q Consensus        39 ~~~~l~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~   85 (455)
                      +..+++-+.+-|-..+..--.+|.+++.=|+++...+...|..+++.
T Consensus       119 dkesL~LQvsvLteqVeaQgEKIrDLE~cie~kr~kLnatEEmLQqe  165 (861)
T KOG1899|consen  119 DKESLQLQVSVLTEQVEAQGEKIRDLETCIEEKRNKLNATEEMLQQE  165 (861)
T ss_pred             chhhheehHHHHHHHHHHhhhhHHHHHHHHHHHHhhhchHHHHHHHH
Confidence            33344444444444444444444444444444444444444444443

>PF12072 DUF3552: Domain of unknown function (DUF3552); InterPro: IPR022711 This presumed domain is functionally uncharacterised

Probab=88.32  E-value=25  Score=33.76  Aligned_cols=7  Identities=29%  Similarity=0.601  Sum_probs=2.6

Q ss_pred             HHhhhhH
Q 012833          194 EATSRSK  200 (455)
Q Consensus       194 E~~~~a~  200 (455)
                      ++...++
T Consensus       181 ~A~~~Ar  187 (201)
T PF12072_consen  181 EADKKAR  187 (201)
T ss_pred             HHHHHHH
Confidence            3333333

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

>PF15066 CAGE1: Cancer-associated gene protein 1 family

Probab=88.30  E-value=42  Score=36.45  Aligned_cols=18  Identities=33%  Similarity=0.455  Sum_probs=7.7

Q ss_pred             HHHHHHHHHHHHHHHHHh
Q 012833           84 DKSERIVSLQKELSSLQK  101 (455)
Q Consensus        84 e~e~~I~eLq~eI~sLQk  101 (455)
                      +.++.++.|+.-++..|+
T Consensus       387 d~~k~lqnLqe~la~tqk  404 (527)
T PF15066_consen  387 DIEKTLQNLQEALANTQK  404 (527)
T ss_pred             hHHHHHHHHHHHHHHHHH
Confidence            334444444444444443

>KOG0239 consensus Kinesin (KAR3 subfamily) [Cytoskeleton]

Probab=88.29  E-value=41  Score=38.30  Aligned_cols=122  Identities=18%  Similarity=0.157  Sum_probs=64.0

Q ss_pred             HHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           59 SHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKE  138 (455)
Q Consensus        59 ski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eLe~qIe~LkkeLE~~~~e  138 (455)
                      ++....++++.+...++......+.+....+...+.+-..+.....     ........+..+...-+..++.+..+...
T Consensus       175 k~~~~~~~~~~~~~~~l~~v~~~~~~~~~~l~~~~~~~~~l~~~~~-----~~~~~~~~~~~l~~~~~~~~~~i~~l~~~  249 (670)
T KOG0239|consen  175 KESLKLESDLGDLVTELEHVTNSISELESVLKSAQEERRVLADSLG-----NYADLRRNIKPLEGLESTIKKKIQALQQE  249 (670)
T ss_pred             HHHHHHhhhHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhh-----hhhhHHHhhhhhhhhhhHHHHHHHHHHHH
Confidence            3444444444444444444444444444444444444443332211     23344455555555555555556666666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          139 KEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAE  185 (455)
Q Consensus       139 ~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lE  185 (455)
                      +..++.+...++..+..+...+++.-.....+...+...+..+....
T Consensus       250 l~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~L~~~~~~l~~~~  296 (670)
T KOG0239|consen  250 LEELKAELKELNDQVSLLTREVQEALKESNTLQSDLESLEENLVEKK  296 (670)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            66666666666666666666666666666665555555555554444

>PF05335 DUF745: Protein of unknown function (DUF745); InterPro: IPR007999 This family consists of several uncharacterised Drosophila melanogaster proteins of unknown function

Probab=88.27  E-value=25  Score=33.76  Aligned_cols=79  Identities=18%  Similarity=0.274  Sum_probs=38.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          114 AHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAK  192 (455)
Q Consensus       114 Ae~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq  192 (455)
                      .+..+.-...-....+..++.+..-+......+...+.-.......+.+-...++.-+.+++.|.+.+.....++.+.+
T Consensus        93 aq~na~aA~~aa~~A~~q~~~L~~~l~~a~~nl~~a~~~a~~AQ~el~eK~qLLeaAk~Rve~L~~QL~~Ar~D~~~tk  171 (188)
T PF05335_consen   93 AQANAQAAQRAAQQAQQQLETLKAALKAAQANLANAEQVAEGAQQELAEKTQLLEAAKRRVEELQRQLQAARADYEKTK  171 (188)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444444444445555555555544444444444444444444444444444444444444444444444444444443

>PF08172 CASP_C: CASP C terminal; InterPro: IPR012955 This domain is the C-terminal region of the CASP family of proteins

Probab=88.15  E-value=11  Score=37.52  Aligned_cols=34  Identities=24%  Similarity=0.257  Sum_probs=14.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          139 KEALEARAIEAEKKISDLSAKLEKLQKINDEQKS  172 (455)
Q Consensus       139 ~eeLEae~~elEkkl~EleskveeLek~~eEqek  172 (455)
                      ..+||.++......+..+..+++.|+.++..+-.
T Consensus        95 n~ELE~elr~~~~~~~~L~~Ev~~L~~DN~kLYE  128 (248)
T PF08172_consen   95 NAELEEELRKQQQTISSLRREVESLRADNVKLYE  128 (248)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333444444444444444444444444444333

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

>KOG0249 consensus LAR-interacting protein and related proteins [General function prediction only]

Probab=88.15  E-value=31  Score=39.35  Aligned_cols=30  Identities=23%  Similarity=0.462  Sum_probs=16.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          108 AEQVDKAHARADELEKQIDNLKKESEKQQK  137 (455)
Q Consensus       108 ~eei~~Ae~~i~eLe~qIe~LkkeLE~~~~  137 (455)
                      .+.....++++..++.+++++..++...+.
T Consensus       155 ee~~~~~eer~~kl~~~~qe~naeL~rarq  184 (916)
T KOG0249|consen  155 EEHSGNIEERTRKLEEQLEELNAELQRARQ  184 (916)
T ss_pred             HHhhccHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334445555566666666666555555443

>PF03148 Tektin: Tektin family; InterPro: IPR000435 Tektin heteropolymers form unique protofilaments of flagellar microtubules []

Probab=88.08  E-value=30  Score=36.55  Aligned_cols=27  Identities=22%  Similarity=0.357  Sum_probs=14.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          114 AHARADELEKQIDNLKKESEKQQKEKE  140 (455)
Q Consensus       114 Ae~~i~eLe~qIe~LkkeLE~~~~e~e  140 (455)
                      ...+|..++..|..|++.+.....-+.
T Consensus       270 ~~~ei~~~e~~i~~L~~ai~~k~~~lk  296 (384)
T PF03148_consen  270 TLQEIAEMEKNIEDLEKAIRDKEGPLK  296 (384)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhHH
Confidence            334555555555555555555554444

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

>PF02403 Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal domain; InterPro: IPR015866 The aminoacyl-tRNA synthetases (6

Probab=88.05  E-value=9  Score=32.69  Aligned_cols=26  Identities=12%  Similarity=0.271  Sum_probs=10.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           75 VAQKEKAIQDKSERIVSLQKELSSLQ  100 (455)
Q Consensus        75 Ik~~e~~I~e~e~~I~eLq~eI~sLQ  100 (455)
                      |-+++..-.+....+.+++.+-..+.
T Consensus        31 i~~ld~~~r~l~~~~e~lr~~rN~~s   56 (108)
T PF02403_consen   31 IIELDQERRELQQELEELRAERNELS   56 (108)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHHH
Confidence            33344444444444444444443333

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 ....

>PF14282 FlxA: FlxA-like protein

Probab=88.02  E-value=4  Score=35.35  Aligned_cols=24  Identities=25%  Similarity=0.515  Sum_probs=16.1

Q ss_pred             cHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           43 LKIELDQLKSKIRSLESHIDEKTQ   66 (455)
Q Consensus        43 l~~eL~~lr~kI~~Leski~ele~   66 (455)
                      ....|..|+..|..|..+|.++..
T Consensus        17 ~~~~I~~L~~Qi~~Lq~ql~~l~~   40 (106)
T PF14282_consen   17 SDSQIEQLQKQIKQLQEQLQELSQ   40 (106)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHc
Confidence            366667777777777777666655

>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=87.59  E-value=49  Score=36.43  Aligned_cols=55  Identities=11%  Similarity=0.226  Sum_probs=22.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          130 KESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVA  184 (455)
Q Consensus       130 keLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~l  184 (455)
                      .+++.+-.++...+++..-...++..+..+++..++..+....++.+..+.+..+
T Consensus       420 ~RI~eLt~qlQ~adSKa~~f~~Ec~aL~~rL~~aE~ek~~l~eeL~~a~~~i~~L  474 (518)
T PF10212_consen  420 SRIEELTSQLQHADSKAVHFYAECRALQKRLESAEKEKESLEEELKEANQNISRL  474 (518)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444444444444444444444433333333333333333333333

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.

>TIGR03495 phage_LysB phage lysis regulatory protein, LysB family

Probab=87.53  E-value=21  Score=32.56  Aligned_cols=76  Identities=20%  Similarity=0.296  Sum_probs=37.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHH
Q 012833           46 ELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQI  125 (455)
Q Consensus        46 eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eLe~qI  125 (455)
                      +++.++..++..+..+......+..++..|..+....+.++..-..|...++               .+...+..-+.+|
T Consensus        20 ~~~~l~~~~~~a~~~~~~~~~~l~~~~~qL~~l~~~a~~~~~~Q~~Lr~~~~---------------~~~~~l~~re~~i   84 (135)
T TIGR03495        20 RLRNARADLERANRVLKAQQAELASKANQLIVLLALAKRNEEAQAQLRQQLA---------------QARALLAQREQRI   84 (135)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH---------------HHHHHHHHHHHHH
Confidence            4445555555555555555555555444444444444444443333333332               2333444555666


Q ss_pred             HHHHHHHHHHH
Q 012833          126 DNLKKESEKQQ  136 (455)
Q Consensus       126 e~LkkeLE~~~  136 (455)
                      .+|+.|.+.++
T Consensus        85 ~rL~~ENe~lR   95 (135)
T TIGR03495        85 ERLKRENEDLR   95 (135)
T ss_pred             HHHHHcCHHHH
Confidence            66666665553

Members of this protein family are phage lysis regulatory protein, including the well-studied protein LysB (lysis protein B) of Enterobacteria phage P2. For members of this family, genes are found in phage or in prophage regions of bacterial genomes, typically near a phage lysozyme or phage holin.

>PF09787 Golgin_A5: Golgin subfamily A member 5; InterPro: IPR019177 This entry represents a family of proteins involved in maintaining Golgi structure

Probab=87.47  E-value=18  Score=39.67  Aligned_cols=38  Identities=21%  Similarity=0.317  Sum_probs=19.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHH
Q 012833           45 IELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAI   82 (455)
Q Consensus        45 ~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I   82 (455)
                      .++++++.+.+.++.++..++.+|.+...++.+.+...
T Consensus       274 ~el~~l~~E~~~~~ee~~~l~~Qi~~l~~e~~d~e~~~  311 (511)
T PF09787_consen  274 IELEELKQERDHLQEEIQLLERQIEQLRAELQDLEAQL  311 (511)
T ss_pred             hcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34455555555555555555555555555554444433

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 [].

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

Probab=87.45  E-value=29  Score=35.34  Aligned_cols=29  Identities=17%  Similarity=0.409  Sum_probs=19.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           72 DEVVAQKEKAIQDKSERIVSLQKELSSLQ  100 (455)
Q Consensus        72 ~~eIk~~e~~I~e~e~~I~eLq~eI~sLQ  100 (455)
                      ...+++-++.+.+.+.+|.+|.++|..++
T Consensus        74 kakLkes~~~l~dRetEI~eLksQL~RMr  102 (305)
T PF15290_consen   74 KAKLKESENRLHDRETEIDELKSQLARMR  102 (305)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Confidence            34455566677777777777777776665

>PF05008 V-SNARE: Vesicle transport v-SNARE protein N-terminus; InterPro: IPR007705 V-SNARE proteins are required for protein traffic between eukaryotic organelles

Probab=87.32  E-value=11  Score=30.22  Aligned_cols=58  Identities=16%  Similarity=0.350  Sum_probs=34.6

Q ss_pred             hchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           69 KGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESE  133 (455)
Q Consensus        69 ~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eLe~qIe~LkkeLE  133 (455)
                      +++...|..++..|.+.+..|..|+-++.++       ..........++...+.++..+++++.
T Consensus        21 ~~r~~~i~~~e~~l~ea~~~l~qMe~E~~~~-------p~s~r~~~~~kl~~yr~~l~~lk~~l~   78 (79)
T PF05008_consen   21 EQRKSLIREIERDLDEAEELLKQMELEVRSL-------PPSERNQYKSKLRSYRSELKKLKKELK   78 (79)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHCTS--------HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC-------CHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            3555566666666666666666666665544       234445666666666666666666554

The v-SNAREs on transport vesicles interact with t-SNAREs on target membranes in order to facilitate this []. This domain is the N-terminal half of the V-Snare proteins. ; GO: 0006886 intracellular protein transport, 0016020 membrane; PDB: 2V8S_V 1VCS_A 3ONL_C 3ONJ_A 2QYW_A.

>PF04375 HemX: HemX; InterPro: IPR007470 The majority of proteins in this family are annotated as uroporphyrin-III C-methyltransferase (2

Probab=87.28  E-value=37  Score=35.72  Aligned_cols=25  Identities=24%  Similarity=0.534  Sum_probs=13.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhh
Q 012833           45 IELDQLKSKIRSLESHIDEKTQELK   69 (455)
Q Consensus        45 ~eL~~lr~kI~~Leski~ele~eI~   69 (455)
                      .+...++.+++.|+.++..+.+.++
T Consensus        53 ~q~~~~~~~~~~L~~ql~~~~~~~~   77 (372)
T PF04375_consen   53 QQLQQLQQQLQALQQQLQQLQQQLE   77 (372)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3444455555555555555554444

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 [].

>KOG2264 consensus Exostosin EXT1L [Signal transduction mechanisms]

Probab=87.20  E-value=5  Score=44.30  Aligned_cols=69  Identities=17%  Similarity=0.202  Sum_probs=47.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 012833          130 KESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSR  198 (455)
Q Consensus       130 keLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq~E~~~~  198 (455)
                      +.++++..-++...-++.++|.+.+++++++++++.+++++++.|..-+.++..++.+++.++....++
T Consensus        79 r~~~e~~RI~~sVs~EL~ele~krqel~seI~~~n~kiEelk~~i~~~q~eL~~Lk~~ieqaq~~~~El  147 (907)
T KOG2264|consen   79 RILREQKRILASVSLELTELEVKRQELNSEIEEINTKIEELKRLIPQKQLELSALKGEIEQAQRQLEEL  147 (907)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhHHHHHHHHhHHHHHHHHHHHH
Confidence            335555556666666777777777777777777777777777777777777777777776666655544

>COG0497 RecN ATPase involved in DNA repair [DNA replication, recombination, and repair]

Probab=87.15  E-value=51  Score=36.73  Aligned_cols=65  Identities=22%  Similarity=0.300  Sum_probs=30.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHhhhhHhhh
Q 012833          139 KEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIR---KTERALKVAEEEMMRAKFEATSRSKELT  203 (455)
Q Consensus       139 ~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~---elE~~Lq~lEeeL~kaq~E~~~~a~ei~  203 (455)
                      +++.+.|+..+..-...+...++++-.-.++.+.+++   ..+..++.++.++.+++.+....+.+++
T Consensus       299 L~~ve~Rl~~L~~l~RKY~~~~~~l~~~~~~~~~el~~L~~~~~~~~~Le~~~~~l~~~~~~~A~~Ls  366 (557)
T COG0497         299 LEEVEERLFALKSLARKYGVTIEDLLEYLDKIKEELAQLDNSEESLEALEKEVKKLKAELLEAAEALS  366 (557)
T ss_pred             HHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444333333334444333333333333   3334455555666666666655555554

>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=87.13  E-value=55  Score=37.29  Aligned_cols=87  Identities=20%  Similarity=0.187  Sum_probs=52.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          110 QVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEA----------EKKISDLSAKLEKLQKINDEQKSKIRKTER  179 (455)
Q Consensus       110 ei~~Ae~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~el----------Ekkl~EleskveeLek~~eEqekkI~elE~  179 (455)
                      ++..+..+.+.|++++..-+.+++.+......|.....+.          +.+..++...+..|+++.+.+....+=+.-
T Consensus       191 ~La~~q~e~d~L~~qLsk~~~~le~q~tlv~~LR~YvGeq~p~~~~~~~we~Er~~L~~tVq~L~edR~~L~~T~ELLqV  270 (739)
T PF07111_consen  191 ELAEAQREADLLREQLSKTQEELEAQVTLVEQLRKYVGEQVPPEVHSQAWEPEREELLETVQHLQEDRDALQATAELLQV  270 (739)
T ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhhhCCcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4445555666777777777777777666666666555333          244456666666666666666666666666


Q ss_pred             HHHHHHHHHHHHHHHHh
Q 012833          180 ALKVAEEEMMRAKFEAT  196 (455)
Q Consensus       180 ~Lq~lEeeL~kaq~E~~  196 (455)
                      +++.+...+.--+.++.
T Consensus       271 RvqSLt~IL~LQEeEL~  287 (739)
T PF07111_consen  271 RVQSLTDILTLQEEELC  287 (739)
T ss_pred             HHHHHHHHHHHHHHHHh
Confidence            66666555444444443

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

>PRK04406 hypothetical protein; Provisional

Probab=87.10  E-value=5.6  Score=32.57  Aligned_cols=46  Identities=15%  Similarity=0.231  Sum_probs=22.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          148 EAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKF  193 (455)
Q Consensus       148 elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq~  193 (455)
                      .++.++.+++.++.-++..++++...+-++...|..++.++..+..
T Consensus         8 ~le~Ri~~LE~~lAfQE~tIe~LN~~v~~Qq~~I~~L~~ql~~L~~   53 (75)
T PRK04406          8 QLEERINDLECQLAFQEQTIEELNDALSQQQLLITKMQDQMKYVVG   53 (75)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3445555555555555555555555555555555444444444433

>PRK15396 murein lipoprotein; Provisional

Probab=86.99  E-value=7.9  Score=32.03  Aligned_cols=25  Identities=24%  Similarity=0.618  Sum_probs=12.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhc
Q 012833           46 ELDQLKSKIRSLESHIDEKTQELKG   70 (455)
Q Consensus        46 eL~~lr~kI~~Leski~ele~eI~~   70 (455)
                      ++++|..+++.|.++++.+.++++.
T Consensus        26 kvd~LssqV~~L~~kvdql~~dv~~   50 (78)
T PRK15396         26 KIDQLSSDVQTLNAKVDQLSNDVNA   50 (78)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5555555555555555544444433

>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=86.90  E-value=32  Score=33.53  Aligned_cols=51  Identities=18%  Similarity=0.254  Sum_probs=24.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          110 QVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKL  160 (455)
Q Consensus       110 ei~~Ae~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~Eleskv  160 (455)
                      .+..++.-..++-..-++++..++.....-+.|.....+....+...+.+.
T Consensus        84 dL~s~E~sfsdl~~ryek~K~vi~~~k~NEE~Lkk~~~ey~~~l~~~eqry  134 (207)
T PF05010_consen   84 DLNSLEKSFSDLHKRYEKQKEVIEGYKKNEETLKKCIEEYEERLKKEEQRY  134 (207)
T ss_pred             HHHHHHhhHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444445555555555555555555544444444444444444444333

The human TACC proteins have been linked to cancer and TACC2 has been identified as a possible tumour suppressor (AZU-1) [].

>PRK10246 exonuclease subunit SbcC; Provisional

Probab=86.75  E-value=78  Score=37.87  Aligned_cols=50  Identities=16%  Similarity=0.211  Sum_probs=25.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHH
Q 012833           44 KIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQ   93 (455)
Q Consensus        44 ~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq   93 (455)
                      ..++..+...+..+......+..++......+......+.+....+..+.
T Consensus       529 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  578 (1047)
T PRK10246        529 QSRLDALEKEVKKLGEEGAALRGQLDALTKQLQRDESEAQSLRQEEQALT  578 (1047)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44566666666666555555555444444444444444444444444333

>PF09403 FadA: Adhesion protein FadA; InterPro: IPR018543 FadA (Fusobacterium adhesin A) is an adhesin which forms two alpha helices

Probab=86.64  E-value=20  Score=32.26  Aligned_cols=20  Identities=30%  Similarity=0.481  Sum_probs=10.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q 012833           44 KIELDQLKSKIRSLESHIDE   63 (455)
Q Consensus        44 ~~eL~~lr~kI~~Leski~e   63 (455)
                      ..++++|.++++.|..+=+.
T Consensus        26 ~~~l~~LEae~q~L~~kE~~   45 (126)
T PF09403_consen   26 ESELNQLEAEYQQLEQKEEA   45 (126)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            34555555555555444333

; PDB: 3ETZ_B 3ETY_A 2GL2_B 3ETX_C 3ETW_A.

>PF14282 FlxA: FlxA-like protein

Probab=86.64  E-value=6.1  Score=34.25  Aligned_cols=28  Identities=25%  Similarity=0.425  Sum_probs=14.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          108 AEQVDKAHARADELEKQIDNLKKESEKQ  135 (455)
Q Consensus       108 ~eei~~Ae~~i~eLe~qIe~LkkeLE~~  135 (455)
                      ..++..+..+|..|+.+|..++.+....
T Consensus        50 ~~q~q~Lq~QI~~LqaQI~qlq~q~~~~   77 (106)
T PF14282_consen   50 QQQIQLLQAQIQQLQAQIAQLQSQQAEQ   77 (106)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444455555555555555555444433

>TIGR00998 8a0101 efflux pump membrane protein (multidrug resistance protein A)

Probab=86.60  E-value=38  Score=34.13  Aligned_cols=30  Identities=13%  Similarity=0.152  Sum_probs=16.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhchHHHHHH
Q 012833           48 DQLKSKIRSLESHIDEKTQELKGKDEVVAQ   77 (455)
Q Consensus        48 ~~lr~kI~~Leski~ele~eI~~k~~eIk~   77 (455)
                      ..++..+.+.+.++..++.++......+.+
T Consensus        76 ~~~~~~l~~a~a~l~~~~~~~~~~~~~~~~  105 (334)
T TIGR00998        76 TNAELALAKAEANLAALVRQTKQLEITVQQ  105 (334)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345566666666666655555444443333

>KOG0288 consensus WD40 repeat protein TipD [General function prediction only]

Probab=86.55  E-value=33  Score=36.73  Aligned_cols=58  Identities=17%  Similarity=0.133  Sum_probs=39.2

Q ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           43 LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQ  100 (455)
Q Consensus        43 l~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQ  100 (455)
                      ....+.+++-++++-+++.+.+..+..-...+-+.+...+.++|.+|+.|+.+...+.
T Consensus        11 ~dqr~~~~~~~laq~~k~~s~~~aq~~~~~a~~~ai~a~~~~~E~~l~~Lq~e~~~l~   68 (459)
T KOG0288|consen   11 NDQRLIDLNTELAQCEKAQSRLSAQLVILRAESRAIKAKLQEKELELNRLQEENTQLN   68 (459)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4456666777777777777777776666666666666666666666666666665553

>PRK15422 septal ring assembly protein ZapB; Provisional

Probab=86.50  E-value=14  Score=30.57  Aligned_cols=51  Identities=16%  Similarity=0.274  Sum_probs=18.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          124 QIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKI  174 (455)
Q Consensus       124 qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI  174 (455)
                      .|.-|+-+++.++.+...+..+...+.....++..+.+.+..+....+.++
T Consensus        19 tI~LLqmEieELKekn~~L~~e~~~~~~~r~~L~~en~qLk~E~~~WqerL   69 (79)
T PRK15422         19 TITLLQMEIEELKEKNNSLSQEVQNAQHQREELERENNHLKEQQNGWQERL   69 (79)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333333333333333333333333333333333333333

>TIGR02231 conserved hypothetical protein

Probab=86.48  E-value=12  Score=40.88  Aligned_cols=35  Identities=17%  Similarity=0.210  Sum_probs=29.7

Q ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 012833           70 GKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKET  104 (455)
Q Consensus        70 ~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s  104 (455)
                      ..+..+.+++++|.+.+.++..++++++.++..+.
T Consensus        68 ~~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~  102 (525)
T TIGR02231        68 PDPERLAELRKQIRELEAELRDLEDRGDALKALAK  102 (525)
T ss_pred             CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            46789999999999999999999999998876543

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.

>PF02050 FliJ: Flagellar FliJ protein; InterPro: IPR012823 Many flagellar proteins are exported by a flagellum-specific export pathway

Probab=86.37  E-value=18  Score=30.14  Aligned_cols=22  Identities=18%  Similarity=0.244  Sum_probs=7.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q 012833           78 KEKAIQDKSERIVSLQKELSSL   99 (455)
Q Consensus        78 ~e~~I~e~e~~I~eLq~eI~sL   99 (455)
                      ....+..+...+.++...+...
T Consensus        17 ~~~~l~~L~~~~~~~~~~~~~~   38 (123)
T PF02050_consen   17 AEEQLEQLQQERQEYQEQLSES   38 (123)
T ss_dssp             HHHHHHHHHHHHHHHHHT----
T ss_pred             HHHHHHHHHHHHHHHHHHHhhc
Confidence            3334444444444444444333

Attempts have been made to characterise the apparatus responsible for this process, by designing assays to screen for mutants with export defects []. Experiments involving filament removal from temperature-sensitive flagellar mutants of Salmonella typhimurium have shown that, while most mutants were able to regrow filaments, flhA, fliH, fliI and fliN mutants showed no or greatly reduced regrowth. This suggests that the corresponding gene products are involved in the process of flagellum-specific export. The sequences of fliH, fliI and the adjacent gene, fliJ, have been deduced. FliJ was shown to encode a protein of molecular mass 17,302 Da []. It is a membrane-associated protein that affects chemotactic events, mutations in FliJ result in failure to respond to chemotactic stimuli.; GO: 0003774 motor activity, 0001539 ciliary or flagellar motility, 0006935 chemotaxis, 0009288 bacterial-type flagellum, 0016020 membrane, 0044461 bacterial-type flagellum part; PDB: 3AJW_A.

>PRK10476 multidrug resistance protein MdtN; Provisional

Probab=86.31  E-value=36  Score=34.90  Aligned_cols=26  Identities=0%  Similarity=0.069  Sum_probs=16.1

Q ss_pred             HHHHHHHHHHHHHHHHHHhhhchHHH
Q 012833           49 QLKSKIRSLESHIDEKTQELKGKDEV   74 (455)
Q Consensus        49 ~lr~kI~~Leski~ele~eI~~k~~e   74 (455)
                      ..+..+.+++.++...+.+++.....
T Consensus        83 ~~~~~l~~a~a~l~~a~a~l~~~~~~  108 (346)
T PRK10476         83 PYELTVAQAQADLALADAQIMTTQRS  108 (346)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            35567777777777766666554433

>PRK10869 recombination and repair protein; Provisional

Probab=86.27  E-value=44  Score=37.09  Aligned_cols=16  Identities=6%  Similarity=0.040  Sum_probs=7.0

Q ss_pred             HHHHHHHHHHHHHHHH
Q 012833          110 QVDKAHARADELEKQI  125 (455)
Q Consensus       110 ei~~Ae~~i~eLe~qI  125 (455)
                      +++..++|+..++.-.
T Consensus       297 ~l~~ie~Rl~~l~~L~  312 (553)
T PRK10869        297 RLAELEQRLSKQISLA  312 (553)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            3444444444444433

>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=86.17  E-value=12  Score=32.49  Aligned_cols=44  Identities=27%  Similarity=0.430  Sum_probs=24.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           75 VAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESE  133 (455)
Q Consensus        75 Ik~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eLe~qIe~LkkeLE  133 (455)
                      -.++...+..++..|..+++++++|..               +...|.++|+.|+.+++
T Consensus        28 ~~~L~e~Lk~ke~~LRk~eqE~dSL~F---------------rN~QL~kRV~~LQ~El~   71 (102)
T PF10205_consen   28 NAELKEQLKEKEQALRKLEQENDSLTF---------------RNQQLTKRVEVLQEELE   71 (102)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH---------------HHHHHHHHHHHHHHHHH
Confidence            334555555556666666666666654               33344555666665555

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.

>PF07851 TMPIT: TMPIT-like protein; InterPro: IPR012926 A number of members of this family are annotated as being transmembrane proteins induced by tumour necrosis factor alpha, but no literature was found to support this

Probab=85.92  E-value=9.6  Score=39.63  Aligned_cols=57  Identities=19%  Similarity=0.310  Sum_probs=38.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 012833           45 IELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQK  101 (455)
Q Consensus        45 ~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQk  101 (455)
                      .|.+++..+..+|++.-....+.+++...-.+..-+.|..-.+.+.++...+..+++
T Consensus         4 eEW~eL~~efq~Lqethr~Y~qKleel~~lQ~~C~ssI~~QkkrLk~L~~sLk~~~~   60 (330)
T PF07851_consen    4 EEWEELQKEFQELQETHRSYKQKLEELSKLQDKCSSSISHQKKRLKELKKSLKRCKK   60 (330)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            456667777777777766666666666666666666666666666666666666644

; GO: 0016021 integral to membrane

>PF06248 Zw10: Centromere/kinetochore Zw10; InterPro: IPR009361 Zeste white 10 (ZW10) was initially identified as a mitotic checkpoint protein involved in chromosome segregation, and then implicated in targeting cytoplasmic dynein and dynactin to mitotic kinetochores, but it is also important in non-dividing cells

Probab=85.83  E-value=63  Score=35.92  Aligned_cols=22  Identities=9%  Similarity=0.120  Sum_probs=11.7

Q ss_pred             chhHHHhhhhHHHHHHHHhhhc
Q 012833          282 EPHVQTLKTKTIEACEATKTAV  303 (455)
Q Consensus       282 ~p~ve~~k~k~~p~~e~~k~~~  303 (455)
                      .|.+..+=.++..+.+-+..++
T Consensus       275 ~~~~~~V~~~l~~vf~fL~~~L  296 (593)
T PF06248_consen  275 RPSPKEVFSNLLLVFEFLHQHL  296 (593)
T ss_pred             CCCHHHHHHHHHHHHHHHHHHh
Confidence            3445555555555555555555

These include cytoplasmic dynein targeting to Golgi and other membranes, and SNARE-mediated ER-Golgi trafficking [, ]. Dominant-negative ZW10, anti-ZW10 antibody, and ZW10 RNA interference (RNAi) cause Golgi dispersal. ZW10 RNAi also disperse endosomes and lysosomes []. Drosophila kinetochore components Rough deal (Rod) and Zw10 are required for the proper functioning of the metaphase checkpoint in flies []. The eukaryotic spindle assembly checkpoint (SAC) monitors microtubule attachment to kinetochores and prevents anaphase onset until all kinetochores are aligned on the metaphase plate. It is an essential surveillance mechanism that ensures high fidelity chromosome segregation during mitosis. In higher eukaryotes, cytoplasmic dynein is involved in silencing the SAC by removing the checkpoint proteins Mad2 and the Rod-Zw10-Zwilch complex (RZZ) from aligned kinetochores [, , ].; GO: 0007067 mitosis, 0000775 chromosome, centromeric region, 0005634 nucleus

>COG3352 FlaC Putative archaeal flagellar protein C [Cell motility and secretion]

Probab=85.81  E-value=12  Score=34.72  Aligned_cols=95  Identities=16%  Similarity=0.249  Sum_probs=43.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHH
Q 012833           45 IELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQ  124 (455)
Q Consensus        45 ~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eLe~q  124 (455)
                      ..|+++.......+.++-...-.+......+......++.++..|..+....+.+..+..-...+-.....-.+.++.+|
T Consensus        44 e~id~imer~~~ieNdlg~~~~~~~g~kk~~~~~~eelerLe~~iKdl~~lye~Vs~d~Npf~s~~~qes~~~veel~eq  123 (157)
T COG3352          44 EVIDAIMERMTDIENDLGKVKIEIEGQKKQLQDIKEELERLEENIKDLVSLYELVSRDFNPFMSKTPQESRGIVEELEEQ  123 (157)
T ss_pred             HHHHHHHHHHHHHHhhcccccccccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHhhhHHHHHHHHHHHHHH
Confidence            45555555555555554433333444444444444444444444444444444444333333222222222245555566


Q ss_pred             HHHHHHHHHHHHHHH
Q 012833          125 IDNLKKESEKQQKEK  139 (455)
Q Consensus       125 Ie~LkkeLE~~~~e~  139 (455)
                      |.+++..++...+++
T Consensus       124 V~el~~i~emv~~d~  138 (157)
T COG3352         124 VNELKMIVEMVIKDL  138 (157)
T ss_pred             HHHHHHHHHHHhccc
Confidence            665555555444433

>KOG4460 consensus Nuclear pore complex, Nup88/rNup84 component [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]

Probab=85.75  E-value=64  Score=35.90  Aligned_cols=14  Identities=21%  Similarity=0.354  Sum_probs=5.1

Q ss_pred             HHHHHHHHHHHHHH
Q 012833          121 LEKQIDNLKKESEK  134 (455)
Q Consensus       121 Le~qIe~LkkeLE~  134 (455)
                      ++.+++.|..-+|.
T Consensus       667 ~~~~~~~L~~~iET  680 (741)
T KOG4460|consen  667 IPDQLRHLGNAIET  680 (741)
T ss_pred             hHHHHHHHHHHHHH
Confidence            33333333333333

>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=85.67  E-value=38  Score=37.31  Aligned_cols=27  Identities=19%  Similarity=0.325  Sum_probs=12.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          151 KKISDLSAKLEKLQKINDEQKSKIRKT  177 (455)
Q Consensus       151 kkl~EleskveeLek~~eEqekkI~el  177 (455)
                      .+++.+...+..|++++..+...|+.+
T Consensus       487 ~QLs~MSEHLasmNeqL~~Q~eeI~~L  513 (518)
T PF10212_consen  487 EQLSMMSEHLASMNEQLAKQREEIQTL  513 (518)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444444444444444443

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.

>PF15450 DUF4631: Domain of unknown function (DUF4631)

Probab=85.67  E-value=62  Score=35.66  Aligned_cols=12  Identities=17%  Similarity=0.409  Sum_probs=4.5

Q ss_pred             HHHHHHHHHHHH
Q 012833           88 RIVSLQKELSSL   99 (455)
Q Consensus        88 ~I~eLq~eI~sL   99 (455)
                      .|.+|++.|..+
T Consensus       359 ~lkDLd~~~~aL  370 (531)
T PF15450_consen  359 QLKDLDDHILAL  370 (531)
T ss_pred             HHHHHHHHHHHH
Confidence            333333333333

>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=85.67  E-value=20  Score=32.45  Aligned_cols=49  Identities=2%  Similarity=0.206  Sum_probs=33.1

Q ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHH
Q 012833           43 LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVS   91 (455)
Q Consensus        43 l~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~e   91 (455)
                      +...++..+++|++....|..+++.+..-..-+.+....+.+.++.+.+
T Consensus         6 a~rny~~a~aeL~~a~~~I~~~q~r~a~a~~~~~~r~seldqA~~~~~e   54 (136)
T PF11570_consen    6 AERNYEAARAELDQADEDIATLQERQASAEQALNGRRSELDQANKKVKE   54 (136)
T ss_dssp             HHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence            3455667777888777777777777776666666666666666666555

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.

>TIGR00293 prefoldin, archaeal alpha subunit/eukaryotic subunit 5

Probab=85.64  E-value=7.1  Score=34.24  Aligned_cols=24  Identities=29%  Similarity=0.390  Sum_probs=9.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          113 KAHARADELEKQIDNLKKESEKQQ  136 (455)
Q Consensus       113 ~Ae~~i~eLe~qIe~LkkeLE~~~  136 (455)
                      .++.++..++++++.+.+.+..+.
T Consensus        90 ~l~~~~~~l~~~~~~l~~~l~~l~  113 (126)
T TIGR00293        90 FLKKRIEELEKAIEKLQEALAELA  113 (126)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333334444444443333333333

This model finds a set of small proteins from the Archaea and from Aquifex aeolicus that may represent two orthologous groups. The proteins are predicted to be mostly coiled coil, and may hit large numbers of proteins that contain coiled coil regions.

>COG2900 SlyX Uncharacterized protein conserved in bacteria [Function unknown]

Probab=85.46  E-value=6.9  Score=31.86  Aligned_cols=52  Identities=29%  Similarity=0.354  Sum_probs=38.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          141 ALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAK  192 (455)
Q Consensus       141 eLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq  192 (455)
                      .+++|+.++|.++..-+.-+++|+..+.+++..++.+...+..+-+.+...+
T Consensus         5 ~lE~Ri~eLE~r~AfQE~tieeLn~~laEq~~~i~k~q~qlr~L~~kl~~~~   56 (72)
T COG2900           5 ELEARIIELEIRLAFQEQTIEELNDALAEQQLVIDKLQAQLRLLTEKLKDLQ   56 (72)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            5677777777888777888888888888888888877777776666555544

>PF07889 DUF1664: Protein of unknown function (DUF1664); InterPro: IPR012458 The members of this family are hypothetical plant proteins of unknown function

Probab=85.45  E-value=27  Score=31.42  Aligned_cols=13  Identities=15%  Similarity=0.325  Sum_probs=5.1

Q ss_pred             HHHHHHhhhchHH
Q 012833           61 IDEKTQELKGKDE   73 (455)
Q Consensus        61 i~ele~eI~~k~~   73 (455)
                      .+.+.++++...+
T Consensus        45 ~~~v~kql~~vs~   57 (126)
T PF07889_consen   45 VASVSKQLEQVSE   57 (126)
T ss_pred             HHHHHHHHHHHHH
Confidence            3333344444333

The region featured in this family is approximately 100 amino acids long.

>PRK11546 zraP zinc resistance protein; Provisional

Probab=85.40  E-value=14  Score=33.91  Aligned_cols=34  Identities=9%  Similarity=-0.044  Sum_probs=18.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHH
Q 012833           45 IELDQLKSKIRSLESHIDEKTQELKGKDEVVAQK   78 (455)
Q Consensus        45 ~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~   78 (455)
                      ++.+.++.-.++...+...+.++|-.+..|++.+
T Consensus        47 EQQa~~q~I~~~f~~~t~~LRqqL~aKr~ELnAL   80 (143)
T PRK11546         47 EQQAAWQKIHNDFYAQTSALRQQLVSKRYEYNAL   80 (143)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444455555555666666665555555555554

>TIGR00293 prefoldin, archaeal alpha subunit/eukaryotic subunit 5

Probab=85.25  E-value=7.2  Score=34.20  Aligned_cols=28  Identities=32%  Similarity=0.388  Sum_probs=11.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          116 ARADELEKQIDNLKKESEKQQKEKEALE  143 (455)
Q Consensus       116 ~~i~eLe~qIe~LkkeLE~~~~e~eeLE  143 (455)
                      +-+..++..++.+.+.++.+..++..+.
T Consensus        86 eA~~~l~~~~~~l~~~~~~l~~~l~~l~  113 (126)
T TIGR00293        86 EAIEFLKKRIEELEKAIEKLQEALAELA  113 (126)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444444444443333333

This model finds a set of small proteins from the Archaea and from Aquifex aeolicus that may represent two orthologous groups. The proteins are predicted to be mostly coiled coil, and may hit large numbers of proteins that contain coiled coil regions.

>KOG0982 consensus Centrosomal protein Nuf [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]

Probab=85.22  E-value=59  Score=35.04  Aligned_cols=56  Identities=13%  Similarity=0.077  Sum_probs=28.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          110 QVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQK  165 (455)
Q Consensus       110 ei~~Ae~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek  165 (455)
                      .+..++....+++..+.+|+...+++..+.......+..+..++...+.....+.+
T Consensus       305 r~qqleeentelRs~~arlksl~dklaee~qr~sd~LE~lrlql~~eq~l~~rm~d  360 (502)
T KOG0982|consen  305 RDQQLEEENTELRSLIARLKSLADKLAEEDQRSSDLLEALRLQLICEQKLRVRMND  360 (502)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33445555555666666666555555555555554444444444444433333333

>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89

Probab=85.19  E-value=15  Score=29.58  Aligned_cols=32  Identities=22%  Similarity=0.316  Sum_probs=12.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          142 LEARAIEAEKKISDLSAKLEKLQKINDEQKSK  173 (455)
Q Consensus       142 LEae~~elEkkl~EleskveeLek~~eEqekk  173 (455)
                      +..+...+..++...-....+|..+++.++++
T Consensus        31 L~~ERd~~~~~l~~a~~e~~~Lk~E~e~L~~e   62 (69)
T PF14197_consen   31 LRRERDSAERQLGDAYEENNKLKEENEALRKE   62 (69)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333344444444444444444433333

>COG4477 EzrA Negative regulator of septation ring formation [Cell division and chromosome partitioning]

Probab=85.04  E-value=67  Score=35.55  Aligned_cols=23  Identities=13%  Similarity=0.264  Sum_probs=11.8

Q ss_pred             CccHHHHHHHHHHHHHHHHHHHH
Q 012833           41 SPLKIELDQLKSKIRSLESHIDE   63 (455)
Q Consensus        41 ~~l~~eL~~lr~kI~~Leski~e   63 (455)
                      ..+..+++.++.++......+..
T Consensus       251 ~~id~~~~~L~~~l~~~~~~l~~  273 (570)
T COG4477         251 VNIDSRLERLKEQLVENSELLTQ  273 (570)
T ss_pred             ccHHHHHHHHHHHHHHHHhHHHH
Confidence            44455555555555544444443

>PF14712 Snapin_Pallidin: Snapin/Pallidin

Probab=85.02  E-value=13  Score=30.74  Aligned_cols=38  Identities=21%  Similarity=0.382  Sum_probs=26.6

Q ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHH
Q 012833           43 LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEK   80 (455)
Q Consensus        43 l~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~   80 (455)
                      +.|.++.++..+..+.....++...|+....++.++..
T Consensus        12 l~P~l~~~~~~l~el~~sQ~~L~~~i~~~~~~L~~~~~   49 (92)
T PF14712_consen   12 LEPDLDRLDQQLQELRQSQEELLQQIDRLNEKLKELNE   49 (92)
T ss_pred             HhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45677788888888888777777777666655555443

>PF09486 HrpB7: Bacterial type III secretion protein (HrpB7); InterPro: IPR013392 This entry represents proteins encoded by genes which are found in type III secretion operons in a narrow range of species including Xanthomonas, Burkholderia and Ralstonia

Probab=84.64  E-value=35  Score=31.92  Aligned_cols=98  Identities=11%  Similarity=0.189  Sum_probs=63.5

Q ss_pred             HHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           50 LKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLK  129 (455)
Q Consensus        50 lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eLe~qIe~Lk  129 (455)
                      .......|+..+.+....+...+.+..+....++.....+......|+.+-..+++..-..+.....=.+.+..++..++
T Consensus        13 r~R~~~rL~~~L~~~r~al~~~~a~~~~~~a~v~~~~~~l~~~~~ri~~m~~gg~~f~i~~~~~~~~~r~~l~~~~~~~e   92 (158)
T PF09486_consen   13 RRRRERRLRARLAAQRRALAAAEAELAEQQAEVEAARQRLRAHDARIDAMMTGGAPFSIDEYLALRRYRDVLEERVRAAE   92 (158)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHcCCCCccHHHHHHHHHHHHHHHHHHHHHH
Confidence            34445666677777777777777777778888888888888888888888776676655555555555555555555555


Q ss_pred             HHHHHHHHHHHHHHHHHH
Q 012833          130 KESEKQQKEKEALEARAI  147 (455)
Q Consensus       130 keLE~~~~e~eeLEae~~  147 (455)
                      .++......+....++..
T Consensus        93 ~~~a~l~~~l~~~~~~ia  110 (158)
T PF09486_consen   93 AELAALRQALRAAEDEIA  110 (158)
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            554444444443333333

>PLN03229 acetyl-coenzyme A carboxylase carboxyl transferase subunit alpha; Provisional

Probab=84.62  E-value=75  Score=36.58  Aligned_cols=8  Identities=25%  Similarity=0.555  Sum_probs=3.0

Q ss_pred             HHHHHHHH
Q 012833           44 KIELDQLK   51 (455)
Q Consensus        44 ~~eL~~lr   51 (455)
                      +..|+.|+
T Consensus       485 k~kL~~Lr  492 (762)
T PLN03229        485 QERLENLR  492 (762)
T ss_pred             HHHHHHHH
Confidence            33333333

>PF14362 DUF4407: Domain of unknown function (DUF4407)

Probab=84.57  E-value=46  Score=33.55  Aligned_cols=20  Identities=35%  Similarity=0.559  Sum_probs=8.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q 012833          116 ARADELEKQIDNLKKESEKQ  135 (455)
Q Consensus       116 ~~i~eLe~qIe~LkkeLE~~  135 (455)
                      .++..++.++..++++++..
T Consensus       142 ~~i~~l~~~~~~~~~~~~~~  161 (301)
T PF14362_consen  142 AEIAALQAEIDQLEKEIDRA  161 (301)
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            33334444444444444333

>KOG2391 consensus Vacuolar sorting protein/ubiquitin receptor VPS23 [Posttranslational modification, protein turnover, chaperones; Intracellular trafficking, secretion, and vesicular transport]

Probab=84.54  E-value=8.3  Score=40.07  Aligned_cols=57  Identities=19%  Similarity=0.297  Sum_probs=40.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          113 KAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDE  169 (455)
Q Consensus       113 ~Ae~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eE  169 (455)
                      ..+++++.+..+++.|+..-|.++....+++...+.+|.+...++..++-|....++
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            445566666677777777777777777777777777777777777777777666665

>PF07851 TMPIT: TMPIT-like protein; InterPro: IPR012926 A number of members of this family are annotated as being transmembrane proteins induced by tumour necrosis factor alpha, but no literature was found to support this

Probab=84.43  E-value=12  Score=38.96  Aligned_cols=27  Identities=11%  Similarity=-0.058  Sum_probs=15.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 012833          356 RAYGKFLKSATTYHHQVQASVQEMLKK  382 (455)
Q Consensus       356 ~~~~~~~~~a~~~h~q~q~~~~~~l~~  382 (455)
                      ..|..++.-...|++.=.=.-...|.+
T Consensus       217 ~~~~~~vq~lQ~~YQ~~~Ly~l~AlG~  243 (330)
T PF07851_consen  217 SLYQSVVQFLQYRYQRGCLYRLRALGK  243 (330)
T ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHhcc
Confidence            456666666666666554444555544

; GO: 0016021 integral to membrane

>KOG0249 consensus LAR-interacting protein and related proteins [General function prediction only]

Probab=84.35  E-value=53  Score=37.59  Aligned_cols=18  Identities=17%  Similarity=0.329  Sum_probs=7.6

Q ss_pred             HHHHHHHHHHHHHHHHHH
Q 012833          111 VDKAHARADELEKQIDNL  128 (455)
Q Consensus       111 i~~Ae~~i~eLe~qIe~L  128 (455)
                      +.+...++.+++.++.++
T Consensus       165 ~~kl~~~~qe~naeL~ra  182 (916)
T KOG0249|consen  165 TRKLEEQLEELNAELQRA  182 (916)
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            334444444444444444

>PF08702 Fib_alpha: Fibrinogen alpha/beta chain family; InterPro: IPR012290 Fibrinogen plays key roles in both blood clotting and platelet aggregation

Probab=84.33  E-value=33  Score=31.47  Aligned_cols=38  Identities=24%  Similarity=0.330  Sum_probs=19.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          147 IEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVA  184 (455)
Q Consensus       147 ~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~l  184 (455)
                      ..+|..+....+.+..|+..+..+..+|..|+..+...
T Consensus        93 ~~~e~~i~~~~~~I~~Lq~~~~~~~~ki~~Le~~i~~~  130 (146)
T PF08702_consen   93 YILETKIINQPSNIRVLQNILRSNRQKIQRLEQDIDQQ  130 (146)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444445555555555555555555555554443

During blood clot formation, the conversion of soluble fibrinogen to insoluble fibrin is triggered by thrombin, resulting in the polymerisation of fibrin, which forms a soft clot; this is then converted to a hard clot by factor XIIIA, which cross-links fibrin molecules. Platelet aggregation involves the binding of the platelet protein receptor integrin alpha(IIb)-beta(3) to the C-terminal D domain of fibrinogen []. In addition to platelet aggregation, platelet-fibrinogen interaction mediates both adhesion and fibrin clot retraction. Fibrinogen occurs as a dimer, where each monomer is composed of three non-identical chains, alpha, beta and gamma, linked together by several disulphide bonds []. The N-terminals of all six chains come together to form the centre of the molecule (E domain), from which the monomers extend in opposite directions as coiled coils, followed by C-terminal globular domains (D domains). Therefore, the domain composition is: D-coil-E-coil-D. At each end, the C-terminal of the alpha chain extends beyond the D domain as a protuberance that is important for cross-linking the molecule. During clot formation, the N-terminal fragments of the alpha and beta chains (within the E domain) in fibrinogen are cleaved by thrombin, releasing fibrinopeptides A and B, respectively, and producing fibrin. This cleavage results in the exposure of four binding sites on the E domain, each of which can bind to a D domain from different fibrin molecules. The binding of fibrin molecules produces a polymer consisting of a lattice network of fibrins that form a long, branching, flexible fibre [, ]. Fibrin fibres interact with platelets to increase the size of the clot, as well as with several different proteins and cells, thereby promoting the inflammatory response and concentrating the cells required for wound repair at the site of damage. This entry represents the coiled-coil domain and part of the N-terminal E domain found in all three fibrinogen polypeptides, namely the alpha, beta and gamma chains. More information about these proteins can be found at Protein of the Month: Fibrinogen [].; GO: 0005102 receptor binding, 0030674 protein binding, bridging, 0007165 signal transduction, 0030168 platelet activation, 0051258 protein polymerization, 0005577 fibrinogen complex; PDB: 1LWU_D 1N73_D 1M1J_B 1JY2_R 1JY3_R 1RF0_A 2H43_D 1RE4_D 2XNY_D 2HPC_D ....

>PF05791 Bacillus_HBL: Bacillus haemolytic enterotoxin (HBL); InterPro: IPR008414 This family consists of several Bacillus haemolytic enterotoxins (HblC, HblD, HblA, NheA, and NheB), which can cause food poisoning in humans []

Probab=84.30  E-value=27  Score=33.09  Aligned_cols=31  Identities=13%  Similarity=0.204  Sum_probs=14.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          110 QVDKAHARADELEKQIDNLKKESEKQQKEKE  140 (455)
Q Consensus       110 ei~~Ae~~i~eLe~qIe~LkkeLE~~~~e~e  140 (455)
                      ....+.+.++.|..++...+........++.
T Consensus       104 ~~~~~~~~i~~L~~~i~~~q~~~~~~i~~L~  134 (184)
T PF05791_consen  104 DKEDLKEIIEDLQDQIQKNQDKVQALINELN  134 (184)
T ss_dssp             -HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344455555555555555544444443333

Haemolysin BL (encoded by HBL) and non-haemolytic enterotoxin (encoded by NHE), represent the major enterotoxins produced by Bacillus cereus. Most of the cytotoxic activity of B. cereus isolates has been attributed to the level of Nhe, which may indicate a highly diarrheic potential []. The exact mechanism by which B. cereus causes diarrhoea is unknown. Hbl, cytotoxin K (CytK) and Nhe are all putative causes. Both Hbl and Nhe are three-component cytotoxins and maximal cytotoxicity of Nhe against epithelia is dependent on all three components. Nhe has haemolytic activity against erythrocytes from a variety of species. It is possible that the common structural and functional properties of these toxins indicate that the Hbl/Nhe and ClyA families of toxins constitute a superfamily of pore-forming cytotoxins []. The high virulence of some strains is thought to be due to the greater cytotoxic activity of CytK-1 compared to CytK-2, and to a high level of cytK expression []. Haemolysin BL and non-haemolytic enterotoxin production are both influenced by pH and micro []. This entry is found in cytotoxic proteins that form part of the enterotoxin complex and bind to erythrocytes. HblA is composed of a binding component, B, and two lytic components, L1 and L2. All three subunits act synergically to cause hemolysis.; GO: 0009405 pathogenesis, 0016020 membrane; PDB: 2NRJ_A.

>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=84.28  E-value=21  Score=29.04  Aligned_cols=20  Identities=40%  Similarity=0.335  Sum_probs=7.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q 012833           78 KEKAIQDKSERIVSLQKELS   97 (455)
Q Consensus        78 ~e~~I~e~e~~I~eLq~eI~   97 (455)
                      ++..|...=..|..|+-+++
T Consensus         9 LE~ki~~aveti~~Lq~e~e   28 (72)
T PF06005_consen    9 LEEKIQQAVETIALLQMENE   28 (72)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333

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.

>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=84.09  E-value=55  Score=33.74  Aligned_cols=10  Identities=50%  Similarity=0.674  Sum_probs=4.4

Q ss_pred             HHHHHHHHHH
Q 012833           45 IELDQLKSKI   54 (455)
Q Consensus        45 ~eL~~lr~kI   54 (455)
                      ..|+.++.++
T Consensus        55 ~~ld~~~~kl   64 (301)
T PF06120_consen   55 DSLDELKEKL   64 (301)
T ss_pred             HhhHHHHHHH
Confidence            3444444444

>PF07989 Microtub_assoc: Microtubule associated; InterPro: IPR012943 Proteins with this domain associate with the spindle body during cell division []

Probab=84.01  E-value=13  Score=30.37  Aligned_cols=28  Identities=43%  Similarity=0.372  Sum_probs=15.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          120 ELEKQIDNLKKESEKQQKEKEALEARAI  147 (455)
Q Consensus       120 eLe~qIe~LkkeLE~~~~e~eeLEae~~  147 (455)
                      +.+.+|++|+++.-.++-.+.-++.++.
T Consensus         4 Eqe~~i~~L~KENF~LKLrI~fLee~l~   31 (75)
T PF07989_consen    4 EQEEQIDKLKKENFNLKLRIYFLEERLQ   31 (75)
T ss_pred             HHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            4455566666665555555555555544

>PF04102 SlyX: SlyX; InterPro: IPR007236 The SlyX protein has no known function

Probab=83.76  E-value=6.9  Score=31.27  Aligned_cols=47  Identities=15%  Similarity=0.235  Sum_probs=21.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 012833          150 EKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEAT  196 (455)
Q Consensus       150 Ekkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq~E~~  196 (455)
                      +.++.+++.++.-++..++++...+.++...|..++..+..+.....
T Consensus         3 e~Ri~~LE~~la~qe~~ie~Ln~~v~~Qq~~I~~L~~~l~~L~~rl~   49 (69)
T PF04102_consen    3 EERIEELEIKLAFQEDTIEELNDVVTEQQRQIDRLQRQLRLLRERLR   49 (69)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT--
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444455555544444444444444444444444444444444333

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.

>cd00890 Prefoldin Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly

Probab=83.73  E-value=20  Score=31.06  Aligned_cols=19  Identities=16%  Similarity=0.244  Sum_probs=7.1

Q ss_pred             HHHhhhchHHHHHHHHHHH
Q 012833           64 KTQELKGKDEVVAQKEKAI   82 (455)
Q Consensus        64 le~eI~~k~~eIk~~e~~I   82 (455)
                      +.++|+.....+..+...+
T Consensus        11 l~~~i~~l~~~~~~l~~~~   29 (129)
T cd00890          11 LQQQLEALQQQLQKLEAQL   29 (129)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333

The complex contains two alpha and four beta subunits, the two subunits being evolutionarily related. 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 structure of the hexamer. The structure of the complex consists of a double beta barrel assembly with six protruding coiled-coils.

>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=83.71  E-value=24  Score=29.40  Aligned_cols=16  Identities=31%  Similarity=0.580  Sum_probs=6.3

Q ss_pred             HHHHHHHHHHHHHHHH
Q 012833          117 RADELEKQIDNLKKES  132 (455)
Q Consensus       117 ~i~eLe~qIe~LkkeL  132 (455)
                      ++..++.++..++.++
T Consensus        13 ~l~~~~~q~~~l~~~~   28 (106)
T PF01920_consen   13 QLQQLEQQIQQLERQL   28 (106)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            3333344444443333

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.

>PRK02119 hypothetical protein; Provisional

Probab=83.62  E-value=9.2  Score=31.09  Aligned_cols=49  Identities=10%  Similarity=0.156  Sum_probs=28.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          147 IEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEA  195 (455)
Q Consensus       147 ~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq~E~  195 (455)
                      ..++.++.+++.++.-++..++++...+-++.+.|..++.++..+..+.
T Consensus         5 ~~~e~Ri~~LE~rla~QE~tie~LN~~v~~Qq~~id~L~~ql~~L~~rl   53 (73)
T PRK02119          5 QNLENRIAELEMKIAFQENLLEELNQALIEQQFVIDKMQVQLRYMANKL   53 (73)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4455566666666666666666666666666665555555555554443

>KOG0998 consensus Synaptic vesicle protein EHS-1 and related EH domain proteins [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=83.54  E-value=2.8  Score=48.72  Aligned_cols=59  Identities=22%  Similarity=0.240  Sum_probs=31.2

Q ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 012833           43 LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQK  101 (455)
Q Consensus        43 l~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQk  101 (455)
                      +..+|..+.....++..+..+.....++....+...+...........+...-+.++.+
T Consensus       433 ~~~~l~~~~s~~~~l~~~~~~~~~k~~e~~~~~s~s~~~~~~~~~k~~~~~~~~s~~~~  491 (847)
T KOG0998|consen  433 LANELSNLASTSQQLPAQKDTVQDKLNELDAQKSQSKEKFSTTRKKKQEEPQWISSLDN  491 (847)
T ss_pred             chhhhhhcchhhhccccccchhhhhhhhhhhhhhHHHhhhhhhhhhhhccccccccccc
Confidence            34555666666666666655555555555555555555555444444444444444433

>PF15456 Uds1: Up-regulated During Septation

Probab=83.08  E-value=27  Score=31.33  Aligned_cols=20  Identities=10%  Similarity=0.195  Sum_probs=7.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHh
Q 012833          177 TERALKVAEEEMMRAKFEAT  196 (455)
Q Consensus       177 lE~~Lq~lEeeL~kaq~E~~  196 (455)
                      .+++++....++.+++....
T Consensus        86 ~~rk~ee~~~eL~~le~R~~  105 (124)
T PF15456_consen   86 SDRKCEELAQELWKLENRLA  105 (124)
T ss_pred             HHhhHHHHHHHHHHHHHHHH
Confidence            33333333333333333333

>PF07989 Microtub_assoc: Microtubule associated; InterPro: IPR012943 Proteins with this domain associate with the spindle body during cell division []

Probab=82.96  E-value=16  Score=29.95  Aligned_cols=20  Identities=25%  Similarity=0.486  Sum_probs=7.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q 012833          117 RADELEKQIDNLKKESEKQQ  136 (455)
Q Consensus       117 ~i~eLe~qIe~LkkeLE~~~  136 (455)
                      +..+|..++..|++++...+
T Consensus        44 eNieLKve~~~L~~el~~~~   63 (75)
T PF07989_consen   44 ENIELKVEVESLKRELQEKK   63 (75)
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            33334444444443333333

>PF13747 DUF4164: Domain of unknown function (DUF4164)

Probab=82.85  E-value=28  Score=29.37  Aligned_cols=45  Identities=31%  Similarity=0.455  Sum_probs=24.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          119 DELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKL  163 (455)
Q Consensus       119 ~eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeL  163 (455)
                      .+++.+++.+..+...+..++...+++.+.++.-..++...+...
T Consensus        35 ~~~e~ei~~l~~dr~rLa~eLD~~~ar~~~Le~~~~Evs~rL~~a   79 (89)
T PF13747_consen   35 DELEEEIQRLDADRSRLAQELDQAEARANRLEEANREVSRRLDSA   79 (89)
T ss_pred             hhHHHHHHHHHhhHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence            455555555555555555555555555555555555555554433

>PF03904 DUF334: Domain of unknown function (DUF334); InterPro: IPR005602 This is a family of proteins found in Staphylococcus aureus plasmid with no characterised function

Probab=82.77  E-value=52  Score=32.52  Aligned_cols=12  Identities=25%  Similarity=0.241  Sum_probs=5.3

Q ss_pred             HHHHHHHHHHHH
Q 012833          125 IDNLKKESEKQQ  136 (455)
Q Consensus       125 Ie~LkkeLE~~~  136 (455)
                      ++.|++++++.+
T Consensus        99 ~~~Lq~~Lk~V~  110 (230)
T PF03904_consen   99 QDILQDELKDVD  110 (230)
T ss_pred             HHHHHHHHHhhc
Confidence            344444444443

>PF06103 DUF948: Bacterial protein of unknown function (DUF948); InterPro: IPR009293 This family consists of bacterial sequences several of which are thought to be general stress proteins

Probab=82.76  E-value=26  Score=28.98  Aligned_cols=55  Identities=18%  Similarity=0.314  Sum_probs=28.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           45 IELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSL   99 (455)
Q Consensus        45 ~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sL   99 (455)
                      +-+++++.-+..++.+++.+..++++.-.+.+++-..++.+.+.+..+-+.+..+
T Consensus        26 ~~l~~~~~ti~~l~~~~~~i~~e~~~ll~~~n~l~~dv~~k~~~v~~~~~~v~~~   80 (90)
T PF06103_consen   26 KTLDEVNKTIDTLQEQVDPITKEINDLLHNTNELLEDVNEKLEKVDPVFEAVADL   80 (90)
T ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence            4455555555555555555555555555544444444444444444444444433

>KOG2077 consensus JNK/SAPK-associated protein-1 [Signal transduction mechanisms]

Probab=82.74  E-value=11  Score=41.61  Aligned_cols=82  Identities=23%  Similarity=0.292  Sum_probs=67.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 012833          120 ELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRS  199 (455)
Q Consensus       120 eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq~E~~~~a  199 (455)
                      -+-.+++.|-.+...+-.-+.+|+--+++|=.++.+++.+.+-|+.+++..+..-.++++++..+|++|.+++.++....
T Consensus       298 GMGrEVeNLilENsqLLetKNALNiVKNDLIakVDeL~~E~~vLrgElea~kqak~Klee~i~elEEElk~~k~ea~~ar  377 (832)
T KOG2077|consen  298 GMGREVENLILENSQLLETKNALNIVKNDLIAKVDELTCEKDVLRGELEAVKQAKLKLEEKIRELEEELKKAKAEAEDAR  377 (832)
T ss_pred             cchHHHHHHHHhhHHHHhhhhHHHHHHHHHHHHHHhhccHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34466777766666666677788888888889999999999999999999999999999999999999999999888664


Q ss_pred             Hh
Q 012833          200 KE  201 (455)
Q Consensus       200 ~e  201 (455)
                      .+
T Consensus       378 ~~  379 (832)
T KOG2077|consen  378 QK  379 (832)
T ss_pred             Hh
Confidence            43

>PF07058 Myosin_HC-like: Myosin II heavy chain-like; InterPro: IPR009768 This family represents a conserved region within a number of myosin II heavy chain-like proteins that seem to be specific to Arabidopsis thaliana

Probab=82.63  E-value=18  Score=37.24  Aligned_cols=34  Identities=18%  Similarity=0.283  Sum_probs=28.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhH
Q 012833          167 NDEQKSKIRKTERALKVAEEEMMRAKFEATSRSK  200 (455)
Q Consensus       167 ~eEqekkI~elE~~Lq~lEeeL~kaq~E~~~~a~  200 (455)
                      +-.++.++.++.++...++.++.+++--+++.+-
T Consensus        61 vrdYqrq~~elneEkrtLeRELARaKV~aNRVA~   94 (351)
T PF07058_consen   61 VRDYQRQVQELNEEKRTLERELARAKVSANRVAT   94 (351)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhh
Confidence            3478888999999999999999999988887654

>cd00890 Prefoldin Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly

Probab=82.53  E-value=31  Score=29.81  Aligned_cols=33  Identities=21%  Similarity=0.387  Sum_probs=14.8

Q ss_pred             HHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHH
Q 012833           50 LKSKIRSLESHIDEKTQELKGKDEVVAQKEKAI   82 (455)
Q Consensus        50 lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I   82 (455)
                      +...+.+++.+++.+.+.+......+.+.+..+
T Consensus         4 l~~~~~~l~~~i~~l~~~~~~l~~~~~e~~~~~   36 (129)
T cd00890           4 LAAQLQQLQQQLEALQQQLQKLEAQLTEYEKAK   36 (129)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444444444444444333

The complex contains two alpha and four beta subunits, the two subunits being evolutionarily related. 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 structure of the hexamer. The structure of the complex consists of a double beta barrel assembly with six protruding coiled-coils.

>COG3352 FlaC Putative archaeal flagellar protein C [Cell motility and secretion]

Probab=82.51  E-value=33  Score=31.87  Aligned_cols=61  Identities=23%  Similarity=0.323  Sum_probs=36.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          108 AEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKIND  168 (455)
Q Consensus       108 ~eei~~Ae~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~e  168 (455)
                      .+.++...++..+.++++-+.+..++-..+.+.....+++.++..++.+...++.+.....
T Consensus        43 ne~id~imer~~~ieNdlg~~~~~~~g~kk~~~~~~eelerLe~~iKdl~~lye~Vs~d~N  103 (157)
T COG3352          43 NEVIDAIMERMTDIENDLGKVKIEIEGQKKQLQDIKEELERLEENIKDLVSLYELVSRDFN  103 (157)
T ss_pred             hHHHHHHHHHHHHHHhhcccccccccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            4567777777777777777665555555555555555555555555555555555544444

>KOG2751 consensus Beclin-like protein [Signal transduction mechanisms]

Probab=82.51  E-value=59  Score=34.99  Aligned_cols=21  Identities=19%  Similarity=0.251  Sum_probs=11.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHhh
Q 012833          410 ASALLVLPVIILFRIGSAIFC  430 (455)
Q Consensus       410 asal~~~p~~~~~~~~~~~~~  430 (455)
                      |.+++..-+=...-.+|+.|.
T Consensus       425 ALkFmLTnlK~~~A~vss~~~  445 (447)
T KOG2751|consen  425 ALKFMLTNLKWLLAWVSSLFS  445 (447)
T ss_pred             HHHHHHhccHHHHHHHhhhhc
Confidence            666555555444445555553

>PF06476 DUF1090: Protein of unknown function (DUF1090); InterPro: IPR009468 This family consists of several bacterial proteins of unknown function and is known as YqjC in Escherichia coli

Probab=82.36  E-value=20  Score=31.63  Aligned_cols=36  Identities=19%  Similarity=0.393  Sum_probs=19.1

Q ss_pred             HHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 012833           50 LKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQK  101 (455)
Q Consensus        50 lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQk  101 (455)
                      ...+...++.+|+--..                ..++..|.-|+.-|..++.
T Consensus        22 C~~K~~~Ie~qI~~Ak~----------------~gN~~rv~GLe~AL~~v~~   57 (115)
T PF06476_consen   22 CEAKEQAIEKQIEYAKA----------------HGNQHRVAGLEKALEEVKA   57 (115)
T ss_pred             HHHHHHHHHHHHHHHHH----------------cCCHHHHHHHHHHHHHHHh
Confidence            46666666655554322                2334566666666655543

>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed

Probab=82.28  E-value=35  Score=39.55  Aligned_cols=22  Identities=32%  Similarity=0.477  Sum_probs=18.4

Q ss_pred             HHHHHHHHHHHhcccCcccccc
Q 012833          371 QVQASVQEMLKKHELTSPLATK  392 (455)
Q Consensus       371 q~q~~~~~~l~~~e~~~~~a~~  392 (455)
                      .+...|.++|.+|+..+.|-.-
T Consensus       746 ~Lr~~v~~~L~~~~~V~~f~~a  767 (782)
T PRK00409        746 KLRKGVQEFLKKHPSVKSFRDA  767 (782)
T ss_pred             HHHHHHHHHHcCCCceeeeeec
Confidence            6888999999999998887443

>PRK00295 hypothetical protein; Provisional

Probab=82.15  E-value=11  Score=30.08  Aligned_cols=48  Identities=8%  Similarity=0.130  Sum_probs=27.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 012833          149 AEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEAT  196 (455)
Q Consensus       149 lEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq~E~~  196 (455)
                      ++.++.+++.++.-++..++++...+-++.+.|..++.++..+..+..
T Consensus         3 ~e~Ri~~LE~kla~qE~tie~Ln~~v~~Qq~~I~~L~~ql~~L~~rl~   50 (68)
T PRK00295          3 LEERVTELESRQAFQDDTIQALNDVLVEQQRVIERLQLQMAALIKRQE   50 (68)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345556666666666666666666666666555555555555544433

>PF07798 DUF1640: Protein of unknown function (DUF1640); InterPro: IPR024461 This family consists of uncharacterised proteins

Probab=82.13  E-value=45  Score=31.28  Aligned_cols=23  Identities=22%  Similarity=0.117  Sum_probs=13.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q 012833           78 KEKAIQDKSERIVSLQKELSSLQ  100 (455)
Q Consensus        78 ~e~~I~e~e~~I~eLq~eI~sLQ  100 (455)
                      .++..-.....++++..++..+.
T Consensus        49 ~e~~~~~~~a~~~eLr~el~~~~   71 (177)
T PF07798_consen   49 LENQEYLFKAAIAELRSELQNSR   71 (177)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            44455555566666666665543

>PF03148 Tektin: Tektin family; InterPro: IPR000435 Tektin heteropolymers form unique protofilaments of flagellar microtubules []

Probab=81.92  E-value=74  Score=33.64  Aligned_cols=158  Identities=18%  Similarity=0.198  Sum_probs=72.9

Q ss_pred             CCCccHHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHhhh----h--------
Q 012833           39 DSSPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSE--RIVSLQKELSSLQKKE----T--------  104 (455)
Q Consensus        39 ~~~~l~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~--~I~eLq~eI~sLQkK~----s--------  104 (455)
                      ....|..|++-+..=-.-|+..+.+...+|.....-...++..+.++..  .|....-.+..-...+    .        
T Consensus       117 ve~eL~kE~~li~~~~~lL~~~l~~~~eQl~~lr~ar~~Le~Dl~dK~~A~~ID~~~~~L~~~S~~i~~~~~~~r~~~~~  196 (384)
T PF03148_consen  117 VEKELLKEVELIENIKRLLQRTLEQAEEQLRLLRAARYRLEKDLSDKFEALEIDTQCLSLNNNSTNISYKPGSTRIPKNS  196 (384)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCCCcccCCcccccccC
Confidence            3344566666665555556666666666666655555556655555544  2222222221111000    0        


Q ss_pred             hh-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          105 LN-------AAEQVDKAHARADELEKQIDNLKKESEKQQKEKE--------ALEARAIEAEKKISDLSAKLEKLQKINDE  169 (455)
Q Consensus       105 ~~-------~~eei~~Ae~~i~eLe~qIe~LkkeLE~~~~e~e--------eLEae~~elEkkl~EleskveeLek~~eE  169 (455)
                      +.       ....+..++........--..+...+.....++.        .+..+..+.+.-.++++..+.....++.+
T Consensus       197 ~tp~~W~~~s~~ni~~a~~e~~~S~~LR~~i~~~l~~~~~dl~~Q~~~vn~al~~Ri~et~~ak~~Le~ql~~~~~ei~~  276 (384)
T PF03148_consen  197 STPESWEEFSNENIQRAEKERQSSAQLREDIDSILEQTANDLRAQADAVNAALRKRIHETQEAKNELEWQLKKTLQEIAE  276 (384)
T ss_pred             CChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHH
Confidence            00       1113334444333332222222222222222222        44455555555555555555555555555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 012833          170 QKSKIRKTERALKVAEEEMMRAKFEAT  196 (455)
Q Consensus       170 qekkI~elE~~Lq~lEeeL~kaq~E~~  196 (455)
                      .+..|..++..+..-+.-+.-++..+.
T Consensus       277 ~e~~i~~L~~ai~~k~~~lkvaqTRL~  303 (384)
T PF03148_consen  277 MEKNIEDLEKAIRDKEGPLKVAQTRLE  303 (384)
T ss_pred             HHHHHHHHHHHHHHHHhhHHHHHHHHh
Confidence            555555555555555555555555444

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

>KOG4603 consensus TBP-1 interacting protein [Signal transduction mechanisms]

Probab=81.92  E-value=11  Score=35.65  Aligned_cols=23  Identities=13%  Similarity=0.316  Sum_probs=9.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q 012833          114 AHARADELEKQIDNLKKESEKQQ  136 (455)
Q Consensus       114 Ae~~i~eLe~qIe~LkkeLE~~~  136 (455)
                      ..+.|.+|.+++....+.|..++
T Consensus       121 mQe~i~~L~kev~~~~erl~~~k  143 (201)
T KOG4603|consen  121 MQEEIQELKKEVAGYRERLKNIK  143 (201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344444444444444444443

>PF09738 DUF2051: Double stranded RNA binding protein (DUF2051); InterPro: IPR019139 This entry represents transcriptional repressors which preferentially bind to the GC-rich consensus sequence (5'-AGCCCCCGGCG-3') and may regulate expression of TNF, EGFR and PDGFA

Probab=81.74  E-value=49  Score=34.09  Aligned_cols=9  Identities=44%  Similarity=0.530  Sum_probs=4.5

Q ss_pred             hhccccCCh
Q 012833          204 EVHSAWLPP  212 (455)
Q Consensus       204 ~~gGawl~P  212 (455)
                      +.||--|.|
T Consensus       171 ~khGlVlv~  179 (302)
T PF09738_consen  171 EKHGLVLVP  179 (302)
T ss_pred             HHCCeeeCC
Confidence            445554444

They may control smooth muscle cell proliferation following artery injury through PDGFA repression and may also bind double-stranded RNA. They interact with the leucine-rich repeat domain of human flightless-I (FliI) protein.

>PRK00286 xseA exodeoxyribonuclease VII large subunit; Reviewed

Probab=81.74  E-value=37  Score=36.20  Aligned_cols=20  Identities=10%  Similarity=0.273  Sum_probs=11.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q 012833           44 KIELDQLKSKIRSLESHIDE   63 (455)
Q Consensus        44 ~~eL~~lr~kI~~Leski~e   63 (455)
                      .+.+.+...+++.+...+..
T Consensus       259 ~~~~~e~~q~Ld~l~~rL~~  278 (438)
T PRK00286        259 VPDRAELLQRLQQLQQRLAR  278 (438)
T ss_pred             CccHHHHHHHHHHHHHHHHH
Confidence            34556666666666655543

>PF06705 SF-assemblin: SF-assemblin/beta giardin

Probab=81.57  E-value=57  Score=32.11  Aligned_cols=9  Identities=44%  Similarity=0.774  Sum_probs=3.5

Q ss_pred             HHHHHHHHH
Q 012833           50 LKSKIRSLE   58 (455)
Q Consensus        50 lr~kI~~Le   58 (455)
                      ++..|..|+
T Consensus        39 i~e~i~~Le   47 (247)
T PF06705_consen   39 IKEQIQKLE   47 (247)
T ss_pred             HHHHHHHHH
Confidence            333333333

>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=81.53  E-value=35  Score=29.69  Aligned_cols=67  Identities=19%  Similarity=0.248  Sum_probs=40.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          116 ARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALK  182 (455)
Q Consensus       116 ~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq  182 (455)
                      .+...|+.|...|++-+-+-+..-..|...+..-+..+..++++++.|.=.++.+.+++..++.++.
T Consensus         5 ~eYsKLraQ~~vLKKaVieEQ~k~~~L~e~Lk~ke~~LRk~eqE~dSL~FrN~QL~kRV~~LQ~El~   71 (102)
T PF10205_consen    5 QEYSKLRAQNQVLKKAVIEEQAKNAELKEQLKEKEQALRKLEQENDSLTFRNQQLTKRVEVLQEELE   71 (102)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4667778888888777766665555666655555555555555555555555544444444444433

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.

>PF05529 Bap31: B-cell receptor-associated protein 31-like ; InterPro: IPR008417 Bap31 is a polytopic integral protein of the endoplasmic reticulum membrane and a substrate of caspase-8

Probab=81.33  E-value=12  Score=35.28  Aligned_cols=14  Identities=57%  Similarity=0.793  Sum_probs=5.5

Q ss_pred             HHHHHHHHHHHHHH
Q 012833          121 LEKQIDNLKKESEK  134 (455)
Q Consensus       121 Le~qIe~LkkeLE~  134 (455)
                      ++++++++++++++
T Consensus       159 ~~~ei~~lk~el~~  172 (192)
T PF05529_consen  159 LSEEIEKLKKELEK  172 (192)
T ss_pred             hHHHHHHHHHHHHH
Confidence            33334444443333

Bap31 is cleaved within its cytosolic domain, generating pro-apoptotic p20 Bap31 [].; GO: 0006886 intracellular protein transport, 0005783 endoplasmic reticulum, 0016021 integral to membrane

>KOG0982 consensus Centrosomal protein Nuf [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]

Probab=81.29  E-value=84  Score=33.92  Aligned_cols=20  Identities=35%  Similarity=0.238  Sum_probs=9.2

Q ss_pred             cHHHHHHHHHHHHHHHHHHH
Q 012833           43 LKIELDQLKSKIRSLESHID   62 (455)
Q Consensus        43 l~~eL~~lr~kI~~Leski~   62 (455)
                      ++.+--+|......|+.+..
T Consensus       248 lkqEnlqLvhR~h~LEEq~r  267 (502)
T KOG0982|consen  248 LKQENLQLVHRYHMLEEQRR  267 (502)
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            44444445444444444433

>PRK04325 hypothetical protein; Provisional

Probab=81.28  E-value=12  Score=30.39  Aligned_cols=50  Identities=14%  Similarity=0.254  Sum_probs=29.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 012833          147 IEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEAT  196 (455)
Q Consensus       147 ~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq~E~~  196 (455)
                      +.++.++.+++.++.-++..++++...+-++...|..++.++..+..+..
T Consensus         5 ~~~e~Ri~~LE~klAfQE~tIe~LN~vv~~Qq~~I~~L~~ql~~L~~rl~   54 (74)
T PRK04325          5 QEMEDRITELEIQLAFQEDLIDGLNATVARQQQTLDLLQAQLRLLYQQMR   54 (74)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34555666666666666666666666666666666555555555544433

>PF02403 Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal domain; InterPro: IPR015866 The aminoacyl-tRNA synthetases (6

Probab=81.18  E-value=18  Score=30.77  Aligned_cols=15  Identities=40%  Similarity=0.496  Sum_probs=5.5

Q ss_pred             HHHHHHHHHHHHHHH
Q 012833          169 EQKSKIRKTERALKV  183 (455)
Q Consensus       169 EqekkI~elE~~Lq~  183 (455)
                      +...++..++.++..
T Consensus        78 ~lk~~i~~le~~~~~   92 (108)
T PF02403_consen   78 ELKEEIKELEEQLKE   92 (108)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH
Confidence            333333333333333

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 ....

>PRK14011 prefoldin subunit alpha; Provisional

Probab=80.97  E-value=44  Score=30.72  Aligned_cols=33  Identities=9%  Similarity=0.037  Sum_probs=12.7

Q ss_pred             HHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHH
Q 012833           57 LESHIDEKTQELKGKDEVVAQKEKAIQDKSERI   89 (455)
Q Consensus        57 Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I   89 (455)
                      +...++.+.++++.+...|..++..+.+...-|
T Consensus         8 ~~~~l~~~~~qie~L~~si~~L~~a~~e~~~~i   40 (144)
T PRK14011          8 QFMALEVYNQQVQKLQEELSSIDMMKMELLKSI   40 (144)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333333333444443333333

>PF09789 DUF2353: Uncharacterized coiled-coil protein (DUF2353); InterPro: IPR019179 Members of this family have been annotated as being coiled-coil domain-containing protein 149, however they currently have no known function

Probab=80.44  E-value=77  Score=32.93  Aligned_cols=28  Identities=11%  Similarity=0.397  Sum_probs=12.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          113 KAHARADELEKQIDNLKKESEKQQKEKE  140 (455)
Q Consensus       113 ~Ae~~i~eLe~qIe~LkkeLE~~~~e~e  140 (455)
                      ++.++...|..++..|++.+....-+..
T Consensus        76 ~sre~Nk~L~~Ev~~Lrqkl~E~qGD~K  103 (319)
T PF09789_consen   76 ESREQNKKLKEEVEELRQKLNEAQGDIK  103 (319)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhchHH
Confidence            3444444444444444444444444433

>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=80.42  E-value=55  Score=31.23  Aligned_cols=30  Identities=30%  Similarity=0.552  Sum_probs=11.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          119 DELEKQIDNLKKESEKQQKEKEALEARAIE  148 (455)
Q Consensus       119 ~eLe~qIe~LkkeLE~~~~e~eeLEae~~e  148 (455)
                      .+++.+|..|+.+++.+......+..+...
T Consensus       123 ~~l~~~i~~L~~e~~~L~~~~~~l~~~~e~  152 (189)
T PF10211_consen  123 QELEEEIEELEEEKEELEKQVQELKNKCEQ  152 (189)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333444444443333333333333333333

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 [].

>KOG4302 consensus Microtubule-associated protein essential for anaphase spindle elongation [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]

Probab=80.31  E-value=1.1e+02  Score=34.78  Aligned_cols=13  Identities=23%  Similarity=0.452  Sum_probs=8.1

Q ss_pred             hHHHHHHhhhccc
Q 012833          269 AVKEQWVVFTTNV  281 (455)
Q Consensus       269 ~~~~~w~~~~~~~  281 (455)
                      -+.+=||.+.++.
T Consensus       255 ~~~~LWn~l~ts~  267 (660)
T KOG4302|consen  255 KLLELWNLLDTSD  267 (660)
T ss_pred             HHHHHHHhccCCH
Confidence            3455688766665

>KOG2751 consensus Beclin-like protein [Signal transduction mechanisms]

Probab=80.27  E-value=44  Score=35.97  Aligned_cols=41  Identities=24%  Similarity=0.358  Sum_probs=16.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          133 EKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSK  173 (455)
Q Consensus       133 E~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekk  173 (455)
                      +.+-.++..++.+-.++...+.+++.+-+.+..+...+++.
T Consensus       193 ~~L~q~lk~le~~~~~l~~~l~e~~~~~~~~~e~~~~~~~e  233 (447)
T KOG2751|consen  193 ERLLQQLEELEKEEAELDHQLKELEFKAERLNEEEDQYWRE  233 (447)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333334344444444444444444433333

>PF02050 FliJ: Flagellar FliJ protein; InterPro: IPR012823 Many flagellar proteins are exported by a flagellum-specific export pathway

Probab=80.24  E-value=33  Score=28.53  Aligned_cols=9  Identities=0%  Similarity=0.272  Sum_probs=3.2

Q ss_pred             HHHHHHHHH
Q 012833          151 KKISDLSAK  159 (455)
Q Consensus       151 kkl~Elesk  159 (455)
                      ..+.+....
T Consensus        80 ~~l~~a~~~   88 (123)
T PF02050_consen   80 EELQEARRE   88 (123)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            333333333

Attempts have been made to characterise the apparatus responsible for this process, by designing assays to screen for mutants with export defects []. Experiments involving filament removal from temperature-sensitive flagellar mutants of Salmonella typhimurium have shown that, while most mutants were able to regrow filaments, flhA, fliH, fliI and fliN mutants showed no or greatly reduced regrowth. This suggests that the corresponding gene products are involved in the process of flagellum-specific export. The sequences of fliH, fliI and the adjacent gene, fliJ, have been deduced. FliJ was shown to encode a protein of molecular mass 17,302 Da []. It is a membrane-associated protein that affects chemotactic events, mutations in FliJ result in failure to respond to chemotactic stimuli.; GO: 0003774 motor activity, 0001539 ciliary or flagellar motility, 0006935 chemotaxis, 0009288 bacterial-type flagellum, 0016020 membrane, 0044461 bacterial-type flagellum part; PDB: 3AJW_A.

>KOG1853 consensus LIS1-interacting protein NUDE [Cytoskeleton]

Probab=80.11  E-value=70  Score=32.28  Aligned_cols=10  Identities=40%  Similarity=0.178  Sum_probs=3.9

Q ss_pred             HHHHHHHhhh
Q 012833          189 MRAKFEATSR  198 (455)
Q Consensus       189 ~kaq~E~~~~  198 (455)
                      .+++.|+..+
T Consensus       167 qRLkdEardl  176 (333)
T KOG1853|consen  167 QRLKDEARDL  176 (333)
T ss_pred             HHHHHHHHHH
Confidence            3344444333

---

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	455
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	9e-15
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	6e-11
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	9e-11
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	2e-09
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	5e-07
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	4e-04
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	9e-13
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	3e-12
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	2e-11
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	2e-11
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	2e-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,	5e-10
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	1e-08
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	6e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-08
3lvg_D	190	LCB, clathrin light chain B; SELF assembly, coated	2e-07
1w1w_A	430	Structural maintenance of chromosome 1; cohesin, c	3e-05
2zuo_A	861	MVP, major vault protein; repeat domains, protein-	4e-05
2xs1_A	704	Programmed cell death 6-interacting protein; prote	5e-05
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	7e-05
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	9e-05
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	1e-04
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	2e-04
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	4e-04
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	8e-04
2v71_A	189	Nuclear distribution protein NUDE-like 1; developm	7e-05
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	1e-04
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	2e-04
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	1e-04

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus} Length = 1080

 Score = 75.9 bits (187), Expect = 9e-15
 Identities = 35/160 (21%), Positives = 69/160 (43%), Gaps = 8/160 (5%)

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  LQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKEL 202
               +   +K ++ +          E M  K    ++  EL
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 = 63.6 bits (155), Expect = 6e-11
 Identities = 31/141 (21%), Positives = 63/141 (44%), Gaps = 12/141 (8%)

Query: 43   LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQK- 101
               E   L  K+ +LE     +T++L+   E +   E+  ++ + R++SLQ+E++ L+K 
Sbjct: 940  QNKEYKSLLEKMNNLEITYSTETEKLRSDVERLRMSEEEAKNATNRVLSLQEEIAKLRKE 999

Query: 102  -----KETLNAAEQVDKAHARAD----ELEKQIDNLKKESEKQQKEKEALEARAIEAEKK 152
                  E     E  DK     +    EL++Q   LK E E+  +          E  +K
Sbjct: 1000 LHQTQTEKKTIEEWADKYKHETEQLVSELKEQNTLLKTEKEELNRRIHDQAKEITETMEK 1059

Query: 153  ISDLSAKLEKLQKINDEQKSK 173
               L  + ++L+   ++++ +
Sbjct: 1060 --KLVEETKQLELDLNDERLR 1078

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus} Length = 1080

 Score = 63.2 bits (154), Expect = 9e-11
 Identities = 28/162 (17%), Positives = 58/162 (35%), Gaps = 7/162 (4%)

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 LQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTE 204
           L+     +  K+R     L+++EEE       AT+R   L E
Sbjct: 954 LEITYSTETEKLRSDVERLRMSEEE----AKNATNRVLSLQE 991

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus} Length = 1080

 Score = 59.4 bits (144), Expect = 2e-09
 Identities = 29/171 (16%), Positives = 62/171 (36%), Gaps = 12/171 (7%)

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  KISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKEL 202
              S  + KL    +     + + +     +   +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 = 51.3 bits (123), Expect = 5e-07
 Identities = 22/168 (13%), Positives = 59/168 (35%), Gaps = 14/168 (8%)

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  LSAKLEKLQKINDEQKSKIRKTERAL--KVAEEEMMRAKFEATSRSKE 201
            L  +L + Q      +    K +      V+E +      +       
Sbjct: 996  LRKELHQTQTEKKTIEEWADKYKHETEQLVSELKEQNTLLKTEKEELN 1043

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus} Length = 1080

 Score = 42.0 bits (99), Expect = 4e-04
 Identities = 21/132 (15%), Positives = 51/132 (38%), Gaps = 6/132 (4%)

Query: 74  VVAQKEKAIQDKSERIVSLQKELSSLQKKETL--NAAEQVDKAHARADELEKQIDNLKKE 131
           VV ++ + ++D +  + +L +      K + +       + + H R            K 
Sbjct: 830 VVRKRYQCMRDATIALQALLRGYLVRNKYQMMLREHKSIIIQKHVRGWLARVHYHRTLKA 889

Query: 132 SEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRA 191
               Q     + A+     KK+   +  +E+ +K++   ++KI + +R  K+ E+     
Sbjct: 890 IVYLQCCYRRMMAK--RELKKLKIEARSVERYKKLHIGLENKIMQLQR--KIDEQNKEYK 945

Query: 192 KFEATSRSKELT 203
                  + E+T
Sbjct: 946 SLLEKMNNLEIT 957

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 69.5 bits (170), Expect = 9e-13
 Identities = 29/162 (17%), Positives = 67/162 (41%), Gaps = 1/162 (0%)

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  LQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTE 204
            L+  + +   +I + +  +   + ++ + + 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 = 67.9 bits (166), Expect = 3e-12
 Identities = 29/162 (17%), Positives = 74/162 (45%), Gaps = 1/162 (0%)

Query: 43   LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKK 102
            L  +  +L+  +  +E+ I+E+ +  +       + ++ + D  E++   +     LQ  
Sbjct: 918  LAAKKQELEEILHEMEARIEEEEERSQQLQAEKKKMQQQMLDLEEQLEEEEAARQKLQL- 976

Query: 103  ETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEK 162
            E + A  ++ K       +E Q + L KE +  ++    L     E E+K  +L+    K
Sbjct: 977  EKVTADGKIKKMEDDILIMEDQNNKLTKERKLLEERVSDLTTNLAEEEEKAKNLTKLKNK 1036

Query: 163  LQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTE 204
             + +  E + +++K E++ +  E+   + + E++   +++ E
Sbjct: 1037 HESMISELEVRLKKEEKSRQELEKIKRKLEGESSDLHEQIAE 1078

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 65.6 bits (160), Expect = 2e-11
 Identities = 36/172 (20%), Positives = 78/172 (45%), Gaps = 12/172 (6%)

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  SAKLEKLQKINDEQKSKIRKTERALKVAEEEM------MRAKFEATSRSKEL 202
             + +  LQ+  + +K+   K E+  +   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 = 65.2 bits (159), Expect = 2e-11
 Identities = 30/165 (18%), Positives = 62/165 (37%), Gaps = 11/165 (6%)

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  LQKINDEQKSKIRKTERALKVAEE---EMMRAKFEATSRSKELTE 204
            L K     + ++      L   EE    + + K +  S   EL  
Sbjct: 1002 LTKERKLLEERVSDLTTNLAEEEEKAKNLTKLKNKHESMISELEV 1046

>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 = 31/162 (19%), Positives = 72/162 (44%), Gaps = 6/162 (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  INDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTEVHS 207
                   KI+K E  + + E++      + T   K L E  S
Sbjct: 977  EKVTADGKIKKMEDDILIMEDQNN----KLTKERKLLEERVS 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 = 63.3 bits (154), Expect = 9e-11
 Identities = 25/146 (17%), Positives = 61/146 (41%), Gaps = 8/146 (5%)

Query: 43   LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKK 102
            L++ L + +   + LE    +   E     E +A+ +  I +   ++   ++EL +   +
Sbjct: 1044 LEVRLKKEEKSRQELEKIKRKLEGESSDLHEQIAELQAQIAELKAQLAKKEEELQAALAR 1103

Query: 103  ETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEK 162
                    ++   ++ +   K+I  L+      Q++ E+ +A   +AEK+  DLS +LE 
Sbjct: 1104 --------LEDETSQKNNALKKIRELESHISDLQEDLESEKAARNKAEKQKRDLSEELEA 1155

Query: 163  LQKINDEQKSKIRKTERALKVAEEEM 188
            L+   ++        +       ++ 
Sbjct: 1156 LKTELEDTLDTTATQQELRGSDYKDD 1181

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 62.9 bits (153), Expect = 1e-10
 Identities = 29/168 (17%), Positives = 72/168 (42%), Gaps = 6/168 (3%)

Query: 43   LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQK- 101
               ++ +++  I  +E   ++ T+E K  +E V+     + ++ E+  +L K  +  +  
Sbjct: 981  ADGKIKKMEDDILIMEDQNNKLTKERKLLEERVSDLTTNLAEEEEKAKNLTKLKNKHESM 1040

Query: 102  ----KETLNAAEQ-VDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDL 156
                +  L   E+   +      +LE +  +L ++  + Q +   L+A+  + E+++   
Sbjct: 1041 ISELEVRLKKEEKSRQELEKIKRKLEGESSDLHEQIAELQAQIAELKAQLAKKEEELQAA 1100

Query: 157  SAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTE 204
             A+LE      +    KIR+ E  +   +E++   K       K+  +
Sbjct: 1101 LARLEDETSQKNNALKKIRELESHISDLQEDLESEKAARNKAEKQKRD 1148

>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 = 22/168 (13%), Positives = 61/168 (36%), Gaps = 6/168 (3%)

Query: 43   LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQ-- 100
            L   L + + K ++L    ++    +   +  + ++EK+ Q+  +    L+ E S L   
Sbjct: 1016 LTTNLAEEEEKAKNLTKLKNKHESMISELEVRLKKEEKSRQELEKIKRKLEGESSDLHEQ 1075

Query: 101  ----KKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDL 156
                + +      Q+ K          ++++   +     K+   LE+   + ++ +   
Sbjct: 1076 IAELQAQIAELKAQLAKKEEELQAALARLEDETSQKNNALKKIRELESHISDLQEDLESE 1135

Query: 157  SAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTE 204
             A   K +K   +   ++   +  L+   +     +    S  K+  +
Sbjct: 1136 KAARNKAEKQKRDLSEELEALKTELEDTLDTTATQQELRGSDYKDDDD 1183

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 60.6 bits (147), Expect = 5e-10
 Identities = 31/168 (18%), Positives = 72/168 (42%), Gaps = 13/168 (7%)

Query: 43   LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKK 102
            L+ +L++ ++  + L+        ++K  ++ +   E      ++    L++ +S L   
Sbjct: 960  LEEQLEEEEAARQKLQLEKVTADGKIKKMEDDILIMEDQNNKLTKERKLLEERVSDLTTN 1019

Query: 103  ------ETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDL 156
                  +  N  +  +K  +   ELE ++   +K  ++ +K K  L       E + SDL
Sbjct: 1020 LAEEEEKAKNLTKLKNKHESMISELEVRLKKEEKSRQELEKIKRKL-------EGESSDL 1072

Query: 157  SAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTE 204
              ++ +LQ    E K+++ K E  L+ A   +     +  +  K++ E
Sbjct: 1073 HEQIAELQAQIAELKAQLAKKEEELQAALARLEDETSQKNNALKKIRE 1120

>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 = 54.7 bits (131), Expect = 1e-08
 Identities = 36/160 (22%), Positives = 80/160 (50%), Gaps = 1/160 (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 KLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKE 201
              K   E +  I K +  L    E  + + +E   R  +
Sbjct: 150 NEVKNIKETQQIIFKKKEDLVEKTEPKIYSFYERIRRWAK 189

>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 = 52.8 bits (126), Expect = 6e-08
 Identities = 23/154 (14%), Positives = 72/154 (46%), Gaps = 3/154 (1%)

Query: 53  KIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVD 112
           +I  L+  ID     ++ K + + +     + K++ I++L++E  +L K +     + + 
Sbjct: 12  EISHLDKEIDSLEPLIREKRKDLDKALNDKEAKNKAILNLEEEKLAL-KLQVSKNEQTLQ 70

Query: 113 KAHARADELEKQIDNLK--KESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQ 170
             +A+   ++K++  +K  +E      E++  + R+ +A ++I +L  ++++  +  ++ 
Sbjct: 71  DTNAKIASIQKKMSEIKSERELRSLNIEEDIAKERSNQANREIENLQNEIKRKSEKQEDL 130

Query: 171 KSKIRKTERALKVAEEEMMRAKFEATSRSKELTE 204
           K ++ + E+     E  +           + + +
Sbjct: 131 KKEMLELEKLALELESLVENEVKNIKETQQIIFK 164

>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 = 56.4 bits (135), Expect = 1e-08
 Identities = 62/446 (13%), Positives = 131/446 (29%), Gaps = 107/446 (23%)

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-------AEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMR 190
           +    E            AE  I D  A  +  + +N ++ + I   E +L V E    R
Sbjct: 316 QDLPREVLTTNPRRLSIIAES-IRDGLATWDNWKHVNCDKLTTII--ESSLNVLEPAEYR 372

Query: 191 AKFEATSRSKELTEVHSAWLPPWLAVHLLQCQSLIETHWNAHGKPAMDVAIQKALEKKAQ 250
             F+  S         SA +P            L+   W      +  + +   L K + 
Sbjct: 373 KMFDRLSVFPP-----SAHIPT----------ILLSLIWFD-VIKSDVMVVVNKLHKYSL 416

Query: 251 AGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRV 310
             K  +    +I + ++    +           +   L    ++     KT  +  +I  
Sbjct: 417 VEKQPKESTISIPSIYLELKVKL---------ENEYALHRSIVDHYNIPKTFDSDDLIPP 467

Query: 311 QEVVDPYF--------------QEAKKFSKPYID----QVATVAKPHVDNVRVALKPYTK 352
               D YF              +    F   ++D    +          N   ++   T 
Sbjct: 468 YL--DQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILN-TL 524

Query: 353 KVVRAYGKFLKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAQSKLLVIQLLQASA 412
           + ++ Y  ++      + ++  ++ + L K E  + + +K  +           LL+   
Sbjct: 525 QQLKFYKPYICDNDPKYERLVNAILDFLPKIE-ENLICSKYTD-----------LLR--- 569

Query: 413 LLVLPVIILFRIGSAIFCKKARKPVR 438
                 I L     AIF +  ++  R
Sbjct: 570 ------IALMAEDEAIFEEAHKQVQR 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 = 49.8 bits (118), Expect = 2e-07
 Identities = 16/76 (21%), Positives = 40/76 (52%), Gaps = 4/76 (5%)

Query: 116 ARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEK-LQKINDEQKSKI 174
           A+AD L ++ ++++K  E+Q+K    L+     ++    +   K +K L++ N  Q  ++
Sbjct: 75  AQADRLTQEPESIRKWREEQRKR---LQELDAASKVMEQEWREKAKKDLEEWNQRQSEQV 131

Query: 175 RKTERALKVAEEEMMR 190
            K +   ++A++   +
Sbjct: 132 EKNKINNRIADKAFYQ 147

>1w1w_A Structural maintenance of chromosome 1; cohesin, chromosome segregation, cell adhesion, kleisin, MIT cell cycle; HET: ATG; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.12 Length = 430

 Score = 45.1 bits (107), Expect = 3e-05
 Identities = 16/156 (10%), Positives = 57/156 (36%), Gaps = 8/156 (5%)

Query: 46  ELDQLKSKIRSLESHIDEKTQELKGKDEVVAQK--EKAIQDKSERIVSLQKELSSLQKKE 103
           ++D      +     ++ +   +K K+ +V Q   E+        +  + +E+S   + +
Sbjct: 120 KIDGKTVSYKDYSIFLENENILIKAKNFLVFQGDVEQIAAQSPVELSRMFEEVSGSIQYK 179

Query: 104 TLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKL 163
                E++ +   +  +   +    ++    + K  ++     +    + S       + 
Sbjct: 180 KEY--EELKEKIEKLSKSATESIKNRRRIHGELKTYKSPGLEVLFQGPRGSRYDEAEGRF 237

Query: 164 QKINDEQKSKIRKTERALKVAEEEM---MRAKFEAT 196
           + I + +  +++  E+ +     ++    +  FE T
Sbjct: 238 EVI-NNETEQLKAEEKKILNQFLKIKKKRKELFEKT 272

>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 = 45.2 bits (106), Expect = 4e-05
 Identities = 30/162 (18%), Positives = 64/162 (39%), Gaps = 7/162 (4%)

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 SKIRKT-----ERALKVAEEEMMRAKFEATSRSKELTEVHSA 208
            +++K        A    E E+ +A+  A   +K+  E+  A
Sbjct: 760 ERVKKVREMELIYARAQLELEVSKAQQLANVEAKKFKEMTEA 801

>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 = 44.9 bits (105), Expect = 5e-05
 Identities = 23/160 (14%), Positives = 54/160 (33%), Gaps = 7/160 (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 EARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALK 182
                 A     +L A L++  K  +E    + + +    
Sbjct: 659 LKNLATAYDNFVELVANLKEGTKFYNELTEILVRFQNKCS 698

>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1 PDB: 2tma_A 2w49_A 2w4u_A Length = 284

 Score = 43.5 bits (102), Expect = 7e-05
 Identities = 28/162 (17%), Positives = 75/162 (46%), Gaps = 1/162 (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 LQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTE 204
           + +     +S + + E   +++E +    + E  + +  L  
Sbjct: 165 VARKLVIIESDLERAEERAELSEGKCAELEEEIKTVTNNLKS 206

>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1 PDB: 2tma_A 2w49_A 2w4u_A Length = 284

 Score = 43.1 bits (101), Expect = 9e-05
 Identities = 26/162 (16%), Positives = 77/162 (47%), Gaps = 1/162 (0%)

Query: 43  LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKK 102
            +   D+ +  ++ +ES   +  ++++ ++  + + +   +D   +   + ++L  ++  
Sbjct: 116 AEKAADESERGMKVIESRAQKDEEKMEIQEIQLKEAKHIAEDADRKYEEVARKLVIIESD 175

Query: 103 ETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEK 162
               A E+ + +  +  ELE++I  +    +  + + E    +  + E++I  LS KL++
Sbjct: 176 LE-RAEERAELSEGKCAELEEEIKTVTNNLKSLEAQAEKYSQKEDKYEEEIKVLSDKLKE 234

Query: 163 LQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTE 204
            +   +  +  + K E+++   E+E+   K +  + S+EL  
Sbjct: 235 AETRAEFAERSVTKLEKSIDDLEDELYAQKLKYKAISEELDH 276

>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 = 28/160 (17%), Positives = 66/160 (41%), Gaps = 1/160 (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 NDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTEVH 206
            DE +  ++  E   +  EE+M   + +         +  
Sbjct: 120 ADESERGMKVIESRAQKDEEKMEIQEIQLKEAKHIAEDAD 159

>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1 PDB: 2tma_A 2w49_A 2w4u_A Length = 284

 Score = 42.3 bits (99), Expect = 2e-04
 Identities = 29/165 (17%), Positives = 74/165 (44%), Gaps = 1/165 (0%)

Query: 43  LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKK 102
           +K ++  LK    +     DE   + K  ++   Q E  +    +++ + + EL    + 
Sbjct: 4   IKKKMQMLKLDKENALDRADEAEADKKAAEDRSKQLEDELVSLQKKLKATEDELDKYSEA 63

Query: 103 ETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEK 162
              +A E+++ A  +A + E  + +L +  +  ++E +  + R   A +K+ +     ++
Sbjct: 64  LK-DAQEKLELAEKKATDAEADVASLNRRIQLFEEELDRAQERLATALQKLEEAEKAADE 122

Query: 163 LQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTEVHS 207
            ++     +S+ +K E  +++ E ++  AK  A    ++  EV  
Sbjct: 123 SERGMKVIESRAQKDEEKMEIQEIQLKEAKHIAEDADRKYEEVAR 167

>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 = 27/162 (16%), Positives = 65/162 (40%), Gaps = 1/162 (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 LQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTE 204
             +  D+ + +I+     LK AE     A+   T   K + +
Sbjct: 214 YSQKEDKYEEEIKVLSDKLKEAETRAEFAERSVTKLEKSIDD 255

>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1 PDB: 2tma_A 2w49_A 2w4u_A Length = 284

 Score = 40.4 bits (94), Expect = 8e-04
 Identities = 26/161 (16%), Positives = 71/161 (44%), Gaps = 6/161 (3%)

Query: 43  LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKK 102
            +  +  ++S+ +  E  ++ +  +LK    +    ++  ++ + ++V ++ +L   +++
Sbjct: 123 SERGMKVIESRAQKDEEKMEIQEIQLKEAKHIAEDADRKYEEVARKLVIIESDLERAEER 182

Query: 103 ------ETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDL 156
                 +     E++         LE Q +   ++ +K ++E + L  +  EAE +    
Sbjct: 183 AELSEGKCAELEEEIKTVTNNLKSLEAQAEKYSQKEDKYEEEIKVLSDKLKEAETRAEFA 242

Query: 157 SAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATS 197
              + KL+K  D+ + ++   +   K   EE+  A  + TS
Sbjct: 243 ERSVTKLEKSIDDLEDELYAQKLKYKAISEELDHALNDMTS 283

>2v71_A Nuclear distribution protein NUDE-like 1; developmental protein, nuclear protein, neurogenesis, cytosk LIS1 binding, differentiation; 2.24A {Rattus norvegicus} Length = 189

 Score = 42.8 bits (100), Expect = 7e-05
 Identities = 21/143 (14%), Positives = 48/143 (33%)

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 INDEQKSKIRKTERALKVAEEEM 188
             ++ + ++ +        E E+
Sbjct: 131 SLEDFEQRLNQAIERNAFLESEL 153

>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 = 43.7 bits (103), Expect = 1e-04
 Identities = 20/137 (14%), Positives = 45/137 (32%), Gaps = 16/137 (11%)

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  IEAEKKISDLSAKLEKL 163
             + + K+    A L+ L
Sbjct: 2066 SKVKNKVDRSIALLDNL 2082

>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 = 43.0 bits (101), Expect = 2e-04
 Identities = 27/169 (15%), Positives = 67/169 (39%), Gaps = 15/169 (8%)

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  AKLEKLQKINDEQKSKIRKTERALKVAEE--EMMRAKFEATSRSKELTE 204
             ++E+L+   +E K K  +    +   E+     + ++    R  E  +
Sbjct: 2014 EEVEQLENAANELKLKQDEIVATITALEKSIATYKEEYATLIRETEQIK 2062

>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 = 43.3 bits (103), Expect = 1e-04
 Identities = 34/175 (19%), Positives = 74/175 (42%), Gaps = 40/175 (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  SLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLS 157
            L ++                 +L  + +  ++   K ++ +  L+    E E       
Sbjct: 441 KLTEE---------------IAKLRAEWEREREILRKLREAQHRLDEVRREIELAERQ-- 483

Query: 158 AKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKF---EATSRSKELTEVHSAW 209
             L +  ++   +  ++ K E  ++   E++  A+F   E T   +++ E+ S W
Sbjct: 484 YDLNRAAEL---RYGELPKLEAEVEALSEKLRGARFVRLEVT--EEDIAEIVSRW 533

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	455
2a01_A	243	Apolipoprotein A-I; four-helix bundle, lipid trans	99.24
3s84_A	273	Apolipoprotein A-IV; four helix bundle, transport	99.08
3s84_A	273	Apolipoprotein A-IV; four helix bundle, transport	98.89
2a01_A	243	Apolipoprotein A-I; four-helix bundle, lipid trans	98.86
2lem_A	216	Apolipoprotein A-I; lipid transport; NMR {Mus musc	98.86
1nfn_A	191	Apolipoprotein E3; lipid transport, heparin-bindin	98.79
1nfn_A	191	Apolipoprotein E3; lipid transport, heparin-bindin	98.73
3r2p_A	185	Apolipoprotein A-I; amphipathic alpha-helix, major	98.67
3r2p_A	185	Apolipoprotein A-I; amphipathic alpha-helix, major	98.65
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	98.6
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	98.58
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	98.56
2l7b_A	307	Apolipoprotein E, APO-E; lipid transport, atherosc	98.49
1gs9_A	165	Apolipoprotein E, APOE4; lipid transport, heparin-	98.44
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	98.41
2lem_A	216	Apolipoprotein A-I; lipid transport; NMR {Mus musc	98.41
2l7b_A	307	Apolipoprotein E, APO-E; lipid transport, atherosc	98.39
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	97.96
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	97.94
1gs9_A	165	Apolipoprotein E, APOE4; lipid transport, heparin-	97.88
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	97.86
2v71_A	189	Nuclear distribution protein NUDE-like 1; developm	97.71
2efr_A	155	General control protein GCN4 and tropomyosin 1 Al;	97.68
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	97.58
2efr_A	155	General control protein GCN4 and tropomyosin 1 Al;	97.44
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	97.42
3o0z_A	168	RHO-associated protein kinase 1; coiled-coil, tran	97.38
2fxo_A	129	Myosin heavy chain, cardiac muscle beta isoform; c	97.32
3o0z_A	168	RHO-associated protein kinase 1; coiled-coil, tran	97.29
2v71_A	189	Nuclear distribution protein NUDE-like 1; developm	97.28
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	97.25
3u1c_A	101	Tropomyosin alpha-1 chain; anti-parallel coiled co	97.2
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	97.19
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	97.08
2fxo_A	129	Myosin heavy chain, cardiac muscle beta isoform; c	97.01
3u59_A	101	Tropomyosin beta chain; muscle contraction, actin,	97.01
4gkw_A	167	Spindle assembly abnormal protein 6; double helix,	96.16
3tnu_B	129	Keratin, type II cytoskeletal 5; coiled-coil, stru	96.01
2eqb_B	97	RAB guanine nucleotide exchange factor SEC2; coile	95.91
3tnu_A	131	Keratin, type I cytoskeletal 14; coiled-coil, stru	95.9
3tnu_B	129	Keratin, type II cytoskeletal 5; coiled-coil, stru	95.81
3tnu_A	131	Keratin, type I cytoskeletal 14; coiled-coil, stru	95.63
3ghg_A	562	Fibrinogen alpha chain; triple-stranded coiled coi	95.5
2ocy_A	154	RAB guanine nucleotide exchange factor SEC2; RAB,	95.5
1deq_A	390	Fibrinogen (alpha chain); coiled-coil, blood clott	95.38
3hnw_A	138	Uncharacterized protein; coiled-coil, structural g	95.11
1ic2_A	81	Tropomyosin alpha chain, skeletal muscle; alpha-he	95.05
1ic2_A	81	Tropomyosin alpha chain, skeletal muscle; alpha-he	94.91
2b9c_A	147	Striated-muscle alpha tropomyosin; alpha-helix, co	94.8
3ghg_A	562	Fibrinogen alpha chain; triple-stranded coiled coi	94.79
2v4h_A	110	NF-kappa-B essential modulator; transcription, met	94.64
1l8d_A	112	DNA double-strand break repair RAD50 ATPase; zinc	94.63
2b9c_A	147	Striated-muscle alpha tropomyosin; alpha-helix, co	94.62
2xzr_A	114	Immunoglobulin-binding protein EIBD; cell adhesion	94.48
2ocy_A	154	RAB guanine nucleotide exchange factor SEC2; RAB,	94.45
1deq_A	390	Fibrinogen (alpha chain); coiled-coil, blood clott	94.25
3nmd_A	72	CGMP dependent protein kinase; leucine zipper, coi	94.14
2e7s_A	135	RAB guanine nucleotide exchange factor SEC2; coile	94.1
2oto_A	155	M protein; helical coiled coil, fibrinogen-binding	93.73
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	93.47
2eqb_B	97	RAB guanine nucleotide exchange factor SEC2; coile	93.39
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	93.37
2zqm_A	117	Prefoldin beta subunit 1; chaperone; HET: CIT; 1.9	93.36
1m1j_B	464	Fibrinogen beta chain; coiled coils, disulfide rin	93.3
3ol1_A	119	Vimentin; structural genomics, PSI-2, protein stru	93.2
3a7p_A	152	Autophagy protein 16; coiled-coil, coiled coil, cy	92.84
1l8d_A	112	DNA double-strand break repair RAD50 ATPase; zinc	92.83
2v66_B	111	Nuclear distribution protein NUDE-like 1; structur	92.77
3q8t_A	96	Beclin-1; autophagy, ATG14L uvrag, apoptosis; 1.90	92.71
3a7p_A	152	Autophagy protein 16; coiled-coil, coiled coil, cy	92.61
1fxk_A	107	Prefoldin; archaeal protein, chaperone; 2.30A {Met	92.52
2v66_B	111	Nuclear distribution protein NUDE-like 1; structur	92.43
3swk_A	86	Vimentin; cytoskeleton, intermediate filament, alp	92.26
2jee_A	81	YIIU; FTSZ, septum, coiled-coil, cell division, ce	91.97
3qh9_A	81	Liprin-beta-2; coiled-coil, dimerization, structur	91.76
3jsv_C	94	NF-kappa-B essential modulator; ubiquitin, coiled-	91.75
3mq9_A	471	Bone marrow stromal antigen 2 fused to maltose-BI	91.29
1m1j_B	464	Fibrinogen beta chain; coiled coils, disulfide rin	91.27
3swk_A	86	Vimentin; cytoskeleton, intermediate filament, alp	91.25
3s4r_A	93	Vimentin; alpha-helix, cytoskeleton, intermediate	91.2
3nmd_A	72	CGMP dependent protein kinase; leucine zipper, coi	91.12
2w83_C	77	C-JUN-amino-terminal kinase-interacting protein 4;	90.85
1m1j_C	409	Fibrinogen gamma chain; coiled coils, disulfide ri	90.84
3efg_A	78	Protein SLYX homolog; xanthomonas campestris PV. c	90.82
2no2_A	107	HIP-I, huntingtin-interacting protein 1; clathrin	90.77
2oto_A	155	M protein; helical coiled coil, fibrinogen-binding	90.74
3ol1_A	119	Vimentin; structural genomics, PSI-2, protein stru	90.57
3i00_A	120	HIP-I, huntingtin-interacting protein 1; transcrip	89.82
2xnx_M	146	M protein, M1-BC1; cell adhesion, virulence factor	89.65
1fxk_C	133	Protein (prefoldin); archaeal protein, chaperone;	89.54
3mq9_A	471	Bone marrow stromal antigen 2 fused to maltose-BI	88.82
3iox_A	497	AGI/II, PA; alpha helix, PPII helix, supersandwich	88.74
2i1j_A	575	Moesin; FERM, coiled-coil, C-ermad, ERM, radixin,	87.9
2pms_C	125	Pneumococcal surface protein A (PSPA); lactoferrin	87.52
2pms_C	125	Pneumococcal surface protein A (PSPA); lactoferrin	87.1
2i1j_A	575	Moesin; FERM, coiled-coil, C-ermad, ERM, radixin,	86.77
1m1j_A	491	Fibrinogen alpha subunit; coiled coils, disulfide	86.5
1x8y_A	86	Lamin A/C; structural protein, intermediate filame	86.48
1m1j_A	491	Fibrinogen alpha subunit; coiled coils, disulfide	86.44
1gk4_A	84	Vimentin; intermediate filament, dimer, parallel c	86.11
3a7o_A	75	Autophagy protein 16; coiled-coil, coiled coil, cy	86.07
3iv1_A	78	Tumor susceptibility gene 101 protein; coiled_COIL	85.34
2xzr_A	114	Immunoglobulin-binding protein EIBD; cell adhesion	84.94
3l4q_C	170	Phosphatidylinositol 3-kinase regulatory subunit b	84.27
3i00_A	120	HIP-I, huntingtin-interacting protein 1; transcrip	83.67
3a7o_A	75	Autophagy protein 16; coiled-coil, coiled coil, cy	83.21
1d7m_A	101	Cortexillin I; coiled-coil, coiled-coil trigger si	83.16
1x79_B	112	RAB GTPase binding effector protein 1; rabaptin5,	83.06
3ghg_C	411	Fibrinogen gamma chain; triple-stranded coiled coi	83.01
1m1j_C	409	Fibrinogen gamma chain; coiled coils, disulfide ri	82.97
3hhm_B	373	NISH2 P85alpha; PI3KCA, PI3K, PIK3R1, phosphatidil	82.14
3c9i_A	242	Tail needle protein GP26; xenon, coiled-coil, prot	82.01
2qyw_A	102	Vesicle transport through interaction with T-SNAR	82.0
2lw1_A	89	ABC transporter ATP-binding protein UUP; ABC REG s	81.74
4gkw_A	167	Spindle assembly abnormal protein 6; double helix,	81.25
2nrj_A	346	HBL B protein; enterotoxin, hemolysis, transmembra	81.13
1cii_A	602	Colicin IA; bacteriocin, ION channel formation, tr	81.01
1jcd_A	52	Major outer membrane lipoprotein; protein folding,	80.83
3cvf_A	79	Homer-3, homer protein homolog 3; coiled coil, alt	80.77
3jsv_C	94	NF-kappa-B essential modulator; ubiquitin, coiled-	80.76
2yko_A	233	LINE-1 ORF1P; RNA-binding protein, genome evolutio	80.44

>2a01_A Apolipoprotein A-I; four-helix bundle, lipid transport; HET: AC9; 2.40A {Homo sapiens} PDB: 3k2s_A* 1av1_A 3j00_0*

Probab=99.24  E-value=2e-11  Score=118.46  Aligned_cols=117  Identities=17%  Similarity=0.223  Sum_probs=108.6

Q ss_pred             chHHHHHHHHHHHHHHcCccccchHHHHHhhhhhhHHHHHHhhhcccchhHHHhhhhHHHHHHHHhhhcchhHHHHHhhh
Q 012833          235 PAMDVAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVV  314 (455)
Q Consensus       235 P~~~~~~~k~~~~~~~~~~w~~p~~~~~~~k~~p~~~~~w~~~~~~~~p~ve~~k~k~~p~~e~~k~~~~p~~~~~~~~~  314 (455)
                      |+++++..+..+.++           .++.++.|++.+    ++.++..||+++++++.|+.+.+|+.+..|++.+++.+
T Consensus       121 P~~eel~~~~~~~~e-----------el~~~L~p~~ee----lr~kl~~~veelk~~l~P~~ee~r~kl~~~~~el~~~l  185 (243)
T 2a01_A          121 PLRAELQEGARQKLH-----------ELQEKLSPLGEE----MRDRARAHVDALRTHLAPYSDELRQRLAARLEALKENG  185 (243)
T ss_dssp             HHHHHHHHHHHHHHH-----------HHCCSCCSSTHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhHH-----------HHHHHHHhHHHH----HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHhc
Confidence            566777777777777           888999999988    99999999999999999999999999999999999999


Q ss_pred             chhHHHHhhhhhhHHHHHHhhccchhHhHHHhhcchHHHHHHHHHHHHHHHH
Q 012833          315 DPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVRAYGKFLKSAT  366 (455)
Q Consensus       315 ~Py~~e~k~~~~py~~qa~~~~~p~~~~~~~~~~P~~~~v~~~~~~~~~~a~  366 (455)
                      .||++++++.+.|++++++....||.+.++..+.||++.++..+..++++..
T Consensus       186 ~p~~~e~~~kl~~~~e~lr~~l~p~~e~lk~~l~p~~e~~~~~l~~~~e~~~  237 (243)
T 2a01_A          186 GARLAEYHAKATEHLSTLSEKAKPALEDLRQGLLPVLESFKVSFLSALEEYT  237 (243)
T ss_dssp             HHTTTSSSCCHHHHHHHHHHHHHHHHHHSSSCSHHHHHHHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999998877654

>3s84_A Apolipoprotein A-IV; four helix bundle, transport protein; 2.40A {Homo sapiens}

Probab=99.08  E-value=2e-09  Score=106.26  Aligned_cols=66  Identities=15%  Similarity=0.340  Sum_probs=44.9

Q ss_pred             HHHhhhhhhHHHHHHhhhcccchhHHHhhhhHHHHHHHHhhhcchhHHHHHhhhchhHHHHhhhhhhHHH
Q 012833          261 TIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYID  330 (455)
Q Consensus       261 ~~~~k~~p~~~~~w~~~~~~~~p~ve~~k~k~~p~~e~~k~~~~p~~~~~~~~~~Py~~e~k~~~~py~~  330 (455)
                      .++.++.|+..+    ++.++..||++++..+.|+.+.+|+.++.|++.+++.+.||+++++..+..+++
T Consensus        92 eLr~~L~p~~ee----lr~kl~~~veelk~~L~Py~eelr~k~~~~leeLr~~l~P~ae~~~~kl~~~~e  157 (273)
T 3s84_A           92 SLQASLRPHADE----LKAKIDQNVEELKGRLTPYADEFKVKIDQTVEELRRSLAPYAQDTQEKLNHQLE  157 (273)
T ss_dssp             HHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHGGGCSSCHHHHHHHHH
T ss_pred             HHHHHHHHHHHH----HHHHHHhhHHHHHHHhHhHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            666677777666    677777777777777777777777777777777777777776666665444433

>3s84_A Apolipoprotein A-IV; four helix bundle, transport protein; 2.40A {Homo sapiens}

Probab=98.89  E-value=3.6e-07  Score=90.03  Aligned_cols=15  Identities=20%  Similarity=0.005  Sum_probs=7.8

Q ss_pred             chHHHHHHHHHHHHH
Q 012833          235 PAMDVAIQKALEKKA  249 (455)
Q Consensus       235 P~~~~~~~k~~~~~~  249 (455)
                      |.++++..+..+.++
T Consensus       121 Py~eelr~k~~~~le  135 (273)
T 3s84_A          121 PYADEFKVKIDQTVE  135 (273)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHH
Confidence            445555555555444

>2a01_A Apolipoprotein A-I; four-helix bundle, lipid transport; HET: AC9; 2.40A {Homo sapiens} PDB: 3k2s_A* 1av1_A 3j00_0*

Probab=98.86  E-value=2.5e-09  Score=103.68  Aligned_cols=117  Identities=15%  Similarity=0.187  Sum_probs=75.5

Q ss_pred             chHHHHHHHHHHHHHHcCccccchHHHHHhhhhhhHHHHHHhhhcccchhHHHhhhhHHHHHHHHhhhcchhHHHHHhhh
Q 012833          235 PAMDVAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVV  314 (455)
Q Consensus       235 P~~~~~~~k~~~~~~~~~~w~~p~~~~~~~k~~p~~~~~w~~~~~~~~p~ve~~k~k~~p~~e~~k~~~~p~~~~~~~~~  314 (455)
                      |..+++..+....++           .++.++.|++.+    +++.+..|++++++++.|+.+.+|+.+..+|+.+++.+
T Consensus        99 Py~~el~~~~~~~~e-----------elr~~L~P~~ee----l~~~~~~~~eel~~~L~p~~eelr~kl~~~veelk~~l  163 (243)
T 2a01_A           99 PYLDDFQKKWQEEME-----------LYRQKVEPLRAE----LQEGARQKLHELQEKLSPLGEEMRDRARAHVDALRTHL  163 (243)
T ss_dssp             HHHHHHHHHHHHHHH-----------HHHTTHHHHHHH----HHHHHHHHHHHHCCSCCSSTHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhHH-----------HHHHHHHHHHHH----HHHHHHhhHHHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Confidence            556678778777777           666666666665    56666666666666666666666666666666666666


Q ss_pred             chhHHHHhhhhhhHHHHHHhhccch-----------hHhHHHhhcchHHHHHHHHHHHHHHHH
Q 012833          315 DPYFQEAKKFSKPYIDQVATVAKPH-----------VDNVRVALKPYTKKVVRAYGKFLKSAT  366 (455)
Q Consensus       315 ~Py~~e~k~~~~py~~qa~~~~~p~-----------~~~~~~~~~P~~~~v~~~~~~~~~~a~  366 (455)
                      .||+++++..+.-.+++.+....||           ++.++..+.||++.++..+.++++...
T Consensus       164 ~P~~ee~r~kl~~~~~el~~~l~p~~~e~~~kl~~~~e~lr~~l~p~~e~lk~~l~p~~e~~~  226 (243)
T 2a01_A          164 APYSDELRQRLAARLEALKENGGARLAEYHAKATEHLSTLSEKAKPALEDLRQGLLPVLESFK  226 (243)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHTTTSSSCCHHHHHHHHHHHHHHHHHHSSSCSHHHHHHHH
T ss_pred             HhhHHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHhHHHHHHHH
Confidence            6666666666666666666655555           666666677777776666666655443

>2lem_A Apolipoprotein A-I; lipid transport; NMR {Mus musculus}

Probab=98.86  E-value=2.9e-09  Score=101.44  Aligned_cols=113  Identities=14%  Similarity=0.177  Sum_probs=82.0

Q ss_pred             cchHHHHHHHHHHHHHHcCccccchHHHHHhhhhhhHHHHHHhhhcccchhHHHhhhhHHHHHHHHhhhcchhHHHHHhh
Q 012833          234 KPAMDVAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEV  313 (455)
Q Consensus       234 ~P~~~~~~~k~~~~~~~~~~w~~p~~~~~~~k~~p~~~~~w~~~~~~~~p~ve~~k~k~~p~~e~~k~~~~p~~~~~~~~  313 (455)
                      .|..+++..+..+.++           .++.++.|++.+    +++.+..|+++++.++.|+.+.+|+.+..|++.+++.
T Consensus        97 ~py~~el~~~~~~~~e-----------~lr~~L~Py~~e----l~~~~~~~~e~Lr~~L~p~~e~lr~kl~~~~e~lk~~  161 (216)
T 2lem_A           97 QPYLDEFQKKWKEDVE-----------LYRQKASPQGAE----LQESARQKLQELQGRLSPVAEEFRDRMRTHVDSLRTQ  161 (216)
T ss_dssp             TTTCCHHHHHHHHHHH-----------HHHHHTSCHHHH----HHHHHHCSCCSSCCSCSTHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhHH-----------HHHHHHHHHHHH----HHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4556677777666666           777777777777    7777777777888888888888888888888888888


Q ss_pred             hchhHHHHhhhhhhHHHHHHhhccchhHhHHHhhcchHHHHHHHHHHHHH
Q 012833          314 VDPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVRAYGKFLK  363 (455)
Q Consensus       314 ~~Py~~e~k~~~~py~~qa~~~~~p~~~~~~~~~~P~~~~v~~~~~~~~~  363 (455)
                      +.||+++++..+...+++.+..  ||++.+++.+.|+++.++..+.||++
T Consensus       162 l~P~~ee~~~kl~~~leeL~~~--p~~~e~~~ki~~~~e~Lr~~l~P~~e  209 (216)
T 2lem_A          162 LAPHSEQMRESLAQRLAELKSN--PTLNEYHSSAKSHLKSLGEKARPALE  209 (216)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHC--CCCCCCCCCSSSHHHHHHHTSCTTTH
T ss_pred             hHhhHHHHHHHHHHHHHHHhCC--cchHHHHHHHHHHHHHHHHHhhhhHH
Confidence            8888888888888888877775  66666666666666555555555543

>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=98.79  E-value=3.7e-08  Score=92.38  Aligned_cols=83  Identities=12%  Similarity=0.146  Sum_probs=48.4

Q ss_pred             HHHHHhhhhhhHHHHHHhhhcccchhHHHhhhhHHHHHHHHhhhcchhHHHHHhhhchhHHHHhhhhhhHHHHHHhhccc
Q 012833          259 VETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKP  338 (455)
Q Consensus       259 ~~~~~~k~~p~~~~~w~~~~~~~~p~ve~~k~k~~p~~e~~k~~~~p~~~~~~~~~~Py~~e~k~~~~py~~qa~~~~~p  338 (455)
                      |+.++.++.|+..+    ++..+.+|+++++.++.|+.+.+|+.+..+++.++..+.||++++++.+.+.++.++....|
T Consensus       108 lEelr~kL~P~~eE----L~~~l~~~~Eelr~~L~Py~eelr~kl~~~~eeLr~~l~P~~eelk~~l~~~veel~~~L~P  183 (191)
T 1nfn_A          108 MEDVCGRLVQYRGE----VQAMLGQSTEELRVRLASHLRKLRKRLLRDADDLQKRLAVYQAGAREGAERGLSAIRERLGP  183 (191)
T ss_dssp             HHHHHHHHHHHHHH----HHHTTTCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTC-------------------
T ss_pred             HHHHHHHhhHHHHH----HHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhHh
Confidence            34888888888888    88888888888888888888888888888888888888888888888888777766666666


Q ss_pred             hhHhHHH
Q 012833          339 HVDNVRV  345 (455)
Q Consensus       339 ~~~~~~~  345 (455)
                      |++.+++
T Consensus       184 ~~e~~r~  190 (191)
T 1nfn_A          184 LVEQGRV  190 (191)
T ss_dssp             -------
T ss_pred             HHHHHhc
Confidence            6665543

>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=98.73  E-value=3.7e-08  Score=92.31  Aligned_cols=113  Identities=6%  Similarity=0.068  Sum_probs=69.2

Q ss_pred             HcCccccchHHHHHhhhhhhHHHHHHhhhcccchhHHHhhhhHHHHHHHHhhhcchhHHHHHhhhchhHHHHhhhhhhHH
Q 012833          250 QAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYI  329 (455)
Q Consensus       250 ~~~~w~~p~~~~~~~k~~p~~~~~w~~~~~~~~p~ve~~k~k~~p~~e~~k~~~~p~~~~~~~~~~Py~~e~k~~~~py~  329 (455)
                      ....=+.|+.+.+..+|.|.+..    ++..+.-++|++++++.|+.+.+++.+.+|++.++..+.||+.++++.+...+
T Consensus        77 ~l~~qL~P~~~e~~~~l~~~~e~----lr~~l~kdlEelr~kL~P~~eEL~~~l~~~~Eelr~~L~Py~eelr~kl~~~~  152 (191)
T 1nfn_A           77 ELEEQLTPVAEETRARLSKELQA----AQARLGADMEDVCGRLVQYRGEVQAMLGQSTEELRVRLASHLRKLRKRLLRDA  152 (191)
T ss_dssp             HHTTC----------CHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhcchhHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence            33444778888888888888877    77777889999999999999999999999999999999999999999999999


Q ss_pred             HHHHhhccchhHhHHHhhcchHHHHHHHHHHHHHHHH
Q 012833          330 DQVATVAKPHVDNVRVALKPYTKKVVRAYGKFLKSAT  366 (455)
Q Consensus       330 ~qa~~~~~p~~~~~~~~~~P~~~~v~~~~~~~~~~a~  366 (455)
                      ++.+....||++.+++.+..+++.++..+.||++...
T Consensus       153 eeLr~~l~P~~eelk~~l~~~veel~~~L~P~~e~~r  189 (191)
T 1nfn_A          153 DDLQKRLAVYQAGAREGAERGLSAIRERLGPLVEQGR  189 (191)
T ss_dssp             HHHHHHHHHHTC-------------------------
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHhHhHHHHHh
Confidence            9999999999999999999999999999999887643

>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=98.67  E-value=4.9e-08  Score=90.76  Aligned_cols=85  Identities=8%  Similarity=0.138  Sum_probs=39.9

Q ss_pred             hhcccchhHHHhhhhHHHHHHHHhhhcchhHHHHHhhhchhHHHHhhhhhhHHHHHHhhccchhHhHHHhhcchHHHHHH
Q 012833          277 FTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVR  356 (455)
Q Consensus       277 ~~~~~~p~ve~~k~k~~p~~e~~k~~~~p~~~~~~~~~~Py~~e~k~~~~py~~qa~~~~~p~~~~~~~~~~P~~~~v~~  356 (455)
                      +++.+..++++++.++.|+...++..+..|++.++..+.||+.++++.+..-+++.+....||++.+++.+..+++.++.
T Consensus        83 Lr~~l~kdlee~r~~l~P~~~e~~~~~~~~~e~lr~~l~Py~~el~~~~~~~~e~Lr~~L~p~~e~lr~~l~~~~e~lk~  162 (185)
T 3r2p_A           83 LRQEMSKDLEEVKAKVQPYLDDFQKKWQEEMELYRQKVEPLRAELQEGARQKLHELQEKLSPLGEEMRDRARAHVDALRT  162 (185)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTTTTSHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhccHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444444444444444444444444444444444444444444444444444444444444444444


Q ss_pred             HHHHH
Q 012833          357 AYGKF  361 (455)
Q Consensus       357 ~~~~~  361 (455)
                      .+.||
T Consensus       163 ~l~Py  167 (185)
T 3r2p_A          163 HLAPY  167 (185)
T ss_dssp             HHHHH
T ss_pred             Hhhhh
Confidence            44444

>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=98.65  E-value=3.9e-08  Score=91.47  Aligned_cols=114  Identities=19%  Similarity=0.294  Sum_probs=78.2

Q ss_pred             chHHHHHHHHHHHHHHcCccccchHHHHHhhhhhhHHHHHHhhhcccchhHHHhhhhHHHHHHHHhhhcchhHHHHHhhh
Q 012833          235 PAMDVAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVV  314 (455)
Q Consensus       235 P~~~~~~~k~~~~~~~~~~w~~p~~~~~~~k~~p~~~~~w~~~~~~~~p~ve~~k~k~~p~~e~~k~~~~p~~~~~~~~~  314 (455)
                      |..+++..+-....+           .++.++..-+++    ++..+.||++++++++-+-++.+|..+.||+..+++.+
T Consensus        67 p~~~e~~~~l~~~~~-----------~Lr~~l~kdlee----~r~~l~P~~~e~~~~~~~~~e~lr~~l~Py~~el~~~~  131 (185)
T 3r2p_A           67 PVTQEFWDNLEKETE-----------GLRQEMSKDLEE----VKAKVQPYLDDFQKKWQEEMELYRQKVEPLRAELQEGA  131 (185)
T ss_dssp             SCCHHHHHHHHHHHH-----------HHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHH-----------HHHHHHhccHHH----HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence            555555554444443           455555555555    66777777777777777777777777777777777777


Q ss_pred             chhHHHHhhhhhhHHHHHHhhccchhHhHHHhhcchHHHHHHHHHHHHH
Q 012833          315 DPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVRAYGKFLK  363 (455)
Q Consensus       315 ~Py~~e~k~~~~py~~qa~~~~~p~~~~~~~~~~P~~~~v~~~~~~~~~  363 (455)
                      ...+++-+..+.||.++.++....++|.+++.+.||++.++..+..-++
T Consensus       132 ~~~~e~Lr~~L~p~~e~lr~~l~~~~e~lk~~l~Py~ee~k~kl~~~le  180 (185)
T 3r2p_A          132 RQKLHELQEKLSPLGEEMRDRARAHVDALRTHLAPYSDELRQRLAARLE  180 (185)
T ss_dssp             HHHHTTTTTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            7777777777777777777777777788888888888888777665543

>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1 PDB: 2tma_A 2w49_A 2w4u_A

Probab=98.60  E-value=2.2e-05  Score=73.18  Aligned_cols=57  Identities=18%  Similarity=0.233  Sum_probs=25.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           44 KIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQ  100 (455)
Q Consensus        44 ~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQ  100 (455)
                      +..+..++.++..+...+.++..++......+...+..+......+..+...+..+.
T Consensus         5 ~~~~~~l~~~~~~~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   61 (284)
T 1c1g_A            5 KKKMQMLKLDKENALDRADEAEADKKAAEDRSKQLEDELVSLQKKLKATEDELDKYS   61 (284)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444444444444444444444444444444444444444443

>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1 PDB: 2tma_A 2w49_A 2w4u_A

Probab=98.58  E-value=2.6e-05  Score=72.62  Aligned_cols=55  Identities=7%  Similarity=0.166  Sum_probs=23.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           45 IELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSL   99 (455)
Q Consensus        45 ~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sL   99 (455)
                      .+++.+...+..+..++..+...+......+..+...+......+..+...+..+
T Consensus        13 ~~~~~~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   67 (284)
T 1c1g_A           13 LDKENALDRADEAEADKKAAEDRSKQLEDELVSLQKKLKATEDELDKYSEALKDA   67 (284)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444444444444444444444444444444444444444444333

>3na7_A HP0958; flagellar biogenesis, flagellum export, C4 Zn-ribbon, coiled post-transcriptional, gene regulation, chaperone; HET: EPE; 2.20A {Helicobacter pylori}

Probab=98.56  E-value=2.1e-05  Score=76.43  Aligned_cols=98  Identities=12%  Similarity=0.176  Sum_probs=55.4

Q ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHH-HHHHHHHHHHHHH
Q 012833           43 LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAA-EQVDKAHARADEL  121 (455)
Q Consensus        43 l~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~-eei~~Ae~~i~eL  121 (455)
                      +..++..+..++..++..+..++..+.....++.+++..+..++..|.++...|...+++...+++ +++..+..+|..+
T Consensus        23 l~~~~~~lp~el~~le~~~~~l~~~~~~~~~~l~d~~~~~~~~e~~i~~~~~ri~~~~~~l~~v~~~kE~~aL~kEie~~  102 (256)
T 3na7_A           23 LEPLIREKRKDLDKALNDKEAKNKAILNLEEEKLALKLQVSKNEQTLQDTNAKIASIQKKMSEIKSERELRSLNIEEDIA  102 (256)
T ss_dssp             THHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHH
T ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHHHHH
Confidence            345555566666666777777777777777777777777777777777777777666666554422 2333333333333


Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q 012833          122 EKQIDNLKKESEKQQKEKE  140 (455)
Q Consensus       122 e~qIe~LkkeLE~~~~e~e  140 (455)
                      ..++..+++++......++
T Consensus       103 ~~~i~~lE~eile~~e~ie  121 (256)
T 3na7_A          103 KERSNQANREIENLQNEIK  121 (256)
T ss_dssp             HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333

>2l7b_A Apolipoprotein E, APO-E; lipid transport, atherosclerosis, alzheime disease; NMR {Homo sapiens}

Probab=98.49  E-value=2.8e-07  Score=92.24  Aligned_cols=115  Identities=8%  Similarity=0.101  Sum_probs=92.8

Q ss_pred             chHHHHHHHHHHHHHHcCccccchHHHHHhhhhhhHHHHHHhhhcccchhHHHhhhhHHHHHHHHhh-------------
Q 012833          235 PAMDVAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKT-------------  301 (455)
Q Consensus       235 P~~~~~~~k~~~~~~~~~~w~~p~~~~~~~k~~p~~~~~w~~~~~~~~p~ve~~k~k~~p~~e~~k~-------------  301 (455)
                      |..+++..+....++           .++.++.|++.+    ++.++..||++++..+.|+.+.+++             
T Consensus       147 Py~~EL~~~~~~~~e-----------eLr~~L~py~ee----Lr~kl~~~veelr~~L~Py~e~~~~~~~~v~~~k~~~L  211 (307)
T 2l7b_A          147 SHLRKLRKRLLRDAD-----------DLQKRLAVYQAG----AREGAERGLSAIRERLGPLVEQGRVRAATVGSLAGQPL  211 (307)
T ss_dssp             HHHHHHHHHHHHHHH-----------HHHHHHHHHTSC----CSSHHHHHHHHHHHHCSSSCTTTTTHHHHHHHHHCCCC
T ss_pred             HHHHHHHHHHHhhHH-----------HHHHHHhhHHHH----HHHHHHHHHHHHHHHhhhHHHHHHHHHhhhhhhhhHHH
Confidence            566677777777777           888899999888    8888888888888888888776544             


Q ss_pred             --hcchhHHHHHhhhchhH--------------HHHhhhhhhHHHHHHhhccchhHhHHHhhcchHHHHHHHHHHHHHH
Q 012833          302 --AVTPHIIRVQEVVDPYF--------------QEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVRAYGKFLKS  364 (455)
Q Consensus       302 --~~~p~~~~~~~~~~Py~--------------~e~k~~~~py~~qa~~~~~p~~~~~~~~~~P~~~~v~~~~~~~~~~  364 (455)
                        ++.|+++.+++.+.||.              ++++..++--.++++....|+++.++..+.||++.++..+.++++.
T Consensus       212 ~~ki~~~~e~Lr~~L~p~~~~~~~~l~~l~~q~ee~~~ql~~~aeel~~kl~~~~eeLr~~l~P~~e~lk~~l~~l~E~  290 (307)
T 2l7b_A          212 QERAQAWGERLRARMEEMGSRTRDRLDEVKEQVAEVRAKLEEQAQQIRLQAEAAQARLKSRFEPLAEDMQRQWAGQVEK  290 (307)
T ss_dssp             SSCSCCHHHHHHHHHHHHHHTCSCSSCCCCSSCSSHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSCHHHHHHTTSSCC
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhHHHHHHHHhhhHHHHHHHHHHHHHHH
Confidence              44788888887777765              6678888888888888899999999999999999988888776543

>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=98.44  E-value=8.7e-08  Score=87.91  Aligned_cols=89  Identities=11%  Similarity=0.131  Sum_probs=56.5

Q ss_pred             HHHHHhhhhhhHHHHHHhhhcccchhHHHhhhhHHHHHHHHhhhcchhHHHHHhhhchhHHHHhhhhhhHHHHHHhhccc
Q 012833          259 VETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKP  338 (455)
Q Consensus       259 ~~~~~~k~~p~~~~~w~~~~~~~~p~ve~~k~k~~p~~e~~k~~~~p~~~~~~~~~~Py~~e~k~~~~py~~qa~~~~~p  338 (455)
                      ++.++.++.|+..+    ++..+.-.++.++.++.|..+.+|+.+.||+..++..+.||+.+++..+.||+++.++-...
T Consensus        75 ~~~l~~~L~P~t~e----l~~~l~~~~e~Lr~~L~~d~EelR~~l~p~~~el~~~l~~~~EelR~kl~P~~eeL~~~~~~  150 (165)
T 1gs9_A           75 KSELEEQLTPVAEE----TRARLSKELQAAQARLGADMEDVRGRLVQYRGEVQAMLGQSTEELRVRLASHLRKLRKRLLR  150 (165)
T ss_dssp             HHHHTTSCCCCCSH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSTTCCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhccchHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            44555666666555    44444445566666666666666666666666666666666666666666666666666666


Q ss_pred             hhHhHHHhhcchH
Q 012833          339 HVDNVRVALKPYT  351 (455)
Q Consensus       339 ~~~~~~~~~~P~~  351 (455)
                      +++.++..+.||+
T Consensus       151 ~~eeLr~kL~p~~  163 (165)
T 1gs9_A          151 DADDLQKRLAVYQ  163 (165)
T ss_dssp             HHHHHHHHHHHSS
T ss_pred             hHHHHHHHhhhhc
Confidence            6666666666664

>3na7_A HP0958; flagellar biogenesis, flagellum export, C4 Zn-ribbon, coiled post-transcriptional, gene regulation, chaperone; HET: EPE; 2.20A {Helicobacter pylori}

Probab=98.41  E-value=3.8e-05  Score=74.57  Aligned_cols=50  Identities=18%  Similarity=0.158  Sum_probs=19.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          125 IDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKI  174 (455)
Q Consensus       125 Ie~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI  174 (455)
                      .+.|.++++.+...+..++.+..++..+++.++..++.++..+++.+..+
T Consensus        92 ~~aL~kEie~~~~~i~~lE~eile~~e~ie~~~~~l~~~~~~l~~~~~~l  141 (256)
T 3na7_A           92 LRSLNIEEDIAKERSNQANREIENLQNEIKRKSEKQEDLKKEMLELEKLA  141 (256)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333444444433343444433333333333333333333333333333

>2lem_A Apolipoprotein A-I; lipid transport; NMR {Mus musculus}

Probab=98.41  E-value=1.8e-07  Score=89.08  Aligned_cols=81  Identities=21%  Similarity=0.327  Sum_probs=37.7

Q ss_pred             hhcccchhHHHhhhhHHHHHHHHhhhcchhHHHHHhhhchhHHHHhhhhhhHHHHHHhhccchhHhHHHhhcchHHHHHH
Q 012833          277 FTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVR  356 (455)
Q Consensus       277 ~~~~~~p~ve~~k~k~~p~~e~~k~~~~p~~~~~~~~~~Py~~e~k~~~~py~~qa~~~~~p~~~~~~~~~~P~~~~v~~  356 (455)
                      ++..+.||.+++++++-+-.+.+|..+.||+..+++.+...+++.+..+.||.++.+.....+++.+++.+.||++.++.
T Consensus        92 ~r~~l~py~~el~~~~~~~~e~lr~~L~Py~~el~~~~~~~~e~Lr~~L~p~~e~lr~kl~~~~e~lk~~l~P~~ee~~~  171 (216)
T 2lem_A           92 VKQKVQPYLDEFQKKWKEDVELYRQKASPQGAELQESARQKLQELQGRLSPVAEEFRDRMRTHVDSLRTQLAPHSEQMRE  171 (216)
T ss_dssp             HHHHTTTTCCHHHHHHHHHHHHHHHHTSCHHHHHHHHHHCSCCSSCCSCSTHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhhhHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhHHHHHH
Confidence            44444444444444444444444444444444444444444444444444444444444444444444444444444433


Q ss_pred             H
Q 012833          357 A  357 (455)
Q Consensus       357 ~  357 (455)
                      .
T Consensus       172 k  172 (216)
T 2lem_A          172 S  172 (216)
T ss_dssp             H
T ss_pred             H
Confidence            3

>2l7b_A Apolipoprotein E, APO-E; lipid transport, atherosclerosis, alzheime disease; NMR {Homo sapiens}

Probab=98.39  E-value=3.8e-07  Score=91.28  Aligned_cols=104  Identities=10%  Similarity=0.131  Sum_probs=74.9

Q ss_pred             ccchHHHHHhhhhhhHHHHHHhhhcccchhHHHhhhhHHHHHHHHhhhcchhHHHHHhhhchhHHHHhhhhhhHHHHHHh
Q 012833          255 VQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVAT  334 (455)
Q Consensus       255 ~~p~~~~~~~k~~p~~~~~w~~~~~~~~p~ve~~k~k~~p~~e~~k~~~~p~~~~~~~~~~Py~~e~k~~~~py~~qa~~  334 (455)
                      +.+.++.++.++.|...+    +.+.+.-|++.++.++.|+.+.+|+.+..+++.|+..+.||..+.++.+..-++..+.
T Consensus       112 L~~dlEelR~~L~Py~~e----l~~~l~~~~eelr~kL~Py~~EL~~~~~~~~eeLr~~L~py~eeLr~kl~~~veelr~  187 (307)
T 2l7b_A          112 LGADMEDVCGRLVQYRGE----VQAMLGQSTEELRVRLASHLRKLRKRLLRDADDLQKRLAVYQAGAREGAERGLSAIRE  187 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHH----HHHHSSCCSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSCCSSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHhhHHHHHHHHHHHHHHHHHH
Confidence            336666777777777777    7777777777777777777777777777777777777777777777777777777777


Q ss_pred             hccchhHhHHHhh---------------cchHHHHHHHHHHHH
Q 012833          335 VAKPHVDNVRVAL---------------KPYTKKVVRAYGKFL  362 (455)
Q Consensus       335 ~~~p~~~~~~~~~---------------~P~~~~v~~~~~~~~  362 (455)
                      ...||.+.++..+               .||++.++..+.++.
T Consensus       188 ~L~Py~e~~~~~~~~v~~~k~~~L~~ki~~~~e~Lr~~L~p~~  230 (307)
T 2l7b_A          188 RLGPLVEQGRVRAATVGSLAGQPLQERAQAWGERLRARMEEMG  230 (307)
T ss_dssp             HCSSSCTTTTTHHHHHHHHHCCCCSSCSCCHHHHHHHHHHHHH
T ss_pred             HhhhHHHHHHHHHhhhhhhhhHHHHHHHHHhHHHHHHHHHHHH
Confidence            7777776666554               777777777777764

>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=97.96  E-value=1.9e-05  Score=91.65  Aligned_cols=41  Identities=20%  Similarity=0.153  Sum_probs=18.5

Q ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHH
Q 012833           43 LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQ   83 (455)
Q Consensus        43 l~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~   83 (455)
                      +..++..++.++..++..+.+++.++..+..++..+...+.
T Consensus       862 L~~eL~el~~~L~~le~~l~ele~~l~~Le~e~~~l~~~L~  902 (1184)
T 1i84_S          862 KDEELQRTKERQQKAEAELKELEQKHTQLCEEKNLLQEKLQ  902 (1184)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444444444444444444444443333

>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=97.94  E-value=2.2e-05  Score=91.18  Aligned_cols=57  Identities=11%  Similarity=0.099  Sum_probs=35.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           44 KIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQ  100 (455)
Q Consensus        44 ~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQ  100 (455)
                      ..++..++.++..++..+..++..+.+.+..+..++..+.+....+......+..++
T Consensus       856 ~~El~~L~~eL~el~~~L~~le~~l~ele~~l~~Le~e~~~l~~~L~~e~~~l~~~e  912 (1184)
T 1i84_S          856 EEEMQAKDEELQRTKERQQKAEAELKELEQKHTQLCEEKNLLQEKLQAETELYAEAE  912 (1184)
T ss_dssp             HHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            456666777777777777776666666666666666666666555555544444443

>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=97.88  E-value=1.8e-05  Score=72.46  Aligned_cols=78  Identities=13%  Similarity=0.188  Sum_probs=50.1

Q ss_pred             hhHHHhhhhHHHHHHHHhhhcchhHHHHHhhhchhHHHHhhhhhhHHHHHHhhccchhHhHHHhhcchHHHHHHHHHH
Q 012833          283 PHVQTLKTKTIEACEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVRAYGK  360 (455)
Q Consensus       283 p~ve~~k~k~~p~~e~~k~~~~p~~~~~~~~~~Py~~e~k~~~~py~~qa~~~~~p~~~~~~~~~~P~~~~v~~~~~~  360 (455)
                      .|++.+..++.|+.+.+++.++..++.+++.+.|+++++|..+.||.++.+....||++.++..+.||+++.+.....
T Consensus        73 ~~~~~l~~~L~P~t~el~~~l~~~~e~Lr~~L~~d~EelR~~l~p~~~el~~~l~~~~EelR~kl~P~~eeL~~~~~~  150 (165)
T 1gs9_A           73 AYKSELEEQLTPVAEETRARLSKELQAAQARLGADMEDVRGRLVQYRGEVQAMLGQSTEELRVRLASHLRKLRKRLLR  150 (165)
T ss_dssp             HHHHHHTTSCCCCCSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSTTCCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            345566666666666666666666666666666666666666666666666666666666666666666666554433

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus}

Probab=97.86  E-value=0.00026  Score=81.47  Aligned_cols=125  Identities=18%  Similarity=0.242  Sum_probs=61.5

Q ss_pred             HHHHHHHHHHHHHhhhchHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           54 IRSLESHIDEKTQELKGKDEVVAQKEKAI----QDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLK  129 (455)
Q Consensus        54 I~~Leski~ele~eI~~k~~eIk~~e~~I----~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eLe~qIe~Lk  129 (455)
                      ..+|+.++.+++..+++.+++..++...+    ...+.++.+|+.+++.++.     .+.+...+++++..|+++++.++
T Consensus       923 ~~~LE~kl~eLq~rL~~~e~~n~~L~~~~~~~~~~~~~e~~~L~~~l~~le~-----~~~e~~~~~~~v~~L~~e~~~l~  997 (1080)
T 2dfs_A          923 HIGLENKIMQLQRKIDEQNKEYKSLLEKMNNLEITYSTETEKLRSDVERLRM-----SEEEAKNATNRVLSLQEEIAKLR  997 (1080)
T ss_dssp             ----------------------------CHHHHHHHHHHHHHHHHTHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHH
Confidence            34455555555555555444444444333    3445566666666665543     13444566677777777777777


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          130 KESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEE  186 (455)
Q Consensus       130 keLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEe  186 (455)
                      ++++...++...++.+...+.   .+++.++..|++++..+++++++++..+...++
T Consensus       998 ~~~~~~~ke~~~lee~~~~~~---~~L~~kv~~L~~e~~~L~qq~~~l~~~~~~~~~ 1051 (1080)
T 2dfs_A          998 KELHQTQTEKKTIEEWADKYK---HETEQLVSELKEQNTLLKTEKEELNRRIHDQAK 1051 (1080)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            777777777777776665555   355566666666666666666666655555544

>2v71_A Nuclear distribution protein NUDE-like 1; developmental protein, nuclear protein, neurogenesis, cytosk LIS1 binding, differentiation; 2.24A {Rattus norvegicus}

Probab=97.71  E-value=0.0046  Score=57.59  Aligned_cols=120  Identities=18%  Similarity=0.128  Sum_probs=54.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhhhhHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           79 EKAIQDKSERIVSLQKELSSLQKKETLNAAE---QVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISD  155 (455)
Q Consensus        79 e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~e---ei~~Ae~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~E  155 (455)
                      +..|...++.+.+|++++..+.......+++   ....+...++.|+.++..|....+.+...+-.+|....++|...--
T Consensus        48 E~eL~~~Ek~~~~L~~~~~~L~~E~e~~k~K~~~~~~e~~~~~~~Lq~el~~l~~~~~~l~~~ireLEq~NDdlEr~~R~  127 (189)
T 2v71_A           48 EAQLVQAEQRNRDLQADNQRLKYEVEALKEKLEHQYAQSYKQVSVLEDDLSQTRAIKEQLHKYVRELEQANDDLERAKRA  127 (189)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHH
Confidence            3444444455555555544444443333221   2223444566666666666666666666666666666666655555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHhhh
Q 012833          156 LSAKLEKLQKINDEQKSKIRKTERALK---VAEEEMMRAKFEATSR  198 (455)
Q Consensus       156 leskveeLek~~eEqekkI~elE~~Lq---~lEeeL~kaq~E~~~~  198 (455)
                      ....+++++...+..-.++.=++..+.   .+..++++++-+...+
T Consensus       128 ~~~SleD~e~kln~aiEr~alLE~El~EKe~l~~~~QRLkdE~rDL  173 (189)
T 2v71_A          128 TIMSLEDFEQRLNQAIERNAFLESELDEKESLLVSVQRLKDEARDL  173 (189)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC----------
T ss_pred             HHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            555555555555544333333333333   2223333444444433

>2efr_A General control protein GCN4 and tropomyosin 1 Al; destabilizing cluster, hydrophobic core, contractIle protein; 1.80A {Saccharomyces cerevisiae} PDB: 2efs_A 2d3e_A

Probab=97.68  E-value=0.02  Score=51.79  Aligned_cols=66  Identities=21%  Similarity=0.279  Sum_probs=32.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          123 KQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEM  188 (455)
Q Consensus       123 ~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL  188 (455)
                      .+-+.++.+|..+...+...+.++...+..+..++..++.++..+...+.....+...+..+-.++
T Consensus        70 qrEd~yEeqIk~L~~kLKEAE~RAE~AERsv~kLEk~id~lEd~L~~~Kek~~~i~~eLd~tl~el  135 (155)
T 2efr_A           70 QKEDKYEEEIKVLSDKLKEAETRAEFAERSVTKLEKSIDDLEDELYAQKLKYKAISEEMKQLEDKV  135 (155)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333444444444444455555555555555555555555555555555444444444444443333

>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=97.58  E-value=0.0011  Score=70.39  Aligned_cols=32  Identities=16%  Similarity=0.198  Sum_probs=14.3

Q ss_pred             hhhchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           67 ELKGKDEVVAQKEKAIQDKSERIVSLQKELSS   98 (455)
Q Consensus        67 eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~s   98 (455)
                      ++.+++.++..++..+...+..++.+..+|+.
T Consensus       457 e~~~~~~~i~~l~~~~~~~~~~l~~~~~~i~~  488 (597)
T 3oja_B          457 EVNELRAEVQQLTNEQIQQEQLLQGLHAEIDT  488 (597)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            33333444444444444444444444444443

>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=97.44  E-value=0.022  Score=51.48  Aligned_cols=91  Identities=23%  Similarity=0.239  Sum_probs=50.3

Q ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHH
Q 012833           43 LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELE  122 (455)
Q Consensus        43 l~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eLe  122 (455)
                      +..+|+.........++++.+++.++......++.++..-.+.+..-..+..+|..|+.+.... +.....++..+..|+
T Consensus        26 ~E~dLEraEERae~aE~k~~eLEeeL~~v~~nlKsLE~seekasqrEd~yEeqIk~L~~kLKEA-E~RAE~AERsv~kLE  104 (155)
T 2efr_A           26 LKKLLERAEERAELSEGKSAELEEELKTVTNNLKSLEAQAEKYSQKEDKYEEEIKVLSDKLKEA-ETRAEFAERSVTKLE  104 (155)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccchhhhhHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHH
Confidence            4455555566666666666666666666666666666666666666666666666665443331 333333444444444


Q ss_pred             HHHHHHHHHHHH
Q 012833          123 KQIDNLKKESEK  134 (455)
Q Consensus       123 ~qIe~LkkeLE~  134 (455)
                      ..|++|+.++..
T Consensus       105 k~id~lEd~L~~  116 (155)
T 2efr_A          105 KSIDDLEDELYA  116 (155)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            444444433333

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus}

Probab=97.42  E-value=0.0036  Score=72.07  Aligned_cols=124  Identities=19%  Similarity=0.241  Sum_probs=45.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhchHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHH
Q 012833           48 DQLKSKIRSLESHIDEKTQELKGKDEVVA----QKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEK  123 (455)
Q Consensus        48 ~~lr~kI~~Leski~ele~eI~~k~~eIk----~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eLe~  123 (455)
                      ..+..+|..|+.++.+.+.+..++.+.+.    .++.++.++..++.+++.......    . .++++..+++++.++++
T Consensus       924 ~~LE~kl~eLq~rL~~~e~~n~~L~~~~~~~~~~~~~e~~~L~~~l~~le~~~~e~~----~-~~~~v~~L~~e~~~l~~  998 (1080)
T 2dfs_A          924 IGLENKIMQLQRKIDEQNKEYKSLLEKMNNLEITYSTETEKLRSDVERLRMSEEEAK----N-ATNRVLSLQEEIAKLRK  998 (1080)
T ss_dssp             ---------------------------CHHHHHHHHHHHHHHHHTHHHHHHHHHHHH----H-HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHH----H-HHHHHHHHHHHHHHHHH
Confidence            34444454454444444444333333322    233344444444444444322221    1 13445555666666666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          124 QIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTER  179 (455)
Q Consensus       124 qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~  179 (455)
                      +++++.++.+.+++....+..   +++.+++.+++....|+..+++++..+.+.++
T Consensus       999 ~~~~~~ke~~~lee~~~~~~~---~L~~kv~~L~~e~~~L~qq~~~l~~~~~~~~~ 1051 (1080)
T 2dfs_A          999 ELHQTQTEKKTIEEWADKYKH---ETEQLVSELKEQNTLLKTEKEELNRRIHDQAK 1051 (1080)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            666666666665554443332   33344555555555555555555544444443

>3o0z_A RHO-associated protein kinase 1; coiled-coil, transferase; HET: MSE; 2.33A {Homo sapiens}

Probab=97.38  E-value=0.045  Score=49.98  Aligned_cols=48  Identities=19%  Similarity=0.309  Sum_probs=18.2

Q ss_pred             HHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           52 SKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSL   99 (455)
Q Consensus        52 ~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sL   99 (455)
                      .++..|+.++.+++..++.=.+.-..+.+...+....++.+...+..|
T Consensus         6 eKi~~LekQL~E~n~kLk~EsE~~~rlkK~~tEl~k~~~~~E~~~rEL   53 (168)
T 3o0z_A            6 EKLSQLQKQLEEANDLLRTESDTAVRLRKSHTEMSKSISQLESLNREL   53 (168)
T ss_dssp             ----CTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444444444433333333333344444444444433333

>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=97.32  E-value=0.03  Score=48.90  Aligned_cols=16  Identities=19%  Similarity=0.098  Sum_probs=5.9

Q ss_pred             HHHHHHHHHHHHHHHH
Q 012833           79 EKAIQDKSERIVSLQK   94 (455)
Q Consensus        79 e~~I~e~e~~I~eLq~   94 (455)
                      +.....+..+..+|+.
T Consensus        40 e~~~~~l~~Ek~~L~~   55 (129)
T 2fxo_A           40 EEKMVSLLQEKNDLQL   55 (129)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            3333333333333333

>3o0z_A RHO-associated protein kinase 1; coiled-coil, transferase; HET: MSE; 2.33A {Homo sapiens}

Probab=97.29  E-value=0.064  Score=48.94  Aligned_cols=122  Identities=14%  Similarity=0.194  Sum_probs=65.4

Q ss_pred             ccHHHHHHHHHHHHH-------HHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHH
Q 012833           42 PLKIELDQLKSKIRS-------LESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKA  114 (455)
Q Consensus        42 ~l~~eL~~lr~kI~~-------Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~A  114 (455)
                      .+..+|++++.++..       +.....++...+...+....++...+..+...-..|+.++..||.....- .......
T Consensus        10 ~LekQL~E~n~kLk~EsE~~~rlkK~~tEl~k~~~~~E~~~rELq~~~~~L~~~k~~Leke~~~LQa~L~qE-r~~r~q~   88 (168)
T 3o0z_A           10 QLQKQLEEANDLLRTESDTAVRLRKSHTEMSKSISQLESLNRELQERNRILENSKSQTDKDYYQLQAILEAE-RRDRGHD   88 (168)
T ss_dssp             CTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHH
Confidence            466777777666643       23333344444444444444444444444444455555555555433221 1233455


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          115 HARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQ  164 (455)
Q Consensus       115 e~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLe  164 (455)
                      .+.+.+++.+|..|..+++...........+...+-.++..+++....++
T Consensus        89 se~~~elq~ri~~L~~El~~~k~~~~k~~~e~r~L~Ekl~~lEKe~a~~e  138 (168)
T 3o0z_A           89 SEMIGDLQARITSLQEEVKHLKHNLEKVEGERKEAQDMLNHSEKEKNNLE  138 (168)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            66666777777777766666666666666665555555555555554444

>2v71_A Nuclear distribution protein NUDE-like 1; developmental protein, nuclear protein, neurogenesis, cytosk LIS1 binding, differentiation; 2.24A {Rattus norvegicus}

Probab=97.28  E-value=0.12  Score=48.19  Aligned_cols=35  Identities=20%  Similarity=0.063  Sum_probs=14.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHH
Q 012833           45 IELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKE   79 (455)
Q Consensus        45 ~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e   79 (455)
                      .++.--+....+...+..+++.++++..+.-++++
T Consensus        10 ee~~ywk~~~~~~~q~~~~le~El~EFqesSrELE   44 (189)
T 2v71_A           10 EETAYWKELSMKYKQSFQEARDELVEFQEGSRELE   44 (189)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444444444444444333333333

>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=97.25  E-value=0.0057  Score=64.91  Aligned_cols=34  Identities=12%  Similarity=0.162  Sum_probs=13.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          158 AKLEKLQKINDEQKSKIRKTERALKVAEEEMMRA  191 (455)
Q Consensus       158 skveeLek~~eEqekkI~elE~~Lq~lEeeL~ka  191 (455)
                      .+++.++...++.++++.++.++.+.+..++..+
T Consensus       544 ~~~~~le~~~~~~~~~~~~l~~e~~~~~~~~~~l  577 (597)
T 3oja_B          544 QENIALEKQLDNKRAKQAELRQETSLKRQKVKQL  577 (597)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333333333333333333

>3u1c_A Tropomyosin alpha-1 chain; anti-parallel coiled coil, contractIle protein; 1.80A {Gallus gallus} PDB: 3u1a_A

Probab=97.20  E-value=0.019  Score=48.27  Aligned_cols=53  Identities=19%  Similarity=0.282  Sum_probs=33.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           47 LDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSL   99 (455)
Q Consensus        47 L~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sL   99 (455)
                      ++.++.++..|..+.+......+.....++..+..-.+.+.+|.+|+.+|..+
T Consensus         4 MdaIKkKm~~lk~e~e~a~drae~~e~~~k~~e~~~~~~E~Ei~sL~kk~~~l   56 (101)
T 3u1c_A            4 MDAIKKKMQMLKLDKENALDRAEQAEADKKAAEERSKQLEDDIVQLEKQLRVT   56 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence            56677777777777777666666666666666655555555555555544433

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=97.19  E-value=0.02  Score=72.12  Aligned_cols=39  Identities=18%  Similarity=0.278  Sum_probs=21.4

Q ss_pred             HHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           59 SHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELS   97 (455)
Q Consensus        59 ski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~   97 (455)
                      +++.+...++++...++..++..+.+++.+-.++-.+|.
T Consensus      1927 ~KL~et~~~V~~l~~~L~~~~~~L~~k~~ea~~~l~~i~ 1965 (3245)
T 3vkg_A         1927 KKLRDTEAQVKDLQVSLAQKNRELDVKNEQANQKLKQMV 1965 (3245)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444555555555555666566555555555555544443

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=97.08  E-value=0.049  Score=68.82  Aligned_cols=60  Identities=13%  Similarity=0.233  Sum_probs=24.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          126 DNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAE  185 (455)
Q Consensus       126 e~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lE  185 (455)
                      ..++++++..+.++.+.++++.+++.+++.++.+.+....+.+.++.+++..+.+++.++
T Consensus      2017 ~~ae~~l~~~~~~L~~~~~~L~~le~~l~~L~~~~~~~~~ek~~L~~e~~~~~~kl~rA~ 2076 (3245)
T 3vkg_A         2017 EQLENAANELKLKQDEIVATITALEKSIATYKEEYATLIRETEQIKTESSKVKNKVDRSI 2076 (3245)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333344444444444444444444444444444444444444444443333

>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=97.01  E-value=0.092  Score=45.75  Aligned_cols=9  Identities=11%  Similarity=0.350  Sum_probs=3.2

Q ss_pred             HHHHHHHHH
Q 012833           75 VAQKEKAIQ   83 (455)
Q Consensus        75 Ik~~e~~I~   83 (455)
                      +..+...+.
T Consensus        22 l~~lke~l~   30 (129)
T 2fxo_A           22 FTRLKEALE   30 (129)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            333333333

>3u59_A Tropomyosin beta chain; muscle contraction, actin, contractIle protein; 2.50A {Gallus gallus}

Probab=97.01  E-value=0.029  Score=46.91  Aligned_cols=53  Identities=19%  Similarity=0.249  Sum_probs=33.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           47 LDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSL   99 (455)
Q Consensus        47 L~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sL   99 (455)
                      ++.++.++..|..+.+......+.....++..+..-.+.+..|.+|+.+|..+
T Consensus         4 md~iKkKm~~lk~e~e~a~d~ae~~e~~~k~~e~~~~~~E~ei~sL~kKiq~l   56 (101)
T 3u59_A            4 MEAIKKKMQMLKLDKENAIDRAEQAEADKKQAEDRCKQLEEEQQGLQKKLKGT   56 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence            45677777777777777766666666666666666555555555555555444

>4gkw_A Spindle assembly abnormal protein 6; double helix, SAS-5, centriole, structural protein; 3.30A {Caenorhabditis elegans}

Probab=96.16  E-value=0.61  Score=40.88  Aligned_cols=128  Identities=9%  Similarity=0.207  Sum_probs=69.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHH-HHHHHHH
Q 012833           74 VVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKE--ALE-ARAIEAE  150 (455)
Q Consensus        74 eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eLe~qIe~LkkeLE~~~~e~e--eLE-ae~~elE  150 (455)
                      ++.+....+.-.-+-+.+-+.+++.+|+.+... +.++..+.++.+-+....+.....+.....+..  .+. -++.++|
T Consensus        26 eleEnqeEL~iVgkML~EEqgKVDQlqKRn~~H-QKEi~~Lrae~~~~QRn~~K~~~~Lkrn~~qQnQQSlDiRKLrELE  104 (167)
T 4gkw_A           26 QLEENQEELEIVGNMLREEQGKVDQLQKRNVAH-QKEIGKLRAELGTAQRNLEKADQLLKRNSQQQNQQSLDMRKLGELE  104 (167)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhHHHHHHhccHH-HHHHHHHHHHHHHHHHhHHHHHHHHHhhhHHHhHhhhhHHHHHHHH
Confidence            333344444444556667777888887665543 445555555555544444444433333222211  121 2256667


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhh
Q 012833          151 KKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKEL  202 (455)
Q Consensus       151 kkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq~E~~~~a~ei  202 (455)
                      .-+.+-.+-++.|...+.-+.+.+..-.-+.+..-.-..+++-|.......+
T Consensus       105 ADLKEKDsMVe~LT~TiG~LrKELEdEklK~~E~MdSFE~LkvENE~vkerl  156 (167)
T 4gkw_A          105 ADLKEKDSMVESLTETIGILRKELENEKLKAAENMDSFEKLSMENENLKEKI  156 (167)
T ss_dssp             HTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhHHHHH
Confidence            7777777777777777777777666655555555555555655555443333

>3tnu_B Keratin, type II cytoskeletal 5; coiled-coil, structural support, cytosolic protein; 3.00A {Homo sapiens}

Probab=96.01  E-value=0.11  Score=45.07  Aligned_cols=14  Identities=21%  Similarity=0.320  Sum_probs=5.2

Q ss_pred             HHHHHHHHHHHHHH
Q 012833           85 KSERIVSLQKELSS   98 (455)
Q Consensus        85 ~e~~I~eLq~eI~s   98 (455)
                      ....|+.|+.+|++
T Consensus        41 lrr~iq~L~~el~~   54 (129)
T 3tnu_B           41 MNRMIQRLRAEIDN   54 (129)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
Confidence            33333333333333

>2eqb_B RAB guanine nucleotide exchange factor SEC2; coiled coil, endocytosis/exocytosis complex; 2.70A {Saccharomyces cerevisiae} SCOP: h.1.33.1

Probab=95.91  E-value=0.27  Score=40.98  Aligned_cols=87  Identities=20%  Similarity=0.276  Sum_probs=50.0

Q ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHH
Q 012833           43 LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELE  122 (455)
Q Consensus        43 l~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eLe  122 (455)
                      +..+++.++.+|.+++++....+.++..+..++..-...-...+.....++.+|++|..       .-.+.||+=+...+
T Consensus         3 ~~~~~e~lre~l~~le~~~~~~~~e~~~L~~~l~eE~~~R~~aE~~~~~ie~ElEeLTa-------sLFeEAN~MVa~ar   75 (97)
T 2eqb_B            3 LGSNYNQLKEDYNTLKRELSDRDDEVKRLREDIAKENELRTKAEEEADKLNKEVEDLTA-------SLFDEANNMVADAR   75 (97)
T ss_dssp             --CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHH
T ss_pred             HhHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHH
Confidence            44567777888888877777777766666666666666666666666666666665542       22334444444444


Q ss_pred             HHHHHHHHHHHHHH
Q 012833          123 KQIDNLKKESEKQQ  136 (455)
Q Consensus       123 ~qIe~LkkeLE~~~  136 (455)
                      .+-..++...+.+.
T Consensus        76 ~e~~~~e~kn~~L~   89 (97)
T 2eqb_B           76 KEKYAIEILNKRLT   89 (97)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
Confidence            44444444433333

>3tnu_A Keratin, type I cytoskeletal 14; coiled-coil, structural support, cytosolic protein; 3.00A {Homo sapiens}

Probab=95.90  E-value=0.11  Score=45.27  Aligned_cols=22  Identities=23%  Similarity=0.288  Sum_probs=6.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q 012833           78 KEKAIQDKSERIVSLQKELSSL   99 (455)
Q Consensus        78 ~e~~I~e~e~~I~eLq~eI~sL   99 (455)
                      ....|.+....|+.|+.+|+++
T Consensus        36 ~k~Ei~elrr~iq~L~~el~~l   57 (131)
T 3tnu_A           36 GKSEISELRRTMQNLEIELQSQ   57 (131)
T ss_dssp             -----CHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333334444444444333

>3tnu_B Keratin, type II cytoskeletal 5; coiled-coil, structural support, cytosolic protein; 3.00A {Homo sapiens}

Probab=95.81  E-value=0.19  Score=43.59  Aligned_cols=45  Identities=18%  Similarity=0.339  Sum_probs=33.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          109 EQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKI  153 (455)
Q Consensus       109 eei~~Ae~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl  153 (455)
                      +.+..++.++.+++..|++|+.+++.+......|+..+.+++...
T Consensus        29 ~~l~~~k~Ei~elrr~iq~L~~el~~l~~~~~~LE~~l~e~e~~~   73 (129)
T 3tnu_B           29 DDLRNTKHEISEMNRMIQRLRAEIDNVKKQCANLQNAIADAEQRG   73 (129)
T ss_dssp             -----CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Confidence            445567778888889999999999888888888888888777643

>3tnu_A Keratin, type I cytoskeletal 14; coiled-coil, structural support, cytosolic protein; 3.00A {Homo sapiens}

Probab=95.63  E-value=0.18  Score=43.92  Aligned_cols=45  Identities=27%  Similarity=0.356  Sum_probs=28.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          108 AEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKK  152 (455)
Q Consensus       108 ~eei~~Ae~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkk  152 (455)
                      .+.+..++.+|.+++..|++|+.+++.+......|+..+.+++..
T Consensus        30 ~~~l~~~k~Ei~elrr~iq~L~~el~~l~~~~~sLE~~l~e~e~~   74 (131)
T 3tnu_A           30 SELVQSGKSEISELRRTMQNLEIELQSQLSMKASLENSLEETKGR   74 (131)
T ss_dssp             -----------CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence            345566778888888999999988888888888888888877764

>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=95.50  E-value=0.38  Score=50.79  Aligned_cols=48  Identities=15%  Similarity=0.260  Sum_probs=31.6

Q ss_pred             HHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          114 AHARAD-ELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLE  161 (455)
Q Consensus       114 Ae~~i~-eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~Eleskve  161 (455)
                      ...++. +|+.+|+.|+.+++.+-..+..|+..+.++..+++.|+..|+
T Consensus       107 tynE~S~ELRRrIqyLKekVdnQlsnIrvLQsnLedq~~kIQRLEvDId  155 (562)
T 3ghg_A          107 TYNRVSEDLRSRIEVLKRKVIEKVQHIQLLQKNVRAQLVDMKRLEVDID  155 (562)
T ss_dssp             HHHHTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334455 777777777777777777777666666666666666666554

>2ocy_A RAB guanine nucleotide exchange factor SEC2; RAB, GEF, guanine exchange factor, coiled-coil, endocytosis/exocytosis complex; 3.30A {Saccharomyces cerevisiae} SCOP: h.1.33.1

Probab=95.50  E-value=1.3  Score=39.76  Aligned_cols=30  Identities=3%  Similarity=0.004  Sum_probs=12.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 012833          167 NDEQKSKIRKTERALKVAEEEMMRAKFEAT  196 (455)
Q Consensus       167 ~eEqekkI~elE~~Lq~lEeeL~kaq~E~~  196 (455)
                      ....+.+.+.++.++...+..+..++.++.
T Consensus       110 ~~~~e~r~~~L~~ql~e~~~~l~~lq~ql~  139 (154)
T 2ocy_A          110 KYAIEILNKRLTEQLREKDTLLDTLTLQLK  139 (154)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333444444444444444444444444433

>3hnw_A Uncharacterized protein; coiled-coil, structural genomics, PSI-2, protein structure initiative, midwest center for structural genomics, MCSG; 2.20A {Eubacterium eligens}

Probab=95.11  E-value=0.58  Score=41.32  Aligned_cols=41  Identities=29%  Similarity=0.217  Sum_probs=18.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          110 QVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAE  150 (455)
Q Consensus       110 ei~~Ae~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~elE  150 (455)
                      +..++..++..|+.+++.+.+++.+++.++..+.-+..+++
T Consensus        69 El~k~~~~~~~L~~~l~~~~kE~~~lK~el~~~~~k~e~~~  109 (138)
T 3hnw_A           69 DYFKAKKMADSLSLDIENKDKEIYDLKHELIAAQIKAESSA  109 (138)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444445555555444444444444443333333333

>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=95.05  E-value=0.38  Score=38.51  Aligned_cols=36  Identities=19%  Similarity=0.225  Sum_probs=13.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          157 SAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAK  192 (455)
Q Consensus       157 eskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq  192 (455)
                      +......+..+..++.+++.++..+..+++.+..+.
T Consensus        33 e~~~~~~E~ev~~L~kKiq~lE~eld~~ee~l~~a~   68 (81)
T 1ic2_A           33 EERSKQLEDELVALQKKLKGTEDELDKYSESLKDAQ   68 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333444444444444443333333

>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=94.91  E-value=0.4  Score=38.36  Aligned_cols=57  Identities=21%  Similarity=0.300  Sum_probs=22.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          120 ELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRK  176 (455)
Q Consensus       120 eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~e  176 (455)
                      .+..+.+......+..+.++...+.+...++..+..++.++..++..++..+..+..
T Consensus        10 ~lk~e~d~a~~~~~~~e~~l~~~e~~~~~~E~ev~~L~kKiq~lE~eld~~ee~l~~   66 (81)
T 1ic2_A           10 MLKLDKENALDRAEQAEADKKAAEERSKQLEDELVALQKKLKGTEDELDKYSESLKD   66 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333333333333333344344444444444443333333333333

>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=94.80  E-value=0.36  Score=43.12  Aligned_cols=36  Identities=14%  Similarity=0.172  Sum_probs=14.9

Q ss_pred             HHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           62 DEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELS   97 (455)
Q Consensus        62 ~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~   97 (455)
                      .+.++..++-+...+.+++.-..-+..|..|..++.
T Consensus        27 eeaek~adE~eR~~k~lE~r~~~deEr~~~lE~qLk   62 (147)
T 2b9c_A           27 EEAEKAADESERGMKVIESRAQKDEEKMEIQEIQLK   62 (147)
T ss_dssp             HHHHHHHHHHTHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHhhhcccHHHHHHHHHHHH
Confidence            333333333333344444444444444444444443

>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=94.79  E-value=0.27  Score=51.89  Aligned_cols=41  Identities=20%  Similarity=0.242  Sum_probs=20.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          141 ALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERAL  181 (455)
Q Consensus       141 eLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~L  181 (455)
                      +|+.+...|+.+++..-+.+..|+..+++|-.+|+.||-+|
T Consensus       114 ELRRrIqyLKekVdnQlsnIrvLQsnLedq~~kIQRLEvDI  154 (562)
T 3ghg_A          114 DLRSRIEVLKRKVIEKVQHIQLLQKNVRAQLVDMKRLEVDI  154 (562)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444444444444444555555555555555555555544

>2v4h_A NF-kappa-B essential modulator; transcription, metal-binding, NEMO - IKK gamma - NFKB pathwa darpin, transcription regulation; 2.9A {Mus musculus}

Probab=94.64  E-value=0.38  Score=40.83  Aligned_cols=43  Identities=16%  Similarity=0.238  Sum_probs=23.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          117 RADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAK  159 (455)
Q Consensus       117 ~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~Elesk  159 (455)
                      +|..|+.|++-.+.+...-....+.+..++.++..++..+...
T Consensus        63 ~I~vLkaQv~IY~~DF~aERadREkl~~eKe~L~~ql~~Lq~q  105 (110)
T 2v4h_A           63 TVPVLKAQADIYKADFQAERHAREKLVEKKEYLQEQLEQLQRE  105 (110)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHccchhhHHHHHhHHHHHHHHHHHHHHH
Confidence            4555566666666665555555555555555555544444433

>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=94.63  E-value=0.71  Score=38.54  Aligned_cols=22  Identities=18%  Similarity=0.305  Sum_probs=9.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q 012833           78 KEKAIQDKSERIVSLQKELSSL   99 (455)
Q Consensus        78 ~e~~I~e~e~~I~eLq~eI~sL   99 (455)
                      +...+.....+|..+...+..+
T Consensus        22 L~~~~~~l~~~i~~l~~~l~~l   43 (112)
T 1l8d_A           22 ITQRIGELKNKIGDLKTAIEEL   43 (112)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHh
Confidence            3333444444444444444444

>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=94.62  E-value=1.3  Score=39.56  Aligned_cols=10  Identities=20%  Similarity=0.265  Sum_probs=3.6

Q ss_pred             HHHHHHHHHH
Q 012833          117 RADELEKQID  126 (455)
Q Consensus       117 ~i~eLe~qIe  126 (455)
                      ++..|+.++.
T Consensus        53 r~~~lE~qLk   62 (147)
T 2b9c_A           53 KMEIQEIQLK   62 (147)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            3333333333

>2xzr_A Immunoglobulin-binding protein EIBD; cell adhesion, trimeric autotransporter adhesin, TAA; 2.80A {Enterobacteria phage p-eibd}

Probab=94.48  E-value=1.8  Score=35.96  Aligned_cols=87  Identities=17%  Similarity=0.279  Sum_probs=41.5

Q ss_pred             HHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           50 LKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLK  129 (455)
Q Consensus        50 lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eLe~qIe~Lk  129 (455)
                      +..+|..+-+.+-.++.++...+.-|-.++..|..+.+-|..-+.-|+..        ++...+.+++++....||.+.-
T Consensus         4 ~~~~~~~~~~~~~~~~~~~~ri~~aig~~d~ri~~NtqaI~~NS~aiaan--------Tr~lQqh~aRlnsqQrQI~ENh   75 (114)
T 2xzr_A            4 IEDKIEEILSKIYHIENEIARIKKLIGAIDGRVTRNTQSIEKNSKAIAAN--------TRTLQQHSARLDSQQRQINENH   75 (114)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcchHHHHHHHHhhhhHHHHhhHHHHHhchHHHHHh--------HHHHHHHHHHHHhHHHHHHHHH
Confidence            33444555555555555555555555555555555555554444444322        3344445555555555555544


Q ss_pred             HHHHHHHHHHHHHHH
Q 012833          130 KESEKQQKEKEALEA  144 (455)
Q Consensus       130 keLE~~~~e~eeLEa  144 (455)
                      ++......+.++|-+
T Consensus        76 kEMKq~aaqsaaLls   90 (114)
T 2xzr_A           76 KEMKQIEDKIEEILS   90 (114)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH
Confidence            444444333333333

>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=94.45  E-value=2.6  Score=37.82  Aligned_cols=28  Identities=11%  Similarity=0.240  Sum_probs=10.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          164 QKINDEQKSKIRKTERALKVAEEEMMRA  191 (455)
Q Consensus       164 ek~~eEqekkI~elE~~Lq~lEeeL~ka  191 (455)
                      +..++.++.++.+.+..+..++.++..+
T Consensus       114 e~r~~~L~~ql~e~~~~l~~lq~ql~~L  141 (154)
T 2ocy_A          114 EILNKRLTEQLREKDTLLDTLTLQLKNL  141 (154)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333333333333

>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=94.14  E-value=0.13  Score=40.68  Aligned_cols=47  Identities=32%  Similarity=0.519  Sum_probs=33.4

Q ss_pred             HHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           54 IRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQ  100 (455)
Q Consensus        54 I~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQ  100 (455)
                      |.+|+.-+.....+|..+++-|.+++..|.+++..|.+|+++++.++
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            55566666666666677777777777777777777777777776554

>2e7s_A RAB guanine nucleotide exchange factor SEC2; coiled coil, endocytosis/exocytosis complex; 3.00A {Saccharomyces cerevisiae} SCOP: h.1.33.1

Probab=94.10  E-value=0.22  Score=43.96  Aligned_cols=51  Identities=18%  Similarity=0.329  Sum_probs=23.6

Q ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           43 LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELS   97 (455)
Q Consensus        43 l~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~   97 (455)
                      +..+|..++..|.....++++++.    ...+++.+...+.....++..|..++.
T Consensus         6 LEd~L~~~r~~l~~~~~~~~~le~----l~~~l~~l~~~l~~~~~e~~~L~~~l~   56 (135)
T 2e7s_A            6 LEEQLNKSLKTIASQKAAIENYNQ----LKEDYNTLKRELSDRDDEVKRLREDIA   56 (135)
T ss_dssp             CCSTTTHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHTTTHHHHHHTHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            444555555555555555554443    222333344444444444444444443

>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=93.73  E-value=3.5  Score=36.58  Aligned_cols=16  Identities=13%  Similarity=0.426  Sum_probs=6.6

Q ss_pred             HHHHHHHHHHHHHHHH
Q 012833           50 LKSKIRSLESHIDEKT   65 (455)
Q Consensus        50 lr~kI~~Leski~ele   65 (455)
                      ++.+-..|.+...++.
T Consensus        27 l~~eN~~Lk~e~e~l~   42 (155)
T 2oto_A           27 LRHENKDLKARLENAM   42 (155)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            3444444444444333

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=93.47  E-value=1.6  Score=45.10  Aligned_cols=48  Identities=15%  Similarity=0.068  Sum_probs=23.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 012833          152 KISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRS  199 (455)
Q Consensus       152 kl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq~E~~~~a  199 (455)
                      ..+....+++.+.++.+.++..++++..++..+.+.+..+..+...++
T Consensus       436 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  483 (487)
T 3oja_A          436 DWDMYQHKETQLAEENARLKKLNGEADLALASANATLQELVVREQNLA  483 (487)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhhhhhHHHHHHHHhhhhhhhhhhhhhhhHhcccHHHHHHHHHHHHH
Confidence            333334444444445555555555555555555555554444444333

>2eqb_B RAB guanine nucleotide exchange factor SEC2; coiled coil, endocytosis/exocytosis complex; 2.70A {Saccharomyces cerevisiae} SCOP: h.1.33.1

Probab=93.39  E-value=3  Score=34.70  Aligned_cols=37  Identities=19%  Similarity=0.378  Sum_probs=16.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          121 LEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLS  157 (455)
Q Consensus       121 Le~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~Ele  157 (455)
                      .+.++..|..++..-.......+..+..++.+++++.
T Consensus        24 ~~~e~~~L~~~l~eE~~~R~~aE~~~~~ie~ElEeLT   60 (97)
T 2eqb_B           24 RDDEVKRLREDIAKENELRTKAEEEADKLNKEVEDLT   60 (97)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444444444444444444444444444

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=93.37  E-value=3.8  Score=42.18  Aligned_cols=20  Identities=10%  Similarity=0.195  Sum_probs=7.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q 012833           78 KEKAIQDKSERIVSLQKELS   97 (455)
Q Consensus        78 ~e~~I~e~e~~I~eLq~eI~   97 (455)
                      ++..+.+......+...++.
T Consensus       372 le~~~~~~~~~~~~~~~~~~  391 (487)
T 3oja_A          372 LDEQVSNGRRAHAELDGTLQ  391 (487)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhhhhHH
Confidence            33333333333333333333

>2zqm_A Prefoldin beta subunit 1; chaperone; HET: CIT; 1.90A {Thermococcus SP} PDB: 2zdi_A

Probab=93.36  E-value=1.3  Score=37.00  Aligned_cols=41  Identities=10%  Similarity=0.209  Sum_probs=24.5

Q ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHH
Q 012833           43 LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQ   83 (455)
Q Consensus        43 l~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~   83 (455)
                      +.+++.++-.++..++.++..+..++..++.++...+..+.
T Consensus         4 ~~~e~Q~~i~~~~~l~~~~~~l~~q~~~l~~~~~e~~~~~~   44 (117)
T 2zqm_A            4 IPPQVQAMLGQLESYQQQLQLVVQQKQKVQLELTEAKKALD   44 (117)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34566666667777777777666666665555544444333

>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=93.30  E-value=1.4  Score=46.33  Aligned_cols=17  Identities=35%  Similarity=0.464  Sum_probs=7.2

Q ss_pred             HHHHHHHHHHHHHHHHH
Q 012833          166 INDEQKSKIRKTERALK  182 (455)
Q Consensus       166 ~~eEqekkI~elE~~Lq  182 (455)
                      .++.+..+|+.++..+.
T Consensus       176 ~~~~l~~ki~~l~~~~~  192 (464)
T 1m1j_B          176 VIDSLHKKIQKLENAIA  192 (464)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            33344444444444443

>3a7p_A Autophagy protein 16; coiled-coil, coiled coil, cytoplasmic vesicle, protein transport, transport, vacuole; 2.80A {Saccharomyces cerevisiae}

Probab=92.84  E-value=1.5  Score=39.21  Aligned_cols=41  Identities=22%  Similarity=0.223  Sum_probs=23.0

Q ss_pred             HHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           60 HIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQ  100 (455)
Q Consensus        60 ki~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQ  100 (455)
                      .|..+++++..+...|.+++..+.++++.++.+++++.+|+
T Consensus        69 ~I~~L~~El~~l~~ki~dLeeel~eK~K~~e~l~DEl~aLq  109 (152)
T 3a7p_A           69 TLAILQKELKSKEQEIRRLKEVIALKNKNTERLNAALISGT  109 (152)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444555566666666666666666666665

>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=92.83  E-value=2.2  Score=35.46  Aligned_cols=6  Identities=33%  Similarity=0.700  Sum_probs=2.1

Q ss_pred             HHHHHH
Q 012833          123 KQIDNL  128 (455)
Q Consensus       123 ~qIe~L  128 (455)
                      .++..+
T Consensus        31 ~~i~~l   36 (112)
T 1l8d_A           31 NKIGDL   36 (112)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            333333

>2v66_B Nuclear distribution protein NUDE-like 1; structural protein, developmental protein, structural protei phosphorylation, transport, microtubule; 2.10A {Homo sapiens}

Probab=92.77  E-value=4.1  Score=34.65  Aligned_cols=49  Identities=18%  Similarity=0.229  Sum_probs=22.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          117 RADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQK  165 (455)
Q Consensus       117 ~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek  165 (455)
                      .++.|+.++..|....+.+...+..+|..-.++|..---...-+++++.
T Consensus        36 ~~~~Lq~El~~lr~~~~~l~~~iReLEq~NDDLER~~R~t~~SLeD~E~   84 (111)
T 2v66_B           36 QVSVLEDDLSQTRAIKEQLHKYVRELEQANDDLERAKRATIVSLEDFEQ   84 (111)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhchHHHHHHHHHHhhHHHHHH
Confidence            4444444444444444444444444444444444433333333333333

>3q8t_A Beclin-1; autophagy, ATG14L uvrag, apoptosis; 1.90A {Rattus norvegicus}

Probab=92.71  E-value=3.7  Score=33.91  Aligned_cols=21  Identities=14%  Similarity=0.343  Sum_probs=7.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHH
Q 012833          169 EQKSKIRKTERALKVAEEEMM  189 (455)
Q Consensus       169 EqekkI~elE~~Lq~lEeeL~  189 (455)
                      +.+...+.++.++......+.
T Consensus        71 e~~dE~~Sl~~q~~~~~~qLd   91 (96)
T 3q8t_A           71 ELDDELKSVENQMRYAQMQLD   91 (96)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333333333

>3a7p_A Autophagy protein 16; coiled-coil, coiled coil, cytoplasmic vesicle, protein transport, transport, vacuole; 2.80A {Saccharomyces cerevisiae}

Probab=92.61  E-value=1.1  Score=40.23  Aligned_cols=63  Identities=25%  Similarity=0.269  Sum_probs=47.4

Q ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 012833           43 LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETL  105 (455)
Q Consensus        43 l~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~  105 (455)
                      +....++....|..|++.+..++.+|.+++.++..+.+.++....++..|+-++..++.+...
T Consensus        59 ~vs~~~~~~~~I~~L~~El~~l~~ki~dLeeel~eK~K~~e~l~DEl~aLqlq~n~lE~kl~k  121 (152)
T 3a7p_A           59 IVSHDDALLNTLAILQKELKSKEQEIRRLKEVIALKNKNTERLNAALISGTIENNVLQQKLSD  121 (152)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334456667778888888888888888888888888888888888888888888777654443

>1fxk_A Prefoldin; archaeal protein, chaperone; 2.30A {Methanothermobacter thermautotrophicusorganism_taxid} SCOP: a.2.5.1 PDB: 1fxk_B

Probab=92.52  E-value=1.3  Score=36.35  Aligned_cols=37  Identities=8%  Similarity=0.215  Sum_probs=19.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHH
Q 012833           46 ELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAI   82 (455)
Q Consensus        46 eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I   82 (455)
                      ++.+.-.++..++.++..+..++..++.++...+..+
T Consensus         2 ~~Q~~i~~f~~lq~~~~~l~~q~~~l~~~~~e~~~~~   38 (107)
T 1fxk_A            2 NVQHQLAQFQQLQQQAQAISVQKQTVEMQINETQKAL   38 (107)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4455555666666666666555555444444444333

>2v66_B Nuclear distribution protein NUDE-like 1; structural protein, developmental protein, structural protei phosphorylation, transport, microtubule; 2.10A {Homo sapiens}

Probab=92.43  E-value=4.6  Score=34.36  Aligned_cols=21  Identities=24%  Similarity=0.278  Sum_probs=9.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHH
Q 012833          120 ELEKQIDNLKKESEKQQKEKE  140 (455)
Q Consensus       120 eLe~qIe~LkkeLE~~~~e~e  140 (455)
                      +.+..+..|++++..+.....
T Consensus        32 e~~~~~~~Lq~El~~lr~~~~   52 (111)
T 2v66_B           32 QSYKQVSVLEDDLSQTRAIKE   52 (111)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444443333

>3swk_A Vimentin; cytoskeleton, intermediate filament, alpha-helix, structural; 1.70A {Homo sapiens}

Probab=92.26  E-value=1.8  Score=35.08  Aligned_cols=24  Identities=13%  Similarity=0.243  Sum_probs=10.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhc
Q 012833           47 LDQLKSKIRSLESHIDEKTQELKG   70 (455)
Q Consensus        47 L~~lr~kI~~Leski~ele~eI~~   70 (455)
                      |.+||.+|..+......+..+++.
T Consensus         2 i~eLr~qi~~l~~e~~~l~~e~dn   25 (86)
T 3swk_A            2 MRELRRQVDQLTNDKARVEVERDN   25 (86)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHH
Confidence            344444444444444444443333

>2jee_A YIIU; FTSZ, septum, coiled-coil, cell division, cell cycle, hypothetical protein; 2.8A {Escherichia coli}

Probab=91.97  E-value=2.5  Score=34.07  Aligned_cols=22  Identities=32%  Similarity=0.391  Sum_probs=9.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q 012833           78 KEKAIQDKSERIVSLQKELSSL   99 (455)
Q Consensus        78 ~e~~I~e~e~~I~eLq~eI~sL   99 (455)
                      ++..|++.=..|+-|+-+|+.|
T Consensus        11 LE~KIq~avdtI~lLqmEieEL   32 (81)
T 2jee_A           11 LEAKVQQAIDTITLLQMEIEEL   32 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444444444444444433

>3qh9_A Liprin-beta-2; coiled-coil, dimerization, structural protein; 2.01A {Homo sapiens}

Probab=91.76  E-value=0.81  Score=36.76  Aligned_cols=55  Identities=31%  Similarity=0.355  Sum_probs=40.3

Q ss_pred             ccHHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           42 PLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKEL   96 (455)
Q Consensus        42 ~l~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI   96 (455)
                      .+..+++.++.++..++++....+..++.-.++|..+...+..++.+|.-|++++
T Consensus        23 ~L~qEi~~Lr~kv~elEnErlQyEkKLKsTK~El~~Lq~qLe~kd~ei~rL~~~l   77 (81)
T 3qh9_A           23 ELLQELRHLKIKVEELENERNQYEWKLKATKAEVAQLQEQVALKDAEIERLHSQL   77 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            4677777777777777777777777777777777777777777777766666655

>3jsv_C NF-kappa-B essential modulator; ubiquitin, coiled-coil, cellular signaling, cytoplasm, isopeptide bond, nucleus, phosphoprotein, UBL conjugation; 2.70A {Mus musculus} PDB: 3f89_A 2zvo_B 2zvn_B

Probab=91.75  E-value=1.3  Score=36.67  Aligned_cols=49  Identities=18%  Similarity=0.288  Sum_probs=29.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          116 ARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQ  164 (455)
Q Consensus       116 ~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLe  164 (455)
                      +++..|+.|++-.+.+...-+.+.+.+..++.++...+..+...+..|+
T Consensus        40 E~i~vLk~Qv~IY~~DF~aERadREkl~~eKe~L~~ql~~lq~q~~~L~   88 (94)
T 3jsv_C           40 ETVPVLKAQADIYKADFQAERHAREKLVEKKEYLQEQLEQLQREFNKLK   88 (94)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSHHHHHHHHHHHTTC---
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Confidence            4666666777777766666666666666666666665555555544443

>3mq9_A Bone marrow stromal antigen 2 fused to maltose-BI periplasmic protein; HIV, antiviral protein; 2.80A {Escherichia coli}

Probab=91.29  E-value=4.8  Score=41.22  Aligned_cols=31  Identities=13%  Similarity=0.214  Sum_probs=12.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          163 LQKINDEQKSKIRKTERALKVAEEEMMRAKF  193 (455)
Q Consensus       163 Lek~~eEqekkI~elE~~Lq~lEeeL~kaq~  193 (455)
                      |++++...+++|++++.++..++.+++.+..
T Consensus       434 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  464 (471)
T 3mq9_A          434 LDAEKAQGQKKVEELEGEITTLNHKLQDASA  464 (471)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333334444444444444444444333

>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=91.27  E-value=7.7  Score=40.64  Aligned_cols=13  Identities=15%  Similarity=0.220  Sum_probs=4.8

Q ss_pred             HHHHHHHHHHHHH
Q 012833          173 KIRKTERALKVAE  185 (455)
Q Consensus       173 kI~elE~~Lq~lE  185 (455)
                      .++.+..+|+.++
T Consensus       176 ~~~~l~~ki~~l~  188 (464)
T 1m1j_B          176 VIDSLHKKIQKLE  188 (464)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            3333333333333

>3swk_A Vimentin; cytoskeleton, intermediate filament, alpha-helix, structural; 1.70A {Homo sapiens}

Probab=91.25  E-value=2.8  Score=33.96  Aligned_cols=62  Identities=13%  Similarity=0.210  Sum_probs=28.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          120 ELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERAL  181 (455)
Q Consensus       120 eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~L  181 (455)
                      .+..+++.++..+++.+..-+.=-.....+|..+..+.+.++.+.-...+++.+++.+.++|
T Consensus        18 ~l~~e~dn~~~~~edfk~KyE~E~~~R~~~E~d~~~LrkdvD~a~l~r~dLE~kvesL~eEl   79 (86)
T 3swk_A           18 RVEVERDNLAEDIMRLREKLQEEMLQREEAENTLQSFRQDVDNASLARLDLERKVESLQEEI   79 (86)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444555554444444333333333444444444444444444444444444444444443

>3s4r_A Vimentin; alpha-helix, cytoskeleton, intermediate filament, structural; 2.45A {Homo sapiens} PDB: 3ssu_A

Probab=91.20  E-value=4.1  Score=33.43  Aligned_cols=24  Identities=25%  Similarity=0.408  Sum_probs=14.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHh
Q 012833           44 KIELDQLKSKIRSLESHIDEKTQE   67 (455)
Q Consensus        44 ~~eL~~lr~kI~~Leski~ele~e   67 (455)
                      +.+|..|+.+++..-.++..++++
T Consensus         8 Ke~mq~LNdRlAsyIdKVR~LEqq   31 (93)
T 3s4r_A            8 KVELQELNDRFANLIDKVRFLEQQ   31 (93)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            445666677766666665555443

>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=91.12  E-value=0.53  Score=37.14  Aligned_cols=41  Identities=17%  Similarity=0.202  Sum_probs=24.1

Q ss_pred             HHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 012833           61 IDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQK  101 (455)
Q Consensus        61 i~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQk  101 (455)
                      +.+++..+..++++|..++..|+++++.|.+..+.|..|+.
T Consensus        21 i~eLq~~L~~K~eELr~kd~~I~eLEk~L~ekd~eI~~Lqs   61 (72)
T 3nmd_A           21 LRDLQYALQEKIEELRQRDALIDELELELDQKDELIQMLQN   61 (72)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45555556666666666666666666666666555555543

>2w83_C C-JUN-amino-terminal kinase-interacting protein 4; golgi apparatus, protein transport, ER-golgi transport, ARF, GTPase, effector, myristate; HET: GTP; 1.93A {Homo sapiens}

Probab=90.85  E-value=2.8  Score=33.33  Aligned_cols=70  Identities=23%  Similarity=0.266  Sum_probs=46.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          121 LEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMR  190 (455)
Q Consensus       121 Le~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~k  190 (455)
                      +-.+++.|-.+...+-.-+.+++--..++=.++.++..+.+.++.++...+.-...++.++..+|+++.+
T Consensus         7 mgkevEnLi~EN~eLl~TKNaLnvvk~DLI~rvdELt~E~e~l~~El~s~~~~~~r~~~ri~elEeElkr   76 (77)
T 2w83_C            7 MGREVENLILENTQLLETKNALNIVKNDLIAKVDELTCEKDVLQGELEAVKQAKLKLEEKNRELEEELRK   76 (77)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC---------
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            3466777777777777777777777777777888888888888888877777777777777777776654

>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=90.84  E-value=2.7  Score=43.40  Aligned_cols=12  Identities=8%  Similarity=0.252  Sum_probs=4.5

Q ss_pred             HHHHHHHHHHHH
Q 012833          117 RADELEKQIDNL  128 (455)
Q Consensus       117 ~i~eLe~qIe~L  128 (455)
                      ...++..++.++
T Consensus        85 ~skkml~~~~~~   96 (409)
T 1m1j_C           85 KSKKIIEEIIRY   96 (409)
T ss_dssp             HHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHH
Confidence            333333333333

>3efg_A Protein SLYX homolog; xanthomonas campestris PV. campestris, coiled-coil, structur genomics, PSI-2, protein structure initiative; 2.00A {Xanthomonas campestris PV}

Probab=90.82  E-value=0.69  Score=36.98  Aligned_cols=52  Identities=19%  Similarity=0.267  Sum_probs=38.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          141 ALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAK  192 (455)
Q Consensus       141 eLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq  192 (455)
                      .+++++.++|.++.-.+.-+++|+..+.+++..|+.+...+..+.+.+..+.
T Consensus        11 ~le~Ri~~LE~klAfqE~tIeeLn~~v~~Qq~~Id~L~~ql~~L~~rl~~~~   62 (78)
T 3efg_A           11 ELEARLVELETRLSFQEQALTELSEALADARLTGARNAELIRHLLEDLGKVR   62 (78)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTC----
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            5677778888888888888888888888888888888887777766555444

>2no2_A HIP-I, huntingtin-interacting protein 1; clathrin light chain binding, HIP1 coiled-coil domain, endocytosis, clathrin SELF-assembly, cell adhesion; 2.80A {Homo sapiens}

Probab=90.77  E-value=6.7  Score=33.01  Aligned_cols=31  Identities=10%  Similarity=0.148  Sum_probs=11.8

Q ss_pred             HHHHHHHHhhhchHHHHHHHHHHHHHHHHHH
Q 012833           59 SHIDEKTQELKGKDEVVAQKEKAIQDKSERI   89 (455)
Q Consensus        59 ski~ele~eI~~k~~eIk~~e~~I~e~e~~I   89 (455)
                      .+-.+..+++..-...-.+++..+.+++..|
T Consensus         8 RK~aE~~KqL~~~~q~~~e~e~~k~eL~~~~   38 (107)
T 2no2_A            8 RKNAEVTKQVSMARQAQVDLEREKKELEDSL   38 (107)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444443333333333333333333

>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=90.74  E-value=8.4  Score=34.07  Aligned_cols=14  Identities=14%  Similarity=0.211  Sum_probs=5.2

Q ss_pred             HHHHHHHHHHhhhc
Q 012833           57 LESHIDEKTQELKG   70 (455)
Q Consensus        57 Leski~ele~eI~~   70 (455)
                      +..+...+..+.+.
T Consensus        27 l~~eN~~Lk~e~e~   40 (155)
T 2oto_A           27 LRHENKDLKARLEN   40 (155)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
Confidence            33333333333333

>3i00_A HIP-I, huntingtin-interacting protein 1; transcription; 2.30A {Homo sapiens} PDB: 2qa7_A

Probab=89.82  E-value=1.7  Score=37.45  Aligned_cols=20  Identities=20%  Similarity=0.330  Sum_probs=8.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q 012833           80 KAIQDKSERIVSLQKELSSL   99 (455)
Q Consensus        80 ~~I~e~e~~I~eLq~eI~sL   99 (455)
                      ..|..+..+|..|..+++.+
T Consensus        15 ~~Ie~Lkreie~lk~ele~l   34 (120)
T 3i00_A           15 HLIERLYREISGLKAQLENM   34 (120)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444444

>2xnx_M M protein, M1-BC1; cell adhesion, virulence factor, streptococcal toxic shock S; 3.30A {Streptococcus pyogenes}

Probab=89.65  E-value=0.6  Score=41.47  Aligned_cols=49  Identities=20%  Similarity=0.288  Sum_probs=29.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          117 RADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQK  165 (455)
Q Consensus       117 ~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek  165 (455)
                      +.+.|++.+..+..+++..+..+..+++++..++....+++.....|..
T Consensus        60 ~~~~le~~~~~l~rdleasr~akk~~ea~la~l~~~~~~LeAE~aKLeE  108 (146)
T 2xnx_M           60 RANVLEKELEAITREQEINRNLLGNAKLELDQLSSEKEQLTIEKAKLEE  108 (146)
T ss_dssp             THHHHTTTTTTHHHHHHTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHGG
T ss_pred             hhhhhHhhHHHHHHHHHHHHHHHHhHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            3445666667777777777766666666666666655555554444433

>1fxk_C Protein (prefoldin); archaeal protein, chaperone; 2.30A {Methanothermobacter thermautotrophicusorganism_taxid} SCOP: a.2.5.1

Probab=89.54  E-value=6.2  Score=33.73  Aligned_cols=41  Identities=15%  Similarity=0.246  Sum_probs=21.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          108 AEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIE  148 (455)
Q Consensus       108 ~eei~~Ae~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~e  148 (455)
                      ++-+..++.++..++.+++.+++.++.++.++..+...+.+
T Consensus        87 ~eA~~~l~~r~~~l~~~~~~l~~~l~~l~~~i~~~~~~l~~  127 (133)
T 1fxk_C           87 EDAMESIKSQKNELESTLQKMGENLRAITDIMMKLSPQAEE  127 (133)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33445555566666666665555555555555444444433

>3mq9_A Bone marrow stromal antigen 2 fused to maltose-BI periplasmic protein; HIV, antiviral protein; 2.80A {Escherichia coli}

Probab=88.82  E-value=17  Score=37.09  Aligned_cols=36  Identities=28%  Similarity=0.259  Sum_probs=19.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          156 LSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRA  191 (455)
Q Consensus       156 leskveeLek~~eEqekkI~elE~~Lq~lEeeL~ka  191 (455)
                      +++++...++.+++++.+|.+++.+|+.++.++.++
T Consensus       434 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  469 (471)
T 3mq9_A          434 LDAEKAQGQKKVEELEGEITTLNHKLQDASAEVERL  469 (471)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            334444444455555556666666666666665554

>3iox_A AGI/II, PA; alpha helix, PPII helix, supersandwich fold, surface adhesin WALL, peptidoglycan-anchor, cell adhesion; HET: PMS; 1.80A {Streptococcus mutans} PDB: 3ipk_A* 1jmm_A

Probab=88.74  E-value=12  Score=39.39  Aligned_cols=42  Identities=21%  Similarity=0.226  Sum_probs=21.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          150 EKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRA  191 (455)
Q Consensus       150 Ekkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~ka  191 (455)
                      +..+...+..++..++...+.+.++...++.+..++.++..+
T Consensus        65 e~~l~kY~~dlakY~~~~AeY~~kl~aYe~~~~~~~k~lae~  106 (497)
T 3iox_A           65 EAKLAKYQADLAKYQKDLADYPVKLKAYEDEQTSIKAALAEL  106 (497)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334445555555555555555555555555554444444443

>2i1j_A Moesin; FERM, coiled-coil, C-ermad, ERM, radixin, ezrin, MER actin binding, masking, regulation, SELF-inhibition, cell A membrane protein; 2.10A {Spodoptera frugiperda} PDB: 2i1k_A 1e5w_A

Probab=87.90  E-value=0.64  Score=49.97  Aligned_cols=54  Identities=15%  Similarity=0.164  Sum_probs=9.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 012833          143 EARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEAT  196 (455)
Q Consensus       143 Eae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq~E~~  196 (455)
                      ..+...++.++.+.+..+..+....+.....-.+++.++..+++...+++.++.
T Consensus       404 ~~e~~~l~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~a~~~~~~~~~~l~  457 (575)
T 2i1j_A          404 AAERQKLEDEIRAKQEEVSRIQQEVELKDSETRRLQEEVEDARRKQDEAAAALL  457 (575)
T ss_dssp             --------------------------------------CHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444555555555666666666666666666666666666666555555554

>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=87.52  E-value=4.7  Score=34.94  Aligned_cols=25  Identities=40%  Similarity=0.497  Sum_probs=13.6

Q ss_pred             HHHHHHHHHHHHHHHHHHhhhchHH
Q 012833           49 QLKSKIRSLESHIDEKTQELKGKDE   73 (455)
Q Consensus        49 ~lr~kI~~Leski~ele~eI~~k~~   73 (455)
                      .+..+++.++.++.++++.+++.+.
T Consensus        10 ~l~~KvAElekkv~~lek~lk~~~e   34 (125)
T 2pms_C           10 APQAKIAELENQVHRLEQELKEIDE   34 (125)
T ss_dssp             SHHHHHHHHHHHHHHHHHHTTTTCC
T ss_pred             hHHHHHHHHHHHHHHHHHHHHhcch
Confidence            3455555555555555555555443

>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=87.10  E-value=4.8  Score=34.89  Aligned_cols=17  Identities=12%  Similarity=0.305  Sum_probs=6.6

Q ss_pred             HHHHHHHHHHHHHHHHH
Q 012833          177 TERALKVAEEEMMRAKF  193 (455)
Q Consensus       177 lE~~Lq~lEeeL~kaq~  193 (455)
                      ++..+..-+.++.+.+.
T Consensus       101 le~~la~KkAEleKtqa  117 (125)
T 2pms_C          101 LEKTIAAKKAELEKTEA  117 (125)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            33334333344444333

>2i1j_A Moesin; FERM, coiled-coil, C-ermad, ERM, radixin, ezrin, MER actin binding, masking, regulation, SELF-inhibition, cell A membrane protein; 2.10A {Spodoptera frugiperda} PDB: 2i1k_A 1e5w_A

Probab=86.77  E-value=0.98  Score=48.54  Aligned_cols=10  Identities=20%  Similarity=0.305  Sum_probs=4.1

Q ss_pred             HHHHHHHHHH
Q 012833           90 VSLQKELSSL   99 (455)
Q Consensus        90 ~eLq~eI~sL   99 (455)
                      .+|+..+..+
T Consensus       338 ~~~~~~~~~~  347 (575)
T 2i1j_A          338 QEYQDRLRQM  347 (575)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            3344444433

>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=86.50  E-value=19  Score=37.51  Aligned_cols=49  Identities=10%  Similarity=0.266  Sum_probs=28.3

Q ss_pred             HHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           49 QLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELS   97 (455)
Q Consensus        49 ~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~   97 (455)
                      .++..|+.|...+.+..+.-.+....+..+-+.+.+...++.+.++.+.
T Consensus        62 dv~~rI~kLkn~L~~~s~s~~~s~~y~~~~~~~lk~~~~q~~dndn~~~  110 (491)
T 1m1j_A           62 NYSQRIDNIRQQLADSQNKYKTSNRVIVETINILKPGLEGAQQLDENYG  110 (491)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHhhhccchhHHH
Confidence            3556666666666666666566555555555555555555555554443

>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=86.48  E-value=4.2  Score=32.79  Aligned_cols=46  Identities=13%  Similarity=0.184  Sum_probs=20.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          114 AHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAK  159 (455)
Q Consensus       114 Ae~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~Elesk  159 (455)
                      ++..|..++.++..++.+++.+..+-..|=+-+-.++.++..+.+.
T Consensus        33 ~q~~i~~lE~el~~~r~e~~~ql~EYq~LlnvK~~Le~EIatYRkL   78 (86)
T 1x8y_A           33 SRRLLAEKEREMAEMRARMQQQLDEYQELLDIKLALDMEIHAYRKL   78 (86)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            3334444445555555444444444333333334444444444333

>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=86.44  E-value=21  Score=37.21  Aligned_cols=36  Identities=14%  Similarity=0.322  Sum_probs=16.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          147 IEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALK  182 (455)
Q Consensus       147 ~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq  182 (455)
                      ..+..+++.--..+..|+..++.+..+|+.||..|.
T Consensus       121 ~yIK~kVd~qi~~IrvLq~~l~~q~skIQRLE~dI~  156 (491)
T 1m1j_A          121 VTLKQRVATQVNRIKALQNSIQEQVVEMKRLEVDID  156 (491)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333334444444455555555555554443

>1gk4_A Vimentin; intermediate filament, dimer, parallel coiled coil, heptad repeat, stutter; 2.3A {Homo sapiens} SCOP: h.1.20.1

Probab=86.11  E-value=12  Score=29.96  Aligned_cols=48  Identities=17%  Similarity=0.256  Sum_probs=23.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          112 DKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAK  159 (455)
Q Consensus       112 ~~Ae~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~Elesk  159 (455)
                      ..++..|..++.++..++.+++.+..+-..|=+-+-.++.++..+.+.
T Consensus        29 ~~~q~~i~~lE~eL~~~r~e~~~q~~EYq~LlnvK~~Ld~EIatYRkL   76 (84)
T 1gk4_A           29 ANYQDTIGRLQDEIQNMKEEMARHLREYQDLLNVKMALDIEIATYRKL   76 (84)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            344445555555555555555555444444444444444444444433

>3a7o_A Autophagy protein 16; coiled-coil, coiled coil, cytoplasmic vesicle, protein transport, transport, vacuole; 2.50A {Saccharomyces cerevisiae}

Probab=86.07  E-value=3.4  Score=32.35  Aligned_cols=43  Identities=23%  Similarity=0.241  Sum_probs=28.1

Q ss_pred             HHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 012833           60 HIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKK  102 (455)
Q Consensus        60 ki~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK  102 (455)
                      .+..+.+++.+++.+|..++..|.=+++....|.++|-++.-+
T Consensus        19 ~l~~Lr~eL~~Ke~eI~~L~e~i~lk~kd~ErLNDEiislNIE   61 (75)
T 3a7o_A           19 TLAILQKELKSKEQEIRRLKEVIALKNKNTERLNDELISGTIE   61 (75)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHhhHHHHHhHHH
Confidence            4444455555666677777777777777777777777666533

>3iv1_A Tumor susceptibility gene 101 protein; coiled_COIL, tumorigenesis, CELL_cycle regulation, alternative splicing, cell cycle, cell division; HET: MSE; 2.50A {Homo sapiens}

Probab=85.34  E-value=13  Score=29.72  Aligned_cols=58  Identities=19%  Similarity=0.401  Sum_probs=31.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          113 KAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQ  170 (455)
Q Consensus       113 ~Ae~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEq  170 (455)
                      ...+.++....+++.|++.-+.++.-...++.....++.+..+++..++.+..+.+++
T Consensus        15 rl~E~~~q~qaEl~sLrrT~~EL~~G~~KL~~mi~~l~~E~~~l~~ni~~lk~K~~EL   72 (78)
T 3iv1_A           15 RMKEEMDRAQAELNALKRTEEDLKKGHQKLEEMVTRLDQEVAEVDKNIELLKKKDEEL   72 (78)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444555555555555555555555555555555555555555555555555544443

>2xzr_A Immunoglobulin-binding protein EIBD; cell adhesion, trimeric autotransporter adhesin, TAA; 2.80A {Enterobacteria phage p-eibd}

Probab=84.94  E-value=15  Score=30.37  Aligned_cols=28  Identities=14%  Similarity=0.280  Sum_probs=10.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          143 EARAIEAEKKISDLSAKLEKLQKINDEQ  170 (455)
Q Consensus       143 Eae~~elEkkl~EleskveeLek~~eEq  170 (455)
                      +++++....++.+-.+++..+..+.+++
T Consensus        61 ~aRlnsqQrQI~ENhkEMKq~aaqsaaL   88 (114)
T 2xzr_A           61 SARLDSQQRQINENHKEMKQIEDKIEEI   88 (114)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333333333333

>3l4q_C Phosphatidylinositol 3-kinase regulatory subunit beta; PI3K, phosphoinositide-3-kinase, influenza virus, NS1; 2.30A {Bos taurus} PDB: 2v1y_B

Probab=84.27  E-value=24  Score=32.06  Aligned_cols=49  Identities=14%  Similarity=0.160  Sum_probs=20.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           48 DQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKEL   96 (455)
Q Consensus        48 ~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI   96 (455)
                      ..+.++.......-+.+-.+....++||.-+...|+-.+..|.-++.++
T Consensus        20 ~e~h~qy~~ks~~yd~l~e~y~r~sqEiq~Kr~AieAF~E~ik~FeeQ~   68 (170)
T 3l4q_C           20 KVYHQQYQDKSREYDQLYEEYTRTSQELQMKRTAIEAFNETIKIFEEQG   68 (170)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333333444444444444444444444444444

>3i00_A HIP-I, huntingtin-interacting protein 1; transcription; 2.30A {Homo sapiens} PDB: 2qa7_A

Probab=83.67  E-value=16  Score=31.42  Aligned_cols=11  Identities=45%  Similarity=0.603  Sum_probs=4.1

Q ss_pred             HHHHHHHHHHH
Q 012833           89 IVSLQKELSSL   99 (455)
Q Consensus        89 I~eLq~eI~sL   99 (455)
                      |..|..+|+.+
T Consensus        17 Ie~Lkreie~l   27 (120)
T 3i00_A           17 IERLYREISGL   27 (120)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            33333333333

>3a7o_A Autophagy protein 16; coiled-coil, coiled coil, cytoplasmic vesicle, protein transport, transport, vacuole; 2.50A {Saccharomyces cerevisiae}

Probab=83.21  E-value=7.5  Score=30.40  Aligned_cols=59  Identities=27%  Similarity=0.316  Sum_probs=40.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 012833           48 DQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLN  106 (455)
Q Consensus        48 ~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~  106 (455)
                      +.++.-+..|++.+.+.+.+|..+.+.++-+.+..+.++.+|=++.-+=.-||.+...+
T Consensus        14 ~~~~~~l~~Lr~eL~~Ke~eI~~L~e~i~lk~kd~ErLNDEiislNIENNlL~~rl~~l   72 (75)
T 3a7o_A           14 DALLNTLAILQKELKSKEQEIRRLKEVIALKNKNTERLNDELISGTIENNVLQQKLSDL   72 (75)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC--
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHhhHHHHHhHHHHHHHHHHHHHH
Confidence            34555667777777777777777777777777777777777777777767776655443

>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=83.16  E-value=18  Score=29.62  Aligned_cols=68  Identities=25%  Similarity=0.243  Sum_probs=32.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          123 KQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMR  190 (455)
Q Consensus       123 ~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~k  190 (455)
                      +|.+.|+.-+..+..+.+.-+.++.+++.++.+.-..++.-.-..-+++..+...+..-..++-.+..
T Consensus        25 kQk~eL~~~l~~l~~e~~~R~~~i~el~akidd~Lk~l~~EklAkldLE~RLsKtEKDkAiLELkLaE   92 (101)
T 1d7m_A           25 KQKDQLNSLLASLESEGAEREKRLRELEAKLDETLKNLELEKLARMELEARLAKTEKDRAILELKLAE   92 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHH
Confidence            44444444444444444444555555555555544444433333334555555555554444433333

>1x79_B RAB GTPase binding effector protein 1; rabaptin5, GGA protein, GAT domain, intracellular trafficking, protein transport; 2.41A {Homo sapiens} SCOP: h.1.27.2

Probab=83.06  E-value=21  Score=30.37  Aligned_cols=59  Identities=19%  Similarity=0.244  Sum_probs=22.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          120 ELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERAL  181 (455)
Q Consensus       120 eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~L  181 (455)
                      .|+.+...++++++....+...++..   +..+.++-..++..|......-+..+.++.+..
T Consensus        10 ~lq~~~~ql~~qL~k~~~~r~~Le~~---w~~k~E~~k~qV~~L~~~~q~sE~~L~~Lqq~f   68 (112)
T 1x79_B           10 KLQLMLRQANDQLEKTMKDKQELEDF---IKQSSEDSSHQISALVLRAQASEILLEELQQGL   68 (112)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33334444444444444443333333   222233333344444444444444444443333

>3ghg_C Fibrinogen gamma 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: 1deq_C

Probab=83.01  E-value=22  Score=36.65  Aligned_cols=27  Identities=7%  Similarity=0.085  Sum_probs=10.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          113 KAHARADELEKQIDNLKKESEKQQKEK  139 (455)
Q Consensus       113 ~Ae~~i~eLe~qIe~LkkeLE~~~~e~  139 (455)
                      .+.+.-..+-+++.+++..+..+...+
T Consensus        81 ~~~q~Skkml~~~~~~~~~~~~~~~~i  107 (411)
T 3ghg_C           81 AATLKSRKMLEEIMKYEASILTHDSSI  107 (411)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHhhHHHH
Confidence            333333333344444444433333333

>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=82.97  E-value=19  Score=37.10  Aligned_cols=28  Identities=14%  Similarity=0.272  Sum_probs=12.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          158 AKLEKLQKINDEQKSKIRKTERALKVAE  185 (455)
Q Consensus       158 skveeLek~~eEqekkI~elE~~Lq~lE  185 (455)
                      ..+..|+..+..++.+|+.++..+..++
T Consensus       105 ~~i~~l~~~~~~~~~~i~~l~~~i~~l~  132 (409)
T 1m1j_C          105 NTIQQLTDMHIMNSNKITQLKQKIAQLE  132 (409)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHHH
Confidence            3333344444444444444444444443

>3hhm_B NISH2 P85alpha; PI3KCA, PI3K, PIK3R1, phosphatidilynositol 3,4,5- triphosphate, wortmannin, H1047R, ATP-binding, disease mutation, kinase; HET: KWT; 2.80A {Homo sapiens} PDB: 3hiz_B 2rd0_B 4a55_B* 3mtt_A

Probab=82.14  E-value=42  Score=33.95  Aligned_cols=54  Identities=15%  Similarity=0.223  Sum_probs=24.8

Q ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           43 LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKEL   96 (455)
Q Consensus        43 l~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI   96 (455)
                      +...|.............-+.+-.+.....++|..+...|+-.+..|.-++.++
T Consensus       124 ~~~~l~e~~~~~~~~~~~~~~~~~~~~~~~~e~~~k~~a~~af~~~~~~f~~q~  177 (373)
T 3hhm_B          124 VGKKLHEYNTQFQEKSREYDRLYEEYTRTSQEIQMKRTAIEAFNETIKIFEEQC  177 (373)
T ss_dssp             GGC--CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcccHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444444444444444455555555555555555555544

>3c9i_A Tail needle protein GP26; xenon, coiled-coil, protein fiber, coiled coil, late protein, viral protein; 1.95A {Bacteriophage P22} PDB: 2poh_A

Probab=82.01  E-value=22  Score=33.29  Aligned_cols=63  Identities=22%  Similarity=0.303  Sum_probs=33.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          113 KAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIR  175 (455)
Q Consensus       113 ~Ae~~i~eLe~qIe~LkkeLE~~~~e~eeLEae~~elEkkl~EleskveeLek~~eEqekkI~  175 (455)
                      .-+.+|..++..++.-+.++......+..++.++...|..+..+..++..++..+...+..|.
T Consensus        81 dHe~rI~a~~a~l~dHE~RIt~~~~~ia~~e~Rit~~e~~i~~l~~~v~~ld~~vt~~et~Is  143 (242)
T 3c9i_A           81 DHEARIKQLRIDVDDHESRITANTKAITALNVRVTTAEGEIASLQTNVSALDGRVTTAENNIS  143 (242)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cchhhhhhhhcccccHHHHhhhhhhhhhhhhheeecccccchhhhhhhhhhcccccccccchh
Confidence            445555556666666665555555555555555555555555555554444444444333333

>2qyw_A Vesicle transport through interaction with T-SNAR homolog; HABC domain, protein transport, endocytosis; 2.00A {Mus musculus} PDB: 2v8s_V

Probab=82.00  E-value=12  Score=30.87  Aligned_cols=57  Identities=16%  Similarity=0.270  Sum_probs=37.3

Q ss_pred             hchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           69 KGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKES  132 (455)
Q Consensus        69 ~~k~~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s~~~~eei~~Ae~~i~eLe~qIe~LkkeL  132 (455)
                      +++...|.+++..+.+.+..|..+.-++.++.       .......+.++.....++++|+.++
T Consensus        45 e~rk~~i~~ie~~ldEA~eLl~qMelE~r~~p-------~s~R~~~~~klr~Yk~dL~~lk~el  101 (102)
T 2qyw_A           45 EEKKKLVRDFDEKQQEANETLAEMEEELRYAP-------LTFRNPMMSKLRNYRKDLAKLHREV  101 (102)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSC-------HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-------HHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            56667777788888888888887777776653       1223355666666666666665543

>2lw1_A ABC transporter ATP-binding protein UUP; ABC REG subfamily, DNA binding protein; NMR {Escherichia coli}

Probab=81.74  E-value=11  Score=30.37  Aligned_cols=23  Identities=17%  Similarity=0.372  Sum_probs=10.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q 012833           75 VAQKEKAIQDKSERIVSLQKELS   97 (455)
Q Consensus        75 Ik~~e~~I~e~e~~I~eLq~eI~   97 (455)
                      +..++..|..++..|..++.++.
T Consensus        24 le~le~~Ie~LE~~i~~le~~la   46 (89)
T 2lw1_A           24 LEQLPQLLEDLEAKLEALQTQVA   46 (89)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHh
Confidence            33444444444445555555443

>4gkw_A Spindle assembly abnormal protein 6; double helix, SAS-5, centriole, structural protein; 3.30A {Caenorhabditis elegans}

Probab=81.25  E-value=27  Score=30.51  Aligned_cols=44  Identities=20%  Similarity=0.246  Sum_probs=17.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          141 ALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVA  184 (455)
Q Consensus       141 eLEae~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~l  184 (455)
                      +|++.+.+-..-+..+..-+--|.++++.-+-+.++.-...+.+
T Consensus       102 ELEADLKEKDsMVe~LT~TiG~LrKELEdEklK~~E~MdSFE~L  145 (167)
T 4gkw_A          102 ELEADLKEKDSMVESLTETIGILRKELENEKLKAAENMDSFEKL  145 (167)
T ss_dssp             HHHHTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444444444444443333333333333333

>2nrj_A HBL B protein; enterotoxin, hemolysis, transmembrane, structural genomics, PSI-2, protein structure initiative; 2.03A {Bacillus cereus} SCOP: h.4.4.2

Probab=81.13  E-value=38  Score=33.82  Aligned_cols=63  Identities=14%  Similarity=0.211  Sum_probs=32.2

Q ss_pred             ccHHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 012833           42 PLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVA-----------QKEKAIQDKSERIVSLQKELSSLQKKET  104 (455)
Q Consensus        42 ~l~~eL~~lr~kI~~Leski~ele~eI~~k~~eIk-----------~~e~~I~e~e~~I~eLq~eI~sLQkK~s  104 (455)
                      .+..-|+.|+..+...+.+.+.+..+|.+....+.           .+...+......|..|+.+|+.+++++.
T Consensus       120 ~l~~~L~~L~~~i~~~q~~~~~~~~~L~~F~~~l~~d~~~f~~~~~~l~~~L~~~~~~I~~Lq~eI~~l~~~I~  193 (346)
T 2nrj_A          120 TLKEGITDLRGEIQQNQKYAQQLIEELTKLRDSIGHDVRAFGSNKELLQSILKNQGADVDADQKRLEEVLGSVN  193 (346)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHTGGGC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHhhHHhHHHHHHHHHhcccccHHHHHHHHHHHHHHHH
Confidence            34555566666666666666555555555555442           2223333333345555555555555444

>1cii_A Colicin IA; bacteriocin, ION channel formation, transmembrane protein; 3.00A {Escherichia coli} SCOP: f.1.1.1 h.4.3.1

Probab=81.01  E-value=58  Score=34.12  Aligned_cols=12  Identities=25%  Similarity=0.025  Sum_probs=7.4

Q ss_pred             HHHHHHHHHHHH
Q 012833          410 ASALLVLPVIIL  421 (455)
Q Consensus       410 asal~~~p~~~~  421 (455)
                      -|++++.|+-++
T Consensus       566 FS~~lGtPLGIl  577 (602)
T 1cii_A          566 FSILTGSALGII  577 (602)
T ss_dssp             HHHHTTCCCHHH
T ss_pred             HHHHHhhHHHHH
Confidence            467777775443

>1jcd_A Major outer membrane lipoprotein; protein folding, coiled coil, helix capping, alanine-zipper, membrane protein; 1.30A {Escherichia coli} SCOP: h.1.16.1 PDB: 1eq7_A 1t8z_A* 2guv_A 2gus_A 1jcc_A 1kfn_A 1kfm_A

Probab=80.83  E-value=7.9  Score=28.56  Aligned_cols=6  Identities=17%  Similarity=0.207  Sum_probs=2.1

Q ss_pred             HHHHHH
Q 012833          118 ADELEK  123 (455)
Q Consensus       118 i~eLe~  123 (455)
                      ...++.
T Consensus        41 A~RAN~   46 (52)
T 1jcd_A           41 AARANQ   46 (52)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            333333

>3cvf_A Homer-3, homer protein homolog 3; coiled coil, alternative splicing, cell junction, cytoplasm, membrane, phosphoprotein, polymorphism; 2.90A {Homo sapiens}

Probab=80.77  E-value=5.9  Score=31.70  Aligned_cols=46  Identities=28%  Similarity=0.368  Sum_probs=20.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 012833          151 KKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEAT  196 (455)
Q Consensus       151 kkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~kaq~E~~  196 (455)
                      ...+++..+++.++....+++.++..++..++....+-.+++.|..
T Consensus         6 ~e~e~~~~klq~~E~rN~~Le~~v~~le~~Le~s~~~q~~~~~Elk   51 (79)
T 3cvf_A            6 AEREETQQKVQDLETRNAELEHQLRAMERSLEEARAERERARAEVG   51 (79)
T ss_dssp             ----CTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444444444555555555555544444444444444

>3jsv_C NF-kappa-B essential modulator; ubiquitin, coiled-coil, cellular signaling, cytoplasm, isopeptide bond, nucleus, phosphoprotein, UBL conjugation; 2.70A {Mus musculus} PDB: 3f89_A 2zvo_B 2zvn_B

Probab=80.76  E-value=14  Score=30.52  Aligned_cols=11  Identities=55%  Similarity=0.782  Sum_probs=4.1

Q ss_pred             HHHHHHHHHHH
Q 012833          123 KQIDNLKKESE  133 (455)
Q Consensus       123 ~qIe~LkkeLE  133 (455)
                      .+|+.|+.++.
T Consensus        23 ~~id~lke~~~   33 (94)
T 3jsv_C           23 ELIDKLKEEAE   33 (94)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            33333333333

>2yko_A LINE-1 ORF1P; RNA-binding protein, genome evolution, nucleic acid chaperon coiled-coil; HET: MSE; 2.10A {Homo sapiens} PDB: 2ykp_A 2ykq_A 2ldy_A

Probab=80.44  E-value=2.5  Score=40.42  Aligned_cols=50  Identities=16%  Similarity=0.252  Sum_probs=33.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833           48 DQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELS   97 (455)
Q Consensus        48 ~~lr~kI~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~eI~   97 (455)
                      +.+++.++.++..|++++..+++..+.....+..|..++..+.+|.+.+.
T Consensus         2 e~lnsRvd~~EErIs~le~rleei~q~eq~~ekrik~ne~sL~dL~d~iR   51 (233)
T 2yko_A            2 ASLRSRCDQLEERVSAAEDEINEIKREGKFREKRIKRNEQSLQEIWDYVK   51 (233)
T ss_dssp             -----CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             cchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            45677777788888888777777777777777777777777777777663

---

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	455
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 = 36.7 bits (85), Expect = 0.001
 Identities = 10/98 (10%), Positives = 35/98 (35%), Gaps = 4/98 (4%)

Query: 255 VQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVV 314
           ++ +   ++ +  P  +E        +   +Q  + +     E  +  +  +   VQ ++
Sbjct: 50  LKAYKSELEEQLTPVAEE----TRARLSKELQAAQARLGADMEDVRGRLVQYRGEVQAML 105

Query: 315 DPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTK 352
               +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	455
d1gs9a_	144	Apolipoprotein E {Human (Homo sapiens), E4 [TaxId:	98.58
d1gs9a_	144	Apolipoprotein E {Human (Homo sapiens), E4 [TaxId:	98.57
d2ap3a1	185	Hypothetical protein MW0975 (SA0943) {Staphylococc	95.61
d2ap3a1	185	Hypothetical protein MW0975 (SA0943) {Staphylococc	94.32
d1seta1	110	Seryl-tRNA synthetase (SerRS) {Thermus thermophilu	92.45
d1fxkc_	133	Prefoldin alpha subunit {Archaeon Methanobacterium	92.15
d1fxka_	107	Prefoldin beta subunit {Archaeon Methanobacterium	91.19
d1fxkc_	133	Prefoldin alpha subunit {Archaeon Methanobacterium	88.72
d1gqea_	362	Polypeptide chain release factor 2 (RF2) {Escheric	85.89

>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=98.58  E-value=3.9e-08  Score=85.65  Aligned_cols=93  Identities=12%  Similarity=0.157  Sum_probs=57.9

Q ss_pred             hhhhhHHHHHHhhhcccchhHHHhhhhHHHHHHHHhhhcchhHHHHHhhhchhHHHHhhhhhhHHHHHHhhccchhHhHH
Q 012833          265 KWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVR  344 (455)
Q Consensus       265 k~~p~~~~~w~~~~~~~~p~ve~~k~k~~p~~e~~k~~~~p~~~~~~~~~~Py~~e~k~~~~py~~qa~~~~~p~~~~~~  344 (455)
                      ++.|.+.+    ....+.+|++.++.++.|+++.+++.+++.++.+++.+.|++++++..+.||+++++....|+++.++
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            45555555    34444556666666666666666666666666666666666666666666666666666666666666


Q ss_pred             HhhcchHHHHHHHHHHH
Q 012833          345 VALKPYTKKVVRAYGKF  361 (455)
Q Consensus       345 ~~~~P~~~~v~~~~~~~  361 (455)
                      ..+.||++.++..+.+.
T Consensus       114 ~~l~p~~eel~~~l~~~  130 (144)
T d1gs9a_         114 VRLASHLRKLRKRLLRD  130 (144)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            66666666665554444

>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=98.57  E-value=1.8e-08  Score=87.81  Aligned_cols=89  Identities=11%  Similarity=0.123  Sum_probs=56.1

Q ss_pred             hHHHHHhhhhhhHHHHHHhhhcccchhHHHhhhhHHHHHHHHhhhcchhHHHHHhhhchhHHHHhhhhhhHHHHHHhhcc
Q 012833          258 HVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAK  337 (455)
Q Consensus       258 ~~~~~~~k~~p~~~~~w~~~~~~~~p~ve~~k~k~~p~~e~~k~~~~p~~~~~~~~~~Py~~e~k~~~~py~~qa~~~~~  337 (455)
                      +++.++.++.|++.+    ++..+.++++.++.++.|..+.+|+.+.||+..+++.+.|++.+++..+.||++..++-..
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            344566666666655    5555556666666666666666666666666666666666666666666666666666666


Q ss_pred             chhHhHHHhhcch
Q 012833          338 PHVDNVRVALKPY  350 (455)
Q Consensus       338 p~~~~~~~~~~P~  350 (455)
                      ++++.++..+.||
T Consensus       129 ~~~eel~~kL~py  141 (144)
T d1gs9a_         129 RDADDLQKRLAVY  141 (144)
T ss_dssp             HHHHHHHHHHHHS
T ss_pred             HHHHHHHHHhhCc
Confidence            6666666666665

>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=95.61  E-value=0.39  Score=38.54  Aligned_cols=47  Identities=6%  Similarity=0.025  Sum_probs=18.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012833          145 RAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRA  191 (455)
Q Consensus       145 e~~elEkkl~EleskveeLek~~eEqekkI~elE~~Lq~lEeeL~ka  191 (455)
                      ....+...+......+..+...+..+...+.++...+..+...+..+
T Consensus       131 ~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~  177 (185)
T d2ap3a1         131 SEKTLFKYLNQNDATQQGVNEKSKAIEQNYKKLKEVSDKYTKVLNKV  177 (185)
T ss_dssp             HHHHHHHHHTSTTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333334444444444444444444444444333333

>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=94.32  E-value=0.97  Score=36.04  Aligned_cols=19  Identities=21%  Similarity=0.324  Sum_probs=7.8

Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q 012833           47 LDQLKSKIRSLESHIDEKT   65 (455)
Q Consensus        47 L~~lr~kI~~Leski~ele   65 (455)
                      +.....++..++..+..+.
T Consensus        24 ~~~~~~k~~~~e~~~~~~~   42 (185)
T d2ap3a1          24 IKTVGKKIAELDEKKKKLT   42 (185)
T ss_dssp             HHHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            3334444444444444333

>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=92.45  E-value=0.97  Score=35.74  Aligned_cols=32  Identities=19%  Similarity=0.357  Sum_probs=17.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 012833           73 EVVAQKEKAIQDKSERIVSLQKELSSLQKKET  104 (455)
Q Consensus        73 ~eIk~~e~~I~e~e~~I~eLq~eI~sLQkK~s  104 (455)
                      ..+-+++....+...++.+|+++...+.+.+.
T Consensus        28 d~i~~ld~~rr~l~~~~e~l~~~rN~~sk~i~   59 (110)
T d1seta1          28 EALLALDREVQELKKRLQEVQTERNQVAKRVP   59 (110)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHGG
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44555555555555666666665555554443

>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=92.15  E-value=0.99  Score=36.64  Aligned_cols=35  Identities=3%  Similarity=0.004  Sum_probs=15.0

Q ss_pred             HHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHH
Q 012833           55 RSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERI   89 (455)
Q Consensus        55 ~~Leski~ele~eI~~k~~eIk~~e~~I~e~e~~I   89 (455)
                      .+|..+++.++++++.+.+.+..++..+.+.+..+
T Consensus         4 ~eL~~~~~~l~~~l~~l~~~i~~l~~~~~e~~~~~   38 (133)
T d1fxkc_           4 AEIVAQLNIYQSQVELIQQQMEAVRATISELEILE   38 (133)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444444444444444444444433

>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=91.19  E-value=1.5  Score=34.50  Aligned_cols=9  Identities=11%  Similarity=0.243  Sum_probs=3.2

Q ss_pred             HHHHHHHHH
Q 012833          117 RADELEKQI  125 (455)
Q Consensus       117 ~i~eLe~qI  125 (455)
                      ++..++.+|
T Consensus        73 ~~e~l~~~i   81 (107)
T d1fxka_          73 KLETLQLRE   81 (107)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            333333333

>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=88.72  E-value=4.8  Score=32.20  Aligned_cols=23  Identities=4%  Similarity=0.151  Sum_probs=9.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q 012833           77 QKEKAIQDKSERIVSLQKELSSL   99 (455)
Q Consensus        77 ~~e~~I~e~e~~I~eLq~eI~sL   99 (455)
                      ++...++..+..|..++++|..+
T Consensus         5 eL~~~~~~l~~~l~~l~~~i~~l   27 (133)
T d1fxkc_           5 EIVAQLNIYQSQVELIQQQMEAV   27 (133)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            33334444444444444444433

>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=85.89  E-value=3  Score=39.86  Aligned_cols=11  Identities=27%  Similarity=0.431  Sum_probs=4.1

Q ss_pred             HHHHHHHHHHH
Q 012833          181 LKVAEEEMMRA  191 (455)
Q Consensus       181 Lq~lEeeL~ka  191 (455)
                      +..++..+.++
T Consensus       100 l~~l~~~l~~l  110 (362)
T d1gqea_         100 LDALEEKLAQL  110 (362)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHhhhhhHH
Confidence            33333333333