Citrus Sinensis ID: 013360

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440----
Protein Sequence
MAASKLVIFSLFFALILTAADVSIQGEDVPPLTASDAVDSSPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTEVHSAWLPPWLAVHLLQCQSLIETHWNAHGKPAMDVAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVRAYGKFLKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAASALLVLPVIILFRIGSAIFCKKARKPVRHSHHHSRRKAKRGHPDK
Secondary Structure (PSIPRED)
cccHHHHHHHHHHHHHHHHHcHHHcccccccccccHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccHHHHHHHHHHHHHHHHcccccccccccccccccHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHccHHHHHHHHHHcHHHHHHHHcccHHHHHHHHHHcHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccHHHHcccccc
Coil and Loop (DISEMBL)
MAASKLVIFSLFFALILTAadvsiqgedvppltasdavdssplkIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTEVHSAWLPPWLAVHLLQCQSLIEthwnahgkpAMDVAIQKALEKKAqagkwvqphVETIkakwipavKEQWVVFTTnvephvqtLKTKTIEACEatktavtphIIRVQEVVDPYFQEakkfskpyidqvatvakphvdnVRVALKPYTKKVVRAYGKFLKSATTYHHQVQASVQEMLKKheltsplatKELEWFAASALLVLPVIILFRIGSAifckkarkpvrhshhhsrrkakrghpdk
Flexible Loop (DISEMBL)
MAASKLVIFSLFFALILTAADVSIQGEDVPPltasdavdssplKIELDQLKSKIRSLEshidektqelkgkdevvAQKEkaiqdkserIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLeklqkindeqkskirkteraLKVAEEEMMRAKFEATSRSKELTEVHSAWLPPWLAVHLLQCQSLIETHWNAHGKPAMDVAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEAtktavtphiiRVQEVVDPYFQEAKKFSKPYIDQVatvakphvdnvrvalkpytkKVVRAYGKFLKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAASALLVLPVIILFRIGSAIFCkkarkpvrhshhhsrrkakrghpdk
Low Complexity Region (SEG)
MAASKLVIFSLFFALILTAADVSIQGEDVPPLTASDAVDSSPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNlkkesekqqkekealeaRAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTEVHSAWLPPWLAVHLLQCQSLIETHWNAHGKPAMDVAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVRAYGKFLKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAASALLVLPVIILFRIGSAIFCKKArkpvrhshhhsrrkakrghPDK
Disordered region (IsUnstruct)
****KLVIFSLFFALILTAADVSIQ*********************************************************************************************************************************************************************************TEVHSAWLPPWLAVHLLQCQSLIETHWNAHGKPAMDVAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVRAYGKFLKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAASALLVLPVIILFRIGSAIFCKK***********************
Disordered Region (DISOPRED)
******V**SLFFALILTAA********************************************************************************************************************************************************************************************WLPPWLAVHLL*******************************************************VV*****************EACEATKTAVTPHIIRVQEVVDPYFQEAKKF*KPYI****************ALKPYTKKVVRAYGKFLKSATTYH***Q******LKKHELTSPLATKELEWFAASALLVLPVIILFRIGSA****************************
Disordered Region (DISEMBL)
MAASKLVIFSLFFALILTAADVSIQGEDVPPLTASDAVDSSPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLK************LEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRA*************VHSAWLPPWLAVHLLQCQSLIETHWNAHGKPAMDVAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVRAYGKFLKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAASALLVLPVIILFRIGSAIFCKK***********************
Disordered Region (DISPRO)
**ASKLVIFSLFFALILTAADVSIQGEDVPPLTASDAVDSSPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTEVHSAWLPPWLAVHLLQCQSLIETHWNAHGKPAMDVAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVRAYGKFLKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAASALLVLPVIILFRIGSAIFCKK***********************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
SSSSSSSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
SSSSSSSSSSSSSSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MAASKLVIFSLFFALILTAADVSIQGEDVPPLTASDAVDSSPLKIExxxxxxxxxxxxxxxxxxxxxLKGKDEVxxxxxxxxxxxxxxxxxxxxxxxxxxxxExxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxATSRSKELTEVHSAWLPPWLAVHLLQCQSLIETHWNAHGKPAMDVAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVRAYGKFLKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAASALLVLPVIILFRIGSAIFCKKARKPVRHSHHHSRRKAKRGHPDK
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	444
225429824	449	PREDICTED: uncharacterized protein LOC10	1.0	0.988	0.674	1e-171
255574131	440	conserved hypothetical protein [Ricinus	0.979	0.988	0.700	1e-171
224121216	446	predicted protein [Populus trichocarpa]	1.0	0.995	0.692	1e-170
224115694	447	predicted protein [Populus trichocarpa]	1.0	0.993	0.686	1e-168
363806748	446	uncharacterized protein LOC100781922 pre	0.984	0.979	0.644	1e-162
357466595	439	hypothetical protein MTR_3g109330 [Medic	0.975	0.986	0.646	1e-161
449509133	448	PREDICTED: LOW QUALITY PROTEIN: uncharac	1.0	0.991	0.602	1e-149
449437044	448	PREDICTED: uncharacterized protein LOC10	1.0	0.991	0.600	1e-149
388521969	435	unknown [Lotus japonicus]	0.970	0.990	0.625	1e-147
217074086	404	unknown [Medicago truncatula]	0.896	0.985	0.634	1e-143

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

 Score =  608 bits (1569), Expect = e-171,   Method: Compositional matrix adjust.
 Identities = 303/449 (67%), Positives = 359/449 (79%), Gaps = 5/449 (1%)

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

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

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

Query: 178 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 YGKFLKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAASALLVLPVIILFRIGSAI 417
           YGKFLKSATTYH +VQ +VQE LK HELT PLATKEL WFAASALL LP+I LFRI SAI
Sbjct: 361 YGKFLKSATTYHQKVQDTVQEKLKNHELTKPLATKELVWFAASALLALPIIFLFRICSAI 420

Query: 418 FCKKARKPVR--HSHHHSRRKAKRGHPDK 444
           FCKKA+KP+R  H++HH RRK KRGHPDK
Sbjct: 421 FCKKAKKPIRNGHTNHHPRRKPKRGHPDK 449

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  608 bits (1568), Expect = e-171,   Method: Compositional matrix adjust.
 Identities = 311/444 (70%), Positives = 374/444 (84%), Gaps = 9/444 (2%)

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

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

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

Query: 182 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 LKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAASALLVLPVIILFRIGSAIFCKK 421
           L+SA+TYHHQVQ +VQE L KHELT PLATKEL WF ASALL LP+I+L RI SAIFCKK
Sbjct: 357 LESASTYHHQVQGTVQETLNKHELTRPLATKELIWFMASALLALPIILLSRICSAIFCKK 416

Query: 422 ARKPVRHSH-HHSRRKAKRGHPDK 444
           A+KP+RH++ +H+RRKAKRGHPDK
Sbjct: 417 AKKPIRHANTNHARRKAKRGHPDK 440

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|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 =  605 bits (1561), Expect = e-170,   Method: Compositional matrix adjust.
 Identities = 309/446 (69%), Positives = 358/446 (80%), Gaps = 2/446 (0%)

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 KFLKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAASALLVLPVIILFRIGSAIFC 419
           KFL+SATTYH+QVQ++VQE L+KHELT PLATK+  WF ASAL  LP+ IL R+ S+IFC
Sbjct: 361 KFLESATTYHNQVQSTVQETLEKHELTKPLATKDSIWFIASALFTLPIFILARVCSSIFC 420

Query: 420 KKARKPVRHSH-HHSRRKAKRGHPDK 444
           KK++KPVR++   HSRRKAKRGHPDK
Sbjct: 421 KKSKKPVRNAQTSHSRRKAKRGHPDK 446

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  599 bits (1544), Expect = e-168,   Method: Compositional matrix adjust.
 Identities = 307/447 (68%), Positives = 361/447 (80%), Gaps = 3/447 (0%)

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 GKFLKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAASALLVLPVIILFRIGSAIF 418
           GKFL+SATTYH+QVQ +VQE L+KHELT PLA KEL WF ASALL LPVIIL R  S+IF
Sbjct: 361 GKFLESATTYHNQVQVTVQETLEKHELTKPLAMKELIWFIASALLALPVIILARACSSIF 420

Query: 419 CKKARKPVRHSHHH-SRRKAKRGHPDK 444
           C+KA+KP R++H + SRRKAKRGH DK
Sbjct: 421 CQKAKKPARNAHANPSRRKAKRGHSDK 447

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  577 bits (1488), Expect = e-162,   Method: Compositional matrix adjust.
 Identities = 290/450 (64%), Positives = 354/450 (78%), Gaps = 13/450 (2%)

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 AYGKFLKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAASALLVLPVIILFRIGSA 416
            YGKFL+SATTYH QVQASVQE LKKHELT PLATKELEWFAASALL LP+I++ R+ SA
Sbjct: 354 TYGKFLESATTYHRQVQASVQETLKKHELTRPLATKELEWFAASALLALPIILVARVFSA 413

Query: 417 IFC-KKARKPVRH-SHHHSRRKAKRGHPDK 444
           +FC KK  KP R+ ++HH+RRK KRGH DK
Sbjct: 414 VFCSKKVNKPARNGNNHHARRKHKRGHLDK 443

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  574 bits (1480), Expect = e-161,   Method: Compositional matrix adjust.
 Identities = 291/450 (64%), Positives = 352/450 (78%), Gaps = 17/450 (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 AYGKFLKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAASALLVLPVIILFRIGSA 416
           AYG FL+SAT YH QVQA+VQE LKKHELT PLATKELEWFAASALL LP+I++ R+ SA
Sbjct: 350 AYGNFLESATAYHRQVQATVQETLKKHELTRPLATKELEWFAASALLALPIILIARVFSA 409

Query: 417 IFC-KKARKPVRHSH-HHSRRKAKRGHPDK 444
           IFC KKA KP R  + HH+RRKAKRGHPDK
Sbjct: 410 IFCSKKASKPARSGNTHHARRKAKRGHPDK 439

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  535 bits (1377), Expect = e-149,   Method: Compositional matrix adjust.
 Identities = 270/448 (60%), Positives = 342/448 (76%), Gaps = 4/448 (0%)

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

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

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

Query: 177 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 AYGKFLKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAASALLVLPVIILFRIGSA 416
            YGKFL+SA  YH +VQ +V+E L KHELT PLAT+ELEWFAASA+L LP+I LF + SA
Sbjct: 361 GYGKFLESAAVYHQKVQGTVKETLNKHELTKPLATRELEWFAASAILALPIIFLFNMISA 420

Query: 417 IFCKKARKPVRHSHHHSRRKAKRGHPDK 444
           +F KK +KP R++ HH+RRK KRGH DK
Sbjct: 421 LFWKKTKKPTRNTGHHARRKGKRGHSDK 448

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  533 bits (1374), Expect = e-149,   Method: Compositional matrix adjust.
 Identities = 269/448 (60%), Positives = 341/448 (76%), Gaps = 4/448 (0%)

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

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

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

Query: 177 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 AYGKFLKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAASALLVLPVIILFRIGSA 416
            YGKFL+SA  YH +VQ +V+E L KHELT PLAT+ELEWFAASA+L LP+I LF + SA
Sbjct: 361 GYGKFLESAAVYHQKVQGTVKETLNKHELTKPLATRELEWFAASAILALPIIFLFNMISA 420

Query: 417 IFCKKARKPVRHSHHHSRRKAKRGHPDK 444
           +F KK +KP R++ HH+RRK KRGH DK
Sbjct: 421 LFWKKTKKPTRNTGHHARRKGKRGHSDK 448

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  528 bits (1360), Expect = e-147,   Method: Compositional matrix adjust.
 Identities = 280/448 (62%), Positives = 339/448 (75%), Gaps = 17/448 (3%)

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 GKFLKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAASALLVLPVIILFRIGSAIF 418
             FL+SATTYH QVQA+VQE LKKHELT PLATKELEWFAASALL LP+I+L R  SAIF
Sbjct: 348 RNFLQSATTYHRQVQATVQETLKKHELTRPLATKELEWFAASALLALPIILLARAFSAIF 407

Query: 419 C-KKARKPVRHSH-HHSRRKAKRGHPDK 444
           C KK  KP R  + HH+RRKAKR HPDK
Sbjct: 408 CSKKVNKPARSGNTHHARRKAKRVHPDK 435

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  513 bits (1322), Expect = e-143,   Method: Compositional matrix adjust.
 Identities = 262/413 (63%), Positives = 318/413 (76%), Gaps = 15/413 (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 AYGKFLKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAASALLVLPVII 409
           AYG FL+SAT YH QVQA+VQE LKKHELT PLATKELEWFAA AL  L   +
Sbjct: 350 AYGNFLESATAYHRQVQATVQETLKKHELTRPLATKELEWFAAFALSGLAYYL 402

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	444
TAIR|locus:2128166	437	AT4G31340 "AT4G31340" [Arabido	0.932	0.947	0.555	2.8e-121
TAIR|locus:2061067	440	AT2G24420 [Arabidopsis thalian	0.927	0.936	0.535	1.6e-116
TAIR|locus:2126470	388	AT4G30090 "AT4G30090" [Arabido	0.585	0.670	0.333	1.6e-38
UNIPROTKB|F1PCW0	2240	GOLGA4 "Uncharacterized protei	0.702	0.139	0.225	1.3e-08
SGD|S000002764	944	SPC110 "Inner plaque spindle p	0.373	0.175	0.248	6.8e-06
UNIPROTKB|H0Y6I0	2099	GOLGA4 "Golgin subfamily A mem	0.695	0.147	0.214	1e-05
UNIPROTKB|Q13439	2230	GOLGA4 "Golgin subfamily A mem	0.695	0.138	0.214	1.1e-05
TAIR|locus:2099114	318	PMD1 "peroxisomal and mitochon	0.468	0.654	0.235	2e-05
DICTYBASE|DDB_G0286985	1024	zipA "zipper-like domain-conta	0.416	0.180	0.228	2.7e-05
WB|WBGene00002978	284	lev-11 [Caenorhabditis elegans	0.387	0.605	0.186	3.4e-05

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

 Score = 1193 (425.0 bits), Expect = 2.8e-121, P = 2.8e-121
 Identities = 234/421 (55%), Positives = 306/421 (72%)

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 FLKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAASALLVLPVIILFRIGSAIFCK 420
             FL+SATTYH+QVQA V+  LK HELT P AT E  WFAASALLV P+ + +R+ S++FC 
Sbjct:   354 FLESATTYHNQVQAHVERKLKSHELTEPFATNEFVWFAASALLVFPIFVAYRVLSSLFCT 413

Query:   421 K 421
             K
Sbjct:   414 K 414

GO:0005783 "endoplasmic reticulum" evidence=IDA

GO:0005774 "vacuolar membrane" evidence=IDA

GO:0005794 "Golgi apparatus" evidence=IDA

GO:0006007 "glucose catabolic process" evidence=RCA

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

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

 Score = 1148 (409.2 bits), Expect = 1.6e-116, P = 1.6e-116
 Identities = 228/426 (53%), Positives = 298/426 (69%)

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

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

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

Query:   176 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 RAYGKFLKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAASALLVLPVIILFRIGS 415
               Y +FL+SA+TYHHQ+QA+V+  LK HEL  P ATKE  WFAASALL LP+ I+++   
Sbjct:   352 HYYKEFLESASTYHHQLQANVESKLKSHELLEPFATKEFIWFAASALLALPIFIVYKFLC 411

Query:   416 AIFCKK 421
             ++FC K
Sbjct:   412 SLFCTK 417

GO:0005576 "extracellular region" evidence=ISM

GO:0005783 "endoplasmic reticulum" evidence=IDA

GO:0005774 "vacuolar membrane" evidence=IDA

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

 Score = 412 (150.1 bits), Expect = 1.6e-38, P = 1.6e-38
 Identities = 89/267 (33%), Positives = 149/267 (55%)

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 TKELEWFAASALLVLPVIILFRIGSAI 417
             T +L W  A+AL+  P+I + ++ SA+
Sbjct:   333 TMDLAWVGATALIGFPLIFIIKLLSAV 359

GO:0003674 "molecular_function" evidence=ND

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

GO:0005783 "endoplasmic reticulum" evidence=IDA

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

 Score = 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 = 6.8e-06, P = 6.8e-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 = 1.0e-05, P = 1.0e-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 = 1.1e-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:  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 = 2.0e-05, P = 2.0e-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 = 2.7e-05, P = 2.7e-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 = 3.4e-05, P = 3.4e-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

Fail to connect to STRING server

---

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	444
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	5e-14
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	4e-12
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	2e-11
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	3e-10
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	3e-10
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	9e-10
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	9e-10
TIGR02168	1179	TIGR02168, SMC_prok_B, 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
COG1579	239	COG1579, COG1579, Zn-ribbon protein, possibly nucl	5e-09
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	6e-09
PRK12704	520	PRK12704, PRK12704, phosphodiesterase; Provisional	6e-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	3e-08
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	6e-08
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	1e-07
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
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	2e-07
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	2e-07
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	6e-07
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	6e-07
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	7e-07
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	8e-07
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	8e-07
COG0419	908	COG0419, SbcC, ATPase involved in DNA repair [DNA	8e-07
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	1e-06
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	1e-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	4e-06
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	6e-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	1e-05
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	1e-05
COG1579	239	COG1579, COG1579, Zn-ribbon protein, possibly nucl	1e-05
PRK00106	535	PRK00106, PRK00106, hypothetical protein; Provisio	1e-05
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	2e-05
pfam05262	489	pfam05262, Borrelia_P83, Borrelia P83/100 protein	2e-05
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	3e-05
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	4e-05
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	4e-05
TIGR04211	198	TIGR04211, SH3_and_anchor, SH3 domain protein	4e-05
pfam12329	74	pfam12329, TMF_DNA_bd, TATA element modulatory fac	4e-05
COG0419	908	COG0419, SbcC, ATPase involved in DNA repair [DNA	5e-05
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	7e-05
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	8e-05
TIGR04211	198	TIGR04211, SH3_and_anchor, SH3 domain protein	8e-05
TIGR03319	514	TIGR03319, RNase_Y, ribonuclease Y	9e-05
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	9e-05
PRK09039	343	PRK09039, PRK09039, hypothetical protein; Validate	9e-05
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	1e-04
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	1e-04
TIGR04211	198	TIGR04211, SH3_and_anchor, SH3 domain protein	1e-04
PRK00409	782	PRK00409, PRK00409, recombination and DNA strand e	1e-04
COG5185	622	COG5185, HEC1, Protein involved in chromosome segr	1e-04
PRK11637	428	PRK11637, PRK11637, AmiB activator; Provisional	1e-04
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	2e-04
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	2e-04
PRK02224	880	PRK02224, PRK02224, chromosome segregation protein	2e-04
COG0419	908	COG0419, SbcC, ATPase involved in DNA repair [DNA	2e-04
pfam13166	713	pfam13166, AAA_13, AAA domain	2e-04
pfam08614	194	pfam08614, ATG16, Autophagy protein 16 (ATG16)	2e-04
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	4e-04
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	4e-04
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	4e-04
PRK10636	638	PRK10636, PRK10636, putative ABC transporter ATP-b	4e-04
COG2433	652	COG2433, COG2433, Uncharacterized conserved protei	4e-04
TIGR04211	198	TIGR04211, SH3_and_anchor, SH3 domain protein	5e-04
COG4372	499	COG4372, COG4372, Uncharacterized protein conserve	6e-04
PRK00409	782	PRK00409, PRK00409, recombination and DNA strand e	7e-04
pfam03962	188	pfam03962, Mnd1, Mnd1 family	7e-04
COG3096	1480	COG3096, MukB, Uncharacterized protein involved in	9e-04
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	0.001
PRK12704	520	PRK12704, PRK12704, phosphodiesterase; Provisional	0.001
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	0.001
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	0.001
COG0419	908	COG0419, SbcC, ATPase involved in DNA repair [DNA	0.001
TIGR04211	198	TIGR04211, SH3_and_anchor, SH3 domain protein	0.001
pfam08317	321	pfam08317, Spc7, Spc7 kinetochore protein	0.001
PRK11281	1113	PRK11281, PRK11281, hypothetical protein; Provisio	0.001
COG1283	533	COG1283, NptA, Na+/phosphate symporter [Inorganic	0.001
TIGR01554	384	TIGR01554, major_cap_HK97, phage major capsid prot	0.001
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	0.002
PRK02224	880	PRK02224, PRK02224, chromosome segregation protein	0.002
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	0.002
pfam04156	186	pfam04156, IncA, IncA protein	0.002
pfam01576	859	pfam01576, Myosin_tail_1, Myosin tail	0.002
smart00787	312	smart00787, Spc7, Spc7 kinetochore protein	0.002
COG1322	448	COG1322, COG1322, Predicted nuclease of restrictio	0.002
PRK11448	1123	PRK11448, hsdR, type I restriction enzyme EcoKI su	0.002
COG4499	434	COG4499, COG4499, Predicted membrane protein [Func	0.002
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	0.003
pfam08317	321	pfam08317, Spc7, Spc7 kinetochore protein	0.003
pfam05667	536	pfam05667, DUF812, Protein of unknown function (DU	0.003
pfam00261	237	pfam00261, Tropomyosin, Tropomyosin	0.003
PRK05771	646	PRK05771, PRK05771, V-type ATP synthase subunit I;	0.003
TIGR04320	356	TIGR04320, Surf_Exclu_PgrA, SEC10/PgrA surface exc	0.003
PRK02224	880	PRK02224, PRK02224, chromosome segregation protein	0.004
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	0.004
PRK11281	1113	PRK11281, PRK11281, hypothetical protein; Provisio	0.004
pfam14235	158	pfam14235, DUF4337, Domain of unknown function (DU	0.004
pfam12072	201	pfam12072, DUF3552, Domain of unknown function (DU	0.004
PRK04863	1486	PRK04863, mukB, cell division protein MukB; Provis	0.004
TIGR02680	1353	TIGR02680, TIGR02680, TIGR02680 family protein	0.004
pfam00012	598	pfam00012, HSP70, Hsp70 protein	0.004

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

 Score = 74.0 bits (182), Expect = 5e-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 = 4e-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 = 66.2 bits (162), 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|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 62.0 bits (151), Expect = 3e-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|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common bacterial type

 Score = 62.4 bits (152), 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 = 60.9 bits (148), Expect = 9e-10
 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|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC, primarily archaeal type

 Score = 60.9 bits (148), Expect = 9e-10
 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|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common bacterial type

 Score = 60.5 bits (147), 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|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 59.7 bits (145), 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|224495 COG1579, COG1579, Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]

 Score = 56.2 bits (136), Expect = 5e-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 = 58.2 bits (141), Expect = 6e-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|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|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 = 56.1 bits (135), Expect = 3e-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 = 55.1 bits (133), Expect = 6e-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|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 53.9 bits (130), Expect = 1e-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|179385 PRK02224, PRK02224, chromosome segregation protein; Provisional

 Score = 53.9 bits (130), 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 = 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|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|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 51.7 bits (123), Expect = 6e-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|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 51.3 bits (123), Expect = 7e-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 = 51.3 bits (123), Expect = 8e-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 = 8e-07
 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|223496 COG0419, SbcC, ATPase involved in DNA repair [DNA replication, recombination, and repair]

 Score = 51.3 bits (123), Expect = 8e-07
 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 = 50.5 bits (121), Expect = 1e-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|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|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common bacterial type

 Score = 50.4 bits (121), 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 = 49.8 bits (118), 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 = 49.3 bits (118), 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 = 49.3 bits (118), Expect = 4e-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|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 48.6 bits (116), Expect = 6e-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|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 = 47.8 bits (114), 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|224495 COG1579, COG1579, Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]

 Score = 45.8 bits (109), Expect = 1e-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|178867 PRK00106, PRK00106, hypothetical protein; Provisional

 Score = 47.6 bits (113), Expect = 1e-05
 Identities = 33/119 (27%), Positives = 60/119 (50%), Gaps = 12/119 (10%)

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

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

Length = 535

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

 Score = 47.0 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|114011 pfam05262, Borrelia_P83, Borrelia P83/100 protein

 Score = 46.5 bits (110), 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|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 46.3 bits (109), Expect = 3e-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|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common bacterial type

 Score = 45.8 bits (109), Expect = 4e-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 = 46.1 bits (109), Expect = 4e-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|234501 TIGR04211, SH3_and_anchor, SH3 domain protein

 Score = 44.2 bits (105), Expect = 4e-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|221533 pfam12329, TMF_DNA_bd, TATA element modulatory factor 1 DNA binding

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

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

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

This is the middle region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes that contains at its N-terminal section a number of leucine zippers that could potentially form coiled coil structures. The whole proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal and plant cells. Length = 74

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

 Score = 45.5 bits (108), Expect = 5e-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 = 7e-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|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 45.1 bits (106), Expect = 8e-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|234501 TIGR04211, SH3_and_anchor, SH3 domain protein

 Score = 43.1 bits (102), Expect = 8e-05
 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|188306 TIGR03319, RNase_Y, ribonuclease Y

 Score = 44.1 bits (105), 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|235175 PRK03918, PRK03918, chromosome segregation protein; Provisional

 Score = 44.7 bits (106), Expect = 9e-05
 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|181619 PRK09039, PRK09039, hypothetical protein; Validated

 Score = 44.2 bits (105), Expect = 9e-05
 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|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|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 44.4 bits (104), Expect = 1e-04
 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|234501 TIGR04211, SH3_and_anchor, SH3 domain protein

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

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

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

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

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

 Score = 44.4 bits (106), 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|227512 COG5185, HEC1, Protein involved in chromosome segregation, interacts with SMC proteins [Cell division and chromosome partitioning]

 Score = 43.8 bits (103), Expect = 1e-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|236942 PRK11637, PRK11637, AmiB activator; Provisional

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

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

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

Length = 428

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

 Score = 43.5 bits (103), Expect = 2e-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|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC, primarily archaeal type

 Score = 43.9 bits (104), 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|223496 COG0419, SbcC, ATPase involved in DNA repair [DNA replication, recombination, and repair]

 Score = 43.2 bits (102), Expect = 2e-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|221952 pfam13166, AAA_13, AAA domain

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

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

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

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

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

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

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

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

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

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

 Score = 42.7 bits (101), Expect = 4e-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|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|236729 PRK10636, PRK10636, putative ABC transporter ATP-binding protein; Provisional

 Score = 42.5 bits (100), Expect = 4e-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|225288 COG2433, COG2433, Uncharacterized conserved protein [Function unknown]

 Score = 42.4 bits (100), 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|234501 TIGR04211, SH3_and_anchor, SH3 domain protein

 Score = 40.8 bits (96), Expect = 5e-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|226809 COG4372, COG4372, Uncharacterized protein conserved in bacteria with the myosin-like domain [Function unknown]

 Score = 41.9 bits (98), Expect = 6e-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|234750 PRK00409, PRK00409, recombination and DNA strand exchange inhibitor protein; Reviewed

 Score = 41.7 bits (99), Expect = 7e-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|202833 pfam03962, Mnd1, Mnd1 family

 Score = 40.3 bits (95), Expect = 7e-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|225638 COG3096, MukB, Uncharacterized protein involved in chromosome partitioning [Cell division and chromosome partitioning]

 Score = 41.4 bits (97), Expect = 9e-04
 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|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|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 40.9 bits (95), 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 = 40.9 bits (95), 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|223496 COG0419, SbcC, ATPase involved in DNA repair [DNA replication, recombination, and repair]

 Score = 40.9 bits (96), Expect = 0.001
 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 = 39.6 bits (93), Expect = 0.001
 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|219791 pfam08317, Spc7, Spc7 kinetochore protein

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

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

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

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

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

 Score = 41.1 bits (97), Expect = 0.001
 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|224202 COG1283, NptA, Na+/phosphate symporter [Inorganic ion transport and metabolism]

 Score = 40.7 bits (96), Expect = 0.001
 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|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 = 40.5 bits (95), 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|179385 PRK02224, PRK02224, chromosome segregation protein; Provisional

 Score = 40.4 bits (95), Expect = 0.002
 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 = 40.5 bits (94), 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|217933 pfam04156, IncA, IncA protein

 Score = 39.0 bits (91), Expect = 0.002
 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|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|197874 smart00787, Spc7, Spc7 kinetochore protein

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

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

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

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

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

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

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

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

Query: 182 K 182
           K
Sbjct: 188 K 188

Length = 448

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

 Score = 39.7 bits (92), 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|219791 pfam08317, Spc7, Spc7 kinetochore protein

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

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

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

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

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

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

 Score = 39.7 bits (93), 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|235600 PRK05771, PRK05771, V-type ATP synthase subunit I; Validated

 Score = 39.5 bits (93), Expect = 0.003
 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|234541 TIGR04320, Surf_Exclu_PgrA, SEC10/PgrA surface exclusion domain

 Score = 38.9 bits (91), Expect = 0.003
 Identities = 24/143 (16%), Positives = 44/143 (30%), Gaps = 17/143 (11%)

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

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

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

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

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

 Score = 39.6 bits (93), Expect = 0.004
 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 = 39.7 bits (92), Expect = 0.004
 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|236892 PRK11281, PRK11281, hypothetical protein; Provisional

 Score = 39.5 bits (93), Expect = 0.004
 Identities = 38/213 (17%), Positives = 78/213 (36%), Gaps = 32/213 (15%)

Query: 1   MAASKLVIFSLFFALILTAADVSIQGEDVPPLTASDAVDSSPLKIELDQLKSKIRSLESH 60
               +  I  LF  L L++A          P  A        ++ +LD L    + L   
Sbjct: 6   HFVFRAFIAFLFLLLCLSSAFARAASNGDLPTEAD-------VQAQLDALNK--QKLLEA 56

Query: 61  ID-------EKTQELKGKDEVVAQK----EKAIQDKSERIVSLQKELSSLQKKETLNAAE 109
            D       E+T  L  K +   ++    ++ +     ++   Q EL +L+        E
Sbjct: 57  EDKLVQQDLEQTLALLDKIDRQKEETEQLKQQLAQAPAKLRQAQAELEALKDDNDEETRE 116

Query: 110 QVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEA----EKKISDLSAKLEKLQK 165
            +     R  +LE ++     + +  Q +     ++ +      E+  + L A  ++LQ+
Sbjct: 117 TLSTLSLR--QLESRLAQTLDQLQNAQNDLAEYNSQLVSLQTQPERAQAALYANSQRLQQ 174

Query: 166 IN------DEQKSKIRKTERALKVAEEEMMRAK 192
           I             +R ++R L  AE+ ++ A+
Sbjct: 175 IRNLLKGGKVGGKALRPSQRVLLQAEQALLNAQ 207

Length = 1113

>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 = 38.3 bits (90), 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

>gnl|CDD|235316 PRK04863, mukB, cell division protein MukB; Provisional

 Score = 39.6 bits (93), Expect = 0.004
 Identities = 28/147 (19%), Positives = 63/147 (42%), Gaps = 21/147 (14%)

Query: 48   DQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNA 107
            ++L+ ++   E       ++L+     +AQ        ++ + SL+    +  K++ L  
Sbjct: 988  EKLRQRLEQAEQERTRAREQLRQAQAQLAQY-------NQVLASLKSSYDA--KRQMLQE 1038

Query: 108  AEQ-VDKAHARADE-LEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQK 165
             +Q +      AD   E++    +   ++      A  +R  + EK+++   A+++ L K
Sbjct: 1039 LKQELQDLGVPADSGAEER---ARARRDELHARLSANRSRRNQLEKQLTFCEAEMDNLTK 1095

Query: 166  INDEQKSKIRKTERALKVAEEEMMRAK 192
                   K+RK ER      E+++ AK
Sbjct: 1096 -------KLRKLERDYHEMREQVVNAK 1115

Length = 1486

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

 Score = 39.4 bits (92), 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|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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	444
PRK11637	428	AmiB activator; Provisional	99.2
PRK11637	428	AmiB activator; Provisional	98.84
COG3883	265	Uncharacterized protein conserved in bacteria [Fun	98.75
PF12718	143	Tropomyosin_1: Tropomyosin like; InterPro: IPR0005	98.51
PRK09039	343	hypothetical protein; Validated	98.49
COG1579	239	Zn-ribbon protein, possibly nucleic acid-binding [	98.48
COG4942	420	Membrane-bound metallopeptidase [Cell division and	98.48
TIGR02169	1164	SMC_prok_A chromosome segregation protein SMC, pri	98.37
PF12718	143	Tropomyosin_1: Tropomyosin like; InterPro: IPR0005	98.34
COG3883	265	Uncharacterized protein conserved in bacteria [Fun	98.25
PF00261	237	Tropomyosin: Tropomyosin; InterPro: IPR000533 Trop	98.22
PHA02562	562	46 endonuclease subunit; Provisional	98.1
COG1579	239	Zn-ribbon protein, possibly nucleic acid-binding [	98.06
COG4942	420	Membrane-bound metallopeptidase [Cell division and	98.05
PF00261	237	Tropomyosin: Tropomyosin; InterPro: IPR000533 Trop	98.05
PRK02224	880	chromosome segregation protein; Provisional	98.04
COG1196	1163	Smc Chromosome segregation ATPases [Cell division	98.02
KOG0250	1074	consensus DNA repair protein RAD18 (SMC family pro	97.98
PRK03918	880	chromosome segregation protein; Provisional	97.96
KOG0250	1074	consensus DNA repair protein RAD18 (SMC family pro	97.95
PHA02562	562	46 endonuclease subunit; Provisional	97.94
TIGR01843	423	type_I_hlyD type I secretion membrane fusion prote	97.9
PF07888	546	CALCOCO1: Calcium binding and coiled-coil domain (	97.88
PRK02224	880	chromosome segregation protein; Provisional	97.86
PRK03918	880	chromosome segregation protein; Provisional	97.83
KOG0996	1293	consensus Structural maintenance of chromosome pro	97.83
PRK09039	343	hypothetical protein; Validated	97.8
PF09726	697	Macoilin: Transmembrane protein; InterPro: IPR0191	97.74
PF05667	594	DUF812: Protein of unknown function (DUF812); Inte	97.73
KOG0161	1930	consensus Myosin class II heavy chain [Cytoskeleto	97.72
PRK04863	1486	mukB cell division protein MukB; Provisional	97.69
PF07888	546	CALCOCO1: Calcium binding and coiled-coil domain (	97.68
KOG0933	1174	consensus Structural maintenance of chromosome pro	97.64
KOG0996	1293	consensus Structural maintenance of chromosome pro	97.63
TIGR00606	1311	rad50 rad50. This family is based on the phylogeno	97.59
PF15619	194	Lebercilin: Ciliary protein causing Leber congenit	97.57
PF00038	312	Filament: Intermediate filament protein; InterPro:	97.53
PF12128	1201	DUF3584: Protein of unknown function (DUF3584); In	97.52
TIGR00606	1311	rad50 rad50. This family is based on the phylogeno	97.49
KOG0995	581	consensus Centromere-associated protein HEC1 [Cell	97.48
PF10174	775	Cast: RIM-binding protein of the cytomatrix active	97.44
KOG0933	1174	consensus Structural maintenance of chromosome pro	97.43
PF00038	312	Filament: Intermediate filament protein; InterPro:	97.42
PF05667	594	DUF812: Protein of unknown function (DUF812); Inte	97.42
PF09726	697	Macoilin: Transmembrane protein; InterPro: IPR0191	97.42
KOG0243	1041	consensus Kinesin-like protein [Cytoskeleton]	97.4
KOG1029	1118	consensus Endocytic adaptor protein intersectin [S	97.39
PRK04863	1486	mukB cell division protein MukB; Provisional	97.38
PRK11281	1113	hypothetical protein; Provisional	97.36
PF08317	325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	97.33
TIGR01843	423	type_I_hlyD type I secretion membrane fusion prote	97.32
COG4372	499	Uncharacterized protein conserved in bacteria with	97.27
PRK04778	569	septation ring formation regulator EzrA; Provision	97.27
PF12128	1201	DUF3584: Protein of unknown function (DUF3584); In	97.27
PRK01156	895	chromosome segregation protein; Provisional	97.24
PF12795	240	MscS_porin: Mechanosensitive ion channel porin dom	97.23
PF15619	194	Lebercilin: Ciliary protein causing Leber congenit	97.22
COG1340	294	Uncharacterized archaeal coiled-coil protein [Func	97.21
PRK04778	569	septation ring formation regulator EzrA; Provision	97.21
PF05701	522	WEMBL: Weak chloroplast movement under blue light;	97.2
PF07926	132	TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro:	97.18
PF13851	201	GAS: Growth-arrest specific micro-tubule binding	97.15
PRK01156	895	chromosome segregation protein; Provisional	97.13
PF08614	194	ATG16: Autophagy protein 16 (ATG16); InterPro: IPR	97.12
COG4372	499	Uncharacterized protein conserved in bacteria with	97.08
COG1340	294	Uncharacterized archaeal coiled-coil protein [Func	97.08
PF05701	522	WEMBL: Weak chloroplast movement under blue light;	97.07
KOG0995	581	consensus Centromere-associated protein HEC1 [Cell	97.07
PF10174	775	Cast: RIM-binding protein of the cytomatrix active	97.04
TIGR01000	457	bacteriocin_acc bacteriocin secretion accessory pr	97.04
KOG4674	1822	consensus Uncharacterized conserved coiled-coil pr	97.01
KOG0994	1758	consensus Extracellular matrix glycoprotein Lamini	97.0
PF08317	325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	96.99
KOG0946	970	consensus ER-Golgi vesicle-tethering protein p115	96.98
PF05911	769	DUF869: Plant protein of unknown function (DUF869)	96.97
PF10473	140	CENP-F_leu_zip: Leucine-rich repeats of kinetochor	96.95
KOG1029	1118	consensus Endocytic adaptor protein intersectin [S	96.93
PF15070	617	GOLGA2L5: Putative golgin subfamily A member 2-lik	96.89
PF08614	194	ATG16: Autophagy protein 16 (ATG16); InterPro: IPR	96.86
smart00787	312	Spc7 Spc7 kinetochore protein. This domain is foun	96.8
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	96.79
PF12795	240	MscS_porin: Mechanosensitive ion channel porin dom	96.77
KOG0980	980	consensus Actin-binding protein SLA2/Huntingtin-in	96.76
KOG0964	1200	consensus Structural maintenance of chromosome pro	96.76
KOG4643	1195	consensus Uncharacterized coiled-coil protein [Fun	96.75
PRK10929	1109	putative mechanosensitive channel protein; Provisi	96.74
KOG4673	961	consensus Transcription factor TMF, TATA element m	96.73
KOG0980	980	consensus Actin-binding protein SLA2/Huntingtin-in	96.71
smart00787	312	Spc7 Spc7 kinetochore protein. This domain is foun	96.7
PF09730	717	BicD: Microtubule-associated protein Bicaudal-D; I	96.69
TIGR03007	498	pepcterm_ChnLen polysaccharide chain length determ	96.67
TIGR03185	650	DNA_S_dndD DNA sulfur modification protein DndD. T	96.67
KOG1003	205	consensus Actin filament-coating protein tropomyos	96.65
PF15070	617	GOLGA2L5: Putative golgin subfamily A member 2-lik	96.63
PRK11281	1113	hypothetical protein; Provisional	96.61
PF04012	221	PspA_IM30: PspA/IM30 family; InterPro: IPR007157 T	96.56
PF04849	306	HAP1_N: HAP1 N-terminal conserved region; InterPro	96.53
PF04849	306	HAP1_N: HAP1 N-terminal conserved region; InterPro	96.52
PF07926	132	TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro:	96.51
KOG0018	1141	consensus Structural maintenance of chromosome pro	96.5
TIGR01000	457	bacteriocin_acc bacteriocin secretion accessory pr	96.47
KOG0964	1200	consensus Structural maintenance of chromosome pro	96.47
PF13870	177	DUF4201: Domain of unknown function (DUF4201)	96.46
KOG4360	596	consensus Uncharacterized coiled coil protein [Fun	96.45
PF11932	251	DUF3450: Protein of unknown function (DUF3450); In	96.45
KOG0977	546	consensus Nuclear envelope protein lamin, intermed	96.42
TIGR01005	754	eps_transp_fam exopolysaccharide transport protein	96.41
KOG1853	333	consensus LIS1-interacting protein NUDE [Cytoskele	96.4
PF05911	769	DUF869: Plant protein of unknown function (DUF869)	96.39
KOG0612	1317	consensus Rho-associated, coiled-coil containing p	96.36
KOG4674	1822	consensus Uncharacterized conserved coiled-coil pr	96.35
KOG0976	1265	consensus Rho/Rac1-interacting serine/threonine ki	96.33
PF04111	314	APG6: Autophagy protein Apg6; InterPro: IPR007243	96.29
PF13851	201	GAS: Growth-arrest specific micro-tubule binding	96.29
KOG0971	1243	consensus Microtubule-associated protein dynactin	96.26
PF09304	107	Cortex-I_coil: Cortexillin I, coiled coil; InterPr	96.2
COG5185	622	HEC1 Protein involved in chromosome segregation, i	96.17
TIGR03007	498	pepcterm_ChnLen polysaccharide chain length determ	96.14
KOG0977	546	consensus Nuclear envelope protein lamin, intermed	96.13
PRK10929	1109	putative mechanosensitive channel protein; Provisi	96.12
PF04111	314	APG6: Autophagy protein Apg6; InterPro: IPR007243	96.11
KOG0979	1072	consensus Structural maintenance of chromosome pro	96.11
KOG0018	1141	consensus Structural maintenance of chromosome pro	96.08
TIGR01005	754	eps_transp_fam exopolysaccharide transport protein	96.08
TIGR02680	1353	conserved hypothetical protein TIGR02680. Members	96.06
KOG0976	1265	consensus Rho/Rac1-interacting serine/threonine ki	96.05
KOG0994	1758	consensus Extracellular matrix glycoprotein Lamini	96.04
PF10186	302	Atg14: UV radiation resistance protein and autopha	96.03
KOG0971	1243	consensus Microtubule-associated protein dynactin	96.02
PF06160	560	EzrA: Septation ring formation regulator, EzrA ; I	96.02
PF06008	264	Laminin_I: Laminin Domain I; InterPro: IPR009254 L	95.99
PF04582	326	Reo_sigmaC: Reovirus sigma C capsid protein; Inter	95.92
PF15397	258	DUF4618: Domain of unknown function (DUF4618)	95.9
PF13870	177	DUF4201: Domain of unknown function (DUF4201)	95.86
COG5185	622	HEC1 Protein involved in chromosome segregation, i	95.85
PF10186	302	Atg14: UV radiation resistance protein and autopha	95.81
KOG4360	596	consensus Uncharacterized coiled coil protein [Fun	95.8
PF09789	319	DUF2353: Uncharacterized coiled-coil protein (DUF2	95.8
KOG0963	629	consensus Transcription factor/CCAAT displacement	95.79
PF12325	120	TMF_TATA_bd: TATA element modulatory factor 1 TATA	95.79
PF09755	310	DUF2046: Uncharacterized conserved protein H4 (DUF	95.76
PF05384	159	DegS: Sensor protein DegS; InterPro: IPR008595 Thi	95.74
TIGR03185	650	DNA_S_dndD DNA sulfur modification protein DndD. T	95.69
PRK10884	206	SH3 domain-containing protein; Provisional	95.67
KOG0963	629	consensus Transcription factor/CCAAT displacement	95.63
TIGR03017	444	EpsF chain length determinant protein EpsF. Sequen	95.61
PF01576	859	Myosin_tail_1: Myosin tail; InterPro: IPR002928 Mu	95.55
KOG1003	205	consensus Actin filament-coating protein tropomyos	95.54
PF00769	246	ERM: Ezrin/radixin/moesin family; InterPro: IPR011	95.54
PF09730	717	BicD: Microtubule-associated protein Bicaudal-D; I	95.53
KOG0612	1317	consensus Rho-associated, coiled-coil containing p	95.51
PRK10476	346	multidrug resistance protein MdtN; Provisional	95.5
PF01576	859	Myosin_tail_1: Myosin tail; InterPro: IPR002928 Mu	95.49
COG0419	908	SbcC ATPase involved in DNA repair [DNA replicatio	95.48
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	95.39
PF12329	74	TMF_DNA_bd: TATA element modulatory factor 1 DNA b	95.38
PRK10884	206	SH3 domain-containing protein; Provisional	95.35
PF00769	246	ERM: Ezrin/radixin/moesin family; InterPro: IPR011	95.3
COG2433	652	Uncharacterized conserved protein [Function unknow	95.28
PF06818	202	Fez1: Fez1; InterPro: IPR009638 This family repres	95.26
KOG0999	772	consensus Microtubule-associated protein Bicaudal-	95.25
PF10481	307	CENP-F_N: Cenp-F N-terminal domain; InterPro: IPR0	95.23
PF12325	120	TMF_TATA_bd: TATA element modulatory factor 1 TATA	95.21
KOG4673	961	consensus Transcription factor TMF, TATA element m	95.2
COG0419	908	SbcC ATPase involved in DNA repair [DNA replicatio	95.12
PF10146	230	zf-C4H2: Zinc finger-containing protein ; InterPro	95.1
PF10481	307	CENP-F_N: Cenp-F N-terminal domain; InterPro: IPR0	95.1
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	95.1
PF13166	712	AAA_13: AAA domain	95.08
KOG4643	1195	consensus Uncharacterized coiled-coil protein [Fun	95.07
PF04582	326	Reo_sigmaC: Reovirus sigma C capsid protein; Inter	95.04
PRK10361	475	DNA recombination protein RmuC; Provisional	95.03
TIGR02680	1353	conserved hypothetical protein TIGR02680. Members	95.02
PF07106	169	TBPIP: Tat binding protein 1(TBP-1)-interacting pr	94.96
KOG1899	861	consensus LAR transmembrane tyrosine phosphatase-i	94.96
KOG0946	970	consensus ER-Golgi vesicle-tethering protein p115	94.93
TIGR02977	219	phageshock_pspA phage shock protein A. Members of	94.89
PF14915	305	CCDC144C: CCDC144C protein coiled-coil region	94.85
COG1842	225	PspA Phage shock protein A (IM30), suppresses sigm	94.84
PF14362	301	DUF4407: Domain of unknown function (DUF4407)	94.84
PF09304	107	Cortex-I_coil: Cortexillin I, coiled coil; InterPr	94.82
PF05483	786	SCP-1: Synaptonemal complex protein 1 (SCP-1); Int	94.76
KOG1937	521	consensus Uncharacterized conserved protein [Funct	94.7
PF06818	202	Fez1: Fez1; InterPro: IPR009638 This family repres	94.65
PF07106	169	TBPIP: Tat binding protein 1(TBP-1)-interacting pr	94.61
PF06785	401	UPF0242: Uncharacterised protein family (UPF0242);	94.61
TIGR03319	514	YmdA_YtgF conserved hypothetical protein YmdA/YtgF	94.6
PF10146	230	zf-C4H2: Zinc finger-containing protein ; InterPro	94.58
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	94.57
TIGR00998	334	8a0101 efflux pump membrane protein (multidrug res	94.54
COG2433	652	Uncharacterized conserved protein [Function unknow	94.53
TIGR00634	563	recN DNA repair protein RecN. All proteins in this	94.48
PF13514	1111	AAA_27: AAA domain	94.43
TIGR03017	444	EpsF chain length determinant protein EpsF. Sequen	94.43
PF05335	188	DUF745: Protein of unknown function (DUF745); Inte	94.35
KOG1937	521	consensus Uncharacterized conserved protein [Funct	94.28
PF05010	207	TACC: Transforming acidic coiled-coil-containing p	94.27
KOG0979	1072	consensus Structural maintenance of chromosome pro	94.18
PF05622	713	HOOK: HOOK protein; InterPro: IPR008636 This famil	94.16
KOG0243	1041	consensus Kinesin-like protein [Cytoskeleton]	94.13
PF13166	712	AAA_13: AAA domain	94.09
PF11559	151	ADIP: Afadin- and alpha -actinin-Binding; InterPro	94.01
TIGR03794	421	NHPM_micro_HlyD NHPM bacteriocin system secretion	94.01
COG4477	570	EzrA Negative regulator of septation ring formatio	94.0
PRK10698	222	phage shock protein PspA; Provisional	93.92
COG1382	119	GimC Prefoldin, chaperonin cofactor [Posttranslati	93.91
PRK03947	140	prefoldin subunit alpha; Reviewed	93.75
PF05010	207	TACC: Transforming acidic coiled-coil-containing p	93.75
PF10168	717	Nup88: Nuclear pore component; InterPro: IPR019321	93.74
PRK00106	535	hypothetical protein; Provisional	93.71
TIGR02971	327	heterocyst_DevB ABC exporter membrane fusion prote	93.71
PRK03947	140	prefoldin subunit alpha; Reviewed	93.65
PF06008	264	Laminin_I: Laminin Domain I; InterPro: IPR009254 L	93.57
PHA03332	1328	membrane glycoprotein; Provisional	93.56
KOG0288	459	consensus WD40 repeat protein TipD [General functi	93.55
PF10498	359	IFT57: Intra-flagellar transport protein 57 ; Inte	93.48
KOG4809	654	consensus Rab6 GTPase-interacting protein involved	93.45
PF13514	1111	AAA_27: AAA domain	93.43
PF11570	136	E2R135: Coiled-coil receptor-binding R-domain of c	93.37
TIGR01010	362	BexC_CtrB_KpsE polysaccharide export inner-membran	93.35
PF05266	190	DUF724: Protein of unknown function (DUF724); Inte	93.31
PRK10869	553	recombination and repair protein; Provisional	93.31
KOG2991	330	consensus Splicing regulator [RNA processing and m	93.3
PRK12704	520	phosphodiesterase; Provisional	93.25
PF15254	861	CCDC14: Coiled-coil domain-containing protein 14	93.25
PRK09343	121	prefoldin subunit beta; Provisional	93.15
PF05622	713	HOOK: HOOK protein; InterPro: IPR008636 This famil	93.1
KOG0999	772	consensus Microtubule-associated protein Bicaudal-	93.01
PRK15178	434	Vi polysaccharide export inner membrane protein Ve	93.0
PRK04406	75	hypothetical protein; Provisional	92.94
COG1382	119	GimC Prefoldin, chaperonin cofactor [Posttranslati	92.91
PF02994	370	Transposase_22: L1 transposable element; InterPro:	92.87
TIGR02971	327	heterocyst_DevB ABC exporter membrane fusion prote	92.81
COG3206	458	GumC Uncharacterized protein involved in exopolysa	92.79
PF02994	370	Transposase_22: L1 transposable element; InterPro:	92.7
PF09787	511	Golgin_A5: Golgin subfamily A member 5; InterPro:	92.61
KOG2991	330	consensus Splicing regulator [RNA processing and m	92.58
KOG1962	216	consensus B-cell receptor-associated protein and r	92.55
PF05557	722	MAD: Mitotic checkpoint protein; InterPro: IPR0086	92.44
TIGR02338	110	gimC_beta prefoldin, beta subunit, archaeal. Chape	92.36
KOG0239	670	consensus Kinesin (KAR3 subfamily) [Cytoskeleton]	92.34
PRK02119	73	hypothetical protein; Provisional	92.28
PF04102	69	SlyX: SlyX; InterPro: IPR007236 The SlyX protein h	92.26
TIGR02977	219	phageshock_pspA phage shock protein A. Members of	92.21
PRK09343	121	prefoldin subunit beta; Provisional	92.2
PF12761	195	End3: Actin cytoskeleton-regulatory complex protei	92.03
PF14073	178	Cep57_CLD: Centrosome localisation domain of Cep57	92.03
KOG4438	446	consensus Centromere-associated protein NUF2 [Cell	91.99
PF05557	722	MAD: Mitotic checkpoint protein; InterPro: IPR0086	91.98
COG1842	225	PspA Phage shock protein A (IM30), suppresses sigm	91.89
PF05483	786	SCP-1: Synaptonemal complex protein 1 (SCP-1); Int	91.84
PRK00295	68	hypothetical protein; Provisional	91.82
PRK02793	72	phi X174 lysis protein; Provisional	91.8
PRK00736	68	hypothetical protein; Provisional	91.73
PF08647	96	BRE1: BRE1 E3 ubiquitin ligase; InterPro: IPR01395	91.7
COG4026	290	Uncharacterized protein containing TOPRIM domain,	91.67
PRK10246	1047	exonuclease subunit SbcC; Provisional	91.61
PRK09841	726	cryptic autophosphorylating protein tyrosine kinas	91.56
PF12329	74	TMF_DNA_bd: TATA element modulatory factor 1 DNA b	91.55
COG4026	290	Uncharacterized protein containing TOPRIM domain,	91.54
TIGR02338	110	gimC_beta prefoldin, beta subunit, archaeal. Chape	91.51
PF09403	126	FadA: Adhesion protein FadA; InterPro: IPR018543 F	91.47
PF09728	309	Taxilin: Myosin-like coiled-coil protein; InterPro	91.46
PF10168	717	Nup88: Nuclear pore component; InterPro: IPR019321	91.41
PF15450	531	DUF4631: Domain of unknown function (DUF4631)	91.35
cd00632	105	Prefoldin_beta Prefoldin beta; Prefoldin is a hexa	91.31
PF08581	79	Tup_N: Tup N-terminal; InterPro: IPR013890 The N-t	91.27
cd00632	105	Prefoldin_beta Prefoldin beta; Prefoldin is a hexa	91.27
PF10805	106	DUF2730: Protein of unknown function (DUF2730); In	91.24
PRK04325	74	hypothetical protein; Provisional	91.22
PRK09841	726	cryptic autophosphorylating protein tyrosine kinas	91.06
PF05384	159	DegS: Sensor protein DegS; InterPro: IPR008595 Thi	91.04
PF15294	278	Leu_zip: Leucine zipper	91.02
PF15397	258	DUF4618: Domain of unknown function (DUF4618)	91.0
PF14915	305	CCDC144C: CCDC144C protein coiled-coil region	90.95
TIGR02231	525	conserved hypothetical protein. This family consis	90.78
COG1730	145	GIM5 Predicted prefoldin, molecular chaperone impl	90.76
PRK00846	77	hypothetical protein; Provisional	90.75
PF01442	202	Apolipoprotein: Apolipoprotein A1/A4/E domain; Int	90.6
PF05335	188	DUF745: Protein of unknown function (DUF745); Inte	90.58
PF05278	269	PEARLI-4: Arabidopsis phospholipase-like protein (	90.46
COG3206	458	GumC Uncharacterized protein involved in exopolysa	90.41
KOG4302	660	consensus Microtubule-associated protein essential	90.4
KOG0962	1294	consensus DNA repair protein RAD50, ABC-type ATPas	90.33
PF13863	126	DUF4200: Domain of unknown function (DUF4200)	90.28
PRK10803	263	tol-pal system protein YbgF; Provisional	90.19
COG0497	557	RecN ATPase involved in DNA repair [DNA replicatio	90.18
PF04108	412	APG17: Autophagy protein Apg17 ; InterPro: IPR0072	90.16
PF15254	861	CCDC14: Coiled-coil domain-containing protein 14	90.12
COG1730	145	GIM5 Predicted prefoldin, molecular chaperone impl	90.11
PRK10246	1047	exonuclease subunit SbcC; Provisional	90.09
KOG0962	1294	consensus DNA repair protein RAD50, ABC-type ATPas	89.94
PF06785	401	UPF0242: Uncharacterised protein family (UPF0242);	89.93
PF10234	267	Cluap1: Clusterin-associated protein-1; InterPro:	89.82
PF15450	531	DUF4631: Domain of unknown function (DUF4631)	89.74
COG3096	1480	MukB Uncharacterized protein involved in chromosom	89.62
PF15066	527	CAGE1: Cancer-associated gene protein 1 family	89.62
PF15066	527	CAGE1: Cancer-associated gene protein 1 family	89.6
PRK03598	331	putative efflux pump membrane fusion protein; Prov	89.59
KOG4603	201	consensus TBP-1 interacting protein [Signal transd	89.56
KOG1899	861	consensus LAR transmembrane tyrosine phosphatase-i	89.51
PF10212	518	TTKRSYEDQ: Predicted coiled-coil domain-containing	89.42
PF10267	395	Tmemb_cc2: Predicted transmembrane and coiled-coil	89.33
TIGR01010	362	BexC_CtrB_KpsE polysaccharide export inner-membran	89.25
PF14282	106	FlxA: FlxA-like protein	88.97
PF12777	344	MT: Microtubule-binding stalk of dynein motor; Int	88.93
KOG0239	670	consensus Kinesin (KAR3 subfamily) [Cytoskeleton]	88.9
PF04375	372	HemX: HemX; InterPro: IPR007470 The majority of pr	88.78
PF03962	188	Mnd1: Mnd1 family; InterPro: IPR005647 This family	88.73
PRK11519	719	tyrosine kinase; Provisional	88.63
KOG0249	916	consensus LAR-interacting protein and related prot	88.62
COG3352	157	FlaC Putative archaeal flagellar protein C [Cell m	88.48
PF14282	106	FlxA: FlxA-like protein	88.38
KOG4460	741	consensus Nuclear pore complex, Nup88/rNup84 compo	88.32
TIGR03794	421	NHPM_micro_HlyD NHPM bacteriocin system secretion	88.22
PF03148	384	Tektin: Tektin family; InterPro: IPR000435 Tektin	88.13
PF08172	248	CASP_C: CASP C terminal; InterPro: IPR012955 This	88.02
PF14197	69	Cep57_CLD_2: Centrosome localisation domain of PPC	87.9
KOG0982	502	consensus Centrosomal protein Nuf [Cell cycle cont	87.86
TIGR03495	135	phage_LysB phage lysis regulatory protein, LysB fa	87.81
PRK04406	75	hypothetical protein; Provisional	87.5
KOG2264	907	consensus Exostosin EXT1L [Signal transduction mec	87.43
KOG2077	832	consensus JNK/SAPK-associated protein-1 [Signal tr	87.4
PF10211	189	Ax_dynein_light: Axonemal dynein light chain; Inte	87.36
PRK14011	144	prefoldin subunit alpha; Provisional	87.32
PF06005	72	DUF904: Protein of unknown function (DUF904); Inte	87.31
PF04912	388	Dynamitin: Dynamitin ; InterPro: IPR006996 Dynamit	87.13
PRK15396	78	murein lipoprotein; Provisional	87.08
PRK10476	346	multidrug resistance protein MdtN; Provisional	87.07
PRK11519	719	tyrosine kinase; Provisional	87.06
PF02403	108	Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal dom	87.02
PRK15422	79	septal ring assembly protein ZapB; Provisional	86.97
PF15290	305	Syntaphilin: Golgi-localised syntaxin-1-binding cl	86.89
PRK11546	143	zraP zinc resistance protein; Provisional	86.84
PF06120	301	Phage_HK97_TLTM: Tail length tape measure protein;	86.82
TIGR00293	126	prefoldin, archaeal alpha subunit/eukaryotic subun	86.82
PF07889	126	DUF1664: Protein of unknown function (DUF1664); In	86.72
PF03962	188	Mnd1: Mnd1 family; InterPro: IPR005647 This family	86.54
cd00584	129	Prefoldin_alpha Prefoldin alpha subunit; Prefoldin	86.47
TIGR02231	525	conserved hypothetical protein. This family consis	86.47
PF10212	518	TTKRSYEDQ: Predicted coiled-coil domain-containing	86.17
PF06160	560	EzrA: Septation ring formation regulator, EzrA ; I	86.07
PF07058	351	Myosin_HC-like: Myosin II heavy chain-like; InterP	86.06
KOG0288	459	consensus WD40 repeat protein TipD [General functi	86.04
KOG2264	907	consensus Exostosin EXT1L [Signal transduction mec	85.75
PF09789	319	DUF2353: Uncharacterized coiled-coil protein (DUF2	85.72
COG2900	72	SlyX Uncharacterized protein conserved in bacteria	85.68
PF07851	330	TMPIT: TMPIT-like protein; InterPro: IPR012926 A n	85.59
PF07851	330	TMPIT: TMPIT-like protein; InterPro: IPR012926 A n	85.57
PF05008	79	V-SNARE: Vesicle transport v-SNARE protein N-termi	85.53
PF14197	69	Cep57_CLD_2: Centrosome localisation domain of PPC	85.42
TIGR00998	334	8a0101 efflux pump membrane protein (multidrug res	85.38
cd00890	129	Prefoldin Prefoldin is a hexameric molecular chape	85.36
PF01920	106	Prefoldin_2: Prefoldin subunit; InterPro: IPR00277	85.33
PF03904	230	DUF334: Domain of unknown function (DUF334); Inter	85.18
PF05791	184	Bacillus_HBL: Bacillus haemolytic enterotoxin (HBL	85.08
PF02050	123	FliJ: Flagellar FliJ protein; InterPro: IPR012823	84.72
PRK10869	553	recombination and repair protein; Provisional	84.67
PF13747	89	DUF4164: Domain of unknown function (DUF4164)	84.6
KOG1850	391	consensus Myosin-like coiled-coil protein [Cytoske	84.57
PF08702	146	Fib_alpha: Fibrinogen alpha/beta chain family; Int	84.54
PF01442	202	Apolipoprotein: Apolipoprotein A1/A4/E domain; Int	84.47
PF04102	69	SlyX: SlyX; InterPro: IPR007236 The SlyX protein h	84.43
cd00890	129	Prefoldin Prefoldin is a hexameric molecular chape	84.37
PF07798	177	DUF1640: Protein of unknown function (DUF1640); In	84.07
PF06103	90	DUF948: Bacterial protein of unknown function (DUF	84.0
PRK02119	73	hypothetical protein; Provisional	83.95
PF14362	301	DUF4407: Domain of unknown function (DUF4407)	83.87
KOG0982	502	consensus Centrosomal protein Nuf [Cell cycle cont	83.77
PF06248	593	Zw10: Centromere/kinetochore Zw10; InterPro: IPR00	83.75
PF02403	108	Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal dom	83.72
PRK00409	782	recombination and DNA strand exchange inhibitor pr	83.56
PF13747	89	DUF4164: Domain of unknown function (DUF4164)	83.52
PF11570	136	E2R135: Coiled-coil receptor-binding R-domain of c	83.52
TIGR00293	126	prefoldin, archaeal alpha subunit/eukaryotic subun	83.45
PF10267	395	Tmemb_cc2: Predicted transmembrane and coiled-coil	83.37
PF10205	102	KLRAQ: Predicted coiled-coil domain-containing pro	83.37
PF15456	124	Uds1: Up-regulated During Septation	83.3
PF03904	230	DUF334: Domain of unknown function (DUF334); Inter	83.28
PF09738	302	DUF2051: Double stranded RNA binding protein (DUF2	83.2
PF06705	247	SF-assemblin: SF-assemblin/beta giardin	83.15
PF05546	207	She9_MDM33: She9 / Mdm33 family; InterPro: IPR0088	83.14
PF15290	305	Syntaphilin: Golgi-localised syntaxin-1-binding cl	83.11
KOG4302	660	consensus Microtubule-associated protein essential	83.07
PF06810	155	Phage_GP20: Phage minor structural protein GP20; I	83.03
PF06476	115	DUF1090: Protein of unknown function (DUF1090); In	83.02
PF06248	593	Zw10: Centromere/kinetochore Zw10; InterPro: IPR00	83.01
PF07989	75	Microtub_assoc: Microtubule associated; InterPro:	82.76
KOG2685	421	consensus Cystoskeletal protein Tektin [Cytoskelet	82.75
PF07989	75	Microtub_assoc: Microtubule associated; InterPro:	82.46
PF15294	278	Leu_zip: Leucine zipper	82.35
KOG0998	847	consensus Synaptic vesicle protein EHS-1 and relat	82.33
KOG4593	716	consensus Mitotic checkpoint protein MAD1 [Cell cy	82.29
TIGR03752	472	conj_TIGR03752 integrating conjugative element pro	82.23
COG4477	570	EzrA Negative regulator of septation ring formatio	82.19
COG4487	438	Uncharacterized protein conserved in bacteria [Fun	82.15
COG3074	79	Uncharacterized protein conserved in bacteria [Fun	82.13
PRK04325	74	hypothetical protein; Provisional	81.97
PF04871	136	Uso1_p115_C: Uso1 / p115 like vesicle tethering pr	81.88
PRK00295	68	hypothetical protein; Provisional	81.86
TIGR01069	771	mutS2 MutS2 family protein. Function of MutS2 is u	81.84
PF07111	739	HCR: Alpha helical coiled-coil rod protein (HCR);	81.82
PF08172	248	CASP_C: CASP C terminal; InterPro: IPR012955 This	81.76
PF09486	158	HrpB7: Bacterial type III secretion protein (HrpB7	81.73
PRK11020	118	hypothetical protein; Provisional	81.54
KOG0240	607	consensus Kinesin (SMY1 subfamily) [Cytoskeleton]	81.27
PRK14011	144	prefoldin subunit alpha; Provisional	81.25
KOG2391	365	consensus Vacuolar sorting protein/ubiquitin recep	81.19
PF05529	192	Bap31: B-cell receptor-associated protein 31-like	81.1
PF10458	66	Val_tRNA-synt_C: Valyl tRNA synthetase tRNA bindin	80.9
PRK06975	656	bifunctional uroporphyrinogen-III synthetase/uropo	80.89
KOG2751	447	consensus Beclin-like protein [Signal transduction	80.85
PLN03229	762	acetyl-coenzyme A carboxylase carboxyl transferase	80.83
PF09731	582	Mitofilin: Mitochondrial inner membrane protein; I	80.82
smart00806	426	AIP3 Actin interacting protein 3. Aip3p/Bud6p is a	80.81
PRK00286	438	xseA exodeoxyribonuclease VII large subunit; Revie	80.71
PF11180	192	DUF2968: Protein of unknown function (DUF2968); In	80.55
PF10368	204	YkyA: Putative cell-wall binding lipoprotein; Inte	80.23
PF05103	131	DivIVA: DivIVA protein; InterPro: IPR007793 The Ba	80.09
PRK10361	475	DNA recombination protein RmuC; Provisional	80.02

>PRK11637 AmiB activator; Provisional

Probab=99.20  E-value=1.2e-08  Score=107.40  Aligned_cols=64  Identities=11%  Similarity=0.120  Sum_probs=35.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          130 KESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKF  193 (444)
Q Consensus       130 kelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak~  193 (444)
                      ..+..++..+.+++.+..+++....+.+..+..|+....+++..+.+++...+.++..|.+++.
T Consensus       191 ~~~~~l~~~~~e~~~~k~~L~~~k~e~~~~l~~L~~~~~~~~~~l~~l~~~~~~L~~~I~~l~~  254 (428)
T PRK11637        191 EKQSQQKTLLYEQQAQQQKLEQARNERKKTLTGLESSLQKDQQQLSELRANESRLRDSIARAER  254 (428)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333444444455555555555555555556666666666666666666666666655443

>PRK11637 AmiB activator; Provisional

Probab=98.84  E-value=1e-06  Score=92.84  Aligned_cols=75  Identities=19%  Similarity=0.314  Sum_probs=43.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 013360          125 IDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRS  199 (444)
Q Consensus       125 Ie~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak~E~~~~a  199 (444)
                      ++.+....+.+...+.+++.++.+++....+++....+|+....+.+..+..++.+++..+.++..++.+...+.
T Consensus       172 l~~l~~~~~~L~~~k~~le~~~~~l~~~~~e~~~~k~~L~~~k~e~~~~l~~L~~~~~~~~~~l~~l~~~~~~L~  246 (428)
T PRK11637        172 IAELKQTREELAAQKAELEEKQSQQKTLLYEQQAQQQKLEQARNERKKTLTGLESSLQKDQQQLSELRANESRLR  246 (428)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444445555555555566666666666666666666666666666666666666666555555555555444443

>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=98.75  E-value=3.2e-06  Score=83.34  Aligned_cols=156  Identities=19%  Similarity=0.246  Sum_probs=97.0

Q ss_pred             CchHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh--------------
Q 013360           41 SPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLN--------------  106 (444)
Q Consensus        41 ~~l~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~--------------  106 (444)
                      ..+..+...+..+|+.|..+++++.+++++.+.++.+.+..|.+++++|.++.+.|.+.+.....-              
T Consensus        41 ~~~~~~~~~~q~ei~~L~~qi~~~~~k~~~~~~~i~~~~~eik~l~~eI~~~~~~I~~r~~~l~~raRAmq~nG~~t~Yi  120 (265)
T COG3883          41 SELQKEKKNIQNEIESLDNQIEEIQSKIDELQKEIDQSKAEIKKLQKEIAELKENIVERQELLKKRARAMQVNGTATSYI  120 (265)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChhHHH
Confidence            345556666777777777777777777777777777777777777777777777776554333221              


Q ss_pred             ----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          107 ----AAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALK  182 (444)
Q Consensus       107 ----~~~~i~~ae~~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq  182 (444)
                          ..+.+.+.-.|+.-+..=++--++.++.+..+...|+.....++++.+.+.....+++.....++.+..+++.-+.
T Consensus       121 dvil~SkSfsD~IsRvtAi~~iv~aDk~ile~qk~dk~~Le~kq~~l~~~~e~l~al~~e~e~~~~~L~~qk~e~~~l~~  200 (265)
T COG3883         121 DVILNSKSFSDLISRVTAISVIVDADKKILEQQKEDKKSLEEKQAALEDKLETLVALQNELETQLNSLNSQKAEKNALIA  200 (265)
T ss_pred             HHHHccCcHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                0144455666666666666666777777777777777666666666665555555555555555555555555544


Q ss_pred             HHHHHHHHHHHHHh
Q 013360          183 VAEEEMMRAKFEAT  196 (444)
Q Consensus       183 ~~Eeel~kak~E~~  196 (444)
                      .+......+..|..
T Consensus       201 ~~aa~~a~~~~e~a  214 (265)
T COG3883         201 ALAAKEASALGEKA  214 (265)
T ss_pred             HHHHHHHHhHHHHH
Confidence            44444444444333

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

Probab=98.51  E-value=2.6e-05  Score=70.69  Aligned_cols=136  Identities=24%  Similarity=0.340  Sum_probs=77.8

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHH
Q 013360           43 LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELE  122 (444)
Q Consensus        43 l~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~eLe  122 (444)
                      ++.+.+....+...++.++..+++....++.+|..+...+..++.+|..++.++..+..+...     ......+...|+
T Consensus         5 lk~E~d~a~~r~e~~e~~~K~le~~~~~~E~EI~sL~~K~~~lE~eld~~~~~l~~~k~~lee-----~~~~~~~~E~l~   79 (143)
T PF12718_consen    5 LKLEADNAQDRAEELEAKVKQLEQENEQKEQEITSLQKKNQQLEEELDKLEEQLKEAKEKLEE-----SEKRKSNAEQLN   79 (143)
T ss_pred             HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-----HHHHHHhHHHHH
Confidence            344555555555555555555555555555555555555555555555555555544332221     122223334566


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          123 KQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKV  183 (444)
Q Consensus       123 ~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~  183 (444)
                      ..|+-|+.+++.....+.....++.++..+...+..++..|+......+.+++++..++..
T Consensus        80 rriq~LEeele~ae~~L~e~~ekl~e~d~~ae~~eRkv~~le~~~~~~E~k~eel~~k~~~  140 (143)
T PF12718_consen   80 RRIQLLEEELEEAEKKLKETTEKLREADVKAEHFERKVKALEQERDQWEEKYEELEEKYKE  140 (143)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhhHHHHHHHHHHHHHHHHH
Confidence            6666666666666666666666666666666666666666666666666666666665544

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 [].

>PRK09039 hypothetical protein; Validated

Probab=98.49  E-value=4.4e-05  Score=78.57  Aligned_cols=161  Identities=24%  Similarity=0.279  Sum_probs=85.8

Q ss_pred             hhhhHHHHHHHHHHHHhhhhccCCCCCCCccCccCCCCchHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHH
Q 013360            4 SKLVIFSLFFALILTAADVSIQGEDVPPLTASDAVDSSPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQ   83 (444)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~   83 (444)
                      +-||+..+|++.||..+.+                   -+..+++..+.+|++|+++|+++..-+.--......++..|.
T Consensus        24 ~~ll~~~~f~l~~f~~~q~-------------------fLs~~i~~~~~eL~~L~~qIa~L~e~L~le~~~~~~l~~~l~   84 (343)
T PRK09039         24 STLLLVIMFLLTVFVVAQF-------------------FLSREISGKDSALDRLNSQIAELADLLSLERQGNQDLQDSVA   84 (343)
T ss_pred             HHHHHHHHHHHHHHHHHHH-------------------HHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHH
Confidence            4566666665556655332                   234566667777777777777766555555555555555555


Q ss_pred             HHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           84 DKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKL  163 (444)
Q Consensus        84 e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeL  163 (444)
                      +...++..++..-+.++.-.... ......++.++..+..++...+........++..|..+.+.++.++..++..++..
T Consensus        85 ~l~~~l~~a~~~r~~Le~~~~~~-~~~~~~~~~~~~~l~~~L~~~k~~~se~~~~V~~L~~qI~aLr~Qla~le~~L~~a  163 (343)
T PRK09039         85 NLRASLSAAEAERSRLQALLAEL-AGAGAAAEGRAGELAQELDSEKQVSARALAQVELLNQQIAALRRQLAALEAALDAS  163 (343)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhh-hhhcchHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55555555555544444322210 11122344455555555555555555555555555555555555555555555555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHH
Q 013360          164 QKINDEQKSKIRKTERALKVA  184 (444)
Q Consensus       164 e~~~eeqekqI~elE~~Lq~~  184 (444)
                      +....+++.+|++++.+|+.+
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=98.48  E-value=5e-05  Score=74.21  Aligned_cols=121  Identities=17%  Similarity=0.262  Sum_probs=72.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHH
Q 013360           44 KIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEK  123 (444)
Q Consensus        44 ~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~eLe~  123 (444)
                      ...+...+..+.+++++++.++..+.+++.++..+++++...+..|.++..+++.++.+++.+++.      .++..|+.
T Consensus        23 ~~~~~~~~~~l~k~~~e~e~~~~~~~~~~~e~e~le~qv~~~e~ei~~~r~r~~~~e~kl~~v~~~------~e~~aL~~   96 (239)
T COG1579          23 EPRIKEIRKALKKAKAELEALNKALEALEIELEDLENQVSQLESEIQEIRERIKRAEEKLSAVKDE------RELRALNI   96 (239)
T ss_pred             HHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccH------HHHHHHHH
Confidence            344455677777788888888888888888888888888888888888888888888877655332      23333333


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          124 QIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQ  170 (444)
Q Consensus       124 qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeq  170 (444)
                      +++.++.++.+++.++..+..+...+++++..+...+..++..+.+.
T Consensus        97 E~~~ak~r~~~le~el~~l~~~~~~l~~~i~~l~~~~~~~e~~~~e~  143 (239)
T COG1579          97 EIQIAKERINSLEDELAELMEEIEKLEKEIEDLKERLERLEKNLAEA  143 (239)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444433333333333333333344444444444444443333333

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

Probab=98.48  E-value=7.8e-05  Score=77.87  Aligned_cols=82  Identities=17%  Similarity=0.283  Sum_probs=64.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHh
Q 013360          123 KQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKEL  202 (444)
Q Consensus       123 ~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak~E~~~~a~ei  202 (444)
                      .+++.|.+.+..+......++++..++.....+...+...+...+.+.++...+++..+..-+..+..+.....++..+|
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            45777777777777777777888888888888888888888888888888888888888888888888887777777766


Q ss_pred             hh
Q 013360          203 TE  204 (444)
Q Consensus       203 ~~  204 (444)
                      +.
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=98.37  E-value=8e-05  Score=86.54  Aligned_cols=15  Identities=40%  Similarity=0.601  Sum_probs=5.6

Q ss_pred             HHHHHHHHHHHHHHH
Q 013360           44 KIELDQLKSKIRSLE   58 (444)
Q Consensus        44 ~~eL~~l~~ki~~Le   58 (444)
                      ..++..++.++..++
T Consensus       293 ~~~~~~~~~~~~~~~  307 (1164)
T TIGR02169       293 KEKIGELEAEIASLE  307 (1164)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            333333333333333

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=98.34  E-value=0.0001  Score=66.88  Aligned_cols=52  Identities=23%  Similarity=0.305  Sum_probs=24.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           48 DQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSL   99 (444)
Q Consensus        48 ~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sL   99 (444)
                      +.|+.+.+.......+++.+++.+++...+++..|..++..+..++.+|+.+
T Consensus         3 ~~lk~E~d~a~~r~e~~e~~~K~le~~~~~~E~EI~sL~~K~~~lE~eld~~   54 (143)
T PF12718_consen    3 QALKLEADNAQDRAEELEAKVKQLEQENEQKEQEITSLQKKNQQLEEELDKL   54 (143)
T ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4455555555555555555555544444444444444444444444444433

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

>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=98.25  E-value=0.00089  Score=66.31  Aligned_cols=157  Identities=17%  Similarity=0.239  Sum_probs=99.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHH------
Q 013360           44 KIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHAR------  117 (444)
Q Consensus        44 ~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~------  117 (444)
                      ..+|.++..+...++.+|+.+..+|++....+++++.+|.+...+|..++.+|+.+.+.+..  ..++..-..|      
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            34555566666666666666666666666666666666666666666666666655544432  1222222111      


Q ss_pred             --------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          118 --------------ADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKV  183 (444)
Q Consensus       118 --------------i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~  183 (444)
                                    ++++=.++.-+...++.-+.-++.+......++.....++.+++.+..-..+++.....|+.+...
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                          233334455556666666677777888888888888888888888888888888888888888888


Q ss_pred             HHHHHHHHHHHHhhhhHHh
Q 013360          184 AEEEMMRAKFEATSRSKEL  202 (444)
Q Consensus       184 ~Eeel~kak~E~~~~a~ei  202 (444)
                      .+.-+..+..+......+.
T Consensus       195 ~~~l~~~~aa~~a~~~~e~  213 (265)
T COG3883         195 KNALIAALAAKEASALGEK  213 (265)
T ss_pred             HHHHHHHHHHHHHHhHHHH
Confidence            8777777766665554433

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

Probab=98.22  E-value=0.0001  Score=71.95  Aligned_cols=143  Identities=22%  Similarity=0.356  Sum_probs=64.6

Q ss_pred             HHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           53 KIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKES  132 (444)
Q Consensus        53 ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~eLe~qIe~Lkkel  132 (444)
                      |+..++.++++.+..+......++..+....+.+..+..|+.+|..+...+..+ +..+..+..++..++...+.....+
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            455555555555555555555555566666666666666666666665554432 3333333344444444444333333


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013360          133 EKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEAT  196 (444)
Q Consensus       133 E~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak~E~~  196 (444)
                      ..+.......+.++..++.++.+.....++.....++...++..++..+..++.....++....
T Consensus        81 k~lE~r~~~~eeri~~lE~~l~ea~~~~ee~e~k~~E~~rkl~~~E~~Le~aEeR~e~~E~ki~  144 (237)
T PF00261_consen   81 KVLENREQSDEERIEELEQQLKEAKRRAEEAERKYEEVERKLKVLEQELERAEERAEAAESKIK  144 (237)
T ss_dssp             HHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhchhHH
Confidence            3333333333333333333333333333333333333333333333333333333333333333

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 ....

>PHA02562 46 endonuclease subunit; Provisional

Probab=98.10  E-value=0.00039  Score=75.16  Aligned_cols=89  Identities=19%  Similarity=0.221  Sum_probs=39.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          112 DKAHARADELEKQIDNLKKESE---KQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEM  188 (444)
Q Consensus       112 ~~ae~~i~eLe~qIe~LkkelE---~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel  188 (444)
                      ..++.++..++.++..+...+.   ....+...+..+..+++..+.+....+.++......++..+.+++......+.++
T Consensus       302 ~~l~d~i~~l~~~l~~l~~~i~~~~~~~~~~~~~~~~i~el~~~i~~~~~~i~~~~~~~~~l~~ei~~l~~~~~~~~~~l  381 (562)
T PHA02562        302 TKIKDKLKELQHSLEKLDTAIDELEEIMDEFNEQSKKLLELKNKISTNKQSLITLVDKAKKVKAAIEELQAEFVDNAEEL  381 (562)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchHHHH
Confidence            3344444444444444433333   2222223333444444444444444444444444455555555555444444444


Q ss_pred             HHHHHHHhhhhH
Q 013360          189 MRAKFEATSRSK  200 (444)
Q Consensus       189 ~kak~E~~~~a~  200 (444)
                      ..+..+......
T Consensus       382 ~~l~~~l~~~~~  393 (562)
T PHA02562        382 AKLQDELDKIVK  393 (562)
T ss_pred             HHHHHHHHHHHH
Confidence            444444444433

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

Probab=98.06  E-value=0.0013  Score=64.43  Aligned_cols=126  Identities=17%  Similarity=0.294  Sum_probs=52.6

Q ss_pred             HHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHH
Q 013360           59 SHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNL--KKESEKQQ  136 (444)
Q Consensus        59 sqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~eLe~qIe~L--kkelE~~~  136 (444)
                      .+++.+.-.+++....++.....+...++.+.+++.++.++.+..+.. +..+..+.+++..++..+...  .+++++++
T Consensus        17 ~e~~rl~~~~~~~~~~l~k~~~e~e~~~~~~~~~~~e~e~le~qv~~~-e~ei~~~r~r~~~~e~kl~~v~~~~e~~aL~   95 (239)
T COG1579          17 LEKDRLEPRIKEIRKALKKAKAELEALNKALEALEIELEDLENQVSQL-ESEIQEIRERIKRAEEKLSAVKDERELRALN   95 (239)
T ss_pred             HHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHhccccHHHHHHHH
Confidence            333333333333444444444444444444444444444443333322 233334444444444443222  23344444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          137 KEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAE  185 (444)
Q Consensus       137 ~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~E  185 (444)
                      .++..++.+...++.++.++...++.+++.+...+.++..++..+..++
T Consensus        96 ~E~~~ak~r~~~le~el~~l~~~~~~l~~~i~~l~~~~~~~e~~~~e~~  144 (239)
T COG1579          96 IEIQIAKERINSLEDELAELMEEIEKLEKEIEDLKERLERLEKNLAEAE  144 (239)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444444444444444444444444444444444444444444443333

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

Probab=98.05  E-value=0.0019  Score=67.78  Aligned_cols=52  Identities=12%  Similarity=0.148  Sum_probs=26.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          141 ALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAK  192 (444)
Q Consensus       141 ~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak  192 (444)
                      ++.++...+...+.|-.+.+..++..+...++++.++...-..+..+|.+++
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            4444444555555555555555555555555555555555555554444444

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

Probab=98.05  E-value=0.0022  Score=62.66  Aligned_cols=61  Identities=21%  Similarity=0.362  Sum_probs=29.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          108 AEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKIND  168 (444)
Q Consensus       108 ~~~i~~ae~~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~e  168 (444)
                      +..+..++.++..++..+..|+.++......+..++..-.....+...+..++..|...+.
T Consensus       126 E~~Le~aEeR~e~~E~ki~eLE~el~~~~~~lk~lE~~~~~~~~re~~~e~~i~~L~~~lk  186 (237)
T PF00261_consen  126 EQELERAEERAEAAESKIKELEEELKSVGNNLKSLEASEEKASEREDEYEEKIRDLEEKLK  186 (237)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhchhHHHHHHHHHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHH
Confidence            3445555555555556666665555555555554444433333333333333333333333

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 ....

>PRK02224 chromosome segregation protein; Provisional

Probab=98.04  E-value=0.016  Score=66.39  Aligned_cols=125  Identities=20%  Similarity=0.388  Sum_probs=65.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHH
Q 013360           45 IELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQ  124 (444)
Q Consensus        45 ~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~eLe~q  124 (444)
                      .-++.++..+..+..++.+++.++++....+..++..+. ....+..++..++.++..+.. ..+++.....++..++++
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            444556666666666666666666666666655555433 255555666666655544322 234455555566666666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          125 IDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQK  171 (444)
Q Consensus       125 Ie~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqe  171 (444)
                      +..|+..++........+++...++..++.++..++.+++..+..++
T Consensus       546 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~le  592 (880)
T PRK02224        546 AAELEAEAEEKREAAAEAEEEAEEAREEVAELNSKLAELKERIESLE  592 (880)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            66665555555444444444444443334444444333333333333

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

Probab=98.02  E-value=0.001  Score=78.49  Aligned_cols=9  Identities=11%  Similarity=0.268  Sum_probs=3.5

Q ss_pred             HHHHHHHHH
Q 013360          371 QVQASVQEM  379 (444)
Q Consensus       371 q~q~~~~~~  379 (444)
                      +++...+.+
T Consensus      1021 ~F~~if~~L 1029 (1163)
T COG1196        1021 NFSEIFKEL 1029 (1163)
T ss_pred             HHHHHHHHh
Confidence            334333333

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

Probab=97.98  E-value=0.0014  Score=74.84  Aligned_cols=79  Identities=25%  Similarity=0.383  Sum_probs=35.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          109 EQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARA-IEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEE  187 (444)
Q Consensus       109 ~~i~~ae~~i~eLe~qIe~LkkelE~~~~e~~~LEae~-~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eee  187 (444)
                      .+..+++.++.+.++.+..+++.++.+++.+..++++. +++..++.+.+.+++.|+.+++.++..+..|...++...+.
T Consensus       351 re~~~~~~~~~~~~n~i~~~k~~~d~l~k~I~~~~~~~~~~~~~~~~e~e~k~~~L~~evek~e~~~~~L~~e~~~~~~~  430 (1074)
T KOG0250|consen  351 REVNDLKEEIREIENSIRKLKKEVDRLEKQIADLEKQTNNELGSELEERENKLEQLKKEVEKLEEQINSLREELNEVKEK  430 (1074)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444445555555555555555555555555444443 33444444444444444444444444444444443333333

>PRK03918 chromosome segregation protein; Provisional

Probab=97.96  E-value=0.0027  Score=72.38  Aligned_cols=15  Identities=7%  Similarity=0.253  Sum_probs=5.4

Q ss_pred             HHHHHHHHHHHHHHH
Q 013360          171 KSKIRKTERALKVAE  185 (444)
Q Consensus       171 ekqI~elE~~Lq~~E  185 (444)
                      ...+..++..++.++
T Consensus       679 ~~~~~~l~~~i~~l~  693 (880)
T PRK03918        679 RAELEELEKRREEIK  693 (880)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            333333333333333

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

Probab=97.95  E-value=0.0014  Score=74.78  Aligned_cols=35  Identities=17%  Similarity=0.274  Sum_probs=13.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013360          162 KLQKINDEQKSKIRKTERALKVAEEEMMRAKFEAT  196 (444)
Q Consensus       162 eLe~~~eeqekqI~elE~~Lq~~Eeel~kak~E~~  196 (444)
                      .+...+.+.+.++..++.+++.++..+.++..+.+
T Consensus       391 ~~~~~~~e~e~k~~~L~~evek~e~~~~~L~~e~~  425 (1074)
T KOG0250|consen  391 ELGSELEERENKLEQLKKEVEKLEEQINSLREELN  425 (1074)
T ss_pred             hhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333344444444444443333333333

>PHA02562 46 endonuclease subunit; Provisional

Probab=97.94  E-value=0.0005  Score=74.38  Aligned_cols=20  Identities=25%  Similarity=0.476  Sum_probs=9.1

Q ss_pred             hHHHHHHHHHHHHHHHHHHH
Q 013360           43 LKIELDQLKSKIRSLESHID   62 (444)
Q Consensus        43 l~~eL~~l~~ki~~Lesqi~   62 (444)
                      +..+++.++.++..++.++.
T Consensus       179 ~~~~i~~l~~~i~~l~~~i~  198 (562)
T PHA02562        179 LNQQIQTLDMKIDHIQQQIK  198 (562)
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444443

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

Probab=97.90  E-value=0.01  Score=61.35  Aligned_cols=31  Identities=19%  Similarity=0.367  Sum_probs=20.3

Q ss_pred             CCCchHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013360           39 DSSPLKIELDQLKSKIRSLESHIDEKTQELK   69 (444)
Q Consensus        39 ~~~~l~~eL~~l~~ki~~Lesqi~ele~eI~   69 (444)
                      +...+..++..++.++..++.++..++..++
T Consensus        75 d~~~~~~~l~~l~~~~~~l~a~~~~l~~~~~  105 (423)
T TIGR01843        75 DATDVEADAAELESQVLRLEAEVARLRAEAD  105 (423)
T ss_pred             ccchhhhHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            3345667788888888877777666544443

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.

>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=97.88  E-value=0.026  Score=61.23  Aligned_cols=163  Identities=16%  Similarity=0.247  Sum_probs=87.1

Q ss_pred             CchHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHH
Q 013360           41 SPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADE  120 (444)
Q Consensus        41 ~~l~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~e  120 (444)
                      ..++.+++.+..+...|......++.+......++..++..+.........|..+...+......+ ..+.+.+..+..+
T Consensus       139 ~~lQ~qlE~~qkE~eeL~~~~~~Le~e~~~l~~~v~~l~~eL~~~~ee~e~L~~~~kel~~~~e~l-~~E~~~L~~q~~e  217 (546)
T PF07888_consen  139 QLLQNQLEECQKEKEELLKENEQLEEEVEQLREEVERLEAELEQEEEEMEQLKQQQKELTESSEEL-KEERESLKEQLAE  217 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHH
Confidence            346777777777777777777777777777777777777766666666666666666554433332 2333333444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          121 LEKQIDNLKKESEKQQKEKEALEARAI-------EAE-------KKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEE  186 (444)
Q Consensus       121 Le~qIe~LkkelE~~~~e~~~LEae~~-------elE-------kkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Ee  186 (444)
                      +...|..|+.++..+.....+.+....       +++       .++.+....+..........+...+.+..++..+++
T Consensus       218 ~~~ri~~LEedi~~l~qk~~E~e~~~~~lk~~~~elEq~~~eLk~rLk~~~~~~~~~~~~~~~~~~e~e~LkeqLr~~qe  297 (546)
T PF07888_consen  218 ARQRIRELEEDIKTLTQKEKEQEKELDKLKELKAELEQLEAELKQRLKETVVQLKQEETQAQQLQQENEALKEQLRSAQE  297 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHH
Confidence            444444444444433333322221111       111       222222222222222233455556666677777777


Q ss_pred             HHHHHHHHHhhhhHHhhh
Q 013360          187 EMMRAKFEATSRSKELTE  204 (444)
Q Consensus       187 el~kak~E~~~~a~ei~~  204 (444)
                      .+...+.+..-++.+++.
T Consensus       298 ~lqaSqq~~~~L~~EL~~  315 (546)
T PF07888_consen  298 QLQASQQEAELLRKELSD  315 (546)
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            777777666666666644

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 [].

>PRK02224 chromosome segregation protein; Provisional

Probab=97.86  E-value=0.0023  Score=73.19  Aligned_cols=27  Identities=19%  Similarity=0.348  Sum_probs=11.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 013360           44 KIELDQLKSKIRSLESHIDEKTQELKG   70 (444)
Q Consensus        44 ~~eL~~l~~ki~~Lesqi~ele~eI~~   70 (444)
                      ...+.+++.++..++.+++.+++.+..
T Consensus       205 ~~~l~~~~~~l~el~~~i~~~~~~~~~  231 (880)
T PRK02224        205 HERLNGLESELAELDEEIERYEEQREQ  231 (880)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444444444333333333

>PRK03918 chromosome segregation protein; Provisional

Probab=97.83  E-value=0.0033  Score=71.73  Aligned_cols=44  Identities=20%  Similarity=0.249  Sum_probs=20.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          146 AIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMM  189 (444)
Q Consensus       146 ~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~  189 (444)
                      ...++..+.+++..+..+...+..++..+..++..++.++..+.
T Consensus       661 ~~~l~~~~~~l~~~l~~l~~~~~~l~~~i~~l~~~i~~~~~~~~  704 (880)
T PRK03918        661 YEELREEYLELSRELAGLRAELEELEKRREEIKKTLEKLKEELE  704 (880)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33334444444444444444444555555555555444444333

>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=97.83  E-value=0.0023  Score=73.38  Aligned_cols=89  Identities=24%  Similarity=0.298  Sum_probs=42.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          110 QVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMM  189 (444)
Q Consensus       110 ~i~~ae~~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~  189 (444)
                      ++.++..+++.++..|.++.-.+......+..+....++++..+...+.+++.|.......+....+++..+..+++-+.
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            33344444444444444443333333333444444455555555555555555555555555555555555555554444


Q ss_pred             HHHHHHhhh
Q 013360          190 RAKFEATSR  198 (444)
Q Consensus       190 kak~E~~~~  198 (444)
                      .++.+....
T Consensus       988 E~k~~~~~~  996 (1293)
T KOG0996|consen  988 EIKKELRDL  996 (1293)
T ss_pred             HHHHHHHHH
Confidence            444444433

>PRK09039 hypothetical protein; Validated

Probab=97.80  E-value=0.0036  Score=64.58  Aligned_cols=52  Identities=21%  Similarity=0.226  Sum_probs=22.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          113 KAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQ  164 (444)
Q Consensus       113 ~ae~~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe  164 (444)
                      ..+....+.+.+|..|+.+++.++.++..+++.+..+|.+..+...+++++.
T Consensus       127 ~~k~~~se~~~~V~~L~~qI~aLr~Qla~le~~L~~ae~~~~~~~~~i~~L~  178 (343)
T PRK09039        127 SEKQVSARALAQVELLNQQIAALRRQLAALEAALDASEKRDRESQAKIADLG  178 (343)
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333444444444444444444444444444444444444444444444433

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

Probab=97.74  E-value=0.0068  Score=67.95  Aligned_cols=163  Identities=21%  Similarity=0.328  Sum_probs=86.4

Q ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHH-------------
Q 013360           42 PLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAA-------------  108 (444)
Q Consensus        42 ~l~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~-------------  108 (444)
                      .++.+|.+++.+.++|+.++..+.+....=.+.|..+|..+.+-...=+.++.+|....+.-.....             
T Consensus       457 ~lk~eL~qlr~ene~Lq~Kl~~L~~aRq~DKq~l~~LEkrL~eE~~~R~~lEkQL~eErk~r~~ee~~aar~~~~~~~~r  536 (697)
T PF09726_consen  457 SLKSELSQLRQENEQLQNKLQNLVQARQQDKQSLQQLEKRLAEERRQRASLEKQLQEERKARKEEEEKAARALAQAQATR  536 (697)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHhhhhccccchhcc
Confidence            4555566666666666666666666555555555555655555555555555555444322111000             


Q ss_pred             -HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHH------------
Q 013360          109 -EQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKK-------ISDLSAKLEKLQKIND------------  168 (444)
Q Consensus       109 -~~i~~ae~~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkk-------leEle~kveeLe~~~e------------  168 (444)
                       +--+.+..+..+|+.++..|+.++...++.+..++.+..++...       .+.|...+..++++..            
T Consensus       537 ~e~~e~~r~r~~~lE~E~~~lr~elk~kee~~~~~e~~~~~lr~~~~e~~~~~e~L~~aL~amqdk~~~LE~sLsaEtri  616 (697)
T PF09726_consen  537 QECAESCRQRRRQLESELKKLRRELKQKEEQIRELESELQELRKYEKESEKDTEVLMSALSAMQDKNQHLENSLSAETRI  616 (697)
T ss_pred             chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHhhhHHHHH
Confidence             11123556777778888888887777777777777776544432       3333333334444443            


Q ss_pred             --HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHhhh
Q 013360          169 --EQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTE  204 (444)
Q Consensus       169 --eqekqI~elE~~Lq~~Eeel~kak~E~~~~a~ei~~  204 (444)
                        ++-..+.+..++++.++..+.+-..|..++..+|++
T Consensus       617 KldLfsaLg~akrq~ei~~~~~~~~d~ei~~lk~ki~~  654 (697)
T PF09726_consen  617 KLDLFSALGDAKRQLEIAQGQLRKKDKEIEELKAKIAQ  654 (697)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence              222333444445555555555555555444444433

; GO: 0016021 integral to membrane

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

Probab=97.73  E-value=0.0054  Score=67.53  Aligned_cols=150  Identities=13%  Similarity=0.188  Sum_probs=71.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHH--HHHHHHHHHHHHHHHH
Q 013360           47 LDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAA--EQVDKAHARADELEKQ  124 (444)
Q Consensus        47 L~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~--~~i~~ae~~i~eLe~q  124 (444)
                      ...-..++.+|+.+++++..+|.....+++.+...+.+...++.+...+...++........  .-+.++++++..|+..
T Consensus       323 ~~~~~~el~~l~~~l~~l~~~i~~~~~~~~~l~~~~~q~~~e~~~~~~~~~~le~~~~l~~k~~~lL~d~e~ni~kL~~~  402 (594)
T PF05667_consen  323 QEEQEQELEELQEQLDELESQIEELEAEIKMLKSSLKQLEEELEEKEAENEELEEELKLKKKTVELLPDAEENIAKLQAL  402 (594)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHH
Confidence            34445555555555555555555555555555555555555555555555555444332211  1233555666666666


Q ss_pred             HHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013360          125 IDNLKKESEKQQKEKE----ALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEAT  196 (444)
Q Consensus       125 Ie~LkkelE~~~~e~~----~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak~E~~  196 (444)
                      ++.-...+..+..+=+    .|..+...++.............-..+.+...+++++...++.-++.+.++..+..
T Consensus       403 v~~s~~rl~~L~~qWe~~R~pL~~e~r~lk~~~~~~~~e~~~~~~~ik~~r~~~k~~~~e~~~Kee~~~qL~~e~e  478 (594)
T PF05667_consen  403 VEASEQRLVELAQQWEKHRAPLIEEYRRLKEKASNRESESKQKLQEIKELREEIKEIEEEIRQKEELYKQLVKELE  478 (594)
T ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6666555555543333    22223333333333222333333334444444444444444444444444444444

>KOG0161 consensus Myosin class II heavy chain [Cytoskeleton]

Probab=97.72  E-value=0.0063  Score=74.06  Aligned_cols=58  Identities=26%  Similarity=0.369  Sum_probs=24.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          128 LKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAE  185 (444)
Q Consensus       128 LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~E  185 (444)
                      ++...+.+..++...+.++..+..++.+....+..++..+.+++.+|.++.+.++.-.
T Consensus      1060 ~~~~~~el~~~l~kke~El~~l~~k~e~e~~~~~~l~k~i~eL~~~i~el~e~le~er 1117 (1930)
T KOG0161|consen 1060 LKKQKEELDNQLKKKESELSQLQSKLEDEQAEVAQLQKQIKELEARIKELEEELEAER 1117 (1930)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333334444444444444444444444444444444444444444444444333

>PRK04863 mukB cell division protein MukB; Provisional

Probab=97.69  E-value=0.02  Score=69.04  Aligned_cols=37  Identities=14%  Similarity=0.113  Sum_probs=17.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013360          162 KLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSR  198 (444)
Q Consensus       162 eLe~~~eeqekqI~elE~~Lq~~Eeel~kak~E~~~~  198 (444)
                      +|+..++....++.+.+.++...+.++..++......
T Consensus       439 eLe~~LenF~aklee~e~qL~elE~kL~~lea~leql  475 (1486)
T PRK04863        439 NAEDWLEEFQAKEQEATEELLSLEQKLSVAQAAHSQF  475 (1486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444444445555555555554444444444433

>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=97.68  E-value=0.012  Score=63.69  Aligned_cols=52  Identities=15%  Similarity=0.265  Sum_probs=26.8

Q ss_pred             HHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013360           50 LKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQK  101 (444)
Q Consensus        50 l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqk  101 (444)
                      ++.++...+.+..++.+....+..+..++...+.+++..+.....+...|+.
T Consensus       141 lQ~qlE~~qkE~eeL~~~~~~Le~e~~~l~~~v~~l~~eL~~~~ee~e~L~~  192 (546)
T PF07888_consen  141 LQNQLEECQKEKEELLKENEQLEEEVEQLREEVERLEAELEQEEEEMEQLKQ  192 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4555555555555555555555555555555555555444444444444443

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 [].

>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=0.02  Score=65.20  Aligned_cols=81  Identities=32%  Similarity=0.418  Sum_probs=38.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          118 ADELEKQIDNLKKESEKQQKEK-------EALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMR  190 (444)
Q Consensus       118 i~eLe~qIe~LkkelE~~~~e~-------~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~k  190 (444)
                      +.+++++|..++.+++....+.       ..+.-+..++++.+...++.+..++..++.+...+..+...+...+....+
T Consensus       789 lkdl~keik~~k~~~e~~~~~~ek~~~e~e~l~lE~e~l~~e~~~~k~~l~~~~~~~~~l~~e~~~l~~kv~~~~~~~~~  868 (1174)
T KOG0933|consen  789 LKDLEKEIKTAKQRAEESSKELEKRENEYERLQLEHEELEKEISSLKQQLEQLEKQISSLKSELGNLEAKVDKVEKDVKK  868 (1174)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhHHHH
Confidence            4444444444444444444433       344444444444444444444555555555555555555555555555555


Q ss_pred             HHHHHhhh
Q 013360          191 AKFEATSR  198 (444)
Q Consensus       191 ak~E~~~~  198 (444)
                      ++.+.+..
T Consensus       869 ~~~el~~~  876 (1174)
T KOG0933|consen  869 AQAELKDQ  876 (1174)
T ss_pred             HHHHHHHH
Confidence            55555533

>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=97.63  E-value=0.016  Score=66.85  Aligned_cols=73  Identities=22%  Similarity=0.285  Sum_probs=29.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          123 KQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEA  195 (444)
Q Consensus       123 ~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak~E~  195 (444)
                      .++.....+++-.+.++.-|..+.+..-+++.++...+......+.+....+..++..|...+.++.....+.
T Consensus       493 ~~~n~~~~e~~vaesel~~L~~~~~~~~~~~e~lk~~L~~~~~~~~e~~~~l~~~k~~l~~~k~e~~~~~k~l  565 (1293)
T KOG0996|consen  493 KQVNEARSELDVAESELDILLSRHETGLKKVEELKGKLLASSESLKEKKTELDDLKEELPSLKQELKEKEKEL  565 (1293)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhH
Confidence            3333333333333333333333344444444444444444444444444444444444444444443333333

>TIGR00606 rad50 rad50

Probab=97.59  E-value=0.026  Score=67.72  Aligned_cols=26  Identities=8%  Similarity=0.097  Sum_probs=17.6

Q ss_pred             chHHHHHHHHHHHHHccccccchHHHHHhhhhhhHHhHHHh
Q 013360          236 AMDVAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVV  276 (444)
Q Consensus       236 ~~~~~~~k~~~~~~~~~~w~~p~~~~~~~k~~p~~~~~w~~  276 (444)
                      +=..+..=|+.+|+.               ...++.+-|..
T Consensus      1127 ~~~~~~~~~~~~~~~---------------~n~~~~~~w~~ 1152 (1311)
T TIGR00606      1127 LDQAIMKFHSMKMEE---------------INKIIRDLWRS 1152 (1311)
T ss_pred             HHHHHHHHHHHHHHH---------------HHHHHHHHHHH
Confidence            333555667777877               56678888874

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

>PF15619 Lebercilin: Ciliary protein causing Leber congenital amaurosis disease

Probab=97.57  E-value=0.058  Score=51.46  Aligned_cols=155  Identities=17%  Similarity=0.271  Sum_probs=72.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhhhHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHH
Q 013360           45 IELDQLKSKIRSLESHIDEKTQELKGKDEV-------VAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHAR  117 (444)
Q Consensus        45 ~eL~~l~~ki~~Lesqi~ele~eI~~k~~e-------Ik~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~  117 (444)
                      -+|..++.++..++.++.++..+-..+..-       |...+..=.++...|....++|..|...+... ......++.+
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            455556666666666666655554443332       32223333444444555555555554433332 2333344444


Q ss_pred             HHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHH
Q 013360          118 ADELEKQIDNLKKESEKQQK--------EKEALEARAIEAEKKISDLSAKLEKLQKIND----EQKSKIRKTERALKVAE  185 (444)
Q Consensus       118 i~eLe~qIe~LkkelE~~~~--------e~~~LEae~~elEkkleEle~kveeLe~~~e----eqekqI~elE~~Lq~~E  185 (444)
                      +.+.+.++.+++.++..+..        +.++|..++..++.++.+...++..|+..++    ....++..-......++
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            44444444444444433322        1334555555555555555555555544443    33344444444444444


Q ss_pred             HHHHHHHHHHhhhhH
Q 013360          186 EEMMRAKFEATSRSK  200 (444)
Q Consensus       186 eel~kak~E~~~~a~  200 (444)
                      .++..+..|...+..
T Consensus       171 ~~~~~l~~ei~~L~~  185 (194)
T PF15619_consen  171 EEVKSLQEEIQRLNQ  185 (194)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            444444444444433

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

Probab=97.53  E-value=0.089  Score=52.91  Aligned_cols=36  Identities=28%  Similarity=0.409  Sum_probs=16.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          143 EARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTE  178 (444)
Q Consensus       143 Eae~~elEkkleEle~kveeLe~~~eeqekqI~elE  178 (444)
                      ..+..++...+..+...++.+...+..++..+.+++
T Consensus       215 ~~E~~~~r~~~~~l~~el~~l~~~~~~Le~~l~~le  250 (312)
T PF00038_consen  215 KEELKELRRQIQSLQAELESLRAKNASLERQLRELE  250 (312)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhHHHHHHhhhhHhhhhhhccccchhhhhhhHHHHH
Confidence            333444444444444444444444444444444443

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 ....

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

Probab=97.52  E-value=0.28  Score=58.60  Aligned_cols=32  Identities=6%  Similarity=0.214  Sum_probs=18.7

Q ss_pred             hcccHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          347 LKPYTKKVVRAYGKFLKSATTYHHQVQASVQE  378 (444)
Q Consensus       347 ~~Py~~~~~~~~~~~~~~a~~~h~q~q~~~~~  378 (444)
                      +.=....+...+..|+..-..+++.++.+.++
T Consensus       983 l~e~~~~~~~~i~~f~~~l~~~~r~I~~~s~~ 1014 (1201)
T PF12128_consen  983 LIEQGRNIGNDISNFYGVLEDFDRRIKSQSRR 1014 (1201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHH
Confidence            33334445555666666666777777666444

>TIGR00606 rad50 rad50

Probab=97.49  E-value=0.009  Score=71.55  Aligned_cols=16  Identities=0%  Similarity=0.200  Sum_probs=7.6

Q ss_pred             HHHHHHHHHHHHHHHh
Q 013360           86 SERIVSLQKELSSLQK  101 (444)
Q Consensus        86 e~~I~eLq~kI~sLqk  101 (444)
                      ..+|.+++.+|+++..
T Consensus       798 ~~ei~~l~~qie~l~~  813 (1311)
T TIGR00606       798 QMELKDVERKIAQQAA  813 (1311)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            4444444555544443

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

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

Probab=97.48  E-value=0.24  Score=53.80  Aligned_cols=151  Identities=20%  Similarity=0.298  Sum_probs=79.7

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHH---HhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHH
Q 013360           43 LKIELDQLKSKIRSLESHIDEKT---QELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARAD  119 (444)
Q Consensus        43 l~~eL~~l~~ki~~Lesqi~ele---~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~  119 (444)
                      ...+++.++..-..|+.+|++++   +.++...+..+.+.+.++....-...+.++-..+.+++... ..++..-++++.
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            44566666666666666666443   23344444444444444444444444444444444444332 333444455555


Q ss_pred             HHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHH
Q 013360          120 ELEKQIDNLKKESEKQ---QKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIR----KTERALKVAEEEMMRAK  192 (444)
Q Consensus       120 eLe~qIe~LkkelE~~---~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~----elE~~Lq~~Eeel~kak  192 (444)
                      .+..++++|++.++.+   -++.+....+.+.+...++.++.+++.+.+.+-+++.+++    +++..+..+...+.++.
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            5555666666555555   2334455666667777777777777777666665544443    33444444444444444


Q ss_pred             HH
Q 013360          193 FE  194 (444)
Q Consensus       193 ~E  194 (444)
                      .-
T Consensus       392 l~  393 (581)
T KOG0995|consen  392 LG  393 (581)
T ss_pred             HH
Confidence            43

>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=97.44  E-value=0.036  Score=62.80  Aligned_cols=99  Identities=21%  Similarity=0.331  Sum_probs=45.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHH
Q 013360           46 ELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQI  125 (444)
Q Consensus        46 eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~eLe~qI  125 (444)
                      .|+-++-.+...+...+-+.++++.+...+..++..+.+++..|..++.+...++.++... ....+..+.+|..|...|
T Consensus       323 hi~~lkesl~~ke~~~~~Lqsdve~Lr~rle~k~~~l~kk~~~~~~~qeE~~~~~~Ei~~l-~d~~d~~e~ki~~Lq~ki  401 (775)
T PF10174_consen  323 HIEVLKESLRAKEQEAEMLQSDVEALRFRLEEKNSQLEKKQAQIEKLQEEKSRLQGEIEDL-RDMLDKKERKINVLQKKI  401 (775)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHH
Confidence            3333444444444444444444444444444455555555555555555554444444332 233344444455555555


Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q 013360          126 DNLKKESEKQQKEKEALEAR  145 (444)
Q Consensus       126 e~LkkelE~~~~e~~~LEae  145 (444)
                      +.|...+.....++.....+
T Consensus       402 e~Lee~l~ekd~ql~~~k~R  421 (775)
T PF10174_consen  402 ENLEEQLREKDRQLDEEKER  421 (775)
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            55544444444444433333

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 [].

>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=97.43  E-value=0.11  Score=59.48  Aligned_cols=14  Identities=29%  Similarity=0.612  Sum_probs=6.7

Q ss_pred             HHHHHHHHcccccc
Q 013360          243 KALEKKAQAGKWVQ  256 (444)
Q Consensus       243 k~~~~~~~~~~w~~  256 (444)
                      +.-+.+..-+.|++
T Consensus       927 k~v~~l~~k~~wi~  940 (1174)
T KOG0933|consen  927 KEVEKLLKKHEWIG  940 (1174)
T ss_pred             HHHHHHHHhccchh
Confidence            33444444455554

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

Probab=97.42  E-value=0.1  Score=52.43  Aligned_cols=40  Identities=23%  Similarity=0.308  Sum_probs=23.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          146 AIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAE  185 (444)
Q Consensus       146 ~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~E  185 (444)
                      +..+...+.++...++.++..++.++.....++..+..++
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            4444445555566666666666666666666666665554

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

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

Probab=97.42  E-value=0.013  Score=64.50  Aligned_cols=166  Identities=22%  Similarity=0.303  Sum_probs=99.2

Q ss_pred             CchHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh--hHHHHHHHHHHHH
Q 013360           41 SPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETL--NAAEQVDKAHARA  118 (444)
Q Consensus        41 ~~l~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~--~~~~~i~~ae~~i  118 (444)
                      ..-..++++++.+|+.+..++.+++.+++.....+++++..+.+......+++.++.-..+-...  ..++.+.+++.-+
T Consensus       324 ~~~~~el~~l~~~l~~l~~~i~~~~~~~~~l~~~~~q~~~e~~~~~~~~~~le~~~~l~~k~~~lL~d~e~ni~kL~~~v  403 (594)
T PF05667_consen  324 EEQEQELEELQEQLDELESQIEELEAEIKMLKSSLKQLEEELEEKEAENEELEEELKLKKKTVELLPDAEENIAKLQALV  403 (594)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHH
Confidence            34588999999999999999999999999999999999999999999999999998754332222  2334444444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHH-------------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----
Q 013360          119 DELEKQIDNLKKESEKQQKEK-------------------------EALEARAIEAEKKISDLSAKLEKLQKIND-----  168 (444)
Q Consensus       119 ~eLe~qIe~LkkelE~~~~e~-------------------------~~LEae~~elEkkleEle~kveeLe~~~e-----  168 (444)
                      ..-...+..|..+-+..+.-+                         ..+..+..+++.++..-+.....|....+     
T Consensus       404 ~~s~~rl~~L~~qWe~~R~pL~~e~r~lk~~~~~~~~e~~~~~~~ik~~r~~~k~~~~e~~~Kee~~~qL~~e~e~~~k~  483 (594)
T PF05667_consen  404 EASEQRLVELAQQWEKHRAPLIEEYRRLKEKASNRESESKQKLQEIKELREEIKEIEEEIRQKEELYKQLVKELEKLPKD  483 (594)
T ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCC
Confidence            444444333332222221111                         11111122222222222222222222222     


Q ss_pred             ----HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHhhhhh
Q 013360          169 ----EQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTEVH  206 (444)
Q Consensus       169 ----eqekqI~elE~~Lq~~Eeel~kak~E~~~~a~ei~~~~  206 (444)
                          .+-.+|-++-..|...+++|.+.-.+...+++++....
T Consensus       484 ~~Rs~Yt~RIlEIv~NI~KQk~eI~KIl~DTr~lQkeiN~l~  525 (594)
T PF05667_consen  484 VNRSAYTRRILEIVKNIRKQKEEIEKILSDTRELQKEINSLT  525 (594)
T ss_pred             CCHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                34455666666667777777777777777777775533

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

Probab=97.42  E-value=0.0097  Score=66.71  Aligned_cols=98  Identities=14%  Similarity=0.254  Sum_probs=59.7

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHH
Q 013360           43 LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELE  122 (444)
Q Consensus        43 l~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~eLe  122 (444)
                      |..++..|+.+|...+..=+|+.++|...+..=..+...|.++..+...|+.++..|......+ ...+..++.++.+..
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            4455555666666666666666666555555444555556666666666666666554333322 244567788888888


Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q 013360          123 KQIDNLKKESEKQQKEKEA  141 (444)
Q Consensus       123 ~qIe~LkkelE~~~~e~~~  141 (444)
                      .+...++++|...++.+.+
T Consensus       502 ~~R~~lEkQL~eErk~r~~  520 (697)
T PF09726_consen  502 RQRASLEKQLQEERKARKE  520 (697)
T ss_pred             HHHHHHHHHHHHHHHHHhH
Confidence            8888888777776655443

; GO: 0016021 integral to membrane

>KOG0243 consensus Kinesin-like protein [Cytoskeleton]

Probab=97.40  E-value=0.23  Score=57.50  Aligned_cols=56  Identities=7%  Similarity=0.176  Sum_probs=38.7

Q ss_pred             HhhcCcchHhHHHhhcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCchhcc
Q 013360          333 ATVAKPHVDNVRVALKPYTKKVVRAYGKFLKSATTYHHQVQASVQEMLKKHELTSPLAT  391 (444)
Q Consensus       333 ~~~~~p~~~~~~~~~~Py~~~~~~~~~~~~~~a~~~h~q~q~~~~~~~~~~e~~~~~a~  391 (444)
                      ++-+..-++.+..-.-|+...+...+..++..+..+...+|+.++   .+-+++.-+++
T Consensus       645 k~~~~s~l~~i~s~~~~~~~~~~~~l~~~~~~~~~~~~~i~~~l~---~q~~~~~l~~~  700 (1041)
T KOG0243|consen  645 KKDSESCLEVINSSITSSINELESMLETIANTADDLLQNISSRLS---NQQEILSLFAN  700 (1041)
T ss_pred             hhhHHHHHHHHhccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHh---hhhhHHHHhhH
Confidence            333444445666667777888888899999999999888888777   34444455544

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

Probab=97.39  E-value=0.016  Score=64.38  Aligned_cols=64  Identities=20%  Similarity=0.258  Sum_probs=44.4

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 013360           43 LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLN  106 (444)
Q Consensus        43 l~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~  106 (444)
                      +..+++.|+-++.+|..++.++.-+|.....+|......++-.-.+|..|+.+|..+|.++..+
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            4556666666677776666666666777777777777777777777777777777777666543

>PRK04863 mukB cell division protein MukB; Provisional

Probab=97.38  E-value=0.06  Score=65.09  Aligned_cols=25  Identities=16%  Similarity=0.000  Sum_probs=11.3

Q ss_pred             hccCCcchHHHHHHHHHHHHHcccc
Q 013360          230 NAHGKPAMDVAIQKALEKKAQAGKW  254 (444)
Q Consensus       230 ~~hg~p~~~~~~~k~~~~~~~~~~w  254 (444)
                      ...|+---..+...+.++...+..|
T Consensus       484 ~~~Gkv~~~~a~~~~~~~~~~~~~~  508 (1486)
T PRK04863        484 KIAGEVSRSEAWDVARELLRRLREQ  508 (1486)
T ss_pred             HHcCCcCHHHHHHHHHHHHHHhHHH
Confidence            3444444444444444444443333

>PRK11281 hypothetical protein; Provisional

Probab=97.36  E-value=0.025  Score=66.44  Aligned_cols=34  Identities=18%  Similarity=0.261  Sum_probs=19.4

Q ss_pred             HHHHHHHHHHHHHHHHHH---HHHHH---HHHHHHHhcCC
Q 013360          352 KKVVRAYGKFLKSATTYH---HQVQA---SVQEMLKKHEL  385 (444)
Q Consensus       352 ~~~~~~~~~~~~~a~~~h---~q~q~---~~~~~~~~~e~  385 (444)
                      +.....+...+..+.+..   +|+..   .++++|.+|-|
T Consensus       417 ~~l~~~~~~~l~~~~~l~~~q~Ql~~~~~~l~~~L~~~lf  456 (1113)
T PRK11281        417 DQLNKQLNNQLNLAINLQLNQQQLLSVSDSLQSTLTQQIF  456 (1113)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            445556666666666663   55543   45566666544

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

Probab=97.33  E-value=0.044  Score=56.06  Aligned_cols=74  Identities=23%  Similarity=0.360  Sum_probs=34.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHhhh
Q 013360          125 IDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAE----EEMMRAKFEATSR  198 (444)
Q Consensus       125 Ie~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~E----eel~kak~E~~~~  198 (444)
                      +..++.++.....+++....++.+++.++..+...++.+...+.++..+|.++++.+....    .++.+++.+...+
T Consensus       211 L~~lr~eL~~~~~~i~~~k~~l~el~~el~~l~~~i~~~~~~k~~l~~eI~e~~~~~~~~r~~t~~Ev~~Lk~~~~~L  288 (325)
T PF08317_consen  211 LEALRQELAEQKEEIEAKKKELAELQEELEELEEKIEELEEQKQELLAEIAEAEKIREECRGWTRSEVKRLKAKVDAL  288 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHH
Confidence            3333444444444444444444444444444444455555555555555555554443322    4455555554433

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

Probab=97.32  E-value=0.033  Score=57.69  Aligned_cols=23  Identities=13%  Similarity=0.226  Sum_probs=10.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q 013360          172 SKIRKTERALKVAEEEMMRAKFE  194 (444)
Q Consensus       172 kqI~elE~~Lq~~Eeel~kak~E  194 (444)
                      ..+.+++.++..++..+..++..
T Consensus       246 ~~l~~~~~~l~~~~~~l~~~~~~  268 (423)
T TIGR01843       246 EELTEAQARLAELRERLNKARDR  268 (423)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444444444433

Type I secretion is an ABC transport process that exports proteins, without cleavage of any signal sequence, from the cytosol to extracellular medium across both inner and outer membranes. The secretion signal is found in the C-terminus of the transported protein. This model represents the adaptor protein between the ATP-binding cassette (ABC) protein of the inner membrane and the outer membrane protein, and is called the membrane fusion protein. This model selects a subfamily closely related to HlyD; it is defined narrowly and excludes, for example, colicin V secretion protein CvaA and multidrug efflux proteins.

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

Probab=97.27  E-value=0.31  Score=50.66  Aligned_cols=38  Identities=16%  Similarity=0.238  Sum_probs=18.1

Q ss_pred             HHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           63 EKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQ  100 (444)
Q Consensus        63 ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLq  100 (444)
                      ..++++....+|-+..+....+.......-+.++..++
T Consensus       106 ~~~~El~~~r~e~~~v~~~~~~a~~n~~kAqQ~lar~t  143 (499)
T COG4372         106 AARSELQKARQEREAVRQELAAARQNLAKAQQELARLT  143 (499)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33335554444444455555555555444444444443

>PRK04778 septation ring formation regulator EzrA; Provisional

Probab=97.27  E-value=0.45  Score=52.38  Aligned_cols=49  Identities=14%  Similarity=0.259  Sum_probs=21.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013360          148 EAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEAT  196 (444)
Q Consensus       148 elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak~E~~  196 (444)
                      +++..+.++...++.++....+....+..+......+...+.+.+....
T Consensus       380 el~e~leel~e~leeie~eq~ei~e~l~~Lrk~E~eAr~kL~~~~~~L~  428 (569)
T PRK04778        380 ELQEELEEILKQLEEIEKEQEKLSEMLQGLRKDELEAREKLERYRNKLH  428 (569)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444444444444444444444444444444444444444444333

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

Probab=97.27  E-value=0.76  Score=54.96  Aligned_cols=98  Identities=19%  Similarity=0.357  Sum_probs=55.6

Q ss_pred             CCCchHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-------hhhHHHHH
Q 013360           39 DSSPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKE-------TLNAAEQV  111 (444)
Q Consensus        39 ~~~~l~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~-------s~~~~~~i  111 (444)
                      +...++.++..++..+..+.....+++..+......++.....+.+....+.....++..+++..       ....++..
T Consensus       601 ~ee~L~~~l~~~~~~l~~~~~~~~~~e~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~  680 (1201)
T PF12128_consen  601 SEEELRERLEQAEDQLQSAEERQEELEKQLKQINKKIEELKREITQAEQELKQAEQDLQRLKNEREQLKQEIEEAKEERK  680 (1201)
T ss_pred             ChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44467777777777777777666666666666666666665555555555555555554444443       33333444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          112 DKAHARADELEKQIDNLKKESEKQQ  136 (444)
Q Consensus       112 ~~ae~~i~eLe~qIe~LkkelE~~~  136 (444)
                      ..++.++..++.++..++++++...
T Consensus       681 ~~~~~~l~~l~~~l~~~~~e~~~~~  705 (1201)
T PF12128_consen  681 EQIEEQLNELEEELKQLKQELEELL  705 (1201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4555555555555555554444443

>PRK01156 chromosome segregation protein; Provisional

Probab=97.24  E-value=0.036  Score=63.77  Aligned_cols=43  Identities=9%  Similarity=0.134  Sum_probs=18.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          146 AIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEM  188 (444)
Q Consensus       146 ~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel  188 (444)
                      ...++.....+...++.+...+..+...+..+..++..+++++
T Consensus       676 ~~~~~~~~~~l~~~l~~l~~~~~~l~~~i~~l~~~~~~l~eel  718 (895)
T PRK01156        676 INDIEDNLKKSRKALDDAKANRARLESTIEILRTRINELSDRI  718 (895)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHH
Confidence            3444444444444444444444444444444444444444333

>PF12795 MscS_porin: Mechanosensitive ion channel porin domain

Probab=97.23  E-value=0.18  Score=49.23  Aligned_cols=116  Identities=14%  Similarity=0.234  Sum_probs=48.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHH
Q 013360           76 AQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQ---------QKEKEALEARA  146 (444)
Q Consensus        76 k~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~eLe~qIe~LkkelE~~---------~~e~~~LEae~  146 (444)
                      .+++..|.+....+.+++..+...+..+... ......+...+.++..+++.+...+...         ......++++.
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            3344444444444444444444444333332 2233334444444444444444443331         22233444444


Q ss_pred             HHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          147 IEAEKKISDLSAKLEKLQ-------KINDEQKSKIRKTERALKVAEEEMMRAK  192 (444)
Q Consensus       147 ~elEkkleEle~kveeLe-------~~~eeqekqI~elE~~Lq~~Eeel~kak  192 (444)
                      .-+..++..++..+....       ...+....++..++..++.++..++...
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            444444444444443333       3344444444444444444444444333

>PF15619 Lebercilin: Ciliary protein causing Leber congenital amaurosis disease

Probab=97.22  E-value=0.2  Score=47.86  Aligned_cols=64  Identities=28%  Similarity=0.360  Sum_probs=27.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013360          133 EKQQKEKEALEARAIEAEKKISDLSAKLEKLQ----KINDEQKSKIRKTERALKVAEEEMMRAKFEAT  196 (444)
Q Consensus       133 E~~~~e~~~LEae~~elEkkleEle~kveeLe----~~~eeqekqI~elE~~Lq~~Eeel~kak~E~~  196 (444)
                      +.+...++.++.++.+.+.++..++..++-.+    ..+..-..+..++...++.+++++..+.....
T Consensus       121 eeL~~kL~~~~~~l~~~~~ki~~Lek~leL~~k~~~rql~~e~kK~~~~~~~~~~l~~ei~~L~~klk  188 (194)
T PF15619_consen  121 EELQRKLSQLEQKLQEKEKKIQELEKQLELENKSFRRQLASEKKKHKEAQEEVKSLQEEIQRLNQKLK  188 (194)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444444444444433222    22223344444444455555555544444443

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

Probab=97.21  E-value=0.22  Score=50.29  Aligned_cols=52  Identities=27%  Similarity=0.404  Sum_probs=23.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          117 RADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKIND  168 (444)
Q Consensus       117 ~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~e  168 (444)
                      .+.++-++++.++.....+...+.++-.++++.-.++.++-.+.+.+.+..+
T Consensus       159 ~~~el~aei~~lk~~~~e~~eki~~la~eaqe~he~m~k~~~~~De~Rkead  210 (294)
T COG1340         159 KLKELKAEIDELKKKAREIHEKIQELANEAQEYHEEMIKLFEEADELRKEAD  210 (294)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444555555555555555554444444444443333333333333333

>PRK04778 septation ring formation regulator EzrA; Provisional

Probab=97.21  E-value=0.042  Score=60.32  Aligned_cols=19  Identities=21%  Similarity=0.337  Sum_probs=10.0

Q ss_pred             hHHHHHHHHHHHHHHHHHH
Q 013360           43 LKIELDQLKSKIRSLESHI   61 (444)
Q Consensus        43 l~~eL~~l~~ki~~Lesqi   61 (444)
                      ...+++.++.+|......+
T Consensus       254 i~~~i~~l~~~i~~~~~~l  272 (569)
T PRK04778        254 IEKEIQDLKEQIDENLALL  272 (569)
T ss_pred             hHHHHHHHHHHHHHHHHHH
Confidence            4456666665555543333

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

Probab=97.20  E-value=0.067  Score=58.24  Aligned_cols=18  Identities=22%  Similarity=0.329  Sum_probs=6.8

Q ss_pred             HHHHHHHHhhhhhHHHHH
Q 013360           59 SHIDEKTQELKGKDEVVA   76 (444)
Q Consensus        59 sqi~ele~eI~~k~~eIk   76 (444)
                      ++.......|..+..++.
T Consensus       242 ~kL~~a~~~l~~Lq~El~  259 (522)
T PF05701_consen  242 SKLAEASAELESLQAELE  259 (522)
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            333333333333333333

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=97.18  E-value=0.072  Score=47.53  Aligned_cols=65  Identities=26%  Similarity=0.443  Sum_probs=32.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          109 EQVDKAHARADELEKQIDNLKKESEKQQKEKE----ALEARAIEAEKKISDLSAKLEKLQKINDEQKSK  173 (444)
Q Consensus       109 ~~i~~ae~~i~eLe~qIe~LkkelE~~~~e~~----~LEae~~elEkkleEle~kveeLe~~~eeqekq  173 (444)
                      +.+..++.++..++.++..|+...+.....+.    .++.+...+++.+.++..++++|...+.-+-.+
T Consensus        59 ~~L~~lr~e~~~~~~~~~~l~~~~~~a~~~l~~~e~sw~~qk~~le~e~~~~~~r~~dL~~QN~lLh~Q  127 (132)
T PF07926_consen   59 KELQQLREELQELQQEINELKAEAESAKAELEESEASWEEQKEQLEKELSELEQRIEDLNEQNKLLHDQ  127 (132)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44445555555555555555555554444333    344445555555555555555555444443333

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=97.15  E-value=0.17  Score=48.41  Aligned_cols=104  Identities=22%  Similarity=0.338  Sum_probs=61.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHH
Q 013360           47 LDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQID  126 (444)
Q Consensus        47 L~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~eLe~qIe  126 (444)
                      |..++.+|.++..+....+..+.+...+...+..-+.....++.+|+.++...++.-     ..+..++.++..++.++.
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            344555555555555555555555555555555566666666666666665554221     223456667777777777


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          127 NLKKESEKQQKEKEALEARAIEAEKKISD  155 (444)
Q Consensus       127 ~LkkelE~~~~e~~~LEae~~elEkkleE  155 (444)
                      .|+-+-+.+......++.+..++..+...
T Consensus       104 ~Lk~e~evL~qr~~kle~ErdeL~~kf~~  132 (201)
T PF13851_consen  104 DLKWEHEVLEQRFEKLEQERDELYRKFES  132 (201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            77777777777677666666666654443

>PRK01156 chromosome segregation protein; Provisional

Probab=97.13  E-value=0.11  Score=59.90  Aligned_cols=12  Identities=8%  Similarity=0.135  Sum_probs=5.5

Q ss_pred             HHHHHHHHHHHh
Q 013360          371 QVQASVQEMLKK  382 (444)
Q Consensus       371 q~q~~~~~~~~~  382 (444)
                      .++....+++..
T Consensus       761 ~~~~~~~e~~~~  772 (895)
T PRK01156        761 AMTSLTRKYLFE  772 (895)
T ss_pred             HHHHHHHHHHHH
Confidence            344455555433

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

Probab=97.12  E-value=0.0097  Score=56.41  Aligned_cols=63  Identities=27%  Similarity=0.410  Sum_probs=12.6

Q ss_pred             CCchHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013360           40 SSPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKK  102 (444)
Q Consensus        40 ~~~l~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK  102 (444)
                      ..++...+..++.++..+.....++.+++.+...++..++..+...+..|.++..++..|+.+
T Consensus        69 ~~~le~~~~~l~~ELael~r~~~el~~~L~~~~~~l~~l~~~~~~~~~~l~~l~~~~~~L~~~  131 (194)
T PF08614_consen   69 ISSLEQKLAKLQEELAELYRSKGELAQQLVELNDELQELEKELSEKERRLAELEAELAQLEEK  131 (194)
T ss_dssp             ---------------------------------------------HHHHHHHHHHHHHHHHHH
T ss_pred             ccccccccccccccccccccccccccccccccccccchhhhhHHHHHHHHHHHHHHHHHHHHH
Confidence            344566677777888888888888888888877777777777777777777777777766533

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.

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

Probab=97.08  E-value=0.29  Score=50.92  Aligned_cols=43  Identities=21%  Similarity=0.258  Sum_probs=20.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013360          154 SDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEAT  196 (444)
Q Consensus       154 eEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak~E~~  196 (444)
                      +.....++.....+......|.+.+++++.+|.+...++.|..
T Consensus       234 ~qrd~~i~q~~q~iaar~e~I~~re~~lq~lEt~q~~leqeva  276 (499)
T COG4372         234 QQRDAQISQKAQQIAARAEQIRERERQLQRLETAQARLEQEVA  276 (499)
T ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333334444444444444455555555555555555544444

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

Probab=97.08  E-value=0.41  Score=48.36  Aligned_cols=53  Identities=23%  Similarity=0.328  Sum_probs=20.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           44 KIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKEL   96 (444)
Q Consensus        44 ~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI   96 (444)
                      +.+.+++++++..+..++.++..+-+++.+++.++...-.+.+..+++|-..+
T Consensus        40 ~ekRdeln~kvrE~~e~~~elr~~rdeineev~elK~kR~ein~kl~eL~~~~   92 (294)
T COG1340          40 AEKRDELNAKVRELREKAQELREERDEINEEVQELKEKRDEINAKLQELRKEY   92 (294)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444333333333333333333333333333333333333333

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

Probab=97.07  E-value=0.11  Score=56.64  Aligned_cols=76  Identities=22%  Similarity=0.298  Sum_probs=36.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013360          121 LEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEAT  196 (444)
Q Consensus       121 Le~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak~E~~  196 (444)
                      +...+.....+|+..+..+.....+...+...+..+...++.....+..++.+.......+..++.++.+.+.++.
T Consensus       279 ~~~~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  279 LQSSLASAKKELEEAKKELEKAKEEASSLRASVESLRSELEKEKEELERLKEREKEASSEVSSLEAELNKTRSELE  354 (522)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhhHHHHHHHHHHHHH
Confidence            3333444445555555555544444444444444444444444444444444444444444444444444444443

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

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

Probab=97.07  E-value=0.15  Score=55.35  Aligned_cols=151  Identities=15%  Similarity=0.189  Sum_probs=89.2

Q ss_pred             HHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhH------HHHHHHHHHHHHHHHH
Q 013360           50 LKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNA------AEQVDKAHARADELEK  123 (444)
Q Consensus        50 l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~------~~~i~~ae~~i~eLe~  123 (444)
                      +..++..++++-.+++..|+    ++......++-+.+.++.|++++.-.++=.+...      +..+...+.++..-+.
T Consensus       233 i~~~ie~l~~~n~~l~e~i~----e~ek~~~~~eslre~~~~L~~D~nK~~~y~~~~~~k~~~~~~~l~~l~~Eie~kEe  308 (581)
T KOG0995|consen  233 IANEIEDLKKTNRELEEMIN----EREKDPGKEESLREKKARLQDDVNKFQAYVSQMKSKKQHMEKKLEMLKSEIEEKEE  308 (581)
T ss_pred             HHHHHHHHHHHHHHHHHHHH----HHhcCcchHHHHHHHHHHHHhHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444444    2333344455555555555555544443222221      1445555666666666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhH
Q 013360          124 QIDNLKKESEKQQKEKEALEA---RAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSK  200 (444)
Q Consensus       124 qIe~LkkelE~~~~e~~~LEa---e~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak~E~~~~a~  200 (444)
                      +++.|+.+.+.++..++.+.=   +......+.+++...+..++.+++.+.+.+-+++..++..-.++...-.+...+..
T Consensus       309 E~e~lq~~~d~Lk~~Ie~Q~iS~~dve~mn~Er~~l~r~l~~i~~~~d~l~k~vw~~~l~~~~~f~~le~~~~~~~~l~~  388 (581)
T KOG0995|consen  309 EIEKLQKENDELKKQIELQGISGEDVERMNLERNKLKRELNKIQSELDRLSKEVWELKLEIEDFFKELEKKFIDLNSLIR  388 (581)
T ss_pred             HHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            666666666666665554432   23333446667777888888888888888888888888888888887777777766


Q ss_pred             Hhhh
Q 013360          201 ELTE  204 (444)
Q Consensus       201 ei~~  204 (444)
                      .+.-
T Consensus       389 ~i~l  392 (581)
T KOG0995|consen  389 RIKL  392 (581)
T ss_pred             HHHH
Confidence            6643

>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=97.04  E-value=0.07  Score=60.51  Aligned_cols=109  Identities=21%  Similarity=0.246  Sum_probs=43.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           82 IQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLE  161 (444)
Q Consensus        82 I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kve  161 (444)
                      +.....++.....+|..++.++... +++-.+....|..+...+...+...+.+..+++.|..++.+....++.....++
T Consensus       289 ~d~~~~eL~rk~~E~~~~qt~l~~~-~~~~~d~r~hi~~lkesl~~ke~~~~~Lqsdve~Lr~rle~k~~~l~kk~~~~~  367 (775)
T PF10174_consen  289 MDRLKLELSRKKSELEALQTRLETL-EEQDSDMRQHIEVLKESLRAKEQEAEMLQSDVEALRFRLEEKNSQLEKKQAQIE  367 (775)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH-HhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333444444444444444443322 222222244444444444444444444444444444444444444444444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          162 KLQKINDEQKSKIRKTERALKVAEEEMMRA  191 (444)
Q Consensus       162 eLe~~~eeqekqI~elE~~Lq~~Eeel~ka  191 (444)
                      .++.....+...|.++.+.+...+..+..+
T Consensus       368 ~~qeE~~~~~~Ei~~l~d~~d~~e~ki~~L  397 (775)
T PF10174_consen  368 KLQEEKSRLQGEIEDLRDMLDKKERKINVL  397 (775)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444443333333333333333333333333

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 [].

>TIGR01000 bacteriocin_acc bacteriocin secretion accessory protein

Probab=97.04  E-value=0.28  Score=52.38  Aligned_cols=28  Identities=7%  Similarity=0.036  Sum_probs=16.0

Q ss_pred             CchHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013360           41 SPLKIELDQLKSKIRSLESHIDEKTQEL   68 (444)
Q Consensus        41 ~~l~~eL~~l~~ki~~Lesqi~ele~eI   68 (444)
                      ..+..+++.++.++..++.++..+...+
T Consensus        93 ~~~~~~~~~~~~~~~~~~~~~~rL~a~~  120 (457)
T TIGR01000        93 GNEENQKQLLEQQLDNLKDQKKSLDTLK  120 (457)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4456666666666666665555554443

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

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

Probab=97.01  E-value=0.17  Score=61.45  Aligned_cols=33  Identities=21%  Similarity=0.299  Sum_probs=14.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          118 ADELEKQIDNLKKESEKQQKEKEALEARAIEAE  150 (444)
Q Consensus       118 i~eLe~qIe~LkkelE~~~~e~~~LEae~~elE  150 (444)
                      +..|.++|.+|+.++...+..++++..+...+.
T Consensus      1309 ~~kL~~ei~~Lk~el~~ke~~~~el~~~~~~~q 1341 (1822)
T KOG4674|consen 1309 YEKLKSEISRLKEELEEKENLIAELKKELNRLQ 1341 (1822)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444444444444444444444444444444433

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

Probab=97.00  E-value=0.5  Score=54.99  Aligned_cols=155  Identities=21%  Similarity=0.261  Sum_probs=83.0

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHH
Q 013360           43 LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELE  122 (444)
Q Consensus        43 l~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~eLe  122 (444)
                      |..+-...+++-..++.+.+++...+++-+......++.|++....|...++-|..++..... .+.....+..++.+|+
T Consensus      1547 L~s~A~~a~~~A~~v~~~ae~V~eaL~~Ad~Aq~~a~~ai~~a~~~~~~a~~~l~kv~~~t~~-aE~~~~~a~q~~~eL~ 1625 (1758)
T KOG0994|consen 1547 LQSEAERARSRAEDVKGQAEDVVEALEEADVAQGEAQDAIQGADRDIRLAQQLLAKVQEETAA-AEKLATSATQQLGELE 1625 (1758)
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHH
Confidence            333334444555555555555555555555555556666666666666666666666654443 2455556666777777


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013360          123 KQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSR  198 (444)
Q Consensus       123 ~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak~E~~~~  198 (444)
                      ..++.|+...-....+....+..+..+.....+.+...+.|++..+....-++.--+..+..++....++.|+..+
T Consensus      1626 ~~~e~lk~~~~qns~~A~~a~~~a~sa~~~A~~a~q~~~~lq~~~~~~~~l~~~r~~g~~~ar~rAe~L~~eA~~L 1701 (1758)
T KOG0994|consen 1626 TRMEELKHKAAQNSAEAKQAEKTAGSAKEQALSAEQGLEILQKYYELVDRLLEKRMEGSQAARERAEQLRTEAEKL 1701 (1758)
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHH
Confidence            7777776666555555555555555554444455555554444444444444333333333443344444444433

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

Probab=96.99  E-value=0.12  Score=52.98  Aligned_cols=81  Identities=31%  Similarity=0.355  Sum_probs=36.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          113 KAHARADELEKQIDNLKKESEKQ----QKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEM  188 (444)
Q Consensus       113 ~ae~~i~eLe~qIe~LkkelE~~----~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel  188 (444)
                      .+.++...|..++..|+......    ..++..+..++.+....++.....+.+++.++.+++..++++..+.+.+..+|
T Consensus       181 ~l~~~~~~L~~e~~~Lk~~~~e~~~~D~~eL~~lr~eL~~~~~~i~~~k~~l~el~~el~~l~~~i~~~~~~k~~l~~eI  260 (325)
T PF08317_consen  181 KLRERKAELEEELENLKQLVEEIESCDQEELEALRQELAEQKEEIEAKKKELAELQEELEELEEKIEELEEQKQELLAEI  260 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444333222    22333444444444444444444444555555555555555555555554444


Q ss_pred             HHHHH
Q 013360          189 MRAKF  193 (444)
Q Consensus       189 ~kak~  193 (444)
                      ..++.
T Consensus       261 ~e~~~  265 (325)
T PF08317_consen  261 AEAEK  265 (325)
T ss_pred             HHHHH
Confidence            44443

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

Probab=96.98  E-value=0.21  Score=56.17  Aligned_cols=43  Identities=28%  Similarity=0.360  Sum_probs=28.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          109 EQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEK  151 (444)
Q Consensus       109 ~~i~~ae~~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEk  151 (444)
                      +++..+..+...+..+...+.+++++.+..+..+.+...+.+.
T Consensus       737 eel~a~~~e~k~l~~~q~~l~~~L~k~~~~~es~k~~~~~a~~  779 (970)
T KOG0946|consen  737 EELNAALSENKKLENDQELLTKELNKKNADIESFKATQRSAEL  779 (970)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhhc
Confidence            5556666667777777777777777777776666666554444

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

Probab=96.97  E-value=0.1  Score=59.09  Aligned_cols=127  Identities=22%  Similarity=0.297  Sum_probs=83.2

Q ss_pred             CchHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHH
Q 013360           41 SPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADE  120 (444)
Q Consensus        41 ~~l~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~e  120 (444)
                      .+.......+..++..+++.+..++..+..-.+++......+.+.+..|.+|+.++.+. ++.....+.++...+.....
T Consensus       585 ea~~~~~~el~eelE~le~eK~~Le~~L~~~~d~lE~~~~qL~E~E~~L~eLq~eL~~~-keS~s~~E~ql~~~~e~~e~  663 (769)
T PF05911_consen  585 EADTSEKKELEEELEKLESEKEELEMELASCQDQLESLKNQLKESEQKLEELQSELESA-KESNSLAETQLKAMKESYES  663 (769)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHH
Confidence            33445556677788888888888888888888888888888888888888888888866 45555455555555555666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          121 LEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKIND  168 (444)
Q Consensus       121 Le~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~e  168 (444)
                      ++.+...++.+++.+...+..|+.++..-.....++..+..+|+.++.
T Consensus       664 le~~~~~~e~E~~~l~~Ki~~Le~Ele~er~~~~e~~~kc~~Le~el~  711 (769)
T PF05911_consen  664 LETRLKDLEAEAEELQSKISSLEEELEKERALSEELEAKCRELEEELE  711 (769)
T ss_pred             HhhhhhHHHHHHHHHHHHHHHHHHHHHHHHhcchhhhhHHHHHHHHHH
Confidence            666666556666666555555555555544444444444444444444

The function of this family is unknown.

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

Probab=96.95  E-value=0.29  Score=44.43  Aligned_cols=21  Identities=33%  Similarity=0.472  Sum_probs=7.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHH
Q 013360          120 ELEKQIDNLKKESEKQQKEKE  140 (444)
Q Consensus       120 eLe~qIe~LkkelE~~~~e~~  140 (444)
                      .+..+.+.|.+.+...+..+.
T Consensus        77 ~l~sEk~~L~k~lq~~q~kv~   97 (140)
T PF10473_consen   77 TLRSEKENLDKELQKKQEKVS   97 (140)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333333333

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

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

Probab=96.93  E-value=0.11  Score=58.03  Aligned_cols=55  Identities=7%  Similarity=0.099  Sum_probs=30.2

Q ss_pred             HHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 013360           50 LKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKET  104 (444)
Q Consensus        50 l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s  104 (444)
                      -+++++++..+++.-...|--...-.++++.+++-++.+++.|+.+|.+..-++.
T Consensus       414 Erar~qem~~Qk~reqe~iv~~nak~~ql~~eletLn~k~qqls~kl~Dvr~~~t  468 (1118)
T KOG1029|consen  414 ERARRQEMLNQKNREQEWIVYLNAKKKQLQQELETLNFKLQQLSGKLQDVRVDIT  468 (1118)
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhheeccc
Confidence            3455555555555555555555555555555555566666666666655544443

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

Probab=96.89  E-value=1.1  Score=50.06  Aligned_cols=129  Identities=18%  Similarity=0.338  Sum_probs=74.0

Q ss_pred             HHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHH-HHHHHHHHHHHHHHHHHHHH
Q 013360           50 LKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAA-EQVDKAHARADELEKQIDNL  128 (444)
Q Consensus        50 l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~-~~i~~ae~~i~eLe~qIe~L  128 (444)
                      ++.+...++.++..+..++..+.++....-..|.+++..|.+|.+++............ +....++.++..|..++++|
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            44555555666666666666666666666666666666666666665543321111111 22235666777777777777


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          129 KKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTE  178 (444)
Q Consensus       129 kkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE  178 (444)
                      ..++..+..+...+..-..+.+.++.+++..++.++....+..+.+..++
T Consensus       100 ~~qlqaqv~~ne~Ls~L~~EqEerL~ELE~~le~~~e~~~D~~kLLe~lq  149 (617)
T PF15070_consen  100 EEQLQAQVENNEQLSRLNQEQEERLAELEEELERLQEQQEDRQKLLEQLQ  149 (617)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            77777666666655554555566666666666665555554444444433

>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=0.019  Score=54.49  Aligned_cols=38  Identities=18%  Similarity=0.201  Sum_probs=14.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          148 EAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAE  185 (444)
Q Consensus       148 elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~E  185 (444)
                      .++..+.+....++.++++...++.+...++.++..++
T Consensus       134 ~l~~~l~ek~k~~e~l~DE~~~L~l~~~~~e~k~~~l~  171 (194)
T PF08614_consen  134 DLEEELKEKNKANEILQDELQALQLQLNMLEEKLRKLE  171 (194)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333333333333333333333

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.

>smart00787 Spc7 Spc7 kinetochore protein

Probab=96.80  E-value=0.27  Score=50.21  Aligned_cols=55  Identities=22%  Similarity=0.338  Sum_probs=24.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHhhh
Q 013360          144 ARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAE----EEMMRAKFEATSR  198 (444)
Q Consensus       144 ae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~E----eel~kak~E~~~~  198 (444)
                      .+..+++.++.++...+++...++.+...+|++++..+....    .++.+++.....+
T Consensus       225 ~~l~e~~~~l~~l~~~I~~~~~~k~e~~~~I~~ae~~~~~~r~~t~~Ei~~Lk~~~~~L  283 (312)
T smart00787      225 KKLEELEEELQELESKIEDLTNKKSELNTEIAEAEKKLEQCRGFTFKEIEKLKEQLKLL  283 (312)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHH
Confidence            333344444444444444444444444444444444443333    4455555544433

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

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

Probab=96.79  E-value=0.64  Score=52.07  Aligned_cols=95  Identities=22%  Similarity=0.221  Sum_probs=48.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHhhhhh--
Q 013360          129 KKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTEVH--  206 (444)
Q Consensus       129 kkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak~E~~~~a~ei~~~~--  206 (444)
                      .+++.....-++.......++......+...++..+.+....+..+.+....+........++++|...+..++.+++  
T Consensus       544 ~~el~~~~~~le~~kk~~~e~~~~~~~Lq~~~ek~~~~le~i~~~~~e~~~ele~~~~k~~rleEE~e~L~~kle~~k~~  623 (698)
T KOG0978|consen  544 IKELTTLTQSLEMLKKKAQEAKQSLEDLQIELEKSEAKLEQIQEQYAELELELEIEKFKRKRLEEELERLKRKLERLKKE  623 (698)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            333333333333344444444444445555555555555555555555555555555555566666666666664443  


Q ss_pred             --ccCCChhHHHHHHhhhH
Q 013360          207 --SAWLPPWLAVHLLQCQS  223 (444)
Q Consensus       207 --g~wl~Pw~~~~~~~~~~  223 (444)
                        |+=--|-|+.++..|+.
T Consensus       624 ~~~~s~d~~L~EElk~yK~  642 (698)
T KOG0978|consen  624 ESGASADEVLAEELKEYKE  642 (698)
T ss_pred             cccccccHHHHHHHHHHHh
Confidence              22234556666665555

>PF12795 MscS_porin: Mechanosensitive ion channel porin domain

Probab=96.77  E-value=0.49  Score=46.22  Aligned_cols=27  Identities=15%  Similarity=0.370  Sum_probs=10.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 013360           44 KIELDQLKSKIRSLESHIDEKTQELKG   70 (444)
Q Consensus        44 ~~eL~~l~~ki~~Lesqi~ele~eI~~   70 (444)
                      ..+|......+..++..+...++.+..
T Consensus        84 eq~l~~~~~~L~~~q~~l~~~~~~l~~  110 (240)
T PF12795_consen   84 EQRLSQEQAQLQELQEQLQQENSQLIE  110 (240)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333333333333333

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

Probab=96.76  E-value=0.39  Score=54.45  Aligned_cols=43  Identities=12%  Similarity=0.307  Sum_probs=20.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          109 EQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEK  151 (444)
Q Consensus       109 ~~i~~ae~~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEk  151 (444)
                      ..+++.++....|+.++++++.+....+...+.+...++.++.
T Consensus       459 ~s~~~~~~~~~~L~d~le~~~~~~~~~~~K~e~~~~~le~l~~  501 (980)
T KOG0980|consen  459 QSIDDVEEENTNLNDQLEELQRAAGRAETKTESQAKALESLRQ  501 (980)
T ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            3344555555555555555555544443333333333333333

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

Probab=96.76  E-value=0.2  Score=57.30  Aligned_cols=45  Identities=22%  Similarity=0.271  Sum_probs=27.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013360          152 KISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEAT  196 (444)
Q Consensus       152 kleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak~E~~  196 (444)
                      +..++..+.+++.....++|..-..+...+..+++.+.+.+..+.
T Consensus       454 ~~~~~k~~~del~~~Rk~lWREE~~l~~~i~~~~~dl~~~~~~L~  498 (1200)
T KOG0964|consen  454 ENTELKRELDELQDKRKELWREEKKLRSLIANLEEDLSRAEKNLR  498 (1200)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333444455555555556666666666666666666666666555

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

Probab=96.75  E-value=0.078  Score=60.55  Aligned_cols=146  Identities=23%  Similarity=0.299  Sum_probs=79.2

Q ss_pred             CCchHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHH-----------
Q 013360           40 SSPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAA-----------  108 (444)
Q Consensus        40 ~~~l~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~-----------  108 (444)
                      ...+..++..++.+|..|+.++.+....+-...++|..++..|..+.++|.++..+-.+.---...+..           
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            345666666666666666666666666666666666666666666655555555543332211111110           


Q ss_pred             --HH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          109 --EQ---VDKAHARADELEKQIDNLKKESEKQQKEKEALEARA--IEAEKKISDLSAKLEKLQKINDEQKSKIRKTERAL  181 (444)
Q Consensus       109 --~~---i~~ae~~i~eLe~qIe~LkkelE~~~~e~~~LEae~--~elEkkleEle~kveeLe~~~eeqekqI~elE~~L  181 (444)
                        +.   ++-.+.++.+|+..-.-|..+.+.++.++..++++-  .++|.++-.+++++++++...+-.+.+++++....
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              11   122345555555554445555556666666555554  55666666666666666666666655555555554


Q ss_pred             HHHH
Q 013360          182 KVAE  185 (444)
Q Consensus       182 q~~E  185 (444)
                      ..++
T Consensus       332 stLq  335 (1195)
T KOG4643|consen  332 STLQ  335 (1195)
T ss_pred             HHHH
Confidence            4443

>PRK10929 putative mechanosensitive channel protein; Provisional

Probab=96.74  E-value=0.49  Score=55.86  Aligned_cols=61  Identities=16%  Similarity=0.128  Sum_probs=33.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013360          136 QKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEAT  196 (444)
Q Consensus       136 ~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak~E~~  196 (444)
                      +.+...++.+...++......+...+-.+...+....+++.++..++.+++.++....+..
T Consensus       179 qae~~~l~~~~~~l~~~l~s~~~~~~L~~~q~dl~~~~~~~l~~~~~~Lq~~in~kR~~~s  239 (1109)
T PRK10929        179 QAESAALKALVDELELAQLSANNRQELARLRSELAKKRSQQLDAYLQALRNQLNSQRQREA  239 (1109)
T ss_pred             HHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444445555555555555555555555566666666666666666666665444333

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

Probab=96.73  E-value=0.79  Score=50.85  Aligned_cols=36  Identities=17%  Similarity=0.240  Sum_probs=16.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          115 HARADELEKQIDNLKKESEKQQKEKEALEARAIEAE  150 (444)
Q Consensus       115 e~~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elE  150 (444)
                      .+.|..++.++.+-++.+-......+.+++++..++
T Consensus       522 ~E~I~k~~ae~~rq~~~~~~sr~~~~~le~~~~a~q  557 (961)
T KOG4673|consen  522 QETIEKHQAELTRQKDYYSNSRALAAALEAQALAEQ  557 (961)
T ss_pred             HHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHH
Confidence            334444444444444444444444444444443333

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

Probab=96.71  E-value=0.43  Score=54.12  Aligned_cols=124  Identities=19%  Similarity=0.236  Sum_probs=64.6

Q ss_pred             HHHHHHHHHHHHHHHHHHhh---hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHH
Q 013360           49 QLKSKIRSLESHIDEKTQEL---KGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQI  125 (444)
Q Consensus        49 ~l~~ki~~Lesqi~ele~eI---~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~eLe~qI  125 (444)
                      +|+.+++++.......++..   ++........++.+++....+.+|..+=..+-.|...+ ..+...++.-+.+++++.
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            45555555555444444443   44444444455555555555555444443333333332 344444555555556666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          126 DNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSK  173 (444)
Q Consensus       126 e~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekq  173 (444)
                      ..|...++........++.+.++..+.++.++.++..+..++++++..
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            666666666666666666666666666666665555555555544444

>smart00787 Spc7 Spc7 kinetochore protein

Probab=96.70  E-value=0.34  Score=49.55  Aligned_cols=81  Identities=23%  Similarity=0.246  Sum_probs=37.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          113 KAHARADELEKQIDNLKKESEKQ----QKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEM  188 (444)
Q Consensus       113 ~ae~~i~eLe~qIe~LkkelE~~----~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel  188 (444)
                      .+.++...|+.++..|++..+.+    ..++..+.+++.+....+.....++++++.++.+....|++...+...++.+|
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            33444444444444444433333    12333444444444444444444555555555555555555555555555555


Q ss_pred             HHHHH
Q 013360          189 MRAKF  193 (444)
Q Consensus       189 ~kak~  193 (444)
                      ..++.
T Consensus       256 ~~ae~  260 (312)
T smart00787      256 AEAEK  260 (312)
T ss_pred             HHHHH
Confidence            54444

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

>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=96.69  E-value=0.94  Score=51.11  Aligned_cols=161  Identities=20%  Similarity=0.296  Sum_probs=103.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh-----hhhhHH----------
Q 013360           44 KIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKK-----ETLNAA----------  108 (444)
Q Consensus        44 ~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK-----~s~~~~----------  108 (444)
                      -.+|..|++++.+++.++..+.+.+.+....+..-...+.+....|..|-..++.+..-     ..+...          
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            35566788888889989888888888888888888888888888888888888777651     000000          


Q ss_pred             --------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          109 --------EQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARA----IEAEKKISDLSAKLEKLQKINDEQKSKIRK  176 (444)
Q Consensus       109 --------~~i~~ae~~i~eLe~qIe~LkkelE~~~~e~~~LEae~----~elEkkleEle~kveeLe~~~eeqekqI~e  176 (444)
                              ......+.+...+..++..|+.++..++.+...++...    ..++..+..+..++..+++...+-+.++..
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                    11234556677777777777777777766655544433    333455566666666666644444445555


Q ss_pred             HHHHHHHH-------HHHHHHHHHHHhhhhHHhhh
Q 013360          177 TERALKVA-------EEEMMRAKFEATSRSKELTE  204 (444)
Q Consensus       177 lE~~Lq~~-------Eeel~kak~E~~~~a~ei~~  204 (444)
                      ++.++..+       ...+..++.++...+.+++.
T Consensus       424 LE~ELr~l~~~A~E~q~~LnsAQDELvtfSEeLAq  458 (717)
T PF09730_consen  424 LEKELRALSKLAGESQGSLNSAQDELVTFSEELAQ  458 (717)
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence            55555444       45566666666666666643

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

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

Probab=96.67  E-value=0.56  Score=50.29  Aligned_cols=61  Identities=8%  Similarity=0.161  Sum_probs=34.1

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHhh--------hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013360           43 LKIELDQLKSKIRSLESHIDEKTQEL--------KGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKE  103 (444)
Q Consensus        43 l~~eL~~l~~ki~~Lesqi~ele~eI--------~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~  103 (444)
                      +..++..++.++.+.+.++.+..++-        ....+.+.+++..+.+.+.++.+++..++.+++.+
T Consensus       166 l~~ql~~~~~~L~~ae~~l~~f~~~~~~~~~~~~~~~~~~l~~l~~~l~~~~~~l~~~~a~~~~l~~~l  234 (498)
T TIGR03007       166 IDEQIKTYEKKLEAAENRLKAFKQENGGILPDQEGDYYSEISEAQEELEAARLELNEAIAQRDALKRQL  234 (498)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhCcccCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            44566666666666666665543221        12334555666666666666666666666665543

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.

>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD

Probab=96.67  E-value=0.71  Score=51.55  Aligned_cols=45  Identities=11%  Similarity=0.310  Sum_probs=26.5

Q ss_pred             CchHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHH
Q 013360           41 SPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDK   85 (444)
Q Consensus        41 ~~l~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~   85 (444)
                      ..+..+++.++.++..++.++..+.+++...+.++...+..+.+.
T Consensus       205 ~~~~~~~~~le~el~~l~~~~e~l~~~i~~l~~ele~a~~~l~~l  249 (650)
T TIGR03185       205 SSILSEIEALEAELKEQSEKYEDLAQEIAHLRNELEEAQRSLESL  249 (650)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345556666666666666666666666666555555555555433

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

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

Probab=96.65  E-value=0.65  Score=44.24  Aligned_cols=56  Identities=16%  Similarity=0.241  Sum_probs=30.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           44 KIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSL   99 (444)
Q Consensus        44 ~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sL   99 (444)
                      ..+++..+-++..+..++.+.++.-.+....++.+++.-.+.+..+..+..++...
T Consensus        17 eeele~aqErl~~a~~KL~Eaeq~~dE~er~~Kv~enr~~kdEE~~e~~e~qLkEA   72 (205)
T KOG1003|consen   17 EEELDRAQERLATALQKLEEAEQAADESERGMKVIENRAQKLEEKMEAQEAQLKEA   72 (205)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence            34444444455555555555555555555555555555555555555555555433

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

Probab=96.63  E-value=0.38  Score=53.51  Aligned_cols=101  Identities=20%  Similarity=0.291  Sum_probs=57.3

Q ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHH--HHHHHHHHHHH
Q 013360           42 PLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAA--EQVDKAHARAD  119 (444)
Q Consensus        42 ~l~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~--~~i~~ae~~i~  119 (444)
                      .+..++..|+.++..|..++.....+-..++.-+.+.+..|.+.+..+..++....+..+-+..+..  .-+..|-.+..
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            4566666777777777766666554444544444555666666666666655554433222211111  23445556666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q 013360          120 ELEKQIDNLKKESEKQQKEKEAL  142 (444)
Q Consensus       120 eLe~qIe~LkkelE~~~~e~~~L  142 (444)
                      +|..|+.+|+...-.+.+++.++
T Consensus       164 eLK~QL~Elq~~Fv~ltne~~el  186 (617)
T PF15070_consen  164 ELKEQLAELQDAFVKLTNENMEL  186 (617)
T ss_pred             HHHHHHHHHHHHHHHHHHhhhHh
Confidence            77777777777666666665433

>PRK11281 hypothetical protein; Provisional

Probab=96.61  E-value=0.36  Score=57.03  Aligned_cols=33  Identities=24%  Similarity=0.322  Sum_probs=17.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          158 AKLEKLQKINDEQKSKIRKTERALKVAEEEMMR  190 (444)
Q Consensus       158 ~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~k  190 (444)
                      ...+-.+.+.+....+++.++..++.+++.++.
T Consensus       220 ~l~~l~~~q~d~~~~~~~~~~~~~~~lq~~in~  252 (1113)
T PRK11281        220 QLQDLLQKQRDYLTARIQRLEHQLQLLQEAINS  252 (1113)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333444444455555555555555555555554

>PF04012 PspA_IM30: PspA/IM30 family; InterPro: IPR007157 This family includes PspA a protein that suppresses sigma54-dependent transcription

Probab=96.56  E-value=0.78  Score=44.03  Aligned_cols=117  Identities=21%  Similarity=0.282  Sum_probs=71.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHH
Q 013360           48 DQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDN  127 (444)
Q Consensus        48 ~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~eLe~qIe~  127 (444)
                      ..+++-|..++..+......+......-..++..+.+.+..+..++.+....-..+...   -.-.+-.+...++.++..
T Consensus        26 ~~l~q~ird~e~~l~~a~~~~a~~~a~~~~le~~~~~~~~~~~~~~~~A~~Al~~g~ed---LAr~al~~k~~~e~~~~~  102 (221)
T PF04012_consen   26 KMLEQAIRDMEEQLRKARQALARVMANQKRLERKLDEAEEEAEKWEKQAELALAAGRED---LAREALQRKADLEEQAER  102 (221)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCHH---HHHHHHHHHHHHHHHHHH
Confidence            45677777777777777777777777777888888888888888888776554444322   222344444455555555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          128 LKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKIN  167 (444)
Q Consensus       128 LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~  167 (444)
                      ++..++........+...+..++.++.++..+...+....
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            5555555555555555555555555555555444444433

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 [].

>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=96.53  E-value=0.38  Score=48.92  Aligned_cols=38  Identities=24%  Similarity=0.257  Sum_probs=23.9

Q ss_pred             CchHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHH
Q 013360           41 SPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQK   78 (444)
Q Consensus        41 ~~l~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~   78 (444)
                      ......++.|+.++..|+.+-..+.++...+..+..+.
T Consensus       156 ~~~~~~le~Lq~Klk~LEeEN~~LR~Ea~~L~~et~~~  193 (306)
T PF04849_consen  156 SQKCIQLEALQEKLKSLEEENEQLRSEASQLKTETDTY  193 (306)
T ss_pred             cccchhHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhhc
Confidence            33456777788888877776666666655555444433

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 [].

>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=96.52  E-value=0.68  Score=47.10  Aligned_cols=85  Identities=16%  Similarity=0.268  Sum_probs=34.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHH
Q 013360          113 KAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKIND-------EQKSKIRKTERALKVAE  185 (444)
Q Consensus       113 ~ae~~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~e-------eqekqI~elE~~Lq~~E  185 (444)
                      .|+.+|..|..++.+-..+...+.+++..|-++..+++.++..+....+++...+.       .+..++.+++++.....
T Consensus       210 ~An~qia~LseELa~k~Ee~~rQQEEIt~LlsqivdlQ~r~k~~~~EnEeL~q~L~~ske~Q~~L~aEL~elqdkY~E~~  289 (306)
T PF04849_consen  210 EANQQIASLSEELARKTEENRRQQEEITSLLSQIVDLQQRCKQLAAENEELQQHLQASKESQRQLQAELQELQDKYAECM  289 (306)
T ss_pred             hcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33334444444444444444444444444444444444444333333333333322       33333444444444444


Q ss_pred             HHHHHHHHHHhh
Q 013360          186 EEMMRAKFEATS  197 (444)
Q Consensus       186 eel~kak~E~~~  197 (444)
                      ..+..++.|+..
T Consensus       290 ~mL~EaQEElk~  301 (306)
T PF04849_consen  290 AMLHEAQEELKT  301 (306)
T ss_pred             HHHHHHHHHHHH
Confidence            444445555443

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 [].

>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=96.51  E-value=0.49  Score=42.15  Aligned_cols=67  Identities=21%  Similarity=0.280  Sum_probs=28.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          115 HARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVA  184 (444)
Q Consensus       115 e~~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~  184 (444)
                      -+.+..++.+...++.++..+..........+...+.   .-......++..+.+.+.+++++..+-..+
T Consensus        58 ~~~L~~lr~e~~~~~~~~~~l~~~~~~a~~~l~~~e~---sw~~qk~~le~e~~~~~~r~~dL~~QN~lL  124 (132)
T PF07926_consen   58 IKELQQLREELQELQQEINELKAEAESAKAELEESEA---SWEEQKEQLEKELSELEQRIEDLNEQNKLL  124 (132)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---hHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344555555555555555554444433333322222   122233334444444444444444443333

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

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

Probab=96.50  E-value=0.21  Score=57.53  Aligned_cols=38  Identities=8%  Similarity=0.280  Sum_probs=14.3

Q ss_pred             HHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           59 SHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKEL   96 (444)
Q Consensus        59 sqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI   96 (444)
                      .++.-.+++|+...-+|..+...|+..+..+.+|+.++
T Consensus       711 ~El~~~~~~i~~~~p~i~~i~r~l~~~e~~~~~L~~~~  748 (1141)
T KOG0018|consen  711 LELQRTESEIDEFGPEISEIKRKLQNREGEMKELEERM  748 (1141)
T ss_pred             HHHHHHHHHHHhhCchHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333333333333333333333

>TIGR01000 bacteriocin_acc bacteriocin secretion accessory protein

Probab=96.47  E-value=0.2  Score=53.37  Aligned_cols=26  Identities=27%  Similarity=0.367  Sum_probs=16.5

Q ss_pred             CCCchHHHHHHHHHHHHHHHHHHHHH
Q 013360           39 DSSPLKIELDQLKSKIRSLESHIDEK   64 (444)
Q Consensus        39 ~~~~l~~eL~~l~~ki~~Lesqi~el   64 (444)
                      +-..+..++..++.++..|+..++.+
T Consensus        98 ~~~~~~~~~~~~~~~~~rL~a~~~~~  123 (457)
T TIGR01000        98 QKQLLEQQLDNLKDQKKSLDTLKQSI  123 (457)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33446667777777777776665543

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

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

Probab=96.47  E-value=0.48  Score=54.33  Aligned_cols=40  Identities=20%  Similarity=0.204  Sum_probs=25.6

Q ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHH
Q 013360           42 PLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKA   81 (444)
Q Consensus        42 ~l~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~   81 (444)
                      -...+++....++.++..++.+++..+..+..+..+++..
T Consensus       255 ~~~~~~~~~~d~~~~~~~~i~ele~~l~~l~~ekeq~~a~  294 (1200)
T KOG0964|consen  255 QYIDALDKVEDESEDLKCEIKELENKLTNLREEKEQLKAR  294 (1200)
T ss_pred             hHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence            3455666666666777777777777776666666555554

>PF13870 DUF4201: Domain of unknown function (DUF4201)

Probab=96.46  E-value=0.76  Score=42.77  Aligned_cols=119  Identities=23%  Similarity=0.301  Sum_probs=62.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhhHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHH
Q 013360           44 KIELDQLKSKIRSLESHIDEKTQELKGKDE--------VVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAH  115 (444)
Q Consensus        44 ~~eL~~l~~ki~~Lesqi~ele~eI~~k~~--------eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae  115 (444)
                      ..+++.++.+...+..++..++.++..+++        +-.++..........|.+-..+|..+..+...+ -..+.-..
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            456777777777777777777777766654        233444445555555555555555554433322 12233444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          116 ARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKL  163 (444)
Q Consensus       116 ~~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeL  163 (444)
                      +++..+..+...++.++......+..+..++..+......+......+
T Consensus        84 eKl~~~~~~~~~l~~~l~~~~~~~~~~r~~l~~~k~~r~k~~~~~~~l  131 (177)
T PF13870_consen   84 EKLHFLSEELERLKQELKDREEELAKLREELYRVKKERDKLRKQNKKL  131 (177)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444444555555555555544444444444444444444444433333

>KOG4360 consensus Uncharacterized coiled coil protein [Function unknown]

Probab=96.45  E-value=0.23  Score=53.18  Aligned_cols=164  Identities=18%  Similarity=0.175  Sum_probs=81.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhhHHHH---HHHHHH-HHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHH
Q 013360           46 ELDQLKSKIRSLESHIDEKTQELKGKDEVV---AQKEKA-IQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADEL  121 (444)
Q Consensus        46 eL~~l~~ki~~Lesqi~ele~eI~~k~~eI---k~~e~~-I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~eL  121 (444)
                      .++.|+.++..+++++..+.++..-+..|-   ...++. .....+++.++..++.++++.+.+ ++++.....++++.|
T Consensus       160 ~~EaL~ekLk~~~een~~lr~k~~llk~Et~~~~~keq~~y~~~~KelrdtN~q~~s~~eel~~-kt~el~~q~Ee~skL  238 (596)
T KOG4360|consen  160 LLEALQEKLKPLEEENTQLRSKAMLLKTETLTYEEKEQQLYGDCVKELRDTNTQARSGQEELQS-KTKELSRQQEENSKL  238 (596)
T ss_pred             HHHHHHhhcCChHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHH
Confidence            345566666666666655555443322221   111111 113334444444444444444333 244445556666777


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-hhhH
Q 013360          122 EKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEAT-SRSK  200 (444)
Q Consensus       122 e~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak~E~~-~~a~  200 (444)
                      .++|.++++.+..+.-+++++..-       +......-+.++.+..+.+.+..+....+..++++++.+..-.+ ....
T Consensus       239 lsql~d~qkk~k~~~~Ekeel~~~-------Lq~~~da~~ql~aE~~EleDkyAE~m~~~~EaeeELk~lrs~~~p~~~s  311 (596)
T KOG4360|consen  239 LSQLVDLQKKIKYLRHEKEELDEH-------LQAYKDAQRQLTAELEELEDKYAECMQMLHEAEEELKCLRSCDAPKLIS  311 (596)
T ss_pred             HHHHHhhHHHHHHHHHHHHHHHHH-------HHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCcchhH
Confidence            777776666655555444444433       33334444455555555555556666666666666666554333 2222


Q ss_pred             Hhhhhhc-cCCChhHHHH
Q 013360          201 ELTEVHS-AWLPPWLAVH  217 (444)
Q Consensus       201 ei~~~~g-~wl~Pw~~~~  217 (444)
                      .-...|| .|.+-=++.+
T Consensus       312 ~~~~~~~~~fp~~~~aae  329 (596)
T KOG4360|consen  312 QEALSHGHHFPQLSLAAE  329 (596)
T ss_pred             HHHHHhhhhCChhhHHHH
Confidence            3355667 4655555555

>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=96.45  E-value=0.61  Score=45.88  Aligned_cols=11  Identities=9%  Similarity=0.338  Sum_probs=4.3

Q ss_pred             HHHHHHHHHHH
Q 013360          171 KSKIRKTERAL  181 (444)
Q Consensus       171 ekqI~elE~~L  181 (444)
                      ..+++.+...+
T Consensus       130 ~~Rl~~L~~~l  140 (251)
T PF11932_consen  130 QERLARLRAML  140 (251)
T ss_pred             HHHHHHHHHhh
Confidence            33344443333

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.

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

Probab=96.42  E-value=0.33  Score=52.93  Aligned_cols=73  Identities=25%  Similarity=0.324  Sum_probs=27.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          113 KAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAE  185 (444)
Q Consensus       113 ~ae~~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~E  185 (444)
                      .+......++.+|..|+.+++.+.....+.+........++.+....+.+++.++.-.+..+..++.++..+.
T Consensus       103 e~~~~ra~~e~ei~kl~~e~~elr~~~~~~~k~~~~~re~~~~~~~~l~~leAe~~~~krr~~~le~e~~~Lk  175 (546)
T KOG0977|consen  103 ETARERAKLEIEITKLREELKELRKKLEKAEKERRGAREKLDDYLSRLSELEAEINTLKRRIKALEDELKRLK  175 (546)
T ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhhhHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHHHH
Confidence            3333333444444444444444443333333333333333333333333333333333333333333333333

>TIGR01005 eps_transp_fam exopolysaccharide transport protein family

Probab=96.41  E-value=0.51  Score=53.44  Aligned_cols=19  Identities=5%  Similarity=0.057  Sum_probs=8.5

Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q 013360          171 KSKIRKTERALKVAEEEMM  189 (444)
Q Consensus       171 ekqI~elE~~Lq~~Eeel~  189 (444)
                      +.++.+++++.+..+....
T Consensus       375 ~~e~~~L~Re~~~~~~~Y~  393 (754)
T TIGR01005       375 QVDLDALQRDAAAKRQLYE  393 (754)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            4444444444444443333

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.

>KOG1853 consensus LIS1-interacting protein NUDE [Cytoskeleton]

Probab=96.40  E-value=1.2  Score=44.20  Aligned_cols=152  Identities=21%  Similarity=0.193  Sum_probs=78.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHH
Q 013360           44 KIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEK  123 (444)
Q Consensus        44 ~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~eLe~  123 (444)
                      .....+++.++...+..-.+++.+++   .++.+++.....++...+-|.-++..+-.+    .+.+..+.-.++..|+.
T Consensus        26 kq~f~~~reEl~EFQegSrE~Eaele---sqL~q~etrnrdl~t~nqrl~~E~e~~Kek----~e~q~~q~y~q~s~Led   98 (333)
T KOG1853|consen   26 KQHFLQMREELNEFQEGSREIEAELE---SQLDQLETRNRDLETRNQRLTTEQERNKEK----QEDQRVQFYQQESQLED   98 (333)
T ss_pred             HHHHHHHHHHHHHHhhhhHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHH
Confidence            44445566677777666666665533   344444544444444444444444333211    12333344455555666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHhhhhH
Q 013360          124 QIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAE---EEMMRAKFEATSRSK  200 (444)
Q Consensus       124 qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~E---eel~kak~E~~~~a~  200 (444)
                      ....+....+.+.+.+.+||....++|.-.....--+++++..++..-.++.-++..|..-+   +.+.+++.|+..+..
T Consensus        99 dlsqt~aikeql~kyiReLEQaNDdLErakRati~sleDfeqrLnqAIErnAfLESELdEke~llesvqRLkdEardlrq  178 (333)
T KOG1853|consen   99 DLSQTHAIKEQLRKYIRELEQANDDLERAKRATIYSLEDFEQRLNQAIERNAFLESELDEKEVLLESVQRLKDEARDLRQ  178 (333)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhccHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHH
Confidence            65555666666666666666655555543333333344444444444444444444444333   455667777666555


Q ss_pred             Hh
Q 013360          201 EL  202 (444)
Q Consensus       201 ei  202 (444)
                      ++
T Consensus       179 el  180 (333)
T KOG1853|consen  179 EL  180 (333)
T ss_pred             HH
Confidence            44

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

Probab=96.39  E-value=0.27  Score=55.82  Aligned_cols=80  Identities=19%  Similarity=0.253  Sum_probs=54.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          116 ARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEA  195 (444)
Q Consensus       116 ~~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak~E~  195 (444)
                      .++..+++--...+.++.........++.++.+++.++.++..++..|+.+++.-...-.++..+-..++.++.+...+.
T Consensus       638 ~eL~~~keS~s~~E~ql~~~~e~~e~le~~~~~~e~E~~~l~~Ki~~Le~Ele~er~~~~e~~~kc~~Le~el~r~~~~~  717 (769)
T PF05911_consen  638 SELESAKESNSLAETQLKAMKESYESLETRLKDLEAEAEELQSKISSLEEELEKERALSEELEAKCRELEEELERMKKEE  717 (769)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHhcchhhhhHHHHHHHHHHhhhccc
Confidence            33344444444455556666666667777777777778888888888888877777777777777777777777766543

The function of this family is unknown.

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

Probab=96.36  E-value=0.84  Score=53.51  Aligned_cols=41  Identities=24%  Similarity=0.285  Sum_probs=28.3

Q ss_pred             HhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 013360           66 QELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLN  106 (444)
Q Consensus        66 ~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~  106 (444)
                      ++++..++.+.+.+..++.++.++.+++.+++.+|+++...
T Consensus       494 ~~~ke~~ek~~~~~~~~~~l~~~~~~~~eele~~q~~~~~~  534 (1317)
T KOG0612|consen  494 HEQKEVEEKLSEEEAKKRKLEALVRQLEEELEDAQKKNDNA  534 (1317)
T ss_pred             HhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55566666666777777777777777777777777666554

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

Probab=96.35  E-value=0.85  Score=55.76  Aligned_cols=128  Identities=22%  Similarity=0.283  Sum_probs=77.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           73 EVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNA------AEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARA  146 (444)
Q Consensus        73 ~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~------~~~i~~ae~~i~eLe~qIe~LkkelE~~~~e~~~LEae~  146 (444)
                      +.+..+.+.|.....++.+|...-..++.-+....      ..++..++..+..++.+++.|+++..-+..-...|-.+.
T Consensus       689 ekle~L~~~ie~~K~e~~tL~er~~~l~~~i~~~~q~~~~~s~eL~~a~~k~~~le~ev~~LKqE~~ll~~t~~rL~~e~  768 (1822)
T KOG4674|consen  689 EKLENLEKNLELTKEEVETLEERNKNLQSTISKQEQTVHTLSQELLSANEKLEKLEAELSNLKQEKLLLKETEERLSQEL  768 (1822)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444455555555544444444444333321      256677888888888888888888887777777777888


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHhhhhH
Q 013360          147 IEAEKKISDLSAKLEKLQKINDEQKS----KIRKTERALKVAEEEMMRAKFEATSRSK  200 (444)
Q Consensus       147 ~elEkkleEle~kveeLe~~~eeqek----qI~elE~~Lq~~Eeel~kak~E~~~~a~  200 (444)
                      ..+..+...+...+..++.....++.    .-..++.+|..++.++.+++.+......
T Consensus       769 ~~l~~e~~~L~~~l~~lQt~~~~~e~s~~~~k~~~e~~i~eL~~el~~lk~klq~~~~  826 (1822)
T KOG4674|consen  769 EKLSAEQESLQLLLDNLQTQKNELEESEMATKDKCESRIKELERELQKLKKKLQEKSS  826 (1822)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            88877777777777776666554332    2334445555555555555555444433

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

Probab=96.33  E-value=2.7  Score=47.64  Aligned_cols=94  Identities=18%  Similarity=0.268  Sum_probs=49.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhhh---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           80 KAIQDKSERIVSLQKELSSLQKKETLN---AAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDL  156 (444)
Q Consensus        80 ~~I~e~e~~I~eLq~kI~sLqkK~s~~---~~~~i~~ae~~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleEl  156 (444)
                      +++.+++..+.+++.+++.++.-....   .++.-...+....++..|+..++..+-......+.+..+++++|++...+
T Consensus       284 ~ElSqkeelVk~~qeeLd~lkqt~t~a~gdseqatkylh~enmkltrqkadirc~LlEarrk~egfddk~~eLEKkrd~a  363 (1265)
T KOG0976|consen  284 DELSQKEELVKELQEELDTLKQTRTRADGDSEQATKYLHLENMKLTRQKADIRCALLEARRKAEGFDDKLNELEKKRDMA  363 (1265)
T ss_pred             hhhhHHHHHHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHH
Confidence            334445555555666665554322211   11222244445555666666666666666666666666666666666665


Q ss_pred             HHHHHHHHHHHHHHHHH
Q 013360          157 SAKLEKLQKINDEQKSK  173 (444)
Q Consensus       157 e~kveeLe~~~eeqekq  173 (444)
                      ...+..+++.+..-+..
T Consensus       364 l~dvr~i~e~k~nve~e  380 (1265)
T KOG0976|consen  364 LMDVRSIQEKKENVEEE  380 (1265)
T ss_pred             HHhHHHHHHHHHHHHHH
Confidence            55555555544433333

>PF04111 APG6: Autophagy protein Apg6; InterPro: IPR007243 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells

Probab=96.29  E-value=0.11  Score=53.01  Aligned_cols=23  Identities=17%  Similarity=0.346  Sum_probs=12.5

Q ss_pred             HHHHhcCCCchhccchHHHHHHHH
Q 013360          378 EMLKKHELTSPLATKELEWFAASA  401 (444)
Q Consensus       378 ~~~~~~e~~~~~a~~~~~w~~a~a  401 (444)
                      |.....++.=++.+.+ -|=.|.-
T Consensus       273 ~~I~~~si~~~~~~~~-~WT~AlK  295 (314)
T PF04111_consen  273 DKIGGVSIKLQFNSEE-EWTKALK  295 (314)
T ss_dssp             TEECTCES-STTS-HH-HHHHHHH
T ss_pred             CccCCeeeeecCCChh-HHHHHHH
Confidence            3344444444566666 8988873

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.

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

Probab=96.29  E-value=1.1  Score=42.91  Aligned_cols=15  Identities=20%  Similarity=0.448  Sum_probs=5.7

Q ss_pred             HHHHHHHHHHHHHHH
Q 013360          178 ERALKVAEEEMMRAK  192 (444)
Q Consensus       178 E~~Lq~~Eeel~kak  192 (444)
                      +++++.+.+.+....
T Consensus       149 EkKl~~l~~~lE~ke  163 (201)
T PF13851_consen  149 EKKLQALSEQLEKKE  163 (201)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            333333333333333

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

Probab=96.26  E-value=0.95  Score=51.64  Aligned_cols=67  Identities=13%  Similarity=0.234  Sum_probs=33.2

Q ss_pred             HHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh--HH-------HHHHHHHHHHHHHHHHHHHHH
Q 013360           63 EKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLN--AA-------EQVDKAHARADELEKQIDNLK  129 (444)
Q Consensus        63 ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~--~~-------~~i~~ae~~i~eLe~qIe~Lk  129 (444)
                      .+..+++.+..|+.++...-+.++.++..+++.|.+++..+...  ++       ..-..+++++..|++.|..|+
T Consensus       400 K~~kelE~k~sE~~eL~r~kE~Lsr~~d~aEs~iadlkEQVDAAlGAE~MV~qLtdknlnlEekVklLeetv~dlE  475 (1243)
T KOG0971|consen  400 KLQKELEKKNSELEELRRQKERLSRELDQAESTIADLKEQVDAALGAEEMVEQLTDKNLNLEEKVKLLEETVGDLE  475 (1243)
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcHHHHHHHHHhhccCHHHHHHHHHHHHHHHH
Confidence            34445555555555555555555555555555555554333221  11       222234455555555555543

>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=96.20  E-value=0.39  Score=41.50  Aligned_cols=40  Identities=33%  Similarity=0.493  Sum_probs=17.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          117 RADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDL  156 (444)
Q Consensus       117 ~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleEl  156 (444)
                      ++.+|+.+|+++...++..+.-+..++.++...++..+.+
T Consensus        59 r~~eLqaki~ea~~~le~eK~ak~~l~~r~~k~~~dka~l   98 (107)
T PF09304_consen   59 RIAELQAKIDEARRNLEDEKQAKLELESRLLKAQKDKAIL   98 (107)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHH
Confidence            4444444444444444444333334444444444333333

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.

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

Probab=96.17  E-value=1  Score=48.03  Aligned_cols=41  Identities=15%  Similarity=0.351  Sum_probs=31.2

Q ss_pred             chHhHHHhhcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          339 HVDNVRVALKPYTKKVVRAYGKFLKSATTYHHQVQASVQEM  379 (444)
Q Consensus       339 ~~~~~~~~~~Py~~~~~~~~~~~~~~a~~~h~q~q~~~~~~  379 (444)
                      -+|++...+--|-.++....--++.-+..||--+|+++.|.
T Consensus       566 ~ld~~~~~~n~~r~~i~k~V~~v~~~~~~fk~~IQssledl  606 (622)
T COG5185         566 KLDELKVDLNRKRYKIHKQVIHVIDITSKFKINIQSSLEDL  606 (622)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHhhHHHH
Confidence            35566666666767777777778888899999999988775

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

Probab=96.14  E-value=0.73  Score=49.41  Aligned_cols=22  Identities=32%  Similarity=0.170  Sum_probs=15.9

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHH
Q 013360          393 ELEWFAASALLVLPVIILFRIG  414 (444)
Q Consensus       393 ~~~w~~a~a~~~~p~~~~~~~~  414 (444)
                      .+++|++|+-+++-++.+.|+.
T Consensus       475 ~~~~~~~~~~~~~~~~~~~~~~  496 (498)
T TIGR03007       475 RLAAFLASAGLLIAVYGALMAM  496 (498)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            4567777888888888776653

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.

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

Probab=96.13  E-value=0.34  Score=52.80  Aligned_cols=73  Identities=21%  Similarity=0.283  Sum_probs=37.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          113 KAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAE  185 (444)
Q Consensus       113 ~ae~~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~E  185 (444)
                      .+..++.+|.....+..+....-..++..+...+.+++.++.-+...+..++.++..+..++..+...|+.+.
T Consensus       117 kl~~e~~elr~~~~~~~k~~~~~re~~~~~~~~l~~leAe~~~~krr~~~le~e~~~Lk~en~rl~~~l~~~r  189 (546)
T KOG0977|consen  117 KLREELKELRKKLEKAEKERRGAREKLDDYLSRLSELEAEINTLKRRIKALEDELKRLKAENSRLREELARAR  189 (546)
T ss_pred             HhHHHHHHHHHHHHHHHHHHhhhHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHH
Confidence            3333333333333333333333344444555555566666666666666666666666665555555555554

>PRK10929 putative mechanosensitive channel protein; Provisional

Probab=96.12  E-value=0.73  Score=54.46  Aligned_cols=63  Identities=8%  Similarity=0.082  Sum_probs=33.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHh
Q 013360          140 EALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKEL  202 (444)
Q Consensus       140 ~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak~E~~~~a~ei  202 (444)
                      ..++++..-++.+...++......+...+-.+.+.+-...+++..+.++..++...+.+..+.
T Consensus       176 ~~lqae~~~l~~~~~~l~~~l~s~~~~~~L~~~q~dl~~~~~~~l~~~~~~Lq~~in~kR~~~  238 (1109)
T PRK10929        176 TALQAESAALKALVDELELAQLSANNRQELARLRSELAKKRSQQLDAYLQALRNQLNSQRQRE  238 (1109)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344455555555555555555555555555555555555555555555555555555544433

>PF04111 APG6: Autophagy protein Apg6; InterPro: IPR007243 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells

Probab=96.11  E-value=0.17  Score=51.80  Aligned_cols=69  Identities=20%  Similarity=0.235  Sum_probs=28.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          123 KQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRA  191 (444)
Q Consensus       123 ~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~ka  191 (444)
                      .++..|+++.+.+..++..++.+..+++.+..+.-.....++....+.....+.++.++......+.++
T Consensus        64 ~eL~~LE~e~~~l~~el~~le~e~~~l~~eE~~~~~~~n~~~~~l~~~~~e~~sl~~q~~~~~~~L~~L  132 (314)
T PF04111_consen   64 QELEELEKEREELDQELEELEEELEELDEEEEEYWREYNELQLELIEFQEERDSLKNQYEYASNQLDRL  132 (314)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333333333333333333333334444444444444444444444444444444443

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=96.11  E-value=1.2  Score=51.32  Aligned_cols=56  Identities=20%  Similarity=0.236  Sum_probs=29.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHhh
Q 013360           47 LDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVS------LQKELSSLQKK  102 (444)
Q Consensus        47 L~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~e------Lq~kI~sLqkK  102 (444)
                      +...-.+|-.|+..-..++...+...+.|..++..++.....+..      +.++|+.+..+
T Consensus       176 ll~~h~eL~~lr~~e~~Le~~~~~~~~~l~~L~~~~~~l~kdVE~~rer~~~~~~Ie~l~~k  237 (1072)
T KOG0979|consen  176 LLQYHIELMDLREDEKSLEDKLTTKTEKLNRLEDEIDKLEKDVERVRERERKKSKIELLEKK  237 (1072)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            333444444455555555555555555555555555555555544      44556666443

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

Probab=96.08  E-value=1.5  Score=50.89  Aligned_cols=77  Identities=14%  Similarity=0.190  Sum_probs=38.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          115 HARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRA  191 (444)
Q Consensus       115 e~~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~ka  191 (444)
                      ..++..+|.+...-+..++.......+++++...++..+.+.......|...+.+......++...+..++.....+
T Consensus       380 ~~el~~ln~~~r~~~~~ld~~~~~~~elE~r~k~l~~sver~~~~~~~L~~~i~s~~~~~~e~~~d~~~l~~~~~~~  456 (1141)
T KOG0018|consen  380 LEELEVLNRNMRSDQDTLDHELERRAELEARIKQLKESVERLDKRRNKLAAKITSLSRSYEELKHDLDSLESLVSSA  456 (1141)
T ss_pred             HHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcHHHHHHHHhhh
Confidence            33444555555555555555555555555655555555555555444444444444444444444444444333333

>TIGR01005 eps_transp_fam exopolysaccharide transport protein family

Probab=96.08  E-value=0.47  Score=53.68  Aligned_cols=27  Identities=19%  Similarity=0.239  Sum_probs=12.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          137 KEKEALEARAIEAEKKISDLSAKLEKL  163 (444)
Q Consensus       137 ~e~~~LEae~~elEkkleEle~kveeL  163 (444)
                      .+...+.++.+.++.++++++.++..+
T Consensus       345 ~~~~~a~~~~~~L~~~l~~~~~~~~~~  371 (754)
T TIGR01005       345 MQADAAQARESQLVSDVNQLKAASAQA  371 (754)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            333344444444555555554444444

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.

>TIGR02680 conserved hypothetical protein TIGR02680

Probab=96.06  E-value=1.2  Score=54.02  Aligned_cols=30  Identities=17%  Similarity=0.206  Sum_probs=17.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhcCCCchhc
Q 013360          361 FLKSATTYHHQVQASVQEMLKKHELTSPLA  390 (444)
Q Consensus       361 ~~~~a~~~h~q~q~~~~~~~~~~e~~~~~a  390 (444)
                      ++..+-..=...|+.|...|..-.++-.|.
T Consensus       607 l~df~e~v~~~~ra~IEaAL~~~GLLDA~v  636 (1353)
T TIGR02680       607 LVDFADDVPADVRAGLEAALEAAGLLDAWV  636 (1353)
T ss_pred             heecCCCCCHHHHHHHHHHHHHCCCcceee
Confidence            333333344456677777777777766663

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.

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

Probab=96.05  E-value=0.97  Score=50.97  Aligned_cols=55  Identities=20%  Similarity=0.302  Sum_probs=37.7

Q ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           42 PLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKEL   96 (444)
Q Consensus        42 ~l~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI   96 (444)
                      .++.+|..|+.++..++.++..+..-|...++++++.+..|++.+..+..+.+++
T Consensus       103 ~~~sQiriLQn~c~~lE~ekq~lQ~ti~~~q~d~ke~etelE~~~srlh~le~eL  157 (1265)
T KOG0976|consen  103 HHESQIRILQNKCLRLEMEKQKLQDTIQGAQDDKKENEIEIENLNSRLHKLEDEL  157 (1265)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            3566777777777777777777777777777777777777776666555555444

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

Probab=96.04  E-value=1  Score=52.60  Aligned_cols=149  Identities=19%  Similarity=0.187  Sum_probs=64.5

Q ss_pred             HHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh------HHHHHHHHHHHHHHHHHHHHH
Q 013360           54 IRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLN------AAEQVDKAHARADELEKQIDN  127 (444)
Q Consensus        54 i~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~------~~~~i~~ae~~i~eLe~qIe~  127 (444)
                      |.+..+.|....+.|...+++....|.......+.|.+|...++.|+.+....      .++..+.+..+...++...+.
T Consensus      1586 i~~a~~~~~~a~~~l~kv~~~t~~aE~~~~~a~q~~~eL~~~~e~lk~~~~qns~~A~~a~~~a~sa~~~A~~a~q~~~~ 1665 (1758)
T KOG0994|consen 1586 IQGADRDIRLAQQLLAKVQEETAAAEKLATSATQQLGELETRMEELKHKAAQNSAEAKQAEKTAGSAKEQALSAEQGLEI 1665 (1758)
T ss_pred             HHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33334444444444455555555555555555556666666665555443322      112222333333333333333


Q ss_pred             HHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhH
Q 013360          128 LKKESEKQQKEKE-------ALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSK  200 (444)
Q Consensus       128 LkkelE~~~~e~~-------~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak~E~~~~a~  200 (444)
                      |++..+..+.-++       ....+++.|..+..+|-..-.+..+.+.+++......++.|.....+|..++.++++...
T Consensus      1666 lq~~~~~~~~l~~~r~~g~~~ar~rAe~L~~eA~~Ll~~a~~kl~~l~dLe~~y~~~~~~L~~~~aeL~~Le~r~~~vl~ 1745 (1758)
T KOG0994|consen 1666 LQKYYELVDRLLEKRMEGSQAARERAEQLRTEAEKLLGQANEKLDRLKDLELEYLRNEQALEDKAAELAGLEKRVESVLD 1745 (1758)
T ss_pred             HHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhHHHHHHHHHH
Confidence            3333333322222       222223333333333322222333333344444455555555555566666655555443


Q ss_pred             Hh
Q 013360          201 EL  202 (444)
Q Consensus       201 ei  202 (444)
                      -|
T Consensus      1746 ~I 1747 (1758)
T KOG0994|consen 1746 HI 1747 (1758)
T ss_pred             HH
Confidence            33

>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=96.03  E-value=1.2  Score=44.03  Aligned_cols=78  Identities=18%  Similarity=0.330  Sum_probs=33.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          115 HARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAK  192 (444)
Q Consensus       115 e~~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak  192 (444)
                      +.++..+...++.++++++..+..+.++...+......+.......+.......+....+...+..+..++..+...+
T Consensus        69 ~~r~~~l~~~i~~~~~~i~~~r~~l~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~l~~~r  146 (302)
T PF10186_consen   69 RERLERLRERIERLRKRIEQKRERLEELRESLEQRRSRLSASQDLVESRQEQLEELQNELEERKQRLSQLQSQLARRR  146 (302)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444444444444443333333333333333334444444444444444444444444444333

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

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

Probab=96.02  E-value=1.7  Score=49.75  Aligned_cols=19  Identities=32%  Similarity=0.443  Sum_probs=10.5

Q ss_pred             HHHHHHHHHHHHHhcCCCc
Q 013360          369 HHQVQASVQEMLKKHELTS  387 (444)
Q Consensus       369 h~q~q~~~~~~~~~~e~~~  387 (444)
                      |.+--+++-++|+++-|-.
T Consensus       708 hEk~lD~~ieLLkk~qlDE  726 (1243)
T KOG0971|consen  708 HEKSLDFLIELLKKDQLDE  726 (1243)
T ss_pred             HHHHHHHHHHHHhhccccc
Confidence            4555555556666655433

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

Probab=96.02  E-value=0.95  Score=49.83  Aligned_cols=19  Identities=11%  Similarity=0.356  Sum_probs=9.9

Q ss_pred             hHHHHHHHHHHHHHHHHHH
Q 013360           43 LKIELDQLKSKIRSLESHI   61 (444)
Q Consensus        43 l~~eL~~l~~ki~~Lesqi   61 (444)
                      ...++++++.++.+....+
T Consensus       250 i~~~i~~i~~~l~~~~~~L  268 (560)
T PF06160_consen  250 IEEEIEQIEEQLEEALALL  268 (560)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            4455555555555554444

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

>PF06008 Laminin_I: Laminin Domain I; InterPro: IPR009254 Laminins are glycoproteins that are major constituents of the basement membrane of cells

Probab=95.99  E-value=1.9  Score=42.74  Aligned_cols=173  Identities=18%  Similarity=0.248  Sum_probs=87.3

Q ss_pred             HHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           50 LKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLK  129 (444)
Q Consensus        50 l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~eLe~qIe~Lk  129 (444)
                      +...+..+..++....+.+......+...+..+..++.++..|..+......++..+ .........+...|...|..+.
T Consensus        22 l~~~~e~~~~~L~~~~~~~~~~~~~~~~~e~~l~~L~~d~~~L~~k~~~~~~~~~~l-~~~t~~t~~~a~~L~~~i~~l~  100 (264)
T PF06008_consen   22 LLSSIEDLTNQLRSYRSKLNPQKQQLDPLEKELESLEQDVENLQEKATKVSRKAQQL-NNNTERTLQRAQDLEQFIQNLQ  100 (264)
T ss_pred             HHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444444444444444444444455555555444443333322 3445555666666666666666


Q ss_pred             HHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHhhh
Q 013360          130 KESEKQQKEKEALEA-----RAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTE  204 (444)
Q Consensus       130 kelE~~~~e~~~LEa-----e~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak~E~~~~a~ei~~  204 (444)
                      ..+..+..+...+..     .-.++...+.+.+..+++++...  ........+.++..++.-+.+.+........+...
T Consensus       101 ~~i~~l~~~~~~l~~~~~~~~~~~l~~~l~ea~~mL~emr~r~--f~~~~~~Ae~El~~A~~LL~~v~~~~~~~~~~~~~  178 (264)
T PF06008_consen  101 DNIQELIEQVESLNENGDQLPSEDLQRALAEAQRMLEEMRKRD--FTPQRQNAEDELKEAEDLLSRVQKWFQKPQQENES  178 (264)
T ss_pred             HHHHHHHHHHHHhCcccCCCCHHHHHHHHHHHHHHHHHHHhcc--chhHHHHHHHHHHHHHHHHHHHHHHHhhHHHhhHH
Confidence            666666666665555     34555556666666666665552  55555555555666665555555543322221110


Q ss_pred             hhccCCChhHHHHHHhhhHhhh
Q 013360          205 VHSAWLPPWLAVHLLQCQSLIE  226 (444)
Q Consensus       205 ~~g~wl~Pw~~~~~~~~~~~~~  226 (444)
                      - -.=+|-+|..|-.+++++-.
T Consensus       179 l-~~~i~~~L~~~~~kL~Dl~~  199 (264)
T PF06008_consen  179 L-AEAIRDDLNDYNAKLQDLRD  199 (264)
T ss_pred             H-HHHHHHHHHHHHHHHHHHHH
Confidence            0 00144566666666666433

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

>PF04582 Reo_sigmaC: Reovirus sigma C capsid protein; InterPro: IPR007662 Protein sigmaC in its native state was shown to be a homotrimer

Probab=95.92  E-value=0.015  Score=59.31  Aligned_cols=124  Identities=17%  Similarity=0.276  Sum_probs=19.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHH
Q 013360           47 LDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQID  126 (444)
Q Consensus        47 L~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~eLe~qIe  126 (444)
                      |..++.++..||..+..+...+......|.++...|......|.+++.+|.++...+               ..++..+.
T Consensus        30 Ls~I~eRLsaLEssv~sL~~SVs~lss~iSdLss~L~~l~~sl~~~~s~L~sLsstV---------------~~lq~Sl~   94 (326)
T PF04582_consen   30 LSPIRERLSALESSVASLSDSVSSLSSTISDLSSDLQDLASSLADMTSELNSLSSTV---------------TSLQSSLS   94 (326)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------------HHHHHHHH
Confidence            344444444444444444444444444444444444444444444444444443222               22223333


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          127 NLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAE  185 (444)
Q Consensus       127 ~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~E  185 (444)
                      .+...+..+...+...+..+..+...++.+.-.+..|+..+..+.-.|..++.+++.+|
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            44444444444444444444444444555555555555555555555555555555544

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=95.90  E-value=2.1  Score=42.64  Aligned_cols=31  Identities=16%  Similarity=0.170  Sum_probs=15.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 013360          169 EQKSKIRKTERALKVAEEEMMRAKFEATSRS  199 (444)
Q Consensus       169 eqekqI~elE~~Lq~~Eeel~kak~E~~~~a  199 (444)
                      ...+.+....+.++.++++|..++.+...++
T Consensus       190 ~m~kei~~~re~i~el~e~I~~L~~eV~~L~  220 (258)
T PF15397_consen  190 VMQKEIVQFREEIDELEEEIPQLRAEVEQLQ  220 (258)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444445555555555555555555555443

>PF13870 DUF4201: Domain of unknown function (DUF4201)

Probab=95.86  E-value=1.5  Score=40.72  Aligned_cols=142  Identities=14%  Similarity=0.120  Sum_probs=70.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           78 KEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLS  157 (444)
Q Consensus        78 ~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle  157 (444)
                      +--....+...+..++.++.....=+....-....+++.+...+.+.|++-..++..+......--.-++-...++..+.
T Consensus        11 ~Rl~~~~lk~~l~k~~~ql~~ke~lge~L~~iDFeqLkien~~l~~kIeERn~eL~~Lk~~~~~~v~~L~h~keKl~~~~   90 (177)
T PF13870_consen   11 LRLKNITLKHQLAKLEEQLRQKEELGEGLHLIDFEQLKIENQQLNEKIEERNKELLKLKKKIGKTVQILTHVKEKLHFLS   90 (177)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333344444444444333222222234444555555555555555555555555444444444445555555555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHhhhhhccCCChhHHHHHHhhhH
Q 013360          158 AKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTEVHSAWLPPWLAVHLLQCQS  223 (444)
Q Consensus       158 ~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak~E~~~~a~ei~~~~g~wl~Pw~~~~~~~~~~  223 (444)
                      .....+...+...+..+..+...+.....+..++.....    ++..-||-+--|=|...|.++..
T Consensus        91 ~~~~~l~~~l~~~~~~~~~~r~~l~~~k~~r~k~~~~~~----~l~~~~~~~~~P~ll~Dy~~~~~  152 (177)
T PF13870_consen   91 EELERLKQELKDREEELAKLREELYRVKKERDKLRKQNK----KLRQQGGLLGVPALLRDYDKTKE  152 (177)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHhcCCCCCcHHHHHHHHHHH
Confidence            555555555555555555555555555554444444333    23455677777766655665544

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

Probab=95.85  E-value=1.5  Score=46.87  Aligned_cols=62  Identities=19%  Similarity=0.311  Sum_probs=27.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          111 VDKAHARADELEKQIDNLKKESEKQQ---KEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKS  172 (444)
Q Consensus       111 i~~ae~~i~eLe~qIe~LkkelE~~~---~e~~~LEae~~elEkkleEle~kveeLe~~~eeqek  172 (444)
                      +..-+++|..|.++++.|..+++.+.   ++.+...++...+-.+++....+.++|.+.+-+.+-
T Consensus       339 ie~kEeei~~L~~~~d~L~~q~~kq~Is~e~fe~mn~Ere~L~reL~~i~~~~~~L~k~V~~~~l  403 (622)
T COG5185         339 IELKEEEIKALQSNIDELHKQLRKQGISTEQFELMNQEREKLTRELDKINIQSDKLTKSVKSRKL  403 (622)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHhHHH
Confidence            33344444444444444444444442   222233444444444444444455555444444333

>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=95.81  E-value=1.3  Score=43.70  Aligned_cols=24  Identities=21%  Similarity=0.396  Sum_probs=11.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhh
Q 013360           47 LDQLKSKIRSLESHIDEKTQELKG   70 (444)
Q Consensus        47 L~~l~~ki~~Lesqi~ele~eI~~   70 (444)
                      |..++..+.++....+.+..+|++
T Consensus        22 L~~~~~~l~~~~~~~~~l~~~i~~   45 (302)
T PF10186_consen   22 LLELRSELQQLKEENEELRRRIEE   45 (302)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444444444444444444444333

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

>KOG4360 consensus Uncharacterized coiled coil protein [Function unknown]

Probab=95.80  E-value=1.2  Score=47.98  Aligned_cols=88  Identities=20%  Similarity=0.247  Sum_probs=48.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHH
Q 013360          109 EQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIR-------KTERAL  181 (444)
Q Consensus       109 ~~i~~ae~~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~-------elE~~L  181 (444)
                      +++.+++.++..+.++++.+-+++..+.++...|.+.+.++.+++..+.-+.+.+..-+......-+       +++++.
T Consensus       205 KelrdtN~q~~s~~eel~~kt~el~~q~Ee~skLlsql~d~qkk~k~~~~Ekeel~~~Lq~~~da~~ql~aE~~EleDky  284 (596)
T KOG4360|consen  205 KELRDTNTQARSGQEELQSKTKELSRQQEENSKLLSQLVDLQKKIKYLRHEKEELDEHLQAYKDAQRQLTAELEELEDKY  284 (596)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Confidence            4444555555555556666666666666666677777777777666666665555555544443333       333333


Q ss_pred             HHHHHHHHHHHHHHh
Q 013360          182 KVAEEEMMRAKFEAT  196 (444)
Q Consensus       182 q~~Eeel~kak~E~~  196 (444)
                      .....++..+++|++
T Consensus       285 AE~m~~~~EaeeELk  299 (596)
T KOG4360|consen  285 AECMQMLHEAEEELK  299 (596)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            333344444444444

>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=95.80  E-value=2.7  Score=43.13  Aligned_cols=80  Identities=18%  Similarity=0.246  Sum_probs=38.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHHHHHH
Q 013360          116 ARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAK--------------LEKLQKINDEQKSKIRKTERAL  181 (444)
Q Consensus       116 ~~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~k--------------veeLe~~~eeqekqI~elE~~L  181 (444)
                      .++..++.++..|+.++...-.+++++..+......++..++.+              ++.|-.++--++.++..++.+.
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            34444444444444444444444444444444444333333332              3444444445555566666655


Q ss_pred             HHHHHHHHHHHHHH
Q 013360          182 KVAEEEMMRAKFEA  195 (444)
Q Consensus       182 q~~Eeel~kak~E~  195 (444)
                      .-+...+.+.+.=+
T Consensus       213 ~l~k~~i~KYK~~l  226 (319)
T PF09789_consen  213 ELLKQTINKYKSAL  226 (319)
T ss_pred             HHHHHHHHHHHHHH
Confidence            55555555555533

>KOG0963 consensus Transcription factor/CCAAT displacement protein CDP1 [Transcription]

Probab=95.79  E-value=2  Score=47.34  Aligned_cols=121  Identities=23%  Similarity=0.337  Sum_probs=67.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhhhHH-----------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           78 KEKAIQDKSERIVSLQKELSSLQKKETLNAA-----------------EQVDKAHARADELEKQIDNLKKESEKQQKEKE  140 (444)
Q Consensus        78 ~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~-----------------~~i~~ae~~i~eLe~qIe~LkkelE~~~~e~~  140 (444)
                      ....+...+..|..|+..|...+++......                 .++..++.+|..|+.+++.|..++...+....
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            3445555555666665555555544433311                 44556666677777777766666555543332


Q ss_pred             --------HHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013360          141 --------ALEARAIEAEKKISDLSAKLEKL----QKINDEQKSKIRKTERALKVAEEEMMRAKFEATSR  198 (444)
Q Consensus       141 --------~LEae~~elEkkleEle~kveeL----e~~~eeqekqI~elE~~Lq~~Eeel~kak~E~~~~  198 (444)
                              .+...+...+..+..+...++.+    ....+....+|..++..+.....++..++..++..
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                    33333444555555555544433    34445566677777777777766666666665543

>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=95.79  E-value=0.64  Score=41.14  Aligned_cols=13  Identities=38%  Similarity=0.782  Sum_probs=4.9

Q ss_pred             HHHHHHHHHHHHH
Q 013360           47 LDQLKSKIRSLES   59 (444)
Q Consensus        47 L~~l~~ki~~Les   59 (444)
                      ++.+.+.|.+++.
T Consensus        18 ve~L~s~lr~~E~   30 (120)
T PF12325_consen   18 VERLQSQLRRLEG   30 (120)
T ss_pred             HHHHHHHHHHHHH
Confidence            3333333333333

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 [].

>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=95.76  E-value=2.7  Score=42.84  Aligned_cols=100  Identities=18%  Similarity=0.213  Sum_probs=53.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHH
Q 013360          113 KAHARADELEKQIDNLKKESEKQQ-KEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERA-LKVAEEEMMR  190 (444)
Q Consensus       113 ~ae~~i~eLe~qIe~LkkelE~~~-~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~-Lq~~Eeel~k  190 (444)
                      .+..++..+..+...|...++.-+ .....|..++..++++.......++.|...+.+++..+..-+.. +..+...+.+
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            444455555555555555555432 22345555555555555555555555555555555554433332 2334455666


Q ss_pred             HHHHHhhhhHHhhhhhccCCCh
Q 013360          191 AKFEATSRSKELTEVHSAWLPP  212 (444)
Q Consensus       191 ak~E~~~~a~ei~~~~g~wl~P  212 (444)
                      +..+...++.++..++.....|
T Consensus       190 l~~eKr~Lq~~l~~~~s~~~s~  211 (310)
T PF09755_consen  190 LEAEKRRLQEKLEQPVSAPPSP  211 (310)
T ss_pred             HHHHHHHHHHHHccccCCCCCc
Confidence            6666666666676655444444

>PF05384 DegS: Sensor protein DegS; InterPro: IPR008595 This is a group of Bacillus DegS proteins

Probab=95.74  E-value=1.7  Score=40.33  Aligned_cols=127  Identities=15%  Similarity=0.274  Sum_probs=56.0

Q ss_pred             HHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           50 LKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLK  129 (444)
Q Consensus        50 l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~eLe~qIe~Lk  129 (444)
                      .+.++..+..++.++..++...-.+...++..-......+.+.+....       ...+..+-.|-++..++.-++.-++
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            344444444444444444444333333344333333333333333332       2223444555555555555555555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          130 KESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKV  183 (444)
Q Consensus       130 kelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~  183 (444)
                      .+-..+....+.|+-++..++.-++..+..+..+.-.++=+...+..+...++.
T Consensus        98 e~E~qLr~rRD~LErrl~~l~~tierAE~l~sqi~vvl~yL~~dl~~v~~~~e~  151 (159)
T PF05384_consen   98 EREKQLRERRDELERRLRNLEETIERAENLVSQIGVVLNYLSGDLQQVSEQIED  151 (159)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            554444444444444444444444444444444444444444444444444333

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

>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD

Probab=95.69  E-value=1.1  Score=49.97  Aligned_cols=40  Identities=28%  Similarity=0.345  Sum_probs=16.0

Q ss_pred             HHHHHHHhhhhhHHHHHHHHHHHHHH--HHHHHHHHHHHHHH
Q 013360           60 HIDEKTQELKGKDEVVAQKEKAIQDK--SERIVSLQKELSSL   99 (444)
Q Consensus        60 qi~ele~eI~~k~~eIk~~e~~I~e~--e~~I~eLq~kI~sL   99 (444)
                      .+.++..++...+.+|.+++..|...  +..|..+..++..+
T Consensus       392 ~~~~~~~~~~~~e~el~~l~~~l~~~~~~e~i~~l~e~l~~l  433 (650)
T TIGR03185       392 AKSQLLKELRELEEELAEVDKKISTIPSEEQIAQLLEELGEA  433 (650)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHH
Confidence            33444444444444444444444331  23444444444433

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=95.67  E-value=0.24  Score=47.74  Aligned_cols=45  Identities=13%  Similarity=0.277  Sum_probs=19.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          148 EAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAK  192 (444)
Q Consensus       148 elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak  192 (444)
                      ++..++++.+..+.+|+.+++++..++..+..++..++.++...+
T Consensus       122 ~l~~~~~~~~~~~~~L~~~n~~L~~~l~~~~~~~~~l~~~~~~~~  166 (206)
T PRK10884        122 EMQQKVAQSDSVINGLKEENQKLKNQLIVAQKKVDAANLQLDDKQ  166 (206)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333334444444444444444444444444444444443333

>KOG0963 consensus Transcription factor/CCAAT displacement protein CDP1 [Transcription]

Probab=95.63  E-value=1.2  Score=48.87  Aligned_cols=20  Identities=20%  Similarity=0.429  Sum_probs=8.3

Q ss_pred             HHHHHHHHHHHHHHHHHhhh
Q 013360           50 LKSKIRSLESHIDEKTQELK   69 (444)
Q Consensus        50 l~~ki~~Lesqi~ele~eI~   69 (444)
                      ++.++..++++|+.+...|.
T Consensus       194 ~~~q~~~le~ki~~lq~a~~  213 (629)
T KOG0963|consen  194 LQEQLEELEKKISSLQSAIE  213 (629)
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            44444444444444433333

>TIGR03017 EpsF chain length determinant protein EpsF

Probab=95.61  E-value=3.7  Score=43.29  Aligned_cols=15  Identities=13%  Similarity=0.233  Sum_probs=5.9

Q ss_pred             HHHHHHHHHHHHHHH
Q 013360          114 AHARADELEKQIDNL  128 (444)
Q Consensus       114 ae~~i~eLe~qIe~L  128 (444)
                      +..++.+++.++..+
T Consensus       259 l~~~l~~le~~l~~l  273 (444)
T TIGR03017       259 LKTDIARAESKLAEL  273 (444)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            333444444443333

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.

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

Probab=95.55  E-value=0.0035  Score=71.96  Aligned_cols=160  Identities=21%  Similarity=0.338  Sum_probs=0.0

Q ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHhhhhhh------HH
Q 013360           42 PLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSE-------RIVSLQKELSSLQKKETLN------AA  108 (444)
Q Consensus        42 ~l~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~-------~I~eLq~kI~sLqkK~s~~------~~  108 (444)
                      .+..+++..+..+..|+.....+..++.+...++.........+++       .++++..+...++......      ..
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            3455555556666665555555555555555554444444333333       3333333333332222211      12


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          109 EQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEM  188 (444)
Q Consensus       109 ~~i~~ae~~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel  188 (444)
                      .++..+...+.++..+++.++++...+..++..+.....+..+.+.++......|+..+++++..+.+++..++..+...
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            44444555555555555555555555555555555556666666666777777777777788888888888888888777


Q ss_pred             HHHHHHHhhhhHH
Q 013360          189 MRAKFEATSRSKE  201 (444)
Q Consensus       189 ~kak~E~~~~a~e  201 (444)
                      .+++.++.....+
T Consensus       492 lRl~~el~~~r~e  504 (859)
T PF01576_consen  492 LRLQVELQQLRQE  504 (859)
T ss_dssp             -------------
T ss_pred             HHHHHHHHHHHHH
Confidence            7777777655443

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.

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

Probab=95.54  E-value=2.3  Score=40.58  Aligned_cols=142  Identities=20%  Similarity=0.274  Sum_probs=60.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHH
Q 013360           46 ELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQI  125 (444)
Q Consensus        46 eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~eLe~qI  125 (444)
                      ++..++.+|..++.+...-+..+....+.+.+.+..-.+.+..+..+.+....+..++.. .+.+...++--..++...-
T Consensus         5 ~va~lnrri~~leeele~aqErl~~a~~KL~Eaeq~~dE~er~~Kv~enr~~kdEE~~e~-~e~qLkEAk~iaE~adrK~   83 (205)
T KOG1003|consen    5 DVAALNRRIQLLEEELDRAQERLATALQKLEEAEQAADESERGMKVIENRAQKLEEKMEA-QEAQLKEAKHIAEKADRKY   83 (205)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccHHHHHHHHHHHHHHhhHHHHHH-HHHHHHHHHHHHHHHHHHH
Confidence            344455555555555555555555555555555555555555544444443333322222 1222333332223333223


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          126 DNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEM  188 (444)
Q Consensus       126 e~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel  188 (444)
                      +..-..|--++-+++..+.++.-.+.++.++...+..+...+..+...-+.+.++...++.+|
T Consensus        84 eEVarkL~iiE~dLE~~eeraE~~Es~~~eLeEe~~~~~~nlk~l~~~ee~~~q~~d~~e~~i  146 (205)
T KOG1003|consen   84 EEVARKLVIIEGELERAEERAEAAESQSEELEEDLRILDSNLKSLSAKEEKLEQKEEKYEEEL  146 (205)
T ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhHhHHHHHHHHHHHHhhhHHHHHHHH
Confidence            333333333334444444444444444444444444444444444444444444444444333

>PF00769 ERM: Ezrin/radixin/moesin family; InterPro: IPR011259 The ERM family consists of three closely-related proteins, ezrin, radixin and moesin []

Probab=95.54  E-value=1.3  Score=43.86  Aligned_cols=121  Identities=19%  Similarity=0.327  Sum_probs=55.5

Q ss_pred             HHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           61 IDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKE  140 (444)
Q Consensus        61 i~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~eLe~qIe~LkkelE~~~~e~~  140 (444)
                      ..++...+....++.......+.+.+..+..|..+...++        .....++.+..+++..+.+|.....       
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            3344444444444444444444444444444444433332        2222333334444444444444443       


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013360          141 ALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEAT  196 (444)
Q Consensus       141 ~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak~E~~  196 (444)
                      ....+...++.++.++...+..|.............+..++..++..+.+++.++.
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            34444455556666666666666666666666677777777766666666665554

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.

>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=95.53  E-value=2.9  Score=47.36  Aligned_cols=146  Identities=16%  Similarity=0.215  Sum_probs=65.2

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHH
Q 013360           43 LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELE  122 (444)
Q Consensus        43 l~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~eLe  122 (444)
                      +..+|.+++.++.+++..++....+.+.+.....++....+..+.+...|..+|..+       +. .....-....+|+
T Consensus        32 ~~~~i~~l~~elk~~~~~~~~~~~e~~rl~~~~~~~~~~~~~~e~~~~~lr~e~ke~-------K~-rE~rll~dyselE  103 (717)
T PF09730_consen   32 LQQRILELENELKQLRQELSNVQAENERLSQLNQELRKECEDLELERKRLREEIKEY-------KF-REARLLQDYSELE  103 (717)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HH-HHHHHhhhhHHHH
Confidence            334444444444444444444444444433333333333333333333333333322       11 1112223455555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013360          123 KQIDNLKKESEKQQKEKEALE---ARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEAT  196 (444)
Q Consensus       123 ~qIe~LkkelE~~~~e~~~LE---ae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak~E~~  196 (444)
                      .+--.|++++-.++...-+.|   -+...++....-++..++++..-.+-.+.++++.-..++.-.++-..++.|+.
T Consensus       104 eENislQKqvs~Lk~sQvefE~~Khei~rl~Ee~~~l~~qlee~~rLk~iae~qleEALesl~~EReqk~~LrkEL~  180 (717)
T PF09730_consen  104 EENISLQKQVSVLKQSQVEFEGLKHEIKRLEEEIELLNSQLEEAARLKEIAEKQLEEALESLKSEREQKNALRKELD  180 (717)
T ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            555555555555544443333   33334444444555555555555555555555555555444444445555444

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

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

Probab=95.51  E-value=1.1  Score=52.47  Aligned_cols=71  Identities=23%  Similarity=0.310  Sum_probs=46.5

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           70 GKDEVVAQKEKAIQDKSERIVSLQ-KELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEA  141 (444)
Q Consensus        70 ~k~~eIk~~e~~I~e~e~~I~eLq-~kI~sLqkK~s~~~~~~i~~ae~~i~eLe~qIe~LkkelE~~~~e~~~  141 (444)
                      ++++..++++..|.++.....+|+ .++..+|...+.+ +++....+++...+..++..++.+++..+.....
T Consensus       462 ~~~~~~keL~e~i~~lk~~~~el~~~q~~l~q~~~ke~-~ek~~~~~~~~~~l~~~~~~~~eele~~q~~~~~  533 (1317)
T KOG0612|consen  462 ELEEMDKELEETIEKLKSEESELQREQKALLQHEQKEV-EEKLSEEEAKKRKLEALVRQLEEELEDAQKKNDN  533 (1317)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            566777777777777777777777 4666666555543 4556666666666666666666666666544443

>PRK10476 multidrug resistance protein MdtN; Provisional

Probab=95.50  E-value=1.5  Score=44.79  Aligned_cols=27  Identities=7%  Similarity=0.235  Sum_probs=14.1

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013360           43 LKIELDQLKSKIRSLESHIDEKTQELK   69 (444)
Q Consensus        43 l~~eL~~l~~ki~~Lesqi~ele~eI~   69 (444)
                      ...+++++++.+...+.+++.....++
T Consensus        84 ~~~~l~~a~a~l~~a~a~l~~~~~~~~  110 (346)
T PRK10476         84 YELTVAQAQADLALADAQIMTTQRSVD  110 (346)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444555555555555555555444433

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

Probab=95.49  E-value=0.0037  Score=71.71  Aligned_cols=100  Identities=20%  Similarity=0.325  Sum_probs=0.0

Q ss_pred             HHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           61 IDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKE  140 (444)
Q Consensus        61 i~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~eLe~qIe~LkkelE~~~~e~~  140 (444)
                      +.+++.+|+........++..-......+.+|...++++++.... .+...-.++.++.+++..++.....+..+...+.
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            344444444444444445555555555555555555555432222 1333333444444444444444444444433333


Q ss_pred             HHHHHHHHHHHHHHHHHHHHH
Q 013360          141 ALEARAIEAEKKISDLSAKLE  161 (444)
Q Consensus       141 ~LEae~~elEkkleEle~kve  161 (444)
                      .++++..++...+.+....+.
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.

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

Probab=95.48  E-value=3.4  Score=48.01  Aligned_cols=83  Identities=30%  Similarity=0.429  Sum_probs=38.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          114 AHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKF  193 (444)
Q Consensus       114 ae~~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak~  193 (444)
                      .+.+...++..++.++..+.........+......+..+..+....+.++...+.+......+++..+...+..+..++.
T Consensus       359 ~~~~~~~l~~~~~~l~~~~~~~le~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~l~~~~~~~~~~~~  438 (908)
T COG0419         359 LEERLKELEERLEELEKELEKALERLKQLEEAIQELKEELAELSAALEEIQEELEELEKELEELERELEELEEEIKKLEE  438 (908)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344444444445544444333333344444444444444444444455444544444445555555444444444444


Q ss_pred             HHh
Q 013360          194 EAT  196 (444)
Q Consensus       194 E~~  196 (444)
                      ...
T Consensus       439 ~~~  441 (908)
T COG0419         439 QIN  441 (908)
T ss_pred             HHH
Confidence            333

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

Probab=95.39  E-value=3.8  Score=46.07  Aligned_cols=94  Identities=26%  Similarity=0.273  Sum_probs=58.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          111 VDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMR  190 (444)
Q Consensus       111 i~~ae~~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~k  190 (444)
                      .......|+.++.+...+.........++..+...+....+...++....+.|+...+...+++.+++..+.....++..
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            33444455555555555555555555555555555666666666677777777777777777777777777777777666


Q ss_pred             HHHHHhhhhHHhhh
Q 013360          191 AKFEATSRSKELTE  204 (444)
Q Consensus       191 ak~E~~~~a~ei~~  204 (444)
                      .......+..++..
T Consensus       599 ~~~k~~rleEE~e~  612 (698)
T KOG0978|consen  599 EKFKRKRLEEELER  612 (698)
T ss_pred             HHHHHHHHHHHHHH
Confidence            66665555555544

>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=95.38  E-value=0.2  Score=40.54  Aligned_cols=66  Identities=44%  Similarity=0.548  Sum_probs=29.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           79 EKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEAR  145 (444)
Q Consensus        79 e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~eLe~qIe~LkkelE~~~~e~~~LEae  145 (444)
                      +..|.++...|+.|..+-..|.++... ....+..+...+.+++.++..+.+.++....++..++.+
T Consensus         4 ~~~l~EKDe~Ia~L~eEGekLSk~el~-~~~~IKKLr~~~~e~e~~~~~l~~~~~~~e~~~~~l~~~   69 (74)
T PF12329_consen    4 EKKLAEKDEQIAQLMEEGEKLSKKELK-LNNTIKKLRAKIKELEKQIKELKKKLEELEKELESLEER   69 (74)
T ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHHHh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344445555555555555444322221 123333344444444555555554444444444444443

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.

>PRK10884 SH3 domain-containing protein; Provisional

Probab=95.35  E-value=0.39  Score=46.30  Aligned_cols=26  Identities=12%  Similarity=0.427  Sum_probs=12.6

Q ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHh
Q 013360           42 PLKIELDQLKSKIRSLESHIDEKTQE   67 (444)
Q Consensus        42 ~l~~eL~~l~~ki~~Lesqi~ele~e   67 (444)
                      ..+.++..+++++++++.+++++.++
T Consensus        90 ~~~~rlp~le~el~~l~~~l~~~~~~  115 (206)
T PRK10884         90 SLRTRVPDLENQVKTLTDKLNNIDNT  115 (206)
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHhH
Confidence            44455555555555555444444433

>PF00769 ERM: Ezrin/radixin/moesin family; InterPro: IPR011259 The ERM family consists of three closely-related proteins, ezrin, radixin and moesin []

Probab=95.30  E-value=2.2  Score=42.10  Aligned_cols=83  Identities=20%  Similarity=0.274  Sum_probs=31.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          114 AHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKF  193 (444)
Q Consensus       114 ae~~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak~  193 (444)
                      .+..+..|+.+...++.+-..+......++.....|+............|..++.+....+..+....+.-+.+-..++.
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            33344444444444444444444444444444444444444444444444444444444444444444444444444444


Q ss_pred             HHh
Q 013360          194 EAT  196 (444)
Q Consensus       194 E~~  196 (444)
                      ++.
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.

>COG2433 Uncharacterized conserved protein [Function unknown]

Probab=95.28  E-value=0.32  Score=53.24  Aligned_cols=12  Identities=25%  Similarity=0.285  Sum_probs=6.6

Q ss_pred             HHHHhhhhhhHH
Q 013360          260 ETIKAKWIPAVK  271 (444)
Q Consensus       260 ~~~~~k~~p~~~  271 (444)
                      ++|...=+|++.
T Consensus       584 e~f~~~~iPv~~  595 (652)
T COG2433         584 EEFFKNEIPVLP  595 (652)
T ss_pred             HHHhhcCCceee
Confidence            345555566654

>PF06818 Fez1: Fez1; InterPro: IPR009638 This family represents the eukaryotic Fez1 protein

Probab=95.26  E-value=3  Score=40.11  Aligned_cols=28  Identities=21%  Similarity=0.336  Sum_probs=10.8

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 013360           43 LKIELDQLKSKIRSLESHIDEKTQELKG   70 (444)
Q Consensus        43 l~~eL~~l~~ki~~Lesqi~ele~eI~~   70 (444)
                      ++.+|.+...++++-.+.|-.+..++.+
T Consensus        15 LKqQLke~q~E~~~K~~Eiv~Lr~ql~e   42 (202)
T PF06818_consen   15 LKQQLKESQAEVNQKDSEIVSLRAQLRE   42 (202)
T ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence            3344444444443333333333333333

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

>KOG0999 consensus Microtubule-associated protein Bicaudal-D [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.25  E-value=5.6  Score=43.48  Aligned_cols=43  Identities=16%  Similarity=0.187  Sum_probs=23.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHh
Q 013360          154 SDLSAKLEKLQKINDEQKSKIRKTERALKVAE---EEMMRAKFEAT  196 (444)
Q Consensus       154 eEle~kveeLe~~~eeqekqI~elE~~Lq~~E---eel~kak~E~~  196 (444)
                      ..+-+...+|+.++-.+++++..+...--.++   .++.+++++..
T Consensus       166 ~RllseYSELEEENIsLQKqVs~LR~sQVEyEglkheikRleEe~e  211 (772)
T KOG0999|consen  166 ARLLSEYSELEEENISLQKQVSNLRQSQVEYEGLKHEIKRLEEETE  211 (772)
T ss_pred             HHHHHHHHHHHHhcchHHHHHHHHhhhhhhhhHHHHHHHHHHHHHH
Confidence            33444556666666666666666655443333   55666655544

>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=95.23  E-value=1.3  Score=44.35  Aligned_cols=75  Identities=23%  Similarity=0.268  Sum_probs=47.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013360          124 QIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSR  198 (444)
Q Consensus       124 qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak~E~~~~  198 (444)
                      +...|+.+.-.+-+.-+.++.....+.-.+.--+..+.-++..+...+.+|+.++..+..++.++.+.+......
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            334444444444444444444444555555555666677777777777788888888888888888877766633

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 [].

>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=95.21  E-value=1.3  Score=39.16  Aligned_cols=19  Identities=32%  Similarity=0.475  Sum_probs=7.1

Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q 013360           81 AIQDKSERIVSLQKELSSL   99 (444)
Q Consensus        81 ~I~e~e~~I~eLq~kI~sL   99 (444)
                      .|..++.++..++.++..+
T Consensus        24 ~lr~~E~E~~~l~~el~~l   42 (120)
T PF12325_consen   24 QLRRLEGELASLQEELARL   42 (120)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333

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 [].

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

Probab=95.20  E-value=5.1  Score=44.82  Aligned_cols=42  Identities=21%  Similarity=0.189  Sum_probs=22.2

Q ss_pred             HHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           58 ESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSL   99 (444)
Q Consensus        58 esqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sL   99 (444)
                      -.++-....-|+.+...+++.+.....+...|..|+++..-|
T Consensus       466 SK~ql~qs~iIkKLRAk~ke~etl~~K~ge~i~~L~sE~~~l  507 (961)
T KOG4673|consen  466 SKKQLAQSAIIKKLRAKIKEAETLEEKKGELITKLQSEENKL  507 (961)
T ss_pred             HHHHHHHHHHHHHHHHHhhhhhHHHHHhhhHHHHHHHHHHHH
Confidence            333333344445555555555555555556666666666544

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

Probab=95.12  E-value=4  Score=47.46  Aligned_cols=11  Identities=55%  Similarity=0.845  Sum_probs=4.6

Q ss_pred             HHHHHHHHHHH
Q 013360           47 LDQLKSKIRSL   57 (444)
Q Consensus        47 L~~l~~ki~~L   57 (444)
                      .++++.++..+
T Consensus       554 ~~~l~~e~~~l  564 (908)
T COG0419         554 LQQLKEELRQL  564 (908)
T ss_pred             HHHHHHHHHHH
Confidence            34444444433

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

Probab=95.10  E-value=1.3  Score=43.47  Aligned_cols=45  Identities=18%  Similarity=0.204  Sum_probs=19.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 013360          155 DLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRS  199 (444)
Q Consensus       155 Ele~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak~E~~~~a  199 (444)
                      ..+..+..|+..+.+.+.........+..+.+++..++.+..+..
T Consensus        57 qI~~DIn~lE~iIkqa~~er~~~~~~i~r~~eey~~Lk~~in~~R  101 (230)
T PF10146_consen   57 QINQDINTLENIIKQAESERNKRQEKIQRLYEEYKPLKDEINELR  101 (230)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333334444444444444444444444444444444444443

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.

>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=95.10  E-value=2  Score=42.96  Aligned_cols=106  Identities=14%  Similarity=0.236  Sum_probs=45.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHH
Q 013360           45 IELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQ  124 (444)
Q Consensus        45 ~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~eLe~q  124 (444)
                      ..|.+|...++.|..+.....-+|++++..+..-....++-..++..|.-+..+|-.--.. .+....++.-.+.--+.+
T Consensus        18 qKIqelE~QldkLkKE~qQrQfQleSlEAaLqKQKqK~e~ek~e~s~LkREnq~l~e~c~~-lek~rqKlshdlq~Ke~q   96 (307)
T PF10481_consen   18 QKIQELEQQLDKLKKERQQRQFQLESLEAALQKQKQKVEEEKNEYSALKRENQSLMESCEN-LEKTRQKLSHDLQVKESQ   96 (307)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhHHHHHHH-HHHHHHHhhHHHhhhHHH
Confidence            3444555555555554444444555544444444444444444444444433333211111 112222333334444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          125 IDNLKKESEKQQKEKEALEARAIEAEK  151 (444)
Q Consensus       125 Ie~LkkelE~~~~e~~~LEae~~elEk  151 (444)
                      +.-|+.++...+..++.|+.++..++.
T Consensus        97 v~~lEgQl~s~Kkqie~Leqelkr~Ks  123 (307)
T PF10481_consen   97 VNFLEGQLNSCKKQIEKLEQELKRCKS  123 (307)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            445555555554444444444443333

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 [].

>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]

Probab=95.10  E-value=1.3  Score=46.97  Aligned_cols=70  Identities=14%  Similarity=0.211  Sum_probs=32.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          113 KAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAE  185 (444)
Q Consensus       113 ~ae~~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~E  185 (444)
                      .++.++.+++..+.++++++...++.-..+.+.+.....++++++.   .+...+...+.+|.+|++++..+.
T Consensus       379 ~~e~k~~q~q~k~~k~~kel~~~~E~n~~l~knq~vw~~kl~~~~e---~~~~~~~s~d~~I~dLqEQlrDlm  448 (493)
T KOG0804|consen  379 IVERKLQQLQTKLKKCQKELKEEREENKKLIKNQDVWRGKLKELEE---REKEALGSKDEKITDLQEQLRDLM  448 (493)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHhHh
Confidence            3444555555555555555555554434443333333333333322   233334444455555555555554

>PF13166 AAA_13: AAA domain

Probab=95.08  E-value=4.2  Score=45.53  Aligned_cols=15  Identities=7%  Similarity=0.177  Sum_probs=10.3

Q ss_pred             HHHHHHHHHHHHHhc
Q 013360          369 HHQVQASVQEMLKKH  383 (444)
Q Consensus       369 h~q~q~~~~~~~~~~  383 (444)
                      ..-+.+.+|..|+.+
T Consensus       633 ~~~~~N~~RriLE~y  647 (712)
T PF13166_consen  633 AYNIPNVMRRILEAY  647 (712)
T ss_pred             HHhhHHHhHHHHHHH
Confidence            455667777777776

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

Probab=95.07  E-value=5.9  Score=46.01  Aligned_cols=39  Identities=31%  Similarity=0.337  Sum_probs=18.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          115 HARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKI  153 (444)
Q Consensus       115 e~~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkl  153 (444)
                      .+...++..+|..+.+.|+.-..++..+.+....++.++
T Consensus       480 ~~et~el~~~iknlnk~L~~r~~elsrl~a~~~elkeQ~  518 (1195)
T KOG4643|consen  480 EAETEELLNQIKNLNKSLNNRDLELSRLHALKNELKEQY  518 (1195)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333444444455555555555555554444444444433

>PF04582 Reo_sigmaC: Reovirus sigma C capsid protein; InterPro: IPR007662 Protein sigmaC in its native state was shown to be a homotrimer

Probab=95.04  E-value=0.041  Score=56.16  Aligned_cols=63  Identities=21%  Similarity=0.331  Sum_probs=0.0

Q ss_pred             CchHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013360           41 SPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKE  103 (444)
Q Consensus        41 ~~l~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~  103 (444)
                      .++.++|..|+.-+..|...+..+.+.|.+++..|..+...|.+....|..++.+|..++..+
T Consensus        31 s~I~eRLsaLEssv~sL~~SVs~lss~iSdLss~L~~l~~sl~~~~s~L~sLsstV~~lq~Sl   93 (326)
T PF04582_consen   31 SPIRERLSALESSVASLSDSVSSLSSTISDLSSDLQDLASSLADMTSELNSLSSTVTSLQSSL   93 (326)
T ss_dssp             ---------------------------------------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345555555555555555555555555555555555555555555555555555555554333

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.

>PRK10361 DNA recombination protein RmuC; Provisional

Probab=95.03  E-value=6.4  Score=42.60  Aligned_cols=61  Identities=10%  Similarity=0.134  Sum_probs=27.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           75 VAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEK  139 (444)
Q Consensus        75 Ik~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~eLe~qIe~LkkelE~~~~e~  139 (444)
                      +..++..+......+..+..++..++...    +.....+++++..++.--++|..+.+.+..++
T Consensus        62 ~~~~~~~l~~~~~~~~~~~~~~~~l~~~l----e~~~~~~~ek~~~l~~~~~~L~~~F~~LA~~i  122 (475)
T PRK10361         62 CELLNNEVRSLQSINTSLEADLREVTTRM----EAAQQHADDKIRQMINSEQRLSEQFENLANRI  122 (475)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344444444444444444444433222    12223344455555555555555555554443

>TIGR02680 conserved hypothetical protein TIGR02680

Probab=95.02  E-value=1.8  Score=52.60  Aligned_cols=153  Identities=18%  Similarity=0.235  Sum_probs=70.2

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHH
Q 013360           43 LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVA----QKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARA  118 (444)
Q Consensus        43 l~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk----~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i  118 (444)
                      ....+++++.++..++..+..++.=....+....    ..-.........+..+..++..++.+.... ...+..+++++
T Consensus       228 ~~~~~~~~~~~le~l~~~~~~l~~i~~~y~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~  306 (1353)
T TIGR02680       228 ALEQLDEYRDELERLEALERALRNFLQRYRRYARTMLRRRATRLRSAQTQYDQLSRDLGRARDELETA-REEERELDART  306 (1353)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHH
Confidence            4556667777777777777666544333222222    112222233344444444444444333332 34444555555


Q ss_pred             HHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          119 DELEKQIDNLKKESEKQQ--------KEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMR  190 (444)
Q Consensus       119 ~eLe~qIe~LkkelE~~~--------~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~k  190 (444)
                      ..++.+++.++.+++.++        .++..++.++.++.+........+...+....+...++++.+.+.......+..
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        233333333333333333333333333444444444444444444444444433


Q ss_pred             HHHHHh
Q 013360          191 AKFEAT  196 (444)
Q Consensus       191 ak~E~~  196 (444)
                      ...++.
T Consensus       387 ~~~el~  392 (1353)
T TIGR02680       387 AREQLA  392 (1353)
T ss_pred             HHHHHH
Confidence            333333

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.

>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=94.96  E-value=0.27  Score=45.48  Aligned_cols=57  Identities=26%  Similarity=0.428  Sum_probs=29.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHH---------HHHHHHHHHHHHHHHHHHHHHHHh
Q 013360           45 IELDQLKSKIRSLESHIDEKTQELKGKDEVVAQ---------KEKAIQDKSERIVSLQKELSSLQK  101 (444)
Q Consensus        45 ~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~---------~e~~I~e~e~~I~eLq~kI~sLqk  101 (444)
                      .++..++.+|.+|+.++.++.++++.+..+++.         +...|.+++.+|..++++|..+..
T Consensus        72 eel~~ld~ei~~L~~el~~l~~~~k~l~~eL~~L~~~~t~~el~~~i~~l~~e~~~l~~kL~~l~~  137 (169)
T PF07106_consen   72 EELAELDAEIKELREELAELKKEVKSLEAELASLSSEPTNEELREEIEELEEEIEELEEKLEKLRS  137 (169)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            445555555555555555555555555555444         444555555555555555555544

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 [].

>KOG1899 consensus LAR transmembrane tyrosine phosphatase-interacting protein liprin [General function prediction only]

Probab=94.96  E-value=1.2  Score=48.96  Aligned_cols=144  Identities=20%  Similarity=0.219  Sum_probs=82.0

Q ss_pred             CCCCchHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHH
Q 013360           38 VDSSPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHAR  117 (444)
Q Consensus        38 ~~~~~l~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~  117 (444)
                      +....++..|..|...-..|.=|.+-+..+++..-+.|.++|.-|+++..++...+.-+   |.+.-+            
T Consensus       104 ~~~~~yQerLaRLe~dkesL~LQvsvLteqVeaQgEKIrDLE~cie~kr~kLnatEEmL---Qqells------------  168 (861)
T KOG1899|consen  104 PEYPEYQERLARLEMDKESLQLQVSVLTEQVEAQGEKIRDLETCIEEKRNKLNATEEML---QQELLS------------  168 (861)
T ss_pred             CcchHHHHHHHHHhcchhhheehHHHHHHHHHHhhhhHHHHHHHHHHHHhhhchHHHHH---HHHHHh------------
Confidence            45566777777777777777778888888888888888888888888877776666544   333322            


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013360          118 ADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQK-INDEQKSKIRKTERALKVAEEEMMRAKFEAT  196 (444)
Q Consensus       118 i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~-~~eeqekqI~elE~~Lq~~Eeel~kak~E~~  196 (444)
                      ...|+.|.-+|=.++-.++-....+|.+..+.|++....+..+++++. +..+...+--+.+..+..+..++.-++++..
T Consensus       169 rtsLETqKlDLmaevSeLKLkltalEkeq~e~E~K~R~se~l~qevn~~kv~e~~~erlqye~klkstk~e~a~L~Eq~~  248 (861)
T KOG1899|consen  169 RTSLETQKLDLMAEVSELKLKLTALEKEQNETEKKLRLSENLMQEVNQSKVGEVVQERLQYETKLKSTKGEMAPLREQRS  248 (861)
T ss_pred             hhhHHHHHhHHHHHHHHhHHHHHHHHHHhhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhhcccccchhhhHHHHHh
Confidence            134444444444444444444444555555555544444444444432 2334444444444444444444444444433

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

Probab=94.93  E-value=2.9  Score=47.44  Aligned_cols=25  Identities=12%  Similarity=0.175  Sum_probs=12.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhh
Q 013360          174 IRKTERALKVAEEEMMRAKFEATSR  198 (444)
Q Consensus       174 I~elE~~Lq~~Eeel~kak~E~~~~  198 (444)
                      +.+...+++..+.++.+.+.+..++
T Consensus       801 l~e~~~~l~~~q~e~~~~keq~~t~  825 (970)
T KOG0946|consen  801 LSEESTRLQELQSELTQLKEQIQTL  825 (970)
T ss_pred             hhhhhhHHHHHHHHHHHHHHHHHHH
Confidence            4444444555555555555544444

>TIGR02977 phageshock_pspA phage shock protein A

Probab=94.89  E-value=3.9  Score=39.47  Aligned_cols=109  Identities=12%  Similarity=0.139  Sum_probs=57.6

Q ss_pred             HHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           50 LKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLK  129 (444)
Q Consensus        50 l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~eLe~qIe~Lk  129 (444)
                      ++.-|.+++..+.+....+...-..-+.++..+.+....+.+.+.+....-.++....-   ..+-.+....+.++..|+
T Consensus        29 l~q~irem~~~l~~ar~~lA~~~a~~k~~e~~~~~~~~~~~~~~~~A~~Al~~G~EdLA---r~Al~~k~~~~~~~~~l~  105 (219)
T TIGR02977        29 IRLIIQEMEDTLVEVRTTSARTIADKKELERRVSRLEAQVADWQEKAELALSKGREDLA---RAALIEKQKAQELAEALE  105 (219)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHH---HHHHHHHHHHHHHHHHHH
Confidence            45555555556666666666666666667777777777777777777655555543211   122223333344444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          130 KESEKQQKEKEALEARAIEAEKKISDLSAKLE  161 (444)
Q Consensus       130 kelE~~~~e~~~LEae~~elEkkleEle~kve  161 (444)
                      .+++.+......+...+.+++.++.+...+..
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.

>PF14915 CCDC144C: CCDC144C protein coiled-coil region

Probab=94.85  E-value=5.1  Score=40.63  Aligned_cols=50  Identities=18%  Similarity=0.303  Sum_probs=22.9

Q ss_pred             HHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           51 KSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQ  100 (444)
Q Consensus        51 ~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLq  100 (444)
                      +..-.-|-.+++..++.++++..++...-+.+.+++--+..++.++...|
T Consensus       143 kd~ne~LsQqLskaesK~nsLe~elh~trdaLrEKtL~lE~~QrdL~Qtq  192 (305)
T PF14915_consen  143 KDNNEILSQQLSKAESKFNSLEIELHHTRDALREKTLALESVQRDLSQTQ  192 (305)
T ss_pred             HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333344444444444444444444444555555544444444444444

>COG1842 PspA Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]

Probab=94.84  E-value=4.3  Score=39.72  Aligned_cols=48  Identities=23%  Similarity=0.326  Sum_probs=22.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           48 DQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKE   95 (444)
Q Consensus        48 ~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~k   95 (444)
                      ..|++-|...++.+.++.+.+...-..-+.++..+++....+..++++
T Consensus        27 ~~l~Q~ird~~~~l~~ar~~~A~~~a~~k~~e~~~~~~~~~~~k~e~~   74 (225)
T COG1842          27 KMLEQAIRDMESELAKARQALAQAIARQKQLERKLEEAQARAEKLEEK   74 (225)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444444444444444444444444444444443

>PF14362 DUF4407: Domain of unknown function (DUF4407)

Probab=94.84  E-value=1.5  Score=44.19  Aligned_cols=21  Identities=29%  Similarity=0.221  Sum_probs=14.1

Q ss_pred             hhhccCCChhHHHHHHhhhHh
Q 013360          204 EVHSAWLPPWLAVHLLQCQSL  224 (444)
Q Consensus       204 ~~~g~wl~Pw~~~~~~~~~~~  224 (444)
                      ..++.|++.|+..-+.-+=++
T Consensus       257 ~~~~~~~~~~~i~llfi~iel  277 (301)
T PF14362_consen  257 EDPSALLASLFIFLLFIAIEL  277 (301)
T ss_pred             CCCcHHHHHHHHHHHHHHHHH
Confidence            445778888888777655553

>PF09304 Cortex-I_coil: Cortexillin I, coiled coil; InterPro: IPR015383 This domain is predominantly found in the actin-bundling protein cortexillin I from Dictyostelium discoideum (Slime mold)

Probab=94.82  E-value=2.4  Score=36.71  Aligned_cols=31  Identities=26%  Similarity=0.329  Sum_probs=11.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          124 QIDNLKKESEKQQKEKEALEARAIEAEKKIS  154 (444)
Q Consensus       124 qIe~LkkelE~~~~e~~~LEae~~elEkkle  154 (444)
                      +.+.|+..+..+..+......+..+++.++.
T Consensus        38 qkd~L~~~l~~L~~q~~s~~qr~~eLqaki~   68 (107)
T PF09304_consen   38 QKDQLRNALQSLQAQNASRNQRIAELQAKID   68 (107)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333333333333333

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.

>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=94.76  E-value=8.9  Score=42.95  Aligned_cols=49  Identities=22%  Similarity=0.278  Sum_probs=19.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013360          148 EAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEAT  196 (444)
Q Consensus       148 elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak~E~~  196 (444)
                      .+.+++......++.|+.....+++++..-..++..++-.+++++.|..
T Consensus       598 ~LrKqvEnk~K~ieeLqqeNk~LKKk~~aE~kq~~~~eikVn~L~~E~e  646 (786)
T PF05483_consen  598 NLRKQVENKNKNIEELQQENKALKKKITAESKQSNVYEIKVNKLQEELE  646 (786)
T ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333444444444444444333344444444444444333

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

>KOG1937 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.70  E-value=7.2  Score=41.64  Aligned_cols=46  Identities=11%  Similarity=0.172  Sum_probs=29.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHhhhhhccCCChhH
Q 013360          169 EQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTEVHSAWLPPWL  214 (444)
Q Consensus       169 eqekqI~elE~~Lq~~Eeel~kak~E~~~~a~ei~~~~g~wl~Pw~  214 (444)
                      .+...|.++-..+.+.+..|-+...+..++++++...+|+.=.-..
T Consensus       386 ~ytqrikEi~gniRKq~~DI~Kil~etreLqkq~ns~se~L~Rsfa  431 (521)
T KOG1937|consen  386 VYTQRIKEIDGNIRKQEQDIVKILEETRELQKQENSESEALNRSFA  431 (521)
T ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHH
Confidence            4555666666677777777777777777777777555544433333

>PF06818 Fez1: Fez1; InterPro: IPR009638 This family represents the eukaryotic Fez1 protein

Probab=94.65  E-value=4.4  Score=38.97  Aligned_cols=49  Identities=18%  Similarity=0.375  Sum_probs=25.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           46 ELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQK   94 (444)
Q Consensus        46 eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~   94 (444)
                      +|+-|+..+...+.+++...++|-.+...+++....+..++..+..+.+
T Consensus        11 EIsLLKqQLke~q~E~~~K~~Eiv~Lr~ql~e~~~~l~~~~~~~~~l~~   59 (202)
T PF06818_consen   11 EISLLKQQLKESQAEVNQKDSEIVSLRAQLRELRAELRNKESQIQELQD   59 (202)
T ss_pred             hHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            4555555555555555555555555554444444444444444444444

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

>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=94.61  E-value=0.19  Score=46.46  Aligned_cols=63  Identities=25%  Similarity=0.404  Sum_probs=32.7

Q ss_pred             hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           68 LKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQ  136 (444)
Q Consensus        68 I~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~eLe~qIe~LkkelE~~~  136 (444)
                      +...+.+|.++..++.+....+..|.+++.+|.+..+.      .++...|..++.++..++..++.+.
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            34444445555556666666666666666666554443      2333444444444444444444443

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 [].

>PF06785 UPF0242: Uncharacterised protein family (UPF0242); InterPro: IPR009623 This is a group of proteins of unknown function

Probab=94.61  E-value=4.8  Score=41.44  Aligned_cols=121  Identities=17%  Similarity=0.205  Sum_probs=55.6

Q ss_pred             hhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHH
Q 013360           67 ELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELE-------KQIDNLKKESEKQQKEK  139 (444)
Q Consensus        67 eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~eLe-------~qIe~LkkelE~~~~e~  139 (444)
                      +|.++++.+.++-..+++...+-..|+..=+.|-+.+.-..+ -..+++.+...|+       ++-..++-.++++..+.
T Consensus        79 k~~e~~eglr~i~es~~e~q~e~~qL~~qnqkL~nqL~~~~~-vf~k~k~~~q~LE~li~~~~EEn~~lqlqL~~l~~e~  157 (401)
T PF06785_consen   79 KITEKDEGLRKIRESVEERQQESEQLQSQNQKLKNQLFHVRE-VFMKTKGDIQHLEGLIRHLREENQCLQLQLDALQQEC  157 (401)
T ss_pred             HHHhccHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH-HHHHhcchHHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Confidence            345556666666666666666666666555444333332211 1223333333333       33333333333333333


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHH
Q 013360          140 EALEARAIEAEKKISDLSAKLEKLQK-----------INDEQKSKIRKTERALKVAEEEM  188 (444)
Q Consensus       140 ~~LEae~~elEkkleEle~kveeLe~-----------~~eeqekqI~elE~~Lq~~Eeel  188 (444)
                      .+.+.+..++..++.|.-...+.|.+           .++..+..|.+++.+.+++.-|+
T Consensus       158 ~Ekeeesq~LnrELaE~layqq~L~~eyQatf~eq~~ml~kRQ~yI~~LEsKVqDLm~Ei  217 (401)
T PF06785_consen  158 GEKEEESQTLNRELAEALAYQQELNDEYQATFVEQHSMLDKRQAYIGKLESKVQDLMYEI  217 (401)
T ss_pred             hHhHHHHHHHHHHHHHHHHHHHHHHHHhhcccccchhhhHHHHHHHHHHHHHHHHHHHHH
Confidence            33333444443344443333333332           23355555666666666654443

>TIGR03319 YmdA_YtgF conserved hypothetical protein YmdA/YtgF

Probab=94.60  E-value=4.1  Score=44.55  Aligned_cols=20  Identities=35%  Similarity=0.415  Sum_probs=10.2

Q ss_pred             CcchHHHHHHHHHHHHHccc
Q 013360          234 KPAMDVAIQKALEKKAQAGK  253 (444)
Q Consensus       234 ~p~~~~~~~k~~~~~~~~~~  253 (444)
                      -|+-.+....+-++.-.-|.
T Consensus       253 dp~rreia~~~l~~li~dgr  272 (514)
T TIGR03319       253 DPVRREIARMALEKLIQDGR  272 (514)
T ss_pred             chHHHHHHHHHHHHHHHcCC
Confidence            35555555555555544444

>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=94.58  E-value=1.6  Score=42.81  Aligned_cols=53  Identities=13%  Similarity=0.202  Sum_probs=25.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          142 LEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFE  194 (444)
Q Consensus       142 LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak~E  194 (444)
                      ...++..+...++.++..+...+......+..+..+.+.+..+.++++++..+
T Consensus        51 h~eeLrqI~~DIn~lE~iIkqa~~er~~~~~~i~r~~eey~~Lk~~in~~R~e  103 (230)
T PF10146_consen   51 HVEELRQINQDINTLENIIKQAESERNKRQEKIQRLYEEYKPLKDEINELRKE  103 (230)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333334444444444444444445555555555555555555555

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.

>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]

Probab=94.57  E-value=2.4  Score=45.04  Aligned_cols=71  Identities=13%  Similarity=0.229  Sum_probs=37.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          108 AEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERAL  181 (444)
Q Consensus       108 ~~~i~~ae~~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~L  181 (444)
                      +....+.+.++.+..++...++.....+.++......++.+++...++.   +...+.++.+++.++..+---+
T Consensus       381 e~k~~q~q~k~~k~~kel~~~~E~n~~l~knq~vw~~kl~~~~e~~~~~---~~s~d~~I~dLqEQlrDlmf~l  451 (493)
T KOG0804|consen  381 ERKLQQLQTKLKKCQKELKEEREENKKLIKNQDVWRGKLKELEEREKEA---LGSKDEKITDLQEQLRDLMFFL  451 (493)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHhHheeh
Confidence            4555566666666666666666555555555555555544444443333   3333444444444444444333

>TIGR00998 8a0101 efflux pump membrane protein (multidrug resistance protein A)

Probab=94.54  E-value=5  Score=40.43  Aligned_cols=57  Identities=9%  Similarity=0.205  Sum_probs=29.7

Q ss_pred             CchHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           41 SPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELS   97 (444)
Q Consensus        41 ~~l~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~   97 (444)
                      ..+..++++.++.+..++.++..++..+.....++...+..++.....+...+.+++
T Consensus        76 ~~~~~~l~~a~a~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~a~~~l~~a~~~~~  132 (334)
T TIGR00998        76 TNAELALAKAEANLAALVRQTKQLEITVQQLQAKVESLKIKLEQAREKLLQAELDLR  132 (334)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHH
Confidence            344555666666666666666555555555444444444444444444444444443

>COG2433 Uncharacterized conserved protein [Function unknown]

Probab=94.53  E-value=0.92  Score=49.80  Aligned_cols=43  Identities=26%  Similarity=0.407  Sum_probs=22.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          111 VDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKI  153 (444)
Q Consensus       111 i~~ae~~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkl  153 (444)
                      +....+.+..|+.++..|+.+++.++..++.|++++..+..++
T Consensus       424 i~~~~~~ve~l~~e~~~L~~~~ee~k~eie~L~~~l~~~~r~~  466 (652)
T COG2433         424 IKKLEETVERLEEENSELKRELEELKREIEKLESELERFRREV  466 (652)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344445555555555555555555555555555555554433

>TIGR00634 recN DNA repair protein RecN

Probab=94.48  E-value=4.9  Score=44.21  Aligned_cols=44  Identities=5%  Similarity=0.018  Sum_probs=22.6

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHH
Q 013360           43 LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKS   86 (444)
Q Consensus        43 l~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e   86 (444)
                      +..+...+..++..+..++.++..+..+...++..++.++++.+
T Consensus       159 ~~~~~~~~~~~~~~~~~~L~~l~~~~~~~~~eld~L~~ql~ELe  202 (563)
T TIGR00634       159 KVKAYRELYQAWLKARQQLKDRQQKEQELAQRLDFLQFQLEELE  202 (563)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHH
Confidence            44555555555555555555555555555555555554444443

All proteins in this family for which functions are known are ATP binding proteins involved in the initiation of recombination and recombinational repair.

>PF13514 AAA_27: AAA domain

Probab=94.43  E-value=4.6  Score=48.00  Aligned_cols=38  Identities=26%  Similarity=0.398  Sum_probs=17.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          148 EAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAE  185 (444)
Q Consensus       148 elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~E  185 (444)
                      +++..+.++...++.++..+.++...+..++.++..++
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

>TIGR03017 EpsF chain length determinant protein EpsF

Probab=94.43  E-value=2.7  Score=44.30  Aligned_cols=24  Identities=8%  Similarity=0.375  Sum_probs=13.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHh
Q 013360           44 KIELDQLKSKIRSLESHIDEKTQE   67 (444)
Q Consensus        44 ~~eL~~l~~ki~~Lesqi~ele~e   67 (444)
                      ..++++++.++...+.+..+....
T Consensus       214 ~~~l~~l~~~l~~~~~~~~~~~~~  237 (444)
T TIGR03017       214 RARLNELSAQLVAAQAQVMDASSK  237 (444)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            356666666666666655554443

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.

>PF05335 DUF745: Protein of unknown function (DUF745); InterPro: IPR007999 This family consists of several uncharacterised Drosophila melanogaster proteins of unknown function

Probab=94.35  E-value=5  Score=38.26  Aligned_cols=113  Identities=16%  Similarity=0.266  Sum_probs=67.5

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           70 GKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEA  149 (444)
Q Consensus        70 ~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~eLe~qIe~LkkelE~~~~e~~~LEae~~el  149 (444)
                      ++..-+.+++.++.+.+.-|.+-...|.+.        +....-+..-......++..|+.-++.....+...+.-....
T Consensus        64 GKq~iveqLe~ev~EAe~vV~ee~~sL~~a--------q~na~aA~~aa~~A~~q~~~L~~~l~~a~~nl~~a~~~a~~A  135 (188)
T PF05335_consen   64 GKQQIVEQLEQEVREAEAVVQEEKASLQQA--------QANAQAAQRAAQQAQQQLETLKAALKAAQANLANAEQVAEGA  135 (188)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333334444444444444444433333333        233444555666677777777777777777777777777777


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          150 EKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMR  190 (444)
Q Consensus       150 EkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~k  190 (444)
                      ...+.+-...++..+..++.+..++.....+++.++..-.+
T Consensus       136 Q~el~eK~qLLeaAk~Rve~L~~QL~~Ar~D~~~tk~aA~k  176 (188)
T PF05335_consen  136 QQELAEKTQLLEAAKRRVEELQRQLQAARADYEKTKKAAYK  176 (188)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            77777777777777777777766666666666666544333

>KOG1937 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.28  E-value=7.2  Score=41.67  Aligned_cols=156  Identities=21%  Similarity=0.211  Sum_probs=71.1

Q ss_pred             ccCccCCCCchHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh---HHH
Q 013360           33 TASDAVDSSPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLN---AAE  109 (444)
Q Consensus        33 ~~~~~~~~~~l~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~---~~~  109 (444)
                      .+..+.++++-..+++++.......+    ++..+-+...-++++++..-.+...++.+++ .+.-+-.....+   -+.
T Consensus       219 ~p~~~~passe~ee~eel~eq~eene----el~ae~kqh~v~~~ales~~sq~~e~~selE-~llklkerl~e~l~dgea  293 (521)
T KOG1937|consen  219 KPIFAKPASSEEEEVEELTEQNEENE----ELQAEYKQHLVEYKALESKRSQFEEQNSELE-KLLKLKERLIEALDDGEA  293 (521)
T ss_pred             ccccCCCccccchhHHHHHhhhhhHH----HHHHHHHHHHHHHHHHHhhhHHHHHHHHHHH-HHHHhHHHHHHhcCChHh
Confidence            45566677777777777766666553    2333333334445555554444444444444 221111111111   123


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          110 QVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMM  189 (444)
Q Consensus       110 ~i~~ae~~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~  189 (444)
                      .+.+++..+..++.++..|.++.++...-+          ..+...+...++.++-+-.+ -..|++++..+...-+++.
T Consensus       294 yLaKL~~~l~~~~~~~~~ltqqwed~R~pl----------l~kkl~Lr~~l~~~e~e~~e-~~~IqeleqdL~a~~eei~  362 (521)
T KOG1937|consen  294 YLAKLMGKLAELNKQMEELTQQWEDTRQPL----------LQKKLQLREELKNLETEDEE-IRRIQELEQDLEAVDEEIE  362 (521)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhH----------HHHHHHHHHHHhcccchHHH-HHHHHHHHHHHHHHHHHHH
Confidence            344555555555555555555544443222          12222222222222211122 3556666666666666666


Q ss_pred             HHHHHHhhhhHHhhh
Q 013360          190 RAKFEATSRSKELTE  204 (444)
Q Consensus       190 kak~E~~~~a~ei~~  204 (444)
                      +.+.....+.+++..
T Consensus       363 ~~eel~~~Lrsele~  377 (521)
T KOG1937|consen  363 SNEELAEKLRSELEK  377 (521)
T ss_pred             hhHHHHHHHHHHHhc
Confidence            555555555444443

>PF05010 TACC: Transforming acidic coiled-coil-containing protein (TACC); InterPro: IPR007707 This family contains the proteins TACC 1, 2 and 3, found concentrated in the centrosomes of eukaryotes which may play a conserved role in organising centrosomal microtubules

Probab=94.27  E-value=5.5  Score=38.50  Aligned_cols=129  Identities=18%  Similarity=0.223  Sum_probs=65.4

Q ss_pred             HHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           50 LKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLK  129 (444)
Q Consensus        50 l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~eLe~qIe~Lk  129 (444)
                      ++.++...+.++.++...+..+.....+....|.+.+..|..+-.+                  .+.+-...+.++.++.
T Consensus        14 ~~~e~~~~E~e~~~l~~k~~e~~~~~~~m~~i~~e~Ek~i~~~i~e------------------~~~~~~~~~~~i~~~~   75 (207)
T PF05010_consen   14 VQEEVAEKEEEEQELKKKYEELHKENQEMRKIMEEYEKTIAQMIEE------------------KQKQKELSEAEIQKLL   75 (207)
T ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH------------------HHhhHHhHHHHHHHHH
Confidence            3444444444444444444444444444444444444444443332                  1112233345555555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013360          130 KESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEAT  196 (444)
Q Consensus       130 kelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak~E~~  196 (444)
                      .+.+....++..++.-..++-.+.......++.+...-+.+.+.+.++...+...+.....++..+.
T Consensus        76 ~erdq~~~dL~s~E~sfsdl~~ryek~K~vi~~~k~NEE~Lkk~~~ey~~~l~~~eqry~aLK~hAe  142 (207)
T PF05010_consen   76 KERDQAYADLNSLEKSFSDLHKRYEKQKEVIEGYKKNEETLKKCIEEYEERLKKEEQRYQALKAHAE  142 (207)
T ss_pred             hhHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5555555555555555555555555555555555555555555555555555555555555555444

The human TACC proteins have been linked to cancer and TACC2 has been identified as a possible tumour suppressor (AZU-1) [].

>KOG0979 consensus Structural maintenance of chromosome protein SMC5/Spr18, SMC superfamily [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=94.18  E-value=7.7  Score=45.11  Aligned_cols=39  Identities=31%  Similarity=0.495  Sum_probs=21.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHH
Q 013360           45 IELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQ   83 (444)
Q Consensus        45 ~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~   83 (444)
                      .+|-+++.+-.+|+.....-+..|+.+.+++..++..++
T Consensus       181 ~eL~~lr~~e~~Le~~~~~~~~~l~~L~~~~~~l~kdVE  219 (1072)
T KOG0979|consen  181 IELMDLREDEKSLEDKLTTKTEKLNRLEDEIDKLEKDVE  219 (1072)
T ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence            445555555555555555555555555555555554443

>PF05622 HOOK: HOOK protein; InterPro: IPR008636 This family consists of several HOOK1, 2 and 3 proteins from different eukaryotic organisms

Probab=94.16  E-value=0.014  Score=65.82  Aligned_cols=11  Identities=18%  Similarity=0.443  Sum_probs=0.0

Q ss_pred             hhhcchhHHhh
Q 013360          300 KTAVTPHIIRV  310 (444)
Q Consensus       300 r~~~~p~~~~~  310 (444)
                      +..+..|+..+
T Consensus       539 k~~le~~~~~l  549 (713)
T PF05622_consen  539 KQKLEEHLEKL  549 (713)
T ss_dssp             -----------
T ss_pred             HHHHHHHHHHH
Confidence            34444555544

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.

>KOG0243 consensus Kinesin-like protein [Cytoskeleton]

Probab=94.13  E-value=15  Score=43.08  Aligned_cols=16  Identities=19%  Similarity=0.335  Sum_probs=8.9

Q ss_pred             HHHHHHHHHHHHHHHH
Q 013360           44 KIELDQLKSKIRSLES   59 (444)
Q Consensus        44 ~~eL~~l~~ki~~Les   59 (444)
                      -.+|+.|+..|.+.+.
T Consensus       410 ~~EIerLK~dl~AaRe  425 (1041)
T KOG0243|consen  410 YEEIERLKRDLAAARE  425 (1041)
T ss_pred             HHHHHHHHHHHHHhHh
Confidence            3455556666655544

>PF13166 AAA_13: AAA domain

Probab=94.09  E-value=6.3  Score=44.14  Aligned_cols=31  Identities=29%  Similarity=0.398  Sum_probs=12.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          152 KISDLSAKLEKLQKINDEQKSKIRKTERALK  182 (444)
Q Consensus       152 kleEle~kveeLe~~~eeqekqI~elE~~Lq  182 (444)
                      .+..+...+..++..+...+..+.+++.++.
T Consensus       425 ~i~~~~~~~~~~~~~~~~~~~~i~~l~~~~~  455 (712)
T PF13166_consen  425 EINSLEKKLKKAKEEIKKIEKEIKELEAQLK  455 (712)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3333333333333444444444444444333

>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=94.01  E-value=2.9  Score=37.77  Aligned_cols=10  Identities=30%  Similarity=0.358  Sum_probs=3.7

Q ss_pred             HHHHHHHHHH
Q 013360          183 VAEEEMMRAK  192 (444)
Q Consensus       183 ~~Eeel~kak  192 (444)
                      .-+.++.+++
T Consensus       137 kke~E~~kLk  146 (151)
T PF11559_consen  137 KKEREIEKLK  146 (151)
T ss_pred             HHHHHHHHHH
Confidence            3333333333

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.

>TIGR03794 NHPM_micro_HlyD NHPM bacteriocin system secretion protein

Probab=94.01  E-value=9.4  Score=40.19  Aligned_cols=26  Identities=19%  Similarity=0.359  Sum_probs=17.3

Q ss_pred             CchHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           41 SPLKIELDQLKSKIRSLESHIDEKTQ   66 (444)
Q Consensus        41 ~~l~~eL~~l~~ki~~Lesqi~ele~   66 (444)
                      ..+..++..+++.+..++.++..++.
T Consensus        92 ~~~~~~~~~~~~~l~~~~~q~~~l~~  117 (421)
T TIGR03794        92 PELRERLQESYQKLTQLQEQLEEVRN  117 (421)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34556667777777777777766654

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.

>COG4477 EzrA Negative regulator of septation ring formation [Cell division and chromosome partitioning]

Probab=94.00  E-value=5.5  Score=43.38  Aligned_cols=21  Identities=24%  Similarity=0.555  Sum_probs=11.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHH
Q 013360          109 EQVDKAHARADELEKQIDNLK  129 (444)
Q Consensus       109 ~~i~~ae~~i~eLe~qIe~Lk  129 (444)
                      ..+..++....-|..+|+.++
T Consensus       316 ~~l~k~ke~n~~L~~Eie~V~  336 (570)
T COG4477         316 DYLEKAKENNEHLKEEIERVK  336 (570)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            445555555555666555554

>PRK10698 phage shock protein PspA; Provisional

Probab=93.92  E-value=6.7  Score=38.17  Aligned_cols=112  Identities=17%  Similarity=0.164  Sum_probs=62.8

Q ss_pred             HHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHH----HHHHHHHHHHHHHHHHH
Q 013360           50 LKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAA----EQVDKAHARADELEKQI  125 (444)
Q Consensus        50 l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~----~~i~~ae~~i~eLe~qI  125 (444)
                      ++.=|.+++..+.++.+.+...-..-+.++..+.+....+.+.+.+-...-.++....-    .+-..+..++..|+.++
T Consensus        29 l~q~i~em~~~l~~~r~alA~~~A~~k~~er~~~~~~~~~~~~e~kA~~Al~~G~EdLAr~AL~~K~~~~~~~~~l~~~~  108 (222)
T PRK10698         29 VRLMIQEMEDTLVEVRSTSARALAEKKQLTRRIEQAEAQQVEWQEKAELALRKEKEDLARAALIEKQKLTDLIATLEHEV  108 (222)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45555566666666666666666666667777777777777777766554444433211    12223444555555555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          126 DNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLE  161 (444)
Q Consensus       126 e~LkkelE~~~~e~~~LEae~~elEkkleEle~kve  161 (444)
                      +.....++.+..++..|+.++.+++.+...+..+..
T Consensus       109 ~~~~~~~~~L~~~l~~L~~ki~eak~k~~~L~aR~~  144 (222)
T PRK10698        109 TLVDETLARMKKEIGELENKLSETRARQQALMLRHQ  144 (222)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            555555555555555555555555555555444443

>COG1382 GimC Prefoldin, chaperonin cofactor [Posttranslational modification, protein turnover, chaperones]

Probab=93.91  E-value=2  Score=37.94  Aligned_cols=8  Identities=25%  Similarity=0.596  Sum_probs=2.8

Q ss_pred             HHHHHHHH
Q 013360          173 KIRKTERA  180 (444)
Q Consensus       173 qI~elE~~  180 (444)
                      ++..++++
T Consensus        85 ri~tLekQ   92 (119)
T COG1382          85 RIKTLEKQ   92 (119)
T ss_pred             HHHHHHHH
Confidence            33333333

>PRK03947 prefoldin subunit alpha; Reviewed

Probab=93.75  E-value=2.2  Score=38.08  Aligned_cols=31  Identities=23%  Similarity=0.474  Sum_probs=15.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhhhHHHH
Q 013360           45 IELDQLKSKIRSLESHIDEKTQELKGKDEVV   75 (444)
Q Consensus        45 ~eL~~l~~ki~~Lesqi~ele~eI~~k~~eI   75 (444)
                      .++.++...+++++.+++.+.+++..+...+
T Consensus         6 ~~l~~l~~~~~~l~~~~~~l~~~~~~l~~~~   36 (140)
T PRK03947          6 QELEELAAQLQALQAQIEALQQQLEELQASI   36 (140)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4455555555555555555544444433333

>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=93.75  E-value=7  Score=37.80  Aligned_cols=40  Identities=23%  Similarity=0.289  Sum_probs=15.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          116 ARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISD  155 (444)
Q Consensus       116 ~~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleE  155 (444)
                      .-..+|-..-++++..++.....-+.|.....+...++..
T Consensus        90 ~sfsdl~~ryek~K~vi~~~k~NEE~Lkk~~~ey~~~l~~  129 (207)
T PF05010_consen   90 KSFSDLHKRYEKQKEVIEGYKKNEETLKKCIEEYEERLKK  129 (207)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHH
Confidence            3333333444444444444444433333333333333333

The human TACC proteins have been linked to cancer and TACC2 has been identified as a possible tumour suppressor (AZU-1) [].

>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=93.74  E-value=4.1  Score=46.32  Aligned_cols=18  Identities=22%  Similarity=0.529  Sum_probs=7.0

Q ss_pred             HHHHHHHHHHHHHHHHHH
Q 013360          111 VDKAHARADELEKQIDNL  128 (444)
Q Consensus       111 i~~ae~~i~eLe~qIe~L  128 (444)
                      +..+.++=..|.++++.+
T Consensus       602 ~e~a~d~Qe~L~~R~~~v  619 (717)
T PF10168_consen  602 YEEAKDKQEKLMKRVDRV  619 (717)
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            333343433444433333

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 [].

>PRK00106 hypothetical protein; Provisional

Probab=93.71  E-value=8.2  Score=42.43  Aligned_cols=19  Identities=21%  Similarity=0.305  Sum_probs=8.8

Q ss_pred             cchHHHHHHHHHHHHHccc
Q 013360          235 PAMDVAIQKALEKKAQAGK  253 (444)
Q Consensus       235 p~~~~~~~k~~~~~~~~~~  253 (444)
                      |+-.+....+-++.-.-|.
T Consensus       275 pvRReiAr~~le~Li~dgr  293 (535)
T PRK00106        275 PIRREIARMTLESLIKDGR  293 (535)
T ss_pred             hHHHHHHHHHHHHHHHcCC
Confidence            4444444444444444444

>TIGR02971 heterocyst_DevB ABC exporter membrane fusion protein, DevB family

Probab=93.71  E-value=7.4  Score=39.24  Aligned_cols=27  Identities=15%  Similarity=0.263  Sum_probs=16.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 013360           44 KIELDQLKSKIRSLESHIDEKTQELKG   70 (444)
Q Consensus        44 ~~eL~~l~~ki~~Lesqi~ele~eI~~   70 (444)
                      ...+.+.++.+...+.++..+...++.
T Consensus        54 ~~~~~~a~a~l~~a~a~~~~~~~~~~~   80 (327)
T TIGR02971        54 TAELDVARTQLDEAKARLAQVRAGAKK   80 (327)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhccccH
Confidence            455666667776666666665554443

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.

>PRK03947 prefoldin subunit alpha; Reviewed

Probab=93.65  E-value=2.2  Score=38.13  Aligned_cols=39  Identities=5%  Similarity=0.222  Sum_probs=21.8

Q ss_pred             HHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHH
Q 013360           51 KSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERI   89 (444)
Q Consensus        51 ~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I   89 (444)
                      +.++.++..+.+.+.++++.+...+..++..+.+...-+
T Consensus         5 ~~~l~~l~~~~~~l~~~~~~l~~~~~~l~~~~~e~~~~~   43 (140)
T PRK03947          5 EQELEELAAQLQALQAQIEALQQQLEELQASINELDTAK   43 (140)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            445566666666666666665555555555555444444

>PF06008 Laminin_I: Laminin Domain I; InterPro: IPR009254 Laminins are glycoproteins that are major constituents of the basement membrane of cells

Probab=93.57  E-value=8.3  Score=38.12  Aligned_cols=51  Identities=18%  Similarity=0.231  Sum_probs=22.9

Q ss_pred             HHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           50 LKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQ  100 (444)
Q Consensus        50 l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLq  100 (444)
                      +..+..........+....+..-..-.++...|......|.++-.++..+.
T Consensus        64 L~~k~~~~~~~~~~l~~~t~~t~~~a~~L~~~i~~l~~~i~~l~~~~~~l~  114 (264)
T PF06008_consen   64 LQEKATKVSRKAQQLNNNTERTLQRAQDLEQFIQNLQDNIQELIEQVESLN  114 (264)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            333333333333333333333334444455555555555555555555443

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

>PHA03332 membrane glycoprotein; Provisional

Probab=93.56  E-value=2.5  Score=49.06  Aligned_cols=18  Identities=22%  Similarity=0.554  Sum_probs=9.1

Q ss_pred             HHHHHHHHHHHHHHHHHH
Q 013360          109 EQVDKAHARADELEKQID  126 (444)
Q Consensus       109 ~~i~~ae~~i~eLe~qIe  126 (444)
                      +++...+.||++|++++.
T Consensus       930 ~nI~avNgRIs~Led~VN  947 (1328)
T PHA03332        930 NNIRAVNGRVSDLEDQVN  947 (1328)
T ss_pred             hhHHHhcccHHHHHHHHH
Confidence            344445555555555544

>KOG0288 consensus WD40 repeat protein TipD [General function prediction only]

Probab=93.55  E-value=4.8  Score=42.52  Aligned_cols=31  Identities=26%  Similarity=0.379  Sum_probs=16.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          115 HARADELEKQIDNLKKESEKQQKEKEALEAR  145 (444)
Q Consensus       115 e~~i~eLe~qIe~LkkelE~~~~e~~~LEae  145 (444)
                      .+.+.+.|.++.+|+++...++++.-..++.
T Consensus        47 ~a~~~~~E~~l~~Lq~e~~~l~e~~v~~~a~   77 (459)
T KOG0288|consen   47 KAKLQEKELELNRLQEENTQLNEERVREEAT   77 (459)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3445555566666666666665555543333

>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=93.48  E-value=5.5  Score=41.64  Aligned_cols=120  Identities=15%  Similarity=0.251  Sum_probs=74.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           74 VVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKI  153 (444)
Q Consensus        74 eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkl  153 (444)
                      -+.+...-....+....+....|+.++..++    ..+++...+=..+|+|++.+-.+......++.+...+..++...+
T Consensus       221 hleqm~~~~~~I~~~~~~~~~~L~kl~~~i~----~~lekI~sREk~iN~qle~l~~eYr~~~~~ls~~~~~y~~~s~~V  296 (359)
T PF10498_consen  221 HLEQMKQHKKSIESALPETKSQLDKLQQDIS----KTLEKIESREKYINNQLEPLIQEYRSAQDELSEVQEKYKQASEGV  296 (359)
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhhHH
Confidence            3333444444444444444555544443333    334555666677777888887777777777777777777777777


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHhh
Q 013360          154 SDLSAKLEKLQKINDEQKSKIRKTERA------LKVAEEEMMRAKFEATS  197 (444)
Q Consensus       154 eEle~kveeLe~~~eeqekqI~elE~~------Lq~~Eeel~kak~E~~~  197 (444)
                      .+....+..+..+++..+.++++-...      +..++..+.+++.|...
T Consensus       297 ~~~t~~L~~IseeLe~vK~emeerg~~mtD~sPlv~IKqAl~kLk~EI~q  346 (359)
T PF10498_consen  297 SERTRELAEISEELEQVKQEMEERGSSMTDGSPLVKIKQALTKLKQEIKQ  346 (359)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHH
Confidence            777777777777777777777665443      33455555666655553

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.

>KOG4809 consensus Rab6 GTPase-interacting protein involved in endosome-to-TGN transport [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.45  E-value=4.3  Score=44.24  Aligned_cols=12  Identities=42%  Similarity=0.457  Sum_probs=6.3

Q ss_pred             chHhHHHhhccc
Q 013360          339 HVDNVRVALKPY  350 (444)
Q Consensus       339 ~~~~~~~~~~Py  350 (444)
                      |-|-.+++.+|-
T Consensus       578 ~~d~~~~~~~~~  589 (654)
T KOG4809|consen  578 HADMWRETHKPS  589 (654)
T ss_pred             CHHHHHHHhhhh
Confidence            444555555554

>PF13514 AAA_27: AAA domain

Probab=93.43  E-value=8.9  Score=45.67  Aligned_cols=39  Identities=26%  Similarity=0.342  Sum_probs=23.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHH
Q 013360           45 IELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQ   83 (444)
Q Consensus        45 ~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~   83 (444)
                      .++.....++..++.++..++.++......+..+-..+.
T Consensus       736 ~~l~~~~~~~~~~~~ri~~~~~~~~~f~~~~~~L~~~l~  774 (1111)
T PF13514_consen  736 EELREALAEIRELRRRIEQMEADLAAFEEQVAALAERLG  774 (1111)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence            344445566666666666666666666666665554443

>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=93.37  E-value=3.1  Score=37.22  Aligned_cols=45  Identities=2%  Similarity=0.235  Sum_probs=20.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHH
Q 013360           47 LDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVS   91 (444)
Q Consensus        47 L~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~e   91 (444)
                      ++..+++|++...+|..+++.+..-...+....+.+.+.+..+.+
T Consensus        10 y~~a~aeL~~a~~~I~~~q~r~a~a~~~~~~r~seldqA~~~~~e   54 (136)
T PF11570_consen   10 YEAARAELDQADEDIATLQERQASAEQALNGRRSELDQANKKVKE   54 (136)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence            334444444444444444444444444444444444444454444

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.

>TIGR01010 BexC_CtrB_KpsE polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family

Probab=93.35  E-value=6.8  Score=40.40  Aligned_cols=125  Identities=16%  Similarity=0.180  Sum_probs=63.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHH
Q 013360           72 DEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNA-AEQVDKAHARADELEKQIDNLKKESEKQQKE-------KEALE  143 (444)
Q Consensus        72 ~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~-~~~i~~ae~~i~eLe~qIe~LkkelE~~~~e-------~~~LE  143 (444)
                      .+.+.-++.++.+....+.+.+.++...+++...+. +.+.......+..|+.++..++.++..+...       ...+.
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            345556666777777777777777777766554432 1222334444555666665555555544321       22445


Q ss_pred             HHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013360          144 ARAIEAEKKISDLSAKLEKL-QKINDEQKSKIRKTERALKVAEEEMMRAKFEAT  196 (444)
Q Consensus       144 ae~~elEkkleEle~kveeL-e~~~eeqekqI~elE~~Lq~~Eeel~kak~E~~  196 (444)
                      ++...++.++.+...++..- .........+.++++.+.+..+..+..+-....
T Consensus       249 ~~i~~l~~~i~~e~~~i~~~~~~~l~~~~~~~~~L~re~~~a~~~y~~~l~r~~  302 (362)
T TIGR01010       249 ARIKSLRKQIDEQRNQLSGGLGDSLNEQTADYQRLVLQNELAQQQLKAALTSLQ  302 (362)
T ss_pred             HHHHHHHHHHHHHHHHhhcCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55555555555544443221 112233344555555555555544444433333

This family contains gamma proteobacterial proteins involved in capsule polysaccharide export.

>PF05266 DUF724: Protein of unknown function (DUF724); InterPro: IPR007930 This family contains several uncharacterised proteins found exclusively in Arabidopsis thaliana

Probab=93.31  E-value=5.6  Score=37.88  Aligned_cols=74  Identities=24%  Similarity=0.359  Sum_probs=43.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          120 ELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKF  193 (444)
Q Consensus       120 eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak~  193 (444)
                      .+-.....+++.++....+..+++....+++.++-+++.....+....++....|..++.....+++++..++.
T Consensus       107 ~~~e~~k~le~~~~~~~~~~~~~e~~i~~Le~ki~el~~~~~~~~~~ke~~~~ei~~lks~~~~l~~~~~~~e~  180 (190)
T PF05266_consen  107 KLLEERKKLEKKIEEKEAELKELESEIKELEMKILELQRQAAKLKEKKEAKDKEISRLKSEAEALKEEIENAEL  180 (190)
T ss_pred             HHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344444444444445555566666666666666666666666666666666666666666666666655543

>PRK10869 recombination and repair protein; Provisional

Probab=93.31  E-value=7.1  Score=43.01  Aligned_cols=63  Identities=14%  Similarity=0.129  Sum_probs=27.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHhhhhHHhh
Q 013360          141 ALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKT---ERALKVAEEEMMRAKFEATSRSKELT  203 (444)
Q Consensus       141 ~LEae~~elEkkleEle~kveeLe~~~eeqekqI~el---E~~Lq~~Eeel~kak~E~~~~a~ei~  203 (444)
                      ++++++..+..-...+...++++-.-.++.+.+++.+   +..++.++.++.++..+....+.+++
T Consensus       300 ~ie~Rl~~l~~L~rKyg~~~~~~~~~~~~l~~eL~~L~~~e~~l~~Le~e~~~l~~~l~~~A~~LS  365 (553)
T PRK10869        300 ELEQRLSKQISLARKHHVSPEELPQHHQQLLEEQQQLDDQEDDLETLALAVEKHHQQALETAQKLH  365 (553)
T ss_pred             HHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHhhCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444443333333333323344444444444444332   23455555555555555555554443

>KOG2991 consensus Splicing regulator [RNA processing and modification]

Probab=93.30  E-value=9.6  Score=38.01  Aligned_cols=49  Identities=22%  Similarity=0.211  Sum_probs=24.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013360          148 EAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEAT  196 (444)
Q Consensus       148 elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak~E~~  196 (444)
                      ++.+...++..-+++|...++..+..|--+.++++..+.+|.+++....
T Consensus       254 Elkssq~eL~dfm~eLdedVEgmqsTiliLQq~Lketr~~Iq~l~k~~~  302 (330)
T KOG2991|consen  254 ELKSSQEELYDFMEELDEDVEGMQSTILILQQKLKETRKEIQRLKKGLE  302 (330)
T ss_pred             HHHHhHHHHHHHHHHHHHHHhcchhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444444444555555555555555555555555555555554444

>PRK12704 phosphodiesterase; Provisional

Probab=93.25  E-value=7.1  Score=42.75  Aligned_cols=18  Identities=6%  Similarity=0.100  Sum_probs=7.1

Q ss_pred             HHHHHHHHHHHHHhcCCC
Q 013360          369 HHQVQASVQEMLKKHELT  386 (444)
Q Consensus       369 h~q~q~~~~~~~~~~e~~  386 (444)
                      |..+-..+..+--++.++
T Consensus       316 ~~~i~~ll~~l~~R~~~~  333 (520)
T PRK12704        316 HPELIKLLGRLKYRTSYG  333 (520)
T ss_pred             HHHHHHHHHHhhccCcCC
Confidence            344444444432233343

>PF15254 CCDC14: Coiled-coil domain-containing protein 14

Probab=93.25  E-value=15  Score=41.88  Aligned_cols=59  Identities=8%  Similarity=0.103  Sum_probs=33.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 013360          141 ALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRS  199 (444)
Q Consensus       141 ~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak~E~~~~a  199 (444)
                      ..+.+...+.-++++.-..+..++-++++-+++-.-|.-.+.+-..|+.|+.+=.+.++
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            33444455555566666666666666666666666666666666666666654444443

>PRK09343 prefoldin subunit beta; Provisional

Probab=93.15  E-value=2.9  Score=36.87  Aligned_cols=26  Identities=12%  Similarity=0.231  Sum_probs=11.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhh
Q 013360           45 IELDQLKSKIRSLESHIDEKTQELKG   70 (444)
Q Consensus        45 ~eL~~l~~ki~~Lesqi~ele~eI~~   70 (444)
                      .++.+.-.++..++.++..+..++..
T Consensus         7 ~~~q~~~~~~q~lq~~l~~~~~q~~~   32 (121)
T PRK09343          7 PEVQAQLAQLQQLQQQLERLLQQKSQ   32 (121)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444444444333

>PF05622 HOOK: HOOK protein; InterPro: IPR008636 This family consists of several HOOK1, 2 and 3 proteins from different eukaryotic organisms

Probab=93.10  E-value=0.026  Score=63.51  Aligned_cols=14  Identities=14%  Similarity=0.313  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHH
Q 013360          156 LSAKLEKLQKINDE  169 (444)
Q Consensus       156 le~kveeLe~~~ee  169 (444)
                      +...+.+++....+
T Consensus       368 ~k~qi~eLe~~l~~  381 (713)
T PF05622_consen  368 YKKQIQELEQKLSE  381 (713)
T ss_dssp             --------------
T ss_pred             HHHHHHHHHHHHHH
Confidence            33333333333333

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.

>KOG0999 consensus Microtubule-associated protein Bicaudal-D [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.01  E-value=17  Score=39.98  Aligned_cols=44  Identities=20%  Similarity=0.228  Sum_probs=22.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          120 ELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKL  163 (444)
Q Consensus       120 eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeL  163 (444)
                      ..+.+..+|+.++...+..-..+-++..++|.+--.+++.+..|
T Consensus       146 ~~E~qR~rlr~elKe~KfRE~RllseYSELEEENIsLQKqVs~L  189 (772)
T KOG0999|consen  146 AVEDQRRRLRDELKEYKFREARLLSEYSELEEENISLQKQVSNL  189 (772)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHH
Confidence            34445555566666555555555555555555444444444433

>PRK15178 Vi polysaccharide export inner membrane protein VexD; Provisional

Probab=93.00  E-value=13  Score=39.74  Aligned_cols=149  Identities=15%  Similarity=0.158  Sum_probs=96.1

Q ss_pred             HHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh-HHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           52 SKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLN-AAEQVDKAHARADELEKQIDNLKK  130 (444)
Q Consensus        52 ~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~-~~~~i~~ae~~i~eLe~qIe~Lkk  130 (444)
                      .=+..-|.-+++++..+..  +.+.-.+.++...+..+.+-+..+...+++...+ -+.+....-.-|+.|+.|+.+++.
T Consensus       223 aLL~~sE~~VN~Ls~rar~--D~v~~Ae~ev~~Ae~rl~~Ar~aL~~fRn~~gvlDP~~~a~~~~~lI~~Le~qLa~~~a  300 (434)
T PRK15178        223 RILSFAEQHVNTVSARMQK--ERILWLENDVKSAQENLGAARLELLKIQHIQKDIDPKETITAIYQLIAGFETQLAEAKA  300 (434)
T ss_pred             HHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcChHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3445556777777776544  7788888888888888888888888888776554 234444445556666666666666


Q ss_pred             HHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHH------HHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          131 ESEKQQK-------EKEALEARAIEAEKKISDLSAKLE------KLQKIN---DEQKSKIRKTERALKVAEEEMMRAKFE  194 (444)
Q Consensus       131 elE~~~~-------e~~~LEae~~elEkkleEle~kve------eLe~~~---eeqekqI~elE~~Lq~~Eeel~kak~E  194 (444)
                      ++..+..       ++..++.+...+++++.+...++.      .+....   +.+.-+.+=.++.+..+-..+..+..|
T Consensus       301 eL~~L~~~~~p~sPqV~~l~~rI~aLe~QIa~er~kl~~~~g~~~la~~laeYe~L~le~efAe~~y~sAlaaLE~AR~E  380 (434)
T PRK15178        301 EYAQLMVNGLDQNPLIPRLSAKIKVLEKQIGEQRNRLSNKLGSQGSSESLSLFEDLRLQSEIAKARWESALQTLQQGKLQ  380 (434)
T ss_pred             HHHHHHhhcCCCCCchhHHHHHHHHHHHHHHHHHHHhhcCCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6665543       344677777777777777666663      233333   444445555555566666666777777


Q ss_pred             HhhhhHHh
Q 013360          195 ATSRSKEL  202 (444)
Q Consensus       195 ~~~~a~ei  202 (444)
                      +.+...-+
T Consensus       381 A~RQ~~YL  388 (434)
T PRK15178        381 ALRERQYL  388 (434)
T ss_pred             HHhhhhhe
Confidence            77665544

>PRK04406 hypothetical protein; Provisional

Probab=92.94  E-value=0.88  Score=36.96  Aligned_cols=50  Identities=22%  Similarity=0.244  Sum_probs=38.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          140 EALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMM  189 (444)
Q Consensus       140 ~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~  189 (444)
                      ..+++++.+||.++.-.+..+++|++.+.++++.|+.+..++..+.+.+.
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            35677777888888888888888888888888888888877777755443

>COG1382 GimC Prefoldin, chaperonin cofactor [Posttranslational modification, protein turnover, chaperones]

Probab=92.91  E-value=3.3  Score=36.59  Aligned_cols=41  Identities=12%  Similarity=0.264  Sum_probs=21.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHH
Q 013360           46 ELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKS   86 (444)
Q Consensus        46 eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e   86 (444)
                      ++.+.=.++++|+.+++.+.-+....+.+|+++++.+++.+
T Consensus         7 ~~q~~l~q~QqLq~ql~~~~~qk~~le~qL~E~~~al~Ele   47 (119)
T COG1382           7 EVQAQLAQLQQLQQQLQKVILQKQQLEAQLKEIEKALEELE   47 (119)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            44444455556666666555555555555555554444443

>PF02994 Transposase_22: L1 transposable element; InterPro: IPR004244 Many human L1 elements are capable of retrotransposition

Probab=92.87  E-value=0.35  Score=50.49  Aligned_cols=21  Identities=10%  Similarity=0.047  Sum_probs=14.5

Q ss_pred             chhHHHHhhHHHHHHHHhhhh
Q 013360          282 EPHVQTLKTKTIEACEATKTA  302 (444)
Q Consensus       282 ~p~ve~~k~k~~p~~~~~r~~  302 (444)
                      -|-+..-+.+|.++...+|..
T Consensus       289 S~~~l~kRr~~~~i~~~Lr~~  309 (370)
T PF02994_consen  289 SPETLQKRRKFNPIKKKLREK  309 (370)
T ss_dssp             THHHHHHHHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHHHHHHHc
Confidence            556667777888877776644

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.

>TIGR02971 heterocyst_DevB ABC exporter membrane fusion protein, DevB family

Probab=92.81  E-value=8  Score=38.99  Aligned_cols=18  Identities=22%  Similarity=0.178  Sum_probs=7.4

Q ss_pred             HHHHHHHHHHHHHHHHHH
Q 013360          177 TERALKVAEEEMMRAKFE  194 (444)
Q Consensus       177 lE~~Lq~~Eeel~kak~E  194 (444)
                      .+.+++.++..+..++..
T Consensus       184 ~~~~~~~~~~~l~~a~~~  201 (327)
T TIGR02971       184 AQAEVKSALEAVQQAEAL  201 (327)
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            333444444444444333

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.

>COG3206 GumC Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]

Probab=92.79  E-value=11  Score=40.26  Aligned_cols=145  Identities=17%  Similarity=0.219  Sum_probs=63.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHH---HHHHHHHH-HHHHHHHHHHHHHhhhhhhHH------HHHHH
Q 013360           44 KIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKE---KAIQDKSE-RIVSLQKELSSLQKKETLNAA------EQVDK  113 (444)
Q Consensus        44 ~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e---~~I~e~e~-~I~eLq~kI~sLqkK~s~~~~------~~i~~  113 (444)
                      ..++..++..+...+......+..+......+....   ......+. .|++|.++..+++..+.....      -+.-.
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            445555555555555555555555544444443333   11122222 255555555544433333211      23333


Q ss_pred             HHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          114 AHARADELEKQIDNL-KKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAK  192 (444)
Q Consensus       114 ae~~i~eLe~qIe~L-kkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak  192 (444)
                      ++.++.+++.++... ...+.....+...++.+.+.+++++..++..+..+-    ..+.++.+++++.+..+..+..+-
T Consensus       318 ~~~q~~~~~~~~~~e~~~~~~~~~~~~~~l~~~~~~L~~~~~~l~~~~~~~~----~~~~~l~~L~Re~~~~r~~ye~lL  393 (458)
T COG3206         318 LEAQLAELRQQIAAELRQILASLPNELALLEQQEAALEKELAQLKGRLSKLP----KLQVQLRELEREAEAARSLYETLL  393 (458)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhchhHHHHHHHHHHHHHHHHHHHHHHHhhch----HhhhHHHHHHHHHHHHHHHHHHHH
Confidence            444444444443322 233333333344444444445444444444443332    445555566666555554444333

>PF02994 Transposase_22: L1 transposable element; InterPro: IPR004244 Many human L1 elements are capable of retrotransposition

Probab=92.70  E-value=0.38  Score=50.26  Aligned_cols=13  Identities=38%  Similarity=0.703  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHH
Q 013360           87 ERIVSLQKELSSL   99 (444)
Q Consensus        87 ~~I~eLq~kI~sL   99 (444)
                      ..+.++..+|+++
T Consensus       105 ~~~~elkkEie~I  117 (370)
T PF02994_consen  105 KRIKELKKEIENI  117 (370)
T ss_dssp             -------------
T ss_pred             HHHHHHHHHHHHH
Confidence            3333444444433

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.

>PF09787 Golgin_A5: Golgin subfamily A member 5; InterPro: IPR019177 This entry represents a family of proteins involved in maintaining Golgi structure

Probab=92.61  E-value=9.6  Score=41.54  Aligned_cols=33  Identities=21%  Similarity=0.310  Sum_probs=16.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          161 EKLQKINDEQKSKIRKTERALKVAEEEMMRAKF  193 (444)
Q Consensus       161 eeLe~~~eeqekqI~elE~~Lq~~Eeel~kak~  193 (444)
                      +.+..+.+.++..++.++.+|+.+..++...+.
T Consensus       277 ~~l~~E~~~~~ee~~~l~~Qi~~l~~e~~d~e~  309 (511)
T PF09787_consen  277 EELKQERDHLQEEIQLLERQIEQLRAELQDLEA  309 (511)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444444555555555555555444444444333

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 [].

>KOG2991 consensus Splicing regulator [RNA processing and modification]

Probab=92.58  E-value=12  Score=37.31  Aligned_cols=63  Identities=19%  Similarity=0.246  Sum_probs=31.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          125 IDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEE  187 (444)
Q Consensus       125 Ie~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eee  187 (444)
                      |..|.-++.-+++.-+++.+...++-+-+.++...++-++..+-=++.++.+.+.+|+.++..
T Consensus       238 ia~Le~eLAmQKs~seElkssq~eL~dfm~eLdedVEgmqsTiliLQq~Lketr~~Iq~l~k~  300 (330)
T KOG2991|consen  238 IAELEIELAMQKSQSEELKSSQEELYDFMEELDEDVEGMQSTILILQQKLKETRKEIQRLKKG  300 (330)
T ss_pred             HHHHHHHHHHHHhhHHHHHHhHHHHHHHHHHHHHHHhcchhhHHHHHHHHHHHHHHHHHHHHH
Confidence            444444444444444455555555555555555555555555555555555555444444433

>KOG1962 consensus B-cell receptor-associated protein and related proteins [Defense mechanisms]

Probab=92.55  E-value=1.5  Score=42.46  Aligned_cols=17  Identities=18%  Similarity=0.145  Sum_probs=7.2

Q ss_pred             HHHHHHHHHHhhhhHHh
Q 013360          186 EEMMRAKFEATSRSKEL  202 (444)
Q Consensus       186 eel~kak~E~~~~a~ei  202 (444)
                      .+..++-++...++.++
T Consensus       193 ~EydrLlee~~~Lq~~i  209 (216)
T KOG1962|consen  193 DEYDRLLEEYSKLQEQI  209 (216)
T ss_pred             cHHHHHHHHHHHHHHHH
Confidence            33444444444444444

>PF05557 MAD: Mitotic checkpoint protein; InterPro: IPR008672 This family consists of several eukaryotic mitotic checkpoint (Mitotic arrest deficient or MAD) proteins

Probab=92.44  E-value=0.2  Score=56.58  Aligned_cols=58  Identities=24%  Similarity=0.303  Sum_probs=0.0

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           43 LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQ  100 (444)
Q Consensus        43 l~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLq  100 (444)
                      +...|.+++.+...|..++..++.++..++..+..++..+.+....|.++...+..+.
T Consensus       341 l~~~l~~lq~~~~~L~ek~g~~~~~~~~l~~~~~~Le~e~~~l~~~~~~l~~~~~~~~  398 (722)
T PF05557_consen  341 LARALVQLQQENASLTEKLGSLQSELRELEEEIQELEQEKEQLLKEIEELEASLEALK  398 (722)
T ss_dssp             ----------------------------------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4455566666666666666666666666666666666555555555555555554443

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.

>TIGR02338 gimC_beta prefoldin, beta subunit, archaeal

Probab=92.36  E-value=4.1  Score=35.10  Aligned_cols=33  Identities=6%  Similarity=0.228  Sum_probs=14.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHH
Q 013360           47 LDQLKSKIRSLESHIDEKTQELKGKDEVVAQKE   79 (444)
Q Consensus        47 L~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e   79 (444)
                      +.++-.+++.++.++..+.+++..++.++.+.+
T Consensus         5 ~q~~~~~~q~~q~~~~~l~~q~~~le~~~~E~~   37 (110)
T TIGR02338         5 VQNQLAQLQQLQQQLQAVATQKQQVEAQLKEAE   37 (110)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444554444444444444333333333

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.

>KOG0239 consensus Kinesin (KAR3 subfamily) [Cytoskeleton]

Probab=92.34  E-value=11  Score=42.56  Aligned_cols=65  Identities=18%  Similarity=0.247  Sum_probs=28.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          124 QIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEM  188 (444)
Q Consensus       124 qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel  188 (444)
                      .+..+....+...+.+..+..++.+++....++...+..+.....+....+..+...+...+..+
T Consensus       228 ~~~~l~~~~~~~~~~i~~l~~~l~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~L~~~~~~l  292 (670)
T KOG0239|consen  228 NIKPLEGLESTIKKKIQALQQELEELKAELKELNDQVSLLTREVQEALKESNTLQSDLESLEENL  292 (670)
T ss_pred             hhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333344444444444444444444444444444444444444444444444333

>PRK02119 hypothetical protein; Provisional

Probab=92.28  E-value=0.99  Score=36.46  Aligned_cols=51  Identities=29%  Similarity=0.270  Sum_probs=38.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          140 EALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMR  190 (444)
Q Consensus       140 ~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~k  190 (444)
                      ..+++++.+||.++.-.+..+++|+..+.++++.|+.+..++..+.+.+..
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            456777778888888888888888888888888888888777776554433

>PF04102 SlyX: SlyX; InterPro: IPR007236 The SlyX protein has no known function

Probab=92.26  E-value=0.79  Score=36.47  Aligned_cols=51  Identities=27%  Similarity=0.400  Sum_probs=36.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          142 LEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAK  192 (444)
Q Consensus       142 LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak  192 (444)
                      +++++.++|.++.-.+..++.|+..+.+++.+|+.++..+..+...+..+.
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            466777777777788888888888888888888888888777776665544

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.

>TIGR02977 phageshock_pspA phage shock protein A

Probab=92.21  E-value=12  Score=36.23  Aligned_cols=15  Identities=20%  Similarity=0.191  Sum_probs=5.3

Q ss_pred             HHHHHHHHHHHHHHH
Q 013360          167 NDEQKSKIRKTERAL  181 (444)
Q Consensus       167 ~eeqekqI~elE~~L  181 (444)
                      ++.++.++..++.++
T Consensus       115 v~~l~~~l~~L~~ki  129 (219)
T TIGR02977       115 LAKLQEDIAKLQAKL  129 (219)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            333333333333333

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.

>PRK09343 prefoldin subunit beta; Provisional

Probab=92.20  E-value=6.3  Score=34.70  Aligned_cols=32  Identities=19%  Similarity=0.209  Sum_probs=12.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          155 DLSAKLEKLQKINDEQKSKIRKTERALKVAEE  186 (444)
Q Consensus       155 Ele~kveeLe~~~eeqekqI~elE~~Lq~~Ee  186 (444)
                      +++.+++.++..+..++++...++..+...+.
T Consensus        75 ~l~~r~E~ie~~ik~lekq~~~l~~~l~e~q~  106 (121)
T PRK09343         75 ELKERKELLELRSRTLEKQEKKLREKLKELQA  106 (121)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333333333333333

>PF12761 End3: Actin cytoskeleton-regulatory complex protein END3

Probab=92.03  E-value=1.2  Score=42.59  Aligned_cols=96  Identities=16%  Similarity=0.279  Sum_probs=54.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhh-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHH
Q 013360           46 ELDQLKSKIRSLESHIDEKTQELKGK-DEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQ  124 (444)
Q Consensus        46 eL~~l~~ki~~Lesqi~ele~eI~~k-~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~eLe~q  124 (444)
                      |.-.|+.+|+.|+.+++..+...... ...-........+.++.+.-.+.++..+.. +.......+....+.|...+.|
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            55557777777777777776666552 111111233345667777777777777653 2222234455566666666666


Q ss_pred             HHHHHHHHHHHHHHHHHH
Q 013360          125 IDNLKKESEKQQKEKEAL  142 (444)
Q Consensus       125 Ie~LkkelE~~~~e~~~L  142 (444)
                      |+.|+.=+...+.++..|
T Consensus       176 V~~Le~~L~~k~~eL~~L  193 (195)
T PF12761_consen  176 VDGLESHLSSKKQELQQL  193 (195)
T ss_pred             HHHHHHHHHHHHHHHHHh
Confidence            666666665555544443

>PF14073 Cep57_CLD: Centrosome localisation domain of Cep57

Probab=92.03  E-value=11  Score=35.60  Aligned_cols=140  Identities=24%  Similarity=0.336  Sum_probs=69.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHH
Q 013360           47 LDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSE----RIVSLQKELSSLQKKETLNAAEQVDKAHARADELE  122 (444)
Q Consensus        47 L~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~----~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~eLe  122 (444)
                      |..|+.||..|+-+....+..+..++.+...-......-..    ...++...-.        .-..++..|+.+..-|+
T Consensus         6 LK~LQeKIrrLELER~qAe~nl~~LS~et~~yk~vl~~~~~~~~~~~~e~~~q~~--------dl~~qL~aAEtRCslLE   77 (178)
T PF14073_consen    6 LKNLQEKIRRLELERSQAEDNLKQLSRETSHYKKVLQSEQNERERAHQELSKQNQ--------DLSSQLSAAETRCSLLE   77 (178)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHhHHHHHHHhhhhhcccchhhhccH--------HHHHHHHHHHHHHHHHH
Confidence            55677777777777777777777666665554433321111    1111111111        11245556666677777


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          123 KQIDNLKKESEKQQKEKEALEARAIEAEK--------------KISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEM  188 (444)
Q Consensus       123 ~qIe~LkkelE~~~~e~~~LEae~~elEk--------------kleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel  188 (444)
                      +|++-..+-+..-+.+....-.+...++.              +++-++.+...|.....-.+.+|..++.++..-+.+-
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            77666666655555444433333333322              2333444444444444455555666666555555443


Q ss_pred             HHHHHH
Q 013360          189 MRAKFE  194 (444)
Q Consensus       189 ~kak~E  194 (444)
                      .-.+..
T Consensus       158 KlvQdk  163 (178)
T PF14073_consen  158 KLVQDK  163 (178)
T ss_pred             HHHHHH
Confidence            333333

>KOG4438 consensus Centromere-associated protein NUF2 [Cell cycle control, cell division, chromosome partitioning]

Probab=91.99  E-value=19  Score=38.27  Aligned_cols=47  Identities=17%  Similarity=0.280  Sum_probs=28.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           48 DQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQK   94 (444)
Q Consensus        48 ~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~   94 (444)
                      .++++++.++..++...+..-..=.+++++++..|+++...+-.+-.
T Consensus       148 ~q~da~~qq~~~ele~~d~~~~~d~ee~kqlEe~ieeL~qsl~kd~~  194 (446)
T KOG4438|consen  148 KQLDAKYQQALKELERFDEDVEEDEEEVKQLEENIEELNQSLLKDFN  194 (446)
T ss_pred             HHHHHHHHHHHHHHHhhcccccccHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34555556666666666665555566677777777766665544433

>PF05557 MAD: Mitotic checkpoint protein; InterPro: IPR008672 This family consists of several eukaryotic mitotic checkpoint (Mitotic arrest deficient or MAD) proteins

Probab=91.98  E-value=0.045  Score=61.72  Aligned_cols=11  Identities=36%  Similarity=0.616  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHH
Q 013360           44 KIELDQLKSKI   54 (444)
Q Consensus        44 ~~eL~~l~~ki   54 (444)
                      +.+|..++.++
T Consensus        67 k~~l~~Le~e~   77 (722)
T PF05557_consen   67 KAQLNQLEYEL   77 (722)
T ss_dssp             -----------
T ss_pred             HHHHHHHHHHH
Confidence            33444444333

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.

>COG1842 PspA Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]

Probab=91.89  E-value=13  Score=36.28  Aligned_cols=48  Identities=15%  Similarity=0.154  Sum_probs=23.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          145 RAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAK  192 (444)
Q Consensus       145 e~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak  192 (444)
                      +...++..+..+...+..+....+.++..+..++.+|..++.....+.
T Consensus        93 ~~~~le~~~~~~~~~~~~~~~~~~~l~~~~~~Le~Ki~e~~~~~~~l~  140 (225)
T COG1842          93 EKQSLEDLAKALEAELQQAEEQVEKLKKQLAALEQKIAELRAKKEALK  140 (225)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444445555555555555555555555555555554444333

>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=91.84  E-value=26  Score=39.45  Aligned_cols=69  Identities=20%  Similarity=0.279  Sum_probs=38.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          111 VDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTER  179 (444)
Q Consensus       111 i~~ae~~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~  179 (444)
                      +.....++..+++.+..|+++++.....++.+..+-..+.+++.....++..++..+..++..++.+.+
T Consensus       582 ~~~k~kq~k~lenk~~~LrKqvEnk~K~ieeLqqeNk~LKKk~~aE~kq~~~~eikVn~L~~E~e~~kk  650 (786)
T PF05483_consen  582 ILKKEKQMKILENKCNNLRKQVENKNKNIEELQQENKALKKKITAESKQSNVYEIKVNKLQEELENLKK  650 (786)
T ss_pred             HhhhHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            334455566666666666666666666666666665555555555555555554444444444444433

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

>PRK00295 hypothetical protein; Provisional

Probab=91.82  E-value=1.4  Score=35.06  Aligned_cols=49  Identities=18%  Similarity=0.200  Sum_probs=37.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          142 LEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMR  190 (444)
Q Consensus       142 LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~k  190 (444)
                      +++++.++|.++.-.+..+++|++.+.++++.|+.+..++..+...+..
T Consensus         3 ~e~Ri~~LE~kla~qE~tie~Ln~~v~~Qq~~I~~L~~ql~~L~~rl~~   51 (68)
T PRK00295          3 LEERVTELESRQAFQDDTIQALNDVLVEQQRVIERLQLQMAALIKRQEE   51 (68)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4567778888888888888888888888888888888877777655444

>PRK02793 phi X174 lysis protein; Provisional

Probab=91.80  E-value=1.3  Score=35.66  Aligned_cols=50  Identities=22%  Similarity=0.307  Sum_probs=39.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          141 ALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMR  190 (444)
Q Consensus       141 ~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~k  190 (444)
                      .+++++.+||.++.-.+..+++|++.+.++++.|+.+..++..+.+.+..
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            46777888888888888888888888888888888888877777655444

>PRK00736 hypothetical protein; Provisional

Probab=91.73  E-value=1.3  Score=35.26  Aligned_cols=49  Identities=20%  Similarity=0.313  Sum_probs=38.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          142 LEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMR  190 (444)
Q Consensus       142 LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~k  190 (444)
                      +++++.+||.++.-.+..+++|++.+..+++.|+.+.+++..+.+.+..
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            4567778888888888888888888888888888888887777665543

>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=91.70  E-value=5.2  Score=33.79  Aligned_cols=58  Identities=16%  Similarity=0.231  Sum_probs=23.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           78 KEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQ  136 (444)
Q Consensus        78 ~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~eLe~qIe~LkkelE~~~  136 (444)
                      ....+..+-.++..+++++.-+..+.+. .+.++..+......+..++..|...+....
T Consensus        15 ~~~~~~~k~~~~~~lE~k~~rl~~Ek~k-adqkyfa~mr~~d~l~~e~k~L~~~~~Ks~   72 (96)
T PF08647_consen   15 LSEQADKKVKELTILEQKKLRLEAEKAK-ADQKYFAAMRSKDALDNEMKKLNTQLSKSS   72 (96)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHhHHHHHHHHHHHHHHHHHhH
Confidence            3333333334444444444433333322 123334444444444444444444444433

>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]

Probab=91.67  E-value=5  Score=39.20  Aligned_cols=73  Identities=25%  Similarity=0.299  Sum_probs=33.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          112 DKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVA  184 (444)
Q Consensus       112 ~~ae~~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~  184 (444)
                      ..+++++.++.++...|-++++.++.+.++.+.++..++.+...++.....+..+...++.+.++++..+.-.
T Consensus       138 ee~kekl~E~~~EkeeL~~eleele~e~ee~~erlk~le~E~s~LeE~~~~l~~ev~~L~~r~~ELe~~~El~  210 (290)
T COG4026         138 EELKEKLEELQKEKEELLKELEELEAEYEEVQERLKRLEVENSRLEEMLKKLPGEVYDLKKRWDELEPGVELP  210 (290)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchhHHHHHHHHHHHhcccccch
Confidence            3444444444444444444444444444444444444444444444444444444444444444444444333

>PRK10246 exonuclease subunit SbcC; Provisional

Probab=91.61  E-value=19  Score=42.68  Aligned_cols=29  Identities=17%  Similarity=0.266  Sum_probs=11.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          156 LSAKLEKLQKINDEQKSKIRKTERALKVA  184 (444)
Q Consensus       156 le~kveeLe~~~eeqekqI~elE~~Lq~~  184 (444)
                      +...+..++.........+..+...+...
T Consensus       827 l~~~~~~~~~~~~~~~~~~~~~~~~l~~~  855 (1047)
T PRK10246        827 IQQELAQLAQQLRENTTRQGEIRQQLKQD  855 (1047)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344444444444444444444433333

>PRK09841 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional

Probab=91.56  E-value=11  Score=42.86  Aligned_cols=46  Identities=11%  Similarity=0.247  Sum_probs=22.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          141 ALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMR  190 (444)
Q Consensus       141 ~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~k  190 (444)
                      .+..+.+.++.++++++.++..+-    +.+.++.+++++.+..+.....
T Consensus       343 ~l~~~~~~L~~~~~~l~~~~~~~p----~~e~~~~~L~R~~~~~~~lY~~  388 (726)
T PRK09841        343 ALLEKRQTLEQERKRLNKRVSAMP----STQQEVLRLSRDVEAGRAVYLQ  388 (726)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhcc----HHHHHHHHHHHHHHHHHHHHHH
Confidence            444444455555444444443332    4455555566666555544433

>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=91.55  E-value=2.5  Score=34.16  Aligned_cols=20  Identities=5%  Similarity=0.258  Sum_probs=9.9

Q ss_pred             HHHHHHHHHHHHHHHhhhhh
Q 013360           86 SERIVSLQKELSSLQKKETL  105 (444)
Q Consensus        86 e~~I~eLq~kI~sLqkK~s~  105 (444)
                      ...|.+....|+.|..++..
T Consensus         4 ~~~l~EKDe~Ia~L~eEGek   23 (74)
T PF12329_consen    4 EKKLAEKDEQIAQLMEEGEK   23 (74)
T ss_pred             HHHHHhHHHHHHHHHHHHHH
Confidence            34455555555555544443

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.

>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]

Probab=91.54  E-value=2.3  Score=41.44  Aligned_cols=78  Identities=21%  Similarity=0.305  Sum_probs=47.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          110 QVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEE  187 (444)
Q Consensus       110 ~i~~ae~~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eee  187 (444)
                      ...+.+....++....++++++.+.+-.++.+++++.+++..+++.++.....|+.+...+......++.++..++..
T Consensus       129 ~~~d~ke~~ee~kekl~E~~~EkeeL~~eleele~e~ee~~erlk~le~E~s~LeE~~~~l~~ev~~L~~r~~ELe~~  206 (290)
T COG4026         129 EYMDLKEDYEELKEKLEELQKEKEELLKELEELEAEYEEVQERLKRLEVENSRLEEMLKKLPGEVYDLKKRWDELEPG  206 (290)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchhHHHHHHHHHHHhccc
Confidence            344566666666666666666666666666666666666666666666665555555555555555555555555544

>TIGR02338 gimC_beta prefoldin, beta subunit, archaeal

Probab=91.51  E-value=4  Score=35.14  Aligned_cols=32  Identities=13%  Similarity=0.200  Sum_probs=12.8

Q ss_pred             HHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHH
Q 013360           56 SLESHIDEKTQELKGKDEVVAQKEKAIQDKSE   87 (444)
Q Consensus        56 ~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~   87 (444)
                      .+-.+.+.+.+++......+..++..+.+.+.
T Consensus         7 ~~~~~~q~~q~~~~~l~~q~~~le~~~~E~~~   38 (110)
T TIGR02338         7 NQLAQLQQLQQQLQAVATQKQQVEAQLKEAEK   38 (110)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33334444444444444444444333333333

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.

>PF09403 FadA: Adhesion protein FadA; InterPro: IPR018543 FadA (Fusobacterium adhesin A) is an adhesin which forms two alpha helices

Probab=91.47  E-value=9.7  Score=34.02  Aligned_cols=27  Identities=26%  Similarity=0.412  Sum_probs=17.0

Q ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013360           42 PLKIELDQLKSKIRSLESHIDEKTQEL   68 (444)
Q Consensus        42 ~l~~eL~~l~~ki~~Lesqi~ele~eI   68 (444)
                      ....++++|.++++.|..+=++.-.+.
T Consensus        24 ~v~~~l~~LEae~q~L~~kE~~r~~~~   50 (126)
T PF09403_consen   24 SVESELNQLEAEYQQLEQKEEARYNEE   50 (126)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345677777777777766655544443

; PDB: 3ETZ_B 3ETY_A 2GL2_B 3ETX_C 3ETW_A.

>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=91.46  E-value=18  Score=36.95  Aligned_cols=152  Identities=16%  Similarity=0.203  Sum_probs=86.1

Q ss_pred             CchHHHHHHHHHHHHHHHHHHH----HHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-------hhhhhH--
Q 013360           41 SPLKIELDQLKSKIRSLESHID----EKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQK-------KETLNA--  107 (444)
Q Consensus        41 ~~l~~eL~~l~~ki~~Lesqi~----ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqk-------K~s~~~--  107 (444)
                      ..+..+-..++.++..+-.+-.    -....++.++.++.-.+..+.+....+..-..+...+..       ......  
T Consensus       131 ~k~~~eN~~L~eKlK~l~eQye~rE~~~~~~~k~keLE~Ql~~AKl~q~~~~~~~e~~k~~~~~~~~l~~~~~~~~~~~~  210 (309)
T PF09728_consen  131 IKLREENEELREKLKSLIEQYELREEHFEKLLKQKELEVQLAEAKLEQQQEEAEQEKEKAKQEKEILLEEAAQVQTLKET  210 (309)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3355666666777666655444    333344445555544444444444433333333332222       111110  


Q ss_pred             -----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          108 -----------AEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRK  176 (444)
Q Consensus       108 -----------~~~i~~ae~~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~e  176 (444)
                                 .......+..+..-|.-....+++++.+.+.+..+|.+...+..+.+..+..+-++-.........+..
T Consensus       211 E~~Lr~QL~~Y~~Kf~efq~tL~kSNe~F~tfk~Emekm~Kk~kklEKE~~~~k~k~e~~n~~l~~m~eer~~~~~~~~~  290 (309)
T PF09728_consen  211 EKELREQLNLYSEKFEEFQDTLNKSNEVFETFKKEMEKMSKKIKKLEKENQTWKSKWEKSNKALIEMAEERQKLEKELEK  290 (309)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence                       134444555555666666666777777777777777777777777777777777777777777777777


Q ss_pred             HHHHHHHHHHHHHHHH
Q 013360          177 TERALKVAEEEMMRAK  192 (444)
Q Consensus       177 lE~~Lq~~Eeel~kak  192 (444)
                      +..+++.++.-...++
T Consensus       291 ~~~k~~kLe~LcRaLQ  306 (309)
T PF09728_consen  291 LKKKIEKLEKLCRALQ  306 (309)
T ss_pred             HHHHHHHHHHHHHHHh
Confidence            7777666665444443

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 [].

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

Probab=91.41  E-value=7  Score=44.45  Aligned_cols=42  Identities=21%  Similarity=0.221  Sum_probs=15.8

Q ss_pred             HHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013360           62 DEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKE  103 (444)
Q Consensus        62 ~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~  103 (444)
                      .+++..++-+..++++--..+.+..+.+..++..-+.|..++
T Consensus       561 ~ei~~rv~~Lk~~~e~Ql~~L~~l~e~~~~l~~~ae~LaeR~  602 (717)
T PF10168_consen  561 EEIQRRVKLLKQQKEQQLKELQELQEERKSLRESAEKLAERY  602 (717)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333333333333333333333333333333

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 [].

>PF15450 DUF4631: Domain of unknown function (DUF4631)

Probab=91.35  E-value=25  Score=38.34  Aligned_cols=43  Identities=21%  Similarity=0.223  Sum_probs=19.6

Q ss_pred             HHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           90 VSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESE  133 (444)
Q Consensus        90 ~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~eLe~qIe~LkkelE  133 (444)
                      ++..+.++.++ +.+.+.+..+......+.+|...+..|...+.
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            34455555554 33333344444444455555555444444333

>cd00632 Prefoldin_beta Prefoldin beta; Prefoldin is a hexameric molecular chaperone complex, composed of two evolutionarily related subunits (alpha and beta), which are found in both eukaryotes and archaea

Probab=91.31  E-value=7.3  Score=33.18  Aligned_cols=14  Identities=14%  Similarity=0.271  Sum_probs=5.1

Q ss_pred             HHHHHHHHHHHHHH
Q 013360           48 DQLKSKIRSLESHI   61 (444)
Q Consensus        48 ~~l~~ki~~Lesqi   61 (444)
                      ..++.++..+..++
T Consensus         9 q~l~~~~~~l~~~~   22 (105)
T cd00632           9 QQLQQQLQAYIVQR   22 (105)
T ss_pred             HHHHHHHHHHHHHH
Confidence            33333333333333

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

>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=91.27  E-value=7.3  Score=32.02  Aligned_cols=75  Identities=24%  Similarity=0.327  Sum_probs=46.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013360          121 LEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSR  198 (444)
Q Consensus       121 Le~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak~E~~~~  198 (444)
                      +++-++.++.+.+.+..+.........+.+.++..--+.++.+...+-+++..-..++.   .+|++|.+++.++..+
T Consensus         2 l~elLd~ir~Ef~~~~~e~~~~k~~~~e~e~ki~~Qi~Em~~ir~~v~eLE~~h~kmK~---~YEeEI~rLr~eLe~r   76 (79)
T PF08581_consen    2 LNELLDAIRQEFENLSQEANSYKHQKDEYEHKINSQIQEMQQIRQKVYELEQAHRKMKQ---QYEEEIARLRRELEQR   76 (79)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHCHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHhh
Confidence            34455566666666666666666666666666666666666666666666655555554   3577888887776643

; PDB: 3VP9_B 3VP8_B.

>cd00632 Prefoldin_beta Prefoldin beta; Prefoldin is a hexameric molecular chaperone complex, composed of two evolutionarily related subunits (alpha and beta), which are found in both eukaryotes and archaea

Probab=91.27  E-value=3.6  Score=35.07  Aligned_cols=35  Identities=9%  Similarity=0.263  Sum_probs=18.5

Q ss_pred             HHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHH
Q 013360           50 LKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQD   84 (444)
Q Consensus        50 l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e   84 (444)
                      +-.+++.++.++..+.+++..++.++.+.+..+.+
T Consensus         4 ~~~~~q~l~~~~~~l~~~~~~l~~~~~E~~~v~~E   38 (105)
T cd00632           4 QLAQLQQLQQQLQAYIVQRQKVEAQLNENKKALEE   38 (105)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34555666666666666555544444444444333

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

>PF10805 DUF2730: Protein of unknown function (DUF2730); InterPro: IPR020269 This entry represents a family of various hypothetical proteins

Probab=91.24  E-value=1.8  Score=37.32  Aligned_cols=59  Identities=8%  Similarity=0.225  Sum_probs=49.7

Q ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHhhhhh--HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           42 PLKIELDQLKSKIRSLESHIDEKTQELKGK--DEVVAQKEKAIQDKSERIVSLQKELSSLQ  100 (444)
Q Consensus        42 ~l~~eL~~l~~ki~~Lesqi~ele~eI~~k--~~eIk~~e~~I~e~e~~I~eLq~kI~sLq  100 (444)
                      +.+.+++.+...+...+..++.++++++..  .+++..++..|.+.+..+..+..+|+.+.
T Consensus        32 a~~~~~~~l~~~~~~~~~Rl~~lE~~l~~LPt~~dv~~L~l~l~el~G~~~~l~~~l~~v~   92 (106)
T PF10805_consen   32 AKREDIEKLEERLDEHDRRLQALETKLEHLPTRDDVHDLQLELAELRGELKELSARLQGVS   92 (106)
T ss_pred             ccHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            345778888888888899999999999888  88888888888888888888888888775

The proteins, which include HI1498 and Gp25, from phage Mu, are currently uncharacterised.

>PRK04325 hypothetical protein; Provisional

Probab=91.22  E-value=1.6  Score=35.38  Aligned_cols=50  Identities=16%  Similarity=0.210  Sum_probs=36.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          141 ALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMR  190 (444)
Q Consensus       141 ~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~k  190 (444)
                      .+++++.+||.++.-.+..+++|++.+.+++++|+.+..++..+-+.+..
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            35566777777788888888888888888888888888777766554433

>PRK09841 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional

Probab=91.06  E-value=7.7  Score=44.06  Aligned_cols=28  Identities=11%  Similarity=0.181  Sum_probs=11.0

Q ss_pred             HhhhhhHHHHHHHHHHHHHHHHHHHHHH
Q 013360           66 QELKGKDEVVAQKEKAIQDKSERIVSLQ   93 (444)
Q Consensus        66 ~eI~~k~~eIk~~e~~I~e~e~~I~eLq   93 (444)
                      +-++-+++++.++..++.+.+..++++.
T Consensus       267 ~a~~fL~~qL~~l~~~L~~aE~~l~~fr  294 (726)
T PRK09841        267 QSLEFLQRQLPEVRSELDQAEEKLNVYR  294 (726)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333334444444444443333

>PF05384 DegS: Sensor protein DegS; InterPro: IPR008595 This is a group of Bacillus DegS proteins

Probab=91.04  E-value=13  Score=34.51  Aligned_cols=139  Identities=14%  Similarity=0.203  Sum_probs=63.8

Q ss_pred             HHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh-------hHHHHHHHHHHHHHHHHHH
Q 013360           52 SKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETL-------NAAEQVDKAHARADELEKQ  124 (444)
Q Consensus        52 ~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~-------~~~~~i~~ae~~i~eLe~q  124 (444)
                      .-|..+++.+.++-.=.++-..+...+...+.+...+|...-.+++.|+..-..       ++..=-...++.|.++=.+
T Consensus         6 ~ti~~ie~sK~qIf~I~E~~R~E~~~l~~EL~evk~~v~~~I~evD~Le~~er~aR~rL~eVS~~f~~ysE~dik~AYe~   85 (159)
T PF05384_consen    6 KTIDTIESSKEQIFEIAEQARQEYERLRKELEEVKEEVSEVIEEVDKLEKRERQARQRLAEVSRNFDRYSEEDIKEAYEE   85 (159)
T ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccCHHHHHHHHHH
Confidence            334444444443333333333444444444444444444444444444322221       1111111234455555555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          125 IDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMR  190 (444)
Q Consensus       125 Ie~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~k  190 (444)
                      ...++-++-.+.++-..|..+..++|..+..+..-++..+.-......-++=+...+......+..
T Consensus        86 A~~lQ~~L~~~re~E~qLr~rRD~LErrl~~l~~tierAE~l~sqi~vvl~yL~~dl~~v~~~~e~  151 (159)
T PF05384_consen   86 AHELQVRLAMLREREKQLRERRDELERRLRNLEETIERAENLVSQIGVVLNYLSGDLQQVSEQIED  151 (159)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            555555555555555555555555555555555555555555555555555555555444444333

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

>PF15294 Leu_zip: Leucine zipper

Probab=91.02  E-value=8.8  Score=38.72  Aligned_cols=48  Identities=15%  Similarity=0.250  Sum_probs=31.1

Q ss_pred             CCchHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHH
Q 013360           40 SSPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSE   87 (444)
Q Consensus        40 ~~~l~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~   87 (444)
                      ...+..+|+.++.+-..|.+.+..++..-...-++-..++..+.++..
T Consensus       127 ~~ll~kEi~rLq~EN~kLk~rl~~le~~at~~l~Ek~kl~~~L~~lq~  174 (278)
T PF15294_consen  127 SELLNKEIDRLQEENEKLKERLKSLEKQATSALDEKSKLEAQLKELQD  174 (278)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344778888888888888887777777766655555555544444433

>PF15397 DUF4618: Domain of unknown function (DUF4618)

Probab=91.00  E-value=18  Score=36.12  Aligned_cols=41  Identities=15%  Similarity=0.119  Sum_probs=29.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013360          158 AKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSR  198 (444)
Q Consensus       158 ~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak~E~~~~  198 (444)
                      ..-..+.+.+......|++++..|..++.++..+..+....
T Consensus       186 ~~N~~m~kei~~~re~i~el~e~I~~L~~eV~~L~~~~~~~  226 (258)
T PF15397_consen  186 LENQVMQKEIVQFREEIDELEEEIPQLRAEVEQLQAQAQDP  226 (258)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcch
Confidence            34456677777777778888888888877777777766633

>PF14915 CCDC144C: CCDC144C protein coiled-coil region

Probab=90.95  E-value=20  Score=36.49  Aligned_cols=104  Identities=15%  Similarity=0.227  Sum_probs=43.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHH
Q 013360           45 IELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQ  124 (444)
Q Consensus        45 ~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~eLe~q  124 (444)
                      .+|+....+.+.|+.+.......+.+++--+......+.+...++.++..-...-+.+.+.. ..+-..+++++..++.+
T Consensus       151 QqLskaesK~nsLe~elh~trdaLrEKtL~lE~~QrdL~Qtq~q~KE~e~m~qne~~kv~k~-~~Kqes~eERL~QlqsE  229 (305)
T PF14915_consen  151 QQLSKAESKFNSLEIELHHTRDALREKTLALESVQRDLSQTQCQIKEIEHMYQNEQDKVNKY-IGKQESLEERLSQLQSE  229 (305)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHH-HHHHHHHHHHHHHHHHH
Confidence            33333444444444444444444444444444444444444444444444433333333221 12223344455555555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          125 IDNLKKESEKQQKEKEALEARAIEA  149 (444)
Q Consensus       125 Ie~LkkelE~~~~e~~~LEae~~el  149 (444)
                      ---|..++++........+.-...+
T Consensus       230 N~LLrQQLddA~~K~~~kek~Vini  254 (305)
T PF14915_consen  230 NMLLRQQLDDAHNKADNKEKTVINI  254 (305)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhH
Confidence            5555555555444444333333333

>TIGR02231 conserved hypothetical protein

Probab=90.78  E-value=3.9  Score=44.46  Aligned_cols=22  Identities=23%  Similarity=0.409  Sum_probs=12.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q 013360           79 EKAIQDKSERIVSLQKELSSLQ  100 (444)
Q Consensus        79 e~~I~e~e~~I~eLq~kI~sLq  100 (444)
                      ...+.+++++|..++.+++.++
T Consensus        70 ~~~~~~l~~~l~~l~~~~~~~~   91 (525)
T TIGR02231        70 PERLAELRKQIRELEAELRDLE   91 (525)
T ss_pred             cHHHHHHHHHHHHHHHHHHHHH
Confidence            3455555555555555555554

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.

>COG1730 GIM5 Predicted prefoldin, molecular chaperone implicated in de novo protein folding [Posttranslational modification, protein turnover, chaperones]

Probab=90.76  E-value=13  Score=34.02  Aligned_cols=41  Identities=17%  Similarity=0.272  Sum_probs=17.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          153 ISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKF  193 (444)
Q Consensus       153 leEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak~  193 (444)
                      ++.+.+++++|.+.+..++..|+++.+.+..++.++..+..
T Consensus        96 ie~l~k~~~~l~~~~~~l~~~l~~l~~~~~~l~~~~q~~~q  136 (145)
T COG1730          96 IEFLKKRIEELEKAIEKLQQALAELAQRIEQLEQEAQQLQQ  136 (145)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33334444444444444444444444444444444444333

>PRK00846 hypothetical protein; Provisional

Probab=90.75  E-value=2.6  Score=34.53  Aligned_cols=53  Identities=21%  Similarity=0.288  Sum_probs=39.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          140 EALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAK  192 (444)
Q Consensus       140 ~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak  192 (444)
                      ..+++++.++|.++.-.+..++.|++.+..++..|+.+..+++.+-+.+...+
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            35667777777888888888888888888888888888887777766555544

>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=90.60  E-value=13  Score=33.67  Aligned_cols=23  Identities=26%  Similarity=0.404  Sum_probs=11.6

Q ss_pred             HHHHHHHHHHHHHHHHHhhhhhH
Q 013360           50 LKSKIRSLESHIDEKTQELKGKD   72 (444)
Q Consensus        50 l~~ki~~Lesqi~ele~eI~~k~   72 (444)
                      ++..++.+...+.++...|....
T Consensus         3 l~~~~~~l~~~~~~l~~~l~~~~   25 (202)
T PF01442_consen    3 LDDRLDSLSSRTEELEERLEELS   25 (202)
T ss_dssp             HHHHHHHHHHHHHHHHHCHCSCC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            34445555555555555554433

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 ....

>PF05335 DUF745: Protein of unknown function (DUF745); InterPro: IPR007999 This family consists of several uncharacterised Drosophila melanogaster proteins of unknown function

Probab=90.58  E-value=16  Score=34.80  Aligned_cols=114  Identities=14%  Similarity=0.240  Sum_probs=66.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           72 DEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEK  151 (444)
Q Consensus        72 ~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEk  151 (444)
                      +.-|..+...+++++.++.+.+.-+...        ...+..++..+.-...-....+..++.+..-+......+...+.
T Consensus        59 eAaL~GKq~iveqLe~ev~EAe~vV~ee--------~~sL~~aq~na~aA~~aa~~A~~q~~~L~~~l~~a~~nl~~a~~  130 (188)
T PF05335_consen   59 EAALAGKQQIVEQLEQEVREAEAVVQEE--------KASLQQAQANAQAAQRAAQQAQQQLETLKAALKAAQANLANAEQ  130 (188)
T ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3445555555555555555555544433        23345556666666666666666666666666666666666666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          152 KISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKF  193 (444)
Q Consensus       152 kleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak~  193 (444)
                      -.......+.+-...++.-+.+++.|.+.+.....++.+.+.
T Consensus       131 ~a~~AQ~el~eK~qLLeaAk~Rve~L~~QL~~Ar~D~~~tk~  172 (188)
T PF05335_consen  131 VAEGAQQELAEKTQLLEAAKRRVEELQRQLQAARADYEKTKK  172 (188)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            666666666666666666666666666666666655555544

>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=90.46  E-value=21  Score=35.89  Aligned_cols=62  Identities=16%  Similarity=0.258  Sum_probs=40.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHhh
Q 013360          142 LEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELT  203 (444)
Q Consensus       142 LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak~E~~~~a~ei~  203 (444)
                      .+.+.+..+.+++....+++.+..++.+.++.+.++..++......+.+++.+.+++...+.
T Consensus       191 ~e~eke~~~r~l~~~~~ELe~~~EeL~~~Eke~~e~~~~i~e~~~rl~~l~~~~~~l~k~~~  252 (269)
T PF05278_consen  191 REEEKEEKDRKLELKKEELEELEEELKQKEKEVKEIKERITEMKGRLGELEMESTRLSKTIK  252 (269)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34445555556666666666666667777777777777777777777777777666655443

>COG3206 GumC Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]

Probab=90.41  E-value=7.5  Score=41.48  Aligned_cols=45  Identities=16%  Similarity=0.318  Sum_probs=26.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHH
Q 013360           46 ELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIV   90 (444)
Q Consensus        46 eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~   90 (444)
                      -+.+++.+..++..++.++..+.....-++..++..+.+.+..|.
T Consensus       286 ~i~~Lr~~~~~~~~~~~~l~~~~~~~~p~~~~~~~q~~~~~~~~~  330 (458)
T COG3206         286 TIQDLRQQYAQVRQQIADLSTELGAKHPQLVALEAQLAELRQQIA  330 (458)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhcccChHHHhHHHHHHHHHHHHH
Confidence            355666666666666666666666655555555555555555443

>KOG4302 consensus Microtubule-associated protein essential for anaphase spindle elongation [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]

Probab=90.40  E-value=35  Score=38.45  Aligned_cols=48  Identities=21%  Similarity=0.249  Sum_probs=36.9

Q ss_pred             CCCCchHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHH
Q 013360           38 VDSSPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDK   85 (444)
Q Consensus        38 ~~~~~l~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~   85 (444)
                      .....++.++..+.-.+.++..+.++...++.+...+|..+=..|...
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            345589999999999999999888888888777666666666665554

>KOG0962 consensus DNA repair protein RAD50, ABC-type ATPase/SMC superfamily [Replication, recombination and repair]

Probab=90.33  E-value=38  Score=40.89  Aligned_cols=15  Identities=13%  Similarity=0.209  Sum_probs=5.4

Q ss_pred             HHHHHHHHHHHHHHH
Q 013360           78 KEKAIQDKSERIVSL   92 (444)
Q Consensus        78 ~e~~I~e~e~~I~eL   92 (444)
                      ++..+......|.++
T Consensus       242 ~e~e~~~~~~~i~ei  256 (1294)
T KOG0962|consen  242 LENELGPIEAKIEEI  256 (1294)
T ss_pred             HHHHhhHHHHHHHHH
Confidence            333333333333333

>PF13863 DUF4200: Domain of unknown function (DUF4200)

Probab=90.28  E-value=11  Score=32.59  Aligned_cols=35  Identities=20%  Similarity=0.477  Sum_probs=14.0

Q ss_pred             HHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHH
Q 013360           57 LESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVS   91 (444)
Q Consensus        57 Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~e   91 (444)
                      ++..+.....++......+...+..+...+..|.+
T Consensus        12 ~~~~l~~kr~e~~~~~~~~~~~e~~L~~~e~~l~~   46 (126)
T PF13863_consen   12 VQLALDTKREEIERREEQLKQREEELEKKEQELEE   46 (126)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333444444444444444444333

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=90.19  E-value=2.9  Score=41.62  Aligned_cols=7  Identities=0%  Similarity=0.107  Sum_probs=2.5

Q ss_pred             CchHHHH
Q 013360           41 SPLKIEL   47 (444)
Q Consensus        41 ~~l~~eL   47 (444)
                      ++...++
T Consensus        36 ~~~~~r~   42 (263)
T PRK10803         36 GSVEDRV   42 (263)
T ss_pred             CchHHHH
Confidence            3333333

>COG0497 RecN ATPase involved in DNA repair [DNA replication, recombination, and repair]

Probab=90.18  E-value=28  Score=38.49  Aligned_cols=66  Identities=21%  Similarity=0.299  Sum_probs=29.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHhhhhHHhhh
Q 013360          139 KEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRK---TERALKVAEEEMMRAKFEATSRSKELTE  204 (444)
Q Consensus       139 ~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~e---lE~~Lq~~Eeel~kak~E~~~~a~ei~~  204 (444)
                      +++.+.++..+..-...+...++++-.-.++.+.+++.   .+..++.++.++.+++.+....+.+++.
T Consensus       299 L~~ve~Rl~~L~~l~RKY~~~~~~l~~~~~~~~~el~~L~~~~~~~~~Le~~~~~l~~~~~~~A~~Ls~  367 (557)
T COG0497         299 LEEVEERLFALKSLARKYGVTIEDLLEYLDKIKEELAQLDNSEESLEALEKEVKKLKAELLEAAEALSA  367 (557)
T ss_pred             HHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444554444443333333333333333333333332   3334455555666666555555555543

>PF04108 APG17: Autophagy protein Apg17 ; InterPro: IPR007240 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells

Probab=90.16  E-value=28  Score=36.92  Aligned_cols=48  Identities=17%  Similarity=0.273  Sum_probs=30.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHhhhhhccCCCh
Q 013360          165 KINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKELTEVHSAWLPP  212 (444)
Q Consensus       165 ~~~eeqekqI~elE~~Lq~~Eeel~kak~E~~~~a~ei~~~~g~wl~P  212 (444)
                      .++...+.--+.++.-+..+.+++.++..+-...+..=..-+|.|||.
T Consensus       353 ~Ev~RRr~~~~k~~~i~~~~~eeL~~l~eeE~~~Re~F~~e~GdyLP~  400 (412)
T PF04108_consen  353 LEVERRRAVRDKMKKIIREANEELDKLREEEQRRREAFLKEYGDYLPE  400 (412)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCcCCh
Confidence            333333444455566666677777777776666665556668999997

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

>PF15254 CCDC14: Coiled-coil domain-containing protein 14

Probab=90.12  E-value=15  Score=41.74  Aligned_cols=151  Identities=15%  Similarity=0.138  Sum_probs=69.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhhHH------------HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHH
Q 013360           47 LDQLKSKIRSLESHIDEKTQELKGKDE------------VVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKA  114 (444)
Q Consensus        47 L~~l~~ki~~Lesqi~ele~eI~~k~~------------eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~a  114 (444)
                      +.-||.+.++|+.++..+++++.+++.            |+-.+...=--+..++.+....++.||.+...+.. -++..
T Consensus       389 ~QplrsENaqLrRrLrilnqqlreqe~~~k~~~~~~~n~El~sLqSlN~~Lq~ql~es~k~~e~lq~kneellk-~~e~q  467 (861)
T PF15254_consen  389 MQPLRSENAQLRRRLRILNQQLREQEKAEKTSGSQDCNLELFSLQSLNMSLQNQLQESLKSQELLQSKNEELLK-VIENQ  467 (861)
T ss_pred             hhhhhhhhHHHHHHHHHHHHHHHHHHhhcccCCCcccchhhHHHHHHHHHHHHHHHHHHHhHHHHHHhHHHHHH-HHHHH
Confidence            344677777777777777777666433            23333333333344444444444444444333211 01111


Q ss_pred             HHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          115 HARADELEKQIDNLKKESE----KQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMR  190 (444)
Q Consensus       115 e~~i~eLe~qIe~LkkelE----~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~k  190 (444)
                      +++...+.+.+.+-..++-    ...-+...+.-+.+++-.+++.+.-+++..+.++.-+...+++-..++..+++-..-
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            1111111111111111111    112223344445555555566666666666666666666666666666666555555


Q ss_pred             HHHHHhhh
Q 013360          191 AKFEATSR  198 (444)
Q Consensus       191 ak~E~~~~  198 (444)
                      ++.-...+
T Consensus       548 LQ~Sma~l  555 (861)
T PF15254_consen  548 LQNSMAKL  555 (861)
T ss_pred             HHHHHHHH
Confidence            55444443

>COG1730 GIM5 Predicted prefoldin, molecular chaperone implicated in de novo protein folding [Posttranslational modification, protein turnover, chaperones]

Probab=90.11  E-value=13  Score=33.93  Aligned_cols=29  Identities=21%  Similarity=0.429  Sum_probs=15.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhhhHH
Q 013360           45 IELDQLKSKIRSLESHIDEKTQELKGKDE   73 (444)
Q Consensus        45 ~eL~~l~~ki~~Lesqi~ele~eI~~k~~   73 (444)
                      .+++++...++.++++++.+.++|..+..
T Consensus         6 ~~le~l~a~lq~l~~qie~L~~~i~~l~~   34 (145)
T COG1730           6 QELEELAAQLQILQSQIESLQAQIAALNA   34 (145)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45555556666665555555555544333

>PRK10246 exonuclease subunit SbcC; Provisional

Probab=90.09  E-value=48  Score=39.46  Aligned_cols=49  Identities=16%  Similarity=0.216  Sum_probs=24.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHH
Q 013360           44 KIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSL   92 (444)
Q Consensus        44 ~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eL   92 (444)
                      ..++..+...+..+......+..++......+......+.+....+..+
T Consensus       529 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  577 (1047)
T PRK10246        529 QSRLDALEKEVKKLGEEGAALRGQLDALTKQLQRDESEAQSLRQEEQAL  577 (1047)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4456666666665555555554444444444444444444444443333

>KOG0962 consensus DNA repair protein RAD50, ABC-type ATPase/SMC superfamily [Replication, recombination and repair]

Probab=89.94  E-value=30  Score=41.68  Aligned_cols=11  Identities=27%  Similarity=0.492  Sum_probs=6.1

Q ss_pred             CCCchHHHHHH
Q 013360           39 DSSPLKIELDQ   49 (444)
Q Consensus        39 ~~~~l~~eL~~   49 (444)
                      +...|+..++.
T Consensus       166 Ep~~LKkkfD~  176 (1294)
T KOG0962|consen  166 EPKNLKKKFDD  176 (1294)
T ss_pred             ChHHHHHHHHH
Confidence            34456666655

>PF06785 UPF0242: Uncharacterised protein family (UPF0242); InterPro: IPR009623 This is a group of proteins of unknown function

Probab=89.93  E-value=20  Score=37.05  Aligned_cols=113  Identities=13%  Similarity=0.142  Sum_probs=64.4

Q ss_pred             hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           68 LKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAI  147 (444)
Q Consensus        68 I~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~eLe~qIe~LkkelE~~~~e~~~LEae~~  147 (444)
                      +..+-..|-+.+..+++.-..+++-|.+-+.|+..+..+ -+++..+..=+......++.|+.-+...+++...++..++
T Consensus        73 lq~kirk~~e~~eglr~i~es~~e~q~e~~qL~~qnqkL-~nqL~~~~~vf~k~k~~~q~LE~li~~~~EEn~~lqlqL~  151 (401)
T PF06785_consen   73 LQTKIRKITEKDEGLRKIRESVEERQQESEQLQSQNQKL-KNQLFHVREVFMKTKGDIQHLEGLIRHLREENQCLQLQLD  151 (401)
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHHHHHHHHHHhHHHH-HHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHHHhHH
Confidence            334445566677777777777777777766665433332 2444445555555555566666666666666666666666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          148 EAEKKISDLSAKLEKLQKINDEQKSKIRKTERAL  181 (444)
Q Consensus       148 elEkkleEle~kveeLe~~~eeqekqI~elE~~L  181 (444)
                      ++..++.|.+.+...|+.+.++.-...+.+.+..
T Consensus       152 ~l~~e~~Ekeeesq~LnrELaE~layqq~L~~ey  185 (401)
T PF06785_consen  152 ALQQECGEKEEESQTLNRELAEALAYQQELNDEY  185 (401)
T ss_pred             HHHHHHhHhHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            6655555555555555555555544444444443

>PF10234 Cluap1: Clusterin-associated protein-1; InterPro: IPR019366 This protein of 413 amino acids contains a central coiled-coil domain, possibly the region that binds to clusterin

Probab=89.82  E-value=19  Score=36.12  Aligned_cols=29  Identities=21%  Similarity=0.166  Sum_probs=10.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          160 LEKLQKINDEQKSKIRKTERALKVAEEEM  188 (444)
Q Consensus       160 veeLe~~~eeqekqI~elE~~Lq~~Eeel  188 (444)
                      .+.++.++.++-...-+-=+.+.-++.++
T Consensus       227 yEklE~EL~~lY~~Y~~kfRNl~yLe~ql  255 (267)
T PF10234_consen  227 YEKLEEELQKLYEIYVEKFRNLDYLEHQL  255 (267)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Confidence            33333333333333333333333344333

Cluap1 expression is highest in the nucleus and gradually increases during late S to G2/M phases of the cell cycle and returns to the basal level in the G0/G1 phases. In addition, it is upregulated in colon cancer tissues compared to corresponding non-cancerous mucosa. It thus plays a crucial role in the life of the cell [].

>PF15450 DUF4631: Domain of unknown function (DUF4631)

Probab=89.74  E-value=34  Score=37.31  Aligned_cols=15  Identities=13%  Similarity=0.310  Sum_probs=5.7

Q ss_pred             HHHHHHHHHHHHHHH
Q 013360           86 SERIVSLQKELSSLQ  100 (444)
Q Consensus        86 e~~I~eLq~kI~sLq  100 (444)
                      -..|.+|++.|..++
T Consensus       357 ~~~lkDLd~~~~aLs  371 (531)
T PF15450_consen  357 MRQLKDLDDHILALS  371 (531)
T ss_pred             HHHHHHHHHHHHHHh
Confidence            333333333333333

>COG3096 MukB Uncharacterized protein involved in chromosome partitioning [Cell division and chromosome partitioning]

Probab=89.62  E-value=34  Score=39.10  Aligned_cols=124  Identities=19%  Similarity=0.250  Sum_probs=65.1

Q ss_pred             HHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           60 HIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEK  139 (444)
Q Consensus        60 qi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~eLe~qIe~LkkelE~~~~e~  139 (444)
                      +...-+..+.+...|+.++...-..++...+.-++-+.-.++.+-  .++++....+.+.++...+++-.--++..++..
T Consensus       301 ~~~~~q~r~v~~srE~ael~~~E~~LE~D~Q~A~DhLnLV~~AlR--~QEKI~RYQ~Dl~Elt~RLEEQ~~VVeeA~e~~  378 (1480)
T COG3096         301 QLAAEQYRHVDMSRELAELNGAEGDLEADYQAASDHLNLVQTALR--QQEKIERYQADLEELTIRLEEQNEVVEEANERQ  378 (1480)
T ss_pred             HHHHHHHHHHHHHHHHHHHhcccchhhhhHHHHhhHHHHHHHHHH--HHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            333334444444555555544444445555555554444443332  245555555566666665555555555555555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          140 EALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAE  185 (444)
Q Consensus       140 ~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~E  185 (444)
                      ++-+++....|.++.++.+.+.+.+..++-++.+--++.+.++.++
T Consensus       379 ~e~e~r~e~~E~EvD~lksQLADYQQALD~QQTRAlQYQQAi~ALe  424 (1480)
T COG3096         379 EENEARAEAAELEVDELKSQLADYQQALDVQQTRAIQYQQAIAALE  424 (1480)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHH
Confidence            5555666666666666666666655555555555444444444443

>PF15066 CAGE1: Cancer-associated gene protein 1 family

Probab=89.62  E-value=33  Score=36.96  Aligned_cols=27  Identities=11%  Similarity=0.267  Sum_probs=12.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          159 KLEKLQKINDEQKSKIRKTERALKVAE  185 (444)
Q Consensus       159 kveeLe~~~eeqekqI~elE~~Lq~~E  185 (444)
                      -++-|..+++..+++.-.+...++..+
T Consensus       479 ALdlLkrEKe~~EqefLslqeEfQk~e  505 (527)
T PF15066_consen  479 ALDLLKREKETREQEFLSLQEEFQKHE  505 (527)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444444444444

>PF15066 CAGE1: Cancer-associated gene protein 1 family

Probab=89.60  E-value=33  Score=36.95  Aligned_cols=48  Identities=25%  Similarity=0.315  Sum_probs=23.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhhhH--HHHHHHHHHHHHHHHHH
Q 013360           77 QKEKAIQDKSERIVSLQKELSSLQKKETLNA--AEQVDKAHARADELEKQ  124 (444)
Q Consensus        77 ~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~--~~~i~~ae~~i~eLe~q  124 (444)
                      .-+..|.++.-.-.-|+.++..||-++..-.  -.-+.+++.+|.+|.+.
T Consensus       328 kQq~~IqdLq~sN~yLe~kvkeLQ~k~~kQqvfvDiinkLk~niEeLIed  377 (527)
T PF15066_consen  328 KQQNRIQDLQCSNLYLEKKVKELQMKITKQQVFVDIINKLKENIEELIED  377 (527)
T ss_pred             HHHHHHHHhhhccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHh
Confidence            3344555555555555556666655543311  13344555555555443

>PRK03598 putative efflux pump membrane fusion protein; Provisional

Probab=89.59  E-value=18  Score=36.63  Aligned_cols=50  Identities=22%  Similarity=0.264  Sum_probs=22.9

Q ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHH
Q 013360           42 PLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQ   93 (444)
Q Consensus        42 ~l~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq   93 (444)
                      ....++++.+..+..++.++..+.....  ..++...+..+...+..+...+
T Consensus        78 ~~~~~l~~~~a~l~~~~~~l~~~~~~~~--~~~i~~~~~~l~~ak~~l~~a~  127 (331)
T PRK03598         78 PYENALMQAKANVSVAQAQLDLMLAGYR--DEEIAQARAAVKQAQAAYDYAQ  127 (331)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHccCC--HHHHHHHHHHHHHHHHHHHHHH
Confidence            3445555556666655555555443322  2333334444444333333333

>KOG4603 consensus TBP-1 interacting protein [Signal transduction mechanisms]

Probab=89.56  E-value=14  Score=34.68  Aligned_cols=22  Identities=23%  Similarity=0.267  Sum_probs=8.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q 013360           75 VAQKEKAIQDKSERIVSLQKEL   96 (444)
Q Consensus        75 Ik~~e~~I~e~e~~I~eLq~kI   96 (444)
                      +..++..|..++.++++|+..+
T Consensus        81 l~~ld~~i~~l~ek~q~l~~t~  102 (201)
T KOG4603|consen   81 LQVLDGKIVALTEKVQSLQQTC  102 (201)
T ss_pred             HHHHhHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333333

>KOG1899 consensus LAR transmembrane tyrosine phosphatase-interacting protein liprin [General function prediction only]

Probab=89.51  E-value=11  Score=41.81  Aligned_cols=56  Identities=27%  Similarity=0.379  Sum_probs=24.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           44 KIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSL   99 (444)
Q Consensus        44 ~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sL   99 (444)
                      ..+.++-..||..|+--|.+...++...++.+.+.=-.+..++.+==+|-.+|.+|
T Consensus       131 teqVeaQgEKIrDLE~cie~kr~kLnatEEmLQqellsrtsLETqKlDLmaevSeL  186 (861)
T KOG1899|consen  131 TEQVEAQGEKIRDLETCIEEKRNKLNATEEMLQQELLSRTSLETQKLDLMAEVSEL  186 (861)
T ss_pred             HHHHHHhhhhHHHHHHHHHHHHhhhchHHHHHHHHHHhhhhHHHHHhHHHHHHHHh
Confidence            33444444445555555555545554444444444333334444333444444444

>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=89.42  E-value=37  Score=37.17  Aligned_cols=59  Identities=12%  Similarity=0.248  Sum_probs=26.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          129 KKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEE  187 (444)
Q Consensus       129 kkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eee  187 (444)
                      ..+++++-.++...+++......++..+..+++..++.++....++.+...++..++++
T Consensus       419 ~~RI~eLt~qlQ~adSKa~~f~~Ec~aL~~rL~~aE~ek~~l~eeL~~a~~~i~~LqDE  477 (518)
T PF10212_consen  419 MSRIEELTSQLQHADSKAVHFYAECRALQKRLESAEKEKESLEEELKEANQNISRLQDE  477 (518)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444444444444444444444444444444444444444333333

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.

>PF10267 Tmemb_cc2: Predicted transmembrane and coiled-coil 2 protein; InterPro: IPR019394 This family of transmembrane coiled-coil containing proteins is conserved from worms to humans

Probab=89.33  E-value=17  Score=38.48  Aligned_cols=17  Identities=18%  Similarity=0.358  Sum_probs=7.3

Q ss_pred             HHHHHHHHHHHHHHHHH
Q 013360          162 KLQKINDEQKSKIRKTE  178 (444)
Q Consensus       162 eLe~~~eeqekqI~elE  178 (444)
                      ++++.++..+.+|..+|
T Consensus       302 di~E~~Es~qtRisklE  318 (395)
T PF10267_consen  302 DIWEVMESCQTRISKLE  318 (395)
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            34444444444444444

Its function is unknown.

>TIGR01010 BexC_CtrB_KpsE polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family

Probab=89.25  E-value=23  Score=36.47  Aligned_cols=26  Identities=12%  Similarity=0.176  Sum_probs=11.0

Q ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           69 KGKDEVVAQKEKAIQDKSERIVSLQK   94 (444)
Q Consensus        69 ~~k~~eIk~~e~~I~e~e~~I~eLq~   94 (444)
                      .-.++++.+.+..+.+.+..+.++++
T Consensus       173 ~fl~~ql~~~~~~l~~ae~~l~~fr~  198 (362)
T TIGR01010       173 AFAENEVKEAEQRLNATKAELLKYQI  198 (362)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444444444444433

This family contains gamma proteobacterial proteins involved in capsule polysaccharide export.

>PF14282 FlxA: FlxA-like protein

Probab=88.97  E-value=4  Score=35.15  Aligned_cols=25  Identities=24%  Similarity=0.500  Sum_probs=19.8

Q ss_pred             chHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           42 PLKIELDQLKSKIRSLESHIDEKTQ   66 (444)
Q Consensus        42 ~l~~eL~~l~~ki~~Lesqi~ele~   66 (444)
                      .....|..|+..|..|..+|.++..
T Consensus        16 ~~~~~I~~L~~Qi~~Lq~ql~~l~~   40 (106)
T PF14282_consen   16 SSDSQIEQLQKQIKQLQEQLQELSQ   40 (106)
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            3477888888888888888888877

>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=88.93  E-value=1.7  Score=44.75  Aligned_cols=76  Identities=32%  Similarity=0.401  Sum_probs=46.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          109 EQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVA  184 (444)
Q Consensus       109 ~~i~~ae~~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~  184 (444)
                      ..+...+..+.+++.++..|+.+.+....++..++.+....+.++.-....+..|..+...-...+..++.++..+
T Consensus       235 ~~L~~~~~~l~~l~~~l~~l~~~~~~~~~e~~~l~~~~~~~~~kl~rA~~Li~~L~~E~~RW~~~~~~l~~~~~~l  310 (344)
T PF12777_consen  235 EQLAEKQAELAELEEKLAALQKEYEEAQKEKQELEEEIEETERKLERAEKLISGLSGEKERWSEQIEELEEQLKNL  310 (344)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHCCHCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccHHHHHhhhcchhhhHHHHHHHHHHHhccc
Confidence            3344444555556666666666666666666666666666666666666666666666666555555555554444

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.

>KOG0239 consensus Kinesin (KAR3 subfamily) [Cytoskeleton]

Probab=88.90  E-value=38  Score=38.38  Aligned_cols=122  Identities=18%  Similarity=0.157  Sum_probs=64.9

Q ss_pred             HHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           59 SHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKE  138 (444)
Q Consensus        59 sqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~eLe~qIe~LkkelE~~~~e  138 (444)
                      ++...+++++.+...++......+.+....+...+.+-..++....     .......++..+...-+..++.+..+...
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            3344444444444444444444444444444444444443432221     22344455555555555555556666666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          139 KEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAE  185 (444)
Q Consensus       139 ~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~E  185 (444)
                      +..++.+..++...+..+...+++.-.....+...+.+.+..+....
T Consensus       250 l~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~L~~~~~~l~~~~  296 (670)
T KOG0239|consen  250 LEELKAELKELNDQVSLLTREVQEALKESNTLQSDLESLEENLVEKK  296 (670)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            66666666666666666666666666666666555555555555444

>PF04375 HemX: HemX; InterPro: IPR007470 The majority of proteins in this family are annotated as uroporphyrin-III C-methyltransferase (2

Probab=88.78  E-value=32  Score=36.01  Aligned_cols=25  Identities=24%  Similarity=0.534  Sum_probs=13.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhh
Q 013360           45 IELDQLKSKIRSLESHIDEKTQELK   69 (444)
Q Consensus        45 ~eL~~l~~ki~~Lesqi~ele~eI~   69 (444)
                      .+...++.++..|+.++..+.+.++
T Consensus        53 ~q~~~~~~~~~~L~~ql~~~~~~~~   77 (372)
T PF04375_consen   53 QQLQQLQQQLQALQQQLQQLQQQLE   77 (372)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            4444555555555555555555444

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 [].

>PF03962 Mnd1: Mnd1 family; InterPro: IPR005647 This family of proteins includes meiotic nuclear division protein 1 (MND1) from Saccharomyces cerevisiae (Baker's yeast)

Probab=88.73  E-value=17  Score=34.52  Aligned_cols=18  Identities=44%  Similarity=0.654  Sum_probs=7.8

Q ss_pred             HHHHHHHHHHHHHHHHHH
Q 013360          116 ARADELEKQIDNLKKESE  133 (444)
Q Consensus       116 ~~i~eLe~qIe~LkkelE  133 (444)
                      +++..|..++..|+++++
T Consensus       110 ~~l~~l~~~~~~l~~el~  127 (188)
T PF03962_consen  110 EELEELKKELKELKKELE  127 (188)
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            344444444444444443

The mnd1 protein forms a complex with hop2 to promote homologous chromosome pairing and meiotic double-strand break repair [].

>PRK11519 tyrosine kinase; Provisional

Probab=88.63  E-value=18  Score=41.06  Aligned_cols=40  Identities=15%  Similarity=0.292  Sum_probs=17.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          142 LEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAE  185 (444)
Q Consensus       142 LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~E  185 (444)
                      +..+...++.++++++.++..+..    .+.++.+++++.+..+
T Consensus       344 l~~~~~~L~~~~~~l~~~~~~lp~----~e~~~~~L~Re~~~~~  383 (719)
T PRK11519        344 LLEKRKALEDEKAKLNGRVTAMPK----TQQEIVRLTRDVESGQ  383 (719)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhccH----HHHHHHHHHHHHHHHH
Confidence            333444444444444444433332    3344444555544444

>KOG0249 consensus LAR-interacting protein and related proteins [General function prediction only]

Probab=88.62  E-value=30  Score=39.14  Aligned_cols=26  Identities=23%  Similarity=0.449  Sum_probs=12.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          110 QVDKAHARADELEKQIDNLKKESEKQ  135 (444)
Q Consensus       110 ~i~~ae~~i~eLe~qIe~LkkelE~~  135 (444)
                      .....++++..++.+++++..++...
T Consensus       157 ~~~~~eer~~kl~~~~qe~naeL~ra  182 (916)
T KOG0249|consen  157 HSGNIEERTRKLEEQLEELNAELQRA  182 (916)
T ss_pred             hhccHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344445555555555555554444

>COG3352 FlaC Putative archaeal flagellar protein C [Cell motility and secretion]

Probab=88.48  E-value=7.1  Score=35.89  Aligned_cols=95  Identities=16%  Similarity=0.249  Sum_probs=46.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHH
Q 013360           45 IELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQ  124 (444)
Q Consensus        45 ~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~eLe~q  124 (444)
                      ..|+++.......+.++....-.+......+......++.++..|..+....+.+..+..-....-.....-.+.++.+|
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            45566666665555555544444444444455555555555555555555444444443333222222222255566666


Q ss_pred             HHHHHHHHHHHHHHH
Q 013360          125 IDNLKKESEKQQKEK  139 (444)
Q Consensus       125 Ie~LkkelE~~~~e~  139 (444)
                      |.+++..++...+++
T Consensus       124 V~el~~i~emv~~d~  138 (157)
T COG3352         124 VNELKMIVEMVIKDL  138 (157)
T ss_pred             HHHHHHHHHHHhccc
Confidence            666665555544443

>PF14282 FlxA: FlxA-like protein

Probab=88.38  E-value=3.8  Score=35.27  Aligned_cols=23  Identities=26%  Similarity=0.468  Sum_probs=12.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHh
Q 013360           79 EKAIQDKSERIVSLQKELSSLQK  101 (444)
Q Consensus        79 e~~I~e~e~~I~eLq~kI~sLqk  101 (444)
                      +..|..+..+|..|+.+|..|..
T Consensus        18 ~~~I~~L~~Qi~~Lq~ql~~l~~   40 (106)
T PF14282_consen   18 DSQIEQLQKQIKQLQEQLQELSQ   40 (106)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHc
Confidence            44555555555555555555544

>KOG4460 consensus Nuclear pore complex, Nup88/rNup84 component [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]

Probab=88.32  E-value=45  Score=36.79  Aligned_cols=92  Identities=11%  Similarity=0.111  Sum_probs=47.2

Q ss_pred             HHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHH----------HHHHHHHHHHH
Q 013360           50 LKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAA----------EQVDKAHARAD  119 (444)
Q Consensus        50 l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~----------~~i~~ae~~i~  119 (444)
                      ++..+.++..+++.--|+|.+.+++++.++..-..+.+-+.+...+-++|.++...+-.          .-..+.+.++.
T Consensus       586 ~qrH~~~l~~~k~~QlQ~l~~~~eer~~i~e~a~~La~R~eea~e~qe~L~~~~~~L~~~~~~~lp~l~~AErdFk~Elq  665 (741)
T KOG4460|consen  586 IQRHVKLLCDQKKKQLQDLSYCREERKSLREMAERLADRYEEAKEKQEDLMNRMKKLLHSFHSELPVLSDAERDFKKELQ  665 (741)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcccccCCcchhHHHHHHHHHH
Confidence            33444555555555555555555555555555555555555555444455444433211          22334445555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q 013360          120 ELEKQIDNLKKESEKQQKEKEA  141 (444)
Q Consensus       120 eLe~qIe~LkkelE~~~~e~~~  141 (444)
                      -++.+++.|..-+|.......+
T Consensus       666 ~~~~~~~~L~~~iET~~~~~~K  687 (741)
T KOG4460|consen  666 LIPDQLRHLGNAIETVTMKKDK  687 (741)
T ss_pred             HhHHHHHHHHHHHHHHHHHHHH
Confidence            5666666666666655554444

>TIGR03794 NHPM_micro_HlyD NHPM bacteriocin system secretion protein

Probab=88.22  E-value=37  Score=35.72  Aligned_cols=26  Identities=8%  Similarity=0.261  Sum_probs=17.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhhhHH
Q 013360           48 DQLKSKIRSLESHIDEKTQELKGKDE   73 (444)
Q Consensus        48 ~~l~~ki~~Lesqi~ele~eI~~k~~   73 (444)
                      ..+...+..++..+..+..+++....
T Consensus        92 ~~~~~~~~~~~~~l~~~~~q~~~l~~  117 (421)
T TIGR03794        92 PELRERLQESYQKLTQLQEQLEEVRN  117 (421)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34566677777777777777666544

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.

>PF03148 Tektin: Tektin family; InterPro: IPR000435 Tektin heteropolymers form unique protofilaments of flagellar microtubules []

Probab=88.13  E-value=37  Score=35.65  Aligned_cols=159  Identities=18%  Similarity=0.204  Sum_probs=77.5

Q ss_pred             CCCchHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHhhh------------h
Q 013360           39 DSSPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSE--RIVSLQKELSSLQKKE------------T  104 (444)
Q Consensus        39 ~~~~l~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~--~I~eLq~kI~sLqkK~------------s  104 (444)
                      ....|.+|++-++.=-.-|+..+.....+|.....-...++..+.++..  .|......+..-...+            .
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            3445666666666666666666666666666655555555655555544  2222222221110000            0


Q ss_pred             hh-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          105 LN-------AAEQVDKAHARADELEKQIDNLKKESEKQQKEKE--------ALEARAIEAEKKISDLSAKLEKLQKINDE  169 (444)
Q Consensus       105 ~~-------~~~~i~~ae~~i~eLe~qIe~LkkelE~~~~e~~--------~LEae~~elEkkleEle~kveeLe~~~ee  169 (444)
                      +.       ....+..++..+.....--..+...+.....++.        .+..+..+.+.-..+++..+.....++.+
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       0133333433333322222222222222222222        45555666666666666666666666666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013360          170 QKSKIRKTERALKVAEEEMMRAKFEATS  197 (444)
Q Consensus       170 qekqI~elE~~Lq~~Eeel~kak~E~~~  197 (444)
                      ++..|..++..|..-..-++-++..+..
T Consensus       277 ~e~~i~~L~~ai~~k~~~lkvaqTRL~~  304 (384)
T PF03148_consen  277 MEKNIEDLEKAIRDKEGPLKVAQTRLEN  304 (384)
T ss_pred             HHHHHHHHHHHHHHHHhhHHHHHHHHhh
Confidence            6666666666666666666666655553

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

>PF08172 CASP_C: CASP C terminal; InterPro: IPR012955 This domain is the C-terminal region of the CASP family of proteins

Probab=88.02  E-value=12  Score=37.04  Aligned_cols=18  Identities=11%  Similarity=0.180  Sum_probs=9.4

Q ss_pred             HHHHHHHHHHHHhcCCCc
Q 013360          370 HQVQASVQEMLKKHELTS  387 (444)
Q Consensus       370 ~q~q~~~~~~~~~~e~~~  387 (444)
                      ..+=-++-.++-.|-+++
T Consensus       202 eR~~ls~~r~vL~nr~~R  219 (248)
T PF08172_consen  202 ERIFLSLTRFVLSNRTTR  219 (248)
T ss_pred             HHHHHHHHHHHhcChhhH
Confidence            344444445556666655

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

>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89

Probab=87.90  E-value=7.2  Score=31.18  Aligned_cols=22  Identities=27%  Similarity=0.382  Sum_probs=9.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q 013360          117 RADELEKQIDNLKKESEKQQKE  138 (444)
Q Consensus       117 ~i~eLe~qIe~LkkelE~~~~e  138 (444)
                      +++.+-.++.+|+.+++.+..+
T Consensus        41 ~l~~a~~e~~~Lk~E~e~L~~e   62 (69)
T PF14197_consen   41 QLGDAYEENNKLKEENEALRKE   62 (69)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444444444333

>KOG0982 consensus Centrosomal protein Nuf [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]

Probab=87.86  E-value=42  Score=35.89  Aligned_cols=58  Identities=14%  Similarity=0.070  Sum_probs=30.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          111 VDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKIND  168 (444)
Q Consensus       111 i~~ae~~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~e  168 (444)
                      +.+++....+++..+.+|+...+++..+......++..+..++...+.....+.+.+.
T Consensus       306 ~qqleeentelRs~~arlksl~dklaee~qr~sd~LE~lrlql~~eq~l~~rm~d~Lr  363 (502)
T KOG0982|consen  306 DQQLEEENTELRSLIARLKSLADKLAEEDQRSSDLLEALRLQLICEQKLRVRMNDILR  363 (502)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344555556666666666666666555555555555554444444444444433333

>TIGR03495 phage_LysB phage lysis regulatory protein, LysB family

Probab=87.81  E-value=18  Score=32.68  Aligned_cols=75  Identities=20%  Similarity=0.288  Sum_probs=36.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHH
Q 013360           46 ELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQI  125 (444)
Q Consensus        46 eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~eLe~qI  125 (444)
                      ++..++..++..+..+.....+|..++..|..+....+.++..-..|...+..               +...+..-+.+|
T Consensus        20 ~~~~l~~~~~~a~~~~~~~~~~l~~~~~qL~~l~~~a~~~~~~Q~~Lr~~~~~---------------~~~~l~~re~~i   84 (135)
T TIGR03495        20 RLRNARADLERANRVLKAQQAELASKANQLIVLLALAKRNEEAQAQLRQQLAQ---------------ARALLAQREQRI   84 (135)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH---------------HHHHHHHHHHHH
Confidence            44455555555555555555555554444444444444444433333333322               233344455666


Q ss_pred             HHHHHHHHHH
Q 013360          126 DNLKKESEKQ  135 (444)
Q Consensus       126 e~LkkelE~~  135 (444)
                      .+|+.|.+.+
T Consensus        85 ~rL~~ENe~l   94 (135)
T TIGR03495        85 ERLKRENEDL   94 (135)
T ss_pred             HHHHHcCHHH
Confidence            6666665554

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.

>PRK04406 hypothetical protein; Provisional

Probab=87.50  E-value=5.2  Score=32.48  Aligned_cols=42  Identities=17%  Similarity=0.293  Sum_probs=17.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          149 AEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMR  190 (444)
Q Consensus       149 lEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~k  190 (444)
                      ++.++.+++.++.-++..++++...+-++...|..++.++..
T Consensus         9 le~Ri~~LE~~lAfQE~tIe~LN~~v~~Qq~~I~~L~~ql~~   50 (75)
T PRK04406          9 LEERINDLECQLAFQEQTIEELNDALSQQQLLITKMQDQMKY   50 (75)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444444444444444444333333333

>KOG2264 consensus Exostosin EXT1L [Signal transduction mechanisms]

Probab=87.43  E-value=4.4  Score=44.39  Aligned_cols=68  Identities=15%  Similarity=0.260  Sum_probs=39.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          126 DNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKF  193 (444)
Q Consensus       126 e~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak~  193 (444)
                      .++...++....++.++|.+.+++..++++++.++++++..+...+..+..++..+++++..+..+.+
T Consensus        82 ~e~~RI~~sVs~EL~ele~krqel~seI~~~n~kiEelk~~i~~~q~eL~~Lk~~ieqaq~~~~El~~  149 (907)
T KOG2264|consen   82 REQKRILASVSLELTELEVKRQELNSEIEEINTKIEELKRLIPQKQLELSALKGEIEQAQRQLEELRE  149 (907)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhHHHHHHHHhHHHHHHHHHHHHHh
Confidence            33444444555555566666666666666666666666666666666666666666666555444433

>KOG2077 consensus JNK/SAPK-associated protein-1 [Signal transduction mechanisms]

Probab=87.40  E-value=22  Score=39.20  Aligned_cols=82  Identities=23%  Similarity=0.291  Sum_probs=66.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhH
Q 013360          121 LEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSK  200 (444)
Q Consensus       121 Le~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak~E~~~~a~  200 (444)
                      +-.+++.|-.+.-++-.-+.+|+--+++|=.++.++..+.+-|+.++...+..-..++++|..+|++|.+++.++.....
T Consensus       299 MGrEVeNLilENsqLLetKNALNiVKNDLIakVDeL~~E~~vLrgElea~kqak~Klee~i~elEEElk~~k~ea~~ar~  378 (832)
T KOG2077|consen  299 MGREVENLILENSQLLETKNALNIVKNDLIAKVDELTCEKDVLRGELEAVKQAKLKLEEKIRELEEELKKAKAEAEDARQ  378 (832)
T ss_pred             chHHHHHHHHhhHHHHhhhhHHHHHHHHHHHHHHhhccHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34566666666666666667778888888889999999999999999999888899999999999999999998886644


Q ss_pred             Hh
Q 013360          201 EL  202 (444)
Q Consensus       201 ei  202 (444)
                      +.
T Consensus       379 ~~  380 (832)
T KOG2077|consen  379 KA  380 (832)
T ss_pred             hh
Confidence            43

>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=87.36  E-value=27  Score=33.14  Aligned_cols=45  Identities=9%  Similarity=0.100  Sum_probs=22.5

Q ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHH--HHHHHHHHH
Q 013360           42 PLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQ--KEKAIQDKS   86 (444)
Q Consensus        42 ~l~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~--~e~~I~e~e   86 (444)
                      +.+.+.-.|...++..-.+....+..|-...++|=.  .+..|++.+
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            445566666666655544444444455444444433  244444444

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 [].

>PRK14011 prefoldin subunit alpha; Provisional

Probab=87.32  E-value=15  Score=33.60  Aligned_cols=41  Identities=10%  Similarity=0.121  Sum_probs=19.9

Q ss_pred             HHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHH
Q 013360           53 KIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQ   93 (444)
Q Consensus        53 ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq   93 (444)
                      ++.++-..++.+.++++.+...|..++..+.+...-|..|+
T Consensus         4 elq~~~~~l~~~~~qie~L~~si~~L~~a~~e~~~~ie~L~   44 (144)
T PRK14011          4 ELQNQFMALEVYNQQVQKLQEELSSIDMMKMELLKSIESME   44 (144)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444544445555555555555554444

>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=87.31  E-value=14  Score=29.81  Aligned_cols=24  Identities=42%  Similarity=0.375  Sum_probs=9.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           76 AQKEKAIQDKSERIVSLQKELSSL   99 (444)
Q Consensus        76 k~~e~~I~e~e~~I~eLq~kI~sL   99 (444)
                      .+++..|...=..|+.|+-+++.|
T Consensus         7 ~~LE~ki~~aveti~~Lq~e~eeL   30 (72)
T PF06005_consen    7 EQLEEKIQQAVETIALLQMENEEL   30 (72)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444444333

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.

>PF04912 Dynamitin: Dynamitin ; InterPro: IPR006996 Dynamitin is a subunit of the microtubule-dependent motor complex, it is also implicated in cell adhesion by binding to macrophage-enriched myristoylated alanine-rice C kinase substrate (MacMARCKS) []

Probab=87.13  E-value=42  Score=35.17  Aligned_cols=32  Identities=31%  Similarity=0.515  Sum_probs=16.4

Q ss_pred             CCCchHHHHHHHHHHHHHHHH-HHHHHHHhhhh
Q 013360           39 DSSPLKIELDQLKSKIRSLES-HIDEKTQELKG   70 (444)
Q Consensus        39 ~~~~l~~eL~~l~~ki~~Les-qi~ele~eI~~   70 (444)
                      ....+..-++.|..++.-|.. .++.++..+..
T Consensus       240 ~~~~l~~~l~~L~~~lslL~~~~Ld~i~~rl~~  272 (388)
T PF04912_consen  240 SSSPLLPALNELERQLSLLDPAKLDSIERRLKS  272 (388)
T ss_pred             CcchHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            345556666666666666632 33444444333

It is also thought to modulate cytoplasmic dynein binding to an organelle, and plays a role in prometaphase chromosome alignment and spindle organisation during mitosis. Dynamitin is also involved in anchoring microtubules to centrosomes and may play a role in synapse formation during brain development []. ; GO: 0007017 microtubule-based process, 0005869 dynactin complex

>PRK15396 murein lipoprotein; Provisional

Probab=87.08  E-value=7.9  Score=31.78  Aligned_cols=25  Identities=24%  Similarity=0.618  Sum_probs=11.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhh
Q 013360           46 ELDQLKSKIRSLESHIDEKTQELKG   70 (444)
Q Consensus        46 eL~~l~~ki~~Lesqi~ele~eI~~   70 (444)
                      ++++|..+++.|.++++.+.++++.
T Consensus        26 kvd~LssqV~~L~~kvdql~~dv~~   50 (78)
T PRK15396         26 KIDQLSSDVQTLNAKVDQLSNDVNA   50 (78)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4445555555554444444444333

>PRK10476 multidrug resistance protein MdtN; Provisional

Probab=87.07  E-value=28  Score=35.54  Aligned_cols=27  Identities=4%  Similarity=0.108  Sum_probs=16.6

Q ss_pred             HHHHHHHHHHHHHHHHHHhhhhhHHHH
Q 013360           49 QLKSKIRSLESHIDEKTQELKGKDEVV   75 (444)
Q Consensus        49 ~l~~ki~~Lesqi~ele~eI~~k~~eI   75 (444)
                      ..+..+.+++.++...+.+++.....+
T Consensus        83 ~~~~~l~~a~a~l~~a~a~l~~~~~~~  109 (346)
T PRK10476         83 PYELTVAQAQADLALADAQIMTTQRSV  109 (346)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            355667777777777666665544433

>PRK11519 tyrosine kinase; Provisional

Probab=87.06  E-value=45  Score=37.88  Aligned_cols=14  Identities=14%  Similarity=0.022  Sum_probs=6.4

Q ss_pred             HHHHHHHHHHHhcC
Q 013360          371 QVQASVQEMLKKHE  384 (444)
Q Consensus       371 q~q~~~~~~~~~~e  384 (444)
                      .+...+...-..+.
T Consensus       624 ~~~~ll~~l~~~yD  637 (719)
T PRK11519        624 RFAELVNWASKNYD  637 (719)
T ss_pred             HHHHHHHHHHhcCC
Confidence            34444544444444

>PF02403 Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal domain; InterPro: IPR015866 The aminoacyl-tRNA synthetases (6

Probab=87.02  E-value=11  Score=32.08  Aligned_cols=19  Identities=11%  Similarity=0.207  Sum_probs=7.2

Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q 013360           78 KEKAIQDKSERIVSLQKEL   96 (444)
Q Consensus        78 ~e~~I~e~e~~I~eLq~kI   96 (444)
                      ++..-.+....+.+++.+-
T Consensus        34 ld~~~r~l~~~~e~lr~~r   52 (108)
T PF02403_consen   34 LDQERRELQQELEELRAER   52 (108)
T ss_dssp             HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333

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 ....

>PRK15422 septal ring assembly protein ZapB; Provisional

Probab=86.97  E-value=15  Score=30.28  Aligned_cols=62  Identities=15%  Similarity=0.249  Sum_probs=26.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          116 ARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKT  177 (444)
Q Consensus       116 ~~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~el  177 (444)
                      .+|..+=..|.-|+-+++.++.+...+..+...+.....++..+.+.+..+....+.+++.+
T Consensus        11 ~KIqqAvdtI~LLqmEieELKekn~~L~~e~~~~~~~r~~L~~en~qLk~E~~~WqerLr~L   72 (79)
T PRK15422         11 AKVQQAIDTITLLQMEIEELKEKNNSLSQEVQNAQHQREELERENNHLKEQQNGWQERLQAL   72 (79)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333334444444444444444444444444444444444444444444444444444433

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

Probab=86.89  E-value=32  Score=34.73  Aligned_cols=27  Identities=19%  Similarity=0.433  Sum_probs=16.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           74 VVAQKEKAIQDKSERIVSLQKELSSLQ  100 (444)
Q Consensus        74 eIk~~e~~I~e~e~~I~eLq~kI~sLq  100 (444)
                      -+++.++.+.+.+.+|.+|.++|..++
T Consensus        76 kLkes~~~l~dRetEI~eLksQL~RMr  102 (305)
T PF15290_consen   76 KLKESENRLHDRETEIDELKSQLARMR  102 (305)
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHHHH
Confidence            344466666666666666666666554

>PRK11546 zraP zinc resistance protein; Provisional

Probab=86.84  E-value=11  Score=34.31  Aligned_cols=35  Identities=9%  Similarity=-0.042  Sum_probs=21.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHH
Q 013360           44 KIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQK   78 (444)
Q Consensus        44 ~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~   78 (444)
                      .++.+.++.-.++...+...+.++|-.+..|++.+
T Consensus        46 ~EQQa~~q~I~~~f~~~t~~LRqqL~aKr~ELnAL   80 (143)
T PRK11546         46 TEQQAAWQKIHNDFYAQTSALRQQLVSKRYEYNAL   80 (143)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34555555555666666666666666666666555

>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=86.82  E-value=40  Score=34.53  Aligned_cols=12  Identities=42%  Similarity=0.626  Sum_probs=5.3

Q ss_pred             HHHHHHHHHHHH
Q 013360           44 KIELDQLKSKIR   55 (444)
Q Consensus        44 ~~eL~~l~~ki~   55 (444)
                      ...|++++.++.
T Consensus        54 A~~ld~~~~kl~   65 (301)
T PF06120_consen   54 ADSLDELKEKLK   65 (301)
T ss_pred             HHhhHHHHHHHH
Confidence            344444444443

>TIGR00293 prefoldin, archaeal alpha subunit/eukaryotic subunit 5

Probab=86.82  E-value=4.9  Score=35.10  Aligned_cols=23  Identities=30%  Similarity=0.455  Sum_probs=8.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q 013360          114 AHARADELEKQIDNLKKESEKQQ  136 (444)
Q Consensus       114 ae~~i~eLe~qIe~LkkelE~~~  136 (444)
                      ++.++..++++++.+.+.+..+.
T Consensus        91 l~~~~~~l~~~~~~l~~~l~~l~  113 (126)
T TIGR00293        91 LKKRIEELEKAIEKLQEALAELA  113 (126)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333333

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.

>PF07889 DUF1664: Protein of unknown function (DUF1664); InterPro: IPR012458 The members of this family are hypothetical plant proteins of unknown function

Probab=86.72  E-value=23  Score=31.69  Aligned_cols=10  Identities=20%  Similarity=0.322  Sum_probs=3.7

Q ss_pred             HHHhhhhhHH
Q 013360           64 KTQELKGKDE   73 (444)
Q Consensus        64 le~eI~~k~~   73 (444)
                      +.++++...+
T Consensus        48 v~kql~~vs~   57 (126)
T PF07889_consen   48 VSKQLEQVSE   57 (126)
T ss_pred             HHHHHHHHHH
Confidence            3333333333

The region featured in this family is approximately 100 amino acids long.

>PF03962 Mnd1: Mnd1 family; InterPro: IPR005647 This family of proteins includes meiotic nuclear division protein 1 (MND1) from Saccharomyces cerevisiae (Baker's yeast)

Probab=86.54  E-value=20  Score=33.96  Aligned_cols=27  Identities=26%  Similarity=0.519  Sum_probs=11.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 013360           44 KIELDQLKSKIRSLESHIDEKTQELKG   70 (444)
Q Consensus        44 ~~eL~~l~~ki~~Lesqi~ele~eI~~   70 (444)
                      ...++.++.++..++.++.++...|+.
T Consensus        68 ~~~~~~l~~~~~~~~~~i~~l~~~i~~   94 (188)
T PF03962_consen   68 QNKLEKLQKEIEELEKKIEELEEKIEE   94 (188)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444444444433

The mnd1 protein forms a complex with hop2 to promote homologous chromosome pairing and meiotic double-strand break repair [].

>cd00584 Prefoldin_alpha Prefoldin alpha subunit; 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=86.47  E-value=20  Score=31.36  Aligned_cols=34  Identities=35%  Similarity=0.508  Sum_probs=16.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          111 VDKAHARADELEKQIDNLKKESEKQQKEKEALEA  144 (444)
Q Consensus       111 i~~ae~~i~eLe~qIe~LkkelE~~~~e~~~LEa  144 (444)
                      ...++.++..+++.++.+++.+..+..++..++.
T Consensus        89 ~~~l~~r~~~l~~~~~~l~~~l~~l~~~~~~~~~  122 (129)
T cd00584          89 IEFLDKKIEELTKQIEKLQKELAKLKDQINTLEA  122 (129)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344445555555555555555444444444433

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.

>TIGR02231 conserved hypothetical protein

Probab=86.47  E-value=12  Score=40.66  Aligned_cols=35  Identities=17%  Similarity=0.210  Sum_probs=29.3

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 013360           70 GKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKET  104 (444)
Q Consensus        70 ~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s  104 (444)
                      ..+..+..++++|.+.+.+++.++++++.++..+.
T Consensus        68 ~~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~  102 (525)
T TIGR02231        68 PDPERLAELRKQIRELEAELRDLEDRGDALKALAK  102 (525)
T ss_pred             CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            46778999999999999999999999988875553

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.

>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=86.17  E-value=36  Score=37.22  Aligned_cols=21  Identities=19%  Similarity=0.314  Sum_probs=8.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHH
Q 013360          155 DLSAKLEKLQKINDEQKSKIR  175 (444)
Q Consensus       155 Ele~kveeLe~~~eeqekqI~  175 (444)
                      .+...+..|++++..+...|+
T Consensus       491 ~MSEHLasmNeqL~~Q~eeI~  511 (518)
T PF10212_consen  491 MMSEHLASMNEQLAKQREEIQ  511 (518)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333333333

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.

>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=86.07  E-value=60  Score=35.88  Aligned_cols=154  Identities=14%  Similarity=0.205  Sum_probs=68.0

Q ss_pred             HHHHHHHHHHHHHHH-HHHHHHHHhhhhhHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHH
Q 013360           44 KIELDQLKSKIRSLE-SHIDEKTQELKGKDEVVA-----QKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHAR  117 (444)
Q Consensus        44 ~~eL~~l~~ki~~Le-sqi~ele~eI~~k~~eIk-----~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~  117 (444)
                      ....+..+++-+.+. ..+.+++..+.+.++.+.     .....+.+.+..|.....+|..+...++.+ ......-..+
T Consensus        59 ~~~fe~w~~~w~~i~~~~~~~ie~~L~~ae~~~~~~rf~ka~~~i~~~~~~l~~~e~~i~~i~~~l~~L-~~~e~~nr~~  137 (560)
T PF06160_consen   59 EEKFEEWRQKWDEIVTKQLPEIEEQLFEAEEYADKYRFKKAKQAIKEIEEQLDEIEEDIKEILDELDEL-LESEEKNREE  137 (560)
T ss_pred             HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHH
Confidence            334455555555554 444555544444433322     223334444444444444444443333332 1222233334


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          118 ADELEKQIDNLKKESEKQQKEKE----ALEARAIEAEKKISDLSAKL-----EKLQKINDEQKSKIRKTERALKVAEEEM  188 (444)
Q Consensus       118 i~eLe~qIe~LkkelE~~~~e~~----~LEae~~elEkkleEle~kv-----eeLe~~~eeqekqI~elE~~Lq~~Eeel  188 (444)
                      +..+...-..+++.+......-.    .++.++..++....+.....     ......+..++..+..++..+..+=.-+
T Consensus       138 i~~l~~~y~~lrk~ll~~~~~~G~a~~~Le~~L~~ie~~F~~f~~lt~~GD~~~A~eil~~l~~~~~~l~~~~e~IP~l~  217 (560)
T PF06160_consen  138 IEELKEKYRELRKELLAHSFSYGPAIEELEKQLENIEEEFSEFEELTENGDYLEAREILEKLKEETDELEEIMEDIPKLY  217 (560)
T ss_pred             HHHHHHHHHHHHHHHHHhhhhhchhHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Confidence            55555555555555444433322    55555555555544443322     3344444455555555555555444444


Q ss_pred             HHHHHHHhhh
Q 013360          189 MRAKFEATSR  198 (444)
Q Consensus       189 ~kak~E~~~~  198 (444)
                      ..++.+.-..
T Consensus       218 ~~l~~~~P~q  227 (560)
T PF06160_consen  218 KELQKEFPDQ  227 (560)
T ss_pred             HHHHHHhHHH
Confidence            4444444333

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

>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=86.06  E-value=12  Score=38.27  Aligned_cols=79  Identities=20%  Similarity=0.283  Sum_probs=46.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          122 EKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKI----------NDEQKSKIRKTERALKVAEEEMMRA  191 (444)
Q Consensus       122 e~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~----------~eeqekqI~elE~~Lq~~Eeel~ka  191 (444)
                      +++-++|.++++-.+++..-|+...-.--.+++.+.+.+.+|+..          +..++.++.++.+.-..++.++.++
T Consensus         6 QN~N~EL~kQiEIcqEENkiLdK~hRQKV~EVEKLsqTi~ELEEaiLagGaaaNavrdYqrq~~elneEkrtLeRELARa   85 (351)
T PF07058_consen    6 QNQNQELMKQIEICQEENKILDKMHRQKVLEVEKLSQTIRELEEAILAGGAAANAVRDYQRQVQELNEEKRTLERELARA   85 (351)
T ss_pred             hhhcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            333444444444444444433333322233344444444444443          3478888888888888899999998


Q ss_pred             HHHHhhhhH
Q 013360          192 KFEATSRSK  200 (444)
Q Consensus       192 k~E~~~~a~  200 (444)
                      +.-+++.+-
T Consensus        86 KV~aNRVA~   94 (351)
T PF07058_consen   86 KVSANRVAT   94 (351)
T ss_pred             hhhhhhhhh
Confidence            888776643

>KOG0288 consensus WD40 repeat protein TipD [General function prediction only]

Probab=86.04  E-value=42  Score=35.73  Aligned_cols=57  Identities=18%  Similarity=0.131  Sum_probs=35.7

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           43 LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSL   99 (444)
Q Consensus        43 l~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sL   99 (444)
                      ....+.+++-++++-+++.+.+..+..-...+-+.+...+..+|..|+.|+.+...+
T Consensus        11 ~dqr~~~~~~~laq~~k~~s~~~aq~~~~~a~~~ai~a~~~~~E~~l~~Lq~e~~~l   67 (459)
T KOG0288|consen   11 NDQRLIDLNTELAQCEKAQSRLSAQLVILRAESRAIKAKLQEKELELNRLQEENTQL   67 (459)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            445566666666666666666666666666666666666666666666666655544

>KOG2264 consensus Exostosin EXT1L [Signal transduction mechanisms]

Probab=85.75  E-value=6.7  Score=43.07  Aligned_cols=68  Identities=18%  Similarity=0.192  Sum_probs=40.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013360          131 ESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSR  198 (444)
Q Consensus       131 elE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak~E~~~~  198 (444)
                      .++++..-++...-++-++|.+.+++++++++++.+++++++.|..-+.++..++.++..++....++
T Consensus        80 ~~~e~~RI~~sVs~EL~ele~krqel~seI~~~n~kiEelk~~i~~~q~eL~~Lk~~ieqaq~~~~El  147 (907)
T KOG2264|consen   80 ILREQKRILASVSLELTELEVKRQELNSEIEEINTKIEELKRLIPQKQLELSALKGEIEQAQRQLEEL  147 (907)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhHHHHHHHHhHHHHHHHHHHHH
Confidence            34555555555556666666666666666666666666666666666666666665555555544433

>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=85.72  E-value=47  Score=34.30  Aligned_cols=28  Identities=11%  Similarity=0.397  Sum_probs=12.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          113 KAHARADELEKQIDNLKKESEKQQKEKE  140 (444)
Q Consensus       113 ~ae~~i~eLe~qIe~LkkelE~~~~e~~  140 (444)
                      ++.++...|..++..|++.+....-+..
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            4444444444444444444444444433

>COG2900 SlyX Uncharacterized protein conserved in bacteria [Function unknown]

Probab=85.68  E-value=6.8  Score=31.62  Aligned_cols=52  Identities=29%  Similarity=0.354  Sum_probs=35.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          141 ALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAK  192 (444)
Q Consensus       141 ~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak  192 (444)
                      .+++++.++|-++..-+.-+++|+..+.+++..++.+..++..+-+.+...+
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            4666777777777777777777777777777777777776666655544433

>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=85.59  E-value=11  Score=39.02  Aligned_cols=59  Identities=19%  Similarity=0.307  Sum_probs=40.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013360           44 KIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKK  102 (444)
Q Consensus        44 ~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK  102 (444)
                      .+|.+++..+..+|++.-....+.+++...-.+..-+.|..-...+.++...|..+++.
T Consensus         3 ~eEW~eL~~efq~Lqethr~Y~qKleel~~lQ~~C~ssI~~QkkrLk~L~~sLk~~~~~   61 (330)
T PF07851_consen    3 EEEWEELQKEFQELQETHRSYKQKLEELSKLQDKCSSSISHQKKRLKELKKSLKRCKKS   61 (330)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccC
Confidence            35666777777777777777777777777666667777776666777777766666443

; GO: 0016021 integral to membrane

>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=85.57  E-value=10  Score=39.17  Aligned_cols=27  Identities=11%  Similarity=-0.058  Sum_probs=15.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013360          356 RAYGKFLKSATTYHHQVQASVQEMLKK  382 (444)
Q Consensus       356 ~~~~~~~~~a~~~h~q~q~~~~~~~~~  382 (444)
                      ..|..++.-.+.+++.--=+-...|.+
T Consensus       217 ~~~~~~vq~lQ~~YQ~~~Ly~l~AlG~  243 (330)
T PF07851_consen  217 SLYQSVVQFLQYRYQRGCLYRLRALGK  243 (330)
T ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHhcc
Confidence            455566666666666555555566654

; GO: 0016021 integral to membrane

>PF05008 V-SNARE: Vesicle transport v-SNARE protein N-terminus; InterPro: IPR007705 V-SNARE proteins are required for protein traffic between eukaryotic organelles

Probab=85.53  E-value=16  Score=29.13  Aligned_cols=58  Identities=16%  Similarity=0.347  Sum_probs=34.8

Q ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           69 KGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESE  133 (444)
Q Consensus        69 ~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~eLe~qIe~LkkelE  133 (444)
                      +++...|..++..|.+.+..|..|+-++.++.       .........++...+.++..|++++.
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 EQRKSLIREIERDLDEAEELLKQMELEVRSLP-------PSERNQYKSKLRSYRSELKKLKKELK   78 (79)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHCTS--------HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-------HHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            35566666666666666666666666665442       23344556666666666666665553

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.

>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89

Probab=85.42  E-value=15  Score=29.38  Aligned_cols=29  Identities=21%  Similarity=0.305  Sum_probs=11.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          145 RAIEAEKKISDLSAKLEKLQKINDEQKSK  173 (444)
Q Consensus       145 e~~elEkkleEle~kveeLe~~~eeqekq  173 (444)
                      +...+..++...-..+.+|..+++.+.++
T Consensus        34 ERd~~~~~l~~a~~e~~~Lk~E~e~L~~e   62 (69)
T PF14197_consen   34 ERDSAERQLGDAYEENNKLKEENEALRKE   62 (69)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333344444444433333333

>TIGR00998 8a0101 efflux pump membrane protein (multidrug resistance protein A)

Probab=85.38  E-value=43  Score=33.62  Aligned_cols=39  Identities=10%  Similarity=0.136  Sum_probs=20.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHH
Q 013360           48 DQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKS   86 (444)
Q Consensus        48 ~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e   86 (444)
                      ..++..+.+.+.++..++.++......+.+.+..+...+
T Consensus        76 ~~~~~~l~~a~a~l~~~~~~~~~~~~~~~~~~~~i~~~~  114 (334)
T TIGR00998        76 TNAELALAKAEANLAALVRQTKQLEITVQQLQAKVESLK  114 (334)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345566666666666665555554444444333333333

>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=85.36  E-value=19  Score=31.11  Aligned_cols=19  Identities=16%  Similarity=0.464  Sum_probs=7.4

Q ss_pred             HHHHHHHHHHHHHHHhhhh
Q 013360           52 SKIRSLESHIDEKTQELKG   70 (444)
Q Consensus        52 ~ki~~Lesqi~ele~eI~~   70 (444)
                      ..+.+++.+++.+.+.+..
T Consensus         6 ~~~~~l~~~i~~l~~~~~~   24 (129)
T cd00890           6 AQLQQLQQQLEALQQQLQK   24 (129)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            3333444444433333333

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=85.33  E-value=20  Score=29.76  Aligned_cols=29  Identities=24%  Similarity=0.311  Sum_probs=11.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          165 KINDEQKSKIRKTERALKVAEEEMMRAKF  193 (444)
Q Consensus       165 ~~~eeqekqI~elE~~Lq~~Eeel~kak~  193 (444)
                      ...+..+..+..++..+..++..+..++.
T Consensus        69 ~~~~~~~~~i~~l~~~~~~l~~~l~~~~~   97 (106)
T PF01920_consen   69 ERIEKLEKEIKKLEKQLKYLEKKLKELKK   97 (106)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333333333333

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.

>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=85.18  E-value=40  Score=33.07  Aligned_cols=27  Identities=15%  Similarity=0.268  Sum_probs=13.3

Q ss_pred             HHHHHHHHHHHhcCCCchhccchHHHHHHHHH
Q 013360          371 QVQASVQEMLKKHELTSPLATKELEWFAASAL  402 (444)
Q Consensus       371 q~q~~~~~~~~~~e~~~~~a~~~~~w~~a~a~  402 (444)
                      .+|.+|-..++.+|=     .-.++||+||+|
T Consensus       182 ~ly~~ia~~ik~se~-----~~~~lwyi~Y~v  208 (230)
T PF03904_consen  182 HLYKAIASKIKASES-----FWTYLWYIAYLV  208 (230)
T ss_pred             HHHHHHHHHHhhhHh-----HHHHHHHHHHhh
Confidence            344444444444332     223467777754

>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=85.08  E-value=24  Score=33.22  Aligned_cols=72  Identities=14%  Similarity=0.261  Sum_probs=30.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          111 VDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAE  185 (444)
Q Consensus       111 i~~ae~~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~E  185 (444)
                      .....+.|+.|..++...+........++.....   .+.+....+......++..+......|..++.+|..+.
T Consensus       105 ~~~~~~~i~~L~~~i~~~q~~~~~~i~~L~~f~~---~l~~D~~~l~~~~~~l~~~l~~~~g~I~~L~~~I~~~~  176 (184)
T PF05791_consen  105 KEDLKEIIEDLQDQIQKNQDKVQALINELNDFKD---KLQKDSRNLKTDVDELQSILAGENGDIPQLQKQIENLN  176 (184)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHhHHHHHHHHhcccCCHHHHHHHHHHHH
Confidence            3344445555555555555444444433332222   22223333333334444444444444444444444443

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.

>PF02050 FliJ: Flagellar FliJ protein; InterPro: IPR012823 Many flagellar proteins are exported by a flagellum-specific export pathway

Probab=84.72  E-value=21  Score=29.55  Aligned_cols=22  Identities=18%  Similarity=0.244  Sum_probs=7.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q 013360           78 KEKAIQDKSERIVSLQKELSSL   99 (444)
Q Consensus        78 ~e~~I~e~e~~I~eLq~kI~sL   99 (444)
                      ....+..+...+.++...+.+.
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.

>PRK10869 recombination and repair protein; Provisional

Probab=84.67  E-value=58  Score=35.95  Aligned_cols=13  Identities=8%  Similarity=0.072  Sum_probs=5.4

Q ss_pred             HHHHHHHHHHHHH
Q 013360          111 VDKAHARADELEK  123 (444)
Q Consensus       111 i~~ae~~i~eLe~  123 (444)
                      +...++|+..++.
T Consensus       298 l~~ie~Rl~~l~~  310 (553)
T PRK10869        298 LAELEQRLSKQIS  310 (553)
T ss_pred             HHHHHHHHHHHHH
Confidence            3444444444443

>PF13747 DUF4164: Domain of unknown function (DUF4164)

Probab=84.60  E-value=22  Score=29.69  Aligned_cols=47  Identities=30%  Similarity=0.431  Sum_probs=27.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          119 DELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQK  165 (444)
Q Consensus       119 ~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~  165 (444)
                      ..++.+|+.+......+..++...+++.+.++.-..++...+.....
T Consensus        35 ~~~e~ei~~l~~dr~rLa~eLD~~~ar~~~Le~~~~Evs~rL~~a~e   81 (89)
T PF13747_consen   35 DELEEEIQRLDADRSRLAQELDQAEARANRLEEANREVSRRLDSAIE   81 (89)
T ss_pred             hhHHHHHHHHHhhHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55555666665555555555666666666666666665555544433

>KOG1850 consensus Myosin-like coiled-coil protein [Cytoskeleton]

Probab=84.57  E-value=53  Score=33.93  Aligned_cols=86  Identities=15%  Similarity=0.164  Sum_probs=67.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013360          117 RADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEAT  196 (444)
Q Consensus       117 ~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak~E~~  196 (444)
                      -+..-|.-....+.+++.+.+.+..+|.+.-....+-+..+..+=.+-.....+.+.+..+...|+.++.-...++.+-+
T Consensus       237 tl~KSNE~F~~fK~E~ekmtKk~kklEKE~l~wr~K~e~aNk~vL~la~ekt~~~k~~~~lq~kiq~LekLcRALq~ern  316 (391)
T KOG1850|consen  237 TLAKSNELFTKFKQEMEKMTKKIKKLEKETLIWRTKWENANKAVLQLAEEKTVRDKEYETLQKKIQRLEKLCRALQTERN  316 (391)
T ss_pred             HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            34444445666678888888888888888888888888888888888888888889999999999999887777777777


Q ss_pred             hhhHHh
Q 013360          197 SRSKEL  202 (444)
Q Consensus       197 ~~a~ei  202 (444)
                      ++...+
T Consensus       317 el~~~~  322 (391)
T KOG1850|consen  317 ELNKKL  322 (391)
T ss_pred             cHHHHH
Confidence            664433

>PF08702 Fib_alpha: Fibrinogen alpha/beta chain family; InterPro: IPR012290 Fibrinogen plays key roles in both blood clotting and platelet aggregation

Probab=84.54  E-value=32  Score=31.40  Aligned_cols=38  Identities=24%  Similarity=0.330  Sum_probs=18.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          147 IEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVA  184 (444)
Q Consensus       147 ~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~  184 (444)
                      -.+|..+....+.+..|+..+..+..+|..|+..+...
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            33344444444444555555555555555555544443

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 ....

>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=84.47  E-value=31  Score=31.14  Aligned_cols=10  Identities=40%  Similarity=0.561  Sum_probs=3.6

Q ss_pred             HHHHHHHHHH
Q 013360           50 LKSKIRSLES   59 (444)
Q Consensus        50 l~~ki~~Les   59 (444)
                      +...+..++.
T Consensus        10 l~~~~~~l~~   19 (202)
T PF01442_consen   10 LSSRTEELEE   19 (202)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            3333333333

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 ....

>PF04102 SlyX: SlyX; InterPro: IPR007236 The SlyX protein has no known function

Probab=84.43  E-value=6.4  Score=31.27  Aligned_cols=44  Identities=16%  Similarity=0.259  Sum_probs=18.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          150 EKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKF  193 (444)
Q Consensus       150 EkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak~  193 (444)
                      +.++.+++.++.-++..++++...+-++...|..++.++..+..
T Consensus         3 e~Ri~~LE~~la~qe~~ie~Ln~~v~~Qq~~I~~L~~~l~~L~~   46 (69)
T PF04102_consen    3 EERIEELEIKLAFQEDTIEELNDVVTEQQRQIDRLQRQLRLLRE   46 (69)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444444444444444444444444444444333

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=84.37  E-value=18  Score=31.14  Aligned_cols=26  Identities=15%  Similarity=0.328  Sum_probs=10.6

Q ss_pred             HHHHHHHHHHhhhhhHHHHHHHHHHH
Q 013360           57 LESHIDEKTQELKGKDEVVAQKEKAI   82 (444)
Q Consensus        57 Lesqi~ele~eI~~k~~eIk~~e~~I   82 (444)
                      +..+...+.++|+.....+..+...+
T Consensus         4 l~~~~~~l~~~i~~l~~~~~~l~~~~   29 (129)
T cd00890           4 LAAQLQQLQQQLEALQQQLQKLEAQL   29 (129)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444444333333333

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.

>PF07798 DUF1640: Protein of unknown function (DUF1640); InterPro: IPR024461 This family consists of uncharacterised proteins

Probab=84.07  E-value=36  Score=31.69  Aligned_cols=23  Identities=22%  Similarity=0.117  Sum_probs=13.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q 013360           78 KEKAIQDKSERIVSLQKELSSLQ  100 (444)
Q Consensus        78 ~e~~I~e~e~~I~eLq~kI~sLq  100 (444)
                      +++..-.....+++|..++..+.
T Consensus        49 ~e~~~~~~~a~~~eLr~el~~~~   71 (177)
T PF07798_consen   49 LENQEYLFKAAIAELRSELQNSR   71 (177)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            44455555566666666665543

>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=84.00  E-value=22  Score=29.17  Aligned_cols=53  Identities=17%  Similarity=0.298  Sum_probs=26.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           45 IELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELS   97 (444)
Q Consensus        45 ~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~   97 (444)
                      .-+++++.-+..++.+++.+..++++.-.+.+++-..++.+.+.+..+-+.+.
T Consensus        26 ~~l~~~~~ti~~l~~~~~~i~~e~~~ll~~~n~l~~dv~~k~~~v~~~~~~v~   78 (90)
T PF06103_consen   26 KTLDEVNKTIDTLQEQVDPITKEINDLLHNTNELLEDVNEKLEKVDPVFEAVA   78 (90)
T ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHH
Confidence            34555555555555555555555555444444444444444444444444333

>PRK02119 hypothetical protein; Provisional

Probab=83.95  E-value=8.9  Score=30.94  Aligned_cols=46  Identities=11%  Similarity=0.180  Sum_probs=22.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          148 EAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKF  193 (444)
Q Consensus       148 elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak~  193 (444)
                      .++.++.+++.++.-++..++++...+-++.+.|..++.++..+..
T Consensus         6 ~~e~Ri~~LE~rla~QE~tie~LN~~v~~Qq~~id~L~~ql~~L~~   51 (73)
T PRK02119          6 NLENRIAELEMKIAFQENLLEELNQALIEQQFVIDKMQVQLRYMAN   51 (73)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444555555555555555555555444444444444444444433

>PF14362 DUF4407: Domain of unknown function (DUF4407)

Probab=83.87  E-value=50  Score=33.14  Aligned_cols=19  Identities=32%  Similarity=0.546  Sum_probs=7.3

Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q 013360          117 RADELEKQIDNLKKESEKQ  135 (444)
Q Consensus       117 ~i~eLe~qIe~LkkelE~~  135 (444)
                      ++..++.++..++++++..
T Consensus       143 ~i~~l~~~~~~~~~~~~~~  161 (301)
T PF14362_consen  143 EIAALQAEIDQLEKEIDRA  161 (301)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            3333334444444333333

>KOG0982 consensus Centrosomal protein Nuf [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]

Probab=83.77  E-value=66  Score=34.45  Aligned_cols=21  Identities=33%  Similarity=0.213  Sum_probs=10.3

Q ss_pred             chHHHHHHHHHHHHHHHHHHH
Q 013360           42 PLKIELDQLKSKIRSLESHID   62 (444)
Q Consensus        42 ~l~~eL~~l~~ki~~Lesqi~   62 (444)
                      .++.+--+|......|+.+..
T Consensus       247 rlkqEnlqLvhR~h~LEEq~r  267 (502)
T KOG0982|consen  247 RLKQENLQLVHRYHMLEEQRR  267 (502)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            345555555555555544443

>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=83.75  E-value=76  Score=35.12  Aligned_cols=22  Identities=14%  Similarity=0.412  Sum_probs=10.7

Q ss_pred             ccHHHHHHHHHHHHHHHHHHHH
Q 013360          349 PYTKKVVRAYGKFLKSATTYHH  370 (444)
Q Consensus       349 Py~~~~~~~~~~~~~~a~~~h~  370 (444)
                      |..-.--..|..+++.+..|-.
T Consensus       332 P~~~~~l~~f~~v~~~~~~Fe~  353 (593)
T PF06248_consen  332 PTSASELQEFEEVLESVEEFEE  353 (593)
T ss_pred             CCCHHHHHHHHHHHHHHHHHHH
Confidence            4444444445555555554443

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

>PF02403 Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal domain; InterPro: IPR015866 The aminoacyl-tRNA synthetases (6

Probab=83.72  E-value=13  Score=31.51  Aligned_cols=25  Identities=36%  Similarity=0.404  Sum_probs=9.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          162 KLQKINDEQKSKIRKTERALKVAEE  186 (444)
Q Consensus       162 eLe~~~eeqekqI~elE~~Lq~~Ee  186 (444)
                      .+.....+...++..++.++..++.
T Consensus        71 ~l~~e~~~lk~~i~~le~~~~~~e~   95 (108)
T PF02403_consen   71 ELKAEVKELKEEIKELEEQLKELEE   95 (108)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333334444444444333333

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 ....

>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed

Probab=83.56  E-value=30  Score=39.81  Aligned_cols=21  Identities=33%  Similarity=0.506  Sum_probs=17.5

Q ss_pred             HHHHHHHHHHHhcCCCchhcc
Q 013360          371 QVQASVQEMLKKHELTSPLAT  391 (444)
Q Consensus       371 q~q~~~~~~~~~~e~~~~~a~  391 (444)
                      .+...|.++|.+|++.+.|-.
T Consensus       746 ~Lr~~v~~~L~~~~~V~~f~~  766 (782)
T PRK00409        746 KLRKGVQEFLKKHPSVKSFRD  766 (782)
T ss_pred             HHHHHHHHHHcCCCceeeeee
Confidence            678889999999998887743

>PF13747 DUF4164: Domain of unknown function (DUF4164)

Probab=83.52  E-value=25  Score=29.40  Aligned_cols=27  Identities=22%  Similarity=0.388  Sum_probs=10.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          126 DNLKKESEKQQKEKEALEARAIEAEKK  152 (444)
Q Consensus       126 e~LkkelE~~~~e~~~LEae~~elEkk  152 (444)
                      +.++.++..+..+...|..++...+.+
T Consensus        35 ~~~e~ei~~l~~dr~rLa~eLD~~~ar   61 (89)
T PF13747_consen   35 DELEEEIQRLDADRSRLAQELDQAEAR   61 (89)
T ss_pred             hhHHHHHHHHHhhHHHHHHHHHhHHHH
Confidence            333333333333333333333333333

>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=83.52  E-value=33  Score=30.82  Aligned_cols=43  Identities=26%  Similarity=0.424  Sum_probs=27.9

Q ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHH
Q 013360           42 PLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQD   84 (444)
Q Consensus        42 ~l~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e   84 (444)
                      ..+.||++.+..|+.+++.+....+-+..+..++.+-+..+.+
T Consensus        12 ~a~aeL~~a~~~I~~~q~r~a~a~~~~~~r~seldqA~~~~~e   54 (136)
T PF11570_consen   12 AARAELDQADEDIATLQERQASAEQALNGRRSELDQANKKVKE   54 (136)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence            3456666666666666666666666666666666666666666

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=83.45  E-value=6.9  Score=34.13  Aligned_cols=40  Identities=33%  Similarity=0.409  Sum_probs=24.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          113 KAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKK  152 (444)
Q Consensus       113 ~ae~~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkk  152 (444)
                      ...+-+..++..+..+.+.++.++.++..+..+...+...
T Consensus        83 ~~~eA~~~l~~~~~~l~~~~~~l~~~l~~l~~~~~~i~~~  122 (126)
T TIGR00293        83 DAEEAIEFLKKRIEELEKAIEKLQEALAELASRAQQLEQE  122 (126)
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3455566666777777766666666666666555555443

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.

>PF10267 Tmemb_cc2: Predicted transmembrane and coiled-coil 2 protein; InterPro: IPR019394 This family of transmembrane coiled-coil containing proteins is conserved from worms to humans

Probab=83.37  E-value=67  Score=34.16  Aligned_cols=20  Identities=5%  Similarity=0.202  Sum_probs=9.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q 013360          173 KIRKTERALKVAEEEMMRAK  192 (444)
Q Consensus       173 qI~elE~~Lq~~Eeel~kak  192 (444)
                      +..++.+.++..+..|.+++
T Consensus       299 RaRdi~E~~Es~qtRisklE  318 (395)
T PF10267_consen  299 RARDIWEVMESCQTRISKLE  318 (395)
T ss_pred             HHhHHHHHHHHHHHHHHHHH
Confidence            34444444555555455544

Its function is unknown.

>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=83.37  E-value=21  Score=30.83  Aligned_cols=49  Identities=20%  Similarity=0.336  Sum_probs=24.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           45 IELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQ  100 (444)
Q Consensus        45 ~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLq  100 (444)
                      .+...+++...-|..-+-+-...       -..+...+..++..|..+++++++|.
T Consensus         5 ~eYsKLraQ~~vLKKaVieEQ~k-------~~~L~e~Lk~ke~~LRk~eqE~dSL~   53 (102)
T PF10205_consen    5 QEYSKLRAQNQVLKKAVIEEQAK-------NAELKEQLKEKEQALRKLEQENDSLT   53 (102)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444555555444333333333       33455555555566666666666664

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.

>PF15456 Uds1: Up-regulated During Septation

Probab=83.30  E-value=27  Score=31.12  Aligned_cols=18  Identities=22%  Similarity=0.189  Sum_probs=6.8

Q ss_pred             HHHHHHHHHHHHHHHHHH
Q 013360          169 EQKSKIRKTERALKVAEE  186 (444)
Q Consensus       169 eqekqI~elE~~Lq~~Ee  186 (444)
                      ....+++++..++..++.
T Consensus        85 ~~~rk~ee~~~eL~~le~  102 (124)
T PF15456_consen   85 ESDRKCEELAQELWKLEN  102 (124)
T ss_pred             HHHhhHHHHHHHHHHHHH
Confidence            333333333333333333

>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=83.28  E-value=48  Score=32.51  Aligned_cols=52  Identities=13%  Similarity=0.191  Sum_probs=28.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          109 EQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKL  160 (444)
Q Consensus       109 ~~i~~ae~~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kv  160 (444)
                      .+..-.++++.+|+.|..-+=+.++.++++.+..+.+...+...+++..+..
T Consensus        36 ~q~~l~nee~~eLk~qnkli~K~l~ei~~~qd~reK~~~~I~ssL~eTtkdf   87 (230)
T PF03904_consen   36 TQMSLENEEIQELKRQNKLIIKYLSEIEEKQDIREKNLKEIKSSLEETTKDF   87 (230)
T ss_pred             HHHHHhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444445566666666666666666666555555555555555444444433

>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=83.20  E-value=41  Score=34.42  Aligned_cols=9  Identities=44%  Similarity=0.530  Sum_probs=4.8

Q ss_pred             hhhccCCCh
Q 013360          204 EVHSAWLPP  212 (444)
Q Consensus       204 ~~~g~wl~P  212 (444)
                      +.||-=|.|
T Consensus       171 ~khGlVlv~  179 (302)
T PF09738_consen  171 EKHGLVLVP  179 (302)
T ss_pred             HHCCeeeCC
Confidence            445655555

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.

>PF06705 SF-assemblin: SF-assemblin/beta giardin

Probab=83.15  E-value=49  Score=32.43  Aligned_cols=14  Identities=21%  Similarity=0.503  Sum_probs=5.4

Q ss_pred             HHHHHHHHHHHHHH
Q 013360          117 RADELEKQIDNLKK  130 (444)
Q Consensus       117 ~i~eLe~qIe~Lkk  130 (444)
                      ....+..++..|..
T Consensus       122 ~~~~l~~~l~~l~~  135 (247)
T PF06705_consen  122 LNQELVRELNELQE  135 (247)
T ss_pred             HHHHHHHHHHHHHH
Confidence            33333344444433

>PF05546 She9_MDM33: She9 / Mdm33 family; InterPro: IPR008839 Members of this family are mitochondrial inner membrane proteins with a role in inner mitochondrial membrane organisation and biogenesis []

Probab=83.14  E-value=47  Score=32.21  Aligned_cols=21  Identities=24%  Similarity=0.184  Sum_probs=10.4

Q ss_pred             HHHHHHHHHHHHHHHhhhhhH
Q 013360           52 SKIRSLESHIDEKTQELKGKD   72 (444)
Q Consensus        52 ~ki~~Lesqi~ele~eI~~k~   72 (444)
                      .-++.|+..+....+.+++.+
T Consensus         9 ~~~d~lq~~i~~as~~lNd~T   29 (207)
T PF05546_consen    9 FYMDSLQETIFTASQALNDVT   29 (207)
T ss_pred             HHHHHHHHHHHHHHHHHHhcc
Confidence            334455555555555555444

The yeast Mdm33 protein assembles into an oligomeric complex in the inner membrane where it performs homotypic protein-protein interactions. It has been suggested that Mdm33 plays a distinct role, possibly involved in fission of the mitochondrial inner membrane [].

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

Probab=83.11  E-value=37  Score=34.32  Aligned_cols=20  Identities=30%  Similarity=0.360  Sum_probs=9.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q 013360          118 ADELEKQIDNLKKESEKQQK  137 (444)
Q Consensus       118 i~eLe~qIe~LkkelE~~~~  137 (444)
                      +.+++++|..|++-+|.++.
T Consensus       119 LKEARkEIkQLkQvieTmrs  138 (305)
T PF15290_consen  119 LKEARKEIKQLKQVIETMRS  138 (305)
T ss_pred             HHHHHHHHHHHHHHHHHHHh
Confidence            34445555555555555443

>KOG4302 consensus Microtubule-associated protein essential for anaphase spindle elongation [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]

Probab=83.07  E-value=89  Score=35.39  Aligned_cols=13  Identities=31%  Similarity=0.555  Sum_probs=8.3

Q ss_pred             HHhHHHhhhcccc
Q 013360          270 VKEQWVVFTTNVE  282 (444)
Q Consensus       270 ~~~~w~~~~~~~~  282 (444)
                      +.+=||.+.++.+
T Consensus       256 ~~~LWn~l~ts~E  268 (660)
T KOG4302|consen  256 LLELWNLLDTSDE  268 (660)
T ss_pred             HHHHHHhccCCHH
Confidence            5566887666653

>PF06810 Phage_GP20: Phage minor structural protein GP20; InterPro: IPR009636 This family consists of several phage minor structural protein Gp20 sequences and prophage sequences of around 180 residues in length

Probab=83.03  E-value=6.7  Score=36.12  Aligned_cols=62  Identities=18%  Similarity=0.250  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHH---HHHHHHHHHHHHHHHHH----HHHhhhhhhH
Q 013360           46 ELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEK---AIQDKSERIVSLQKELS----SLQKKETLNA  107 (444)
Q Consensus        46 eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~---~I~e~e~~I~eLq~kI~----sLqkK~s~~~  107 (444)
                      .+...+.++..++.++..++.+|.+++.+|+.+..   .++++..+|.+|+.+..    ..+.++...+
T Consensus        14 ~i~~~K~~~~~~~~e~~~~k~ql~~~d~~i~~Lk~~~~d~eeLk~~i~~lq~~~~~~~~~~e~~l~~~~   82 (155)
T PF06810_consen   14 DIEAPKAKVDKVKEERDNLKTQLKEADKQIKDLKKSAKDNEELKKQIEELQAKNKTAKEEYEAKLAQMK   82 (155)
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH

The function of this family is unknown.; GO: 0005198 structural molecule activity

>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=83.02  E-value=19  Score=31.59  Aligned_cols=36  Identities=19%  Similarity=0.393  Sum_probs=20.4

Q ss_pred             HHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013360           50 LKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQK  101 (444)
Q Consensus        50 l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqk  101 (444)
                      ...+...++.+|+--..                ..++..|.-|+.-|..++.
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            56666666666654322                2334666666666666543

>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=83.01  E-value=56  Score=36.17  Aligned_cols=21  Identities=19%  Similarity=0.468  Sum_probs=9.8

Q ss_pred             chHHHHHHHHHHHHHHHHHHH
Q 013360           42 PLKIELDQLKSKIRSLESHID   62 (444)
Q Consensus        42 ~l~~eL~~l~~ki~~Lesqi~   62 (444)
                      .+...+..+..++.+++.++.
T Consensus        11 dl~~~I~~L~~~i~~~k~eV~   31 (593)
T PF06248_consen   11 DLRKSISRLSRRIEELKEEVH   31 (593)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444444444443

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

>PF07989 Microtub_assoc: Microtubule associated; InterPro: IPR012943 Proteins with this domain associate with the spindle body during cell division []

Probab=82.76  E-value=16  Score=29.65  Aligned_cols=17  Identities=29%  Similarity=0.644  Sum_probs=6.6

Q ss_pred             HHHHHHHHHHHHHHHHH
Q 013360          120 ELEKQIDNLKKESEKQQ  136 (444)
Q Consensus       120 eLe~qIe~LkkelE~~~  136 (444)
                      +|..++..|++++...+
T Consensus        47 eLKve~~~L~~el~~~~   63 (75)
T PF07989_consen   47 ELKVEVESLKRELQEKK   63 (75)
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            33444444443333333

>KOG2685 consensus Cystoskeletal protein Tektin [Cytoskeleton]

Probab=82.75  E-value=32  Score=36.54  Aligned_cols=43  Identities=19%  Similarity=0.190  Sum_probs=18.5

Q ss_pred             HHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           52 SKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQK   94 (444)
Q Consensus        52 ~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~   94 (444)
                      ..|...+.-.+++..++....+||.+.+..|+..+..|.+..+
T Consensus       278 ~ri~etqdar~kL~~ql~k~leEi~~~e~~I~~le~airdK~~  320 (421)
T KOG2685|consen  278 KRIRETQDARNKLEWQLAKTLEEIADAENNIEALERAIRDKEG  320 (421)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhcccc
Confidence            3334444444444444444444444444444444444443333

>PF07989 Microtub_assoc: Microtubule associated; InterPro: IPR012943 Proteins with this domain associate with the spindle body during cell division []

Probab=82.46  E-value=17  Score=29.50  Aligned_cols=28  Identities=43%  Similarity=0.372  Sum_probs=14.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          120 ELEKQIDNLKKESEKQQKEKEALEARAI  147 (444)
Q Consensus       120 eLe~qIe~LkkelE~~~~e~~~LEae~~  147 (444)
                      +.+.+|++|+++.-.++-.+.-++.++.
T Consensus         4 Eqe~~i~~L~KENF~LKLrI~fLee~l~   31 (75)
T PF07989_consen    4 EQEEQIDKLKKENFNLKLRIYFLEERLQ   31 (75)
T ss_pred             HHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            3445555555555555555555555444

>PF15294 Leu_zip: Leucine zipper

Probab=82.35  E-value=60  Score=32.88  Aligned_cols=73  Identities=32%  Similarity=0.426  Sum_probs=40.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHH
Q 013360          121 LEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQK---------SKIRKTERALKVAEEEMMRA  191 (444)
Q Consensus       121 Le~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqe---------kqI~elE~~Lq~~Eeel~ka  191 (444)
                      ++.+|++|+.+.+.++..+..++.+....-.+...++..+.+++.....++         ..+..++..+..++.++.+.
T Consensus       130 l~kEi~rLq~EN~kLk~rl~~le~~at~~l~Ek~kl~~~L~~lq~~~~~~~~k~~~~~~~q~l~dLE~k~a~lK~e~ek~  209 (278)
T PF15294_consen  130 LNKEIDRLQEENEKLKERLKSLEKQATSALDEKSKLEAQLKELQDEQGDQKGKKDLSFKAQDLSDLENKMAALKSELEKA  209 (278)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccccccccchhhHHHHHHHHHHHHHHH
Confidence            556666666666666666666666655555555556666666555333222         23455555555555554444


Q ss_pred             HH
Q 013360          192 KF  193 (444)
Q Consensus       192 k~  193 (444)
                      -.
T Consensus       210 ~~  211 (278)
T PF15294_consen  210 LQ  211 (278)
T ss_pred             HH
Confidence            33

>KOG0998 consensus Synaptic vesicle protein EHS-1 and related EH domain proteins [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=82.33  E-value=3.3  Score=47.90  Aligned_cols=58  Identities=22%  Similarity=0.239  Sum_probs=31.4

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           43 LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQ  100 (444)
Q Consensus        43 l~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLq  100 (444)
                      +..+|..+.....++..+..+......+....+...+...........+...-+.++.
T Consensus       433 ~~~~l~~~~s~~~~l~~~~~~~~~k~~e~~~~~s~s~~~~~~~~~k~~~~~~~~s~~~  490 (847)
T KOG0998|consen  433 LANELSNLASTSQQLPAQKDTVQDKLNELDAQKSQSKEKFSTTRKKKQEEPQWISSLD  490 (847)
T ss_pred             chhhhhhcchhhhccccccchhhhhhhhhhhhhhHHHhhhhhhhhhhhcccccccccc
Confidence            4566666666666666666665555555555555555444444444444444444443

>KOG4593 consensus Mitotic checkpoint protein MAD1 [Cell cycle control, cell division, chromosome partitioning]

Probab=82.29  E-value=95  Score=35.18  Aligned_cols=149  Identities=18%  Similarity=0.168  Sum_probs=0.0

Q ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHH--HHHHHHHHHHH
Q 013360           42 PLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAA--EQVDKAHARAD  119 (444)
Q Consensus        42 ~l~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~--~~i~~ae~~i~  119 (444)
                      .+...+.++..-+.++.+.+++++.+..-.......+...+...++.+..-..++...+.++.....  .+....+.++.
T Consensus       148 e~~~k~ae~~~lr~k~dss~s~~q~e~~~~~~~~~~~~s~l~~~eke~~~~~~ql~~~~q~~~~~~~~l~e~~~~~qq~a  227 (716)
T KOG4593|consen  148 EKEDKLAELGTLRNKLDSSLSELQWEVMLQEMRAKRLHSELQNEEKELDRQHKQLQEENQKIQELQASLEERADHEQQNA  227 (716)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          120 ELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLE---KLQKINDEQKSKIRKTERALKVAEEEMMRA  191 (444)
Q Consensus       120 eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kve---eLe~~~eeqekqI~elE~~Lq~~Eeel~ka  191 (444)
                      +.+.++. ...+++.++......-.++.+++....+...++.   +-...+.-++..+..++..+..++.-..+.
T Consensus       228 ~~~~ql~-~~~ele~i~~~~~dqlqel~~l~~a~~q~~ee~~~~re~~~tv~~LqeE~e~Lqskl~~~~~l~~~~  301 (716)
T KOG4593|consen  228 ELEQQLS-LSEELEAINKNMKDQLQELEELERALSQLREELATLRENRETVGLLQEELEGLQSKLGRLEKLQSTL  301 (716)
T ss_pred             hHHHHHH-hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHH

>TIGR03752 conj_TIGR03752 integrating conjugative element protein, PFL_4705 family

Probab=82.23  E-value=20  Score=38.80  Aligned_cols=36  Identities=22%  Similarity=0.379  Sum_probs=18.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          141 ALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRK  176 (444)
Q Consensus       141 ~LEae~~elEkkleEle~kveeLe~~~eeqekqI~e  176 (444)
                      .++++..++..+.+.+...+..++..+.+++.+++.
T Consensus       106 av~~~~~~~~~~~~ql~~~~~~~~~~l~~l~~~l~~  141 (472)
T TIGR03752       106 AVQSETQELTKEIEQLKSERQQLQGLIDQLQRRLAG  141 (472)
T ss_pred             HHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            333444445555555555555555555555555543

Members of this protein family are found occasionally on plasmids such as the Pseudomonas putida toluene catabolic TOL plasmid pWWO_p085. Usually, however, they are found on the bacterial main chromosome in regions flanked by markers of conjugative transfer and/or transposition.

>COG4477 EzrA Negative regulator of septation ring formation [Cell division and chromosome partitioning]

Probab=82.19  E-value=85  Score=34.56  Aligned_cols=40  Identities=18%  Similarity=0.272  Sum_probs=18.7

Q ss_pred             CchHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHH
Q 013360           41 SPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAI   82 (444)
Q Consensus        41 ~~l~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I   82 (444)
                      ..+..+++.|+-++......+..+  ++++-++++..++..|
T Consensus       251 ~~id~~~~~L~~~l~~~~~~l~~L--eld~aeeel~~I~e~i  290 (570)
T COG4477         251 VNIDSRLERLKEQLVENSELLTQL--ELDEAEEELGLIQEKI  290 (570)
T ss_pred             ccHHHHHHHHHHHHHHHHhHHHHh--hhhhHHHHHHHHHHHH
Confidence            445556666665555554444433  2333334444333333

>COG4487 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=82.15  E-value=77  Score=34.03  Aligned_cols=25  Identities=8%  Similarity=0.109  Sum_probs=13.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          357 AYGKFLKSATTYHHQVQASVQEMLK  381 (444)
Q Consensus       357 ~~~~~~~~a~~~h~q~q~~~~~~~~  381 (444)
                      ....+.+++....+.+++...+.+.
T Consensus       396 ~i~k~~e~se~~l~~~~n~~~~~i~  420 (438)
T COG4487         396 EIEKLIESTENMLGSLLNILGKKIG  420 (438)
T ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHH
Confidence            4445555555555555555555554

>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=82.13  E-value=25  Score=28.35  Aligned_cols=24  Identities=29%  Similarity=0.400  Sum_probs=12.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           77 QKEKAIQDKSERIVSLQKELSSLQ  100 (444)
Q Consensus        77 ~~e~~I~e~e~~I~eLq~kI~sLq  100 (444)
                      +++..|.+.-..|+=|+-+|+.|-
T Consensus         8 kLE~KiqqAvdTI~LLQmEieELK   31 (79)
T COG3074           8 KLEAKVQQAIDTITLLQMEIEELK   31 (79)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344455555555555555555443

>PRK04325 hypothetical protein; Provisional

Probab=81.97  E-value=12  Score=30.34  Aligned_cols=45  Identities=16%  Similarity=0.309  Sum_probs=22.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          148 EAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAK  192 (444)
Q Consensus       148 elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak  192 (444)
                      .++.++.+++.++.-++..++++...+-++...|..++.++..+.
T Consensus         6 ~~e~Ri~~LE~klAfQE~tIe~LN~vv~~Qq~~I~~L~~ql~~L~   50 (74)
T PRK04325          6 EMEDRITELEIQLAFQEDLIDGLNATVARQQQTLDLLQAQLRLLY   50 (74)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344455555555555555555555555555544444444444443

>PF04871 Uso1_p115_C: Uso1 / p115 like vesicle tethering protein, C terminal region; InterPro: IPR006955 This domain identifies a group of proteins, which are described as: General vesicular transport factor, Transcytosis associate protein (TAP) and Vesicle docking protein

Probab=81.88  E-value=39  Score=30.44  Aligned_cols=27  Identities=22%  Similarity=0.417  Sum_probs=11.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          149 AEKKISDLSAKLEKLQKINDEQKSKIR  175 (444)
Q Consensus       149 lEkkleEle~kveeLe~~~eeqekqI~  175 (444)
                      .++.+.+|---+.++..++..++.++.
T Consensus        82 ~q~EldDLL~ll~Dle~K~~kyk~rLk  108 (136)
T PF04871_consen   82 AQSELDDLLVLLGDLEEKRKKYKERLK  108 (136)
T ss_pred             hhhhHHHHHHHHHhHHHHHHHHHHHHH
Confidence            333444444444444444444443333

This myosin-shaped molecule consists of an N-terminal globular head region, a coiled-coil tail which mediates dimerisation, and a short C-terminal acidic region []. p115 tethers COP1 vesicles to the Golgi by binding the coiled coil proteins giantin (on the vesicles) and GM130 (on the Golgi), via its C-terminal acidic region. It is required for intercisternal transport in the Golgi stack. This domain is found in the acidic C-terminal region, which binds to the golgins giantin and GM130. p115 is thought to juxtapose two membranes by binding giantin with one acidic region, and GM130 with another [].; GO: 0008565 protein transporter activity, 0006886 intracellular protein transport, 0005737 cytoplasm, 0016020 membrane

>PRK00295 hypothetical protein; Provisional

Probab=81.86  E-value=12  Score=29.80  Aligned_cols=44  Identities=9%  Similarity=0.150  Sum_probs=21.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          150 EKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKF  193 (444)
Q Consensus       150 EkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak~  193 (444)
                      +.++.+++.++.-++..++++...+-++.+.|..++.++..+..
T Consensus         4 e~Ri~~LE~kla~qE~tie~Ln~~v~~Qq~~I~~L~~ql~~L~~   47 (68)
T PRK00295          4 EERVTELESRQAFQDDTIQALNDVLVEQQRVIERLQLQMAALIK   47 (68)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444555555555555555555554444444444444444433

>TIGR01069 mutS2 MutS2 family protein

Probab=81.84  E-value=28  Score=40.05  Aligned_cols=21  Identities=29%  Similarity=0.487  Sum_probs=18.1

Q ss_pred             HHHHHHHHHHHhcCCCchhcc
Q 013360          371 QVQASVQEMLKKHELTSPLAT  391 (444)
Q Consensus       371 q~q~~~~~~~~~~e~~~~~a~  391 (444)
                      .+...|.++|.+|++.+.|-.
T Consensus       735 ~Lr~~v~~~L~~~~~V~~f~~  755 (771)
T TIGR01069       735 KLRKGVQELLKNHPKVKSFRD  755 (771)
T ss_pred             HHHHHHHHHhcCCcceeeecc
Confidence            688899999999999988844

Function of MutS2 is unknown. It should not be considered a DNA mismatch repair protein. It is likely a DNA mismatch binding protein of unknown cellular function.

>PF07111 HCR: Alpha helical coiled-coil rod protein (HCR); InterPro: IPR009800 This family consists of several mammalian alpha helical coiled-coil rod HCR proteins

Probab=81.82  E-value=1e+02  Score=35.10  Aligned_cols=171  Identities=19%  Similarity=0.255  Sum_probs=0.0

Q ss_pred             chHHHHHHH-HHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHH
Q 013360           42 PLKIELDQL-KSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADE  120 (444)
Q Consensus        42 ~l~~eL~~l-~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~e  120 (444)
                      +.+.+|+++ +..-.+|.+=-.+-...+.++......+++.+...+......-+++...+.+...+ .+++.+..+.+.-
T Consensus       137 ~~q~ELee~q~~Hqeql~~Lt~aHq~~l~sL~~k~~~Le~~L~~le~~r~~e~~~La~~q~e~d~L-~~qLsk~~~~le~  215 (739)
T PF07111_consen  137 GSQRELEEAQRLHQEQLSSLTQAHQEALASLTSKAEELEKSLESLETRRAGEAKELAEAQREADLL-REQLSKTQEELEA  215 (739)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHhHHHHHH


Q ss_pred             HHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013360          121 LEKQIDNLKKESEKQ---QKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATS  197 (444)
Q Consensus       121 Le~qIe~LkkelE~~---~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak~E~~~  197 (444)
                      -...++.|.+-+-.+   +..-...+.+..++-..++-++...+.|....+-++.+++.+..-+.-.|+++-+.......
T Consensus       216 q~tlv~~LR~YvGeq~p~~~~~~~we~Er~~L~~tVq~L~edR~~L~~T~ELLqVRvqSLt~IL~LQEeEL~~Kvqp~d~  295 (739)
T PF07111_consen  216 QVTLVEQLRKYVGEQVPPEVHSQAWEPEREELLETVQHLQEDRDALQATAELLQVRVQSLTDILTLQEEELCRKVQPSDP  295 (739)
T ss_pred             HHHHHHHHHHHHhhhCCcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCC


Q ss_pred             hhHHhhhhhccCCChh
Q 013360          198 RSKELTEVHSAWLPPW  213 (444)
Q Consensus       198 ~a~ei~~~~g~wl~Pw  213 (444)
                      +..+-+...+..|--|
T Consensus       296 Le~e~~~K~q~LL~~W  311 (739)
T PF07111_consen  296 LEPEFSRKCQQLLSRW  311 (739)
T ss_pred             CCchhHHHHHHHHHHH

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

>PF08172 CASP_C: CASP C terminal; InterPro: IPR012955 This domain is the C-terminal region of the CASP family of proteins

Probab=81.76  E-value=26  Score=34.75  Aligned_cols=43  Identities=12%  Similarity=0.298  Sum_probs=24.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013360          156 LSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSR  198 (444)
Q Consensus       156 le~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak~E~~~~  198 (444)
                      +.+.-+.....+.+++.++..+.+.+..++.++..++..-..+
T Consensus        84 VtsQRDRFR~Rn~ELE~elr~~~~~~~~L~~Ev~~L~~DN~kL  126 (248)
T PF08172_consen   84 VTSQRDRFRQRNAELEEELRKQQQTISSLRREVESLRADNVKL  126 (248)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444555555555555555555555566666666665555544

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

>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=81.73  E-value=45  Score=31.00  Aligned_cols=91  Identities=10%  Similarity=0.192  Sum_probs=58.0

Q ss_pred             HHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           50 LKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLK  129 (444)
Q Consensus        50 l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~eLe~qIe~Lk  129 (444)
                      .......|+..+.+....+...+.++.+....++.....+......|+.+...++...-..+.....-.+.+..++..++
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            34445566666666666777777777777778888888888888888888766666544555555555555555555555


Q ss_pred             HHHHHHHHHHH
Q 013360          130 KESEKQQKEKE  140 (444)
Q Consensus       130 kelE~~~~e~~  140 (444)
                      .++......+.
T Consensus        93 ~~~a~l~~~l~  103 (158)
T PF09486_consen   93 AELAALRQALR  103 (158)
T ss_pred             HHHHHHHHHHH
Confidence            44444443333

>PRK11020 hypothetical protein; Provisional

Probab=81.54  E-value=13  Score=32.52  Aligned_cols=24  Identities=13%  Similarity=0.314  Sum_probs=12.4

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           43 LKIELDQLKSKIRSLESHIDEKTQ   66 (444)
Q Consensus        43 l~~eL~~l~~ki~~Lesqi~ele~   66 (444)
                      ++.||..|+.+++.++.+.....+
T Consensus         3 ~K~Eiq~L~drLD~~~~Klaaa~~   26 (118)
T PRK11020          3 EKNEIKRLSDRLDAIRHKLAAASL   26 (118)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHh
Confidence            345555555555555555554433

>KOG0240 consensus Kinesin (SMY1 subfamily) [Cytoskeleton]

Probab=81.27  E-value=78  Score=35.08  Aligned_cols=39  Identities=23%  Similarity=0.323  Sum_probs=22.8

Q ss_pred             HHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           58 ESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKEL   96 (444)
Q Consensus        58 esqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI   96 (444)
                      +...+.++..+..+.+++.+++.+|+..++....|+.++
T Consensus       413 ~~~~~~~~e~~~~L~qqlD~kd~~~n~~sqL~~~lk~q~  451 (607)
T KOG0240|consen  413 EEEEDILTERIESLYQQLDQKDDQINKQSQLMEKLKEQL  451 (607)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344455555555556666666666666666666665554

>PRK14011 prefoldin subunit alpha; Provisional

Probab=81.25  E-value=43  Score=30.55  Aligned_cols=22  Identities=32%  Similarity=0.404  Sum_probs=8.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q 013360           78 KEKAIQDKSERIVSLQKELSSL   99 (444)
Q Consensus        78 ~e~~I~e~e~~I~eLq~kI~sL   99 (444)
                      +-..++....+++.|+..|+.|
T Consensus         8 ~~~~l~~~~~qie~L~~si~~L   29 (144)
T PRK14011          8 QFMALEVYNQQVQKLQEELSSI   29 (144)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            3333344444444444444333

>KOG2391 consensus Vacuolar sorting protein/ubiquitin receptor VPS23 [Posttranslational modification, protein turnover, chaperones; Intracellular trafficking, secretion, and vesicular transport]

Probab=81.19  E-value=12  Score=38.57  Aligned_cols=76  Identities=17%  Similarity=0.206  Sum_probs=0.0

Q ss_pred             hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          103 ETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTE  178 (444)
Q Consensus       103 ~s~~~~~~i~~ae~~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE  178 (444)
                      ++.+.+.-....+++++.+..+++.|+..-|.++....+++...+.||.+...++..++-|....++...+...++
T Consensus       212 isa~~eklR~r~eeeme~~~aeq~slkRt~EeL~~G~~kL~~~~etLEqq~~~L~~niDIL~~k~~eal~~~~n~~  287 (365)
T KOG2391|consen  212 ISAVREKLRRRREEEMERLQAEQESLKRTEEELNIGKQKLVAMKETLEQQLQSLQKNIDILKSKVREALEKAENLE  287 (365)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHhhHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhhccCc

>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=81.10  E-value=13  Score=34.95  Aligned_cols=23  Identities=57%  Similarity=0.759  Sum_probs=9.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q 013360          120 ELEKQIDNLKKESEKQQKEKEAL  142 (444)
Q Consensus       120 eLe~qIe~LkkelE~~~~e~~~L  142 (444)
                      .++++++++++++++.+.+.+.+
T Consensus       158 ~~~~ei~~lk~el~~~~~~~~~L  180 (192)
T PF05529_consen  158 KLSEEIEKLKKELEKKEKEIEAL  180 (192)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHH
Confidence            33344444444444433333333

Bap31 is cleaved within its cytosolic domain, generating pro-apoptotic p20 Bap31 [].; GO: 0006886 intracellular protein transport, 0005783 endoplasmic reticulum, 0016021 integral to membrane

>PF10458 Val_tRNA-synt_C: Valyl tRNA synthetase tRNA binding arm; InterPro: IPR019499 The aminoacyl-tRNA synthetases (6

Probab=80.90  E-value=12  Score=29.23  Aligned_cols=56  Identities=29%  Similarity=0.475  Sum_probs=27.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhhhh------HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           79 EKAIQDKSERIVSLQKELSSLQKKETLN------AAEQVDKAHARADELEKQIDNLKKESEK  134 (444)
Q Consensus        79 e~~I~e~e~~I~eLq~kI~sLqkK~s~~------~~~~i~~ae~~i~eLe~qIe~LkkelE~  134 (444)
                      +..+..+++++..++.+|+.++++++.-      -.+-+..-..++.++..++..+...++.
T Consensus         3 ~~E~~rL~Kel~kl~~~i~~~~~kL~n~~F~~kAP~eVve~er~kl~~~~~~~~~l~~~l~~   64 (66)
T PF10458_consen    3 EAEIERLEKELEKLEKEIERLEKKLSNENFVEKAPEEVVEKEREKLEELEEELEKLEEALEQ   64 (66)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHCSTTHHHHS-CCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHcCccccccCCHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3444455555555555555555554431      1133344445555555555555555443

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 C-terminal domain of Valyl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Valyl-tRNA synthetase (6.1.1.9 from EC) is an alpha monomer that belongs to class Ia.; GO: 0000166 nucleotide binding, 0004832 valine-tRNA ligase activity, 0005524 ATP binding, 0006438 valyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 1IVS_B 1GAX_B.

>PRK06975 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed

Probab=80.89  E-value=54  Score=37.00  Aligned_cols=24  Identities=21%  Similarity=0.317  Sum_probs=13.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHh
Q 013360           44 KIELDQLKSKIRSLESHIDEKTQE   67 (444)
Q Consensus        44 ~~eL~~l~~ki~~Lesqi~ele~e   67 (444)
                      ..++..++.++.+++.+.+...++
T Consensus       345 ~q~~~~~~~~l~~~~~~~~~~~~e  368 (656)
T PRK06975        345 NRKVDRLDQELVQRQQANDAQTAE  368 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            445666666666655554444443

>KOG2751 consensus Beclin-like protein [Signal transduction mechanisms]

Probab=80.85  E-value=68  Score=34.32  Aligned_cols=30  Identities=17%  Similarity=0.293  Sum_probs=19.1

Q ss_pred             ccchHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013360          390 ATKELEWFAASALLVLPVIILFRIGSAIFC  419 (444)
Q Consensus       390 a~~~~~w~~a~a~~~~p~~~~~~~~~~~f~  419 (444)
                      -|.+-.|.-|..++.--+=.+--.+|+.|.
T Consensus       416 fN~De~WTrALkFmLTnlK~~~A~vss~~~  445 (447)
T KOG2751|consen  416 FNSDENWTRALKFMLTNLKWLLAWVSSLFS  445 (447)
T ss_pred             ecchHHHHHHHHHHHhccHHHHHHHhhhhc
Confidence            355566988887666655555555666664

>PLN03229 acetyl-coenzyme A carboxylase carboxyl transferase subunit alpha; Provisional

Probab=80.83  E-value=60  Score=37.10  Aligned_cols=10  Identities=30%  Similarity=0.461  Sum_probs=4.5

Q ss_pred             HHHHHHHHHH
Q 013360          172 SKIRKTERAL  181 (444)
Q Consensus       172 kqI~elE~~L  181 (444)
                      .+|+.++++|
T Consensus       695 ~kieal~~qi  704 (762)
T PLN03229        695 EKIEALEQQI  704 (762)
T ss_pred             HHHHHHHHHH
Confidence            4444444444

>PF09731 Mitofilin: Mitochondrial inner membrane protein; InterPro: IPR019133 Mitofilin controls mitochondrial cristae morphology

Probab=80.82  E-value=94  Score=34.18  Aligned_cols=186  Identities=22%  Similarity=0.308  Sum_probs=0.0

Q ss_pred             CCCchHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHH-HHHHHHHHH-HHHhhhhhhHHHHHHHHHH
Q 013360           39 DSSPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSER-IVSLQKELS-SLQKKETLNAAEQVDKAHA  116 (444)
Q Consensus        39 ~~~~l~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~-I~eLq~kI~-sLqkK~s~~~~~~i~~ae~  116 (444)
                      ..+....-+..+..++.+|..++.+++....+      .++..|.+...+ +..+..++. .+..+.....+.-....+.
T Consensus       245 ~~~~~~~~i~~a~~~i~~L~~~l~~l~~~~~~------~l~~~L~~q~~e~~~~~~~~~~~~le~~~~~~~~~~~~e~~~  318 (582)
T PF09731_consen  245 SESDLNSLIAHAKERIDALQKELAELKEEEEE------ELERALEEQREELLSKLREELEQELEEKRAELEEELREEFER  318 (582)
T ss_pred             cccccHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH


Q ss_pred             HHHHHHHH-HHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          117 RADELEKQ-IDNLKKESEKQQKEKE-ALEARAIEAEKKISDLSAK--LEKLQKINDEQKSKIRKTERALKVAEEEMMRAK  192 (444)
Q Consensus       117 ~i~eLe~q-Ie~LkkelE~~~~e~~-~LEae~~elEkkleEle~k--veeLe~~~eeqekqI~elE~~Lq~~Eeel~kak  192 (444)
                      ....+++. -++|+.+++.+.+... .+...+.....++...-.+  -+.+..+......+++++..++..++..+....
T Consensus       319 ~~~~l~~~~~~~L~~eL~~~~~~~~~~l~~~l~~~~~e~~~~~~~~i~~~v~~Er~~~~~~l~~~~~~~~~le~~~~~~~  398 (582)
T PF09731_consen  319 EREELEEKYEEELRQELKRQEEAHEEHLKNELREQAIELQREFEKEIKEKVEQERNGRLAKLAELNSRLKALEEALDARS  398 (582)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH


Q ss_pred             HHHhhhhHHhhhhhccCCChhHHHHHHhhhHhhhhhhhccC-----CcchHHHHHHHH
Q 013360          193 FEATSRSKELTEVHSAWLPPWLAVHLLQCQSLIETHWNAHG-----KPAMDVAIQKAL  245 (444)
Q Consensus       193 ~E~~~~a~ei~~~~g~wl~Pw~~~~~~~~~~~~~~~w~~hg-----~p~~~~~~~k~~  245 (444)
                      ........--.=        |+++..++..-       .+|     .|+.+++.....
T Consensus       399 ~~~~~~~~~~~l--------~~a~~~l~~~l-------~~~~~~~~~p~~~el~~l~~  441 (582)
T PF09731_consen  399 EAEDENRRAQQL--------WLAVDALKSAL-------DSGNAGSPRPFEDELRALKE  441 (582)
T ss_pred             HHHHHHHHHHHH--------HHHHHHHHHHH-------HcCCCcCCCCHHHHHHHHHH

Mitofilin is enriched in the narrow space between the inner boundary and the outer membranes, where it forms a homotypic interaction and assembles into a large multimeric protein complex []. The first 78 amino acids contain a typical amino-terminal-cleavable mitochondrial presequence (residues 1-43) rich in positive-charged and hydroxylated residues and a membrane anchor domain (residues 47-66). In addition, it has three centrally located coiled coil domains (residues 200-240,280-310 and 400-420) []. ; GO: 0031305 integral to mitochondrial inner membrane

>smart00806 AIP3 Actin interacting protein 3

Probab=80.81  E-value=85  Score=33.63  Aligned_cols=64  Identities=16%  Similarity=0.249  Sum_probs=28.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          109 EQVDKAHARADELEKQIDNLKKESEKQQ--KEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKS  172 (444)
Q Consensus       109 ~~i~~ae~~i~eLe~qIe~LkkelE~~~--~e~~~LEae~~elEkkleEle~kveeLe~~~eeqek  172 (444)
                      ........-+..+..++...+.---...  ....-.+.-...|......+-.++++|++.++.+.+
T Consensus       173 ~~~~~~~~sm~~i~~k~~~~k~~~~~~~~~s~R~y~e~~k~kL~~~Sd~lltkVDDLQD~vE~LRk  238 (426)
T smart00806      173 SFFTEIKESIKDILEKIDKFKSSSLSASGSSNRAYVESSKKKLSEDSDSLLTKVDDLQDIIEALRK  238 (426)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhccCCCcchHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334555566666666666655311111  112222233333444444444445555555544443

Aip3p/Bud6p is a regulator of cell and cytoskeletal polarity in Saccharomyces cerevisiae that was previously identified as an actin-interacting protein. Actin-interacting protein 3 (Aip3p) localizes at the cell cortex where cytoskeleton assembly must be achieved to execute polarized cell growth, and deletion of AIP3 causes gross defects in cell and cytoskeletal polarity. Aip3p localization is mediated by the secretory pathway, mutations in early- or late-acting components of the secretory apparatus lead to Aip3p mislocalization PUBMED:10679021.

>PRK00286 xseA exodeoxyribonuclease VII large subunit; Reviewed

Probab=80.71  E-value=44  Score=35.45  Aligned_cols=15  Identities=13%  Similarity=0.397  Sum_probs=7.3

Q ss_pred             HHHHHHHHHHHHHHH
Q 013360           47 LDQLKSKIRSLESHI   61 (444)
Q Consensus        47 L~~l~~ki~~Lesqi   61 (444)
                      +.++..+++.+...+
T Consensus       262 ~~e~~q~Ld~l~~rL  276 (438)
T PRK00286        262 RAELLQRLQQLQQRL  276 (438)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            344455555554444

>PF11180 DUF2968: Protein of unknown function (DUF2968); InterPro: IPR021350 This family of proteins has no known function

Probab=80.55  E-value=55  Score=31.33  Aligned_cols=30  Identities=10%  Similarity=0.266  Sum_probs=11.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          153 ISDLSAKLEKLQKINDEQKSKIRKTERALK  182 (444)
Q Consensus       153 leEle~kveeLe~~~eeqekqI~elE~~Lq  182 (444)
                      ..........|+.+....+.+++.+..++.
T Consensus       149 Q~q~r~ea~aL~~e~~aaqaQL~~lQ~qv~  178 (192)
T PF11180_consen  149 QQQARQEAQALEAERRAAQAQLRQLQRQVR  178 (192)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333334444444444444444433333

>PF10368 YkyA: Putative cell-wall binding lipoprotein; InterPro: IPR019454 The YkyA family of proteins contain a lipoprotein signal and a hydrolase domain

Probab=80.23  E-value=58  Score=31.34  Aligned_cols=24  Identities=17%  Similarity=0.285  Sum_probs=14.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhh
Q 013360           45 IELDQLKSKIRSLESHIDEKTQEL   68 (444)
Q Consensus        45 ~eL~~l~~ki~~Lesqi~ele~eI   68 (444)
                      .-+.....+|..|+.+..++=.+|
T Consensus        32 k~~~~~~k~L~~lE~~~q~lY~~i   55 (204)
T PF10368_consen   32 KPFKEQQKKLNELEKKEQELYEQI   55 (204)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTTTGG
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344555666666666666655555

They are similar to cell wall binding proteins and might also be recognisable by a host immune defence system. It is thus likely that they function in pathways important for pathogenicity []. ; PDB: 2AP3_A.

>PF05103 DivIVA: DivIVA protein; InterPro: IPR007793 The Bacillus subtilis divIVA1 mutation causes misplacement of the septum during cell division, resulting in the formation of small, circular, anucleate minicells []

Probab=80.09  E-value=0.97  Score=39.51  Aligned_cols=15  Identities=20%  Similarity=0.275  Sum_probs=5.5

Q ss_pred             HHHHHHHHHHHHHHH
Q 013360           50 LKSKIRSLESHIDEK   64 (444)
Q Consensus        50 l~~ki~~Lesqi~el   64 (444)
                      +...+..|..++.++
T Consensus        30 l~~~~~~l~~e~~~L   44 (131)
T PF05103_consen   30 LAEELERLQRENAEL   44 (131)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH
Confidence            333333333333333

Inactivation of divIVA produces a minicell phenotype, whereas overproduction of DivIVA results in a filamentation phenotype []. These proteins appear to contain coiled-coils.; PDB: 2WUK_C 2WUJ_A.

>PRK10361 DNA recombination protein RmuC; Provisional

Probab=80.02  E-value=96  Score=33.78  Aligned_cols=132  Identities=9%  Similarity=0.137  Sum_probs=59.7

Q ss_pred             HHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHH--
Q 013360           64 KTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKES-EKQQKEKE--  140 (444)
Q Consensus        64 le~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~eLe~qIe~Lkkel-E~~~~e~~--  140 (444)
                      ...++....+++.............+.+++..++..+...    .++....++--..|..+-+.|-.++ +.......  
T Consensus        58 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~le~~~~~~----~ek~~~l~~~~~~L~~~F~~LA~~ile~k~~~f~~~  133 (475)
T PRK10361         58 WRAECELLNNEVRSLQSINTSLEADLREVTTRMEAAQQHA----DDKIRQMINSEQRLSEQFENLANRIFEHSNRRVDEQ  133 (475)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344555556666666666666677777777666554322    2233333333344555555553322 22222221  


Q ss_pred             ---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHh
Q 013360          141 ---ALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKEL  202 (444)
Q Consensus       141 ---~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak~E~~~~a~ei  202 (444)
                         .++.-+.=+..++.....++++........   -..+..+|..+.+.-.+...++..+.+-+
T Consensus       134 ~~~~l~~ll~Pl~e~l~~f~~~v~~~~~~~~~~---~~~L~~qi~~L~~~n~~i~~ea~nLt~AL  195 (475)
T PRK10361        134 NRQSLNSLLSPLREQLDGFRRQVQDSFGKEAQE---RHTLAHEIRNLQQLNAQMAQEAINLTRAL  195 (475)
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence               223333334444444444444443332222   23333444444444444444555444433

---

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	444
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	7e-15
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	5e-11
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	8e-11
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	1e-09
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	4e-07
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	3e-04
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	7e-13
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	3e-12
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	1e-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,	7e-11
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	9e-11
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	9e-09
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	5e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-08
3lvg_D	190	LCB, clathrin light chain B; SELF assembly, coated	3e-07
1w1w_A	430	Structural maintenance of chromosome 1; cohesin, c	3e-05
2xs1_A	704	Programmed cell death 6-interacting protein; prote	3e-05
2zuo_A	861	MVP, major vault protein; repeat domains, protein-	4e-05
2v71_A	189	Nuclear distribution protein NUDE-like 1; developm	4e-05
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	5e-05
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	6e-05
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	8e-05
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	1e-04
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	3e-04
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	6e-04
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 = 76.3 bits (188), Expect = 7e-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 = 64.0 bits (156), Expect = 5e-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 = 8e-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 = 1e-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 = 4e-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 = 3e-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 = 69.9 bits (171), Expect = 7e-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 = 1e-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 = 65.6 bits (160), 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 = 65.6 bits (160), 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 = 63.3 bits (154), Expect = 7e-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 = 63.3 bits (154), Expect = 9e-11
 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 = 62.5 bits (152), 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 = 61.0 bits (148), 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 = 55.1 bits (132), Expect = 9e-09
 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 = 5e-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 = 55.2 bits (132), Expect = 3e-08
 Identities = 61/435 (14%), Positives = 129/435 (29%), Gaps = 96/435 (22%)

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 KVVRAYGKFLKSATTYHHQVQASVQEMLKKHELTSPLATKELEWFAASALLVLPVIILFR 412
           + ++ Y  ++      + ++  ++ + L K E  + + +K  +         L  I L  
Sbjct: 525 QQLKFYKPYICDNDPKYERLVNAILDFLPKIE-ENLICSKYTD---------LLRIALMA 574

Query: 413 IGSAIFCKKARKPVR 427
              AIF +  ++  R
Sbjct: 575 EDEAIFEEAHKQVQR 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 = 3e-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

>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 = 45.3 bits (106), Expect = 3e-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

>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

>2v71_A Nuclear distribution protein NUDE-like 1; developmental protein, nuclear protein, neurogenesis, cytosk LIS1 binding, differentiation; 2.24A {Rattus norvegicus} Length = 189

 Score = 43.2 bits (101), Expect = 4e-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

>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1 PDB: 2tma_A 2w49_A 2w4u_A Length = 284

 Score = 43.9 bits (103), Expect = 5e-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 = 43.5 bits (102), Expect = 6e-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 = 43.1 bits (101), Expect = 8e-05
 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 = 42.7 bits (100), Expect = 1e-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 = 41.6 bits (97), Expect = 3e-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 = 40.8 bits (95), Expect = 6e-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

>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 = 43.7 bits (104), 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	444
2a01_A	243	Apolipoprotein A-I; four-helix bundle, lipid trans	99.16
3s84_A	273	Apolipoprotein A-IV; four helix bundle, transport	98.82
3s84_A	273	Apolipoprotein A-IV; four helix bundle, transport	98.81
2a01_A	243	Apolipoprotein A-I; four-helix bundle, lipid trans	98.76
1nfn_A	191	Apolipoprotein E3; lipid transport, heparin-bindin	98.67
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	98.66
2lem_A	216	Apolipoprotein A-I; lipid transport; NMR {Mus musc	98.66
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	98.64
1nfn_A	191	Apolipoprotein E3; lipid transport, heparin-bindin	98.62
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	98.61
2lem_A	216	Apolipoprotein A-I; lipid transport; NMR {Mus musc	98.55
3r2p_A	185	Apolipoprotein A-I; amphipathic alpha-helix, major	98.53
3r2p_A	185	Apolipoprotein A-I; amphipathic alpha-helix, major	98.52
1gs9_A	165	Apolipoprotein E, APOE4; lipid transport, heparin-	98.41
2l7b_A	307	Apolipoprotein E, APO-E; lipid transport, atherosc	98.33
2l7b_A	307	Apolipoprotein E, APO-E; lipid transport, atherosc	98.32
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	98.31
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	98.0
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	97.98
2v71_A	189	Nuclear distribution protein NUDE-like 1; developm	97.91
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	97.9
1gs9_A	165	Apolipoprotein E, APOE4; lipid transport, heparin-	97.73
2efr_A	155	General control protein GCN4 and tropomyosin 1 Al;	97.68
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	97.58
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	97.55
2efr_A	155	General control protein GCN4 and tropomyosin 1 Al;	97.5
2fxo_A	129	Myosin heavy chain, cardiac muscle beta isoform; c	97.43
3o0z_A	168	RHO-associated protein kinase 1; coiled-coil, tran	97.39
3u1c_A	101	Tropomyosin alpha-1 chain; anti-parallel coiled co	97.32
3o0z_A	168	RHO-associated protein kinase 1; coiled-coil, tran	97.27
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	97.25
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	97.22
2v71_A	189	Nuclear distribution protein NUDE-like 1; developm	97.17
3u59_A	101	Tropomyosin beta chain; muscle contraction, actin,	97.15
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	97.14
2fxo_A	129	Myosin heavy chain, cardiac muscle beta isoform; c	97.05
4gkw_A	167	Spindle assembly abnormal protein 6; double helix,	96.21
3u59_A	101	Tropomyosin beta chain; muscle contraction, actin,	96.07
3tnu_B	129	Keratin, type II cytoskeletal 5; coiled-coil, stru	96.03
2eqb_B	97	RAB guanine nucleotide exchange factor SEC2; coile	95.95
3tnu_A	131	Keratin, type I cytoskeletal 14; coiled-coil, stru	95.92
3tnu_B	129	Keratin, type II cytoskeletal 5; coiled-coil, stru	95.92
3tnu_A	131	Keratin, type I cytoskeletal 14; coiled-coil, stru	95.75
3ghg_A	562	Fibrinogen alpha chain; triple-stranded coiled coi	95.75
1deq_A	390	Fibrinogen (alpha chain); coiled-coil, blood clott	95.48
3hnw_A	138	Uncharacterized protein; coiled-coil, structural g	95.47
2b9c_A	147	Striated-muscle alpha tropomyosin; alpha-helix, co	95.42
3hnw_A	138	Uncharacterized protein; coiled-coil, structural g	95.29
2ocy_A	154	RAB guanine nucleotide exchange factor SEC2; RAB,	95.15
1ic2_A	81	Tropomyosin alpha chain, skeletal muscle; alpha-he	95.14
1ic2_A	81	Tropomyosin alpha chain, skeletal muscle; alpha-he	94.93
1deq_A	390	Fibrinogen (alpha chain); coiled-coil, blood clott	94.8
3ghg_A	562	Fibrinogen alpha chain; triple-stranded coiled coi	94.8
2b9c_A	147	Striated-muscle alpha tropomyosin; alpha-helix, co	94.78
2v4h_A	110	NF-kappa-B essential modulator; transcription, met	94.58
1l8d_A	112	DNA double-strand break repair RAD50 ATPase; zinc	94.5
2xzr_A	114	Immunoglobulin-binding protein EIBD; cell adhesion	94.45
2ocy_A	154	RAB guanine nucleotide exchange factor SEC2; RAB,	94.42
3nmd_A	72	CGMP dependent protein kinase; leucine zipper, coi	94.4
2oto_A	155	M protein; helical coiled coil, fibrinogen-binding	94.32
2e7s_A	135	RAB guanine nucleotide exchange factor SEC2; coile	94.25
1m1j_B	464	Fibrinogen beta chain; coiled coils, disulfide rin	94.24
2v66_B	111	Nuclear distribution protein NUDE-like 1; structur	94.14
2jee_A	81	YIIU; FTSZ, septum, coiled-coil, cell division, ce	93.87
2eqb_B	97	RAB guanine nucleotide exchange factor SEC2; coile	93.65
3ol1_A	119	Vimentin; structural genomics, PSI-2, protein stru	93.33
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	93.32
3a7p_A	152	Autophagy protein 16; coiled-coil, coiled coil, cy	93.29
2e7s_A	135	RAB guanine nucleotide exchange factor SEC2; coile	93.19
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	93.13
1l8d_A	112	DNA double-strand break repair RAD50 ATPase; zinc	93.1
3a7p_A	152	Autophagy protein 16; coiled-coil, coiled coil, cy	93.08
2zqm_A	117	Prefoldin beta subunit 1; chaperone; HET: CIT; 1.9	92.59
3qh9_A	81	Liprin-beta-2; coiled-coil, dimerization, structur	92.25
3q8t_A	96	Beclin-1; autophagy, ATG14L uvrag, apoptosis; 1.90	91.99
3mq9_A	471	Bone marrow stromal antigen 2 fused to maltose-BI	91.89
3s4r_A	93	Vimentin; alpha-helix, cytoskeleton, intermediate	91.86
2jee_A	81	YIIU; FTSZ, septum, coiled-coil, cell division, ce	91.81
2v66_B	111	Nuclear distribution protein NUDE-like 1; structur	91.78
3nmd_A	72	CGMP dependent protein kinase; leucine zipper, coi	91.68
2w83_C	77	C-JUN-amino-terminal kinase-interacting protein 4;	91.67
3ol1_A	119	Vimentin; structural genomics, PSI-2, protein stru	91.67
3swk_A	86	Vimentin; cytoskeleton, intermediate filament, alp	91.43
3efg_A	78	Protein SLYX homolog; xanthomonas campestris PV. c	91.28
3jsv_C	94	NF-kappa-B essential modulator; ubiquitin, coiled-	91.23
2oto_A	155	M protein; helical coiled coil, fibrinogen-binding	91.15
2no2_A	107	HIP-I, huntingtin-interacting protein 1; clathrin	91.15
1m1j_C	409	Fibrinogen gamma chain; coiled coils, disulfide ri	91.13
2xnx_M	146	M protein, M1-BC1; cell adhesion, virulence factor	90.85
2zqm_A	117	Prefoldin beta subunit 1; chaperone; HET: CIT; 1.9	90.84
1m1j_B	464	Fibrinogen beta chain; coiled coils, disulfide rin	90.82
3mq9_A	471	Bone marrow stromal antigen 2 fused to maltose-BI	90.28
1fxk_A	107	Prefoldin; archaeal protein, chaperone; 2.30A {Met	90.26
1fxk_C	133	Protein (prefoldin); archaeal protein, chaperone;	89.72
2i1j_A	575	Moesin; FERM, coiled-coil, C-ermad, ERM, radixin,	89.13
3swk_A	86	Vimentin; cytoskeleton, intermediate filament, alp	89.04
3i00_A	120	HIP-I, huntingtin-interacting protein 1; transcrip	88.97
1m1j_A	491	Fibrinogen alpha subunit; coiled coils, disulfide	88.66
1d7m_A	101	Cortexillin I; coiled-coil, coiled-coil trigger si	88.65
3iox_A	497	AGI/II, PA; alpha helix, PPII helix, supersandwich	88.48
3a7o_A	75	Autophagy protein 16; coiled-coil, coiled coil, cy	88.11
2pms_C	125	Pneumococcal surface protein A (PSPA); lactoferrin	87.38
2pms_C	125	Pneumococcal surface protein A (PSPA); lactoferrin	87.14
2i1j_A	575	Moesin; FERM, coiled-coil, C-ermad, ERM, radixin,	87.12
3iv1_A	78	Tumor susceptibility gene 101 protein; coiled_COIL	86.89
1x8y_A	86	Lamin A/C; structural protein, intermediate filame	86.64
1m1j_A	491	Fibrinogen alpha subunit; coiled coils, disulfide	86.63
3cvf_A	79	Homer-3, homer protein homolog 3; coiled coil, alt	85.77
2lw1_A	89	ABC transporter ATP-binding protein UUP; ABC REG s	85.66
1gk4_A	84	Vimentin; intermediate filament, dimer, parallel c	85.21
3l4q_C	170	Phosphatidylinositol 3-kinase regulatory subunit b	84.41
1x79_B	112	RAB GTPase binding effector protein 1; rabaptin5,	84.32
3iox_A	497	AGI/II, PA; alpha helix, PPII helix, supersandwich	84.28
3ghg_C	411	Fibrinogen gamma chain; triple-stranded coiled coi	84.25
1m1j_C	409	Fibrinogen gamma chain; coiled coils, disulfide ri	84.01
3iv1_A	78	Tumor susceptibility gene 101 protein; coiled_COIL	83.94
2nrj_A	346	HBL B protein; enterotoxin, hemolysis, transmembra	83.48
2yko_A	233	LINE-1 ORF1P; RNA-binding protein, genome evolutio	83.28
2lw1_A	89	ABC transporter ATP-binding protein UUP; ABC REG s	82.78
1d7m_A	101	Cortexillin I; coiled-coil, coiled-coil trigger si	82.59
3i00_A	120	HIP-I, huntingtin-interacting protein 1; transcrip	82.45
3a7o_A	75	Autophagy protein 16; coiled-coil, coiled coil, cy	82.41
3htk_A	60	Structural maintenance of chromosomes protein 5; S	82.02
3jsv_C	94	NF-kappa-B essential modulator; ubiquitin, coiled-	81.91
3hhm_B	373	NISH2 P85alpha; PI3KCA, PI3K, PIK3R1, phosphatidil	81.73
2qyw_A	102	Vesicle transport through interaction with T-SNAR	81.41
1jcd_A	52	Major outer membrane lipoprotein; protein folding,	81.24
3trt_A	77	Vimentin; cytoskeleton, intermediate filament, alp	81.11
1cii_A	602	Colicin IA; bacteriocin, ION channel formation, tr	81.09
4ad8_A	517	DNA repair protein RECN; DNA binding protein, ATPa	80.93
1lwu_C	323	Fibrinogen gamma chain; heterotrimer, protein-pept	80.92
3c9i_A	242	Tail needle protein GP26; xenon, coiled-coil, prot	80.78
2ke4_A	98	CDC42-interacting protein 4; CIP4, TC10, coiled-co	80.39

>2a01_A Apolipoprotein A-I; four-helix bundle, lipid transport; HET: AC9; 2.40A {Homo sapiens} PDB: 3k2s_A* 1av1_A 3j00_0*

Probab=99.16  E-value=3.2e-11  Score=116.56  Aligned_cols=117  Identities=17%  Similarity=0.228  Sum_probs=107.0

Q ss_pred             cchHHHHHHHHHHHHHccccccchHHHHHhhhhhhHHhHHHhhhcccchhHHHHhhHHHHHHHHhhhhcchhHHhhhhhc
Q 013360          235 PAMDVAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVV  314 (444)
Q Consensus       235 p~~~~~~~k~~~~~~~~~~w~~p~~~~~~~k~~p~~~~~w~~~~~~~~p~ve~~k~k~~p~~~~~r~~~~p~~~~~~~~~  314 (444)
                      |+++++..+....++.           ++.++.|++.+    ++.++..||+++++++.|+.+.+|+.+..|++.+++.+
T Consensus       121 P~~eel~~~~~~~~ee-----------l~~~L~p~~ee----lr~kl~~~veelk~~l~P~~ee~r~kl~~~~~el~~~l  185 (243)
T 2a01_A          121 PLRAELQEGARQKLHE-----------LQEKLSPLGEE----MRDRARAHVDALRTHLAPYSDELRQRLAARLEALKENG  185 (243)
T ss_dssp             HHHHHHHHHHHHHHHH-----------HCCSCCSSTHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhHHH-----------HHHHHHhHHHH----HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHhc
Confidence            5566777777776666           88899999888    89999999999999999999999999999999999999


Q ss_pred             chhHHHHhhhhhhHHHHHHhhcCcchHhHHHhhcccHHHHHHHHHHHHHHHH
Q 013360          315 DPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVRAYGKFLKSAT  366 (444)
Q Consensus       315 ~Py~~e~k~~~~py~~~a~~~~~p~~~~~~~~~~Py~~~~~~~~~~~~~~a~  366 (444)
                      .||++++++.+.|++++++....||.+.++..+.||++.++..+..+++..+
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            9999999999999999999999999999999999999999999998886654

>3s84_A Apolipoprotein A-IV; four helix bundle, transport protein; 2.40A {Homo sapiens}

Probab=98.82  E-value=7.6e-07  Score=87.36  Aligned_cols=16  Identities=19%  Similarity=0.040  Sum_probs=6.9

Q ss_pred             cchHHHHHHHHHHHHH
Q 013360          235 PAMDVAIQKALEKKAQ  250 (444)
Q Consensus       235 p~~~~~~~k~~~~~~~  250 (444)
                      |..+++..+..+.++.
T Consensus       121 Py~eelr~k~~~~lee  136 (273)
T 3s84_A          121 PYADEFKVKIDQTVEE  136 (273)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHH
Confidence            3344444444444333

>3s84_A Apolipoprotein A-IV; four helix bundle, transport protein; 2.40A {Homo sapiens}

Probab=98.81  E-value=1.4e-08  Score=99.80  Aligned_cols=124  Identities=12%  Similarity=0.262  Sum_probs=56.3

Q ss_pred             CcchHHHHHHHHHHHHHccccccchHH-----------HHHhhhhhhHHhHHHhhhcccchhHHHHhhHHHHHHHHhhhh
Q 013360          234 KPAMDVAIQKALEKKAQAGKWVQPHVE-----------TIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKTA  302 (444)
Q Consensus       234 ~p~~~~~~~k~~~~~~~~~~w~~p~~~-----------~~~~k~~p~~~~~w~~~~~~~~p~ve~~k~k~~p~~~~~r~~  302 (444)
                      .|..+++..+....++....-+.|+..           .++.++.|++.+    ++..+..||++++..+.|+.+.+|+.
T Consensus        54 ~Py~~el~~~~~~~~eelr~kL~p~~~el~~~l~~~~eeLr~~L~p~~ee----lr~kl~~~veelk~~L~Py~eelr~k  129 (273)
T 3s84_A           54 EPYADQLRTQVNTQAEQLRRQLTPYAQRMERVLRENADSLQASLRPHADE----LKAKIDQNVEELKGRLTPYADEFKVK  129 (273)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH----HHHHHHhhHHHHHHHhHhHHHHHHHH
Confidence            466666666666666664433333222           222222333332    33333333333333333333333333


Q ss_pred             cchhHHhhhhhcchhHHHHhhhhhhHHHHHHhhcCcchHhHHHhhcccHHHHHHHHHHH
Q 013360          303 VTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVRAYGKF  361 (444)
Q Consensus       303 ~~p~~~~~~~~~~Py~~e~k~~~~py~~~a~~~~~p~~~~~~~~~~Py~~~~~~~~~~~  361 (444)
                      ++.|++.+++.+.||+++++..+..+++..+.-.+++.+.+++.+.|+++.++..+.+|
T Consensus       130 ~~~~leeLr~~l~P~ae~~~~kl~~~~e~L~~ql~~~a~~L~~~l~~~~eeLr~~L~p~  188 (273)
T 3s84_A          130 IDQTVEELRRSLAPYAQDTQEKLNHQLEGLTFQMKKNAEELKARISASAEELRQRLAPL  188 (273)
T ss_dssp             HHHHHHHHHHHHGGGCSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344444444444444444444444444333444444555555666666666666666

>2a01_A Apolipoprotein A-I; four-helix bundle, lipid transport; HET: AC9; 2.40A {Homo sapiens} PDB: 3k2s_A* 1av1_A 3j00_0*

Probab=98.76  E-value=7e-09  Score=100.11  Aligned_cols=117  Identities=17%  Similarity=0.209  Sum_probs=70.1

Q ss_pred             cchHHHHHHHHHHHHHccccccchHHHHHhhhhhhHHhHHHhhhcccchhHHHHhhHHHHHHHHhhhhcchhHHhhhhhc
Q 013360          235 PAMDVAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVV  314 (444)
Q Consensus       235 p~~~~~~~k~~~~~~~~~~w~~p~~~~~~~k~~p~~~~~w~~~~~~~~p~ve~~k~k~~p~~~~~r~~~~p~~~~~~~~~  314 (444)
                      |..+++..+....++.           ++.++.|++.+    +++.+..|++++++++.|+.+.+|+.+..+|+.+++.+
T Consensus        99 Py~~el~~~~~~~~ee-----------lr~~L~P~~ee----l~~~~~~~~eel~~~L~p~~eelr~kl~~~veelk~~l  163 (243)
T 2a01_A           99 PYLDDFQKKWQEEMEL-----------YRQKVEPLRAE----LQEGARQKLHELQEKLSPLGEEMRDRARAHVDALRTHL  163 (243)
T ss_dssp             HHHHHHHHHHHHHHHH-----------HHTTHHHHHHH----HHHHHHHHHHHHCCSCCSSTHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhHHH-----------HHHHHHHHHHH----HHHHHHhhHHHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Confidence            5566888888887777           55555555554    44555555555555555555555555555555555555


Q ss_pred             chhHHHHhhhhhhHHHHHHh-----------hcCcchHhHHHhhcccHHHHHHHHHHHHHHHH
Q 013360          315 DPYFQEAKKFSKPYIDQVAT-----------VAKPHVDNVRVALKPYTKKVVRAYGKFLKSAT  366 (444)
Q Consensus       315 ~Py~~e~k~~~~py~~~a~~-----------~~~p~~~~~~~~~~Py~~~~~~~~~~~~~~a~  366 (444)
                      .||+++++..+...+++.+.           -..|+++.++..+.||++.++..+.++++...
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            55555555555555555555           55555777777777777777777777755443

>1nfn_A Apolipoprotein E3; lipid transport, heparin-binding, plasma protein, HDL, VLDL; 1.80A {Homo sapiens} SCOP: a.24.1.1 PDB: 1h7i_A 1ea8_A 1b68_A 1nfo_A 2kc3_A 1ya9_A

Probab=98.67  E-value=1.3e-07  Score=88.27  Aligned_cols=84  Identities=12%  Similarity=0.145  Sum_probs=49.0

Q ss_pred             hHHHHHhhhhhhHHhHHHhhhcccchhHHHHhhHHHHHHHHhhhhcchhHHhhhhhcchhHHHHhhhhhhHHHHHHhhcC
Q 013360          258 HVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAK  337 (444)
Q Consensus       258 ~~~~~~~k~~p~~~~~w~~~~~~~~p~ve~~k~k~~p~~~~~r~~~~p~~~~~~~~~~Py~~e~k~~~~py~~~a~~~~~  337 (444)
                      +|+.++.++.|+..+    ++..+.+|+++++.++.|+.+.+|+.+..+++.++..+.||+++++..+.+.++.++....
T Consensus       107 dlEelr~kL~P~~eE----L~~~l~~~~Eelr~~L~Py~eelr~kl~~~~eeLr~~l~P~~eelk~~l~~~veel~~~L~  182 (191)
T 1nfn_A          107 DMEDVCGRLVQYRGE----VQAMLGQSTEELRVRLASHLRKLRKRLLRDADDLQKRLAVYQAGAREGAERGLSAIRERLG  182 (191)
T ss_dssp             HHHHHHHHHHHHHHH----HHHTTTCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTC------------------
T ss_pred             HHHHHHHHhhHHHHH----HHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhH
Confidence            344488888888888    8888888888888888888888888888888888888888888888888777776666666


Q ss_pred             cchHhHHH
Q 013360          338 PHVDNVRV  345 (444)
Q Consensus       338 p~~~~~~~  345 (444)
                      ||++.+++
T Consensus       183 P~~e~~r~  190 (191)
T 1nfn_A          183 PLVEQGRV  190 (191)
T ss_dssp             --------
T ss_pred             hHHHHHhc
Confidence            66555543

>3na7_A HP0958; flagellar biogenesis, flagellum export, C4 Zn-ribbon, coiled post-transcriptional, gene regulation, chaperone; HET: EPE; 2.20A {Helicobacter pylori}

Probab=98.66  E-value=4.4e-06  Score=80.95  Aligned_cols=64  Identities=11%  Similarity=0.149  Sum_probs=40.8

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 013360           43 LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLN  106 (444)
Q Consensus        43 l~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~  106 (444)
                      +..++..+..++..++..+..++..+.....++..++..+..++..|.++...|...+.++..+
T Consensus        23 l~~~~~~lp~el~~le~~~~~l~~~~~~~~~~l~d~~~~~~~~e~~i~~~~~ri~~~~~~l~~v   86 (256)
T 3na7_A           23 LEPLIREKRKDLDKALNDKEAKNKAILNLEEEKLALKLQVSKNEQTLQDTNAKIASIQKKMSEI   86 (256)
T ss_dssp             THHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence            3445555566666666666666666666666666666666666666666666666666555443

>2lem_A Apolipoprotein A-I; lipid transport; NMR {Mus musculus}

Probab=98.66  E-value=6.2e-08  Score=91.90  Aligned_cols=111  Identities=14%  Similarity=0.163  Sum_probs=62.8

Q ss_pred             CcchHHHHHHHHHHHHHccccccchHHHHHhhhhhhHHhHHHhhhcccchhHHHHhhHHHHHHHHhhhhcchhHHhhhhh
Q 013360          234 KPAMDVAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEV  313 (444)
Q Consensus       234 ~p~~~~~~~k~~~~~~~~~~w~~p~~~~~~~k~~p~~~~~w~~~~~~~~p~ve~~k~k~~p~~~~~r~~~~p~~~~~~~~  313 (444)
                      .|.++++..+..+.++.           ++.++.|++.+    +++.+..+++++++++.|+.+.+|+.+..|++.+++.
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 QPYLDEFQKKWKEDVEL-----------YRQKASPQGAE----LQESARQKLQELQGRLSPVAEEFRDRMRTHVDSLRTQ  161 (216)
T ss_dssp             TTTCCHHHHHHHHHHHH-----------HHHHTSCHHHH----HHHHHHCSCCSSCCSCSTHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhHHH-----------HHHHHHHHHHH----HHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            35566777776666666           55555555555    5555555555555555665555666666666666666


Q ss_pred             cchhHHHHhhhhhhHHHHHHhhcCcchHhHHHhhcccHHHHHHHHHHH
Q 013360          314 VDPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVRAYGKF  361 (444)
Q Consensus       314 ~~Py~~e~k~~~~py~~~a~~~~~p~~~~~~~~~~Py~~~~~~~~~~~  361 (444)
                      +.||+++++..+...+++.+..  ||++.+++.+.|+++.++..+.||
T Consensus       162 l~P~~ee~~~kl~~~leeL~~~--p~~~e~~~ki~~~~e~Lr~~l~P~  207 (216)
T 2lem_A          162 LAPHSEQMRESLAQRLAELKSN--PTLNEYHSSAKSHLKSLGEKARPA  207 (216)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHC--CCCCCCCCCSSSHHHHHHHTSCTT
T ss_pred             hHhhHHHHHHHHHHHHHHHhCC--cchHHHHHHHHHHHHHHHHHhhhh
Confidence            6666666666666666655554  544444444444444444444443

>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1 PDB: 2tma_A 2w49_A 2w4u_A

Probab=98.64  E-value=1.5e-05  Score=74.28  Aligned_cols=117  Identities=16%  Similarity=0.230  Sum_probs=49.8

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHH
Q 013360           43 LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELE  122 (444)
Q Consensus        43 l~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~eLe  122 (444)
                      ++..+..++.++..+...+.++..++......+...+..+......+..+...+..+...+... ...+..+..++..++
T Consensus         4 ~~~~~~~l~~~~~~~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~   82 (284)
T 1c1g_A            4 IKKKMQMLKLDKENALDRADEAEADKKAAEDRSKQLEDELVSLQKKLKATEDELDKYSEALKDA-QEKLELAEKKATDAE   82 (284)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHH
Confidence            3444444555555555555555555444444444444444444444444444444444333322 222333333444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          123 KQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKL  160 (444)
Q Consensus       123 ~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kv  160 (444)
                      .++..+...+..+..++..+......+...+..+...+
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  120 (284)
T 1c1g_A           83 ADVASLNRRIQLFEEELDRAQERLATALQKLEEAEKAA  120 (284)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444433333333333333333333333333333333

>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=98.62  E-value=1.1e-07  Score=88.72  Aligned_cols=112  Identities=6%  Similarity=0.063  Sum_probs=66.2

Q ss_pred             ccccccchHHHHHhhhhhhHHhHHHhhhcccchhHHHHhhHHHHHHHHhhhhcchhHHhhhhhcchhHHHHhhhhhhHHH
Q 013360          251 AGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYID  330 (444)
Q Consensus       251 ~~~w~~p~~~~~~~k~~p~~~~~w~~~~~~~~p~ve~~k~k~~p~~~~~r~~~~p~~~~~~~~~~Py~~e~k~~~~py~~  330 (444)
                      ...=+.|+.+.+..++.+.+.+    ++..+.-+++++++++.|+.+.+++.+.+|++.++..+.||+.++++.+...++
T Consensus        78 l~~qL~P~~~e~~~~l~~~~e~----lr~~l~kdlEelr~kL~P~~eEL~~~l~~~~Eelr~~L~Py~eelr~kl~~~~e  153 (191)
T 1nfn_A           78 LEEQLTPVAEETRARLSKELQA----AQARLGADMEDVCGRLVQYRGEVQAMLGQSTEELRVRLASHLRKLRKRLLRDAD  153 (191)
T ss_dssp             HTTC----------CHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhcchhHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            3444667777777777777777    777778888999999999999999999999999999999999999999999999


Q ss_pred             HHHhhcCcchHhHHHhhcccHHHHHHHHHHHHHHHH
Q 013360          331 QVATVAKPHVDNVRVALKPYTKKVVRAYGKFLKSAT  366 (444)
Q Consensus       331 ~a~~~~~p~~~~~~~~~~Py~~~~~~~~~~~~~~a~  366 (444)
                      +.+....||++.+++.+..+++.++..+.||++...
T Consensus       154 eLr~~l~P~~eelk~~l~~~veel~~~L~P~~e~~r  189 (191)
T 1nfn_A          154 DLQKRLAVYQAGAREGAERGLSAIRERLGPLVEQGR  189 (191)
T ss_dssp             HHHHHHHHHTC-------------------------
T ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHHHHhHhHHHHHh
Confidence            999999999999888888888888888888876543

>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1 PDB: 2tma_A 2w49_A 2w4u_A

Probab=98.61  E-value=2.4e-05  Score=72.79  Aligned_cols=111  Identities=16%  Similarity=0.244  Sum_probs=47.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHH
Q 013360           44 KIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEK  123 (444)
Q Consensus        44 ~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~eLe~  123 (444)
                      ..+++.+...+..++.++..+...+......+..+...+......+..+...+..++...... ...+..++.++..+..
T Consensus        12 ~~~~~~~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~   90 (284)
T 1c1g_A           12 KLDKENALDRADEAEADKKAAEDRSKQLEDELVSLQKKLKATEDELDKYSEALKDAQEKLELA-EKKATDAEADVASLNR   90 (284)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHH
Confidence            344444445555554444444444444444444444444444444444444444444333322 2333333334444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          124 QIDNLKKESEKQQKEKEALEARAIEAEKKISD  155 (444)
Q Consensus       124 qIe~LkkelE~~~~e~~~LEae~~elEkkleE  155 (444)
                      ++..+..++..+..++..+......++..+..
T Consensus        91 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~  122 (284)
T 1c1g_A           91 RIQLFEEELDRAQERLATALQKLEEAEKAADE  122 (284)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44443333333333333333333333333333

>2lem_A Apolipoprotein A-I; lipid transport; NMR {Mus musculus}

Probab=98.55  E-value=8.8e-08  Score=90.86  Aligned_cols=63  Identities=17%  Similarity=0.385  Sum_probs=27.1

Q ss_pred             HHhhhhhhHHhHHHhhhcccchhHHHHhhHHHHHHHHhhhhcchhHHhhhhhcchhHHHHhhhhhhHHH
Q 013360          262 IKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYID  330 (444)
Q Consensus       262 ~~~k~~p~~~~~w~~~~~~~~p~ve~~k~k~~p~~~~~r~~~~p~~~~~~~~~~Py~~e~k~~~~py~~  330 (444)
                      ++.++.|++.+    ++..+..||+.+++.+.|+.+.+|+.+..|++.+++.  ||+.+++....|+++
T Consensus       136 Lr~~L~p~~e~----lr~kl~~~~e~lk~~l~P~~ee~~~kl~~~leeL~~~--p~~~e~~~ki~~~~e  198 (216)
T 2lem_A          136 LQGRLSPVAEE----FRDRMRTHVDSLRTQLAPHSEQMRESLAQRLAELKSN--PTLNEYHSSAKSHLK  198 (216)
T ss_dssp             SCCSCSTHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC--CCCCCCCCCSSSHHH
T ss_pred             HHHHHHHHHHH----HHHHHHHHHHHHHHHhHhhHHHHHHHHHHHHHHHhCC--cchHHHHHHHHHHHH
Confidence            34444444444    4444444444444444444444444444444444443  444444444433333

>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=98.53  E-value=1.5e-07  Score=87.08  Aligned_cols=85  Identities=8%  Similarity=0.138  Sum_probs=42.6

Q ss_pred             hhcccchhHHHHhhHHHHHHHHhhhhcchhHHhhhhhcchhHHHHhhhhhhHHHHHHhhcCcchHhHHHhhcccHHHHHH
Q 013360          277 FTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVR  356 (444)
Q Consensus       277 ~~~~~~p~ve~~k~k~~p~~~~~r~~~~p~~~~~~~~~~Py~~e~k~~~~py~~~a~~~~~p~~~~~~~~~~Py~~~~~~  356 (444)
                      +++.+..++++++.++.|+....+..+..|+..++..+.||+.++++.+..-+++.+....||++.+++.+..+++.++.
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            44444444455555555555555555555555555555555555555444444444444455555555555555555555


Q ss_pred             HHHHH
Q 013360          357 AYGKF  361 (444)
Q Consensus       357 ~~~~~  361 (444)
                      .+.||
T Consensus       163 ~l~Py  167 (185)
T 3r2p_A          163 HLAPY  167 (185)
T ss_dssp             HHHHH
T ss_pred             Hhhhh
Confidence            55444

>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=98.52  E-value=1.4e-07  Score=87.39  Aligned_cols=113  Identities=19%  Similarity=0.294  Sum_probs=66.3

Q ss_pred             cchHHHHHHHHHHHHHccccccchHHHHHhhhhhhHHhHHHhhhcccchhHHHHhhHHHHHHHHhhhhcchhHHhhhhhc
Q 013360          235 PAMDVAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVV  314 (444)
Q Consensus       235 p~~~~~~~k~~~~~~~~~~w~~p~~~~~~~k~~p~~~~~w~~~~~~~~p~ve~~k~k~~p~~~~~r~~~~p~~~~~~~~~  314 (444)
                      |..+++..+-....+.           ++.++..-+++    ++..+.||++.+++++-+-.+.+|..+.||+..+++.+
T Consensus        67 p~~~e~~~~l~~~~~~-----------Lr~~l~kdlee----~r~~l~P~~~e~~~~~~~~~e~lr~~l~Py~~el~~~~  131 (185)
T 3r2p_A           67 PVTQEFWDNLEKETEG-----------LRQEMSKDLEE----VKAKVQPYLDDFQKKWQEEMELYRQKVEPLRAELQEGA  131 (185)
T ss_dssp             SCCHHHHHHHHHHHHH-----------HHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHH-----------HHHHHhccHHH----HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence            5555555554444444           33333333333    55555555555555555555555555555555555555


Q ss_pred             chhHHHHhhhhhhHHHHHHhhcCcchHhHHHhhcccHHHHHHHHHHHH
Q 013360          315 DPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVRAYGKFL  362 (444)
Q Consensus       315 ~Py~~e~k~~~~py~~~a~~~~~p~~~~~~~~~~Py~~~~~~~~~~~~  362 (444)
                      ...+++-+..+.||.++.++....++|.+++.+.||++.++..+..-+
T Consensus       132 ~~~~e~Lr~~L~p~~e~lr~~l~~~~e~lk~~l~Py~ee~k~kl~~~l  179 (185)
T 3r2p_A          132 RQKLHELQEKLSPLGEEMRDRARAHVDALRTHLAPYSDELRQRLAARL  179 (185)
T ss_dssp             HHHHTTTTTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence            555555555555666666666667777777777777777777766544

>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=98.41  E-value=1.6e-07  Score=85.77  Aligned_cols=106  Identities=10%  Similarity=0.086  Sum_probs=77.3

Q ss_pred             HHHHHHHHHHHHccccccchHHHHHhhhhhhHHhHHHhhhcccchhHHHHhhHHHHHHHHhhhhcchhHHhhhhhcchhH
Q 013360          239 VAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVVDPYF  318 (444)
Q Consensus       239 ~~~~k~~~~~~~~~~w~~p~~~~~~~k~~p~~~~~w~~~~~~~~p~ve~~k~k~~p~~~~~r~~~~p~~~~~~~~~~Py~  318 (444)
                      ++..+-+..|+.    +-..++.++.++.|+..+    ++..+.-.++.++.++.|..+.+|+.+.||+..++.++.||+
T Consensus        59 el~~~l~~~ld~----l~~~~~~l~~~L~P~t~e----l~~~l~~~~e~Lr~~L~~d~EelR~~l~p~~~el~~~l~~~~  130 (165)
T 1gs9_A           59 ELRALMDETMKE----LKAYKSELEEQLTPVAEE----TRARLSKELQAAQARLGADMEDVRGRLVQYRGEVQAMLGQST  130 (165)
T ss_dssp             HHHHHHHHHHHH----HHHHHHHHTTSCCCCCSH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSTTCCC
T ss_pred             HHHHHHHHHHHH----HHHHHHHHHHhccchHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444444444444    223466677777777766    556666677778888888888888888888888888888888


Q ss_pred             HHHhhhhhhHHHHHHhhcCcchHhHHHhhcccHH
Q 013360          319 QEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTK  352 (444)
Q Consensus       319 ~e~k~~~~py~~~a~~~~~p~~~~~~~~~~Py~~  352 (444)
                      .+++..+.||+++.++-...+++.++..+.||++
T Consensus       131 EelR~kl~P~~eeL~~~~~~~~eeLr~kL~p~~e  164 (165)
T 1gs9_A          131 EELRVRLASHLRKLRKRLLRDADDLQKRLAVYQA  164 (165)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHHHHHHHHHHHHHHHHhhHHHHHHHhhhhcc
Confidence            8888888888888888888888888888888754

>2l7b_A Apolipoprotein E, APO-E; lipid transport, atherosclerosis, alzheime disease; NMR {Homo sapiens}

Probab=98.33  E-value=8.8e-07  Score=88.27  Aligned_cols=114  Identities=8%  Similarity=0.104  Sum_probs=86.4

Q ss_pred             cchHHHHHHHHHHHHHccccccchHHHHHhhhhhhHHhHHHhhhcccchhHHHHhhHHHHHHHHhhh-------------
Q 013360          235 PAMDVAIQKALEKKAQAGKWVQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKT-------------  301 (444)
Q Consensus       235 p~~~~~~~k~~~~~~~~~~w~~p~~~~~~~k~~p~~~~~w~~~~~~~~p~ve~~k~k~~p~~~~~r~-------------  301 (444)
                      |..+++..+....++.           ++.++.|++.+    ++..+..||+++++.+.|+.+..++             
T Consensus       147 Py~~EL~~~~~~~~ee-----------Lr~~L~py~ee----Lr~kl~~~veelr~~L~Py~e~~~~~~~~v~~~k~~~L  211 (307)
T 2l7b_A          147 SHLRKLRKRLLRDADD-----------LQKRLAVYQAG----AREGAERGLSAIRERLGPLVEQGRVRAATVGSLAGQPL  211 (307)
T ss_dssp             HHHHHHHHHHHHHHHH-----------HHHHHHHHTSC----CSSHHHHHHHHHHHHCSSSCTTTTTHHHHHHHHHCCCC
T ss_pred             HHHHHHHHHHHhhHHH-----------HHHHHhhHHHH----HHHHHHHHHHHHHHHhhhHHHHHHHHHhhhhhhhhHHH
Confidence            5556777777776666           77888888777    7777777777777777776665444             


Q ss_pred             --hcchhHHhhhhhcchhH--------------HHHhhhhhhHHHHHHhhcCcchHhHHHhhcccHHHHHHHHHHHHH
Q 013360          302 --AVTPHIIRVQEVVDPYF--------------QEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVRAYGKFLK  363 (444)
Q Consensus       302 --~~~p~~~~~~~~~~Py~--------------~e~k~~~~py~~~a~~~~~p~~~~~~~~~~Py~~~~~~~~~~~~~  363 (444)
                        .+.|+++.|++-+.||.              ++++..++--.++++....|+++.++..+.||++.++..|.++++
T Consensus       212 ~~ki~~~~e~Lr~~L~p~~~~~~~~l~~l~~q~ee~~~ql~~~aeel~~kl~~~~eeLr~~l~P~~e~lk~~l~~l~E  289 (307)
T 2l7b_A          212 QERAQAWGERLRARMEEMGSRTRDRLDEVKEQVAEVRAKLEEQAQQIRLQAEAAQARLKSRFEPLAEDMQRQWAGQVE  289 (307)
T ss_dssp             SSCSCCHHHHHHHHHHHHHHTCSCSSCCCCSSCSSHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSCHHHHHHTTSSC
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence              44777777777666654              667778888888888889999999999999999998888877654

>2l7b_A Apolipoprotein E, APO-E; lipid transport, atherosclerosis, alzheime disease; NMR {Homo sapiens}

Probab=98.32  E-value=7.6e-07  Score=88.75  Aligned_cols=104  Identities=10%  Similarity=0.131  Sum_probs=73.1

Q ss_pred             ccchHHHHHhhhhhhHHhHHHhhhcccchhHHHHhhHHHHHHHHhhhhcchhHHhhhhhcchhHHHHhhhhhhHHHHHHh
Q 013360          255 VQPHVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVAT  334 (444)
Q Consensus       255 ~~p~~~~~~~k~~p~~~~~w~~~~~~~~p~ve~~k~k~~p~~~~~r~~~~p~~~~~~~~~~Py~~e~k~~~~py~~~a~~  334 (444)
                      +.+.++.++.++.|++.+    +...+.-|++.++.++.|+.+..|+.+..+++.|+..+.||..+.++.+..-++..+.
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            446677777777777776    6777777777777777777777777777777777777777777777777777777777


Q ss_pred             hcCcchHhHHHhh---------------cccHHHHHHHHHHHH
Q 013360          335 VAKPHVDNVRVAL---------------KPYTKKVVRAYGKFL  362 (444)
Q Consensus       335 ~~~p~~~~~~~~~---------------~Py~~~~~~~~~~~~  362 (444)
                      ...||.+.++..+               .||++.++..+.++.
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            6667666665544               677777777777754

>3na7_A HP0958; flagellar biogenesis, flagellum export, C4 Zn-ribbon, coiled post-transcriptional, gene regulation, chaperone; HET: EPE; 2.20A {Helicobacter pylori}

Probab=98.31  E-value=7.9e-05  Score=72.07  Aligned_cols=52  Identities=17%  Similarity=0.146  Sum_probs=21.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          125 IDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRK  176 (444)
Q Consensus       125 Ie~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~e  176 (444)
                      .+.|.++++.+...+..++.+..++..++..+...++.++..+++.+..+..
T Consensus        92 ~~aL~kEie~~~~~i~~lE~eile~~e~ie~~~~~l~~~~~~l~~~~~~l~~  143 (256)
T 3na7_A           92 LRSLNIEEDIAKERSNQANREIENLQNEIKRKSEKQEDLKKEMLELEKLALE  143 (256)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444444444444444444444444444444444444444433333333

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A

Probab=98.00  E-value=1.6e-05  Score=91.97  Aligned_cols=48  Identities=19%  Similarity=0.155  Sum_probs=22.4

Q ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHH
Q 013360           42 PLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERI   89 (444)
Q Consensus        42 ~l~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I   89 (444)
                      .+..++..++.++..++..+.+++.++..+..++..+...+......+
T Consensus       861 ~L~~eL~el~~~L~~le~~l~ele~~l~~Le~e~~~l~~~L~~e~~~l  908 (1184)
T 1i84_S          861 AKDEELQRTKERQQKAEAELKELEQKHTQLCEEKNLLQEKLQAETELY  908 (1184)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344555555555555555544444444444444444444443333333

>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=97.98  E-value=1.8e-05  Score=91.66  Aligned_cols=116  Identities=14%  Similarity=0.182  Sum_probs=47.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHH
Q 013360           44 KIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEK  123 (444)
Q Consensus        44 ~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~eLe~  123 (444)
                      ..++.+++.++..++..+..++..+.+.+..+..++..+.+....+......+..++...... ..+...++.++.+++.
T Consensus       856 ~~El~~L~~eL~el~~~L~~le~~l~ele~~l~~Le~e~~~l~~~L~~e~~~l~~~e~~l~~l-~~~~~~Le~~l~ele~  934 (1184)
T 1i84_S          856 EEEMQAKDEELQRTKERQQKAEAELKELEQKHTQLCEEKNLLQEKLQAETELYAEAEEMRVRL-AAKKQELEEILHEMEA  934 (1184)
T ss_dssp             HHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHH
Confidence            456677777777777777777666666666666666666666655555555554444333322 2233333334444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          124 QIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKL  160 (444)
Q Consensus       124 qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kv  160 (444)
                      +++.++.++..+..++..++.+...++..+++++..+
T Consensus       935 elee~ee~l~el~~e~~~le~el~~L~~eleele~~l  971 (1184)
T 1i84_S          935 RIEEEEERSQQLQAEKKKMQQQMLDLEEQLEEEEAAR  971 (1184)
T ss_dssp             HHHHHHHC-----------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333333333333333333333

>2v71_A Nuclear distribution protein NUDE-like 1; developmental protein, nuclear protein, neurogenesis, cytosk LIS1 binding, differentiation; 2.24A {Rattus norvegicus}

Probab=97.91  E-value=0.0015  Score=60.55  Aligned_cols=149  Identities=18%  Similarity=0.174  Sum_probs=74.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHH
Q 013360           46 ELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQI  125 (444)
Q Consensus        46 eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~eLe~qI  125 (444)
                      ++.+++.+++..+..-.+++.++   +.+|...++.+.++...+..|..+++++..|...    ....+...++.|+.++
T Consensus        25 ~~~~le~El~EFqesSrELE~EL---E~eL~~~Ek~~~~L~~~~~~L~~E~e~~k~K~~~----~~~e~~~~~~~Lq~el   97 (189)
T 2v71_A           25 SFQEARDELVEFQEGSRELEAEL---EAQLVQAEQRNRDLQADNQRLKYEVEALKEKLEH----QYAQSYKQVSVLEDDL   97 (189)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHH
Confidence            44444555555544444444442   2244444444444444444444444444433322    2234445577777777


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHhhhhHH
Q 013360          126 DNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKV---AEEEMMRAKFEATSRSKE  201 (444)
Q Consensus       126 e~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~---~Eeel~kak~E~~~~a~e  201 (444)
                      ..|....+.+...+-.+|....++|...--....+++++.+.+..-.++.-++..+..   +..++++++-|...+..+
T Consensus        98 ~~l~~~~~~l~~~ireLEq~NDdlEr~~R~~~~SleD~e~kln~aiEr~alLE~El~EKe~l~~~~QRLkdE~rDLk~E  176 (189)
T 2v71_A           98 SQTRAIKEQLHKYVRELEQANDDLERAKRATIMSLEDFEQRLNQAIERNAFLESELDEKESLLVSVQRLKDEARDLRQE  176 (189)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            7777777777777777777777777666666666666666666555555555555543   223344555555544333

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus}

Probab=97.90  E-value=0.00027  Score=81.11  Aligned_cols=125  Identities=18%  Similarity=0.240  Sum_probs=61.4

Q ss_pred             HHHHHHHHHHHHHhhhhhHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           54 IRSLESHIDEKTQELKGKDEVVAQKEKAI----QDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLK  129 (444)
Q Consensus        54 i~~Lesqi~ele~eI~~k~~eIk~~e~~I----~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~eLe~qIe~Lk  129 (444)
                      ..+|++++.+++..+++.+++..++...+    ...+.++.+|+.+++.++..     +.+...+++++..|+++++.++
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 HIGLENKIMQLQRKIDEQNKEYKSLLEKMNNLEITYSTETEKLRSDVERLRMS-----EEEAKNATNRVLSLQEEIAKLR  997 (1080)
T ss_dssp             ----------------------------CHHHHHHHHHHHHHHHHTHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHH
Confidence            34455555555555544444444444333    23455566666666555432     3344456677777777777777


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          130 KESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEE  186 (444)
Q Consensus       130 kelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Ee  186 (444)
                      ++++...++...++.+...+.   .+++.++..|++.+..+++++++++..+...++
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            777777777777766665555   355566777777777777777777765555544

>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=97.73  E-value=3.1e-05  Score=70.57  Aligned_cols=79  Identities=13%  Similarity=0.167  Sum_probs=54.2

Q ss_pred             hhHHHHhhHHHHHHHHhhhhcchhHHhhhhhcchhHHHHhhhhhhHHHHHHhhcCcchHhHHHhhcccHHHHHHHHHHH
Q 013360          283 PHVQTLKTKTIEACEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVRVALKPYTKKVVRAYGKF  361 (444)
Q Consensus       283 p~ve~~k~k~~p~~~~~r~~~~p~~~~~~~~~~Py~~e~k~~~~py~~~a~~~~~p~~~~~~~~~~Py~~~~~~~~~~~  361 (444)
                      .+++.++.++.|+.+.+++.+...++.+++.+.|++++++..+.||.++.+....||++.++..+.||+++.+.....-
T Consensus        73 ~~~~~l~~~L~P~t~el~~~l~~~~e~Lr~~L~~d~EelR~~l~p~~~el~~~l~~~~EelR~kl~P~~eeL~~~~~~~  151 (165)
T 1gs9_A           73 AYKSELEEQLTPVAEETRARLSKELQAAQARLGADMEDVRGRLVQYRGEVQAMLGQSTEELRVRLASHLRKLRKRLLRD  151 (165)
T ss_dssp             HHHHHHTTSCCCCCSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSTTCCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            3455566666666666666666666667777777777777777777777777777777777777777777766554443

>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=0.021  Score=51.28  Aligned_cols=64  Identities=22%  Similarity=0.272  Sum_probs=30.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          125 IDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEM  188 (444)
Q Consensus       125 Ie~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel  188 (444)
                      -+.++.+|..+...+...+.++...+..+..++..++.++..+...+.+...+...+..+-.++
T Consensus        72 Ed~yEeqIk~L~~kLKEAE~RAE~AERsv~kLEk~id~lEd~L~~~Kek~~~i~~eLd~tl~el  135 (155)
T 2efr_A           72 EDKYEEEIKVLSDKLKEAETRAEFAERSVTKLEKSIDDLEDELYAQKLKYKAISEEMKQLEDKV  135 (155)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444444444444455555555555555555555555555544444444444444443333

>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=0.0012  Score=70.07  Aligned_cols=33  Identities=15%  Similarity=0.162  Sum_probs=15.5

Q ss_pred             hhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           67 ELKGKDEVVAQKEKAIQDKSERIVSLQKELSSL   99 (444)
Q Consensus        67 eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sL   99 (444)
                      ++.+++.++..++..+...+..++.+..+|+..
T Consensus       457 e~~~~~~~i~~l~~~~~~~~~~l~~~~~~i~~~  489 (597)
T 3oja_B          457 EVNELRAEVQQLTNEQIQQEQLLQGLHAEIDTN  489 (597)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence            333444444444444444455555555544433

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus}

Probab=97.55  E-value=0.0012  Score=75.77  Aligned_cols=24  Identities=13%  Similarity=0.264  Sum_probs=9.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          113 KAHARADELEKQIDNLKKESEKQQ  136 (444)
Q Consensus       113 ~ae~~i~eLe~qIe~LkkelE~~~  136 (444)
                      .+++++.+++.+++++.++.+.++
T Consensus       988 ~L~~e~~~l~~~~~~~~ke~~~le 1011 (1080)
T 2dfs_A          988 SLQEEIAKLRKELHQTQTEKKTIE 1011 (1080)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333344444444444444433333

>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=97.50  E-value=0.019  Score=51.53  Aligned_cols=62  Identities=21%  Similarity=0.204  Sum_probs=38.9

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 013360           43 LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKET  104 (444)
Q Consensus        43 l~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s  104 (444)
                      +...|+....+....++++.+++.++......++.++..-...+..-..+..+|..|..+..
T Consensus        26 ~E~dLEraEERae~aE~k~~eLEeeL~~v~~nlKsLE~seekasqrEd~yEeqIk~L~~kLK   87 (155)
T 2efr_A           26 LKKLLERAEERAELSEGKSAELEEELKTVTNNLKSLEAQAEKYSQKEDKYEEEIKVLSDKLK   87 (155)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccchhhhhHHHHHHHHHHHHHHHHHHHHH
Confidence            44555556666666666666666666666666666666666666666666666666654443

>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=97.43  E-value=0.011  Score=51.41  Aligned_cols=28  Identities=32%  Similarity=0.372  Sum_probs=10.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          148 EAEKKISDLSAKLEKLQKINDEQKSKIR  175 (444)
Q Consensus       148 elEkkleEle~kveeLe~~~eeqekqI~  175 (444)
                      +.+....++......++..+.+++.+|+
T Consensus        94 eeee~~~~L~~~kkkle~e~~~Lk~~le  121 (129)
T 2fxo_A           94 DEEEMNAELTAKKRKLEDECSELKRDID  121 (129)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333333333333

>3o0z_A RHO-associated protein kinase 1; coiled-coil, transferase; HET: MSE; 2.33A {Homo sapiens}

Probab=97.39  E-value=0.046  Score=49.55  Aligned_cols=47  Identities=19%  Similarity=0.314  Sum_probs=18.1

Q ss_pred             HHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           53 KIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSL   99 (444)
Q Consensus        53 ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sL   99 (444)
                      ++.+|+.++.+++..++.=.+.-..+.+...+....++.+...+..|
T Consensus         7 Ki~~LekQL~E~n~kLk~EsE~~~rlkK~~tEl~k~~~~~E~~~rEL   53 (168)
T 3o0z_A            7 KLSQLQKQLEEANDLLRTESDTAVRLRKSHTEMSKSISQLESLNREL   53 (168)
T ss_dssp             ---CTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444433333333333334444444444433333

>3u1c_A Tropomyosin alpha-1 chain; anti-parallel coiled coil, contractIle protein; 1.80A {Gallus gallus} PDB: 3u1a_A

Probab=97.32  E-value=0.012  Score=49.09  Aligned_cols=54  Identities=19%  Similarity=0.287  Sum_probs=34.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           47 LDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQ  100 (444)
Q Consensus        47 L~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLq  100 (444)
                      ++.++.++..|....+......+.....++..+..-.+.+.+|.+|+.+|..++
T Consensus         4 MdaIKkKm~~lk~e~e~a~drae~~e~~~k~~e~~~~~~E~Ei~sL~kk~~~lE   57 (101)
T 3u1c_A            4 MDAIKKKMQMLKLDKENALDRAEQAEADKKAAEERSKQLEDDIVQLEKQLRVTE   57 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Confidence            566777777777777777666666666666666666666666666555555443

>3o0z_A RHO-associated protein kinase 1; coiled-coil, transferase; HET: MSE; 2.33A {Homo sapiens}

Probab=97.27  E-value=0.083  Score=47.90  Aligned_cols=122  Identities=13%  Similarity=0.175  Sum_probs=60.4

Q ss_pred             chHHHHHHHHHHHHHH-------HHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHH
Q 013360           42 PLKIELDQLKSKIRSL-------ESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKA  114 (444)
Q Consensus        42 ~l~~eL~~l~~ki~~L-------esqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~a  114 (444)
                      .+..+|++++.++..-       .....++...+...+....++...+..+...-..|+.++..||..+..- .......
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            4667777776666433       2233333333334444444444444444444444444444444333221 1233355


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          115 HARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQ  164 (444)
Q Consensus       115 e~~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe  164 (444)
                      .+.+.+++..|..|..+++...........+...+..++..+++....++
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            55666666666666666666665555555555555444444444444433

>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=0.0054  Score=65.01  Aligned_cols=61  Identities=7%  Similarity=-0.001  Sum_probs=25.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013360          138 EKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSR  198 (444)
Q Consensus       138 e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak~E~~~~  198 (444)
                      +.+.++.+....++..++.....+.++++..+++.++++.++++..+.++...+..+...+
T Consensus       517 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~le~~~~~~~~~~~~l~~e~~~~~~~~~~l  577 (597)
T 3oja_B          517 RQAFKLRETQARRTEADAKQKETEDLEQENIALEKQLDNKRAKQAELRQETSLKRQKVKQL  577 (597)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhhhHHHHHHHHHhhhhhhcchhhHHhhhHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHH
Confidence            3333333333344444444444444444444444444444444444444444444444433

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=97.22  E-value=0.019  Score=72.09  Aligned_cols=39  Identities=18%  Similarity=0.278  Sum_probs=23.0

Q ss_pred             HHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           59 SHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELS   97 (444)
Q Consensus        59 sqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~   97 (444)
                      +++.+...++++...++..++..+++++.+-.++-.+|.
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            455555566666666666666666666665555555543

>2v71_A Nuclear distribution protein NUDE-like 1; developmental protein, nuclear protein, neurogenesis, cytosk LIS1 binding, differentiation; 2.24A {Rattus norvegicus}

Probab=97.17  E-value=0.15  Score=47.21  Aligned_cols=142  Identities=18%  Similarity=0.118  Sum_probs=75.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHH
Q 013360           44 KIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQ----KEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARAD  119 (444)
Q Consensus        44 ~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~----~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~  119 (444)
                      ..++.--+....++..+..+++.++++..+.=++    ++..|...++.+.+|++++..+.......    -.+.+..-.
T Consensus         9 ~ee~~ywk~~~~~~~q~~~~le~El~EFqesSrELE~ELE~eL~~~Ek~~~~L~~~~~~L~~E~e~~----k~K~~~~~~   84 (189)
T 2v71_A            9 KEETAYWKELSMKYKQSFQEARDELVEFQEGSRELEAELEAQLVQAEQRNRDLQADNQRLKYEVEAL----KEKLEHQYA   84 (189)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHH
Confidence            4445444554444555555555554444444333    34555555666666666555554333222    112233333


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          120 ELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMM  189 (444)
Q Consensus       120 eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~  189 (444)
                      +.+.++..|++++..+......+..++-++|..-.+++.........++.++.++...-.++.-++.++.
T Consensus        85 e~~~~~~~Lq~el~~l~~~~~~l~~~ireLEq~NDdlEr~~R~~~~SleD~e~kln~aiEr~alLE~El~  154 (189)
T 2v71_A           85 QSYKQVSVLEDDLSQTRAIKEQLHKYVRELEQANDDLERAKRATIMSLEDFEQRLNQAIERNAFLESELD  154 (189)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444466667666666666666666666666665556655555555555555555555555555555554

>3u59_A Tropomyosin beta chain; muscle contraction, actin, contractIle protein; 2.50A {Gallus gallus}

Probab=97.15  E-value=0.02  Score=47.73  Aligned_cols=54  Identities=19%  Similarity=0.255  Sum_probs=34.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           47 LDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQ  100 (444)
Q Consensus        47 L~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLq  100 (444)
                      ++.++.++..|..+.+............++..+..-.+.+..|.+|+.+|..++
T Consensus         4 md~iKkKm~~lk~e~e~a~d~ae~~e~~~k~~e~~~~~~E~ei~sL~kKiq~lE   57 (101)
T 3u59_A            4 MEAIKKKMQMLKLDKENAIDRAEQAEADKKQAEDRCKQLEEEQQGLQKKLKGTE   57 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Confidence            456777777777777776666666666666666666666666666555555443

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=97.14  E-value=0.034  Score=69.91  Aligned_cols=63  Identities=13%  Similarity=0.248  Sum_probs=30.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          124 QIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEE  186 (444)
Q Consensus       124 qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Ee  186 (444)
                      ++..++++++..+.++.+.++++.+++.+++.++.+.+....+.+.++.+++..+.+++.++.
T Consensus      2015 ~l~~ae~~l~~~~~~L~~~~~~L~~le~~l~~L~~~~~~~~~ek~~L~~e~~~~~~kl~rA~~ 2077 (3245)
T 3vkg_A         2015 EVEQLENAANELKLKQDEIVATITALEKSIATYKEEYATLIRETEQIKTESSKVKNKVDRSIA 2077 (3245)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444444444444555555555555555555444555555555555555444443

>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=97.05  E-value=0.086  Score=45.68  Aligned_cols=39  Identities=15%  Similarity=0.230  Sum_probs=14.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          144 ARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALK  182 (444)
Q Consensus       144 ae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq  182 (444)
                      ..+.+++.++.+.+.....|......++..+.+++.+|.
T Consensus        83 ~~l~el~~rleeeee~~~~L~~~kkkle~e~~~Lk~~le  121 (129)
T 2fxo_A           83 AKVKEMNKRLEDEEEMNAELTAKKRKLEDECSELKRDID  121 (129)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333333333333333333333333333

>4gkw_A Spindle assembly abnormal protein 6; double helix, SAS-5, centriole, structural protein; 3.30A {Caenorhabditis elegans}

Probab=96.21  E-value=0.54  Score=40.83  Aligned_cols=133  Identities=9%  Similarity=0.198  Sum_probs=74.3

Q ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHH-HH
Q 013360           69 KGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKESEKQQKEKE--ALE-AR  145 (444)
Q Consensus        69 ~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~eLe~qIe~LkkelE~~~~e~~--~LE-ae  145 (444)
                      ++...++.+....+.-.-+-+.+-+.+++.+|+.+.. -++++..+.++.+-+....+.....+.....+..  .+. -+
T Consensus        21 ~s~~~eleEnqeEL~iVgkML~EEqgKVDQlqKRn~~-HQKEi~~Lrae~~~~QRn~~K~~~~Lkrn~~qQnQQSlDiRK   99 (167)
T 4gkw_A           21 ESLQKQLEENQEELEIVGNMLREEQGKVDQLQKRNVA-HQKEIGKLRAELGTAQRNLEKADQLLKRNSQQQNQQSLDMRK   99 (167)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHhccH-HHHHHHHHHHHHHHHHHhHHHHHHHHHhhhHHHhHhhhhHHH
Confidence            3333333334444444556667778888888766654 3555555555555555544444444333222221  122 23


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHh
Q 013360          146 AIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSKEL  202 (444)
Q Consensus       146 ~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak~E~~~~a~ei  202 (444)
                      +.++|..+.+-.+.++.|...+.-+.+.++.-.-..+....--.+++.|-......+
T Consensus       100 LrELEADLKEKDsMVe~LT~TiG~LrKELEdEklK~~E~MdSFE~LkvENE~vkerl  156 (167)
T 4gkw_A          100 LGELEADLKEKDSMVESLTETIGILRKELENEKLKAAENMDSFEKLSMENENLKEKI  156 (167)
T ss_dssp             THHHHHTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhHHHHH
Confidence            566777777777777777777777777766655555555555556665555444333

>3u59_A Tropomyosin beta chain; muscle contraction, actin, contractIle protein; 2.50A {Gallus gallus}

Probab=96.07  E-value=0.32  Score=40.26  Aligned_cols=10  Identities=10%  Similarity=0.381  Sum_probs=3.6

Q ss_pred             HHHHHHHHHH
Q 013360          172 SKIRKTERAL  181 (444)
Q Consensus       172 kqI~elE~~L  181 (444)
                      ..+..+.++|
T Consensus        86 ~evasLnRri   95 (101)
T 3u59_A           86 AEVASLNRRI   95 (101)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            3333333333

>3tnu_B Keratin, type II cytoskeletal 5; coiled-coil, structural support, cytosolic protein; 3.00A {Homo sapiens}

Probab=96.03  E-value=0.11  Score=44.86  Aligned_cols=13  Identities=23%  Similarity=0.381  Sum_probs=4.8

Q ss_pred             HHHHHHHHHHHHH
Q 013360           86 SERIVSLQKELSS   98 (444)
Q Consensus        86 e~~I~eLq~kI~s   98 (444)
                      ...|+.|+.+|++
T Consensus        42 rr~iq~L~~el~~   54 (129)
T 3tnu_B           42 NRMIQRLRAEIDN   54 (129)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            3333333333333

>2eqb_B RAB guanine nucleotide exchange factor SEC2; coiled coil, endocytosis/exocytosis complex; 2.70A {Saccharomyces cerevisiae} SCOP: h.1.33.1

Probab=95.95  E-value=0.25  Score=40.91  Aligned_cols=58  Identities=24%  Similarity=0.359  Sum_probs=37.4

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           43 LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQ  100 (444)
Q Consensus        43 l~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLq  100 (444)
                      +..+++.++.+|.+|+++....+.++..+...+..-...-...+.....++.++++|.
T Consensus         3 ~~~~~e~lre~l~~le~~~~~~~~e~~~L~~~l~eE~~~R~~aE~~~~~ie~ElEeLT   60 (97)
T 2eqb_B            3 LGSNYNQLKEDYNTLKRELSDRDDEVKRLREDIAKENELRTKAEEEADKLNKEVEDLT   60 (97)
T ss_dssp             --CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4456777777777777777777666666666666666666666666666666666553

>3tnu_A Keratin, type I cytoskeletal 14; coiled-coil, structural support, cytosolic protein; 3.00A {Homo sapiens}

Probab=95.92  E-value=0.11  Score=45.04  Aligned_cols=22  Identities=23%  Similarity=0.288  Sum_probs=6.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q 013360           78 KEKAIQDKSERIVSLQKELSSL   99 (444)
Q Consensus        78 ~e~~I~e~e~~I~eLq~kI~sL   99 (444)
                      ....|.+....|+.|+.+|+++
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=95.92  E-value=0.17  Score=43.77  Aligned_cols=45  Identities=18%  Similarity=0.339  Sum_probs=33.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          109 EQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKI  153 (444)
Q Consensus       109 ~~i~~ae~~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkl  153 (444)
                      ..+..++.+|.+++..|++|+.+++.+......|+..+.+++...
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            445567778888889999999999988888888888888877643

>3tnu_A Keratin, type I cytoskeletal 14; coiled-coil, structural support, cytosolic protein; 3.00A {Homo sapiens}

Probab=95.75  E-value=0.16  Score=44.10  Aligned_cols=45  Identities=27%  Similarity=0.342  Sum_probs=29.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          109 EQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKI  153 (444)
Q Consensus       109 ~~i~~ae~~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkl  153 (444)
                      ..+..++.+|.+++..|++|+.+++.+...+..|+..+.+++...
T Consensus        31 ~~l~~~k~Ei~elrr~iq~L~~el~~l~~~~~sLE~~l~e~e~~~   75 (131)
T 3tnu_A           31 ELVQSGKSEISELRRTMQNLEIELQSQLSMKASLENSLEETKGRY   75 (131)
T ss_dssp             ----------CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Confidence            445567778888889999999998888888888888888877643

>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=95.75  E-value=0.27  Score=51.59  Aligned_cols=47  Identities=15%  Similarity=0.261  Sum_probs=30.1

Q ss_pred             HHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          115 HARAD-ELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLE  161 (444)
Q Consensus       115 e~~i~-eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kve  161 (444)
                      ..++. +|+.+|+.|+.+++.+-..+..|+..+.++..+++.|+..|+
T Consensus       108 ynE~S~ELRRrIqyLKekVdnQlsnIrvLQsnLedq~~kIQRLEvDId  155 (562)
T 3ghg_A          108 YNRVSEDLRSRIEVLKRKVIEKVQHIQLLQKNVRAQLVDMKRLEVDID  155 (562)
T ss_dssp             HHHTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444 677777777777777766666666666666666666655553

>3hnw_A Uncharacterized protein; coiled-coil, structural genomics, PSI-2, protein structure initiative, midwest center for structural genomics, MCSG; 2.20A {Eubacterium eligens}

Probab=95.47  E-value=0.19  Score=44.19  Aligned_cols=56  Identities=18%  Similarity=0.215  Sum_probs=26.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           45 IELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQ  100 (444)
Q Consensus        45 ~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLq  100 (444)
                      .++-.++.++..|+.++.++..++.++..++.+....+++..+++.+++.++..|+
T Consensus        68 dEl~k~~~~~~~L~~~l~~~~kE~~~lK~el~~~~~k~e~~~~e~~~l~~~~~~l~  123 (138)
T 3hnw_A           68 DDYFKAKKMADSLSLDIENKDKEIYDLKHELIAAQIKAESSAKEIKELKSEINKYQ  123 (138)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444555555555555555444444444444444444444444444444444333

>2b9c_A Striated-muscle alpha tropomyosin; alpha-helix, coiled coil, alanine, axial stagger, radius, SIDE-chain packing, crystal packing; 2.30A {Rattus norvegicus} SCOP: h.1.5.1

Probab=95.42  E-value=0.066  Score=47.63  Aligned_cols=24  Identities=17%  Similarity=0.133  Sum_probs=9.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           74 VVAQKEKAIQDKSERIVSLQKELS   97 (444)
Q Consensus        74 eIk~~e~~I~e~e~~I~eLq~kI~   97 (444)
                      ..+.+++.-..-+..|..|..++.
T Consensus        39 ~~k~lE~r~~~deEr~~~lE~qLk   62 (147)
T 2b9c_A           39 GMKVIESRAQKDEEKMEIQEIQLK   62 (147)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhhcccHHHHHHHHHHHH
Confidence            333344443344444444444443

>3hnw_A Uncharacterized protein; coiled-coil, structural genomics, PSI-2, protein structure initiative, midwest center for structural genomics, MCSG; 2.20A {Eubacterium eligens}

Probab=95.29  E-value=0.41  Score=42.05  Aligned_cols=55  Identities=29%  Similarity=0.327  Sum_probs=24.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          109 EQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKL  163 (444)
Q Consensus       109 ~~i~~ae~~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeL  163 (444)
                      .+..++..++..|+.+++.+.+++.+++.++..+.-+..++++++.++..++..|
T Consensus        68 dEl~k~~~~~~~L~~~l~~~~kE~~~lK~el~~~~~k~e~~~~e~~~l~~~~~~l  122 (138)
T 3hnw_A           68 DDYFKAKKMADSLSLDIENKDKEIYDLKHELIAAQIKAESSAKEIKELKSEINKY  122 (138)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444455555555555555544444444444444444433333333333333

>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=95.15  E-value=1.7  Score=38.86  Aligned_cols=25  Identities=4%  Similarity=0.022  Sum_probs=9.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          169 EQKSKIRKTERALKVAEEEMMRAKF  193 (444)
Q Consensus       169 eqekqI~elE~~Lq~~Eeel~kak~  193 (444)
                      ..+.+...++.++...+..+..++.
T Consensus       112 ~~e~r~~~L~~ql~e~~~~l~~lq~  136 (154)
T 2ocy_A          112 AIEILNKRLTEQLREKDTLLDTLTL  136 (154)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333444433333333333

>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=95.14  E-value=0.34  Score=38.49  Aligned_cols=47  Identities=21%  Similarity=0.201  Sum_probs=19.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          146 AIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAK  192 (444)
Q Consensus       146 ~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak  192 (444)
                      +..++..+.+.+......+..+..++.+|..++..+..+++.+..+.
T Consensus        22 ~~~~e~~l~~~e~~~~~~E~ev~~L~kKiq~lE~eld~~ee~l~~a~   68 (81)
T 1ic2_A           22 AEQAEADKKAAEERSKQLEDELVALQKKLKGTEDELDKYSESLKDAQ   68 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333334444444444444444444444444444333

>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=94.93  E-value=0.51  Score=37.49  Aligned_cols=62  Identities=19%  Similarity=0.292  Sum_probs=25.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          118 ADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTER  179 (444)
Q Consensus       118 i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~  179 (444)
                      +..+..+.+......+..+.++...+.+...++..+..++.++..++..++..+.++.....
T Consensus         8 m~~lk~e~d~a~~~~~~~e~~l~~~e~~~~~~E~ev~~L~kKiq~lE~eld~~ee~l~~a~~   69 (81)
T 1ic2_A            8 MQMLKLDKENALDRAEQAEADKKAAEERSKQLEDELVALQKKLKGTEDELDKYSESLKDAQE   69 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333444444444444444444444444444444444444444444444443333333333

>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=94.80  E-value=0.33  Score=50.98  Aligned_cols=41  Identities=20%  Similarity=0.242  Sum_probs=19.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          141 ALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERAL  181 (444)
Q Consensus       141 ~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~L  181 (444)
                      +|+.++..|+.+++..-..+..|+..+++|-.+|+.||-+|
T Consensus       114 ELRRrIqyLKekVdnQlsnIrvLQsnLedq~~kIQRLEvDI  154 (562)
T 3ghg_A          114 DLRSRIEVLKRKVIEKVQHIQLLQKNVRAQLVDMKRLEVDI  154 (562)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444444444444444444555555555555555555444

>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=94.78  E-value=1.2  Score=39.41  Aligned_cols=12  Identities=17%  Similarity=0.213  Sum_probs=4.5

Q ss_pred             HHHHHHHHHHHH
Q 013360          117 RADELEKQIDNL  128 (444)
Q Consensus       117 ~i~eLe~qIe~L  128 (444)
                      ++..|+.++...
T Consensus        53 r~~~lE~qLkea   64 (147)
T 2b9c_A           53 KMEIQEIQLKEA   64 (147)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            333333333333

>2v4h_A NF-kappa-B essential modulator; transcription, metal-binding, NEMO - IKK gamma - NFKB pathwa darpin, transcription regulation; 2.9A {Mus musculus}

Probab=94.58  E-value=0.44  Score=40.15  Aligned_cols=40  Identities=18%  Similarity=0.249  Sum_probs=19.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          117 RADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDL  156 (444)
Q Consensus       117 ~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleEl  156 (444)
                      +|..|+.|++-.+.+...-....+.+..++.++..++..+
T Consensus        63 ~I~vLkaQv~IY~~DF~aERadREkl~~eKe~L~~ql~~L  102 (110)
T 2v4h_A           63 TVPVLKAQADIYKADFQAERHAREKLVEKKEYLQEQLEQL  102 (110)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHccchhhHHHHHhHHHHHHHHHHHH
Confidence            3445555555555555554444444444444444443333

>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=94.50  E-value=0.81  Score=37.96  Aligned_cols=22  Identities=18%  Similarity=0.305  Sum_probs=9.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q 013360           78 KEKAIQDKSERIVSLQKELSSL   99 (444)
Q Consensus        78 ~e~~I~e~e~~I~eLq~kI~sL   99 (444)
                      +...+.....+|..+...+..+
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            3333344444444444444444

>2xzr_A Immunoglobulin-binding protein EIBD; cell adhesion, trimeric autotransporter adhesin, TAA; 2.80A {Enterobacteria phage p-eibd}

Probab=94.45  E-value=1.7  Score=35.71  Aligned_cols=82  Identities=18%  Similarity=0.281  Sum_probs=36.8

Q ss_pred             HHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           51 KSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKK  130 (444)
Q Consensus        51 ~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~eLe~qIe~Lkk  130 (444)
                      ..+|..+-+.+-.++.++.-.+.-+-.++..|..+.+.|..-+..|+..        ++...+..++++....||.+.-+
T Consensus         5 ~~~~~~~~~~~~~~~~~~~ri~~aig~~d~ri~~NtqaI~~NS~aiaan--------Tr~lQqh~aRlnsqQrQI~ENhk   76 (114)
T 2xzr_A            5 EDKIEEILSKIYHIENEIARIKKLIGAIDGRVTRNTQSIEKNSKAIAAN--------TRTLQQHSARLDSQQRQINENHK   76 (114)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcchHHHHHHHHhhhhHHHHhhHHHHHhchHHHHHh--------HHHHHHHHHHHHhHHHHHHHHHH
Confidence            3444444444444444444444444444444444444444444433322        23333445555555555554444


Q ss_pred             HHHHHHHHHH
Q 013360          131 ESEKQQKEKE  140 (444)
Q Consensus       131 elE~~~~e~~  140 (444)
                      +......+.+
T Consensus        77 EMKq~aaqsa   86 (114)
T 2xzr_A           77 EMKQIEDKIE   86 (114)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            4433333333

>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=94.42  E-value=2.6  Score=37.62  Aligned_cols=31  Identities=10%  Similarity=0.214  Sum_probs=12.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          161 EKLQKINDEQKSKIRKTERALKVAEEEMMRA  191 (444)
Q Consensus       161 eeLe~~~eeqekqI~elE~~Lq~~Eeel~ka  191 (444)
                      ..++.++..++.++.+.+..+..++.++..+
T Consensus       111 ~~~e~r~~~L~~ql~e~~~~l~~lq~ql~~L  141 (154)
T 2ocy_A          111 YAIEILNKRLTEQLREKDTLLDTLTLQLKNL  141 (154)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333344444444444444444444444433

>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=94.40  E-value=0.1  Score=40.95  Aligned_cols=47  Identities=32%  Similarity=0.519  Sum_probs=33.7

Q ss_pred             HHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           54 IRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQ  100 (444)
Q Consensus        54 i~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLq  100 (444)
                      |.+|+.-+.....+|..+++-|..++..|.+++..|.+|+++++.++
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            55666666666666777777777777777777777777777776553

>2oto_A M protein; helical coiled coil, fibrinogen-binding, virulence factor, S active protein, toxin; 3.04A {Streptococcus pyogenes serotype M1} PDB: 2xny_M

Probab=94.32  E-value=2.6  Score=37.22  Aligned_cols=11  Identities=9%  Similarity=0.419  Sum_probs=4.0

Q ss_pred             HHHHHHHHHHH
Q 013360           52 SKIRSLESHID   62 (444)
Q Consensus        52 ~ki~~Lesqi~   62 (444)
                      .+-..|.+...
T Consensus        29 ~eN~~Lk~e~e   39 (155)
T 2oto_A           29 HENKDLKARLE   39 (155)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            33333333333

>2e7s_A RAB guanine nucleotide exchange factor SEC2; coiled coil, endocytosis/exocytosis complex; 3.00A {Saccharomyces cerevisiae} SCOP: h.1.33.1

Probab=94.25  E-value=0.22  Score=43.55  Aligned_cols=18  Identities=22%  Similarity=0.344  Sum_probs=7.3

Q ss_pred             HHHHHHHHHHHHHHHHHH
Q 013360           46 ELDQLKSKIRSLESHIDE   63 (444)
Q Consensus        46 eL~~l~~ki~~Lesqi~e   63 (444)
                      +|..++..+.....++.+
T Consensus         9 ~L~~~r~~l~~~~~~~~~   26 (135)
T 2e7s_A            9 QLNKSLKTIASQKAAIEN   26 (135)
T ss_dssp             TTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            333444444444333333

>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=94.24  E-value=0.81  Score=47.73  Aligned_cols=11  Identities=45%  Similarity=0.619  Sum_probs=4.2

Q ss_pred             HHHHHHHHHHH
Q 013360          171 KSKIRKTERAL  181 (444)
Q Consensus       171 ekqI~elE~~L  181 (444)
                      ..+|+.++..+
T Consensus       181 ~~ki~~l~~~~  191 (464)
T 1m1j_B          181 HKKIQKLENAI  191 (464)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            33333333333

>2v66_B Nuclear distribution protein NUDE-like 1; structural protein, developmental protein, structural protei phosphorylation, transport, microtubule; 2.10A {Homo sapiens}

Probab=94.14  E-value=2.3  Score=35.93  Aligned_cols=65  Identities=15%  Similarity=0.143  Sum_probs=31.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          116 ARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERA  180 (444)
Q Consensus       116 ~~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~  180 (444)
                      ..++.|+.++..|....+.+...+-.+|..-.++|...--...-+++++.+....-.+..=++..
T Consensus        35 ~~~~~Lq~El~~lr~~~~~l~~~iReLEq~NDDLER~~R~t~~SLeD~E~k~n~aiErnalLE~E   99 (111)
T 2v66_B           35 KQVSVLEDDLSQTRAIKEQLHKYVRELEQANDDLERAKRATIVSLEDFEQRLNQAIERNAFLESE   99 (111)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHH
Confidence            34455555555555555555555555555555555544444444444444444333333333333

>2jee_A YIIU; FTSZ, septum, coiled-coil, cell division, cell cycle, hypothetical protein; 2.8A {Escherichia coli}

Probab=93.87  E-value=1.4  Score=35.31  Aligned_cols=24  Identities=21%  Similarity=0.261  Sum_probs=8.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          126 DNLKKESEKQQKEKEALEARAIEA  149 (444)
Q Consensus       126 e~LkkelE~~~~e~~~LEae~~el  149 (444)
                      ..|+-+++.++.+...+..+.+++
T Consensus        23 ~lLqmEieELKekN~~L~~e~~e~   46 (81)
T 2jee_A           23 TLLQMEIEELKEKNNSLSQEVQNA   46 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333333333333

>2eqb_B RAB guanine nucleotide exchange factor SEC2; coiled coil, endocytosis/exocytosis complex; 2.70A {Saccharomyces cerevisiae} SCOP: h.1.33.1

Probab=93.65  E-value=2.3  Score=35.10  Aligned_cols=55  Identities=15%  Similarity=0.308  Sum_probs=29.7

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           43 LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELS   97 (444)
Q Consensus        43 l~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~   97 (444)
                      ++.+|+++..++...+.++..+..++..-...-...+......+.++.+|...+=
T Consensus        10 lre~l~~le~~~~~~~~e~~~L~~~l~eE~~~R~~aE~~~~~ie~ElEeLTasLF   64 (97)
T 2eqb_B           10 LKEDYNTLKRELSDRDDEVKRLREDIAKENELRTKAEEEADKLNKEVEDLTASLF   64 (97)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4555555555555555555555555555555455555555555555555555543

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=93.32  E-value=4  Score=41.87  Aligned_cols=58  Identities=14%  Similarity=0.054  Sum_probs=33.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 013360          142 LEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRS  199 (444)
Q Consensus       142 LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak~E~~~~a  199 (444)
                      ++.+...++...+....+++.+.++.+.++..++++..++..+.+.++.+..+..-++
T Consensus       426 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  483 (487)
T 3oja_A          426 QQSVQNNAIRDWDMYQHKETQLAEENARLKKLNGEADLALASANATLQELVVREQNLA  483 (487)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhhcchhhhhhhhhHHHHHHHHhhhhhhhhhhhhhhhHhcccHHHHHHHHHHHHH
Confidence            3334444444455555566666666666666666666666666666665555544443

>3a7p_A Autophagy protein 16; coiled-coil, coiled coil, cytoplasmic vesicle, protein transport, transport, vacuole; 2.80A {Saccharomyces cerevisiae}

Probab=93.29  E-value=0.9  Score=40.41  Aligned_cols=48  Identities=19%  Similarity=0.217  Sum_probs=25.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           46 ELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQ  100 (444)
Q Consensus        46 eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLq  100 (444)
                      ..++....|..|++.+..+       ...|.+++..+.++++.++.+++++.+|+
T Consensus        62 ~~~~~~~~I~~L~~El~~l-------~~ki~dLeeel~eK~K~~e~l~DEl~aLq  109 (152)
T 3a7p_A           62 HDDALLNTLAILQKELKSK-------EQEIRRLKEVIALKNKNTERLNAALISGT  109 (152)
T ss_dssp             HHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444444444       44444455555566666666666666665

>2e7s_A RAB guanine nucleotide exchange factor SEC2; coiled coil, endocytosis/exocytosis complex; 3.00A {Saccharomyces cerevisiae} SCOP: h.1.33.1

Probab=93.19  E-value=0.24  Score=43.33  Aligned_cols=18  Identities=11%  Similarity=0.084  Sum_probs=9.7

Q ss_pred             chHHHHHHHHHHHHHHHH
Q 013360           42 PLKIELDQLKSKIRSLES   59 (444)
Q Consensus        42 ~l~~eL~~l~~ki~~Les   59 (444)
                      ..+.+|...+.++.+++.
T Consensus        12 ~~r~~l~~~~~~~~~le~   29 (135)
T 2e7s_A           12 KSLKTIASQKAAIENYNQ   29 (135)
T ss_dssp             HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            345555555555555554

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=93.13  E-value=2.1  Score=44.04  Aligned_cols=22  Identities=9%  Similarity=0.163  Sum_probs=8.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q 013360           78 KEKAIQDKSERIVSLQKELSSL   99 (444)
Q Consensus        78 ~e~~I~e~e~~I~eLq~kI~sL   99 (444)
                      ++..+........+...++...
T Consensus       372 le~~~~~~~~~~~~~~~~~~~~  393 (487)
T 3oja_A          372 LDEQVSNGRRAHAELDGTLQQA  393 (487)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhhhhHHHh
Confidence            3333333334444444444333

>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=93.10  E-value=1.9  Score=35.63  Aligned_cols=8  Identities=0%  Similarity=0.322  Sum_probs=2.9

Q ss_pred             HHHHHHHH
Q 013360           87 ERIVSLQK   94 (444)
Q Consensus        87 ~~I~eLq~   94 (444)
                      ..+.++..
T Consensus        10 ~~~~~~~~   17 (112)
T 1l8d_A           10 TKKTTIEE   17 (112)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            33333333

>3a7p_A Autophagy protein 16; coiled-coil, coiled coil, cytoplasmic vesicle, protein transport, transport, vacuole; 2.80A {Saccharomyces cerevisiae}

Probab=93.08  E-value=1.6  Score=38.75  Aligned_cols=57  Identities=21%  Similarity=0.207  Sum_probs=25.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           44 KIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQ  100 (444)
Q Consensus        44 ~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLq  100 (444)
                      ...|..++.++..++.+|..++.++.++...+..+.+++.-+.-+...+++++..++
T Consensus        67 ~~~I~~L~~El~~l~~ki~dLeeel~eK~K~~e~l~DEl~aLqlq~n~lE~kl~kLq  123 (152)
T 3a7p_A           67 LNTLAILQKELKSKEQEIRRLKEVIALKNKNTERLNAALISGTIENNVLQQKLSDLK  123 (152)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444555555555555544444444444444444333333333333333333333

>2zqm_A Prefoldin beta subunit 1; chaperone; HET: CIT; 1.90A {Thermococcus SP} PDB: 2zdi_A

Probab=92.59  E-value=1.9  Score=35.72  Aligned_cols=35  Identities=6%  Similarity=0.136  Sum_probs=18.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHH
Q 013360           45 IELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKE   79 (444)
Q Consensus        45 ~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e   79 (444)
                      .++.++-.++..++.++..+..++..++.++...+
T Consensus         6 ~e~Q~~i~~~~~l~~~~~~l~~q~~~l~~~~~e~~   40 (117)
T 2zqm_A            6 PQVQAMLGQLESYQQQLQLVVQQKQKVQLELTEAK   40 (117)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34455555555555555555555555444444443

>3qh9_A Liprin-beta-2; coiled-coil, dimerization, structural protein; 2.01A {Homo sapiens}

Probab=92.25  E-value=0.76  Score=36.60  Aligned_cols=56  Identities=30%  Similarity=0.350  Sum_probs=42.6

Q ss_pred             CchHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           41 SPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKEL   96 (444)
Q Consensus        41 ~~l~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI   96 (444)
                      ..+..++..|+.++..++++...-+..++.-.++|..+...+..++..|.-|++++
T Consensus        22 E~L~qEi~~Lr~kv~elEnErlQyEkKLKsTK~El~~Lq~qLe~kd~ei~rL~~~l   77 (81)
T 3qh9_A           22 EELLQELRHLKIKVEELENERNQYEWKLKATKAEVAQLQEQVALKDAEIERLHSQL   77 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            35777888888888888888888888887777777777777777777777776665

>3q8t_A Beclin-1; autophagy, ATG14L uvrag, apoptosis; 1.90A {Rattus norvegicus}

Probab=91.99  E-value=4.4  Score=33.19  Aligned_cols=67  Identities=10%  Similarity=0.259  Sum_probs=28.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          125 IDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRA  191 (444)
Q Consensus       125 Ie~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~ka  191 (444)
                      +..|+++-+.+..++..++.+...++..-...-.......-..-+.+...+.++.++......+.++
T Consensus        27 L~~lEke~~~l~~el~~le~E~~~L~~eE~~~w~eyn~~~~ql~e~~dE~~Sl~~q~~~~~~qLdkL   93 (96)
T 3q8t_A           27 LEDVEKNRKVVAENLEKVQAEAERLDQEEAQYQREYSEFKRQQLELDDELKSVENQMRYAQMQLDKL   93 (96)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3333333333333333333444344333333344444444444444444444555555544444444

>3mq9_A Bone marrow stromal antigen 2 fused to maltose-BI periplasmic protein; HIV, antiviral protein; 2.80A {Escherichia coli}

Probab=91.89  E-value=3.9  Score=41.82  Aligned_cols=23  Identities=22%  Similarity=0.252  Sum_probs=8.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q 013360          166 INDEQKSKIRKTERALKVAEEEM  188 (444)
Q Consensus       166 ~~eeqekqI~elE~~Lq~~Eeel  188 (444)
                      ++.+++.+|.+++.+|+.++.++
T Consensus       444 ~~~~~~~~~~~~~~~~~~~~~~~  466 (471)
T 3mq9_A          444 KVEELEGEITTLNHKLQDASAEV  466 (471)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333333

>3s4r_A Vimentin; alpha-helix, cytoskeleton, intermediate filament, structural; 2.45A {Homo sapiens} PDB: 3ssu_A

Probab=91.86  E-value=3.4  Score=33.66  Aligned_cols=22  Identities=23%  Similarity=0.371  Sum_probs=10.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q 013360           45 IELDQLKSKIRSLESHIDEKTQ   66 (444)
Q Consensus        45 ~eL~~l~~ki~~Lesqi~ele~   66 (444)
                      .++..|+.+++..-.++.-+++
T Consensus         9 e~mq~LNdRlAsyIdKVR~LEq   30 (93)
T 3s4r_A            9 VELQELNDRFANLIDKVRFLEQ   30 (93)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            3445555555555444444333

>2jee_A YIIU; FTSZ, septum, coiled-coil, cell division, cell cycle, hypothetical protein; 2.8A {Escherichia coli}

Probab=91.81  E-value=2.8  Score=33.52  Aligned_cols=24  Identities=29%  Similarity=0.379  Sum_probs=11.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           76 AQKEKAIQDKSERIVSLQKELSSL   99 (444)
Q Consensus        76 k~~e~~I~e~e~~I~eLq~kI~sL   99 (444)
                      .+++..|++.=..|+-|+-+|+.|
T Consensus         9 eqLE~KIq~avdtI~lLqmEieEL   32 (81)
T 2jee_A            9 EKLEAKVQQAIDTITLLQMEIEEL   32 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444455555544444

>2v66_B Nuclear distribution protein NUDE-like 1; structural protein, developmental protein, structural protei phosphorylation, transport, microtubule; 2.10A {Homo sapiens}

Probab=91.78  E-value=5.3  Score=33.71  Aligned_cols=36  Identities=22%  Similarity=0.247  Sum_probs=14.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          157 SAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAK  192 (444)
Q Consensus       157 e~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak  192 (444)
                      ...+.+|+..+++++..-...-..++..+..++.+-
T Consensus        55 ~~~iReLEq~NDDLER~~R~t~~SLeD~E~k~n~ai   90 (111)
T 2v66_B           55 HKYVRELEQANDDLERAKRATIVSLEDFEQRLNQAI   90 (111)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhchHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            333333333444444444444444444444333333

>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=91.68  E-value=0.48  Score=37.06  Aligned_cols=42  Identities=17%  Similarity=0.207  Sum_probs=25.7

Q ss_pred             HHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013360           61 IDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKK  102 (444)
Q Consensus        61 i~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK  102 (444)
                      +.+++..+..++++|.+++..|+++++.|.++.+.|..|+.+
T Consensus        21 i~eLq~~L~~K~eELr~kd~~I~eLEk~L~ekd~eI~~Lqse   62 (72)
T 3nmd_A           21 LRDLQYALQEKIEELRQRDALIDELELELDQKDELIQMLQNE   62 (72)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            555666666666666666666666666666666666555533

>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=91.67  E-value=2.1  Score=33.70  Aligned_cols=70  Identities=23%  Similarity=0.266  Sum_probs=46.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          121 LEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMR  190 (444)
Q Consensus       121 Le~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~k  190 (444)
                      +-.+++.|-.+...+-..+.+++--.+++=.++.++....+.++.++...+.-...++.++..+++++.+
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            3466777777777777777777777777778888888888888888888888888888887777777654

>3swk_A Vimentin; cytoskeleton, intermediate filament, alpha-helix, structural; 1.70A {Homo sapiens}

Probab=91.43  E-value=2.6  Score=33.84  Aligned_cols=61  Identities=13%  Similarity=0.211  Sum_probs=27.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          121 LEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERAL  181 (444)
Q Consensus       121 Le~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~L  181 (444)
                      +..+++.++..+++.+..-+.=-....++|..+..+.+.++.+.-...+++.+++.+.+.|
T Consensus        19 l~~e~dn~~~~~edfk~KyE~E~~~R~~~E~d~~~LrkdvD~a~l~r~dLE~kvesL~eEl   79 (86)
T 3swk_A           19 VEVERDNLAEDIMRLREKLQEEMLQREEAENTLQSFRQDVDNASLARLDLERKVESLQEEI   79 (86)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444444333332333444444444444444444444444444444444443

>3efg_A Protein SLYX homolog; xanthomonas campestris PV. campestris, coiled-coil, structur genomics, PSI-2, protein structure initiative; 2.00A {Xanthomonas campestris PV}

Probab=91.28  E-value=0.6  Score=37.08  Aligned_cols=52  Identities=19%  Similarity=0.267  Sum_probs=38.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          141 ALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAK  192 (444)
Q Consensus       141 ~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak  192 (444)
                      .+++++.++|.++.-.+..+++|+..+.+++..|+.+..++..+.+.+....
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            5677788888888888888888888888888888888888777766554443

>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=91.23  E-value=1.7  Score=35.66  Aligned_cols=48  Identities=19%  Similarity=0.284  Sum_probs=25.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          116 ARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKL  163 (444)
Q Consensus       116 ~~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeL  163 (444)
                      +++..|+.|++-.+.+...-..+.+.+..++.++...+..+...+..|
T Consensus        40 E~i~vLk~Qv~IY~~DF~aERadREkl~~eKe~L~~ql~~lq~q~~~L   87 (94)
T 3jsv_C           40 ETVPVLKAQADIYKADFQAERHAREKLVEKKEYLQEQLEQLQREFNKL   87 (94)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSHHHHHHHHHHHTTC--
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence            355556666666665555555555555555555555444444444333

>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=91.15  E-value=7.5  Score=34.21  Aligned_cols=9  Identities=22%  Similarity=0.442  Sum_probs=3.4

Q ss_pred             HHHHHHHHH
Q 013360           50 LKSKIRSLE   58 (444)
Q Consensus        50 l~~ki~~Le   58 (444)
                      |+.+...+.
T Consensus        34 Lk~e~e~l~   42 (155)
T 2oto_A           34 LKARLENAM   42 (155)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            333333333

>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=91.15  E-value=6  Score=33.09  Aligned_cols=35  Identities=11%  Similarity=0.123  Sum_probs=13.6

Q ss_pred             HHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHH
Q 013360           57 LESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVS   91 (444)
Q Consensus        57 Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~e   91 (444)
                      |-.+..+..+++..-...-.+++..+.+++..|..
T Consensus         6 LLRK~aE~~KqL~~~~q~~~e~e~~k~eL~~~~~~   40 (107)
T 2no2_A            6 LLRKNAEVTKQVSMARQAQVDLEREKKELEDSLER   40 (107)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344444444444333333333333333333333

>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=91.13  E-value=2.3  Score=43.74  Aligned_cols=9  Identities=11%  Similarity=0.176  Sum_probs=3.3

Q ss_pred             HHHHHHHHH
Q 013360          120 ELEKQIDNL  128 (444)
Q Consensus       120 eLe~qIe~L  128 (444)
                      ++..++.++
T Consensus        88 kml~~~~~~   96 (409)
T 1m1j_C           88 KIIEEIIRY   96 (409)
T ss_dssp             HHHHHHHHT
T ss_pred             HHHHHHHHH
Confidence            333333333

>2xnx_M M protein, M1-BC1; cell adhesion, virulence factor, streptococcal toxic shock S; 3.30A {Streptococcus pyogenes}

Probab=90.85  E-value=0.44  Score=42.03  Aligned_cols=50  Identities=18%  Similarity=0.239  Sum_probs=30.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          118 ADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKIN  167 (444)
Q Consensus       118 i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~  167 (444)
                      .+.|++.+..+..+++.....+..+++.+..++..+.+++.....++...
T Consensus        61 ~~~le~~~~~l~rdleasr~akk~~ea~la~l~~~~~~LeAE~aKLeEek  110 (146)
T 2xnx_M           61 ANVLEKELEAITREQEINRNLLGNAKLELDQLSSEKEQLTIEKAKLEEEK  110 (146)
T ss_dssp             HHHHTTTTTTHHHHHHTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHGGGT
T ss_pred             hhhhHhhHHHHHHHHHHHHHHHHhHHHHHHHHHhhHHHHHHHHHHHHHHH
Confidence            45566666777777777776666666666666666555555544444433

>2zqm_A Prefoldin beta subunit 1; chaperone; HET: CIT; 1.90A {Thermococcus SP} PDB: 2zdi_A

Probab=90.84  E-value=6  Score=32.59  Aligned_cols=24  Identities=17%  Similarity=0.220  Sum_probs=9.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          171 KSKIRKTERALKVAEEEMMRAKFE  194 (444)
Q Consensus       171 ekqI~elE~~Lq~~Eeel~kak~E  194 (444)
                      +..|..++.++..++.++..++..
T Consensus        83 e~~i~~le~~~~~l~~~l~~lk~~  106 (117)
T 2zqm_A           83 EVRLNALERQEKKLNEKLKELTAQ  106 (117)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333333333333

>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=90.82  E-value=9.4  Score=39.78  Aligned_cols=11  Identities=9%  Similarity=0.190  Sum_probs=4.1

Q ss_pred             HHHHHHHHHHH
Q 013360          175 RKTERALKVAE  185 (444)
Q Consensus       175 ~elE~~Lq~~E  185 (444)
                      +.+..+|+.++
T Consensus       178 ~~l~~ki~~l~  188 (464)
T 1m1j_B          178 DSLHKKIQKLE  188 (464)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            33333333333

>3mq9_A Bone marrow stromal antigen 2 fused to maltose-BI periplasmic protein; HIV, antiviral protein; 2.80A {Escherichia coli}

Probab=90.28  E-value=12  Score=38.02  Aligned_cols=36  Identities=14%  Similarity=0.219  Sum_probs=19.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013360          161 EKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEAT  196 (444)
Q Consensus       161 eeLe~~~eeqekqI~elE~~Lq~~Eeel~kak~E~~  196 (444)
                      +.|++++...+++|+++|.++..++.+|..+..+..
T Consensus       432 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  467 (471)
T 3mq9_A          432 ASLDAEKAQGQKKVEELEGEITTLNHKLQDASAEVE  467 (471)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344455555555566666555555555555554443

>1fxk_A Prefoldin; archaeal protein, chaperone; 2.30A {Methanothermobacter thermautotrophicusorganism_taxid} SCOP: a.2.5.1 PDB: 1fxk_B

Probab=90.26  E-value=3.8  Score=33.35  Aligned_cols=30  Identities=3%  Similarity=0.119  Sum_probs=12.9

Q ss_pred             HHHHHHHHHHHHHHHHHhhhhhHHHHHHHH
Q 013360           50 LKSKIRSLESHIDEKTQELKGKDEVVAQKE   79 (444)
Q Consensus        50 l~~ki~~Lesqi~ele~eI~~k~~eIk~~e   79 (444)
                      +-.++..++.++..+.+++..++.++...+
T Consensus         6 ~i~~f~~lq~~~~~l~~q~~~l~~~~~e~~   35 (107)
T 1fxk_A            6 QLAQFQQLQQQAQAISVQKQTVEMQINETQ   35 (107)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444444333333333

>1fxk_C Protein (prefoldin); archaeal protein, chaperone; 2.30A {Methanothermobacter thermautotrophicusorganism_taxid} SCOP: a.2.5.1

Probab=89.72  E-value=6.2  Score=33.54  Aligned_cols=40  Identities=15%  Similarity=0.252  Sum_probs=22.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          109 EQVDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIE  148 (444)
Q Consensus       109 ~~i~~ae~~i~eLe~qIe~LkkelE~~~~e~~~LEae~~e  148 (444)
                      +-+..++.++..++.+++.+++.+..++.++..+...+.+
T Consensus        88 eA~~~l~~r~~~l~~~~~~l~~~l~~l~~~i~~~~~~l~~  127 (133)
T 1fxk_C           88 DAMESIKSQKNELESTLQKMGENLRAITDIMMKLSPQAEE  127 (133)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4455556666666666666665555555555544444433

>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=89.13  E-value=0.54  Score=50.34  Aligned_cols=55  Identities=15%  Similarity=0.144  Sum_probs=9.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013360          142 LEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEAT  196 (444)
Q Consensus       142 LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak~E~~  196 (444)
                      ...+...++.++.+.+..+..+....+.....-.+++.++..+++...+++.++.
T Consensus       403 ~~~e~~~l~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~a~~~~~~~~~~l~  457 (575)
T 2i1j_A          403 EAAERQKLEDEIRAKQEEVSRIQQEVELKDSETRRLQEEVEDARRKQDEAAAALL  457 (575)
T ss_dssp             ---------------------------------------CHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444555555555566666666666666666666666666655555555544

>3swk_A Vimentin; cytoskeleton, intermediate filament, alpha-helix, structural; 1.70A {Homo sapiens}

Probab=89.04  E-value=4.8  Score=32.29  Aligned_cols=57  Identities=14%  Similarity=0.314  Sum_probs=22.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          121 LEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKT  177 (444)
Q Consensus       121 Le~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~el  177 (444)
                      |+.||+.+..+...+..++..+...+.++..+.++--.....++..+..+.+.++..
T Consensus         5 Lr~qi~~l~~e~~~l~~e~dn~~~~~edfk~KyE~E~~~R~~~E~d~~~LrkdvD~a   61 (86)
T 3swk_A            5 LRRQVDQLTNDKARVEVERDNLAEDIMRLREKLQEEMLQREEAENTLQSFRQDVDNA   61 (86)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTHHHH
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHH
Confidence            334444443333333333333333333444444433333334444444444433333

>3i00_A HIP-I, huntingtin-interacting protein 1; transcription; 2.30A {Homo sapiens} PDB: 2qa7_A

Probab=88.97  E-value=2.2  Score=36.49  Aligned_cols=19  Identities=21%  Similarity=0.336  Sum_probs=7.9

Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q 013360           81 AIQDKSERIVSLQKELSSL   99 (444)
Q Consensus        81 ~I~e~e~~I~eLq~kI~sL   99 (444)
                      .|..+..+|..|..+++.+
T Consensus        16 ~Ie~Lkreie~lk~ele~l   34 (120)
T 3i00_A           16 LIERLYREISGLKAQLENM   34 (120)
T ss_dssp             HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            3333444444444444433

>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=88.66  E-value=13  Score=38.53  Aligned_cols=49  Identities=10%  Similarity=0.266  Sum_probs=26.5

Q ss_pred             HHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           49 QLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELS   97 (444)
Q Consensus        49 ~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~   97 (444)
                      .++..|++|...+.++.+.-.+....+..+-+.+.+...++.+.++.+.
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            3555566666666666555555555555555555555554444444443

>1d7m_A Cortexillin I; coiled-coil, coiled-coil trigger site, alpha helix, dimeriza contractIle protein; 2.70A {Dictyostelium discoideum} SCOP: h.1.10.1

Probab=88.65  E-value=8.6  Score=31.17  Aligned_cols=61  Identities=25%  Similarity=0.229  Sum_probs=23.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          124 QIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVA  184 (444)
Q Consensus       124 qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~  184 (444)
                      |.+.|+.-+..+..+.+.-+.++.+++.++.+.-..++.-.-..-+++.++...+..-..+
T Consensus        26 Qk~eL~~~l~~l~~e~~~R~~~i~el~akidd~Lk~l~~EklAkldLE~RLsKtEKDkAiL   86 (101)
T 1d7m_A           26 QKDQLNSLLASLESEGAEREKRLRELEAKLDETLKNLELEKLARMELEARLAKTEKDRAIL   86 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHhhhhhHHHHH
Confidence            3333333333333333333444444444444443333332222233344444444433333

>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=88.48  E-value=13  Score=38.92  Aligned_cols=40  Identities=20%  Similarity=0.217  Sum_probs=19.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          151 KKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMR  190 (444)
Q Consensus       151 kkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~k  190 (444)
                      ..++..+..++..+....+.+.++...++.+...+..+..
T Consensus        66 ~~l~kY~~dlakY~~~~AeY~~kl~aYe~~~~~~~k~lae  105 (497)
T 3iox_A           66 AKLAKYQADLAKYQKDLADYPVKLKAYEDEQTSIKAALAE  105 (497)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444445555555555555555555554444444443333

>3a7o_A Autophagy protein 16; coiled-coil, coiled coil, cytoplasmic vesicle, protein transport, transport, vacuole; 2.50A {Saccharomyces cerevisiae}

Probab=88.11  E-value=2.5  Score=32.80  Aligned_cols=44  Identities=23%  Similarity=0.242  Sum_probs=28.6

Q ss_pred             HHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013360           60 HIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKE  103 (444)
Q Consensus        60 qi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~  103 (444)
                      .+..+.+++.+++.+|..++..+.-+++....|.++|-++.-+.
T Consensus        19 ~l~~Lr~eL~~Ke~eI~~L~e~i~lk~kd~ErLNDEiislNIEN   62 (75)
T 3a7o_A           19 TLAILQKELKSKEQEIRRLKEVIALKNKNTERLNDELISGTIEN   62 (75)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHhhHHHHHhHHHH
Confidence            44445555566666677777777777777777777776665333

>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=87.38  E-value=8.1  Score=33.22  Aligned_cols=25  Identities=40%  Similarity=0.497  Sum_probs=16.6

Q ss_pred             HHHHHHHHHHHHHHHHHHhhhhhHH
Q 013360           49 QLKSKIRSLESHIDEKTQELKGKDE   73 (444)
Q Consensus        49 ~l~~ki~~Lesqi~ele~eI~~k~~   73 (444)
                      .+..+++.++.++.++++.+++.+.
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            4566777777777777776666544

>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=87.14  E-value=5.1  Score=34.48  Aligned_cols=20  Identities=15%  Similarity=0.330  Sum_probs=8.8

Q ss_pred             HHHHHHHHHHHHHHHhhhhh
Q 013360           86 SERIVSLQKELSSLQKKETL  105 (444)
Q Consensus        86 e~~I~eLq~kI~sLqkK~s~  105 (444)
                      +..|++++.++..+++....
T Consensus        12 ~~KvAElekkv~~lek~lk~   31 (125)
T 2pms_C           12 QAKIAELENQVHRLEQELKE   31 (125)
T ss_dssp             HHHHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHHHHHHHHHh
Confidence            34444444444444444433

>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=87.12  E-value=1.9  Score=46.03  Aligned_cols=10  Identities=20%  Similarity=0.305  Sum_probs=3.9

Q ss_pred             HHHHHHHHHH
Q 013360           90 VSLQKELSSL   99 (444)
Q Consensus        90 ~eLq~kI~sL   99 (444)
                      .+|+..+..+
T Consensus       338 ~~~~~~~~~~  347 (575)
T 2i1j_A          338 QEYQDRLRQM  347 (575)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            3333433333

>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=86.89  E-value=10  Score=30.04  Aligned_cols=58  Identities=19%  Similarity=0.401  Sum_probs=32.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          113 KAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQ  170 (444)
Q Consensus       113 ~ae~~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeq  170 (444)
                      ...+.++....+++.|++.-+.++.-...++.....++.+..++...++.+..+.+++
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            3444555555666666655555555555555555555555555555555555544444

>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=86.64  E-value=4.3  Score=32.53  Aligned_cols=20  Identities=15%  Similarity=0.290  Sum_probs=8.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q 013360          117 RADELEKQIDNLKKESEKQQ  136 (444)
Q Consensus       117 ~i~eLe~qIe~LkkelE~~~  136 (444)
                      .|..++.++..++.+++.+.
T Consensus        36 ~i~~lE~el~~~r~e~~~ql   55 (86)
T 1x8y_A           36 LLAEKEREMAEMRARMQQQL   55 (86)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444444333

>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=86.63  E-value=22  Score=36.85  Aligned_cols=32  Identities=16%  Similarity=0.331  Sum_probs=14.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          151 KKISDLSAKLEKLQKINDEQKSKIRKTERALK  182 (444)
Q Consensus       151 kkleEle~kveeLe~~~eeqekqI~elE~~Lq  182 (444)
                      .++..--..+..|+..++.|-.+|+.||..|.
T Consensus       125 ~kVd~qi~~IrvLq~~l~~q~skIQRLE~dI~  156 (491)
T 1m1j_A          125 QRVATQVNRIKALQNSIQEQVVEMKRLEVDID  156 (491)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333334444444444444444455544443

>3cvf_A Homer-3, homer protein homolog 3; coiled coil, alternative splicing, cell junction, cytoplasm, membrane, phosphoprotein, polymorphism; 2.90A {Homo sapiens}

Probab=85.77  E-value=2.7  Score=33.47  Aligned_cols=52  Identities=25%  Similarity=0.333  Sum_probs=29.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhH
Q 013360          149 AEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSRSK  200 (444)
Q Consensus       149 lEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak~E~~~~a~  200 (444)
                      ++..++++..++++++..+.+++.++..++.+++....+-.+++.|......
T Consensus         4 l~~e~e~~~~klq~~E~rN~~Le~~v~~le~~Le~s~~~q~~~~~Elk~l~e   55 (79)
T 3cvf_A            4 MAAEREETQQKVQDLETRNAELEHQLRAMERSLEEARAERERARAEVGRAAQ   55 (79)
T ss_dssp             ------CTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4455556666666666666666666666666666666666666666654443

>2lw1_A ABC transporter ATP-binding protein UUP; ABC REG subfamily, DNA binding protein; NMR {Escherichia coli}

Probab=85.66  E-value=5.1  Score=32.06  Aligned_cols=23  Identities=4%  Similarity=0.020  Sum_probs=10.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q 013360          160 LEKLQKINDEQKSKIRKTERALK  182 (444)
Q Consensus       160 veeLe~~~eeqekqI~elE~~Lq  182 (444)
                      +..+...+++.+..++.+..+..
T Consensus        58 ~~~l~~~l~~~e~eLe~~~erWe   80 (89)
T 2lw1_A           58 TQKVLADMAAAEQELEQAFERWE   80 (89)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444444444443

>1gk4_A Vimentin; intermediate filament, dimer, parallel coiled coil, heptad repeat, stutter; 2.3A {Homo sapiens} SCOP: h.1.20.1

Probab=85.21  E-value=12  Score=29.54  Aligned_cols=44  Identities=18%  Similarity=0.302  Sum_probs=19.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          113 KAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDL  156 (444)
Q Consensus       113 ~ae~~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleEl  156 (444)
                      .++..|..++.++..++.+++.+..+-..|=+-+-.++.++..+
T Consensus        30 ~~q~~i~~lE~eL~~~r~e~~~q~~EYq~LlnvK~~Ld~EIatY   73 (84)
T 1gk4_A           30 NYQDTIGRLQDEIQNMKEEMARHLREYQDLLNVKMALDIEIATY   73 (84)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHH
Confidence            34444555555555555554444433333333333333333333

>3l4q_C Phosphatidylinositol 3-kinase regulatory subunit beta; PI3K, phosphoinositide-3-kinase, influenza virus, NS1; 2.30A {Bos taurus} PDB: 2v1y_B

Probab=84.41  E-value=23  Score=31.96  Aligned_cols=34  Identities=18%  Similarity=0.181  Sum_probs=14.1

Q ss_pred             HHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           63 EKTQELKGKDEVVAQKEKAIQDKSERIVSLQKEL   96 (444)
Q Consensus        63 ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI   96 (444)
                      .+-.+....+++|.-+...|+-.+..|.-++.++
T Consensus        35 ~l~e~y~r~sqEiq~Kr~AieAF~E~ik~FeeQ~   68 (170)
T 3l4q_C           35 QLYEEYTRTSQELQMKRTAIEAFNETIKIFEEQG   68 (170)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333444444444444444444444444

>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=84.32  E-value=18  Score=30.55  Aligned_cols=64  Identities=19%  Similarity=0.233  Sum_probs=25.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          118 ADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVA  184 (444)
Q Consensus       118 i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~  184 (444)
                      ...|+.+...+++++++...+...++..   +..+.++-..++..|......-+..+.++......+
T Consensus         8 ~~~lq~~~~ql~~qL~k~~~~r~~Le~~---w~~k~E~~k~qV~~L~~~~q~sE~~L~~Lqq~fsq~   71 (112)
T 1x79_B            8 VKKLQLMLRQANDQLEKTMKDKQELEDF---IKQSSEDSSHQISALVLRAQASEILLEELQQGLSQA   71 (112)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444444444444444444444333   222333333344444444444444444444433333

>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=84.28  E-value=28  Score=36.42  Aligned_cols=68  Identities=22%  Similarity=0.183  Sum_probs=43.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013360          128 LKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMRAKFEATSR  198 (444)
Q Consensus       128 LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~kak~E~~~~  198 (444)
                      ++.+...++.+.+++..+-+..   ....+.+++.-++.++..++...+.+.++...+.++.+.+.++.+.
T Consensus        39 ~~a~n~~i~aeNeaikkrNa~a---ka~Ye~~l~kY~~dlakY~~~~AeY~~kl~aYe~~~~~~~k~lae~  106 (497)
T 3iox_A           39 NNAANAALTAENTAIKKRNADA---KADYEAKLAKYQADLAKYQKDLADYPVKLKAYEDEQTSIKAALAEL  106 (497)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhhhhHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333444444333333   3455667777888888888888888888888888777777666653

>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=84.25  E-value=17  Score=37.18  Aligned_cols=15  Identities=7%  Similarity=0.078  Sum_probs=5.8

Q ss_pred             HHHHHHHHHHHHHHH
Q 013360          123 KQIDNLKKESEKQQK  137 (444)
Q Consensus       123 ~qIe~LkkelE~~~~  137 (444)
                      +++.+++..+.....
T Consensus        91 ~~~~~~~~~~~~~~~  105 (411)
T 3ghg_C           91 EEIMKYEASILTHDS  105 (411)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhHH
Confidence            334444333333333

>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=84.01  E-value=17  Score=37.20  Aligned_cols=28  Identities=14%  Similarity=0.272  Sum_probs=12.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          158 AKLEKLQKINDEQKSKIRKTERALKVAE  185 (444)
Q Consensus       158 ~kveeLe~~~eeqekqI~elE~~Lq~~E  185 (444)
                      ..+..|+..+..++.+|+.++..+..++
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            3333333334444444444444444443

>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=83.94  E-value=7  Score=30.95  Aligned_cols=57  Identities=18%  Similarity=0.334  Sum_probs=31.2

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           43 LKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSL   99 (444)
Q Consensus        43 l~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sL   99 (444)
                      ++..+++.+++++.|..--++++..-..++.-|..++.+-.+.+..|..++.+.+.|
T Consensus        16 l~E~~~q~qaEl~sLrrT~~EL~~G~~KL~~mi~~l~~E~~~l~~ni~~lk~K~~EL   72 (78)
T 3iv1_A           16 MKEEMDRAQAELNALKRTEEDLKKGHQKLEEMVTRLDQEVAEVDKNIELLKKKDEEL   72 (78)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455666666777777666666666555544444444444444444444444444333

>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=83.48  E-value=23  Score=35.23  Aligned_cols=65  Identities=14%  Similarity=0.208  Sum_probs=40.3

Q ss_pred             CCchHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 013360           40 SSPLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVA-----------QKEKAIQDKSERIVSLQKELSSLQKKET  104 (444)
Q Consensus        40 ~~~l~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk-----------~~e~~I~e~e~~I~eLq~kI~sLqkK~s  104 (444)
                      ...+..-|+.|+..+...+...+.+..+|.+....+.           .+...+......|..|+.+|+.+++++.
T Consensus       118 ~~~l~~~L~~L~~~i~~~q~~~~~~~~~L~~F~~~l~~d~~~f~~~~~~l~~~L~~~~~~I~~Lq~eI~~l~~~I~  193 (346)
T 2nrj_A          118 GETLKEGITDLRGEIQQNQKYAQQLIEELTKLRDSIGHDVRAFGSNKELLQSILKNQGADVDADQKRLEEVLGSVN  193 (346)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHTGGGC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHhhHHhHHHHHHHHHhcccccHHHHHHHHHHHHHHHH
Confidence            3456667777777777777777766666666666542           3334444444466666777776666655

>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=83.28  E-value=1.8  Score=41.18  Aligned_cols=50  Identities=16%  Similarity=0.252  Sum_probs=33.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           48 DQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELS   97 (444)
Q Consensus        48 ~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~   97 (444)
                      +.+++.++.++..|++++..+++..+.....+..|..++..+.+|.+.+.
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            45677777777777777777777777777777777777777777776653

>2lw1_A ABC transporter ATP-binding protein UUP; ABC REG subfamily, DNA binding protein; NMR {Escherichia coli}

Probab=82.78  E-value=8.4  Score=30.78  Aligned_cols=19  Identities=16%  Similarity=0.352  Sum_probs=7.7

Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q 013360           78 KEKAIQDKSERIVSLQKEL   96 (444)
Q Consensus        78 ~e~~I~e~e~~I~eLq~kI   96 (444)
                      ++..|..++..|..++.++
T Consensus        27 le~~Ie~LE~~i~~le~~l   45 (89)
T 2lw1_A           27 LPQLLEDLEAKLEALQTQV   45 (89)
T ss_dssp             HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            3333333444444444433

>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=82.59  E-value=18  Score=29.31  Aligned_cols=26  Identities=35%  Similarity=0.294  Sum_probs=12.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          141 ALEARAIEAEKKISDLSAKLEKLQKI  166 (444)
Q Consensus       141 ~LEae~~elEkkleEle~kveeLe~~  166 (444)
                      .++++++..|+...-++-++.+..+.
T Consensus        71 dLE~RLsKtEKDkAiLELkLaE~~De   96 (101)
T 1d7m_A           71 ELEARLAKTEKDRAILELKLAEAIDE   96 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhhhhHHHHHHHHHHHhhhh
Confidence            45555555555544444444444433

>3i00_A HIP-I, huntingtin-interacting protein 1; transcription; 2.30A {Homo sapiens} PDB: 2qa7_A

Probab=82.45  E-value=19  Score=30.65  Aligned_cols=11  Identities=45%  Similarity=0.603  Sum_probs=4.0

Q ss_pred             HHHHHHHHHHH
Q 013360           89 IVSLQKELSSL   99 (444)
Q Consensus        89 I~eLq~kI~sL   99 (444)
                      |..|..+|+.+
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=82.41  E-value=9.1  Score=29.65  Aligned_cols=57  Identities=26%  Similarity=0.317  Sum_probs=37.8

Q ss_pred             HHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 013360           49 QLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETL  105 (444)
Q Consensus        49 ~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~  105 (444)
                      .++..+..|++.+.+.+.+|..+.+.++-+.+..+.++.+|=++.-+=.-||.+...
T Consensus        15 ~~~~~l~~Lr~eL~~Ke~eI~~L~e~i~lk~kd~ErLNDEiislNIENNlL~~rl~~   71 (75)
T 3a7o_A           15 ALLNTLAILQKELKSKEQEIRRLKEVIALKNKNTERLNDELISGTIENNVLQQKLSD   71 (75)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHhhHHHHHhHHHHHHHHHHHHH
Confidence            344566666666666667777777777777777777777777777666666655544

>3htk_A Structural maintenance of chromosomes protein 5; SUMO E3 ligase, SPL-ring, ring, ATP-binding, chromosomal protein, coiled coil, DNA damage; 2.31A {Saccharomyces cerevisiae}

Probab=82.02  E-value=6.7  Score=28.77  Aligned_cols=23  Identities=22%  Similarity=0.322  Sum_probs=8.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhh
Q 013360           48 DQLKSKIRSLESHIDEKTQELKG   70 (444)
Q Consensus        48 ~~l~~ki~~Lesqi~ele~eI~~   70 (444)
                      ..+...+......++.+...+..
T Consensus         8 ~~~~~~~~~~~~~~~~~~~~~~~   30 (60)
T 3htk_A            8 KTLENQVEELTEKCSLKTDEFLK   30 (60)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333444433333333333333

>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=81.91  E-value=11  Score=30.81  Aligned_cols=12  Identities=50%  Similarity=0.758  Sum_probs=4.5

Q ss_pred             HHHHHHHHHHHH
Q 013360          123 KQIDNLKKESEK  134 (444)
Q Consensus       123 ~qIe~LkkelE~  134 (444)
                      .+|+.|+.++..
T Consensus        23 ~~id~lke~~~q   34 (94)
T 3jsv_C           23 ELIDKLKEEAEQ   34 (94)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            333333333333

>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=81.73  E-value=43  Score=33.76  Aligned_cols=55  Identities=15%  Similarity=0.221  Sum_probs=25.8

Q ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           42 PLKIELDQLKSKIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKEL   96 (444)
Q Consensus        42 ~l~~eL~~l~~ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI   96 (444)
                      .+...+.+..........+-+.+-.+.....++|..+...|+-....|.-++.++
T Consensus       123 ~~~~~l~e~~~~~~~~~~~~~~~~~~~~~~~~e~~~k~~a~~af~~~~~~f~~q~  177 (373)
T 3hhm_B          123 AVGKKLHEYNTQFQEKSREYDRLYEEYTRTSQEIQMKRTAIEAFNETIKIFEEQC  177 (373)
T ss_dssp             GGGC--CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcccHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444445444444444444444444444555555555555555555555544

>2qyw_A Vesicle transport through interaction with T-SNAR homolog; HABC domain, protein transport, endocytosis; 2.00A {Mus musculus} PDB: 2v8s_V

Probab=81.41  E-value=13  Score=30.63  Aligned_cols=56  Identities=16%  Similarity=0.281  Sum_probs=36.6

Q ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           69 KGKDEVVAQKEKAIQDKSERIVSLQKELSSLQKKETLNAAEQVDKAHARADELEKQIDNLKKE  131 (444)
Q Consensus        69 ~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~s~~~~~~i~~ae~~i~eLe~qIe~Lkke  131 (444)
                      +++...|.+.+..+.+.+..|..+.-++.++.       .......+.++.....++++|+.+
T Consensus        45 e~rk~~i~~ie~~ldEA~eLl~qMelE~r~~p-------~s~R~~~~~klr~Yk~dL~~lk~e  100 (102)
T 2qyw_A           45 EEKKKLVRDFDEKQQEANETLAEMEEELRYAP-------LTFRNPMMSKLRNYRKDLAKLHRE  100 (102)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSC-------HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-------HHHHHHHHHHHHHHHHHHHHHHhh
Confidence            56667788888888888888888877776653       122335555666666666665554

>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=81.24  E-value=7.8  Score=28.34  Aligned_cols=8  Identities=13%  Similarity=0.206  Sum_probs=2.9

Q ss_pred             HHHHHHHH
Q 013360          117 RADELEKQ  124 (444)
Q Consensus       117 ~i~eLe~q  124 (444)
                      +...++.+
T Consensus        40 eA~RAN~R   47 (52)
T 1jcd_A           40 DAARANQR   47 (52)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            33333333

>3trt_A Vimentin; cytoskeleton, intermediate filament, alpha-helix, structural protein; 2.30A {Homo sapiens} PDB: 3klt_A*

Probab=81.11  E-value=11  Score=28.98  Aligned_cols=28  Identities=18%  Similarity=0.377  Sum_probs=18.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          109 EQVDKAHARADELEKQIDNLKKESEKQQ  136 (444)
Q Consensus       109 ~~i~~ae~~i~eLe~qIe~LkkelE~~~  136 (444)
                      ..+..++.+|.+++.+|++|+-+++.++
T Consensus        49 ~~l~~~k~Ei~elrr~iq~L~~el~slk   76 (77)
T 3trt_A           49 DALRQAKQESTEYRRQVQSLTMEVDALK   76 (77)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            3445566677777777777777776653

>1cii_A Colicin IA; bacteriocin, ION channel formation, transmembrane protein; 3.00A {Escherichia coli} SCOP: f.1.1.1 h.4.3.1

Probab=81.09  E-value=56  Score=33.99  Aligned_cols=28  Identities=18%  Similarity=-0.043  Sum_probs=18.2

Q ss_pred             CCchhccchHHHHHHHHHHHHHHHHHHH
Q 013360          385 LTSPLATKELEWFAASALLVLPVIILFR  412 (444)
Q Consensus       385 ~~~~~a~~~~~w~~a~a~~~~p~~~~~~  412 (444)
                      +..+.+.--++=|+.|++|.+||-|+.+
T Consensus       552 ~aaG~aASaVaAfaFS~~lGtPLGIlGi  579 (602)
T 1cii_A          552 IIAGNAATALVALVFSILTGSALGIIGY  579 (602)
T ss_dssp             TBTTCBHHHHHHHHHHHHTTCCCHHHHH
T ss_pred             HHHhhhHHHHHHHHHHHHHhhHHHHHHH
Confidence            4445555555556678889999766655

>4ad8_A DNA repair protein RECN; DNA binding protein, ATPase domain; HET: DNA; 4.00A {Deinococcus radiodurans}

Probab=80.93  E-value=55  Score=33.78  Aligned_cols=49  Identities=20%  Similarity=0.214  Sum_probs=23.7

Q ss_pred             HHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHh
Q 013360           53 KIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSE------RIVSLQKELSSLQK  101 (444)
Q Consensus        53 ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~------~I~eLq~kI~sLqk  101 (444)
                      +..++..+.+.+..+..+...++...+.++.+...      +..+|..++..+.+
T Consensus       187 ~~~~~~~~~~~l~~~~~~~~~~l~~l~~ql~ei~~~~l~~~E~e~L~~~~~~L~~  241 (517)
T 4ad8_A          187 AWREAVSRLERLQASQRERARQIDLLAFQVQEISEVSPDPGEEEGLNTELSRLSN  241 (517)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHH
Confidence            33344444444444444444445555555555554      55555555555543

>1lwu_C Fibrinogen gamma chain; heterotrimer, protein-peptide complex, blood clotting; HET: NDG MAN NAG BMA GAL; 2.80A {Petromyzon marinus} SCOP: d.171.1.1 h.1.8.1 PDB: 1n73_C*

Probab=80.92  E-value=3.2  Score=41.35  Aligned_cols=47  Identities=11%  Similarity=0.144  Sum_probs=21.3

Q ss_pred             HHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360           53 KIRSLESHIDEKTQELKGKDEVVAQKEKAIQDKSERIVSLQKELSSL   99 (444)
Q Consensus        53 ki~~Lesqi~ele~eI~~k~~eIk~~e~~I~e~e~~I~eLq~kI~sL   99 (444)
                      +...+.+++..++..|...+.+|..++..+...+..|.+|+++|..+
T Consensus         6 ~~~~~~~~~~~~e~~i~~~~~~i~~L~~~l~~~~~~i~~l~~~i~~l   52 (323)
T 1lwu_C            6 TVQKILEEVRILEQIGVSHDAQIQELSEMWRVNQQFVTRLQQQLVDI   52 (323)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhcHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444444444444444444444444444444433

>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=80.78  E-value=36  Score=31.62  Aligned_cols=66  Identities=21%  Similarity=0.295  Sum_probs=37.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          111 VDKAHARADELEKQIDNLKKESEKQQKEKEALEARAIEAEKKISDLSAKLEKLQKINDEQKSKIRK  176 (444)
Q Consensus       111 i~~ae~~i~eLe~qIe~LkkelE~~~~e~~~LEae~~elEkkleEle~kveeLe~~~eeqekqI~e  176 (444)
                      +.+-+.+|..++..++.-+.++......+..++.++-..|..+..+..++..++..+...+..|..
T Consensus        79 L~dHe~rI~a~~a~l~dHE~RIt~~~~~ia~~e~Rit~~e~~i~~l~~~v~~ld~~vt~~et~Isa  144 (242)
T 3c9i_A           79 LADHEARIKQLRIDVDDHESRITANTKAITALNVRVTTAEGEIASLQTNVSALDGRVTTAENNISA  144 (242)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             eecchhhhhhhhcccccHHHHhhhhhhhhhhhhheeecccccchhhhhhhhhhcccccccccchhh
Confidence            345566666777777766666666666666666555555555555555544444444444333333

>2ke4_A CDC42-interacting protein 4; CIP4, TC10, coiled-coil, alternative splicing, cell membrane, coiled coil, cytoplasm, cytoskeleton, endocytosis; NMR {Homo sapiens}

Probab=80.39  E-value=21  Score=29.33  Aligned_cols=28  Identities=14%  Similarity=0.259  Sum_probs=13.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          150 EKKISDLSAKLEKLQKINDEQKSKIRKT  177 (444)
Q Consensus       150 EkkleEle~kveeLe~~~eeqekqI~el  177 (444)
                      +.++.+...+++.|+..+-.++.-+.++
T Consensus        61 ~~~L~e~~~kid~L~~el~K~q~~L~e~   88 (98)
T 2ke4_A           61 EPQIAETLSNIERLKLEVQKYEAWLAEA   88 (98)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444445444444444444444444

---

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	444
d1gs9a_	144	a.24.1.1 (A:) Apolipoprotein E {Human (Homo sapien	0.001

>d1gs9a_ a.24.1.1 (A:) Apolipoprotein E {Human (Homo sapiens), E4 [TaxId: 9606]} Length = 144

class: All alpha proteins
fold: Four-helical up-and-down bundle
superfamily: Apolipoprotein
family: Apolipoprotein
domain: Apolipoprotein E
species: Human (Homo sapiens), E4 [TaxId: 9606]

 Score = 37.1 bits (86), Expect = 0.001
 Identities = 10/98 (10%), Positives = 35/98 (35%), Gaps = 4/98 (4%)

Query: 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	444
d1gs9a_	144	Apolipoprotein E {Human (Homo sapiens), E4 [TaxId:	98.53
d1gs9a_	144	Apolipoprotein E {Human (Homo sapiens), E4 [TaxId:	98.4
d2ap3a1	185	Hypothetical protein MW0975 (SA0943) {Staphylococc	95.05
d1fxkc_	133	Prefoldin alpha subunit {Archaeon Methanobacterium	93.31
d2ap3a1	185	Hypothetical protein MW0975 (SA0943) {Staphylococc	92.59
d1seta1	110	Seryl-tRNA synthetase (SerRS) {Thermus thermophilu	91.86
d1fxka_	107	Prefoldin beta subunit {Archaeon Methanobacterium	91.82
d1fxka_	107	Prefoldin beta subunit {Archaeon Methanobacterium	91.05
d1fxkc_	133	Prefoldin alpha subunit {Archaeon Methanobacterium	89.31
d1seta1	110	Seryl-tRNA synthetase (SerRS) {Thermus thermophilu	85.08

>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=98.53  E-value=2.8e-08  Score=86.26  Aligned_cols=89  Identities=11%  Similarity=0.123  Sum_probs=46.8

Q ss_pred             hHHHHHhhhhhhHHhHHHhhhcccchhHHHHhhHHHHHHHHhhhhcchhHHhhhhhcchhHHHHhhhhhhHHHHHHhhcC
Q 013360          258 HVETIKAKWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAK  337 (444)
Q Consensus       258 ~~~~~~~k~~p~~~~~w~~~~~~~~p~ve~~k~k~~p~~~~~r~~~~p~~~~~~~~~~Py~~e~k~~~~py~~~a~~~~~  337 (444)
                      +++.++.++.|++.+    ++..+.++++.++..+.|..+.+|+.+.||+..+++.+.|++++++..+.||.+..++-..
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            344455555555544    4444445555555555555555555555555555555555555555555555555555555


Q ss_pred             cchHhHHHhhccc
Q 013360          338 PHVDNVRVALKPY  350 (444)
Q Consensus       338 p~~~~~~~~~~Py  350 (444)
                      ++++.++..+.||
T Consensus       129 ~~~eel~~kL~py  141 (144)
T d1gs9a_         129 RDADDLQKRLAVY  141 (144)
T ss_dssp             HHHHHHHHHHHHS
T ss_pred             HHHHHHHHHhhCc
Confidence            5555555555555

>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=98.40  E-value=8.2e-08  Score=83.21  Aligned_cols=94  Identities=12%  Similarity=0.151  Sum_probs=57.4

Q ss_pred             hhhhhHHhHHHhhhcccchhHHHHhhHHHHHHHHhhhhcchhHHhhhhhcchhHHHHhhhhhhHHHHHHhhcCcchHhHH
Q 013360          265 KWIPAVKEQWVVFTTNVEPHVQTLKTKTIEACEATKTAVTPHIIRVQEVVDPYFQEAKKFSKPYIDQVATVAKPHVDNVR  344 (444)
Q Consensus       265 k~~p~~~~~w~~~~~~~~p~ve~~k~k~~p~~~~~r~~~~p~~~~~~~~~~Py~~e~k~~~~py~~~a~~~~~p~~~~~~  344 (444)
                      ++.|.+.+    ....+.+|++.++.++.|+++.+++.+++.++.+++.+.|++++++..+.||.++++....|+++.++
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            34444444    33444555555666666666666666666666666666666666666666666666666666666666


Q ss_pred             HhhcccHHHHHHHHHHHH
Q 013360          345 VALKPYTKKVVRAYGKFL  362 (444)
Q Consensus       345 ~~~~Py~~~~~~~~~~~~  362 (444)
                      ..+.||++.++..+.+.+
T Consensus       114 ~~l~p~~eel~~~l~~~~  131 (144)
T d1gs9a_         114 VRLASHLRKLRKRLLRDA  131 (144)
T ss_dssp             HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            666666666665554443

>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=95.05  E-value=0.63  Score=37.17  Aligned_cols=45  Identities=7%  Similarity=0.027  Sum_probs=17.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          146 AIEAEKKISDLSAKLEKLQKINDEQKSKIRKTERALKVAEEEMMR  190 (444)
Q Consensus       146 ~~elEkkleEle~kveeLe~~~eeqekqI~elE~~Lq~~Eeel~k  190 (444)
                      ...+...+......+..+...+..+...+..++..+..+...+..
T Consensus       132 ~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~  176 (185)
T d2ap3a1         132 EKTLFKYLNQNDATQQGVNEKSKAIEQNYKKLKEVSDKYTKVLNK  176 (185)
T ss_dssp             HHHHHHHHTSTTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333444444444444444444444444433333

>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=93.31  E-value=0.73  Score=37.28  Aligned_cols=35  Identities=11%  Similarity=0.239  Sum_probs=16.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013360          109 EQVDKAHARADELEKQIDNLKKESEKQQKEKEALE  143 (444)
Q Consensus       109 ~~i~~ae~~i~eLe~qIe~LkkelE~~~~e~~~LE  143 (444)
                      +-....+.++..++..++.+.+++...+..+..++
T Consensus        88 eA~~~l~~ri~~l~~~~~~l~~~~~~~~~~i~~l~  122 (133)
T d1fxkc_          88 DAMESIKSQKNELESTLQKMGENLRAITDIMMKLS  122 (133)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344455555555555554444444444443333

>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=92.59  E-value=0.67  Score=36.99  Aligned_cols=23  Identities=17%  Similarity=0.351  Sum_probs=10.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhh
Q 013360           46 ELDQLKSKIRSLESHIDEKTQEL   68 (444)
Q Consensus        46 eL~~l~~ki~~Lesqi~ele~eI   68 (444)
                      .+.....++..++..+..+..++
T Consensus        23 ~~~~~~~k~~~~e~~~~~~~~~~   45 (185)
T d2ap3a1          23 PIKTVGKKIAELDEKKKKLTEDV   45 (185)
T ss_dssp             HHHHHHHHHHHHHHHHHTTTTGG
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444555554444444333

>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=91.86  E-value=1.2  Score=34.91  Aligned_cols=31  Identities=19%  Similarity=0.367  Sum_probs=16.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013360           73 EVVAQKEKAIQDKSERIVSLQKELSSLQKKE  103 (444)
Q Consensus        73 ~eIk~~e~~I~e~e~~I~eLq~kI~sLqkK~  103 (444)
                      ..+-+++....+...++.+|+++...+.+.+
T Consensus        28 d~i~~ld~~rr~l~~~~e~l~~~rN~~sk~i   58 (110)
T d1seta1          28 EALLALDREVQELKKRLQEVQTERNQVAKRV   58 (110)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHG
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3455555555555555555555555554444

>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=91.82  E-value=1.3  Score=34.73  Aligned_cols=10  Identities=10%  Similarity=0.235  Sum_probs=3.6

Q ss_pred             HHHHHHHHHH
Q 013360          117 RADELEKQID  126 (444)
Q Consensus       117 ~i~eLe~qIe  126 (444)
                      ++..++.+|.
T Consensus        73 ~~e~l~~~i~   82 (107)
T d1fxka_          73 KLETLQLREK   82 (107)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            3333333333

>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=91.05  E-value=2.4  Score=33.04  Aligned_cols=6  Identities=50%  Similarity=0.717  Sum_probs=2.1

Q ss_pred             HHHHHH
Q 013360          121 LEKQID  126 (444)
Q Consensus       121 Le~qIe  126 (444)
                      ++.++.
T Consensus        27 le~q~~   32 (107)
T d1fxka_          27 VEMQIN   32 (107)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            333333

>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=89.31  E-value=4.3  Score=32.37  Aligned_cols=23  Identities=4%  Similarity=0.151  Sum_probs=9.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q 013360           77 QKEKAIQDKSERIVSLQKELSSL   99 (444)
Q Consensus        77 ~~e~~I~e~e~~I~eLq~kI~sL   99 (444)
                      ++...++.....|..++++|..+
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            33333444444444444444333

>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=85.08  E-value=2.7  Score=32.83  Aligned_cols=19  Identities=11%  Similarity=0.422  Sum_probs=7.4

Q ss_pred             HHHHHHHHHHHHHHHHHhh
Q 013360           50 LKSKIRSLESHIDEKTQEL   68 (444)
Q Consensus        50 l~~ki~~Lesqi~ele~eI   68 (444)
                      +..++++|+++.+.+..+|
T Consensus        40 l~~~~e~l~~~rN~~sk~i   58 (110)
T d1seta1          40 LKKRLQEVQTERNQVAKRV   58 (110)
T ss_dssp             HHHHHHHHHHHHHHHHHHG
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            3333334444444333333