Citrus Sinensis ID: 039268

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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------
Protein Sequence
MAGRNRIPREVYSDRRGFPPERPFIRGPPMPQPPPHPALLEEELEIQHAEIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAELTNFDGRPWGVGGPYGMNFSGVDGSFPAPFGDGYGVHRGLADKGPMYGPRPASWDKPRMARR
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Coil and Loop (DISEMBL)
magrnriprevysdrrgfpperpfirgppmpqppphpallEEELEIQHAEIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAELtnfdgrpwgvggpygmnfsgvdgsfpapfgdgygvhrgladkgpmygprpaswdkprmarr
Flexible Loop (DISEMBL)
magrnriprevysdrrgfppERPFIRGPPMPQPPPHPALLEEELEIQHAEIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGeiraeqevhVRDLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAEltnfdgrpwGVGGPYGMNFSGVDGSFPAPFGDGYGVHRgladkgpmygprpaswdkprmarr
Low Complexity Region (SEG)
MAGRNRIPREVYSDRRGFPPERPFIRGppmpqppphpalleeeleIQHAEIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAELTNFDGRPWGVGGPYGMNFSGVDGSFPAPFGDGYGVHRGLADKGPMYGPRPASWDKPRMARR
Disordered region (IsUnstruct)
*****************************************************LL**********************ELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADL****************************************L***NQQIPLLRAEIDGLHQELMHARAAVDYEKKANI*******************VEKLRAELTNFDGRPWGVGGPYGMNFSGVDGSFPAPFGDGYGVHRGL**********************
Disordered Region (DISOPRED)
************************************************************************************************************************************************************************************************************************************************************************************
Disordered Region (DISEMBL)
MAGRNRIPREVYSDRRGFPPERPFIRGPPMPQPPPHPALLEEELEIQHAEIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAELTNFDGRPWGVGGPYGMNFSGVDGSFPAPFGDGYGVHRGLADKGPMYGPRPASWDKPRMARR
Disordered Region (DISPRO)
*******************PERPFIRGPPMPQPPPHPALLEEELEIQHAEIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAELTNFDGRPWGVGGPYGMNFSGVDGSFPAPFGDGYGVHRGLADKGPMYGPRPASWDK******
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
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TM Helix, Signal Peptide (MEMSAT_SVM)
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TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MAGRNRIPREVYSDRRGFPPERPFIRGPPMPQPPPHPALLEEELEIQHAEIQRLLGDxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxQEVHVRDLVEKGLKLEADLRATEPxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxNQQIPLLRAEIDGLHQELMHARAAVDYEKKAxxxxxxxxxxxxxxxxxxxxxxxxxxxxLTNFDGRPWGVGGPYGMNFSGVDGSFPAPFGDGYGVHRGLADKGPMYGPRPASWDKPRMARR
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	276	2.2.26 [Sep-21-2011]
Q9D180	1249	WD repeat-containing prot	yes	no	0.637	0.140	0.256	0.0001
Q96MR6	1250	WD repeat-containing prot	yes	no	0.637	0.140	0.256	0.0002

>sp|Q9D180|WDR65_MOUSE WD repeat-containing protein 65 OS=Mus musculus GN=Wdr65 PE=2 SV=3

 Score = 47.0 bits (110), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 49/191 (25%), Positives = 91/191 (47%), Gaps = 15/191 (7%)

Query: 40   LEEELEIQHAEIQRLLGDNRRLVEDRMAMQRELAAAKEELHR-MNLVIGEIRAEQEVHVR 98
            LEE  E   A++Q   G      ED     RE    K+++    +  I +I+ + E  +R
Sbjct: 823  LEELTEFYEAKLQEKTGLLEEAQEDVRQQLREFEETKKQIEEDEDREIQDIKTKYERKLR 882

Query: 99   DLVEKGLKLEADL----RATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQA 154
            D  E  L+L+ +     +    L+KE  +   +++ L + + +L G +++L+KD+  L+ 
Sbjct: 883  DEKESNLRLKGETGIMRKKFSSLQKEIEERTNDIELLKSEQMKLQGIIRSLEKDIQGLKR 942

Query: 155  DNQQ----IPLLRAEIDGL---HQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMARE 207
            + Q+    I      I  L   +QEL   +  +DY+ K   EL +Q +  E  +  M  +
Sbjct: 943  EIQERDETIQDKEKRIYDLKKKNQELEKFKFVLDYKIK---ELKKQIEPRENEIKVMKEQ 999

Query: 208  VEKLRAELTNF 218
            ++++ AEL  F
Sbjct: 1000 IQEMEAELERF 1010

Mus musculus (taxid: 10090)

>sp|Q96MR6|WDR65_HUMAN WD repeat-containing protein 65 OS=Homo sapiens GN=WDR65 PE=1 SV=3

 Score = 46.6 bits (109), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 49/191 (25%), Positives = 90/191 (47%), Gaps = 15/191 (7%)

Query: 40   LEEELEIQHAEIQRLLGDNRRLVEDRMAMQRELAAAKEELHR-MNLVIGEIRAEQEVHVR 98
            LEE  E   A++Q          ED     RE    K+++    +  I +I+ + E  +R
Sbjct: 824  LEELTEFYEAKLQEKTTLLEEAQEDVRQQLREFEETKKQIEEDEDREIQDIKTKYEKKLR 883

Query: 99   DLVEKGLKLEADL----RATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQA 154
            D  E  L+L+ +     +    L+KE  +   +++ L   + +L G +++L+KD+  L+ 
Sbjct: 884  DEKESNLRLKGETGIMRKKFSSLQKEIEERTNDIETLKGEQMKLQGVIKSLEKDIQGLKR 943

Query: 155  DNQQ----IPLLRAEIDGL---HQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMARE 207
            + Q+    I      I  L   +QEL   +  +DY+ K   EL +Q +  E  +  M  +
Sbjct: 944  EIQERDETIQDKEKRIYDLKKKNQELGKFKFVLDYKIK---ELKKQIEPRENEIRVMKEQ 1000

Query: 208  VEKLRAELTNF 218
            ++++ AEL NF
Sbjct: 1001 IQEMEAELENF 1011

Homo sapiens (taxid: 9606)

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	276
224134975	271	predicted protein [Populus trichocarpa]	0.971	0.988	0.731	1e-109
147810266	279	hypothetical protein VITISV_027853 [Viti	1.0	0.989	0.741	1e-109
359482838	282	PREDICTED: uncharacterized protein LOC10	1.0	0.978	0.734	1e-108
358344687	283	hypothetical protein MTR_040s0047 [Medic	0.996	0.971	0.669	1e-103
255572969	270	conserved hypothetical protein [Ricinus	0.967	0.988	0.713	1e-102
357454679	271	hypothetical protein MTR_2g100240 [Medic	0.952	0.970	0.682	1e-102
356556722	286	PREDICTED: uncharacterized protein LOC10	0.996	0.961	0.675	2e-97
363806838	285	uncharacterized protein LOC100787621 [Gl	1.0	0.968	0.670	1e-92
388504176	284	unknown [Lotus japonicus]	0.989	0.961	0.606	2e-83
297847874	273	hypothetical protein ARALYDRAFT_474572 [	0.985	0.996	0.6	4e-83

>gi|224134975|ref|XP_002327536.1| predicted protein [Populus trichocarpa] gi|222836090|gb|EEE74511.1| predicted protein [Populus trichocarpa]

 Score =  400 bits (1028), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 204/279 (73%), Positives = 235/279 (84%), Gaps = 11/279 (3%)

Query: 1   MAGRNRIPREVYSDRRGFPPERPFIRGPPMPQPPPHPALLEEELEIQHAEIQRLLGDNRR 60
           MAGRNRIPRE+Y+DRRGF  ERPFIRG PMPQP    A LEEELE+QHAEI+RLLGDNRR
Sbjct: 1   MAGRNRIPRELYNDRRGFIVERPFIRGHPMPQP----AFLEEELEMQHAEIRRLLGDNRR 56

Query: 61  LVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRATEPLKKE 120
           L+EDRM +Q+EL AAKEELHRMN+VI EIRAEQ+V    L++KGLKLEADLR TEPLK E
Sbjct: 57  LIEDRMGLQQELGAAKEELHRMNIVIAEIRAEQDV----LIKKGLKLEADLRVTEPLKNE 112

Query: 121 AVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAV 180
            VQLRAE+QKL++ + EL G+VQTL++D+A+LQADN QIPLLR EI+GLHQELMH RAA+
Sbjct: 113 TVQLRAEIQKLSSSKQELVGQVQTLKQDVARLQADNHQIPLLRGEIEGLHQELMHTRAAI 172

Query: 181 DYEKKANIELMEQRQAMEKNLVSMAREVEKLRAELTNFDGR-PW--GVGGPYGMNFSGVD 237
           +YEKKANIEL+EQRQ+MEKNLVSMAREVEKLR EL++ D R PW    GG YGM F   +
Sbjct: 173 EYEKKANIELVEQRQSMEKNLVSMAREVEKLRVELSSSDNRPPWSASAGGSYGMKFGIPE 232

Query: 238 GSFPAPFGDGYGVHRGLADKGPMYGPRPASWDKPRMARR 276
           G+FP P+GDGY VH G ADKGP YGP PASW+KPRM RR
Sbjct: 233 GAFPPPYGDGYAVHLGAADKGPFYGPGPASWEKPRMPRR 271

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147810266|emb|CAN71449.1| hypothetical protein VITISV_027853 [Vitis vinifera]

 Score =  400 bits (1028), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 207/279 (74%), Positives = 237/279 (84%), Gaps = 3/279 (1%)

Query: 1   MAGRNRIPREVYSDRRGFPPERPFIRGPPMPQPPPHPALLEEELEIQHAEIQRLLGDNRR 60
           MAGRNR PR+ +  RRGFPPE PF+RGPP+P+ PPHPA+LEEE E+QHAE++RL G+NRR
Sbjct: 1   MAGRNRFPRDAFDGRRGFPPEGPFLRGPPLPRLPPHPAMLEEEFEMQHAEMRRLFGENRR 60

Query: 61  LVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRATEPLKKE 120
           LVEDRMA+Q+EL  AKEELHRMNL IG+IRAEQE+H R+L+EKGLKLEADLRATEPLK E
Sbjct: 61  LVEDRMALQQELGVAKEELHRMNLAIGDIRAEQELHSRELIEKGLKLEADLRATEPLKNE 120

Query: 121 AVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAV 180
           AVQLR+E+QKLNN+R +L G+VQ L +++A+LQADN+QIPLLRAEI+GLHQELM AR AV
Sbjct: 121 AVQLRSEIQKLNNIRQDLAGQVQNLSQEVARLQADNKQIPLLRAEIEGLHQELMRARTAV 180

Query: 181 DYEKKANIELMEQRQAMEKNLVSMAREVEKLRAELTNFDGRPWGVGGPYGMNFSGVDGSF 240
           DYEKK NIELMEQRQAMEKNLVSMAREVEKLRAEL + D RPWG GG YGM F   DG F
Sbjct: 181 DYEKKGNIELMEQRQAMEKNLVSMAREVEKLRAELASTDARPWGAGGSYGMKFGSPDGGF 240

Query: 241 PAPFGDGYGVHRGLADKGPMYGPRPASW---DKPRMARR 276
           PAP+GDGYG H G ADKGP YG   ASW   +KPR  RR
Sbjct: 241 PAPYGDGYGAHLGAADKGPFYGSGSASWGGLEKPRATRR 279

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359482838|ref|XP_002278937.2| PREDICTED: uncharacterized protein LOC100253153 [Vitis vinifera] gi|297743072|emb|CBI35939.3| unnamed protein product [Vitis vinifera]

 Score =  395 bits (1016), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 207/282 (73%), Positives = 237/282 (84%), Gaps = 6/282 (2%)

Query: 1   MAGRNRIPREVYSDRRGFPPERPFIRGPPMPQPPPHPALLEEELEIQHAEIQRLLGDNRR 60
           MAGRNR PR+ +  RRGFPPE PF+RGPP+P+ PPHPA+LEEE E+QHAE++RL G+NRR
Sbjct: 1   MAGRNRFPRDAFDGRRGFPPEGPFLRGPPLPRLPPHPAMLEEEFEMQHAEMRRLFGENRR 60

Query: 61  LVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRATEPLKKE 120
           LVEDRMA+Q+EL  AKEELHRMNL IG+IRAEQE+H R+L+EKGLKLEADLRATEPLK E
Sbjct: 61  LVEDRMALQQELGVAKEELHRMNLAIGDIRAEQELHSRELIEKGLKLEADLRATEPLKNE 120

Query: 121 AVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAV 180
           AVQLR+E+QKLNN+R +L G+VQ L +++A+LQADN+QIPLLRAEI+GLHQELM AR AV
Sbjct: 121 AVQLRSEIQKLNNIRQDLAGQVQNLSQEVARLQADNKQIPLLRAEIEGLHQELMRARTAV 180

Query: 181 DYEKKANIELMEQRQAMEKNLVSMAREVEKLRAELTNFDGRPWGV---GGPYGMNFSGVD 237
           DYEKK NIELMEQRQAMEKNLVSMAREVEKLRAEL + D RPWG    GG YGM F   D
Sbjct: 181 DYEKKGNIELMEQRQAMEKNLVSMAREVEKLRAELASTDARPWGAGISGGSYGMKFGSPD 240

Query: 238 GSFPAPFGDGYGVHRGLADKGPMYGPRPASW---DKPRMARR 276
           G FPAP+GDGYG H G ADKGP YG   ASW   +KPR  RR
Sbjct: 241 GGFPAPYGDGYGAHLGAADKGPFYGSGSASWGGLEKPRATRR 282

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|358344687|ref|XP_003636419.1| hypothetical protein MTR_040s0047 [Medicago truncatula] gi|355502354|gb|AES83557.1| hypothetical protein MTR_040s0047 [Medicago truncatula]

 Score =  379 bits (974), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 190/284 (66%), Positives = 229/284 (80%), Gaps = 9/284 (3%)

Query: 1   MAGRNRIPREV-YSDRRGFPPERPFIRGPPMPQP----PPHPALLEEELEIQHAEIQRLL 55
           M  R+R+ RE   S RRG+P E P+ RGPP P P    PPHPALLEEELE+QHAE++RL+
Sbjct: 1   MGSRHRVHREPPMSSRRGYPSEGPYARGPP-PMPRQHIPPHPALLEEELEVQHAEMRRLV 59

Query: 56  GDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRATE 115
            DNRRL++DRM +QR+LAAAKEELHRMNL IG+IRAE E+H R+LV+K +KLE+DLR+TE
Sbjct: 60  ADNRRLIDDRMTLQRDLAAAKEELHRMNLAIGDIRAEHEMHSRELVDKNMKLESDLRSTE 119

Query: 116 PLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMH 175
           PLK E +QLRAEVQKL++++ EL+GKVQTL KD+A+LQ+DNQQIP +R+EIDGLHQELM 
Sbjct: 120 PLKNEVIQLRAEVQKLSSIKQELSGKVQTLTKDVARLQSDNQQIPSMRSEIDGLHQELMR 179

Query: 176 ARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAELTNFDGRPWGVGGPYGMNFSG 235
           AR  VDYEKKAN+E MEQRQ+MEKN+VSMAREVEKLRAEL + DGR WG G PYG NF  
Sbjct: 180 ARTMVDYEKKANMEFMEQRQSMEKNMVSMAREVEKLRAELASMDGRHWGAGLPYGTNFGS 239

Query: 236 VDGSFPAPFGDGYGVHRGLADKGPMYGPRPAS---WDKPRMARR 276
            +G FP P+ DGYGVH   A+KGP+YG   AS    +KPR  RR
Sbjct: 240 PEGGFPPPYADGYGVHMAAAEKGPLYGVGTASRKAHEKPRSNRR 283

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255572969|ref|XP_002527415.1| conserved hypothetical protein [Ricinus communis] gi|223533225|gb|EEF34981.1| conserved hypothetical protein [Ricinus communis]

 Score =  377 bits (969), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 199/279 (71%), Positives = 231/279 (82%), Gaps = 12/279 (4%)

Query: 1   MAGRNRIPREVYSDRRGFPPERPFIRGPPMPQPPPHPALL---EEELEIQHAEIQRLLGD 57
           MAGRNRIPRE Y+DRRGFPPER FIRGPP+P PPP P      E+ELE++H EI+RLL D
Sbjct: 1   MAGRNRIPREAYNDRRGFPPERSFIRGPPLPHPPPPPPHHALLEDELEMRHVEIRRLLAD 60

Query: 58  NRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRATEPL 117
           NRRL EDRMA+Q+EL AAKE++HR+NL++GEIR EQE+H R+L+EKGLKLEADLRATEPL
Sbjct: 61  NRRLAEDRMALQQELGAAKEDIHRLNLIMGEIRTEQEMHSRELIEKGLKLEADLRATEPL 120

Query: 118 KKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHAR 177
           K EAVQLRAEVQKLN+ + E  G++QT++K++++LQADNQQIPLLR EIDGLHQELMHAR
Sbjct: 121 KNEAVQLRAEVQKLNSTKQEFLGQIQTMKKEISRLQADNQQIPLLRGEIDGLHQELMHAR 180

Query: 178 AAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAELTNFDGRPWGVGGPYGMNFSGVD 237
            A+DYEKKANIEL+EQRQAMEK +VSMAREVEKLRAEL + D RPW  GGPYGM F+  D
Sbjct: 181 TAIDYEKKANIELVEQRQAMEKTMVSMAREVEKLRAELASADSRPWVAGGPYGMKFNNPD 240

Query: 238 GSFPAPFGDGYGVHRGLADKGPMYGPRPASWDKPRMARR 276
           G F AP+GDGYG H G         P PASWDK RM RR
Sbjct: 241 G-FHAPYGDGYGGHLG--------APGPASWDKARMPRR 270

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357454679|ref|XP_003597620.1| hypothetical protein MTR_2g100240 [Medicago truncatula] gi|124360403|gb|ABN08416.1| Protein kinase PKN/PRK1, effector [Medicago truncatula] gi|355486668|gb|AES67871.1| hypothetical protein MTR_2g100240 [Medicago truncatula]

 Score =  376 bits (965), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 185/271 (68%), Positives = 222/271 (81%), Gaps = 8/271 (2%)

Query: 13  SDRRGFPPERPFIRGPPMPQP----PPHPALLEEELEIQHAEIQRLLGDNRRLVEDRMAM 68
           S RRG+P E P+ RGPP P P    PPHPALLEEELE+QHAE++RL+ DNRRL++DRM +
Sbjct: 2   SSRRGYPSEGPYARGPP-PMPRQHIPPHPALLEEELEVQHAEMRRLVADNRRLIDDRMTL 60

Query: 69  QRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRATEPLKKEAVQLRAEV 128
           QR+LAAAKEELHRMNL IG+IRAE E+H R+LV+K +KLE+DLR+TEPLK E +QLRAEV
Sbjct: 61  QRDLAAAKEELHRMNLAIGDIRAEHEMHSRELVDKNMKLESDLRSTEPLKNEVIQLRAEV 120

Query: 129 QKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANI 188
           QKL++++ EL+GKVQTL KD+A+LQ+DNQQIP +R+EIDGLHQELM AR  VDYEKKAN+
Sbjct: 121 QKLSSIKQELSGKVQTLTKDVARLQSDNQQIPSMRSEIDGLHQELMRARTMVDYEKKANM 180

Query: 189 ELMEQRQAMEKNLVSMAREVEKLRAELTNFDGRPWGVGGPYGMNFSGVDGSFPAPFGDGY 248
           E MEQRQ+MEKN+VSMAREVEKLRAEL + DGR WG G PYG NF   +G FP P+ DGY
Sbjct: 181 EFMEQRQSMEKNMVSMAREVEKLRAELASMDGRHWGAGLPYGTNFGSPEGGFPPPYADGY 240

Query: 249 GVHRGLADKGPMYGPRPAS---WDKPRMARR 276
           GVH   A+KGP+YG   AS    +KPR  RR
Sbjct: 241 GVHMAAAEKGPLYGVGTASRKAHEKPRSNRR 271

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356556722|ref|XP_003546672.1| PREDICTED: uncharacterized protein LOC100809038 [Glycine max]

 Score =  361 bits (926), Expect = 2e-97,   Method: Compositional matrix adjust.
 Identities = 194/287 (67%), Positives = 229/287 (79%), Gaps = 12/287 (4%)

Query: 1   MAGRNRIPREVYSDRRGFPPERPFIR----GPPMPQPPPHPALLEEELEIQHAEIQRLLG 56
           MA R+R+ RE  + RRG+PPE P+ R      P+P  PPHP++LEEELE QHAE++RL+ 
Sbjct: 1   MASRHRVHREPLNARRGYPPEGPYARVAPMPRPLPPIPPHPSVLEEELEFQHAEMRRLVA 60

Query: 57  DNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRATEP 116
           DNRRL++DRMA+QR+L AAKEELHRMNL IG+IRAE E H R+LVEKG+K+EADLRA EP
Sbjct: 61  DNRRLIDDRMALQRDLGAAKEELHRMNLAIGDIRAEHEAHSRELVEKGMKMEADLRANEP 120

Query: 117 LKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHA 176
           LK E +QLR+EV+KLNNL+ EL GKVQTL +D+A+LQADNQQIP++RA+IDGLHQELMHA
Sbjct: 121 LKNEVMQLRSEVKKLNNLKQELTGKVQTLTQDVARLQADNQQIPMMRAKIDGLHQELMHA 180

Query: 177 RAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAELTNFDGRPWGV---GGPYGMNF 233
           R  VDYEKKAN+E MEQRQ+MEKNLVSMAREVEKLRAEL + D R WG    GGPYG  F
Sbjct: 181 RTMVDYEKKANMEFMEQRQSMEKNLVSMAREVEKLRAELASADSRHWGAGMSGGPYGTKF 240

Query: 234 SGVDGSFPAPFGDGYG-VHRGLADKGPMYGPRPAS---WDKPRMARR 276
              +G FPAP+ DGYG VH G ADKGPMYG   AS    +KP M RR
Sbjct: 241 GSPEG-FPAPYADGYGSVHLGAADKGPMYGAGAASRKEHEKPHMNRR 286

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|363806838|ref|NP_001242546.1| uncharacterized protein LOC100787621 [Glycine max] gi|255645257|gb|ACU23126.1| unknown [Glycine max]

 Score =  345 bits (886), Expect = 1e-92,   Method: Compositional matrix adjust.
 Identities = 191/285 (67%), Positives = 223/285 (78%), Gaps = 9/285 (3%)

Query: 1   MAGRNRIPREVYSDRRGFPPERPFIR----GPPMPQPPPHPALLEEELEIQHAEIQRLLG 56
           MA R+R+ RE  + RRG+PPE P+ R      P P  PPHPA+LEEELE QHAE++RL+ 
Sbjct: 1   MASRHRVHREPLNARRGYPPEGPYARVPPMPRPPPPIPPHPAVLEEELEFQHAEMRRLVA 60

Query: 57  DNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRATEP 116
           DNRRL++DRMA+QR+L AAKEELHRMNL IG+IRAE E H R+LVEKG+K+EADLRA EP
Sbjct: 61  DNRRLIDDRMALQRDLGAAKEELHRMNLAIGDIRAEHEAHSRELVEKGMKMEADLRANEP 120

Query: 117 LKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHA 176
           LK E +QLR+EV+KLNNL+ EL GKVQTL +D+A+LQADNQQIP++RAEIDGLHQELM A
Sbjct: 121 LKNEVMQLRSEVKKLNNLKQELTGKVQTLTQDVARLQADNQQIPMMRAEIDGLHQELMRA 180

Query: 177 RAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAELTNFDGRPWGVGGPYGMNFS-- 234
           R  VDYEKKAN+E MEQRQ+MEKNLVSMAREVEKLRAEL + D R WG G   G   +  
Sbjct: 181 RTMVDYEKKANMEFMEQRQSMEKNLVSMAREVEKLRAELASADSRHWGGGMSGGPYGTKF 240

Query: 235 GVDGSFPAPFGDGYGVHRGLADKGPMYGPRPAS---WDKPRMARR 276
           G    FPAP+ DGYGVH G ADKGPMYG   AS    +K RM RR
Sbjct: 241 GSPEGFPAPYADGYGVHLGAADKGPMYGVGAASRKGHEKSRMNRR 285

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388504176|gb|AFK40154.1| unknown [Lotus japonicus]

 Score =  315 bits (806), Expect = 2e-83,   Method: Compositional matrix adjust.
 Identities = 174/287 (60%), Positives = 218/287 (75%), Gaps = 14/287 (4%)

Query: 1   MAGRNRIPREVYSDRRGFPPERPFIRGPPMPQPPPHP---ALLEEELEIQHAEIQRLLGD 57
           MAGR+R  RE  S RRG+PPE P+ RGPP    P  P   ALLEEELE+Q A+++ L  +
Sbjct: 1   MAGRHRGHREPMSGRRGYPPEGPYTRGPPPMPRPHVPPHPALLEEELELQRADMRNLAAE 60

Query: 58  NRRLV-------EDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEAD 110
           NRRLV       +DRMA+QRELAA KE+LHRM   IG IRA+ ++ +R++ EKG+KLE+D
Sbjct: 61  NRRLVVENRNLNDDRMALQRELAAVKEDLHRM---IGNIRADHDLQLREMAEKGMKLESD 117

Query: 111 LRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLH 170
           LRATEP K EA+QLR+EV+KL N + EL GKVQTL +++++LQA+NQQIP+LR+++D +H
Sbjct: 118 LRATEPFKNEAIQLRSEVKKLTNTKQELTGKVQTLTQEVSRLQAENQQIPMLRSDLDNMH 177

Query: 171 QELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAELTNFDGRPWGVGGPYG 230
           QELM AR  VDYEKKAN+++MEQ Q+M+KNLVSMAREVEKLRAEL N DGR WG GG YG
Sbjct: 178 QELMRARTMVDYEKKANMDIMEQSQSMQKNLVSMAREVEKLRAELANADGRHWGAGGTYG 237

Query: 231 MNFSGVDGSFPAPFGDGYGVHRGLADKGPMYGPRPASW-DKPRMARR 276
             F   DG + AP+ DGYGVH G A+KG +YG   AS  +KPRM RR
Sbjct: 238 TKFGSPDGGYTAPYADGYGVHLGAAEKGSLYGASAASRPEKPRMNRR 284

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297847874|ref|XP_002891818.1| hypothetical protein ARALYDRAFT_474572 [Arabidopsis lyrata subsp. lyrata] gi|297337660|gb|EFH68077.1| hypothetical protein ARALYDRAFT_474572 [Arabidopsis lyrata subsp. lyrata]

 Score =  313 bits (803), Expect = 4e-83,   Method: Compositional matrix adjust.
 Identities = 165/275 (60%), Positives = 203/275 (73%), Gaps = 3/275 (1%)

Query: 1   MAGRNRIPREVYSDRRGFPPERPFIRGPPMPQPPPHPALLEEELEIQHAEIQRLLGDNRR 60
           M+GRNRI R+ Y DRR  PPERPF+RGPP+ QPPP      E+L+IQ AEI+RLL DN R
Sbjct: 1   MSGRNRIHRDSYHDRRELPPERPFLRGPPLLQPPPPSL--LEDLQIQDAEIRRLLNDNHR 58

Query: 61  LVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRATEPLKKE 120
           L +DRM ++REL AAKEELHRMNL+I ++RAEQ++   +  EK  KLE D+RA E  KKE
Sbjct: 59  LADDRMVLERELVAAKEELHRMNLMISDLRAEQDLQSMEFSEKRHKLEGDVRAMESYKKE 118

Query: 121 AVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAV 180
           A QLR EVQKLN ++ EL+G VQ L+KDLAKLQ+DN+QIP +RAE+  L +ELMHAR A+
Sbjct: 119 ASQLRGEVQKLNEIKRELSGNVQMLRKDLAKLQSDNKQIPGMRAEVKDLQKELMHARDAI 178

Query: 181 DYEKKANIELMEQRQAMEKNLVSMAREVEKLRAELTNFDGRPWGVGGPYGMNFSGVDGSF 240
           DYEKK   ELMEQRQ MEKN+VSMAREVEKLRAEL   D RPWG GG YGMNF+ +DG+F
Sbjct: 179 DYEKKEKFELMEQRQTMEKNMVSMAREVEKLRAELATVDSRPWGFGGSYGMNFNNMDGTF 238

Query: 241 PAPFGDGYGVHRGLADKGPMYGPRPASWDKPRMAR 275
              +G+    + G +++   Y     S  KPR+ R
Sbjct: 239 RGSYGEN-DSYLGSSERSQYYSHGSGSQKKPRLDR 272

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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	276
TAIR|locus:2035751	283	AT1G55170 "AT1G55170" [Arabido	0.992	0.968	0.537	1.2e-72
TAIR|locus:2089616	331	AT3G14750 "AT3G14750" [Arabido	0.800	0.667	0.384	3.9e-37
TAIR|locus:2033681	359	AT1G67170 "AT1G67170" [Arabido	0.786	0.604	0.409	1.9e-35
TAIR|locus:2060848	288	AT2G30120 [Arabidopsis thalian	0.630	0.604	0.333	1.3e-22
TAIR|locus:2156146	238	AT5G61920 "AT5G61920" [Arabido	0.619	0.718	0.292	5.7e-20
ZFIN|ZDB-GENE-060929-128	885	ccdc147 "coiled-coil domain co	0.554	0.172	0.246	1.6e-09
UNIPROTKB|E9PIK8	155	PPFIBP2 "Liprin-beta-2" [Homo	0.518	0.922	0.268	1.1e-06
UNIPROTKB|Q6V4L4	397	Q6V4L4 "M protein" [Streptococ	0.605	0.420	0.266	1.8e-06
UNIPROTKB|Q6V4L9	391	Q6V4L9 "M protein" [Streptococ	0.605	0.427	0.255	2.9e-06
UNIPROTKB|K7EQ71	1115	PPL "Periplakin" [Homo sapiens	0.536	0.132	0.297	3.4e-06

TAIR|locus:2035751 AT1G55170 "AT1G55170" [Arabidopsis thaliana (taxid:3702)]

 Score = 734 (263.4 bits), Expect = 1.2e-72, P = 1.2e-72
 Identities = 152/283 (53%), Positives = 192/283 (67%)

Query:     1 MAGRNRIPREV---YSDRRGFPPERPFIRGXXXX-----XXXXXXXXXXXXXXIQHAEIQ 52
             M+GRNRI R++   Y D R  PPERPF+RG                        Q AEI+
Sbjct:     1 MSGRNRIHRDIRDSYHDHRDLPPERPFLRGPPLLQPPPPSLLEDLQIQEGEIRRQDAEIR 60

Query:    53 RLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLR 112
             RLL DN  L +DRM ++REL AAKEELHRMNL+I ++RAEQ++ +R+  EK  KLE D+R
Sbjct:    61 RLLSDNHGLADDRMVLERELVAAKEELHRMNLMISDLRAEQDLQLREFSEKRHKLEGDVR 120

Query:   113 ATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQE 172
             A E  KKEA QLR EVQKL+ ++ EL+G VQ L+KDLAKLQ+DN+QIP +RAE+  L +E
Sbjct:   121 AMESYKKEASQLRGEVQKLDEIKRELSGNVQLLRKDLAKLQSDNKQIPGMRAEVKDLQKE 180

Query:   173 LMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAELTNFDGRPWGVGGPYGMN 232
             LMHAR A++YEKK   ELMEQRQ MEKN+VSMAREVEKLRAEL   D RPWG GG YGMN
Sbjct:   181 LMHARDAIEYEKKEKFELMEQRQTMEKNMVSMAREVEKLRAELATVDSRPWGFGGSYGMN 240

Query:   233 FSGVDGSFPAPFGDGYGVHRGLADKGPMYGPRPASWDKPRMAR 275
             ++ +DG+F   +G+    + G +++   Y     S  KPR+ R
Sbjct:   241 YNNMDGTFRGSYGEN-DTYLGSSERSQYYSHGSGSQKKPRLDR 282

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2089616 AT3G14750 "AT3G14750" [Arabidopsis thaliana (taxid:3702)]

 Score = 399 (145.5 bits), Expect = 3.9e-37, P = 3.9e-37
 Identities = 90/234 (38%), Positives = 141/234 (60%)

Query:    47 QHAEIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLK 106
             Q+ ++Q LL DN+RL    +A+++EL  A+ EL R+   I  +RAE+E+ +R++ +K ++
Sbjct:    77 QNQDVQGLLADNQRLAATHVALKQELEVAQHELQRIMHYIDSLRAEEEIMMREMYDKSMR 136

Query:   107 LEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEI 166
              E +LR  + ++ E  ++RA++++  + R EL  +V  + +DLA+L AD QQIP L AEI
Sbjct:   137 SEMELREVDAMRAEIQKIRADIKEFTSGRQELTSQVHLMTQDLARLTADLQQIPTLTAEI 196

Query:   167 DGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAELTNFDGRPWG-- 224
             +   QEL  ARAA+DYEKK   E  E  + ME  LV+MARE+EKLRAE+ N +   +   
Sbjct:   197 ENTKQELQRARAAIDYEKKGYAENYEHGKIMEHKLVAMARELEKLRAEIANSETSAYANG 256

Query:   225 -VGGP----YGMNFSGVDGSFPA-PFGDGYGVH---RGLADK-GPMYGPRPASW 268
              VG P    YG  +   +  +P  P+   Y ++    G+     P YGP+ A+W
Sbjct:   257 PVGNPGGVAYGGGYGNPEAGYPVNPYQPNYTMNPAQTGVVGYYPPPYGPQ-AAW 309

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0048573 "photoperiodism, flowering" evidence=RCA

TAIR|locus:2033681 AT1G67170 "AT1G67170" [Arabidopsis thaliana (taxid:3702)]

 Score = 383 (139.9 bits), Expect = 1.9e-35, P = 1.9e-35
 Identities = 91/222 (40%), Positives = 132/222 (59%)

Query:    47 QHAEIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLK 106
             QH E+QRL  +N+RL     ++++ELAAA+ E+  ++  IG +++E+E  +  L EK  K
Sbjct:    65 QHGELQRLAIENQRLGGTHGSLRQELAAAQHEIQMLHAQIGSMKSEREQRMMGLAEKVAK 124

Query:   107 LEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEI 166
             +E +L+ +E +K E  Q RAE + L   R EL  KV  L ++L K ++D QQIP L +E+
Sbjct:   125 METELQKSEAVKLEMQQARAEARSLVVAREELMSKVHQLTQELQKSRSDVQQIPALMSEL 184

Query:   167 DGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAELTNFDGRPWGVG 226
             + L QE    RA  DYEKK   + +E  QAMEKN ++MAREVEKL+A+L N        G
Sbjct:   185 ENLRQEYQQCRATYDYEKKFYNDHLESLQAMEKNYMTMAREVEKLQAQLMNNANSDRRAG 244

Query:   227 GPYGMNFSG-VDGSFPAPFGDGYGVHRGLADKGPMYGPRPAS 267
             GPYG N +  +D S     G+GY        +G  Y P+P +
Sbjct:   245 GPYGNNINAEIDASGHQS-GNGY-YEDAFGPQG--YIPQPVA 282

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2060848 AT2G30120 [Arabidopsis thaliana (taxid:3702)]

 Score = 262 (97.3 bits), Expect = 1.3e-22, P = 1.3e-22
 Identities = 58/174 (33%), Positives = 100/174 (57%)

Query:    46 IQHAEIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGL 105
             IQH EIQ LL DN+RL    + ++ +L  AK EL R+     +++AE E  VR++ +  L
Sbjct:    45 IQHREIQSLLNDNQRLAVAHIGLKDQLNVAKRELERLLETAVKVKAEGEAKVREVYQNAL 104

Query:   106 KLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAE 165
             ++EA+ R  + L  E  Q+R++VQ+L + R EL  ++     ++AK + ++ +   ++ E
Sbjct:   105 RMEAEARVIDGLGAELGQVRSDVQRLGSDRQELATELAMFDDEMAKAKPNSDRAIEVKLE 164

Query:   166 IDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAELTNFD 219
             I+ L  E+   RAA++ EKK     +   + MEK +  + RE+ KL  EL + +
Sbjct:   165 IEILRGEIRKGRAALELEKKTRASNLHHERGMEKTIDHLNREIVKLEEELVDLE 218

GO:0009507 "chloroplast" evidence=ISM

TAIR|locus:2156146 AT5G61920 "AT5G61920" [Arabidopsis thaliana (taxid:3702)]

 Score = 237 (88.5 bits), Expect = 5.7e-20, P = 5.7e-20
 Identities = 50/171 (29%), Positives = 90/171 (52%)

Query:    46 IQHAEIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGL 105
             +Q AEI RL  DNR+L    +A++ +L  A  E+  +   I +   + E+ +R  +EK  
Sbjct:    59 VQAAEIDRLSNDNRKLASSYVALKEDLTVADREVQGLRAHIRKTETDHEIQIRSTLEKIA 118

Query:   106 KLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAE 165
             K+E  ++  E +++E      E  +L   R EL  KV+   KDL K+  + + +     E
Sbjct:   119 KMEGMVKNRENIRREVQSAHIEAHRLAREREELASKVKLGMKDLKKVCLEAESLEASSQE 178

Query:   166 IDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAELT 216
             ++ L +E    R   + EK  N+E + Q + ME+ ++   + +EKLR+E++
Sbjct:   179 LERLKEEHQRLRKEFEEEKSGNVEKLAQLKGMERKIIGAVKAIEKLRSEIS 229

GO:0008150 "biological_process" evidence=ND

ZFIN|ZDB-GENE-060929-128 ccdc147 "coiled-coil domain containing 147" [Danio rerio (taxid:7955)]

 Score = 165 (63.1 bits), Expect = 1.6e-09, P = 1.6e-09
 Identities = 40/162 (24%), Positives = 86/162 (53%)

Query:    52 QRLLGDNRRL---VEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLE 108
             QRL  D ++L   +++   +  + +   E+L   N  + +   +  +++  L ++  +  
Sbjct:   249 QRLQDDQQKLEQLLQEHKIINEKSSKEMEQLQHRNTKLQQDNEQNSINLEQLSQQNQQRA 308

Query:   109 ADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDG 168
             +DL+  E   +E  QL+ E+ KL  LR     +++ +++   K + +NQ+   L+ +I G
Sbjct:   309 SDLKMKE---EEVTQLKQEITKLTRLREGAQRRLRQMEEQ--KAEVENQR-ETLKNQITG 362

Query:   169 LHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEK 210
             L +E+  ++  +D +KKA  EL+ +R  + KN++  A E +K
Sbjct:   363 LEREMEASKNQIDADKKAIDELVRERDILNKNMIKAANETDK 404

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0005575 "cellular_component" evidence=ND

UNIPROTKB|E9PIK8 PPFIBP2 "Liprin-beta-2" [Homo sapiens (taxid:9606)]

 Score = 116 (45.9 bits), Expect = 1.1e-06, P = 1.1e-06
 Identities = 40/149 (26%), Positives = 75/149 (50%)

Query:    66 MAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRATEPLKKEAVQLR 125
             M  Q  L+    E  +++L+  E+ +E ++ +  + ++  + E   R  E L +E   L+
Sbjct:     1 MLQQELLSRTSLETQKLDLMT-EV-SELKLKLVGMEKEQREQEEKQRKAEELLQELRHLK 58

Query:   126 AEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKK 185
              +V++L N RN+   K++  + ++A+LQ   +Q+ L  AEI+ LH +L    AA+  E  
Sbjct:    59 IKVEELENERNQYEWKLKATKAEVAQLQ---EQVALKDAEIERLHSQLSRT-AALHSESH 114

Query:   186 ANIELMEQRQAMEKNLVSMAREVEKLRAE 214
                +   QR  M    + +A E +  R E
Sbjct:   115 TERDQEIQRLKMGMETLLLANEDKDRRIE 143

GO:0003677 "DNA binding" evidence=IEA

GO:0008907 "integrase activity" evidence=IEA

UNIPROTKB|Q6V4L4 Q6V4L4 "M protein" [Streptococcus pyogenes (taxid:1314)]

 Score = 135 (52.6 bits), Expect = 1.8e-06, P = 1.8e-06
 Identities = 49/184 (26%), Positives = 94/184 (51%)

Query:    47 QHAEIQRLLGDNRRLVE-DRMAMQRELAAAKE-----ELHRMNLVIGEIRAEQEVHVRDL 100
             + AE Q+ L + +++ +  R  ++R+L A++E     E    NL     +A++E  + D 
Sbjct:   164 KEAE-QKKLKEEKQISDASRQGLRRDLDASREAKKQVEKDLANLTAELDKAKEEKQISDA 222

Query:   101 VEKGLK--LEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDL-AKLQADNQ 157
               +GL+  L+A   A + ++K+   L AE+ K+   +   +   Q L++DL A  +A  Q
Sbjct:   223 SRQGLRRDLDASREAKKQVEKDLANLTAELDKVKEEKQISDASRQGLRRDLDASREAKKQ 282

Query:   158 QIPLLR------AEIDGLHQELMHARAAVDYEK-KANIELMEQRQAMEKNLVSMAREVEK 210
                 L       A ++ L++EL  ++   + EK +   +L  + +A+++ L   A E+ K
Sbjct:   283 VEKALEEANSKLAALEKLNKELEESKKLTEKEKAELQAKLEAEAKALKEKLAKQAEELAK 342

Query:   211 LRAE 214
             LRAE
Sbjct:   343 LRAE 346

GO:0005515 "protein binding" evidence=IPI

UNIPROTKB|Q6V4L9 Q6V4L9 "M protein" [Streptococcus pyogenes (taxid:1314)]

 Score = 133 (51.9 bits), Expect = 2.9e-06, P = 2.9e-06
 Identities = 47/184 (25%), Positives = 94/184 (51%)

Query:    47 QHAEIQRLLGDNRRLVE-DRMAMQRELAAAKEELHRMNLVIGEIRAE-----QEVHVRDL 100
             + AE Q+ L + +++ +  R  ++R+L A++E   ++   +  + AE     +E  + D 
Sbjct:   158 KEAE-QKKLKEEKQISDASRQGLRRDLDASREAKKQVEKDLANLTAELDKVKEEKQISDA 216

Query:   101 VEKGLK--LEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDL-AKLQADNQ 157
               +GL+  L+A   A + ++K+   L AE+ K+   +   +   Q L++DL A  +A  Q
Sbjct:   217 SRQGLRRDLDASREAKKQVEKDLADLTAELDKVKEEKQISDASRQGLRRDLDASREAKKQ 276

Query:   158 QIPLLR------AEIDGLHQELMHARAAVDYEK-KANIELMEQRQAMEKNLVSMAREVEK 210
                 L       A ++ L++EL  ++   + EK +   +L  + +A+++ L   A E+ K
Sbjct:   277 VEKALEEANSKLAALEKLNKELEESKKLTEKEKAELQAKLEAEAKALKEQLAKQAEELAK 336

Query:   211 LRAE 214
             LRAE
Sbjct:   337 LRAE 340

GO:0005515 "protein binding" evidence=IPI

UNIPROTKB|K7EQ71 PPL "Periplakin" [Homo sapiens (taxid:9606)]

 Score = 138 (53.6 bits), Expect = 3.4e-06, P = 3.4e-06
 Identities = 47/158 (29%), Positives = 82/158 (51%)

Query:    61 LVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRATEPLKKE 120
             L  +R + + ++A  +EEL R+     E   +QEV VR   E GL+ EA   A E +  E
Sbjct:   746 LERERASQEEQIARKEEELSRVK----ERVVQQEV-VRYEEEPGLRAEASAFA-ESIDVE 799

Query:   121 AVQ---LRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHAR 177
               Q   LRAE+++L   R EL  +++ L+++    +   +++  L+  +  L QE   AR
Sbjct:   800 LRQIDKLRAELRRLQRRRTELERQLEELERERQARREAEREVQRLQQRLAALEQEEAEAR 859

Query:   178 AAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAEL 215
               V + +K  ++  + +QA E  L+ +  E E+ R +L
Sbjct:   860 EKVTHTQKVVLQ-QDPQQAREHALLRLQLEEEQHRRQL 896

GO:0005856 "cytoskeleton" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: eugene3.00440082 hypothetical protein (271 aa) (Populus trichocarpa)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	276
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	2e-08
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	4e-08
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	2e-07
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	2e-07
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	5e-07
TIGR04211	198	TIGR04211, SH3_and_anchor, SH3 domain protein	7e-07
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	7e-07
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	1e-06
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	2e-06
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	2e-06
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	3e-06
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	6e-06
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	7e-06
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	1e-05
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	1e-05
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	2e-05
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	3e-05
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	4e-05
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	6e-05
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	1e-04
TIGR04211	198	TIGR04211, SH3_and_anchor, SH3 domain protein	2e-04
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	2e-04
TIGR00606	1311	TIGR00606, rad50, rad50	2e-04
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	3e-04
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	4e-04
pfam07106	169	pfam07106, TBPIP, Tat binding protein 1(TBP-1)-int	5e-04
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	6e-04
pfam08317	321	pfam08317, Spc7, Spc7 kinetochore protein	7e-04
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	8e-04
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	0.001
COG0419	908	COG0419, SbcC, ATPase involved in DNA repair [DNA	0.001
pfam03961	450	pfam03961, DUF342, Protein of unknown function (DU	0.001
smart00787	312	smart00787, Spc7, Spc7 kinetochore protein	0.001
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	0.002
COG0419	908	COG0419, SbcC, ATPase involved in DNA repair [DNA	0.002
COG5185	622	COG5185, HEC1, Protein involved in chromosome segr	0.002
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	0.003
pfam05557	722	pfam05557, MAD, Mitotic checkpoint protein	0.003

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

 Score = 54.7 bits (132), Expect = 2e-08
 Identities = 44/182 (24%), Positives = 97/182 (53%), Gaps = 7/182 (3%)

Query: 42  EELEIQHAEIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLV 101
           +ELE + AE++  L    +L E+  +++ EL + ++ L  +   + E+  + E   R+L 
Sbjct: 670 KELEEELAELEAQL---EKLEEELKSLKNELRSLEDLLEELRRQLEELERQLEELKRELA 726

Query: 102 EKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQI-- 159
               +LE      E L++E  +L  E+++L     EL  ++++L++ LAKL+ + +++  
Sbjct: 727 ALEEELEQLQSRLEELEEELEELEEELEELQERLEELEEELESLEEALAKLKEEIEELEE 786

Query: 160 --PLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAELTN 217
               L+ E++ L +EL  A   +D  ++    L ++R+ +E+ +  +  E+E+L  +L  
Sbjct: 787 KRQALQEELEELEEELEEAERRLDALERELESLEQRRERLEQEIEELEEEIEELEEKLDE 846

Query: 218 FD 219
            +
Sbjct: 847 LE 848

Length = 1163

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

 Score = 53.6 bits (129), Expect = 4e-08
 Identities = 44/180 (24%), Positives = 85/180 (47%), Gaps = 7/180 (3%)

Query: 40  LEEELEIQHAEIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRD 99
           LE E+ +    ++ L  +   L E    ++ ++ A KEEL     ++ E+          
Sbjct: 300 LEGEISLLRERLEELENELEELEERLEELKEKIEALKEELEERETLLEELEQLLAELEEA 359

Query: 100 LVEKGLKLEADLRA----TEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQAD 155
             E   KL A L       E L++E  +L AE+ ++ N   EL  ++++L++ L +L   
Sbjct: 360 KEELEEKLSALLEELEELFEALREELAELEAELAEIRNELEELKREIESLEERLERL--- 416

Query: 156 NQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAEL 215
           ++++  L+ E+  L  EL   +  ++   +   EL EQ + +   L  + RE+ +L+ EL
Sbjct: 417 SERLEDLKEELKELEAELEELQTELEELNEELEELEEQLEELRDRLKELERELAELQEEL 476

Length = 1163

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

 Score = 51.6 bits (124), Expect = 2e-07
 Identities = 38/195 (19%), Positives = 79/195 (40%), Gaps = 15/195 (7%)

Query: 42  EELEIQHAEIQRLLGDNRRLVE----DRMAMQRELAAAKEELHRMNLVIGEIRAEQEVH- 96
             LE    E++R L +  R +E    +  A++ EL   +  L  +   + E+  E E   
Sbjct: 698 RSLEDLLEELRRQLEELERQLEELKRELAALEEELEQLQSRLEELEEELEELEEELEELQ 757

Query: 97  ---------VRDLVEKGLKLEADLRATEPLKKEAVQLRAEVQ-KLNNLRNELNGKVQTLQ 146
                    +  L E   KL+ ++   E  ++   +   E++ +L      L+   + L+
Sbjct: 758 ERLEELEEELESLEEALAKLKEEIEELEEKRQALQEELEELEEELEEAERRLDALERELE 817

Query: 147 KDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAR 206
               + +   Q+I  L  EI+ L ++L      ++  +K   EL E+ + +E     +  
Sbjct: 818 SLEQRRERLEQEIEELEEEIEELEEKLDELEEELEELEKELEELKEELEELEAEKEELED 877

Query: 207 EVEKLRAELTNFDGR 221
           E+++L  E    +  
Sbjct: 878 ELKELEEEKEELEEE 892

Length = 1163

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

 Score = 51.6 bits (124), Expect = 2e-07
 Identities = 42/184 (22%), Positives = 84/184 (45%), Gaps = 8/184 (4%)

Query: 40  LEEELEIQHAEIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRD 99
           LE++ +I    +  L      L      ++ +L    EEL  +   + E++ E E    +
Sbjct: 300 LEQQKQILRERLANLERQLEELEAQLEELESKLDELAEELAELEEKLEELKEELESLEAE 359

Query: 100 LVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQI 159
           L E   +LE      E L+++   LR++V +L      LN +++ L+  L +L+   ++ 
Sbjct: 360 LEELEAELEELESRLEELEEQLETLRSKVAQLELQIASLNNEIERLEARLERLEDRRER- 418

Query: 160 PLLRAEIDGLHQELMHAR-----AAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAE 214
             L+ EI+ L ++L  A      A ++  ++   EL E+ + +E+ L  +  E+E+    
Sbjct: 419 --LQQEIEELLKKLEEAELKELQAELEELEEELEELQEELERLEEALEELREELEEAEQA 476

Query: 215 LTNF 218
           L   
Sbjct: 477 LDAA 480

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 = 50.5 bits (121), Expect = 5e-07
 Identities = 43/189 (22%), Positives = 88/189 (46%), Gaps = 10/189 (5%)

Query: 40  LEEELEIQHAEIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRA--EQEVHV 97
           L+  LE    E++ L  +   L E    ++ EL + +E L ++   I E+    +     
Sbjct: 735 LQSRLEELEEELEELEEELEELQERLEELEEELESLEEALAKLKEEIEELEEKRQALQEE 794

Query: 98  RDLVEK-----GLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKL 152
            + +E+       +L+A  R  E L++   +L  E+++L     EL  K+  L+++L +L
Sbjct: 795 LEELEEELEEAERRLDALERELESLEQRRERLEQEIEELEEEIEELEEKLDELEEELEEL 854

Query: 153 QADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLR 212
           +   +++  L+ E++ L  E       +   ++   EL E+ + +E  L  +  E+EKLR
Sbjct: 855 E---KELEELKEELEELEAEKEELEDELKELEEEKEELEEELRELESELAELKEEIEKLR 911

Query: 213 AELTNFDGR 221
             L   + +
Sbjct: 912 ERLEELEAK 920

Length = 1163

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

 Score = 48.5 bits (116), Expect = 7e-07
 Identities = 26/111 (23%), Positives = 49/111 (44%), Gaps = 7/111 (6%)

Query: 111 LRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLH 170
           L  T   ++   +L+ E+ +L     EL  ++  LQ++  +L+ +      L AE++ L 
Sbjct: 58  LSDTPSARERLPELQQELAELQEELAELQEQLAELQQENQELKQELST---LEAELERLQ 114

Query: 171 QELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAELTNFDGR 221
           +EL   +          IEL E+ + + + L  + +E E L AE       
Sbjct: 115 KELARIKQL----SANAIELDEENRELREELAELKQENEALEAENERLQEN 161

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

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

 Score = 50.1 bits (120), Expect = 7e-07
 Identities = 43/176 (24%), Positives = 80/176 (45%), Gaps = 3/176 (1%)

Query: 40  LEEELEIQHAEIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRD 99
           LE E++   AEI+ L  +     + R  +  E A  KEEL  +   + E+  E      +
Sbjct: 327 LEAEIDKLLAEIEELEREIEEERKRRDKLTEEYAELKEELEDLRAELEEVDKEFAETRDE 386

Query: 100 LVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQI 159
           L +   KLE   R    LK+E  +L+ E+Q+L+    +LN  +  ++  + +L+ + +  
Sbjct: 387 LKDYREKLEKLKREINELKRELDRLQEELQRLSEELADLNAAIAGIEAKINELEEEKED- 445

Query: 160 PLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAEL 215
                EI     +L    A +   ++   +L E+   +EK L  + RE+ +  A+ 
Sbjct: 446 --KALEIKKQEWKLEQLAADLSKYEQELYDLKEEYDRVEKELSKLQRELAEAEAQA 499

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

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

 Score = 49.3 bits (118), Expect = 1e-06
 Identities = 38/190 (20%), Positives = 82/190 (43%), Gaps = 11/190 (5%)

Query: 40  LEEELEIQHAEIQRLLGD-------NRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAE 92
           L+ EL     E+++L             L E+   +Q  L   +EEL  +   + +++ E
Sbjct: 721 LKRELAALEEELEQLQSRLEELEEELEELEEELEELQERLEELEEELESLEEALAKLKEE 780

Query: 93  QEVHVRDLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKL 152
            E           +LE      E  ++    L  E++ L   R  L  +++ L++++ +L
Sbjct: 781 IEELEEKRQALQEELEELEEELEEAERRLDALERELESLEQRRERLEQEIEELEEEIEEL 840

Query: 153 QAD----NQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREV 208
           +       +++  L  E++ L +EL    A  +  +    EL E+++ +E+ L  +  E+
Sbjct: 841 EEKLDELEEELEELEKELEELKEELEELEAEKEELEDELKELEEEKEELEEELRELESEL 900

Query: 209 EKLRAELTNF 218
            +L+ E+   
Sbjct: 901 AELKEEIEKL 910

Length = 1163

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

 Score = 48.6 bits (116), Expect = 2e-06
 Identities = 40/170 (23%), Positives = 79/170 (46%)

Query: 40  LEEELEIQHAEIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRD 99
           LEEELE     + +L  +   L E R A+Q EL   +EEL      +  +  E E   + 
Sbjct: 763 LEEELESLEEALAKLKEEIEELEEKRQALQEELEELEEELEEAERRLDALERELESLEQR 822

Query: 100 LVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQI 159
                 ++E      E L+++  +L  E+++L     EL  +++ L+ +  +L+ + +++
Sbjct: 823 RERLEQEIEELEEEIEELEEKLDELEEELEELEKELEELKEELEELEAEKEELEDELKEL 882

Query: 160 PLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVE 209
              + E++   +EL    A +  E +   E +E+ +A  + L     E+E
Sbjct: 883 EEEKEELEEELRELESELAELKEEIEKLRERLEELEAKLERLEVELPELE 932

Length = 1163

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

 Score = 48.5 bits (116), Expect = 2e-06
 Identities = 39/180 (21%), Positives = 82/180 (45%), Gaps = 3/180 (1%)

Query: 38  ALLEEELEIQHAEIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHV 97
           ALL   LE    E++ L  + +   E+   +  EL   +E+L  + L + E+  E E   
Sbjct: 228 ALLVLRLEELREELEELQEELKEAEEELEELTAELQELEEKLEELRLEVSELEEEIEELQ 287

Query: 98  RDLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQ 157
           ++L     ++    +  + L++    L  ++++L     EL  K+  L ++LA+L+    
Sbjct: 288 KELYALANEISRLEQQKQILRERLANLERQLEELEAQLEELESKLDELAEELAELEE--- 344

Query: 158 QIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAELTN 217
           ++  L+ E++ L  EL    A ++  +    EL EQ + +   +  +  ++  L  E+  
Sbjct: 345 KLEELKEELESLEAELEELEAELEELESRLEELEEQLETLRSKVAQLELQIASLNNEIER 404

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

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

 Score = 47.7 bits (114), Expect = 3e-06
 Identities = 40/165 (24%), Positives = 68/165 (41%), Gaps = 22/165 (13%)

Query: 59  RRLVEDRMAMQRELAA-----AKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRA 113
           + L  +   ++  L        +EEL  +   + E   E E    +L E   KLE     
Sbjct: 216 KELKAELRELELALLVLRLEELREELEELQEELKEAEEELEELTAELQELEEKLE----- 270

Query: 114 TEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQEL 173
                    +LR EV +L     EL  ++  L  ++++L    QQ  +LR  +  L ++L
Sbjct: 271 ---------ELRLEVSELEEEIEELQKELYALANEISRL---EQQKQILRERLANLERQL 318

Query: 174 MHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAELTNF 218
               A ++  +    EL E+   +E+ L  +  E+E L AEL   
Sbjct: 319 EELEAQLEELESKLDELAEELAELEEKLEELKEELESLEAELEEL 363

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

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

 Score = 47.0 bits (112), Expect = 6e-06
 Identities = 47/182 (25%), Positives = 80/182 (43%), Gaps = 10/182 (5%)

Query: 40  LEEELEIQHAEIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRD 99
            EEEL    AEI+ L     +L E+  A++  L   + EL  +N     +R   E   R 
Sbjct: 773 AEEELAEAEAEIEELEAQIEQLKEELKALREALDELRAELTLLNEEAANLRERLESLERR 832

Query: 100 LVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQI 159
           +     +LE      E L ++   L AE+++L  L  EL  +++ L  + A L+   + +
Sbjct: 833 IAATERRLEDLEEQIEELSEDIESLAAEIEELEELIEELESELEALLNERASLE---EAL 889

Query: 160 PLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAELTNFD 219
            LLR+E++ L +EL    +     ++   EL E+       L  +   +E L   + N  
Sbjct: 890 ALLRSELEELSEELRELESKRSELRRELEELREK-------LAQLELRLEGLEVRIDNLQ 942

Query: 220 GR 221
            R
Sbjct: 943 ER 944

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 = 46.6 bits (111), Expect = 7e-06
 Identities = 52/185 (28%), Positives = 82/185 (44%), Gaps = 3/185 (1%)

Query: 40  LEEELEIQHAEIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRD 99
           L+EELE    EI+ L  +   L E+   +Q EL   KEE+  +   I  +R   E    +
Sbjct: 258 LQEELEEAEKEIEELKSELEELREELEELQEELLELKEEIEELEGEISLLRERLEELENE 317

Query: 100 LVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQ- 158
           L E   +LE      E LK+E  +    +++L  L  EL    + L++ L+ L  + ++ 
Sbjct: 318 LEELEERLEELKEKIEALKEELEERETLLEELEQLLAELEEAKEELEEKLSALLEELEEL 377

Query: 159 IPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMA-REVEKLRAELTN 217
              LR E+  L  EL   R  +  E K  IE +E+R       +     E+++L AEL  
Sbjct: 378 FEALREELAELEAELAEIRNEL-EELKREIESLEERLERLSERLEDLKEELKELEAELEE 436

Query: 218 FDGRP 222
                
Sbjct: 437 LQTEL 441

Length = 1163

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

 Score = 46.2 bits (110), Expect = 1e-05
 Identities = 42/181 (23%), Positives = 85/181 (46%), Gaps = 7/181 (3%)

Query: 40  LEEELEIQHAEIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQ---EVH 96
           LE+  E    EI+ L  +   L E    ++ EL   ++EL  +   + E+ AE+   E  
Sbjct: 819 LEQRRERLEQEIEELEEEIEELEEKLDELEEELEELEKELEELKEELEELEAEKEELEDE 878

Query: 97  VRDLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADN 156
           +++L E+  +LE +LR    L+ E  +L+ E++KL     EL  K++ L+ +L +L+ + 
Sbjct: 879 LKELEEEKEELEEELRE---LESELAELKEEIEKLRERLEELEAKLERLEVELPELEEEL 935

Query: 157 QQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAELT 216
           ++      E   L +E+      ++     N+  +E+ + +E+    +  + E L     
Sbjct: 936 EEEYEDTLE-TELEREIERLEEEIEALGPVNLRAIEEYEEVEERYEELKSQREDLEEAKE 994

Query: 217 N 217
            
Sbjct: 995 K 995

Length = 1163

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

 Score = 46.2 bits (110), Expect = 1e-05
 Identities = 38/190 (20%), Positives = 86/190 (45%), Gaps = 17/190 (8%)

Query: 39  LLEEELEIQHAEIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVR 98
            LE+E E     ++ L  D   L ++   ++ EL   +  +  +   + ++         
Sbjct: 727 QLEQEEEKLKERLEELEEDLSSLEQEIENVKSELKELEARIEELEEDLHKLEEALNDLEA 786

Query: 99  DLVEKGLK-LEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADN- 156
            L    +  ++A+L     L++E  ++ A ++++    N L  + + L+K++ +LQ    
Sbjct: 787 RLSHSRIPEIQAELSK---LEEEVSRIEARLREIEQKLNRLTLEKEYLEKEIQELQEQRI 843

Query: 157 ----------QQIPLLRAEIDGLHQELMHARAAV-DYEKKANIELMEQRQAMEKNLVSMA 205
                     ++I  L  + + L +EL    AA+ D E +   +L ++R  +E  L  + 
Sbjct: 844 DLKEQIKSIEKEIENLNGKKEELEEELEELEAALRDLESRL-GDLKKERDELEAQLRELE 902

Query: 206 REVEKLRAEL 215
           R++E+L A++
Sbjct: 903 RKIEELEAQI 912

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

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

 Score = 45.9 bits (109), Expect = 2e-05
 Identities = 40/187 (21%), Positives = 79/187 (42%), Gaps = 9/187 (4%)

Query: 40  LEEELEIQHAEIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRD 99
           L +ELE    E+ RL  +   L E+    ++E+   K EL  +   + E++ E      +
Sbjct: 237 LRKELEELEEELSRLEEELEELQEELEEAEKEIEELKSELEELREELEELQEEL----LE 292

Query: 100 LVEKGLKLEADL-RATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQ 158
           L E+  +LE ++    E L++   +L    ++L  L+ ++    + L++    L+   Q 
Sbjct: 293 LKEEIEELEGEISLLRERLEELENELEELEERLEELKEKIEALKEELEERETLLEELEQL 352

Query: 159 IPLLRAEIDGLHQELMHARAAVDYEKKA----NIELMEQRQAMEKNLVSMAREVEKLRAE 214
           +  L    + L ++L      ++   +A      EL  +   +   L  + RE+E L   
Sbjct: 353 LAELEEAKEELEEKLSALLEELEELFEALREELAELEAELAEIRNELEELKREIESLEER 412

Query: 215 LTNFDGR 221
           L     R
Sbjct: 413 LERLSER 419

Length = 1163

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

 Score = 44.7 bits (106), Expect = 3e-05
 Identities = 39/188 (20%), Positives = 86/188 (45%), Gaps = 11/188 (5%)

Query: 38  ALLEEELEIQHAEIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHV 97
           + L ++L    AE+++L     +L        +EL   + E+  +   + E   E     
Sbjct: 729 SALRKDLARLEAEVEQLEERIAQL-------SKELTELEAEIEELEERLEEAEEELAEAE 781

Query: 98  RDLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLA----KLQ 153
            ++ E   ++E      + L++   +LRAE+  LN     L  ++++L++ +A    +L+
Sbjct: 782 AEIEELEAQIEQLKEELKALREALDELRAELTLLNEEAANLRERLESLERRIAATERRLE 841

Query: 154 ADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRA 213
              +QI  L  +I+ L  E+      ++  +     L+ +R ++E+ L  +  E+E+L  
Sbjct: 842 DLEEQIEELSEDIESLAAEIEELEELIEELESELEALLNERASLEEALALLRSELEELSE 901

Query: 214 ELTNFDGR 221
           EL   + +
Sbjct: 902 ELRELESK 909

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 = 44.3 bits (105), Expect = 4e-05
 Identities = 41/180 (22%), Positives = 73/180 (40%), Gaps = 25/180 (13%)

Query: 40  LEEELEIQHAEIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRD 99
            EE L    AEI +LL +   L  +    ++      EE         E++ E E    +
Sbjct: 320 AEERLAKLEAEIDKLLAEIEELEREIEEERKRRDKLTEE-------YAELKEELEDLRAE 372

Query: 100 LVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQAD---- 155
           L E    ++ +   T   + E    R +++KL    NEL  ++  LQ++L +L  +    
Sbjct: 373 LEE----VDKEFAET---RDELKDYREKLEKLKREINELKRELDRLQEELQRLSEELADL 425

Query: 156 NQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAEL 215
           N  I  + A+I+ L +E       +   KK   +L +    + K      +E+  L+ E 
Sbjct: 426 NAAIAGIEAKINELEEEKEDKALEI---KKQEWKLEQLAADLSK----YEQELYDLKEEY 478

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 = 43.9 bits (104), Expect = 6e-05
 Identities = 45/191 (23%), Positives = 91/191 (47%), Gaps = 30/191 (15%)

Query: 59  RRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRATEPLK 118
           +RL E    ++REL++ + EL R+   + E+  E     R + E   ++E   +  E LK
Sbjct: 677 QRLRERLEGLKRELSSLQSELRRIENRLDELSQELSDASRKIGEIEKEIEQLEQEEEKLK 736

Query: 119 KEAVQLRAEV----QKLNNLRNE---LNGKVQTLQKDLAKLQA---------DNQQIPLL 162
           +   +L  ++    Q++ N+++E   L  +++ L++DL KL+           + +IP +
Sbjct: 737 ERLEELEEDLSSLEQEIENVKSELKELEARIEELEEDLHKLEEALNDLEARLSHSRIPEI 796

Query: 163 RAEIDGLHQELMHARAAVD--------------YEKKANIELMEQRQAMEKNLVSMAREV 208
           +AE+  L +E+    A +               Y +K   EL EQR  +++ + S+ +E+
Sbjct: 797 QAELSKLEEEVSRIEARLREIEQKLNRLTLEKEYLEKEIQELQEQRIDLKEQIKSIEKEI 856

Query: 209 EKLRAELTNFD 219
           E L  +    +
Sbjct: 857 ENLNGKKEELE 867

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 = 43.1 bits (102), Expect = 1e-04
 Identities = 48/207 (23%), Positives = 80/207 (38%), Gaps = 27/207 (13%)

Query: 40  LEEELEIQHAEIQRLLGDNRRLVEDRMAMQRELAAAKEEL-------HRMNLVIGEIRAE 92
            EEELE   AE+Q L      L  +   ++ E+   ++EL        R+      +R  
Sbjct: 251 AEEELEELTAELQELEEKLEELRLEVSELEEEIEELQKELYALANEISRLEQQKQILRER 310

Query: 93  QEVHVRDLVEKGLKLEADLRA--------------TEPLKKEAVQLRAEVQKLNNLRNEL 138
                R L E   +LE                    E LK+E   L AE+++L     EL
Sbjct: 311 LANLERQLEELEAQLEELESKLDELAEELAELEEKLEELKEELESLEAELEELEAELEEL 370

Query: 139 NGKVQTLQKDLAKLQAD----NQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQR 194
             +++ L++ L  L++       QI  L  EI+ L   L       +  ++   EL+++ 
Sbjct: 371 ESRLEELEEQLETLRSKVAQLELQIASLNNEIERLEARLERLEDRRERLQQEIEELLKKL 430

Query: 195 QAMEKNLVSMAREVEKLRAELTNFDGR 221
           +  E   +    E+E+L  EL      
Sbjct: 431 EEAELKELQA--ELEELEEELEELQEE 455

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|234501 TIGR04211, SH3_and_anchor, SH3 domain protein

 Score = 41.1 bits (97), Expect = 2e-04
 Identities = 24/93 (25%), Positives = 49/93 (52%), Gaps = 4/93 (4%)

Query: 67  AMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRATEPLKKEAVQLRA 126
            +Q+ELA  +EEL  +   + E++ E     ++L ++   LEA+L   +       QL A
Sbjct: 70  ELQQELAELQEELAELQEQLAELQQEN----QELKQELSTLEAELERLQKELARIKQLSA 125

Query: 127 EVQKLNNLRNELNGKVQTLQKDLAKLQADNQQI 159
              +L+    EL  ++  L+++   L+A+N+++
Sbjct: 126 NAIELDEENRELREELAELKQENEALEAENERL 158

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

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

 Score = 42.4 bits (100), Expect = 2e-04
 Identities = 48/214 (22%), Positives = 89/214 (41%), Gaps = 23/214 (10%)

Query: 31  PQPPPHPALLEEELEIQHAEIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIR 90
              P     L E LE    E+  L  + RR+      + +EL+ A  ++  +   I ++ 
Sbjct: 670 RSEPAELQRLRERLEGLKRELSSLQSELRRIENRLDELSQELSDASRKIGEIEKEIEQLE 729

Query: 91  AEQEVHVRDLVEKGLKLEADLRATEPLKKEAVQLRAEVQ----KLNNLRNELNG------ 140
            E+E     L E    L +  +  E +K E  +L A ++     L+ L   LN       
Sbjct: 730 QEEEKLKERLEELEEDLSSLEQEIENVKSELKELEARIEELEEDLHKLEEALNDLEARLS 789

Query: 141 --KVQTLQKDLAKLQADNQQIPLLRAEIDG----LHQELMHARAAVDYEKKANIELMEQR 194
             ++  +Q +L+KL+ +  +I     EI+     L  E  +    +   ++  I+L EQ 
Sbjct: 790 HSRIPEIQAELSKLEEEVSRIEARLREIEQKLNRLTLEKEYLEKEIQELQEQRIDLKEQI 849

Query: 195 QAMEK-------NLVSMAREVEKLRAELTNFDGR 221
           +++EK           +  E+E+L A L + + R
Sbjct: 850 KSIEKEIENLNGKKEELEEELEELEAALRDLESR 883

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|129694 TIGR00606, rad50, rad50

 Score = 42.7 bits (100), Expect = 2e-04
 Identities = 32/178 (17%), Positives = 76/178 (42%), Gaps = 9/178 (5%)

Query: 45  EIQHAEIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKG 104
             + + I     +   L      + R++   K ++     ++G I  E+E   +  +   
Sbjct: 733 PGRQSIIDLKEKEIPELRNKLQKVNRDIQRLKNDIEEQETLLGTIMPEEES-AKVCLTDV 791

Query: 105 LKLEADLRATEPLKKEAVQLRAEVQKLNNLRN--ELNGKVQTLQKDLAKLQADNQQIPLL 162
             +E      + ++++  Q  A++Q  +  R   ++N + Q  Q +L  +     +I L 
Sbjct: 792 TIMERFQMELKDVERKIAQQAAKLQGSDLDRTVQQVNQEKQEKQHELDTV---VSKIELN 848

Query: 163 RAEIDGLHQELMHARAAVDYEKKANIELME---QRQAMEKNLVSMAREVEKLRAELTN 217
           R  I    +++ H ++  +  K   +++     +RQ  E+ LV ++ EV+ L  E+ +
Sbjct: 849 RKLIQDQQEQIQHLKSKTNELKSEKLQIGTNLQRRQQFEEQLVELSTEVQSLIREIKD 906

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

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

 Score = 42.0 bits (99), Expect = 3e-04
 Identities = 38/170 (22%), Positives = 75/170 (44%), Gaps = 22/170 (12%)

Query: 69  QRELAAAKEELHRMNLVIGEIRAEQEVHVR--DLVEKGLKLEADLRATEP--LKKEAVQL 124
           +R+L   +E L R+  ++ E+  + +   R  +  E+  +L+A+LR  E   L     +L
Sbjct: 178 ERKLERTRENLDRLEDILNELERQLKSLERQAEKAERYKELKAELRELELALLVLRLEEL 237

Query: 125 RAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPL------------------LRAEI 166
           R E+++L     E   +++ L  +L +L+   +++ L                  L  EI
Sbjct: 238 REELEELQEELKEAEEELEELTAELQELEEKLEELRLEVSELEEEIEELQKELYALANEI 297

Query: 167 DGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAELT 216
             L Q+    R  +   ++   EL  Q + +E  L  +A E+ +L  +L 
Sbjct: 298 SRLEQQKQILRERLANLERQLEELEAQLEELESKLDELAEELAELEEKLE 347

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 = 41.2 bits (97), Expect = 4e-04
 Identities = 37/162 (22%), Positives = 66/162 (40%), Gaps = 10/162 (6%)

Query: 38  ALLEEELEIQHAEIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHV 97
              EE  E   A ++ L      L E+   ++ ELA  + EL  +   I  +    E   
Sbjct: 358 EAKEELEEKLSALLEELEELFEALREELAELEAELAEIRNELEELKREIESLEERLERLS 417

Query: 98  RDLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQ 157
             L +   +L+      E L+ E  +L  E+++L     EL  +++ L+++LA+LQ + Q
Sbjct: 418 ERLEDLKEELKELEAELEELQTELEELNEELEELEEQLEELRDRLKELERELAELQEELQ 477

Query: 158 QIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEK 199
           +          L +EL    A +D  +         R  +E 
Sbjct: 478 R----------LEKELSSLEARLDRLEAEQRASQGVRAVLEA 509

Length = 1163

>gnl|CDD|148614 pfam07106, TBPIP, Tat binding protein 1(TBP-1)-interacting protein (TBPIP)

 Score = 39.6 bits (93), Expect = 5e-04
 Identities = 26/97 (26%), Positives = 46/97 (47%), Gaps = 8/97 (8%)

Query: 117 LKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDL--AKLQADNQQIPLLRAEIDGLHQELM 174
           L  E  +LR EVQ L    + L  ++++L  DL   +LQ   ++I  L+ E+  + ++L 
Sbjct: 77  LDMEIEELREEVQLLKQDCSTLEIELKSLTSDLTTEELQ---EEIQELKKEVREIEEKLE 133

Query: 175 HARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKL 211
                    K    E ME+ +   K+L    ++ +KL
Sbjct: 134 SLEEGW---KPVTPEEMEKVKKEYKDLHKEWKKRKKL 167

This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences. 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. Length = 169

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

 Score = 40.8 bits (96), Expect = 6e-04
 Identities = 31/172 (18%), Positives = 66/172 (38%), Gaps = 2/172 (1%)

Query: 40   LEEELEIQHAEIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRD 99
            LEE++E    +I+ L  +   L E    ++ EL A   E   +   +  +R+E E    +
Sbjct: 843  LEEQIEELSEDIESLAAEIEELEELIEELESELEALLNERASLEEALALLRSELEELSEE 902

Query: 100  LVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQI 159
            L E   K     R  E L+++  QL   ++ L    + L  ++         L+      
Sbjct: 903  LRELESKRSELRRELEELREKLAQLELRLEGLEVRIDNLQERLSEEYSLT--LEEAEALE 960

Query: 160  PLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKL 211
              +  + +   + L      +      N+  +E+ + +++    +  + E L
Sbjct: 961  NKIEDDEEEARRRLKRLENKIKELGPVNLAAIEEYEELKERYDFLTAQKEDL 1012

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. 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|219791 pfam08317, Spc7, Spc7 kinetochore protein

 Score = 40.0 bits (94), Expect = 7e-04
 Identities = 23/118 (19%), Positives = 58/118 (49%), Gaps = 2/118 (1%)

Query: 103 KGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLL 162
           +GLK   +      +K++   L  ++  +N+++ +L  K+Q L++++A L+    ++ L 
Sbjct: 146 EGLKEGLEENLEG-MKRDEELLNKDLNLINSIKPKLRKKLQALKEEIASLRQLADELNLC 204

Query: 163 -RAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAELTNFD 219
              E++   QEL      +  ++K   EL ++ Q +   + ++  +  +L  E+   +
Sbjct: 205 DPLELEKARQELRSLSVKISEKRKQLEELQQELQELTIAIEALTNKKSELLEEIAEAE 262

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

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

 Score = 40.4 bits (95), Expect = 8e-04
 Identities = 38/171 (22%), Positives = 75/171 (43%), Gaps = 4/171 (2%)

Query: 49  AEIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLE 108
            EI+ L      L E    +++ LA  ++EL  +   + ++R E E   R +      L 
Sbjct: 677 REIEELEEKIEELEEKIAELEKALAELRKELEELEEELEQLRKELEELSRQISALRKDLA 736

Query: 109 ADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKV----QTLQKDLAKLQADNQQIPLLRA 164
                 E L++   QL  E+ +L     EL  ++    + L +  A+++    QI  L+ 
Sbjct: 737 RLEAEVEQLEERIAQLSKELTELEAEIEELEERLEEAEEELAEAEAEIEELEAQIEQLKE 796

Query: 165 EIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAEL 215
           E+  L + L   RA +    +    L E+ +++E+ + +  R +E L  ++
Sbjct: 797 ELKALREALDELRAELTLLNEEAANLRERLESLERRIAATERRLEDLEEQI 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|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common bacterial type

 Score = 40.4 bits (95), Expect = 0.001
 Identities = 36/190 (18%), Positives = 85/190 (44%), Gaps = 7/190 (3%)

Query: 38  ALLEEELEIQHAEIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHV 97
           A LEE+LE    E++ L  +   L  +   ++  L   +E+L  +   + ++  +     
Sbjct: 340 AELEEKLEELKEELESLEAELEELEAELEELESRLEELEEQLETLRSKVAQLELQIASLN 399

Query: 98  RDLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQAD-- 155
            ++     +LE      E L++E  +L  ++++      EL  +++ L+++L +LQ +  
Sbjct: 400 NEIERLEARLERLEDRRERLQQEIEELLKKLEEAE--LKELQAELEELEEELEELQEELE 457

Query: 156 --NQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRA 213
              + +  LR E++   Q L  A   +  + +A ++ +E+ Q   +      + + K ++
Sbjct: 458 RLEEALEELREELEEAEQALDAAERELA-QLQARLDSLERLQENLEGFSEGVKALLKNQS 516

Query: 214 ELTNFDGRPW 223
            L+   G   
Sbjct: 517 GLSGILGVLS 526

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

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

 Score = 40.1 bits (94), Expect = 0.001
 Identities = 40/182 (21%), Positives = 79/182 (43%), Gaps = 13/182 (7%)

Query: 40  LEEELEIQHAEIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRD 99
           L++  EIQ  + +  L      +E+R+A   EL   KE L  +   + EI + +      
Sbjct: 215 LKKLEEIQEEQEEEELEQEIEALEERLA---ELEEEKERLEELKARLLEIESLE------ 265

Query: 100 LVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQI 159
            +E     E +LR  E L +E  +    +++L     EL  +++ L+  L +L+   +++
Sbjct: 266 -LEALKIREEELRELERLLEELEEKIERLEELEREIEELEEELEGLRALLEELEELLEKL 324

Query: 160 PLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAELTNFD 219
             L   ++ L ++L          ++   E  E  + +E+ L  +   +E+L  EL    
Sbjct: 325 KSLEERLEKLEEKL---EKLESELEELAEEKNELAKLLEERLKELEERLEELEKELEKAL 381

Query: 220 GR 221
            R
Sbjct: 382 ER 383

Length = 908

>gnl|CDD|217817 pfam03961, DUF342, Protein of unknown function (DUF342)

 Score = 39.9 bits (94), Expect = 0.001
 Identities = 31/135 (22%), Positives = 61/135 (45%), Gaps = 23/135 (17%)

Query: 83  NLVIGEIRAEQEVHVRDL-VEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGK 141
            ++ G I+A +EV  ++L    G K E ++    P      +L+ E+++L     EL  +
Sbjct: 296 KIIGGNIKAGKEVKAKELGSPAGTKTEIEVGVDFP------ELKEELKELEEELKELEEE 349

Query: 142 VQTLQKDLAKLQAD--NQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEK 199
           ++ ++K L KL      Q  P  R +++ L +                 +L E+ + +E+
Sbjct: 350 LEKIKKLLKKLPKKARGQLPPEKREQLEKLLETK--------------EKLSEELEELEE 395

Query: 200 NLVSMAREVEKLRAE 214
            L  +  E+E L +E
Sbjct: 396 ELKELKEELESLYSE 410

This family of bacterial proteins has no known function. The proteins are in the region of 500-600 amino acid residues in length. Length = 450

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

 Score = 39.6 bits (93), Expect = 0.001
 Identities = 32/164 (19%), Positives = 61/164 (37%), Gaps = 39/164 (23%)

Query: 60  RLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLV-------EKGLKLEADL- 111
            L E+   ++ +     +EL  +N +  ++R  ++    +L        E       +L 
Sbjct: 148 GLDENLEGLKEDYKLLMKELELLNSIKPKLRDRKDALEEELRQLKQLEDELEDCDPTELD 207

Query: 112 RATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQ 171
           RA E LKK   ++  +V+KL      L  ++Q L+  +  L     +   L  EI     
Sbjct: 208 RAKEKLKKLLQEIMIKVKKLEE----LEEELQELESKIEDL---TNKKSELNTEI----- 255

Query: 172 ELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAEL 215
                               E  + +E+      +E+EKL+ +L
Sbjct: 256 -------------------AEAEKKLEQCRGFTFKEIEKLKEQL 280

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

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

 Score = 39.3 bits (92), Expect = 0.002
 Identities = 42/193 (21%), Positives = 84/193 (43%), Gaps = 25/193 (12%)

Query: 45  EIQHAEIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVE-- 102
           E +  E   LL +   L   + A++R+LA+ +EEL ++   I E+    E   + L E  
Sbjct: 219 EKREYEGYELLKEKEALERQKEAIERQLASLEEELEKLTEEISELEKRLEEIEQLLEELN 278

Query: 103 ----------------KGLKLEADL----RATEPLKKEAVQLRAEVQKLNNLRNELNGKV 142
                           K  +LEA++    R+    ++E       + KL    ++L  ++
Sbjct: 279 KKIKDLGEEEQLRVKEKIGELEAEIASLERSIAEKERELEDAEERLAKLEAEIDKLLAEI 338

Query: 143 QTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLV 202
           + L++++ + +    +   L  E   L +EL   RA ++   K   E  ++ +   + L 
Sbjct: 339 EELEREIEEERKRRDK---LTEEYAELKEELEDLRAELEEVDKEFAETRDELKDYREKLE 395

Query: 203 SMAREVEKLRAEL 215
            + RE+ +L+ EL
Sbjct: 396 KLKREINELKREL 408

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

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

 Score = 39.4 bits (92), Expect = 0.002
 Identities = 43/194 (22%), Positives = 75/194 (38%), Gaps = 21/194 (10%)

Query: 40  LEEELEIQHAEIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRD 99
           LEEEL       + L  +    +E    +  EL   KE+L    L       E+   + D
Sbjct: 513 LEEELIELLELEEALKEELEEKLEKLENLLEELEELKEKLQLQQL------KEELRQLED 566

Query: 100 LVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADN--- 156
            +++  +L  +LR     K+E  +LR  +++L     EL  ++  L++ L  L+      
Sbjct: 567 RLQELKELLEELRLLRTRKEELEELRERLKELKKKLKELEERLSQLEELLQSLELSEAEN 626

Query: 157 ---QQIPLLRAEIDGLHQELMHARAAVDY---------EKKANIELMEQRQAMEKNLVSM 204
              +    L +E++ L+ +                   E +A I    QR   E+ L   
Sbjct: 627 ELEEAEEELESELEKLNLQAELEELLQAALEELEEKVEELEAEIRRELQRIENEEQLEEK 686

Query: 205 AREVEKLRAELTNF 218
             E+E+L  EL   
Sbjct: 687 LEELEQLEEELEQL 700

Length = 908

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

 Score = 38.8 bits (90), Expect = 0.002
 Identities = 29/158 (18%), Positives = 73/158 (46%), Gaps = 13/158 (8%)

Query: 63  EDRMAMQRELAAAKEEL-HRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRATEPLKKEA 121
           ++    ++EL    E+  H +N  I  ++ + + ++ + +++ +K+   ++      +  
Sbjct: 249 DNYEPSEQELKLGFEKFVHIINTDIANLKTQND-NLYEKIQEAMKISQKIKTLREKWRA- 306

Query: 122 VQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQAD----NQQIPLLRAEIDGLHQELMHAR 177
             L+++  K  N  N +  K Q     L KL+++     ++I  L++ ID LH++L    
Sbjct: 307 --LKSDSNKYENYVNAMKQKSQEWPGKLEKLKSEIELKEEEIKALQSNIDELHKQLRKQG 364

Query: 178 AAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAEL 215
            + +  +  N E    R+ + + L  +  + +KL   +
Sbjct: 365 ISTEQFELMNQE----REKLTRELDKINIQSDKLTKSV 398

Length = 622

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

 Score = 38.5 bits (90), Expect = 0.003
 Identities = 36/155 (23%), Positives = 73/155 (47%), Gaps = 10/155 (6%)

Query: 69  QRELAAAKEELHRMNLVIGEIRAEQEV--HVRDLVEKGLKLEADLRATEPLKKEAVQLRA 126
           +R+L   +E L R+  ++ E+  + E      +  E+  +L+A+LR         ++L  
Sbjct: 178 ERKLERTEENLERLEDLLEELEKQLEKLERQAEKAERYQELKAELRE--------LELAL 229

Query: 127 EVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKA 186
            + KL  LR EL    + L +   +L+   +++     EI+ L  EL   R  ++  ++ 
Sbjct: 230 LLAKLKELRKELEELEEELSRLEEELEELQEELEEAEKEIEELKSELEELREELEELQEE 289

Query: 187 NIELMEQRQAMEKNLVSMAREVEKLRAELTNFDGR 221
            +EL E+ + +E  +  +   +E+L  EL   + R
Sbjct: 290 LLELKEEIEELEGEISLLRERLEELENELEELEER 324

Length = 1163

>gnl|CDD|218636 pfam05557, MAD, Mitotic checkpoint protein

 Score = 38.8 bits (90), Expect = 0.003
 Identities = 37/187 (19%), Positives = 71/187 (37%), Gaps = 21/187 (11%)

Query: 40  LEEELEIQHAEIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRD 99
           L E  E +      L    + L E     + E A A+EE   +   +          ++ 
Sbjct: 98  LAENYERELDRNLELEVRLKALEELEKKAENEAAEAEEEAKLLKDKL------DAESLKL 151

Query: 100 LVEKGLKLEADLRATEPLKKEAVQLRAEVQ----KLNNLRNELNGKVQTLQKDLAKLQAD 155
             EK  +L+    +   +K +  +++   Q    +L  L +EL    + L++   +L   
Sbjct: 152 QNEKEDQLKEAKESISRIKNDLSEMQCRAQNADTELKLLESELEELREQLEECQKELAEA 211

Query: 156 NQQIPLLRAE----------IDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMA 205
            +++  L +E          I  L +EL       +  K    +L+ Q   +E+ L ++ 
Sbjct: 212 EKKLQSLTSEQASSADNSVKIKHLEEELKRYEQDAEVVKSMKEQLL-QIPELERELAALR 270

Query: 206 REVEKLR 212
            E  KLR
Sbjct: 271 EENRKLR 277

This family consists of several eukaryotic mitotic checkpoint (Mitotic arrest deficient or MAD) proteins. 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 yeast and higher eukaryotes. In S.cerevisiae, the existence of a Mad1-dependent complex containing Mad2, Mad3, Bub3 and Cdc20 has been demonstrated. Length = 722

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	276
TIGR02169	1164	SMC_prok_A chromosome segregation protein SMC, pri	97.74
TIGR02169	1164	SMC_prok_A chromosome segregation protein SMC, pri	97.67
PF00038	312	Filament: Intermediate filament protein; InterPro:	97.59
PRK09039	343	hypothetical protein; Validated	97.58
PRK11637	428	AmiB activator; Provisional	97.58
PF09726	697	Macoilin: Transmembrane protein; InterPro: IPR0191	97.35
PF07888	546	CALCOCO1: Calcium binding and coiled-coil domain (	97.19
PF05701	522	WEMBL: Weak chloroplast movement under blue light;	97.16
PRK11637	428	AmiB activator; Provisional	97.09
PF08317	325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	97.09
PF07888	546	CALCOCO1: Calcium binding and coiled-coil domain (	97.05
PF06818	202	Fez1: Fez1; InterPro: IPR009638 This family repres	97.03
PRK02224	880	chromosome segregation protein; Provisional	96.97
COG1579	239	Zn-ribbon protein, possibly nucleic acid-binding [	96.96
PF08317	325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	96.87
PF09726	697	Macoilin: Transmembrane protein; InterPro: IPR0191	96.8
PF12325	120	TMF_TATA_bd: TATA element modulatory factor 1 TATA	96.73
COG1196	1163	Smc Chromosome segregation ATPases [Cell division	96.66
COG4372	499	Uncharacterized protein conserved in bacteria with	96.65
TIGR01000	457	bacteriocin_acc bacteriocin secretion accessory pr	96.6
KOG0161	1930	consensus Myosin class II heavy chain [Cytoskeleto	96.58
PRK04863	1486	mukB cell division protein MukB; Provisional	96.58
TIGR01843	423	type_I_hlyD type I secretion membrane fusion prote	96.56
PRK02224	880	chromosome segregation protein; Provisional	96.56
PF07111	739	HCR: Alpha helical coiled-coil rod protein (HCR);	96.56
PRK03918	880	chromosome segregation protein; Provisional	96.56
PF14662	193	CCDC155: Coiled-coil region of CCDC155	96.53
PF10473	140	CENP-F_leu_zip: Leucine-rich repeats of kinetochor	96.49
TIGR00606	1311	rad50 rad50. This family is based on the phylogeno	96.48
PF07926	132	TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro:	96.41
COG1196	1163	Smc Chromosome segregation ATPases [Cell division	96.4
PRK03918	880	chromosome segregation protein; Provisional	96.33
TIGR00606	1311	rad50 rad50. This family is based on the phylogeno	96.3
PF10174	775	Cast: RIM-binding protein of the cytomatrix active	96.23
PF05701	522	WEMBL: Weak chloroplast movement under blue light;	96.19
KOG0977	546	consensus Nuclear envelope protein lamin, intermed	96.19
PF00038	312	Filament: Intermediate filament protein; InterPro:	96.14
KOG2129	552	consensus Uncharacterized conserved protein H4 [Fu	96.07
KOG0995	581	consensus Centromere-associated protein HEC1 [Cell	96.03
PF06160	560	EzrA: Septation ring formation regulator, EzrA ; I	95.96
PRK04778	569	septation ring formation regulator EzrA; Provision	95.95
PF07798	177	DUF1640: Protein of unknown function (DUF1640); In	95.85
PF13514	1111	AAA_27: AAA domain	95.81
PF04156	191	IncA: IncA protein; InterPro: IPR007285 Chlamydia	95.81
PHA02562	562	46 endonuclease subunit; Provisional	95.75
TIGR01843	423	type_I_hlyD type I secretion membrane fusion prote	95.72
PHA02562	562	46 endonuclease subunit; Provisional	95.71
TIGR03007	498	pepcterm_ChnLen polysaccharide chain length determ	95.62
COG1579	239	Zn-ribbon protein, possibly nucleic acid-binding [	95.6
COG4942	420	Membrane-bound metallopeptidase [Cell division and	95.59
PRK09039	343	hypothetical protein; Validated	95.51
smart00787	312	Spc7 Spc7 kinetochore protein. This domain is foun	95.51
KOG0161	1930	consensus Myosin class II heavy chain [Cytoskeleto	95.39
KOG4674	1822	consensus Uncharacterized conserved coiled-coil pr	95.33
PF15070	617	GOLGA2L5: Putative golgin subfamily A member 2-lik	95.3
PF12325	120	TMF_TATA_bd: TATA element modulatory factor 1 TATA	95.29
smart00787	312	Spc7 Spc7 kinetochore protein. This domain is foun	95.25
PF07798	177	DUF1640: Protein of unknown function (DUF1640); In	95.2
PF10174	775	Cast: RIM-binding protein of the cytomatrix active	95.19
PF08614	194	ATG16: Autophagy protein 16 (ATG16); InterPro: IPR	95.11
PF04111	314	APG6: Autophagy protein Apg6; InterPro: IPR007243	95.06
PF12128	1201	DUF3584: Protein of unknown function (DUF3584); In	95.04
KOG4807	593	consensus F-actin binding protein, regulates actin	94.93
KOG0933	1174	consensus Structural maintenance of chromosome pro	94.89
KOG1853	333	consensus LIS1-interacting protein NUDE [Cytoskele	94.86
PF09787	511	Golgin_A5: Golgin subfamily A member 5; InterPro:	94.84
PF11932	251	DUF3450: Protein of unknown function (DUF3450); In	94.74
PF04849	306	HAP1_N: HAP1 N-terminal conserved region; InterPro	94.68
PF11932	251	DUF3450: Protein of unknown function (DUF3450); In	94.67
PF12128	1201	DUF3584: Protein of unknown function (DUF3584); In	94.5
KOG0976	1265	consensus Rho/Rac1-interacting serine/threonine ki	94.46
TIGR02680	1353	conserved hypothetical protein TIGR02680. Members	94.42
PF06818	202	Fez1: Fez1; InterPro: IPR009638 This family repres	94.39
PF05622	713	HOOK: HOOK protein; InterPro: IPR008636 This famil	94.36
PRK09841	726	cryptic autophosphorylating protein tyrosine kinas	94.33
KOG0980	980	consensus Actin-binding protein SLA2/Huntingtin-in	94.3
PF08826	61	DMPK_coil: DMPK coiled coil domain like; InterPro:	94.26
PF15619	194	Lebercilin: Ciliary protein causing Leber congenit	94.14
PF09789	319	DUF2353: Uncharacterized coiled-coil protein (DUF2	93.99
KOG0964	1200	consensus Structural maintenance of chromosome pro	93.96
PRK04863	1486	mukB cell division protein MukB; Provisional	93.93
TIGR02680	1353	conserved hypothetical protein TIGR02680. Members	93.92
COG1340	294	Uncharacterized archaeal coiled-coil protein [Func	93.84
PF10473	140	CENP-F_leu_zip: Leucine-rich repeats of kinetochor	93.84
KOG0996	1293	consensus Structural maintenance of chromosome pro	93.82
KOG0250	1074	consensus DNA repair protein RAD18 (SMC family pro	93.8
KOG0996	1293	consensus Structural maintenance of chromosome pro	93.67
KOG0250	1074	consensus DNA repair protein RAD18 (SMC family pro	93.64
PRK10884	206	SH3 domain-containing protein; Provisional	93.5
TIGR01005	754	eps_transp_fam exopolysaccharide transport protein	93.42
PF13851	201	GAS: Growth-arrest specific micro-tubule binding	93.37
PF14197	69	Cep57_CLD_2: Centrosome localisation domain of PPC	93.36
PF10186	302	Atg14: UV radiation resistance protein and autopha	93.34
PF08647	96	BRE1: BRE1 E3 ubiquitin ligase; InterPro: IPR01395	93.3
COG4372	499	Uncharacterized protein conserved in bacteria with	93.27
KOG4603	201	consensus TBP-1 interacting protein [Signal transd	93.27
PF14662	193	CCDC155: Coiled-coil region of CCDC155	93.17
KOG1029	1118	consensus Endocytic adaptor protein intersectin [S	93.15
PF13514	1111	AAA_27: AAA domain	93.15
PF12718	143	Tropomyosin_1: Tropomyosin like; InterPro: IPR0005	93.08
PF05667	594	DUF812: Protein of unknown function (DUF812); Inte	93.07
COG0419	908	SbcC ATPase involved in DNA repair [DNA replicatio	92.94
PF11559	151	ADIP: Afadin- and alpha -actinin-Binding; InterPro	92.88
KOG0612	1317	consensus Rho-associated, coiled-coil containing p	92.86
cd07651	236	F-BAR_PombeCdc15_like The F-BAR (FES-CIP4 Homology	92.68
KOG0995	581	consensus Centromere-associated protein HEC1 [Cell	92.46
COG2433	652	Uncharacterized conserved protein [Function unknow	92.31
KOG1029	1118	consensus Endocytic adaptor protein intersectin [S	92.27
COG0419	908	SbcC ATPase involved in DNA repair [DNA replicatio	92.25
PF13805	271	Pil1: Eisosome component PIL1; PDB: 3PLT_B.	92.24
KOG4673	961	consensus Transcription factor TMF, TATA element m	92.14
KOG4674	1822	consensus Uncharacterized conserved coiled-coil pr	92.13
PF04156	191	IncA: IncA protein; InterPro: IPR007285 Chlamydia	92.08
PF15070	617	GOLGA2L5: Putative golgin subfamily A member 2-lik	92.07
PF05557	722	MAD: Mitotic checkpoint protein; InterPro: IPR0086	92.06
KOG0971	1243	consensus Microtubule-associated protein dynactin	92.0
PF15035	182	Rootletin: Ciliary rootlet component, centrosome c	91.97
PF05622	713	HOOK: HOOK protein; InterPro: IPR008636 This famil	91.95
PF09486	158	HrpB7: Bacterial type III secretion protein (HrpB7	91.9
PRK01156	895	chromosome segregation protein; Provisional	91.74
KOG0612	1317	consensus Rho-associated, coiled-coil containing p	91.72
TIGR01005	754	eps_transp_fam exopolysaccharide transport protein	91.72
COG5185	622	HEC1 Protein involved in chromosome segregation, i	91.58
PF07926	132	TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro:	91.51
PF15619	194	Lebercilin: Ciliary protein causing Leber congenit	91.5
KOG0933	1174	consensus Structural maintenance of chromosome pro	91.43
PF08826	61	DMPK_coil: DMPK coiled coil domain like; InterPro:	91.38
PF10186	302	Atg14: UV radiation resistance protein and autopha	91.35
KOG0993	542	consensus Rab5 GTPase effector Rabaptin-5 [Intrace	91.2
PF10234	267	Cluap1: Clusterin-associated protein-1; InterPro:	91.16
KOG1962	216	consensus B-cell receptor-associated protein and r	91.13
PRK11519	719	tyrosine kinase; Provisional	91.08
TIGR03007	498	pepcterm_ChnLen polysaccharide chain length determ	91.0
KOG0249	916	consensus LAR-interacting protein and related prot	91.0
PRK11546	143	zraP zinc resistance protein; Provisional	90.94
PRK10361	475	DNA recombination protein RmuC; Provisional	90.87
PF10498	359	IFT57: Intra-flagellar transport protein 57 ; Inte	90.68
TIGR03017	444	EpsF chain length determinant protein EpsF. Sequen	90.53
PRK10246	1047	exonuclease subunit SbcC; Provisional	90.5
PF05667	594	DUF812: Protein of unknown function (DUF812); Inte	90.45
PLN03229	762	acetyl-coenzyme A carboxylase carboxyl transferase	90.42
PF10481	307	CENP-F_N: Cenp-F N-terminal domain; InterPro: IPR0	90.4
cd00890	129	Prefoldin Prefoldin is a hexameric molecular chape	90.06
PF14197	69	Cep57_CLD_2: Centrosome localisation domain of PPC	89.96
PF10168	717	Nup88: Nuclear pore component; InterPro: IPR019321	89.88
COG4942	420	Membrane-bound metallopeptidase [Cell division and	89.82
PF14362	301	DUF4407: Domain of unknown function (DUF4407)	89.81
PRK12704	520	phosphodiesterase; Provisional	89.77
PRK01156	895	chromosome segregation protein; Provisional	89.44
PF09728	309	Taxilin: Myosin-like coiled-coil protein; InterPro	89.33
PF09787	511	Golgin_A5: Golgin subfamily A member 5; InterPro:	89.27
PF05557	722	MAD: Mitotic checkpoint protein; InterPro: IPR0086	89.19
PF10498	359	IFT57: Intra-flagellar transport protein 57 ; Inte	89.14
COG3206	458	GumC Uncharacterized protein involved in exopolysa	89.07
KOG4673	961	consensus Transcription factor TMF, TATA element m	89.03
PF13851	201	GAS: Growth-arrest specific micro-tubule binding	89.02
PF08614	194	ATG16: Autophagy protein 16 (ATG16); InterPro: IPR	88.92
PF10146	230	zf-C4H2: Zinc finger-containing protein ; InterPro	88.9
PF05483	786	SCP-1: Synaptonemal complex protein 1 (SCP-1); Int	88.81
PF04111	314	APG6: Autophagy protein Apg6; InterPro: IPR007243	88.8
TIGR03017	444	EpsF chain length determinant protein EpsF. Sequen	88.77
TIGR03319	514	YmdA_YtgF conserved hypothetical protein YmdA/YtgF	88.74
TIGR01010	362	BexC_CtrB_KpsE polysaccharide export inner-membran	88.66
PF09730	717	BicD: Microtubule-associated protein Bicaudal-D; I	88.59
PF02050	123	FliJ: Flagellar FliJ protein; InterPro: IPR012823	88.56
KOG0921	1282	consensus Dosage compensation complex, subunit MLE	88.47
KOG0977	546	consensus Nuclear envelope protein lamin, intermed	88.46
PF05483	786	SCP-1: Synaptonemal complex protein 1 (SCP-1); Int	88.41
PRK03947	140	prefoldin subunit alpha; Reviewed	88.06
TIGR03794	421	NHPM_micro_HlyD NHPM bacteriocin system secretion	88.04
KOG3478	120	consensus Prefoldin subunit 6, KE2 family [Posttra	87.93
PF08776	40	VASP_tetra: VASP tetramerisation domain; InterPro:	87.91
TIGR03185	650	DNA_S_dndD DNA sulfur modification protein DndD. T	87.79
PF07794	790	DUF1633: Protein of unknown function (DUF1633); In	87.75
KOG0979	1072	consensus Structural maintenance of chromosome pro	87.69
KOG0288	459	consensus WD40 repeat protein TipD [General functi	87.63
COG3524	372	KpsE Capsule polysaccharide export protein [Cell e	87.55
TIGR01000	457	bacteriocin_acc bacteriocin secretion accessory pr	87.33
KOG2391	365	consensus Vacuolar sorting protein/ubiquitin recep	87.31
KOG0243	1041	consensus Kinesin-like protein [Cytoskeleton]	87.28
PF09730	717	BicD: Microtubule-associated protein Bicaudal-D; I	87.25
PRK10884	206	SH3 domain-containing protein; Provisional	87.19
PF09731	582	Mitofilin: Mitochondrial inner membrane protein; I	86.93
KOG1937	521	consensus Uncharacterized conserved protein [Funct	86.89
PF07106	169	TBPIP: Tat binding protein 1(TBP-1)-interacting pr	86.58
PRK10246	1047	exonuclease subunit SbcC; Provisional	86.55
KOG0982	502	consensus Centrosomal protein Nuf [Cell cycle cont	86.52
PF05478	806	Prominin: Prominin; InterPro: IPR008795 The promin	86.48
TIGR02971	327	heterocyst_DevB ABC exporter membrane fusion prote	86.43
COG2433	652	Uncharacterized conserved protein [Function unknow	86.43
KOG0976	1265	consensus Rho/Rac1-interacting serine/threonine ki	86.42
KOG0963	629	consensus Transcription factor/CCAAT displacement	86.4
PF07106	169	TBPIP: Tat binding protein 1(TBP-1)-interacting pr	86.32
PF06120	301	Phage_HK97_TLTM: Tail length tape measure protein;	86.24
PF10481	307	CENP-F_N: Cenp-F N-terminal domain; InterPro: IPR0	86.2
PRK04778	569	septation ring formation regulator EzrA; Provision	85.93
PF14735	238	HAUS4: HAUS augmin-like complex subunit 4	85.92
PF04912	388	Dynamitin: Dynamitin ; InterPro: IPR006996 Dynamit	85.85
PF08172	248	CASP_C: CASP C terminal; InterPro: IPR012955 This	85.84
PF12592	57	DUF3763: Protein of unknown function (DUF3763); In	85.83
PF02403	108	Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal dom	85.74
KOG2264	907	consensus Exostosin EXT1L [Signal transduction mec	85.49
PF15294	278	Leu_zip: Leucine zipper	85.47
KOG0994	1758	consensus Extracellular matrix glycoprotein Lamini	85.34
PRK00106	535	hypothetical protein; Provisional	85.23
KOG0249	916	consensus LAR-interacting protein and related prot	85.15
KOG3478	120	consensus Prefoldin subunit 6, KE2 family [Posttra	85.12
PF05837	106	CENP-H: Centromere protein H (CENP-H); InterPro: I	84.99
PF06008	264	Laminin_I: Laminin Domain I; InterPro: IPR009254 L	84.94
PF04728	56	LPP: Lipoprotein leucine-zipper; InterPro: IPR0068	84.93
KOG0999	772	consensus Microtubule-associated protein Bicaudal-	84.84
KOG4403	575	consensus Cell surface glycoprotein STIM, contains	84.77
PF06785	401	UPF0242: Uncharacterised protein family (UPF0242);	84.38
TIGR03752	472	conj_TIGR03752 integrating conjugative element pro	84.38
PF09304	107	Cortex-I_coil: Cortexillin I, coiled coil; InterPr	84.32
PF01920	106	Prefoldin_2: Prefoldin subunit; InterPro: IPR00277	84.1
PF12329	74	TMF_DNA_bd: TATA element modulatory factor 1 DNA b	83.88
PF02050	123	FliJ: Flagellar FliJ protein; InterPro: IPR012823	83.84
PRK12704	520	phosphodiesterase; Provisional	83.79
PRK10476	346	multidrug resistance protein MdtN; Provisional	83.73
COG1382	119	GimC Prefoldin, chaperonin cofactor [Posttranslati	83.55
TIGR02231	525	conserved hypothetical protein. This family consis	83.52
cd07653	251	F-BAR_CIP4-like The F-BAR (FES-CIP4 Homology and B	83.46
PRK06569	155	F0F1 ATP synthase subunit B'; Validated	83.44
PRK09343	121	prefoldin subunit beta; Provisional	83.37
PF00769	246	ERM: Ezrin/radixin/moesin family; InterPro: IPR011	83.37
PF10212	518	TTKRSYEDQ: Predicted coiled-coil domain-containing	83.17
TIGR00634	563	recN DNA repair protein RecN. All proteins in this	83.09
KOG0994	1758	consensus Extracellular matrix glycoprotein Lamini	83.01
PF08581	79	Tup_N: Tup N-terminal; InterPro: IPR013890 The N-t	82.74
PF12718	143	Tropomyosin_1: Tropomyosin like; InterPro: IPR0005	82.6
PF07889	126	DUF1664: Protein of unknown function (DUF1664); In	82.53
TIGR03319	514	YmdA_YtgF conserved hypothetical protein YmdA/YtgF	82.49
PF06785	401	UPF0242: Uncharacterised protein family (UPF0242);	82.48
PLN03229	762	acetyl-coenzyme A carboxylase carboxyl transferase	82.45
PF03962	188	Mnd1: Mnd1 family; InterPro: IPR005647 This family	82.24
PF05911	769	DUF869: Plant protein of unknown function (DUF869)	82.17
PF08581	79	Tup_N: Tup N-terminal; InterPro: IPR013890 The N-t	82.07
TIGR00634	563	recN DNA repair protein RecN. All proteins in this	81.98
PRK13453	173	F0F1 ATP synthase subunit B; Provisional	81.93
PRK10361	475	DNA recombination protein RmuC; Provisional	81.9
PF08912	69	Rho_Binding: Rho Binding; InterPro: IPR015008 Rho	81.79
smart00806	426	AIP3 Actin interacting protein 3. Aip3p/Bud6p is a	81.48
TIGR02231	525	conserved hypothetical protein. This family consis	81.27
PF13094	160	CENP-Q: CENP-Q, a CENPA-CAD centromere complex sub	81.22
TIGR02473	141	flagell_FliJ flagellar export protein FliJ. Member	81.19
TIGR00414	418	serS seryl-tRNA synthetase. This model represents	81.1
COG1842	225	PspA Phage shock protein A (IM30), suppresses sigm	81.05
KOG0999	772	consensus Microtubule-associated protein Bicaudal-	80.84
PF05266	190	DUF724: Protein of unknown function (DUF724); Inte	80.83
PF11180	192	DUF2968: Protein of unknown function (DUF2968); In	80.6
KOG0971	1243	consensus Microtubule-associated protein dynactin	80.54
PF07139	302	DUF1387: Protein of unknown function (DUF1387); In	80.37
KOG0018	1141	consensus Structural maintenance of chromosome pro	80.21
cd00584	129	Prefoldin_alpha Prefoldin alpha subunit; Prefoldin	80.07

>TIGR02169 SMC_prok_A chromosome segregation protein SMC, primarily archaeal type

Probab=97.74  E-value=0.0064  Score=64.09  Aligned_cols=24  Identities=21%  Similarity=0.361  Sum_probs=10.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhh
Q 039268          194 RQAMEKNLVSMAREVEKLRAELTN  217 (276)
Q Consensus       194 ~qaMEknlisMarEvEKLRaElan  217 (276)
                      ...+.+++-.+..++.+++.++..
T Consensus       471 l~~~~~~l~~l~~~l~~l~~~~~~  494 (1164)
T TIGR02169       471 LYDLKEEYDRVEKELSKLQRELAE  494 (1164)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333444444444444444444443

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

>TIGR02169 SMC_prok_A chromosome segregation protein SMC, primarily archaeal type

Probab=97.67  E-value=0.0094  Score=62.86  Aligned_cols=27  Identities=30%  Similarity=0.470  Sum_probs=12.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039268          188 IELMEQRQAMEKNLVSMAREVEKLRAE  214 (276)
Q Consensus       188 ~e~~Eq~qaMEknlisMarEvEKLRaE  214 (276)
                      ..........++.+..+-.++..|...
T Consensus       472 ~~~~~~l~~l~~~l~~l~~~~~~l~~~  498 (1164)
T TIGR02169       472 YDLKEEYDRVEKELSKLQRELAEAEAQ  498 (1164)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333444444444454444444444443

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.

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

Probab=97.59  E-value=0.021  Score=52.77  Aligned_cols=115  Identities=20%  Similarity=0.289  Sum_probs=88.0

Q ss_pred             hHHHHHHHHHHHhhhcccc-ccchhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhhhhhhhchhhH
Q 039268           40 LEEELEIQHAEIQRLLGDN-RRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRATEPLK  118 (276)
Q Consensus        40 LEe~l~~Q~~EiqrLl~dN-qRLaatHvaLrqeLaaaq~Elqrl~~~~~~i~ae~e~q~R~l~ek~~KmEAelra~e~lk  118 (276)
                      ||..=..-..+|..|.... .........+..+|..+.+.|..+....+.+..+.+.-..++-+=-.|++.+......+.
T Consensus        23 LE~~N~~Le~~i~~~~~~~~~~~~~~~~~ye~el~~lr~~id~~~~eka~l~~e~~~l~~e~~~~r~k~e~e~~~~~~le  102 (312)
T PF00038_consen   23 LEQENKRLESEIEELREKKGEEVSRIKEMYEEELRELRRQIDDLSKEKARLELEIDNLKEELEDLRRKYEEELAERKDLE  102 (312)
T ss_dssp             HHHHHHHHHHHHHH---------HHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhhhhHHHHHHHHhcccccCcccccchhhHHHHhHHhhhhHHHHhhHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333334444444442 223345667888888888888888888888888888888888888899999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 039268          119 KEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQA  154 (276)
Q Consensus       119 ~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~a  154 (276)
                      .|+..++.++......|-+|-.+++.+..||.-+..
T Consensus       103 ~el~~lrk~ld~~~~~r~~le~~i~~L~eEl~fl~~  138 (312)
T PF00038_consen  103 EELESLRKDLDEETLARVDLENQIQSLKEELEFLKQ  138 (312)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhhhhhhhhhhhhhHhHHHHHHHHHHHHHHHHHh
Confidence            999999999999999999999999999999766553

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 ....

>PRK09039 hypothetical protein; Validated

Probab=97.58  E-value=0.0085  Score=57.67  Aligned_cols=147  Identities=24%  Similarity=0.321  Sum_probs=92.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhHH---HHHHHHHHhhhhhhhhhhhchhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039268           66 MAMQRELAAAKEELHRMNLVIGEIRAEQE---VHVRDLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKV  142 (276)
Q Consensus        66 vaLrqeLaaaq~Elqrl~~~~~~i~ae~e---~q~R~l~ek~~KmEAelra~e~lk~El~q~raE~q~L~~~RqeL~~qv  142 (276)
                      .-|.++|...++||..|...|.++-.--.   ...-.+=+++..+.+++.+.+..|.+|.....   .+.....++.+++
T Consensus        42 ~fLs~~i~~~~~eL~~L~~qIa~L~e~L~le~~~~~~l~~~l~~l~~~l~~a~~~r~~Le~~~~---~~~~~~~~~~~~~  118 (343)
T PRK09039         42 FFLSREISGKDSALDRLNSQIAELADLLSLERQGNQDLQDSVANLRASLSAAEAERSRLQALLA---ELAGAGAAAEGRA  118 (343)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHh---hhhhhcchHHHHH
Confidence            45666777777777777666665432222   22233334444555555555555544443322   1122223444444


Q ss_pred             HHHHHHHHHHH----hhhcchhHHHHHHHHHHHHHHHHHhhhhhHHhhhHHHHHHHHHHHHHHHHH----HHHHHHHHHH
Q 039268          143 QTLQKDLAKLQ----ADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSM----AREVEKLRAE  214 (276)
Q Consensus       143 q~l~~eL~r~~----ad~qqipal~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~qaMEknlisM----arEvEKLRaE  214 (276)
                      ..+..+|...+    ....+|-.|+++|++||..|..+-++++.-+....+.-.+...+++.|-..    +.|++++|.+
T Consensus       119 ~~l~~~L~~~k~~~se~~~~V~~L~~qI~aLr~Qla~le~~L~~ae~~~~~~~~~i~~L~~~L~~a~~~~~~~l~~~~~~  198 (343)
T PRK09039        119 GELAQELDSEKQVSARALAQVELLNQQIAALRRQLAALEAALDASEKRDRESQAKIADLGRRLNVALAQRVQELNRYRSE  198 (343)
T ss_pred             HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHH
Confidence            44444444333    345578889999999999999999999999998899999999999888766    4567888877


Q ss_pred             h
Q 039268          215 L  215 (276)
Q Consensus       215 l  215 (276)
                      +
T Consensus       199 ~  199 (343)
T PRK09039        199 F  199 (343)
T ss_pred             H
Confidence            7

>PRK11637 AmiB activator; Provisional

Probab=97.58  E-value=0.049  Score=53.19  Aligned_cols=80  Identities=11%  Similarity=0.152  Sum_probs=44.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHHhhhHHHHHHHHHHHHHHHHHHHH
Q 039268          128 VQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMARE  207 (276)
Q Consensus       128 ~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~qaMEknlisMarE  207 (276)
                      ++.+...+++|..+.+.+..++..+....+.+-.-+++|+..+.|.+...+.++-+++.....+.+++.-++.|-..-.+
T Consensus       172 l~~l~~~~~~L~~~k~~le~~~~~l~~~~~e~~~~k~~L~~~k~e~~~~l~~L~~~~~~~~~~l~~l~~~~~~L~~~I~~  251 (428)
T PRK11637        172 IAELKQTREELAAQKAELEEKQSQQKTLLYEQQAQQQKLEQARNERKKTLTGLESSLQKDQQQLSELRANESRLRDSIAR  251 (428)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444555555555555555555555555555555566666666655566666666666666666666555555444333

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

Probab=97.35  E-value=0.11  Score=54.63  Aligned_cols=197  Identities=16%  Similarity=0.295  Sum_probs=116.1

Q ss_pred             hhhHHHHHHHHHHHhhhcc-cc---c---cchhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhH--HH--------HHHHH
Q 039268           38 ALLEEELEIQHAEIQRLLG-DN---R---RLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQ--EV--------HVRDL  100 (276)
Q Consensus        38 ~~LEe~l~~Q~~EiqrLl~-dN---q---RLaatHvaLrqeLaaaq~Elqrl~~~~~~i~ae~--e~--------q~R~l  100 (276)
                      .-||..+..-..||+..-. ++   .   -|-...-.||.||...++|...|..-+..+..-+  |.        ++++.
T Consensus       421 ~rLE~dvkkLraeLq~~Rq~E~ELRsqis~l~~~Er~lk~eL~qlr~ene~Lq~Kl~~L~~aRq~DKq~l~~LEkrL~eE  500 (697)
T PF09726_consen  421 SRLEADVKKLRAELQSSRQSEQELRSQISSLTNNERSLKSELSQLRQENEQLQNKLQNLVQARQQDKQSLQQLEKRLAEE  500 (697)
T ss_pred             HHHHHHHHHHHHHHHhhhhhHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3456555555555544311 11   0   1333345677778888887777765555443322  23        33333


Q ss_pred             HHhhhhhhhhhhhc--------------------------hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-
Q 039268          101 VEKGLKLEADLRAT--------------------------EPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQ-  153 (276)
Q Consensus       101 ~ek~~KmEAelra~--------------------------e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~-  153 (276)
                      -++...+|+.|.+-                          |.+|+-..++..|+++|-..-+....++..|.+|++.++ 
T Consensus       501 ~~~R~~lEkQL~eErk~r~~ee~~aar~~~~~~~~r~e~~e~~r~r~~~lE~E~~~lr~elk~kee~~~~~e~~~~~lr~  580 (697)
T PF09726_consen  501 RRQRASLEKQLQEERKARKEEEEKAARALAQAQATRQECAESCRQRRRQLESELKKLRRELKQKEEQIRELESELQELRK  580 (697)
T ss_pred             HHHHHHHHHHHHHHHHHHhHHHHhhhhccccchhccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333334333221                          235555555556666655555555555555555543222 


Q ss_pred             --hh-hcchhHHHHHHHHHHHHHHHHHhhhhhHHhhhHHHHH-------HHHHHHHHHHHHHHHHHHHHHHhhhccCCCC
Q 039268          154 --AD-NQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELME-------QRQAMEKNLVSMAREVEKLRAELTNFDGRPW  223 (276)
Q Consensus       154 --ad-~qqipal~aEie~lrqElqr~Raa~EyEKk~~~e~~E-------q~qaMEknlisMarEvEKLRaElanae~r~~  223 (276)
                        .| .+-+.+|...|-.|+..-+|+=...-.|.+.+.|+.-       |+..-+..+..=-+||+-|++.|+..-  |.
T Consensus       581 ~~~e~~~~~e~L~~aL~amqdk~~~LE~sLsaEtriKldLfsaLg~akrq~ei~~~~~~~~d~ei~~lk~ki~~~~--av  658 (697)
T PF09726_consen  581 YEKESEKDTEVLMSALSAMQDKNQHLENSLSAETRIKLDLFSALGDAKRQLEIAQGQLRKKDKEIEELKAKIAQLL--AV  658 (697)
T ss_pred             HHhhhhhhHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--hc
Confidence              22 3457778888888999999999999999998888763       666667777777889999999888765  33


Q ss_pred             CCCCCCCCCCCCC
Q 039268          224 GVGGPYGMNFSGV  236 (276)
Q Consensus       224 ~~g~~Yg~~yg~p  236 (276)
                      -++.+|+++.+.+
T Consensus       659 ~p~~~~~~~~~~~  671 (697)
T PF09726_consen  659 MPSDSYCSAITPP  671 (697)
T ss_pred             CCccccccCCCCC
Confidence            4445666444433

; GO: 0016021 integral to membrane

>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=97.19  E-value=0.085  Score=54.26  Aligned_cols=33  Identities=33%  Similarity=0.369  Sum_probs=25.6

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcc
Q 039268          187 NIELMEQRQAMEKNLVSMAREVEKLRAELTNFD  219 (276)
Q Consensus       187 ~~e~~Eq~qaMEknlisMarEvEKLRaElanae  219 (276)
                      +..+.+|++.++.-+-+--++++.|+.||..+-
T Consensus       285 ~e~LkeqLr~~qe~lqaSqq~~~~L~~EL~~~~  317 (546)
T PF07888_consen  285 NEALKEQLRSAQEQLQASQQEAELLRKELSDAV  317 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345778888888888888888888888887653

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 [].

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

Probab=97.16  E-value=0.084  Score=53.43  Aligned_cols=105  Identities=27%  Similarity=0.311  Sum_probs=63.4

Q ss_pred             chhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcc-----------hhHHHHHHHHHHHHHHHHHhhhhh
Q 039268          114 TEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQ-----------IPLLRAEIDGLHQELMHARAAVDY  182 (276)
Q Consensus       114 ~e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qq-----------ipal~aEie~lrqElqr~Raa~Ey  182 (276)
                      ...++.||.++..++++....-..|...|..|..||.+.+.++..           |..|..|++.++.||.-+++...-
T Consensus       283 l~s~~~ELe~ak~~L~~~k~E~~~L~~~vesL~~ELe~~K~el~~lke~e~~a~~~v~~L~~eL~~~r~eLea~~~~e~~  362 (522)
T PF05701_consen  283 LASAKKELEEAKKELEKAKEEASSLRASVESLRSELEKEKEELERLKEREKEASSEVSSLEAELNKTRSELEAAKAEEEK  362 (522)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhhHHHHHHHHHHHHHHHHhhhcc
Confidence            566788888888888888877778888888888887777766544           556666666666666665555433


Q ss_pred             HHhhhHHHHHHHH-------HHHHHHHHHHHHHHHHHHHhhhc
Q 039268          183 EKKANIELMEQRQ-------AMEKNLVSMAREVEKLRAELTNF  218 (276)
Q Consensus       183 EKk~~~e~~Eq~q-------aMEknlisMarEvEKLRaElana  218 (276)
                      =++.-.++...+|       ...+..-.+-.|+.+++.|+.++
T Consensus       363 ~k~~~~~l~~~Lqql~~Eae~Ak~ea~~~~~E~~~~k~E~e~~  405 (522)
T PF05701_consen  363 AKEAMSELPKALQQLSSEAEEAKKEAEEAKEEVEKAKEEAEQT  405 (522)
T ss_pred             hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            2222222222222       22333444444555555554443

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

>PRK11637 AmiB activator; Provisional

Probab=97.09  E-value=0.23  Score=48.56  Aligned_cols=61  Identities=13%  Similarity=0.184  Sum_probs=33.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHHhhhHHHH
Q 039268          128 VQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELM  191 (276)
Q Consensus       128 ~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~EyEKk~~~e~~  191 (276)
                      +..|+..++++..++....++|...+   +.+-.-+++++.+..++..-++.++-+++.....+
T Consensus       161 l~~i~~~d~~~l~~l~~~~~~L~~~k---~~le~~~~~l~~~~~e~~~~k~~L~~~k~e~~~~l  221 (428)
T PRK11637        161 FGYLNQARQETIAELKQTREELAAQK---AELEEKQSQQKTLLYEQQAQQQKLEQARNERKKTL  221 (428)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34456666666666555555544333   33344555666666666666666666655543333

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

Probab=97.09  E-value=0.058  Score=51.24  Aligned_cols=152  Identities=20%  Similarity=0.330  Sum_probs=117.1

Q ss_pred             HHHHHHHHHHH-HHHHHHHHhhhhHHHHHHH-HHHhhhhhhhhhhh-----chhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039268           70 RELAAAKEELH-RMNLVIGEIRAEQEVHVRD-LVEKGLKLEADLRA-----TEPLKKEAVQLRAEVQKLNNLRNELNGKV  142 (276)
Q Consensus        70 qeLaaaq~Elq-rl~~~~~~i~ae~e~q~R~-l~ek~~KmEAelra-----~e~lk~El~q~raE~q~L~~~RqeL~~qv  142 (276)
                      +|-..+-.|++ -|......||+=.-++.+. -|+-..++.-.|+.     .+.|+.+...+...++.|......|....
T Consensus       107 ~EY~~a~~d~r~~m~~q~~~vK~~aRl~aK~~WYeWR~~ll~gl~~~L~~~~~~L~~D~~~L~~~~~~l~~~~~~l~~~~  186 (325)
T PF08317_consen  107 REYYTADPDMRLLMDNQFQLVKTYARLEAKKMWYEWRMQLLEGLKEGLEENLELLQEDYAKLDKQLEQLDELLPKLRERK  186 (325)
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333 3345666666555555443 35555555555543     47889999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhcchh-HHHHHHHHHHHHHHHHHhhhhhHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCC
Q 039268          143 QTLQKDLAKLQADNQQIP-LLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAELTNFDGR  221 (276)
Q Consensus       143 q~l~~eL~r~~ad~qqip-al~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~qaMEknlisMarEvEKLRaElanae~r  221 (276)
                      +.++.|+.++++-...+. .=+.||..+|+||......|+.-|+.-.++-.+++..+..+-.+..+..+|.++|+++++.
T Consensus       187 ~~L~~e~~~Lk~~~~e~~~~D~~eL~~lr~eL~~~~~~i~~~k~~l~el~~el~~l~~~i~~~~~~k~~l~~eI~e~~~~  266 (325)
T PF08317_consen  187 AELEEELENLKQLVEEIESCDQEELEALRQELAEQKEEIEAKKKELAELQEELEELEEKIEELEEQKQELLAEIAEAEKI  266 (325)
T ss_pred             HHHHHHHHHHHHHHhhhhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999988887665544 2357889999999999999999999999999999999999999999999999999998743

>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=97.05  E-value=0.093  Score=53.98  Aligned_cols=20  Identities=20%  Similarity=0.469  Sum_probs=12.4

Q ss_pred             HHHHHHHHHHhhhccCCCCC
Q 039268          205 AREVEKLRAELTNFDGRPWG  224 (276)
Q Consensus       205 arEvEKLRaElanae~r~~~  224 (276)
                      .+.|++|+..|.....--|.
T Consensus       444 ~~yi~~Le~r~~~~~~~~~~  463 (546)
T PF07888_consen  444 LEYIERLEQRLDKVADEKWK  463 (546)
T ss_pred             HHHHHHHHHHHHHhhhhhhh
Confidence            34488888887766443343

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 [].

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

Probab=97.03  E-value=0.099  Score=47.72  Aligned_cols=147  Identities=21%  Similarity=0.316  Sum_probs=85.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhh----------HHHHHHHHHHhhhhhhhhhhhchhhHHHHHHHHHHHHHHHHH
Q 039268           65 RMAMQRELAAAKEELHRMNLVIGEIRAE----------QEVHVRDLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNL  134 (276)
Q Consensus        65 HvaLrqeLaaaq~Elqrl~~~~~~i~ae----------~e~q~R~l~ek~~KmEAelra~e~lk~El~q~raE~q~L~~~  134 (276)
                      ..-|||.|-.+|-||-.=.+.|.++++-          +|.++.++-+....-..   ..+....||++...|+.-|--.
T Consensus        12 IsLLKqQLke~q~E~~~K~~Eiv~Lr~ql~e~~~~l~~~~~~~~~l~~~~~~K~~---ELE~ce~ELqr~~~Ea~lLrek   88 (202)
T PF06818_consen   12 ISLLKQQLKESQAEVNQKDSEIVSLRAQLRELRAELRNKESQIQELQDSLRTKQL---ELEVCENELQRKKNEAELLREK   88 (202)
T ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhH---hHHHhHHHHHHHhCHHHHhhhh
Confidence            4457777777777666555555555542          23344444332222222   1223555666666666555555


Q ss_pred             HHHHHHHHHHHHHHHHHH------------------Hh--hhcchhHHHHHHHHHHHHHHHHH-------hhhhhHHhhh
Q 039268          135 RNELNGKVQTLQKDLAKL------------------QA--DNQQIPLLRAEIDGLHQELMHAR-------AAVDYEKKAN  187 (276)
Q Consensus       135 RqeL~~qvq~l~~eL~r~------------------~a--d~qqipal~aEie~lrqElqr~R-------aa~EyEKk~~  187 (276)
                      -..|..++..|..++..+                  +.  .-.-+..|+.++|.|+.||...|       ..|+.|+..-
T Consensus        89 l~~le~El~~Lr~~l~~~~~~~~~~~~l~~~deak~~~~~~~~~~~~l~~e~erL~aeL~~er~~~e~q~~~Fe~ER~~W  168 (202)
T PF06818_consen   89 LGQLEAELAELREELACAGRLKRQCQLLSESDEAKAQRQAGEDELGSLRREVERLRAELQRERQRREEQRSSFEQERRTW  168 (202)
T ss_pred             hhhhHHHHHHHHHHHHhhccchhhhccccccchhHHhhccccccchhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Confidence            555555555555555554                  11  12347778899999999988654       5888888876


Q ss_pred             HHHHHHH----HHHHHHHHHHHHHHHHHHHH
Q 039268          188 IELMEQR----QAMEKNLVSMAREVEKLRAE  214 (276)
Q Consensus       188 ~e~~Eq~----qaMEknlisMarEvEKLRaE  214 (276)
                      .+--+.+    +-+..|+|.|-+=-..|-.+
T Consensus       169 ~eEKekVi~YQkQLQ~nYvqMy~rn~~LE~~  199 (202)
T PF06818_consen  169 QEEKEKVIRYQKQLQQNYVQMYQRNQALERE  199 (202)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5544433    45677899997655444443

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

>PRK02224 chromosome segregation protein; Provisional

Probab=96.97  E-value=0.14  Score=53.79  Aligned_cols=26  Identities=19%  Similarity=0.406  Sum_probs=12.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhh
Q 039268          192 EQRQAMEKNLVSMAREVEKLRAELTN  217 (276)
Q Consensus       192 Eq~qaMEknlisMarEvEKLRaElan  217 (276)
                      ..++..++.+-.+-.|++.+++.|..
T Consensus       377 ~~l~~~~~~l~~l~~el~el~~~l~~  402 (880)
T PRK02224        377 EAVEDRREEIEELEEEIEELRERFGD  402 (880)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            33444444444444445555555443

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

Probab=96.96  E-value=0.11  Score=48.37  Aligned_cols=131  Identities=25%  Similarity=0.347  Sum_probs=91.5

Q ss_pred             HHhhhccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhHH----------HHHHHHHHhhhhhhhhhhhchhhHH
Q 039268           50 EIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQE----------VHVRDLVEKGLKLEADLRATEPLKK  119 (276)
Q Consensus        50 EiqrLl~dNqRLaatHvaLrqeLaaaq~Elqrl~~~~~~i~ae~e----------~q~R~l~ek~~KmEAelra~e~lk~  119 (276)
                      .||.|-..+-||..-.--.+.+|..++-|+-+++....+++.+.|          ..++++=+|+.+.|-.+-++--.+ 
T Consensus        11 ~iq~lD~e~~rl~~~~~~~~~~l~k~~~e~e~~~~~~~~~~~e~e~le~qv~~~e~ei~~~r~r~~~~e~kl~~v~~~~-   89 (239)
T COG1579          11 AIQKLDLEKDRLEPRIKEIRKALKKAKAELEALNKALEALEIELEDLENQVSQLESEIQEIRERIKRAEEKLSAVKDER-   89 (239)
T ss_pred             HHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccHH-
Confidence            455566666666666666777778888888777777777776655          566777777788887775555555 


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHH
Q 039268          120 EAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEK  184 (276)
Q Consensus       120 El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~EyEK  184 (276)
                      |+.++..|++.+..-...|..++..++.++.+++.   ++-.++..+..++.++--++.+++.+=
T Consensus        90 e~~aL~~E~~~ak~r~~~le~el~~l~~~~~~l~~---~i~~l~~~~~~~e~~~~e~~~~~e~e~  151 (239)
T COG1579          90 ELRALNIEIQIAKERINSLEDELAELMEEIEKLEK---EIEDLKERLERLEKNLAEAEARLEEEV  151 (239)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            88888888888888888888888888888777763   245555556666666666666655543

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

Probab=96.87  E-value=0.039  Score=52.41  Aligned_cols=36  Identities=17%  Similarity=0.338  Sum_probs=24.0

Q ss_pred             ccchhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhHH
Q 039268           59 RRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQE   94 (276)
Q Consensus        59 qRLaatHvaLrqeLaaaq~Elqrl~~~~~~i~ae~e   94 (276)
                      .-|...+..|++|.......+..+......++..++
T Consensus       152 ~~L~~~~~~L~~D~~~L~~~~~~l~~~~~~l~~~~~  187 (325)
T PF08317_consen  152 EGLEENLELLQEDYAKLDKQLEQLDELLPKLRERKA  187 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            346666677777777777777777766666655544

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

Probab=96.80  E-value=0.049  Score=57.30  Aligned_cols=27  Identities=37%  Similarity=0.361  Sum_probs=11.6

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039268          116 PLKKEAVQLRAEVQKLNNLRNELNGKV  142 (276)
Q Consensus       116 ~lk~El~q~raE~q~L~~~RqeL~~qv  142 (276)
                      .+|.||.|++.|...|..--++|+...
T Consensus       457 ~lk~eL~qlr~ene~Lq~Kl~~L~~aR  483 (697)
T PF09726_consen  457 SLKSELSQLRQENEQLQNKLQNLVQAR  483 (697)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444444444333333333

; GO: 0016021 integral to membrane

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

Probab=96.73  E-value=0.048  Score=45.84  Aligned_cols=72  Identities=24%  Similarity=0.379  Sum_probs=60.5

Q ss_pred             hhhhhhhhchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhh
Q 039268          106 KLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAV  180 (276)
Q Consensus       106 KmEAelra~e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~  180 (276)
                      +|-+.||..   ..|+.+++.++.+|...|..|..++-.++.+...+++..++++.|+.+++.|.+.++-+--.|
T Consensus        20 ~L~s~lr~~---E~E~~~l~~el~~l~~~r~~l~~Eiv~l~~~~e~~~~~~~~~~~L~~el~~l~~ry~t~Lell   91 (120)
T PF12325_consen   20 RLQSQLRRL---EGELASLQEELARLEAERDELREEIVKLMEENEELRALKKEVEELEQELEELQQRYQTLLELL   91 (120)
T ss_pred             HHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            444544443   349999999999999999999999999999999999999999999999999998877665554

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 [].

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

Probab=96.66  E-value=0.29  Score=53.79  Aligned_cols=28  Identities=21%  Similarity=0.519  Sum_probs=11.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039268          125 RAEVQKLNNLRNELNGKVQTLQKDLAKL  152 (276)
Q Consensus       125 raE~q~L~~~RqeL~~qvq~l~~eL~r~  152 (276)
                      ..++..+...++.+...+..+..++..+
T Consensus       778 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~  805 (1163)
T COG1196         778 KEEIEELEEKRQALQEELEELEEELEEA  805 (1163)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444444444444444333

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

Probab=96.65  E-value=0.56  Score=47.05  Aligned_cols=105  Identities=23%  Similarity=0.314  Sum_probs=70.8

Q ss_pred             HHHhhhccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhhhhhhhchhhHHHHHHHHHHH
Q 039268           49 AEIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRATEPLKKEAVQLRAEV  128 (276)
Q Consensus        49 ~EiqrLl~dNqRLaatHvaLrqeLaaaq~Elqrl~~~~~~i~ae~e~q~R~l~ek~~KmEAelra~e~lk~El~q~raE~  128 (276)
                      .|++.-..|-+-.-....++++++..|+||+.++.....+++++    +--|.+.-.++++++.+.-+-.++|+   +-+
T Consensus       109 ~El~~~r~e~~~v~~~~~~a~~n~~kAqQ~lar~t~Q~q~lqtr----l~~l~~qr~ql~aq~qsl~a~~k~LQ---~s~  181 (499)
T COG4372         109 SELQKARQEREAVRQELAAARQNLAKAQQELARLTKQAQDLQTR----LKTLAEQRRQLEAQAQSLQASQKQLQ---ASA  181 (499)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHH---HHH
Confidence            45555555655555667788999999999999999999988876    45588888899998888655555554   223


Q ss_pred             HHHHHHHHHHHH-----------------HHHHHHHHHHHHHhhhcchh
Q 039268          129 QKLNNLRNELNG-----------------KVQTLQKDLAKLQADNQQIP  160 (276)
Q Consensus       129 q~L~~~RqeL~~-----------------qvq~l~~eL~r~~ad~qqip  160 (276)
                      -.|-..+++|..                 .+|..++||++..+-.||..
T Consensus       182 ~Qlk~~~~~L~~r~~~ieQ~~~~la~r~~a~q~r~~ela~r~aa~Qq~~  230 (499)
T COG4372         182 TQLKSQVLDLKLRSAQIEQEAQNLATRANAAQARTEELARRAAAAQQTA  230 (499)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333332                 35666667776666655543

>TIGR01000 bacteriocin_acc bacteriocin secretion accessory protein

Probab=96.60  E-value=0.31  Score=48.01  Aligned_cols=25  Identities=12%  Similarity=0.207  Sum_probs=18.2

Q ss_pred             chhHHHHHHHHHHHHHHHHHhhhhh
Q 039268          158 QIPLLRAEIDGLHQELMHARAAVDY  182 (276)
Q Consensus       158 qipal~aEie~lrqElqr~Raa~Ey  182 (276)
                      .+..+..+++.++.++..+++.+.-
T Consensus       237 ~~~~~~~~i~~l~~~i~~~~~~~~~  261 (457)
T TIGR01000       237 ILATIQQQIDQLQKSIASYQVQKAG  261 (457)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            5666677778888888777777664

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

>KOG0161 consensus Myosin class II heavy chain [Cytoskeleton]

Probab=96.58  E-value=0.32  Score=56.42  Aligned_cols=164  Identities=24%  Similarity=0.279  Sum_probs=103.2

Q ss_pred             HhhhccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhhhhhhhchhhHHHHHHHHHHHHH
Q 039268           51 IQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRATEPLKKEAVQLRAEVQK  130 (276)
Q Consensus        51 iqrLl~dNqRLaatHvaLrqeLaaaq~Elqrl~~~~~~i~ae~e~q~R~l~ek~~KmEAelra~e~lk~El~q~raE~q~  130 (276)
                      +...-.-|-.|=-+...|+||+..+.-|+++....+..+..-.-.-=--|-+.-.++|.=....+....|+.+...++++
T Consensus      1395 ~e~~~~~~~~Lek~k~~l~~el~d~~~d~~~~~~~~~~le~k~k~f~k~l~e~k~~~e~l~~Eld~aq~e~r~~~tel~k 1474 (1930)
T KOG0161|consen 1395 IEAANAKNASLEKAKNRLQQELEDLQLDLERSRAAVAALEKKQKRFEKLLAEWKKKLEKLQAELDAAQRELRQLSTELQK 1474 (1930)
T ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHH
Confidence            33334444555567778888888888888888766665443322211122222222232223445677788888888888


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHHh----hhHHHHHHHHHHHHHHHHHHH
Q 039268          131 LNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKK----ANIELMEQRQAMEKNLVSMAR  206 (276)
Q Consensus       131 L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~EyEKk----~~~e~~Eq~qaMEknlisMar  206 (276)
                      |...=.++..++..+.++-..++.++..+-.-..|...-.+|+++.+.+++.||.    +-.|.-...++=|-+-...--
T Consensus      1475 l~~~lee~~e~~e~l~renk~l~~ei~dl~~~~~e~~k~v~elek~~r~le~e~~elQ~aLeElE~~le~eE~~~lr~~~ 1554 (1930)
T KOG0161|consen 1475 LKNALEELLEQLEELRRENKNLSQEIEDLEEQKDEGGKRVHELEKEKRRLEQEKEELQAALEELEAALEAEEDKKLRLQL 1554 (1930)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHH
Confidence            8888888888888888888888888888888888888888888888888888843    333333333333333333333


Q ss_pred             HHHHHHHH
Q 039268          207 EVEKLRAE  214 (276)
Q Consensus       207 EvEKLRaE  214 (276)
                      ++.++|.|
T Consensus      1555 ~~~~~r~e 1562 (1930)
T KOG0161|consen 1555 ELQQLRSE 1562 (1930)
T ss_pred             HHHHHHHH
Confidence            44444444

>PRK04863 mukB cell division protein MukB; Provisional

Probab=96.58  E-value=0.36  Score=54.84  Aligned_cols=157  Identities=15%  Similarity=0.171  Sum_probs=119.6

Q ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHH------------------HHHHHHHhhhhhhhhhhhchhhHHHHHH
Q 039268           62 VEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEV------------------HVRDLVEKGLKLEADLRATEPLKKEAVQ  123 (276)
Q Consensus        62 aatHvaLrqeLaaaq~Elqrl~~~~~~i~ae~e~------------------q~R~l~ek~~KmEAelra~e~lk~El~q  123 (276)
                      ..+|..|+++...+++..+.+.+.+-++.-=.+.                  -.-.|=+++.++|.   ..+.++.++.+
T Consensus       934 p~~~e~lr~e~~~~~~~~~~~~~~~~~l~~~~~~~~~~~y~~~~~~l~~~~~~~~~Le~~Le~iE~---~~~~areql~q 1010 (1486)
T PRK04863        934 PEQFEQLKQDYQQAQQTQRDAKQQAFALTEVVQRRAHFSYEDAAEMLAKNSDLNEKLRQRLEQAEQ---ERTRAREQLRQ 1010 (1486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccHHHHHhHhhcchhhhHHHHHHHHHHHH---HHHHHHHHHHH
Confidence            4799999999999999999988777665432210                  00111112222222   33456667777


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhH---------HHHHHHHHHHHHHHHHhhhhhHHhhhHHHHHHH
Q 039268          124 LRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPL---------LRAEIDGLHQELMHARAAVDYEKKANIELMEQR  194 (276)
Q Consensus       124 ~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipa---------l~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~  194 (276)
                      ++.+.++.......+...++...++|..++.+++.++.         +++.-|.|.+.|...|+-..+--|.....-..+
T Consensus      1011 aq~q~~q~~q~l~slksslq~~~e~L~E~eqe~~~~g~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~re~EI 1090 (1486)
T PRK04863       1011 AQAQLAQYNQVLASLKSSYDAKRQMLQELKQELQDLGVPADSGAEERARARRDELHARLSANRSRRNQLEKQLTFCEAEM 1090 (1486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCccHHHHHHHhHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Confidence            77777777777778888888888888888888887753         334448999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhccCC
Q 039268          195 QAMEKNLVSMAREVEKLRAELTNFDGR  221 (276)
Q Consensus       195 qaMEknlisMarEvEKLRaElanae~r  221 (276)
                      +.++++|-...++...++++|.++.++
T Consensus      1091 e~L~kkL~~~~~e~~~~re~I~~aK~~ 1117 (1486)
T PRK04863       1091 DNLTKKLRKLERDYHEMREQVVNAKAG 1117 (1486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999999876

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

Probab=96.56  E-value=0.7  Score=43.54  Aligned_cols=63  Identities=17%  Similarity=0.214  Sum_probs=34.4

Q ss_pred             hHHHHHHHHHHHHHHHHHhhhhhHHhhh-HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCCC
Q 039268          160 PLLRAEIDGLHQELMHARAAVDYEKKAN-IELMEQRQAMEKNLVSMAREVEKLRAELTNFDGRP  222 (276)
Q Consensus       160 pal~aEie~lrqElqr~Raa~EyEKk~~-~e~~Eq~qaMEknlisMarEvEKLRaElanae~r~  222 (276)
                      -.++++++.+++++..+++.+.-.+... .+..++....+.++..+..+++.++..+.+..=++
T Consensus       213 ~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~l~~~~i~A  276 (423)
T TIGR01843       213 GRLEAELEVLKRQIDELQLERQQIEQTFREEVLEELTEAQARLAELRERLNKARDRLQRLIIRS  276 (423)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcEEEC
Confidence            3344455555555555555544333322 23334455666666666667777777777665554

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.

>PRK02224 chromosome segregation protein; Provisional

Probab=96.56  E-value=0.33  Score=50.99  Aligned_cols=44  Identities=18%  Similarity=0.280  Sum_probs=20.6

Q ss_pred             hHHHHHHHHHHHhhhcccc--ccchhhHHHHHHHHHHHHHHHHHHH
Q 039268           40 LEEELEIQHAEIQRLLGDN--RRLVEDRMAMQRELAAAKEELHRMN   83 (276)
Q Consensus        40 LEe~l~~Q~~EiqrLl~dN--qRLaatHvaLrqeLaaaq~Elqrl~   83 (276)
                      +-..+..|..++.+.+.+-  +.+...--.+++++.....++..+.
T Consensus       181 ~~~~~~~~~~~~~~~l~~~~~~~l~~~l~~~~~~l~el~~~i~~~~  226 (880)
T PRK02224        181 VLSDQRGSLDQLKAQIEEKEEKDLHERLNGLESELAELDEEIERYE  226 (880)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4555555555555555554  3333333344444444444433333

>PF07111 HCR: Alpha helical coiled-coil rod protein (HCR); InterPro: IPR009800 This family consists of several mammalian alpha helical coiled-coil rod HCR proteins

Probab=96.56  E-value=0.6  Score=49.48  Aligned_cols=175  Identities=26%  Similarity=0.343  Sum_probs=97.5

Q ss_pred             CCCChhhhHHHHHHHHHHH----hhhccccc------c----chhhHHHHHHHHHHHH-HHHHHHHHHHHHhhhhHHHHH
Q 039268           33 PPPHPALLEEELEIQHAEI----QRLLGDNR------R----LVEDRMAMQRELAAAK-EELHRMNLVIGEIRAEQEVHV   97 (276)
Q Consensus        33 ppp~P~~LEe~l~~Q~~Ei----qrLl~dNq------R----LaatHvaLrqeLaaaq-~Elqrl~~~~~~i~ae~e~q~   97 (276)
                      ||-|-.++|-+...|+--+    +....|-+      |    -...+..=.-||..-| |||+||-.-...++.-.-.|-
T Consensus        14 ~~~~~~~~e~r~~~qr~~~~~~e~~~~~~~~~p~~r~Rs~~~~~s~~lsqqaelis~qlqE~rrle~e~~~lre~sl~qk   93 (739)
T PF07111_consen   14 PPAHQDVSERRRENQRPQVTMWEQDVSGDGQEPGRRGRSLELEGSQALSQQAELISRQLQELRRLEEEVRALRETSLQQK   93 (739)
T ss_pred             CccchhHHHhhhhhcCchhHHHHhcccccccCcccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4567789998887776222    22223322      1    1223333344677777 999999887776665544455


Q ss_pred             HHHHHhhhhhhhhhhhchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHH
Q 039268           98 RDLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHAR  177 (276)
Q Consensus        98 R~l~ek~~KmEAelra~e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~R  177 (276)
                      .-|-..++-||+--++-.+-++|...+|+=+-+-...|+-|-.-.|.--.|+++.+         +.+|..|.++++.+=
T Consensus        94 mrLe~qa~Ele~l~~ae~agraEae~Lraala~ae~~R~~lEE~~q~ELee~q~~H---------qeql~~Lt~aHq~~l  164 (739)
T PF07111_consen   94 MRLEAQAEELEALARAEKAGRAEAEELRAALAGAEVVRKNLEEGSQRELEEAQRLH---------QEQLSSLTQAHQEAL  164 (739)
T ss_pred             hHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHhhHHHHHHhhHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHH
Confidence            55555555555555555555566655555555555566666433333333333333         357788888877654


Q ss_pred             hhhhhHHhhhHHHHHHHHHH-------HHHHHHHHHHHHHHHHHhhhcc
Q 039268          178 AAVDYEKKANIELMEQRQAM-------EKNLVSMAREVEKLRAELTNFD  219 (276)
Q Consensus       178 aa~EyEKk~~~e~~Eq~qaM-------EknlisMarEvEKLRaElanae  219 (276)
                      +.+   ++..-++-+.++.|       -|+|...-+|.+-||.+|.++-
T Consensus       165 ~sL---~~k~~~Le~~L~~le~~r~~e~~~La~~q~e~d~L~~qLsk~~  210 (739)
T PF07111_consen  165 ASL---TSKAEELEKSLESLETRRAGEAKELAEAQREADLLREQLSKTQ  210 (739)
T ss_pred             HHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH
Confidence            332   12222333333333       3566666777888887776653

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

>PRK03918 chromosome segregation protein; Provisional

Probab=96.56  E-value=0.36  Score=50.48  Aligned_cols=72  Identities=24%  Similarity=0.394  Sum_probs=35.6

Q ss_pred             HhhhhhhhhhhhchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHH
Q 039268          102 EKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQEL  173 (276)
Q Consensus       102 ek~~KmEAelra~e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqEl  173 (276)
                      +...+++.++...+..+.++..+..+++.|...-+.|..++..+.+++..+...+.++..+..+++.+...+
T Consensus       221 ~~~~~~~~~l~~l~~~~~~~~~l~~~~~~l~~~~~~l~~~i~~l~~el~~l~~~l~~l~~~~~~~~~l~~~~  292 (880)
T PRK03918        221 EELEKLEKEVKELEELKEEIEELEKELESLEGSKRKLEEKIRELEERIEELKKEIEELEEKVKELKELKEKA  292 (880)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333344444444445555555555555555555555555555555555555555554444444444444433

>PF14662 CCDC155: Coiled-coil region of CCDC155

Probab=96.53  E-value=0.53  Score=42.82  Aligned_cols=87  Identities=21%  Similarity=0.387  Sum_probs=54.2

Q ss_pred             HhhhccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhhhhhhhchhhHHHHHHHHHHHHH
Q 039268           51 IQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRATEPLKKEAVQLRAEVQK  130 (276)
Q Consensus        51 iqrLl~dNqRLaatHvaLrqeLaaaq~Elqrl~~~~~~i~ae~e~q~R~l~ek~~KmEAelra~e~lk~El~q~raE~q~  130 (276)
                      |..|=..|+||+..-..|+..+..+.+...+|..-|.+++.    +++.+= +.      +.-..+|+.|+..++..+..
T Consensus        10 v~dL~~~n~~L~~en~kL~~~ve~~ee~na~L~~e~~~L~~----q~~s~Q-qa------l~~aK~l~eEledLk~~~~~   78 (193)
T PF14662_consen   10 VEDLQLNNQKLADENAKLQRSVETAEEGNAQLAEEITDLRK----QLKSLQ-QA------LQKAKALEEELEDLKTLAKS   78 (193)
T ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHH-HH------HHHHHHHHHHHHHHHHHHHH
Confidence            34466779999999999999999999999999888887654    344331 11      11223355555555555555


Q ss_pred             HHHHHHHHHHHHHHHHHH
Q 039268          131 LNNLRNELNGKVQTLQKD  148 (276)
Q Consensus       131 L~~~RqeL~~qvq~l~~e  148 (276)
                      |.....-|.++...+.+|
T Consensus        79 lEE~~~~L~aq~rqlEkE   96 (193)
T PF14662_consen   79 LEEENRSLLAQARQLEKE   96 (193)
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            555544444444444444

>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=96.49  E-value=0.23  Score=42.91  Aligned_cols=111  Identities=23%  Similarity=0.284  Sum_probs=81.8

Q ss_pred             HHHhhhhhhhhhhhchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhh
Q 039268          100 LVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAA  179 (276)
Q Consensus       100 l~ek~~KmEAelra~e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa  179 (276)
                      |-+++..||+||...+.   +...+-.|+..--+.-..|..++..+|++|.++..|+   -.++.|-+.|-++++.-..-
T Consensus        22 le~~v~~LEreLe~~q~---~~e~~~~daEn~k~eie~L~~el~~lt~el~~L~~EL---~~l~sEk~~L~k~lq~~q~k   95 (140)
T PF10473_consen   22 LEDHVESLERELEMSQE---NKECLILDAENSKAEIETLEEELEELTSELNQLELEL---DTLRSEKENLDKELQKKQEK   95 (140)
T ss_pred             HHHHHHHHHHHHHHHHH---hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHH
Confidence            45667788887766543   3333444444444555567778888888888888776   56778889999999998888


Q ss_pred             hhhHHhhhHHHHHHHHHHHHHHHHHHHH----HHHHHHHhh
Q 039268          180 VDYEKKANIELMEQRQAMEKNLVSMARE----VEKLRAELT  216 (276)
Q Consensus       180 ~EyEKk~~~e~~Eq~qaMEknlisMarE----vEKLRaEla  216 (276)
                      |..-...+.+....++.-|.-.+-|-.+    |+.|.+++.
T Consensus        96 v~eLE~~~~~~~~~l~~~E~ek~q~~e~~~~~ve~L~~ql~  136 (140)
T PF10473_consen   96 VSELESLNSSLENLLQEKEQEKVQLKEESKSAVEMLQKQLK  136 (140)
T ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            8888888888888888888887777665    777777764

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

>TIGR00606 rad50 rad50

Probab=96.48  E-value=0.31  Score=54.24  Aligned_cols=62  Identities=26%  Similarity=0.335  Sum_probs=43.8

Q ss_pred             hhHHHHHHHHHHHHHHHH---HhhhhhHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccC
Q 039268          159 IPLLRAEIDGLHQELMHA---RAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAELTNFDG  220 (276)
Q Consensus       159 ipal~aEie~lrqElqr~---Raa~EyEKk~~~e~~Eq~qaMEknlisMarEvEKLRaElanae~  220 (276)
                      ++.+..+.+.+..+|.++   -..+.-++-...+.+.+.+..+..|..+..++++|++++...+.
T Consensus       845 ~e~l~~e~e~~~~eI~~Lq~ki~el~~~klkl~~~l~~r~~le~~L~el~~el~~l~~~~~~~~~  909 (1311)
T TIGR00606       845 IELNRKLIQDQQEQIQHLKSKTNELKSEKLQIGTNLQRRQQFEEQLVELSTEVQSLIREIKDAKE  909 (1311)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            355566666666766666   44444555555566777788888888899998888888877654

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

>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=96.41  E-value=0.46  Score=39.71  Aligned_cols=123  Identities=24%  Similarity=0.269  Sum_probs=77.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhhhhhhhchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039268           68 MQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQK  147 (276)
Q Consensus        68 LrqeLaaaq~Elqrl~~~~~~i~ae~e~q~R~l~ek~~KmEAelra~e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~  147 (276)
                      |+-++..+...+......+..++.|-+.+..-.-+-=-|-|.||-.+...-++|.+++.++..+.....+|..+++....
T Consensus         8 l~~e~~~~~~~~~~~~~~~~~~~~dl~~q~~~a~~Aq~~YE~El~~Ha~~~~~L~~lr~e~~~~~~~~~~l~~~~~~a~~   87 (132)
T PF07926_consen    8 LQSELQRLKEQEEDAEEQLQSLREDLESQAKIAQEAQQKYERELVKHAEDIKELQQLREELQELQQEINELKAEAESAKA   87 (132)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444444444444445555555555555444444445666666666555667777777777777777777777777777


Q ss_pred             HHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHHhhhHHHHHHHHH
Q 039268          148 DLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQA  196 (276)
Q Consensus       148 eL~r~~ad~qqipal~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~qa  196 (276)
                      .|.......      ..+-..|..|+.-+..-|+.-.+-|.=+..|+..
T Consensus        88 ~l~~~e~sw------~~qk~~le~e~~~~~~r~~dL~~QN~lLh~QlE~  130 (132)
T PF07926_consen   88 ELEESEASW------EEQKEQLEKELSELEQRIEDLNEQNKLLHDQLES  130 (132)
T ss_pred             HHHHHHHhH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            776655432      3455667777777777777777777766666654

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

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

Probab=96.40  E-value=0.76  Score=50.64  Aligned_cols=60  Identities=25%  Similarity=0.384  Sum_probs=45.0

Q ss_pred             hhHHHHHHHHHHHHHHHHHhhhhhHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Q 039268          159 IPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAELTNF  218 (276)
Q Consensus       159 ipal~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~qaMEknlisMarEvEKLRaElana  218 (276)
                      +..+..+++.++.++..+-..+..-+....+.-.+....+.++..+..++++++..+...
T Consensus       858 ~~~~~~~l~~~~~~~~~l~~~l~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~l  917 (1163)
T COG1196         858 LEELKEELEELEAEKEELEDELKELEEEKEELEEELRELESELAELKEEIEKLRERLEEL  917 (1163)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            445556667777777777777777777778888888888888888888888887777643

>PRK03918 chromosome segregation protein; Provisional

Probab=96.33  E-value=0.73  Score=48.25  Aligned_cols=18  Identities=6%  Similarity=0.309  Sum_probs=6.7

Q ss_pred             HHHHHHHHHHHHHHHHHH
Q 039268          129 QKLNNLRNELNGKVQTLQ  146 (276)
Q Consensus       129 q~L~~~RqeL~~qvq~l~  146 (276)
                      +.|...++.+..+++.+.
T Consensus       310 ~~l~~~~~~l~~~~~~l~  327 (880)
T PRK03918        310 REIEKRLSRLEEEINGIE  327 (880)
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            333333333333333333

>TIGR00606 rad50 rad50

Probab=96.30  E-value=0.4  Score=53.36  Aligned_cols=54  Identities=13%  Similarity=0.272  Sum_probs=43.2

Q ss_pred             HHHHHHHHHHHhhhhhHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCCC
Q 039268          167 DGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAELTNFDGRP  222 (276)
Q Consensus       167 e~lrqElqr~Raa~EyEKk~~~e~~Eq~qaMEknlisMarEvEKLRaElanae~r~  222 (276)
                      ..+.+|+..++..+.--...++.++.+++.++.++-.+-.|++.  .+..|++++.
T Consensus      1050 ~~~~~e~~~l~~~~~~l~~~~a~l~g~~k~le~qi~~l~~eL~e--~~yk~a~~ry 1103 (1311)
T TIGR00606      1050 LQMKQEHQKLEENIDLIKRNHVLALGRQKGYEKEIKHFKKELRE--PQFRDAEEKY 1103 (1311)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc--hHHHHHHHHH
Confidence            56677777888888888888899999999999999999999854  5666666653

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

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

Probab=96.23  E-value=0.52  Score=50.45  Aligned_cols=90  Identities=24%  Similarity=0.298  Sum_probs=69.9

Q ss_pred             HHHHHHHHhhhccccccchhhHHHHHHHHHHHHHHHHHHHHH--------------------HHHhhhhHHHHHHHHHHh
Q 039268           44 LEIQHAEIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLV--------------------IGEIRAEQEVHVRDLVEK  103 (276)
Q Consensus        44 l~~Q~~EiqrLl~dNqRLaatHvaLrqeLaaaq~Elqrl~~~--------------------~~~i~ae~e~q~R~l~ek  103 (276)
                      +..-..+.+.+-.+|+++..+--+|+.+| -++.|+.+|...                    +..+++|+|.+.+++-.-
T Consensus        55 l~~~k~qlr~~q~e~q~~~~ei~~LqeEL-r~q~e~~rL~~~~e~~~~e~e~l~~ld~~~~q~~rl~~E~er~~~El~~l  133 (775)
T PF10174_consen   55 LSRLKEQLRVTQEENQKAQEEIQALQEEL-RAQRELNRLQQELEKAQYEFESLQELDKAQEQFERLQAERERLQRELERL  133 (775)
T ss_pred             HHhHHHHHHHHHhhHHHHHHHHHHHHHHH-HHhhHHHHHHHHhhhcccccchhhhhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            44556778888999999999999999999 999999999875                    345667888777777665


Q ss_pred             hhhhhhhhhhchhhHHHHHHHHHHHHHHHHH
Q 039268          104 GLKLEADLRATEPLKKEAVQLRAEVQKLNNL  134 (276)
Q Consensus       104 ~~KmEAelra~e~lk~El~q~raE~q~L~~~  134 (276)
                      ..++|.-=--.+.+++++..+..+|.+|...
T Consensus       134 r~~lE~~q~~~e~~q~~l~~~~eei~kL~e~  164 (775)
T PF10174_consen  134 RKTLEELQLRIETQQQTLDKADEEIEKLQEM  164 (775)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5555543336678888888888888888774

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 [].

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

Probab=96.19  E-value=0.55  Score=47.65  Aligned_cols=23  Identities=22%  Similarity=0.235  Sum_probs=18.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHh
Q 039268          193 QRQAMEKNLVSMAREVEKLRAEL  215 (276)
Q Consensus       193 q~qaMEknlisMarEvEKLRaEl  215 (276)
                      ..++||..|..+-+|++.-++--
T Consensus       408 ~i~t~E~rL~aa~ke~eaaKasE  430 (522)
T PF05701_consen  408 AIKTAEERLEAALKEAEAAKASE  430 (522)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            46788888988888888877653

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

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

Probab=96.19  E-value=0.9  Score=46.99  Aligned_cols=92  Identities=24%  Similarity=0.342  Sum_probs=64.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHHhhhHHHHHHHHHHHHH
Q 039268          121 AVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKN  200 (276)
Q Consensus       121 l~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~qaMEkn  200 (276)
                      +..++.++......--+|-+++..+......+..|+   --|++|+..|+.+|.++|..++-|.-.++++.-+.|.+.+.
T Consensus       136 ~~~~re~~~~~~~~l~~leAe~~~~krr~~~le~e~---~~Lk~en~rl~~~l~~~r~~ld~Etllr~d~~n~~q~Llee  212 (546)
T KOG0977|consen  136 RRGAREKLDDYLSRLSELEAEINTLKRRIKALEDEL---KRLKAENSRLREELARARKQLDDETLLRVDLQNRVQTLLEE  212 (546)
T ss_pred             HhhhHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHH---HHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Confidence            333344444444444444455555555544444443   56789999999999999999999999999999999999999


Q ss_pred             HHHHH----HHHHHHHHHh
Q 039268          201 LVSMA----REVEKLRAEL  215 (276)
Q Consensus       201 lisMa----rEvEKLRaEl  215 (276)
                      |--|-    .||..++.-+
T Consensus       213 l~f~~~~h~~eI~e~~~~~  231 (546)
T KOG0977|consen  213 LAFLKRIHKQEIEEERRKA  231 (546)
T ss_pred             HHHHHhccHHHHHHHHHHH
Confidence            98887    5566665543

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

Probab=96.14  E-value=0.4  Score=44.31  Aligned_cols=85  Identities=25%  Similarity=0.346  Sum_probs=39.8

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHHhhhHHHHHHHHH
Q 039268          117 LKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQA  196 (276)
Q Consensus       117 lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~qa  196 (276)
                      +..|+.++|..|..+...+..|..++..+..++..++...   -...+....|..|+..+|..++-+...+.++-.+.++
T Consensus        52 ye~el~~lr~~id~~~~eka~l~~e~~~l~~e~~~~r~k~---e~e~~~~~~le~el~~lrk~ld~~~~~r~~le~~i~~  128 (312)
T PF00038_consen   52 YEEELRELRRQIDDLSKEKARLELEIDNLKEELEDLRRKY---EEELAERKDLEEELESLRKDLDEETLARVDLENQIQS  128 (312)
T ss_dssp             HHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhHHHHhHHhhhhHHHHhhHHhhhhhhHHHHHHHHHHHH---HHHHHHHHHHHHHHhhhhhhhhhhhhhHhHHHHHHHH
Confidence            3444444444444444444444444444444444333222   1123444455555555555555555555555555555


Q ss_pred             HHHHHHHH
Q 039268          197 MEKNLVSM  204 (276)
Q Consensus       197 MEknlisM  204 (276)
                      ++..|-.+
T Consensus       129 L~eEl~fl  136 (312)
T PF00038_consen  129 LKEELEFL  136 (312)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            55554444

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 ....

>KOG2129 consensus Uncharacterized conserved protein H4 [Function unknown]

Probab=96.07  E-value=1.2  Score=45.16  Aligned_cols=126  Identities=33%  Similarity=0.347  Sum_probs=73.7

Q ss_pred             hhhhHHHHHHHHHHhhhhhhhhhhhchhhHH-HHHHHHHHHHHH-HHHHHH-------HHHHHHHHHHH---HHHH----
Q 039268           89 IRAEQEVHVRDLVEKGLKLEADLRATEPLKK-EAVQLRAEVQKL-NNLRNE-------LNGKVQTLQKD---LAKL----  152 (276)
Q Consensus        89 i~ae~e~q~R~l~ek~~KmEAelra~e~lk~-El~q~raE~q~L-~~~Rqe-------L~~qvq~l~~e---L~r~----  152 (276)
                      +..|.|-++-.|+.|+.|+|++--    +|+ -|.|+|-|+=.| +..-||       |-.+++.|.+|   |++-    
T Consensus       152 leqeqef~vnKlm~ki~Klen~t~----~kq~~leQLRre~V~lentlEQEqEalvN~LwKrmdkLe~ekr~Lq~KlDqp  227 (552)
T KOG2129|consen  152 LEQEQEFFVNKLMNKIRKLENKTL----LKQNTLEQLRREAVQLENTLEQEQEALVNSLWKRMDKLEQEKRYLQKKLDQP  227 (552)
T ss_pred             HHHHHHHHHHHHHHHHHHhhhhhH----HhhhhHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCc
Confidence            457888999999999999998521    111 234444443222 223333       33344444444   1110    


Q ss_pred             ------Hhhhcchh--------HHHHHHHHHHHHHHHHHhhhhhHHhhhHHHHHHHHHHHHHHHH-HHHHHHHHHHHhhh
Q 039268          153 ------QADNQQIP--------LLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVS-MAREVEKLRAELTN  217 (276)
Q Consensus       153 ------~ad~qqip--------al~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~qaMEknlis-MarEvEKLRaElan  217 (276)
                            =.|+-.||        +++.=|+-|+.|+-|+|+.+--=.|-+.+.+-|..+=|+++-. -.|+-+||.-|+..
T Consensus       228 vs~p~~prdia~~~~~~gD~a~~~~~hi~~l~~EveRlrt~l~~Aqk~~~ek~~qy~~Ee~~~reen~rlQrkL~~e~er  307 (552)
T KOG2129|consen  228 VSTPSLPRDIAKIPDVHGDEAAAEKLHIDKLQAEVERLRTYLSRAQKSYQEKLMQYRAEEVDHREENERLQRKLINELER  307 (552)
T ss_pred             ccCCCchhhhhcCccccCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHH
Confidence                  01233333        4667788999999999988887777777777776666655532 23445555555544


Q ss_pred             c
Q 039268          218 F  218 (276)
Q Consensus       218 a  218 (276)
                      .
T Consensus       308 R  308 (552)
T KOG2129|consen  308 R  308 (552)
T ss_pred             H
Confidence            3

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

Probab=96.03  E-value=0.6  Score=48.40  Aligned_cols=122  Identities=20%  Similarity=0.286  Sum_probs=95.5

Q ss_pred             HHHHHHHHhhhhhhhhhhhchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHH
Q 039268           95 VHVRDLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELM  174 (276)
Q Consensus        95 ~q~R~l~ek~~KmEAelra~e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElq  174 (276)
                      -+-|+|++++.-.|++=...+.++..-.-++.|+.++.++=..+..+.+.+.+.|.+++++.   -....|++.|+++..
T Consensus       242 ~~n~~l~e~i~e~ek~~~~~eslre~~~~L~~D~nK~~~y~~~~~~k~~~~~~~l~~l~~Ei---e~kEeE~e~lq~~~d  318 (581)
T KOG0995|consen  242 KTNRELEEMINEREKDPGKEESLREKKARLQDDVNKFQAYVSQMKSKKQHMEKKLEMLKSEI---EEKEEEIEKLQKEND  318 (581)
T ss_pred             HHHHHHHHHHHHHhcCcchHHHHHHHHHHHHhHHHHHHHHHHHHHhhhHHHHHHHHHHHHHH---HHHHHHHHHHHHHHH
Confidence            45678888888777777777889988888999999999999999999999999999988775   556678889999998


Q ss_pred             HHHhhhhhHHhhhHHHHHHH----HHHHHHHHHHHHHHHHHHHHhhhccC
Q 039268          175 HARAAVDYEKKANIELMEQR----QAMEKNLVSMAREVEKLRAELTNFDG  220 (276)
Q Consensus       175 r~Raa~EyEKk~~~e~~Eq~----qaMEknlisMarEvEKLRaElanae~  220 (276)
                      .++.-||.- +-..+-+++|    +..++++.-|..++++|+-++=+.+-
T Consensus       319 ~Lk~~Ie~Q-~iS~~dve~mn~Er~~l~r~l~~i~~~~d~l~k~vw~~~l  367 (581)
T KOG0995|consen  319 ELKKQIELQ-GISGEDVERMNLERNKLKRELNKIQSELDRLSKEVWELKL  367 (581)
T ss_pred             HHHHHHHhc-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHH
Confidence            888888765 4445555544    45677777777777777776655443

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

Probab=95.96  E-value=0.35  Score=49.38  Aligned_cols=173  Identities=14%  Similarity=0.271  Sum_probs=120.0

Q ss_pred             hHHHHHHHHHHHh----hhccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhH--------HHHHHHHHHhhhhh
Q 039268           40 LEEELEIQHAEIQ----RLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQ--------EVHVRDLVEKGLKL  107 (276)
Q Consensus        40 LEe~l~~Q~~Eiq----rLl~dNqRLaatHvaLrqeLaaaq~Elqrl~~~~~~i~ae~--------e~q~R~l~ek~~Km  107 (276)
                      +...+-.|-.|++    .+..  +.+.-.|..+-.+|...+..|..+...+..+.-+.        ..+|-.||+   .|
T Consensus       220 l~~~~P~ql~eL~~gy~~m~~--~gy~l~~~~i~~~i~~i~~~l~~~~~~L~~l~l~~~~~~~~~i~~~Id~lYd---~l  294 (560)
T PF06160_consen  220 LQKEFPDQLEELKEGYREMEE--EGYYLEHLDIEEEIEQIEEQLEEALALLKNLELDEVEEENEEIEERIDQLYD---IL  294 (560)
T ss_pred             HHHHhHHHHHHHHHHHHHHHH--CCCCCCCCCHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHH---HH
Confidence            3445555555544    3333  33556677888888888888888877777655433        244555555   57


Q ss_pred             hhhhhhchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHHhhh
Q 039268          108 EADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKAN  187 (276)
Q Consensus       108 EAelra~e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~EyEKk~~  187 (276)
                      |.|+.|...+...+..+..-+..+...-++|..++..+.+--.=...+...+-.+..+|+.+...+......++..+..+
T Consensus       295 e~E~~Ak~~V~~~~~~l~~~l~~~~~~~~~l~~e~~~v~~sY~L~~~e~~~~~~l~~~l~~l~~~~~~~~~~i~~~~~~y  374 (560)
T PF06160_consen  295 EKEVEAKKYVEKNLKELYEYLEHAKEQNKELKEELERVSQSYTLNHNELEIVRELEKQLKELEKRYEDLEERIEEQQVPY  374 (560)
T ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCcCH
Confidence            88888888888888877777777666666666666666655333345677777888888999999999999999988888


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 039268          188 IELMEQRQAMEKNLVSMAREVEKLRAELTN  217 (276)
Q Consensus       188 ~e~~Eq~qaMEknlisMarEvEKLRaElan  217 (276)
                      .+..+.++.+.++|..+-.+..++...|.+
T Consensus       375 S~i~~~l~~~~~~l~~ie~~q~~~~~~l~~  404 (560)
T PF06160_consen  375 SEIQEELEEIEEQLEEIEEEQEEINESLQS  404 (560)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            888888777777777666665555544444

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

>PRK04778 septation ring formation regulator EzrA; Provisional

Probab=95.95  E-value=0.34  Score=49.44  Aligned_cols=162  Identities=14%  Similarity=0.235  Sum_probs=91.3

Q ss_pred             ccchhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhHH-HHHHHHHHhhh----hhhhhhhhchhhHHHHHHHHHHHHHHHH
Q 039268           59 RRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQE-VHVRDLVEKGL----KLEADLRATEPLKKEAVQLRAEVQKLNN  133 (276)
Q Consensus        59 qRLaatHvaLrqeLaaaq~Elqrl~~~~~~i~ae~e-~q~R~l~ek~~----KmEAelra~e~lk~El~q~raE~q~L~~  133 (276)
                      +...-+|..+-.+|...+..|......+..++-+.= ..+..+-+++-    .||.|+.|..-+......+...+..+..
T Consensus       245 ~gy~~~~~~i~~~i~~l~~~i~~~~~~l~~l~l~~~~~~~~~i~~~Id~Lyd~lekE~~A~~~vek~~~~l~~~l~~~~e  324 (569)
T PRK04778        245 EGYHLDHLDIEKEIQDLKEQIDENLALLEELDLDEAEEKNEEIQERIDQLYDILEREVKARKYVEKNSDTLPDFLEHAKE  324 (569)
T ss_pred             cCCCCCCCChHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            455667778888888888888887777776655442 22333333332    3455555555555555544444444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHH-------HHHHHhhhhhHHhhhHHHHHHHHHHHHHHHHHHH
Q 039268          134 LRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQE-------LMHARAAVDYEKKANIELMEQRQAMEKNLVSMAR  206 (276)
Q Consensus       134 ~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqE-------lqr~Raa~EyEKk~~~e~~Eq~qaMEknlisMar  206 (276)
                      .-++|..+++.+.+.-.-...|+..+-.+..+|+.+...       +......|..-++...++.++...+++....+..
T Consensus       325 ~~~~l~~Ei~~l~~sY~l~~~e~~~~~~lekeL~~Le~~~~~~~~~i~~~~~~ysel~e~leel~e~leeie~eq~ei~e  404 (569)
T PRK04778        325 QNKELKEEIDRVKQSYTLNESELESVRQLEKQLESLEKQYDEITERIAEQEIAYSELQEELEEILKQLEEIEKEQEKLSE  404 (569)
T ss_pred             HHHHHHHHHHHHHHccccCchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444444444444443111122333344444444444444       4444444555556666777777777777788887


Q ss_pred             HHHHHHHHhhhccC
Q 039268          207 EVEKLRAELTNFDG  220 (276)
Q Consensus       207 EvEKLRaElanae~  220 (276)
                      .|..||.+...+.+
T Consensus       405 ~l~~Lrk~E~eAr~  418 (569)
T PRK04778        405 MLQGLRKDELEARE  418 (569)
T ss_pred             HHHHHHHHHHHHHH
Confidence            78888877766644

>PF07798 DUF1640: Protein of unknown function (DUF1640); InterPro: IPR024461 This family consists of uncharacterised proteins

Probab=95.85  E-value=0.4  Score=41.85  Aligned_cols=40  Identities=20%  Similarity=0.319  Sum_probs=23.0

Q ss_pred             hhhccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhHH
Q 039268           52 QRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQE   94 (276)
Q Consensus        52 qrLl~dNqRLaatHvaLrqeLaaaq~Elqrl~~~~~~i~ae~e   94 (276)
                      ..++.+|-..+.+.++-|.++...   ...+.+.+..+++|-.
T Consensus        29 ~~~l~~~~~~~~~~~vtk~d~e~~---~~~~~a~~~eLr~el~   68 (177)
T PF07798_consen   29 REVLNDSLEKVAQDLVTKSDLENQ---EYLFKAAIAELRSELQ   68 (177)
T ss_pred             HHHHHHHHHHHHHHHHhHHHHHHH---HHHHHHHHHHHHHHHH
Confidence            345666655555666666666553   3344466666666654

>PF13514 AAA_27: AAA domain

Probab=95.81  E-value=1.8  Score=47.38  Aligned_cols=134  Identities=25%  Similarity=0.320  Sum_probs=84.3

Q ss_pred             HHHHhhhccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhHH-----HHHHHHHHhhhhhhhhhhhc-------h
Q 039268           48 HAEIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQE-----VHVRDLVEKGLKLEADLRAT-------E  115 (276)
Q Consensus        48 ~~EiqrLl~dNqRLaatHvaLrqeLaaaq~Elqrl~~~~~~i~ae~e-----~q~R~l~ek~~KmEAelra~-------e  115 (276)
                      ..|+++=+.+..--+.+...|++++..++++++.+...+..++.+..     .++..++.....++++|-..       +
T Consensus       159 l~e~~~~l~~~~~~~~~y~~l~~~~~~~~~~~~~l~~~~~~l~~~~~~ler~~~~~p~~~~~~~l~~~l~~l~~~~~~p~  238 (1111)
T PF13514_consen  159 LKELERELREAEVRAAEYQELQQALEEAEEELEELRAELKELRAELRRLERLRRAWPLLAELQQLEAELAELGEVPDFPE  238 (1111)
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhcCCcCCCCh
Confidence            33444444444555677788888888888888888888888888766     55566777777777776633       1


Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHH-----------------------HHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHH
Q 039268          116 PLKKEAVQLRAEVQKLNNLRNELN-----------------------GKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQE  172 (276)
Q Consensus       116 ~lk~El~q~raE~q~L~~~RqeL~-----------------------~qvq~l~~eL~r~~ad~qqipal~aEie~lrqE  172 (276)
                      .....+.++..++..+......+.                       ..|..|...+.......+.+|.+..++..++.+
T Consensus       239 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~l~~~~~~l~~~~~ll~~~~~I~~L~~~~~~~~~~~~dl~~~~~e~~~~~~~  318 (1111)
T PF13514_consen  239 DGAERLEQLEEELAEAQAQLERLQEELAQLEEELDALPVDEELLAHAAEIEALEEQRGEYRKARQDLPRLEAELAELEAE  318 (1111)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            122233333333333333333333                       334445555555666677788888888888888


Q ss_pred             HHHHHhhhh
Q 039268          173 LMHARAAVD  181 (276)
Q Consensus       173 lqr~Raa~E  181 (276)
                      +..+-+.+.
T Consensus       319 ~~~~~~~lg  327 (1111)
T PF13514_consen  319 LRALLAQLG  327 (1111)
T ss_pred             HHHHHHhcC
Confidence            877766665

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

Probab=95.81  E-value=0.43  Score=41.24  Aligned_cols=36  Identities=31%  Similarity=0.422  Sum_probs=20.1

Q ss_pred             ccchhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhHH
Q 039268           59 RRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQE   94 (276)
Q Consensus        59 qRLaatHvaLrqeLaaaq~Elqrl~~~~~~i~ae~e   94 (276)
                      .++...-..+++.|...++|+..+...+.+...+-+
T Consensus        77 ~~~~~e~~~~~~~l~~l~~el~~l~~~~~~~~~~l~  112 (191)
T PF04156_consen   77 PRLQGELSELQQQLQQLQEELDQLQERIQELESELE  112 (191)
T ss_pred             hhhhhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444445555556666666666666665554444443

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

>PHA02562 46 endonuclease subunit; Provisional

Probab=95.75  E-value=1.2  Score=44.09  Aligned_cols=22  Identities=18%  Similarity=0.354  Sum_probs=8.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q 039268          129 QKLNNLRNELNGKVQTLQKDLA  150 (276)
Q Consensus       129 q~L~~~RqeL~~qvq~l~~eL~  150 (276)
                      ..|...+++|..++..+...+.
T Consensus       302 ~~l~d~i~~l~~~l~~l~~~i~  323 (562)
T PHA02562        302 TKIKDKLKELQHSLEKLDTAID  323 (562)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            3333344444444444443333

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

Probab=95.72  E-value=1.9  Score=40.67  Aligned_cols=27  Identities=19%  Similarity=0.314  Sum_probs=17.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhccCC
Q 039268          195 QAMEKNLVSMAREVEKLRAELTNFDGR  221 (276)
Q Consensus       195 qaMEknlisMarEvEKLRaElanae~r  221 (276)
                      ...+..+..+..++.++++++..++..
T Consensus       242 ~~~~~~l~~~~~~l~~~~~~l~~~~~~  268 (423)
T TIGR01843       242 EEVLEELTEAQARLAELRERLNKARDR  268 (423)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334445566667777777777776543

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

>PHA02562 46 endonuclease subunit; Provisional

Probab=95.71  E-value=1.1  Score=44.34  Aligned_cols=20  Identities=20%  Similarity=0.458  Sum_probs=8.4

Q ss_pred             HHHHHHHHHHHHHHHHhhhh
Q 039268          162 LRAEIDGLHQELMHARAAVD  181 (276)
Q Consensus       162 l~aEie~lrqElqr~Raa~E  181 (276)
                      |...++.++.++......+.
T Consensus       304 l~d~i~~l~~~l~~l~~~i~  323 (562)
T PHA02562        304 IKDKLKELQHSLEKLDTAID  323 (562)
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            33344444444444444433

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

Probab=95.62  E-value=0.88  Score=44.80  Aligned_cols=49  Identities=18%  Similarity=0.293  Sum_probs=27.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhh
Q 039268          132 NNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAV  180 (276)
Q Consensus       132 ~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~  180 (276)
                      .+....|..++..+.+++.+++.+.+++|....|+..|..|+.-.+..|
T Consensus       323 ~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~el~~L~Re~~~~~~~Y  371 (498)
T TIGR03007       323 EAEIASLEARVAELTARIERLESLLRTIPEVEAELTQLNRDYEVNKSNY  371 (498)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHHHHHHH
Confidence            3333444455555555556666666666666666666655555555443

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.

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

Probab=95.60  E-value=1.2  Score=41.53  Aligned_cols=132  Identities=24%  Similarity=0.289  Sum_probs=73.2

Q ss_pred             HHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhhhhhhhchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039268           72 LAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAK  151 (276)
Q Consensus        72 Laaaq~Elqrl~~~~~~i~ae~e~q~R~l~ek~~KmEAelra~e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r  151 (276)
                      |+....++-++..-+..++.+-+..--++-.....+++=--+.+.|+.++-+...|++++..-...+..++...+.+ ..
T Consensus        12 iq~lD~e~~rl~~~~~~~~~~l~k~~~e~e~~~~~~~~~~~e~e~le~qv~~~e~ei~~~r~r~~~~e~kl~~v~~~-~e   90 (239)
T COG1579          12 IQKLDLEKDRLEPRIKEIRKALKKAKAELEALNKALEALEIELEDLENQVSQLESEIQEIRERIKRAEEKLSAVKDE-RE   90 (239)
T ss_pred             HHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccH-HH
Confidence            33444444444444443333333322223233333333333444488888888888888777666666655333322 22


Q ss_pred             HHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHHhhhHHHHHHHHHHHHHHHHH
Q 039268          152 LQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSM  204 (276)
Q Consensus       152 ~~ad~qqipal~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~qaMEknlisM  204 (276)
                      +.+=..-+-.++..+.+|..||.++.-.++.-.+--.++.+....+|+|+...
T Consensus        91 ~~aL~~E~~~ak~r~~~le~el~~l~~~~~~l~~~i~~l~~~~~~~e~~~~e~  143 (239)
T COG1579          91 LRALNIEIQIAKERINSLEDELAELMEEIEKLEKEIEDLKERLERLEKNLAEA  143 (239)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            22222233445556667777777777777666666677777888888877644

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

Probab=95.59  E-value=2.9  Score=42.05  Aligned_cols=7  Identities=29%  Similarity=0.510  Sum_probs=3.4

Q ss_pred             CCCCCCC
Q 039268          226 GGPYGMN  232 (276)
Q Consensus       226 g~~Yg~~  232 (276)
                      |.+|.+.
T Consensus       273 ~~~~~~~  279 (420)
T COG4942         273 GETYKPT  279 (420)
T ss_pred             CCCcCCC
Confidence            4555443

>PRK09039 hypothetical protein; Validated

Probab=95.51  E-value=2.3  Score=41.18  Aligned_cols=53  Identities=15%  Similarity=0.352  Sum_probs=29.6

Q ss_pred             hhhHHHHHHHHHHHhhh---ccccccchhhHHHH-HHHHHHHHHHHHHHHHHHHHhhhhHH
Q 039268           38 ALLEEELEIQHAEIQRL---LGDNRRLVEDRMAM-QRELAAAKEELHRMNLVIGEIRAEQE   94 (276)
Q Consensus        38 ~~LEe~l~~Q~~EiqrL---l~dNqRLaatHvaL-rqeLaaaq~Elqrl~~~~~~i~ae~e   94 (276)
                      -+|.+.|..+..|+.+|   +.+   |+ ....| ++....++++|..|......++++++
T Consensus        42 ~fLs~~i~~~~~eL~~L~~qIa~---L~-e~L~le~~~~~~l~~~l~~l~~~l~~a~~~r~   98 (343)
T PRK09039         42 FFLSREISGKDSALDRLNSQIAE---LA-DLLSLERQGNQDLQDSVANLRASLSAAEAERS   98 (343)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHH---HH-HHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHH
Confidence            46788888888877777   333   22 22222 23445555566666655555555554

>smart00787 Spc7 Spc7 kinetochore protein

Probab=95.51  E-value=0.39  Score=46.10  Aligned_cols=107  Identities=21%  Similarity=0.298  Sum_probs=51.8

Q ss_pred             chhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHH-HHHHHHHHHHHHHHHhhhhhHHhhhHHHHH
Q 039268          114 TEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLL-RAEIDGLHQELMHARAAVDYEKKANIELME  192 (276)
Q Consensus       114 ~e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal-~aEie~lrqElqr~Raa~EyEKk~~~e~~E  192 (276)
                      .+.|+.+...+..+++.+...--+|....+.+..|+..++.-...+-.. ..|++.+|.+|...-..++.-++.-.++-+
T Consensus       153 ~~~l~~D~~~L~~~~~~l~~~~~~l~~~~~~L~~e~~~L~~~~~e~~~~d~~eL~~lk~~l~~~~~ei~~~~~~l~e~~~  232 (312)
T smart00787      153 LEGLKEDYKLLMKELELLNSIKPKLRDRKDALEEELRQLKQLEDELEDCDPTELDRAKEKLKKLLQEIMIKVKKLEELEE  232 (312)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3555555555555566665555555555555555544433322111110 123344444444444444444444444445


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhccC
Q 039268          193 QRQAMEKNLVSMAREVEKLRAELTNFDG  220 (276)
Q Consensus       193 q~qaMEknlisMarEvEKLRaElanae~  220 (276)
                      |++..+..+-....+...++.+|+.+++
T Consensus       233 ~l~~l~~~I~~~~~~k~e~~~~I~~ae~  260 (312)
T smart00787      233 ELQELESKIEDLTNKKSELNTEIAEAEK  260 (312)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5555555555555555555555555544

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

>KOG0161 consensus Myosin class II heavy chain [Cytoskeleton]

Probab=95.39  E-value=2.3  Score=49.74  Aligned_cols=35  Identities=26%  Similarity=0.353  Sum_probs=15.4

Q ss_pred             HHHHHHHHHHHHHHhhhhhHHhhhHHHHHHHHHHH
Q 039268          164 AEIDGLHQELMHARAAVDYEKKANIELMEQRQAME  198 (276)
Q Consensus       164 aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~qaME  198 (276)
                      +.|+.|.++|..-|++-.-.+|.+.++.+.+.+..
T Consensus      1104 ~~i~el~e~le~er~~r~K~ek~r~dL~~ele~l~ 1138 (1930)
T KOG0161|consen 1104 ARIKELEEELEAERASRAKAERQRRDLSEELEELK 1138 (1930)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444444444444444444444333

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

Probab=95.33  E-value=0.89  Score=52.58  Aligned_cols=160  Identities=23%  Similarity=0.298  Sum_probs=113.8

Q ss_pred             HHhhhccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhhhhhhhchhhHHHHHHHHHHHH
Q 039268           50 EIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRATEPLKKEAVQLRAEVQ  129 (276)
Q Consensus        50 EiqrLl~dNqRLaatHvaLrqeLaaaq~Elqrl~~~~~~i~ae~e~q~R~l~ek~~KmEAelra~e~lk~El~q~raE~q  129 (276)
                      ++.-+-.||.||-.+|..+.+++..++..|-...+-- ..-+....+.-+++.++.-|=.       |+.-=..+|.|..
T Consensus      1168 k~~~lk~e~~~L~qq~~~~~k~i~dL~~sL~~~r~~~-q~~a~s~~e~~~i~~~v~~vNl-------l~EsN~~LRee~~ 1239 (1822)
T KOG4674|consen 1168 KLDTLKRENARLKQQVASLNRTIDDLQRSLTAERASS-QKSAVSDDEHKEILEKVEEVNL-------LRESNKVLREENE 1239 (1822)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh-ccchhhhhhhhHHHHHHHHHHH-------HHHhHHHHHHHHH
Confidence            3444566777777777666666665554443332111 0113334555555555554444       5555556677777


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHHhhhHHHHHHHHHHHHH-HHHHHHHH
Q 039268          130 KLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKN-LVSMAREV  208 (276)
Q Consensus       130 ~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~qaMEkn-lisMarEv  208 (276)
                      .+..-.|||..+++.+..|+..++.++   ..++++|+....|+-.++...+-=|+-+.+++++-+--.+| +-....||
T Consensus      1240 ~~~~k~qEl~~~i~kl~~el~plq~~l---~el~~e~~~~~ael~~l~~e~~~wK~R~q~L~~k~k~~d~~~~~kL~~ei 1316 (1822)
T KOG4674|consen 1240 ANLEKIQELRDKIEKLNFELAPLQNEL---KELKAELQEKVAELKKLEEENDRWKQRNQDLLEKYKDSDKNDYEKLKSEI 1316 (1822)
T ss_pred             HHHHHHHHHHHHHHHHHhhHhhHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHH
Confidence            777778999999999999999999887   56788999999999999999999999999999996555544 55677799


Q ss_pred             HHHHHHhhhccC
Q 039268          209 EKLRAELTNFDG  220 (276)
Q Consensus       209 EKLRaElanae~  220 (276)
                      .+|..||.+.++
T Consensus      1317 ~~Lk~el~~ke~ 1328 (1822)
T KOG4674|consen 1317 SRLKEELEEKEN 1328 (1822)
T ss_pred             HHHHHHHHHHHH
Confidence            999999997764

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

Probab=95.30  E-value=1.9  Score=45.20  Aligned_cols=149  Identities=20%  Similarity=0.308  Sum_probs=90.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhHHH---HHHHHHHhhhhhhhhhhhch-----h-hHHHHHHHHHHHHHHHHHHH
Q 039268           66 MAMQRELAAAKEELHRMNLVIGEIRAEQEV---HVRDLVEKGLKLEADLRATE-----P-LKKEAVQLRAEVQKLNNLRN  136 (276)
Q Consensus        66 vaLrqeLaaaq~Elqrl~~~~~~i~ae~e~---q~R~l~ek~~KmEAelra~e-----~-lk~El~q~raE~q~L~~~Rq  136 (276)
                      .-|+.+-+..++.++-|+.-+..++.|++.   +|.+|=..+.+|...+...-     + ....-.+++.|++.|.....
T Consensus        18 ~~lk~e~a~~qqr~~qmseev~~L~eEk~~~~~~V~eLE~sL~eLk~q~~~~~~~~~pa~pse~E~~Lq~E~~~L~kElE   97 (617)
T PF15070_consen   18 QQLKEESAQWQQRMQQMSEEVRTLKEEKEHDISRVQELERSLSELKNQMAEPPPPEPPAGPSEVEQQLQAEAEHLRKELE   97 (617)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCccccccchHHHHHHHHHHHHHHHHHH
Confidence            458888889999999999999999999984   45555566666665544221     0 11112356666666666666


Q ss_pred             HHHHHHHHHHHH---HHHHH-hhhcchhHHH----------HHHHHHHHHHHHHHhhhhhHHhhhHHHHHHHHHHHHHHH
Q 039268          137 ELNGKVQTLQKD---LAKLQ-ADNQQIPLLR----------AEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLV  202 (276)
Q Consensus       137 eL~~qvq~l~~e---L~r~~-ad~qqipal~----------aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~qaMEknli  202 (276)
                      .|.++++...++   |.++. .--.+|-.+.          .+...|-..++.-++++----.-|-++-+|+..|+..+|
T Consensus        98 ~L~~qlqaqv~~ne~Ls~L~~EqEerL~ELE~~le~~~e~~~D~~kLLe~lqsdk~t~SRAlsQN~eLK~QL~Elq~~Fv  177 (617)
T PF15070_consen   98 SLEEQLQAQVENNEQLSRLNQEQEERLAELEEELERLQEQQEDRQKLLEQLQSDKATASRALSQNRELKEQLAELQDAFV  177 (617)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccchHHHHHHHhHHHHHHHHHHHHHHHH
Confidence            666666655433   22221 1112222222          333344444445555555555667888899999999999


Q ss_pred             HHHHH----HHHHHHH
Q 039268          203 SMARE----VEKLRAE  214 (276)
Q Consensus       203 sMarE----vEKLRaE  214 (276)
                      .|..|    ..+|-+|
T Consensus       178 ~ltne~~elt~~lq~E  193 (617)
T PF15070_consen  178 KLTNENMELTSALQSE  193 (617)
T ss_pred             HHHHhhhHhhHHHHHH
Confidence            98887    4555444

>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=95.29  E-value=0.45  Score=40.01  Aligned_cols=90  Identities=20%  Similarity=0.294  Sum_probs=66.2

Q ss_pred             hhhchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHHhhhHHH
Q 039268          111 LRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIEL  190 (276)
Q Consensus       111 lra~e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~EyEKk~~~e~  190 (276)
                      +..++-|...|.+..+|+..|...-..|..+-..++.||.++-.++..+-+...+++.|+.|+..+..-++--=-..-|.
T Consensus        15 ~~~ve~L~s~lr~~E~E~~~l~~el~~l~~~r~~l~~Eiv~l~~~~e~~~~~~~~~~~L~~el~~l~~ry~t~LellGEK   94 (120)
T PF12325_consen   15 VQLVERLQSQLRRLEGELASLQEELARLEAERDELREEIVKLMEENEELRALKKEVEELEQELEELQQRYQTLLELLGEK   94 (120)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcch
Confidence            34567788999999999999999999999999999999999998888888888888888888877766543333333333


Q ss_pred             HHHHHHHHHH
Q 039268          191 MEQRQAMEKN  200 (276)
Q Consensus       191 ~Eq~qaMEkn  200 (276)
                      .|+......+
T Consensus        95 ~E~veEL~~D  104 (120)
T PF12325_consen   95 SEEVEELRAD  104 (120)
T ss_pred             HHHHHHHHHH
Confidence            4433333333

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 [].

>smart00787 Spc7 Spc7 kinetochore protein

Probab=95.25  E-value=0.86  Score=43.74  Aligned_cols=36  Identities=17%  Similarity=0.277  Sum_probs=21.5

Q ss_pred             ccchhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhHH
Q 039268           59 RRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQE   94 (276)
Q Consensus        59 qRLaatHvaLrqeLaaaq~Elqrl~~~~~~i~ae~e   94 (276)
                      ..|...+-.|+.|....-..+..++.....++...+
T Consensus       147 ~~L~~~~~~l~~D~~~L~~~~~~l~~~~~~l~~~~~  182 (312)
T smart00787      147 EGLDENLEGLKEDYKLLMKELELLNSIKPKLRDRKD  182 (312)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            445666666666666666666666665555544333

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

>PF07798 DUF1640: Protein of unknown function (DUF1640); InterPro: IPR024461 This family consists of uncharacterised proteins

Probab=95.20  E-value=1.9  Score=37.60  Aligned_cols=16  Identities=25%  Similarity=0.586  Sum_probs=11.1

Q ss_pred             HHHHHHHHHHHHhhhc
Q 039268          203 SMAREVEKLRAELTNF  218 (276)
Q Consensus       203 sMarEvEKLRaElana  218 (276)
                      .+..||..||++|+++
T Consensus       135 ki~~ei~~lr~~iE~~  150 (177)
T PF07798_consen  135 KIDTEIANLRTEIESL  150 (177)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            3566677788888764

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

Probab=95.19  E-value=4.5  Score=43.55  Aligned_cols=178  Identities=19%  Similarity=0.206  Sum_probs=99.5

Q ss_pred             hhHHHHHHHHHHHhhhccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHH----------HHHHhhhhhh
Q 039268           39 LLEEELEIQHAEIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVR----------DLVEKGLKLE  108 (276)
Q Consensus        39 ~LEe~l~~Q~~EiqrLl~dNqRLaatHvaLrqeLaaaq~Elqrl~~~~~~i~ae~e~q~R----------~l~ek~~KmE  108 (276)
                      -++-.|.--..||..|-....-+...|..+|+.|.+.+.+|....+...-+++|.|.=--          .--..+.++.
T Consensus       291 ~~~~eL~rk~~E~~~~qt~l~~~~~~~~d~r~hi~~lkesl~~ke~~~~~Lqsdve~Lr~rle~k~~~l~kk~~~~~~~q  370 (775)
T PF10174_consen  291 RLKLELSRKKSELEALQTRLETLEEQDSDMRQHIEVLKESLRAKEQEAEMLQSDVEALRFRLEEKNSQLEKKQAQIEKLQ  370 (775)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344455666678888888888888889888888888888888888888888888763222          2222233344


Q ss_pred             hhhhh----chhhHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHH--HhhhcchhHHHHHHHHHHHHHHHHHh
Q 039268          109 ADLRA----TEPLKKEAVQLRAEVQKLNNLR----NELNGKVQTLQKDLAKL--QADNQQIPLLRAEIDGLHQELMHARA  178 (276)
Q Consensus       109 Aelra----~e~lk~El~q~raE~q~L~~~R----qeL~~qvq~l~~eL~r~--~ad~qqipal~aEie~lrqElqr~Ra  178 (276)
                      .|+-.    ++-++..+.....+|..|..--    ..|..+-..+..+..|+  ++|....--+...||....|..+.+.
T Consensus       371 eE~~~~~~Ei~~l~d~~d~~e~ki~~Lq~kie~Lee~l~ekd~ql~~~k~Rl~~~~d~~~~~~~~~~lEea~~eker~~e  450 (775)
T PF10174_consen  371 EEKSRLQGEIEDLRDMLDKKERKINVLQKKIENLEEQLREKDRQLDEEKERLSSQADSSNEDEALETLEEALREKERLQE  450 (775)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccccchHHHHHHHHHHHHHHHHHHH
Confidence            43322    1223333333333333333321    22222222333333333  45666666677777777777777777


Q ss_pred             hhhhHHhhh-HHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 039268          179 AVDYEKKAN-IELMEQRQAMEKNLVSMAREVEKLRAELT  216 (276)
Q Consensus       179 a~EyEKk~~-~e~~Eq~qaMEknlisMarEvEKLRaEla  216 (276)
                      .|+....-. .+..++...+.+-+-..-.+|+.|..+|.
T Consensus       451 ~l~e~r~~~e~e~~Eele~~~~e~~~lk~~~~~LQ~eLs  489 (775)
T PF10174_consen  451 RLEEQRERAEKERQEELETYQKELKELKAKLESLQKELS  489 (775)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhH
Confidence            776443211 13345555555555555555555555544

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 [].

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

Probab=95.11  E-value=0.55  Score=41.47  Aligned_cols=44  Identities=25%  Similarity=0.358  Sum_probs=27.0

Q ss_pred             HHHHHHHHHHHHHHHHhhhhhHHhhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 039268          162 LRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKL  211 (276)
Q Consensus       162 l~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~qaMEknlisMarEvEKL  211 (276)
                      |+.|+.+|+=++-.+-..+.--++-|.++++..      |-.|++|+++|
T Consensus       149 l~DE~~~L~l~~~~~e~k~~~l~~En~~Lv~Rw------m~~k~~eAe~m  192 (194)
T PF08614_consen  149 LQDELQALQLQLNMLEEKLRKLEEENRELVERW------MQRKAQEAERM  192 (194)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHH-
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHh
Confidence            346666666666666666555566666666654      55577777765

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.

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

Probab=95.06  E-value=0.45  Score=45.48  Aligned_cols=94  Identities=20%  Similarity=0.341  Sum_probs=47.7

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHHhhhHHHHHHHH
Q 039268          116 PLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQ  195 (276)
Q Consensus       116 ~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~q  195 (276)
                      ....+..++..|+++|.....+|..++..+.+|...+..++.++-.-..+++....++.+....+..+   ..+..+..+
T Consensus        40 ~~~~~~~~~~~el~~le~Ee~~l~~eL~~LE~e~~~l~~el~~le~e~~~l~~eE~~~~~~~n~~~~~---l~~~~~e~~  116 (314)
T PF04111_consen   40 DSEEDIEELEEELEKLEQEEEELLQELEELEKEREELDQELEELEEELEELDEEEEEYWREYNELQLE---LIEFQEERD  116 (314)
T ss_dssp             --HH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHH
T ss_pred             CcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHH
Confidence            34445555666666666666666666666666655555443332222233333333444444444433   334445555


Q ss_pred             HHHHHHHHHHHHHHHHH
Q 039268          196 AMEKNLVSMAREVEKLR  212 (276)
Q Consensus       196 aMEknlisMarEvEKLR  212 (276)
                      .++..+..+...+++||
T Consensus       117 sl~~q~~~~~~~L~~L~  133 (314)
T PF04111_consen  117 SLKNQYEYASNQLDRLR  133 (314)
T ss_dssp             HHHHHHHHHHHHHHCHH
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            56666666666677765

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.

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

Probab=95.04  E-value=3.5  Score=45.84  Aligned_cols=70  Identities=21%  Similarity=0.340  Sum_probs=41.1

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHHh
Q 039268          116 PLKKEAVQLRAEVQKLNNLRNELNGKVQTLQK-DLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKK  185 (276)
Q Consensus       116 ~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~-eL~r~~ad~qqipal~aEie~lrqElqr~Raa~EyEKk  185 (276)
                      .+..++..+.+++..+...-+.+..+-...-+ ++..+..++.++|.++.+++.++.++.-+-+++.--..
T Consensus       310 ~~~~~~~~~~~~l~~~~~~L~~i~~~~~~ye~~~i~~~~~~~~~l~~~~~~~~~l~~~~~~Lt~~~~di~~  380 (1201)
T PF12128_consen  310 ELNKELSALNADLARIKSELDEIEQQKKDYEDADIEQLIARVDQLPEWRNELENLQEQLDLLTSKHQDIES  380 (1201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444445555555555444444444444433 36667777777888888887777777666665544333

>KOG4807 consensus F-actin binding protein, regulates actin cytoskeletal organization [Cytoskeleton]

Probab=94.93  E-value=2.8  Score=42.50  Aligned_cols=176  Identities=22%  Similarity=0.325  Sum_probs=105.3

Q ss_pred             CChhhhHHHHHHHHHHHhhhccccccch-----hhHHHHHHHHHHHHHHHHH--------------HH----HHHHHhhh
Q 039268           35 PHPALLEEELEIQHAEIQRLLGDNRRLV-----EDRMAMQRELAAAKEELHR--------------MN----LVIGEIRA   91 (276)
Q Consensus        35 p~P~~LEe~l~~Q~~EiqrLl~dNqRLa-----atHvaLrqeLaaaq~Elqr--------------l~----~~~~~i~a   91 (276)
                      .|-..+||-----.+|+++|--+-.||-     +|..|+.-=-.+-+.|+.|              |.    ....+++-
T Consensus       349 tHQkkiEdLQRqHqRELekLreEKdrLLAEETAATiSAIEAMKnAhrEEmeRELeKsqSvnsdveaLRrQyleelqsvqR  428 (593)
T KOG4807|consen  349 THQKKIEDLQRQHQRELEKLREEKDRLLAEETAATISAIEAMKNAHREEMERELEKSQSVNSDVEALRRQYLEELQSVQR  428 (593)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHhhhccccChHHHHHHHHHHHHHHHH
Confidence            5677888744444467888877776653     4444432222222222222              21    12233444


Q ss_pred             hHHHHHHHHHHhhhhhhhhhhhchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-----------------
Q 039268           92 EQEVHVRDLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQA-----------------  154 (276)
Q Consensus        92 e~e~q~R~l~ek~~KmEAelra~e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~a-----------------  154 (276)
                      |-++-.--.-+|.+..-+=+++.|+-+.-|.|-+-|-|.|.+.-|||...+..   |+.|++.                 
T Consensus       429 ELeVLSEQYSQKCLEnahLaqalEaerqaLRqCQrEnQELnaHNQELnnRLaa---EItrLRtlltgdGgGtGsplaqgk  505 (593)
T KOG4807|consen  429 ELEVLSEQYSQKCLENAHLAQALEAERQALRQCQRENQELNAHNQELNNRLAA---EITRLRTLLTGDGGGTGSPLAQGK  505 (593)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHH---HHHHHHHHhccCCCCCCCccccCc
Confidence            44433334446666666777788888888999999999999999999876532   3333221                 


Q ss_pred             -----------hhcchhHHHHHHHHHHHHHHHHHhhhhhHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 039268          155 -----------DNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAELT  216 (276)
Q Consensus       155 -----------d~qqipal~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~qaMEknlisMarEvEKLRaEla  216 (276)
                                 .-..|--|+.||..|+-|||-+-.+-.|=...|.+.+-.+-...   ..--.+|+.|...|-
T Consensus       506 dayELEVLLRVKEsEiQYLKqEissLkDELQtalrDKkyaSdKYkDiYtELSiaK---akadcdIsrLKEqLk  575 (593)
T KOG4807|consen  506 DAYELEVLLRVKESEIQYLKQEISSLKDELQTALRDKKYASDKYKDIYTELSIAK---AKADCDISRLKEQLK  575 (593)
T ss_pred             chhhHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHhhhhccccchhHHHHHHHHHH---HhhhccHHHHHHHHH
Confidence                       11235567888888898988888777777777766664432211   112235777766653

>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=94.89  E-value=2.9  Score=46.24  Aligned_cols=61  Identities=18%  Similarity=0.209  Sum_probs=46.0

Q ss_pred             hHHHHHHHHHHHHHHHHHhhhhhHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccC
Q 039268          160 PLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAELTNFDG  220 (276)
Q Consensus       160 pal~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~qaMEknlisMarEvEKLRaElanae~  220 (276)
                      .+-..+++.-.+|.+++-..+|..++....+-.|+..|++++-++..|+..|++.+.+++.
T Consensus       804 e~~~~~~ek~~~e~e~l~lE~e~l~~e~~~~k~~l~~~~~~~~~l~~e~~~l~~kv~~~~~  864 (1174)
T KOG0933|consen  804 EESSKELEKRENEYERLQLEHEELEKEISSLKQQLEQLEKQISSLKSELGNLEAKVDKVEK  864 (1174)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHh
Confidence            3444666777777777777777777777777778888888888888888888888777654

>KOG1853 consensus LIS1-interacting protein NUDE [Cytoskeleton]

Probab=94.86  E-value=3.9  Score=39.28  Aligned_cols=110  Identities=22%  Similarity=0.272  Sum_probs=72.7

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhhhhhhhchhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039268           64 DRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQ  143 (276)
Q Consensus        64 tHvaLrqeLaaaq~Elqrl~~~~~~i~ae~e~q~R~l~ek~~KmEAelra~e~lk~El~q~raE~q~L~~~RqeL~~qvq  143 (276)
                      -|..++|....++.|+.-+..--..|.+|-|.|+-.+-.+..+++++..   -|+-|+....   .++...|-+.-.++.
T Consensus        21 l~~~ykq~f~~~reEl~EFQegSrE~EaelesqL~q~etrnrdl~t~nq---rl~~E~e~~K---ek~e~q~~q~y~q~s   94 (333)
T KOG1853|consen   21 LHHEYKQHFLQMREELNEFQEGSREIEAELESQLDQLETRNRDLETRNQ---RLTTEQERNK---EKQEDQRVQFYQQES   94 (333)
T ss_pred             hHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHH---HHHHHHHHHHHHHHH
Confidence            4778999999999999999999999999999999998888888888432   2333332211   133344444445566


Q ss_pred             HHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhh
Q 039268          144 TLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAA  179 (276)
Q Consensus       144 ~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa  179 (276)
                      .|..||.+.++-..|+-.-..||+-.--.|-++..+
T Consensus        95 ~Leddlsqt~aikeql~kyiReLEQaNDdLErakRa  130 (333)
T KOG1853|consen   95 QLEDDLSQTHAIKEQLRKYIRELEQANDDLERAKRA  130 (333)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhccHHHHhhhh
Confidence            666666666665555555555555555555554433

>PF09787 Golgin_A5: Golgin subfamily A member 5; InterPro: IPR019177 This entry represents a family of proteins involved in maintaining Golgi structure

Probab=94.84  E-value=2.7  Score=42.50  Aligned_cols=82  Identities=24%  Similarity=0.308  Sum_probs=46.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhhhhhhh------chhhHHHHHHHHHHHHHHHHHHHHHH
Q 039268           66 MAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRA------TEPLKKEAVQLRAEVQKLNNLRNELN  139 (276)
Q Consensus        66 vaLrqeLaaaq~Elqrl~~~~~~i~ae~e~q~R~l~ek~~KmEAelra------~e~lk~El~q~raE~q~L~~~RqeL~  139 (276)
                      -.|+.++...++|+.--..-...+-..+|.-|-.|=.++..  -.+..      .+.++.|...++.|++.|...-+.|.
T Consensus       224 ~l~~~~~~~~~~el~~Yk~kA~~iLq~kEklI~~LK~~~~~--~~~~~~~~~~el~~l~~E~~~~~ee~~~l~~Qi~~l~  301 (511)
T PF09787_consen  224 ELLKAEGESEEAELQQYKQKAQRILQSKEKLIESLKEGCLE--EGFDSSTNSIELEELKQERDHLQEEIQLLERQIEQLR  301 (511)
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhcccc--cccccccchhcchhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444444444444445555555555443333  11111      46688888888888888777776666


Q ss_pred             HHHHHHHHHH
Q 039268          140 GKVQTLQKDL  149 (276)
Q Consensus       140 ~qvq~l~~eL  149 (276)
                      .+++.+..++
T Consensus       302 ~e~~d~e~~~  311 (511)
T PF09787_consen  302 AELQDLEAQL  311 (511)
T ss_pred             HHHHHHHHHH
Confidence            6666665553

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 [].

>PF11932 DUF3450: Protein of unknown function (DUF3450); InterPro: IPR016866 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function

Probab=94.74  E-value=1.3  Score=40.33  Aligned_cols=51  Identities=29%  Similarity=0.384  Sum_probs=32.3

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHH
Q 039268          117 LKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEID  167 (276)
Q Consensus       117 lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie  167 (276)
                      +.+|+.++..++..|....+.|...|....+++..++.++.++-..+.+|.
T Consensus        54 L~~e~~~l~~e~e~L~~~~~~l~~~v~~q~~el~~L~~qi~~~~~~~~~l~  104 (251)
T PF11932_consen   54 LLAEYRQLEREIENLEVYNEQLERQVASQEQELASLEQQIEQIEETRQELV  104 (251)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333666666666666666666666677766666666666655555555553

However, they are found in an operon along with components of a TonB transport system (typified by Vibrio cholerae TonB2 [], and are predicted to be localized to the periplasmic space. Caution: the low-complexity nature of these sequences produces spurious BLAST hits to chromosome segregation ATPases (which are much longer in length and contain canonical Walker motifs). Accordingly, some members are misidentified as such.

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

Probab=94.68  E-value=3.1  Score=40.33  Aligned_cols=113  Identities=30%  Similarity=0.384  Sum_probs=70.4

Q ss_pred             hhhccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHH-----------------------HHHHHhhhhhh
Q 039268           52 QRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHV-----------------------RDLVEKGLKLE  108 (276)
Q Consensus        52 qrLl~dNqRLaatHvaLrqeLaaaq~Elqrl~~~~~~i~ae~e~q~-----------------------R~l~ek~~KmE  108 (276)
                      |.|+.-|+-|...--.|.++|.++...|..|.+-.. +|.|- +++                       .....+...++
T Consensus        86 qsLl~~N~~L~~~~~~le~~L~~~~e~v~qLrHeL~-~kdeL-L~~ys~~~ee~~~~~~~~~~~~~~~~~~~~~~~~~le  163 (306)
T PF04849_consen   86 QSLLEQNQDLSERNEALEEQLGAALEQVEQLRHELS-MKDEL-LQIYSNDDEESEPESSESTPLRRNESSLSSQKCIQLE  163 (306)
T ss_pred             HHHHHhcccHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHH-HHhcCcHhhhcccccCCCccccccccccccccchhHH
Confidence            899999999999999999999999999988877654 22111 000                       00011122233


Q ss_pred             hhhhhchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHhhhcchhHHHHHH
Q 039268          109 ADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDL-AKLQADNQQIPLLRAEI  166 (276)
Q Consensus       109 Aelra~e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL-~r~~ad~qqipal~aEi  166 (276)
                      +==+-.-.|..|-.++|.|+.+|...--.+-.+-|.|..|- ..+..-++||..|..||
T Consensus       164 ~Lq~Klk~LEeEN~~LR~Ea~~L~~et~~~EekEqqLv~dcv~QL~~An~qia~LseEL  222 (306)
T PF04849_consen  164 ALQEKLKSLEEENEQLRSEASQLKTETDTYEEKEQQLVLDCVKQLSEANQQIASLSEEL  222 (306)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhcchhHHHHHHHH
Confidence            32223334555777888888888877777777777777773 33333445555555554

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 [].

>PF11932 DUF3450: Protein of unknown function (DUF3450); InterPro: IPR016866 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function

Probab=94.67  E-value=0.97  Score=41.25  Aligned_cols=97  Identities=21%  Similarity=0.317  Sum_probs=75.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHHhhhHHHHHHHHHHHHHH
Q 039268          122 VQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNL  201 (276)
Q Consensus       122 ~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~qaMEknl  201 (276)
                      .+.+..+.++...+++|..++..+.+|+..++..+++   +...++..++|+..+-..++.-++...++.-.+..|-..|
T Consensus        38 ~~sQ~~id~~~~e~~~L~~e~~~l~~e~e~L~~~~~~---l~~~v~~q~~el~~L~~qi~~~~~~~~~l~p~m~~m~~~L  114 (251)
T PF11932_consen   38 QQSQKRIDQWDDEKQELLAEYRQLEREIENLEVYNEQ---LERQVASQEQELASLEQQIEQIEETRQELVPLMEQMIDEL  114 (251)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3456677788888888888888888888888776544   4456778888888888888888889999999999998888


Q ss_pred             HHHHHH------------HHHHHHHhhhccCC
Q 039268          202 VSMARE------------VEKLRAELTNFDGR  221 (276)
Q Consensus       202 isMarE------------vEKLRaElanae~r  221 (276)
                      -.....            |++|++.+.+++--
T Consensus       115 ~~~v~~d~Pf~~~eR~~Rl~~L~~~l~~~dv~  146 (251)
T PF11932_consen  115 EQFVELDLPFLLEERQERLARLRAMLDDADVS  146 (251)
T ss_pred             HHHHhcCCCCChHHHHHHHHHHHHhhhccCCC
Confidence            875441            78888888877654

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.

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

Probab=94.50  E-value=9.1  Score=42.70  Aligned_cols=68  Identities=25%  Similarity=0.357  Sum_probs=32.0

Q ss_pred             chhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhh
Q 039268          114 TEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVD  181 (276)
Q Consensus       114 ~e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~E  181 (276)
                      ...+++++.++..+++.....|.++..=-.-+..+..+..+-....|.+.+++..+.+++...+..++
T Consensus       773 I~~l~~~i~~L~~~l~~ie~~r~~V~eY~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~l~~~~~  840 (1201)
T PF12128_consen  773 IQQLKQEIEQLEKELKRIEERRAEVIEYEDWLQEEWDKVDELREEKPELEEQLRDLEQELQELEQELN  840 (1201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHH
Confidence            34455555555555555554444433322222222333233333456666666665555555554443

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

Probab=94.46  E-value=1.2  Score=48.39  Aligned_cols=99  Identities=19%  Similarity=0.200  Sum_probs=68.4

Q ss_pred             HHHHHHHHHhhhccccccchhhHHHHHHHHHHHHHH--------------HHHHHHHHHHhhhhHHHHHHHHHHhhhhhh
Q 039268           43 ELEIQHAEIQRLLGDNRRLVEDRMAMQRELAAAKEE--------------LHRMNLVIGEIRAEQEVHVRDLVEKGLKLE  108 (276)
Q Consensus        43 ~l~~Q~~EiqrLl~dNqRLaatHvaLrqeLaaaq~E--------------lqrl~~~~~~i~ae~e~q~R~l~ek~~KmE  108 (276)
                      ++..|..+||--|.+-+|=+...--+++||.--..+              +..+.+-.-.+++|++.||-++--++..+|
T Consensus       327 kltrqkadirc~LlEarrk~egfddk~~eLEKkrd~al~dvr~i~e~k~nve~elqsL~~l~aerqeQidelKn~if~~e  406 (1265)
T KOG0976|consen  327 KLTRQKADIRCALLEARRKAEGFDDKLNELEKKRDMALMDVRSIQEKKENVEEELQSLLELQAERQEQIDELKNHIFRLE  406 (1265)
T ss_pred             HHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Confidence            455666677766666666555555555544332211              122233336788999999999999999999


Q ss_pred             hhhhhchhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 039268          109 ADLRATEPLKKEAVQLRAEVQKLNNLRNELNGK  141 (276)
Q Consensus       109 Aelra~e~lk~El~q~raE~q~L~~~RqeL~~q  141 (276)
                      .=-+.+|+.|.||+.+.--+..|.+.+-++--|
T Consensus       407 ~~~~dhe~~kneL~~a~ekld~mgthl~mad~Q  439 (1265)
T KOG0976|consen  407 QGKKDHEAAKNELQEALEKLDLMGTHLSMADYQ  439 (1265)
T ss_pred             hccchhHHHHHHHHHHHHHHHHHhHHHHHHHHH
Confidence            988999999999998887777777766555444

>TIGR02680 conserved hypothetical protein TIGR02680

Probab=94.42  E-value=4  Score=46.13  Aligned_cols=50  Identities=16%  Similarity=0.118  Sum_probs=21.6

Q ss_pred             HHHHHhhhcchhHHHH-HHHHHHHHHHHHHhhhhhHHhhhHHHHHHHHHHH
Q 039268          149 LAKLQADNQQIPLLRA-EIDGLHQELMHARAAVDYEKKANIELMEQRQAME  198 (276)
Q Consensus       149 L~r~~ad~qqipal~a-Eie~lrqElqr~Raa~EyEKk~~~e~~Eq~qaME  198 (276)
                      +.++..++..++.... .++.+.++|+.+|..++-=.+...+......+.+
T Consensus       905 ~~~a~~~l~~l~e~l~~~~eel~a~L~e~r~rL~~l~~el~~~~~~~~~a~  955 (1353)
T TIGR02680       905 AEEASLRLRTLEESVGAMVDEIRARLAETRAALASGGRELPRLAEALATAE  955 (1353)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333334444433 4555555555555444443333333333333333

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.

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

Probab=94.39  E-value=1.2  Score=40.85  Aligned_cols=123  Identities=30%  Similarity=0.387  Sum_probs=65.1

Q ss_pred             HHHHHHHHHHHhhhhHHHHHHHHHHhhhhhhhhhhhchhhHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHH
Q 039268           78 ELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNG-------KVQTLQKDLA  150 (276)
Q Consensus        78 Elqrl~~~~~~i~ae~e~q~R~l~ek~~KmEAelra~e~lk~El~q~raE~q~L~~~RqeL~~-------qvq~l~~eL~  150 (276)
                      ||--|.....+.++|--...-++              ..||.-|..+++.+......-++|..       ++.....||+
T Consensus        11 EIsLLKqQLke~q~E~~~K~~Ei--------------v~Lr~ql~e~~~~l~~~~~~~~~l~~~~~~K~~ELE~ce~ELq   76 (202)
T PF06818_consen   11 EISLLKQQLKESQAEVNQKDSEI--------------VSLRAQLRELRAELRNKESQIQELQDSLRTKQLELEVCENELQ   76 (202)
T ss_pred             hHHHHHHHHHHHHHHHHHHHhHH--------------HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhHhHHHhHHHHH
Confidence            56666666676666654433333              33555555555555555555454444       4444555566


Q ss_pred             HHHhhh----cchhHHHHHHHHHHHHHHHHHhhhhhHHhh------hHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Q 039268          151 KLQADN----QQIPLLRAEIDGLHQELMHARAAVDYEKKA------NIELMEQRQAMEKNLVSMAREVEKLRAELTNF  218 (276)
Q Consensus       151 r~~ad~----qqipal~aEie~lrqElqr~Raa~EyEKk~------~~e~~Eq~qaMEknlisMarEvEKLRaElana  218 (276)
                      |..++.    .++..+.+||..|+.++..+..    .+.-      .-+.-.+.+.=...+-++-+|||.||+||..-
T Consensus        77 r~~~Ea~lLrekl~~le~El~~Lr~~l~~~~~----~~~~~~~l~~~deak~~~~~~~~~~~~l~~e~erL~aeL~~e  150 (202)
T PF06818_consen   77 RKKNEAELLREKLGQLEAELAELREELACAGR----LKRQCQLLSESDEAKAQRQAGEDELGSLRREVERLRAELQRE  150 (202)
T ss_pred             HHhCHHHHhhhhhhhhHHHHHHHHHHHHhhcc----chhhhccccccchhHHhhccccccchhHHHHHHHHHHHHHHH
Confidence            655554    3444455555555555555410    0111      11111222222445788899999999999853

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

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

Probab=94.36  E-value=0.012  Score=61.29  Aligned_cols=162  Identities=19%  Similarity=0.328  Sum_probs=0.0

Q ss_pred             cccchhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhH---HHHHHHHHHhhhhhhhhhhhchhhHHHHHHHHHHHHHHHHH
Q 039268           58 NRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQ---EVHVRDLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNL  134 (276)
Q Consensus        58 NqRLaatHvaLrqeLaaaq~Elqrl~~~~~~i~ae~---e~q~R~l~ek~~KmEAelra~e~lk~El~q~raE~q~L~~~  134 (276)
                      ++-++..+..|+..|...++|+.++-....+.+.+-   +.++.+|-.++.-|-++.+....||.|+.-+|..+.++...
T Consensus       234 ~~~~~~~~~~l~~ql~~L~~el~~~e~~~~d~~~~~e~le~ei~~L~q~~~eL~~~A~~a~~LrDElD~lR~~a~r~~kl  313 (713)
T PF05622_consen  234 SQHLSVELADLRAQLRRLREELERLEEQRDDLKIELEELEKEIDELRQENEELQAEAREARALRDELDELREKADRADKL  313 (713)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            344455566677777777888877766666665443   35666666677777777777777888887777765553321


Q ss_pred             --------------------HHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHHhhhHHHHHHH
Q 039268          135 --------------------RNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQR  194 (276)
Q Consensus       135 --------------------RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~  194 (276)
                                          -++|..+...+.+-...+..+++.+.+++..|+.+++++..+.+....+++-...+....
T Consensus       314 E~~ve~YKkKLed~~~lk~qvk~Lee~N~~l~e~~~~LEeel~~~~~~~~qle~~k~qi~eLe~~l~~~~~~~~~l~~e~  393 (713)
T PF05622_consen  314 ENEVEKYKKKLEDLEDLKRQVKELEEDNAVLLETKAMLEEELKKARALKSQLEEYKKQIQELEQKLSEESRRADKLEFEN  393 (713)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                                122333333334445566777888888889999999998888888888777776666777


Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhcc
Q 039268          195 QAMEKNLVSMAREVEKLRAELTNFD  219 (276)
Q Consensus       195 qaMEknlisMarEvEKLRaElanae  219 (276)
                      ..++..+.++.+|.+.|..|..+-.
T Consensus       394 ~~L~ek~~~l~~eke~l~~e~~~L~  418 (713)
T PF05622_consen  394 KQLEEKLEALEEEKERLQEERDSLR  418 (713)
T ss_dssp             -------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            7777777777788777777666543

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.

>PRK09841 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional

Probab=94.33  E-value=0.79  Score=48.02  Aligned_cols=115  Identities=19%  Similarity=0.229  Sum_probs=63.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhH-----HHHHHHHHHhhhhhhhhhhhchhhHHHHHHHHHHHHHHHHHHHHHH
Q 039268           65 RMAMQRELAAAKEELHRMNLVIGEIRAEQ-----EVHVRDLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELN  139 (276)
Q Consensus        65 HvaLrqeLaaaq~Elqrl~~~~~~i~ae~-----e~q~R~l~ek~~KmEAelra~e~lk~El~q~raE~q~L~~~RqeL~  139 (276)
                      -.=|.++|...+++|...-..+.+.+.+.     +.+...+++++..+++++.......+++.+.-.+   =.-.=+.|.
T Consensus       269 ~~fL~~qL~~l~~~L~~aE~~l~~fr~~~~~~d~~~ea~~~l~~~~~l~~ql~~l~~~~~~l~~~~~~---~hP~v~~l~  345 (726)
T PRK09841        269 LEFLQRQLPEVRSELDQAEEKLNVYRQQRDSVDLNLEAKAVLEQIVNVDNQLNELTFREAEISQLYKK---DHPTYRALL  345 (726)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc---cCchHHHHH
Confidence            34455555555555555555555555544     2344556666666665444433322332211000   000113444


Q ss_pred             HHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhh
Q 039268          140 GKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDY  182 (276)
Q Consensus       140 ~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~Ey  182 (276)
                      .+++.+.+++++++..++++|....|+..|..|..-.|.-+++
T Consensus       346 ~~~~~L~~~~~~l~~~~~~~p~~e~~~~~L~R~~~~~~~lY~~  388 (726)
T PRK09841        346 EKRQTLEQERKRLNKRVSAMPSTQQEVLRLSRDVEAGRAVYLQ  388 (726)
T ss_pred             HHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHHHH
Confidence            5666777788888888888888888877777777666655443

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

Probab=94.30  E-value=7.9  Score=42.44  Aligned_cols=74  Identities=20%  Similarity=0.241  Sum_probs=53.3

Q ss_pred             HHHHHHHHHHHHHHHHH----HHHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHHhhhHHHHHHHHHHHHHHHHHHHH
Q 039268          134 LRNELNGKVQTLQKDLA----KLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMARE  207 (276)
Q Consensus       134 ~RqeL~~qvq~l~~eL~----r~~ad~qqipal~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~qaMEknlisMarE  207 (276)
                      .-.+|..++..+..+..    +.++..+.+..+++|+..+.-|+..+--.++.--..++..+.|.-..+++=++.+.+
T Consensus       467 ~~~~L~d~le~~~~~~~~~~~K~e~~~~~le~l~~El~~l~~e~~~lq~~~~~~~qs~~~~~~~l~~~l~~KD~~~~~  544 (980)
T KOG0980|consen  467 ENTNLNDQLEELQRAAGRAETKTESQAKALESLRQELALLLIELEELQRTLSNLAQSHNNQLAQLEDLLKQKDRLAAE  544 (980)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHH
Confidence            33445555555555533    456677788899999999999988888887777777777788877777776666555

>PF08826 DMPK_coil: DMPK coiled coil domain like; InterPro: IPR014930 This domain is found in the myotonic dystrophy protein kinase (DMPK) and adopts a coiled coil structure

Probab=94.26  E-value=0.39  Score=36.21  Aligned_cols=44  Identities=18%  Similarity=0.396  Sum_probs=32.0

Q ss_pred             hhhhhhhhchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039268          106 KLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDL  149 (276)
Q Consensus       106 KmEAelra~e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL  149 (276)
                      -|++|+||...+..||.++++.-..+..--|+--.+...|..++
T Consensus         5 aL~~EirakQ~~~eEL~kvk~~n~~~e~kLqeaE~rn~eL~~ei   48 (61)
T PF08826_consen    5 ALEAEIRAKQAIQEELTKVKSANLAFESKLQEAEKRNRELEQEI   48 (61)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            48999999999999999999887776655555555544444443

It plays a role in dimerisation []. ; GO: 0004674 protein serine/threonine kinase activity, 0005524 ATP binding, 0006468 protein phosphorylation; PDB: 1WT6_D.

>PF15619 Lebercilin: Ciliary protein causing Leber congenital amaurosis disease

Probab=94.14  E-value=4.2  Score=36.64  Aligned_cols=24  Identities=29%  Similarity=0.374  Sum_probs=18.7

Q ss_pred             hhHHHHHHHHHHHhhhccccccch
Q 039268           39 LLEEELEIQHAEIQRLLGDNRRLV   62 (276)
Q Consensus        39 ~LEe~l~~Q~~EiqrLl~dNqRLa   62 (276)
                      -|...|..-+.+|+.|..+|+-|=
T Consensus        16 ~L~n~l~elq~~l~~l~~ENk~Lk   39 (194)
T PF15619_consen   16 ELQNELAELQRKLQELRKENKTLK   39 (194)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            366778888888999999996654

>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=93.99  E-value=1.3  Score=43.05  Aligned_cols=115  Identities=21%  Similarity=0.285  Sum_probs=72.0

Q ss_pred             ccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhHH-HHH----HHHHHhhhhhhhhhhhchhhHHHHHHHHHHHH
Q 039268           55 LGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQE-VHV----RDLVEKGLKLEADLRATEPLKKEAVQLRAEVQ  129 (276)
Q Consensus        55 l~dNqRLaatHvaLrqeLaaaq~Elqrl~~~~~~i~ae~e-~q~----R~l~ek~~KmEAelra~e~lk~El~q~raE~q  129 (276)
                      -..|..|..+-..|+|.|..++-|+.-|...+.+.+...+ ...    ++=-+-+..||.==.-.+.|.-|++.+--|.+
T Consensus        78 re~Nk~L~~Ev~~Lrqkl~E~qGD~KlLR~~la~~r~~~~~~~~~~~~~ere~lV~qLEk~~~q~~qLe~d~qs~lDEke  157 (319)
T PF09789_consen   78 REQNKKLKEEVEELRQKLNEAQGDIKLLREKLARQRVGDEGIGARHFPHEREDLVEQLEKLREQIEQLERDLQSLLDEKE  157 (319)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhchHHHHHHHHHhhhhhhccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4568999999999999999999999999999998877654 111    11112222333311123334445555555555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH-hhhcchhHHHHHHHHHHHHH
Q 039268          130 KLNNLRNELNGKVQTLQKDLAKLQ-ADNQQIPLLRAEIDGLHQEL  173 (276)
Q Consensus       130 ~L~~~RqeL~~qvq~l~~eL~r~~-ad~qqipal~aEie~lrqEl  173 (276)
                      .|...|.....+++-|.+||.-+- +|...|.    +||+|--|-
T Consensus       158 El~~ERD~yk~K~~RLN~ELn~~L~g~~~riv----DIDaLi~EN  198 (319)
T PF09789_consen  158 ELVTERDAYKCKAHRLNHELNYILNGDENRIV----DIDALIMEN  198 (319)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhCCCCCCcc----cHHHHHHHH
Confidence            666666666677777777765543 3443322    667766554

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

Probab=93.96  E-value=6.7  Score=43.53  Aligned_cols=109  Identities=21%  Similarity=0.307  Sum_probs=70.7

Q ss_pred             HHHHHHHHHHHhhhcccccc-------chhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhHH---HHHHHHHHhhhhhhhh
Q 039268           41 EEELEIQHAEIQRLLGDNRR-------LVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQE---VHVRDLVEKGLKLEAD  110 (276)
Q Consensus        41 Ee~l~~Q~~EiqrLl~dNqR-------LaatHvaLrqeLaaaq~Elqrl~~~~~~i~ae~e---~q~R~l~ek~~KmEAe  110 (276)
                      +..|..+..+|..|..+=|+       +-..|-.|++++.....|.+++...+..+.-+-+   ..+..+-+..--+|+|
T Consensus       691 r~~i~~~~~~i~q~~~~~qk~e~~~~~~~~~~~~l~~e~~~~k~e~~~v~~s~~~k~~~Le~i~~~l~~~~~~~~~~e~e  770 (1200)
T KOG0964|consen  691 RNEIEDIDQKIDQLNNNMQKVENDRNAFKREHEKLKRELNTIKGEKSRVQESLEPKGKELEEIKTSLHKLESQSNYFESE  770 (1200)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhhhHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhHHHH
Confidence            34444555555555544333       5577888999999999988888766655544433   5555666666666665


Q ss_pred             hh-------------hchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039268          111 LR-------------ATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDL  149 (276)
Q Consensus       111 lr-------------a~e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL  149 (276)
                      |-             ..+.|..|+.+++.+...|...|-++......+.-+|
T Consensus       771 l~sel~sqLt~ee~e~l~kLn~eI~~l~~kl~~~~~er~~~~~rk~~le~~l  822 (1200)
T KOG0964|consen  771 LGSELFSQLTPEELERLSKLNKEINKLSVKLRALREERIDIETRKTALEANL  822 (1200)
T ss_pred             HhHHHHhhcCHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            53             3456667777777777777777777766666665553

>PRK04863 mukB cell division protein MukB; Provisional

Probab=93.93  E-value=9.4  Score=43.94  Aligned_cols=28  Identities=18%  Similarity=0.343  Sum_probs=13.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhc
Q 039268          191 MEQRQAMEKNLVSMAREVEKLRAELTNF  218 (276)
Q Consensus       191 ~Eq~qaMEknlisMarEvEKLRaElana  218 (276)
                      -++++.++..+-.+-.++.++.+++...
T Consensus       448 ~aklee~e~qL~elE~kL~~lea~leql  475 (1486)
T PRK04863        448 QAKEQEATEELLSLEQKLSVAQAAHSQF  475 (1486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444555555555555555555554433

>TIGR02680 conserved hypothetical protein TIGR02680

Probab=93.92  E-value=5.8  Score=44.86  Aligned_cols=91  Identities=13%  Similarity=0.088  Sum_probs=42.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc-chhHHHHHHHHHHHHHHHHHhhhhhHHhhhHHHHHHHHHHH
Q 039268          120 EAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQ-QIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAME  198 (276)
Q Consensus       120 El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~q-qipal~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~qaME  198 (276)
                      ++..++.++........++..+++.+..+|..+..-++ .+-.|.++|+.++++|..++..+.-=.+.....-+....-+
T Consensus       883 ~le~ae~~l~~~~~e~~~~~~e~~~a~~~l~~l~e~l~~~~eel~a~L~e~r~rL~~l~~el~~~~~~~~~a~~~~~~a~  962 (1353)
T TIGR02680       883 RAARAESDAREAAEDAAEARAEAEEASLRLRTLEESVGAMVDEIRARLAETRAALASGGRELPRLAEALATAEEARGRAE  962 (1353)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333444444444444444555555555444444332 34455555555555555555555544444444444444444


Q ss_pred             HHHHHHHHHHHHH
Q 039268          199 KNLVSMAREVEKL  211 (276)
Q Consensus       199 knlisMarEvEKL  211 (276)
                      +++ .-+.+..+.
T Consensus       963 ~~~-~~a~~~~~~  974 (1353)
T TIGR02680       963 EKR-AEADATLDE  974 (1353)
T ss_pred             HHH-HHHHHHHHH
Confidence            444 333333333

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.

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

Probab=93.84  E-value=3.4  Score=39.83  Aligned_cols=104  Identities=24%  Similarity=0.386  Sum_probs=78.9

Q ss_pred             HHHHHhhhhhhhhhhhchh---hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh----cchhHHHHHHHHHH
Q 039268           98 RDLVEKGLKLEADLRATEP---LKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADN----QQIPLLRAEIDGLH  170 (276)
Q Consensus        98 R~l~ek~~KmEAelra~e~---lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~----qqipal~aEie~lr  170 (276)
                      +.|++++..|+.+|.....   ...++.-+.+++..|...+.++..+|+.+.++.+..+-++    +.+..++.+.|.|+
T Consensus       134 ~~lvq~I~~L~k~le~~~k~~e~~~~~~el~aei~~lk~~~~e~~eki~~la~eaqe~he~m~k~~~~~De~Rkeade~h  213 (294)
T COG1340         134 RELVQKIKELRKELEDAKKALEENEKLKELKAEIDELKKKAREIHEKIQELANEAQEYHEEMIKLFEEADELRKEADELH  213 (294)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5678888888888777653   4455556668888888888888888888887766655543    55678889999999


Q ss_pred             HHHHHHHhhhhhHHhhhHHHHHHHHHHHHHH
Q 039268          171 QELMHARAAVDYEKKANIELMEQRQAMEKNL  201 (276)
Q Consensus       171 qElqr~Raa~EyEKk~~~e~~Eq~qaMEknl  201 (276)
                      .++...+..++.....+.....-....++-+
T Consensus       214 e~~ve~~~~~~e~~ee~~~~~~elre~~k~i  244 (294)
T COG1340         214 EEFVELSKKIDELHEEFRNLQNELRELEKKI  244 (294)
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999998888877777666666543

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

Probab=93.84  E-value=4  Score=35.32  Aligned_cols=24  Identities=25%  Similarity=0.357  Sum_probs=11.0

Q ss_pred             chhhHHHHHHHHHHHHHHHHHHHH
Q 039268           61 LVEDRMAMQRELAAAKEELHRMNL   84 (276)
Q Consensus        61 LaatHvaLrqeLaaaq~Elqrl~~   84 (276)
                      |-..-..|..||...+.+...+-.
T Consensus        22 le~~v~~LEreLe~~q~~~e~~~~   45 (140)
T PF10473_consen   22 LEDHVESLERELEMSQENKECLIL   45 (140)
T ss_pred             HHHHHHHHHHHHHHHHHhHHHHHH
Confidence            334444455555555544444433

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

>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=93.82  E-value=8  Score=43.55  Aligned_cols=163  Identities=19%  Similarity=0.231  Sum_probs=83.2

Q ss_pred             HHhhhccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhhhhhh----hchhhHHHHHHHH
Q 039268           50 EIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLR----ATEPLKKEAVQLR  125 (276)
Q Consensus        50 EiqrLl~dNqRLaatHvaLrqeLaaaq~Elqrl~~~~~~i~ae~e~q~R~l~ek~~KmEAelr----a~e~lk~El~q~r  125 (276)
                      |+.....++++....+   .-++...+..+....-...+++.+-+...-.+.+++.++|.+|-    ..--++.|++-++
T Consensus       430 e~e~~pe~~~~~i~~~---~~ei~~L~~~~~~~~~~l~e~~~~l~~~t~~~~~e~~~~ekel~~~~~~~n~~~~e~~vae  506 (1293)
T KOG0996|consen  430 ELEKAPEKARIEIQKC---QTEIEQLEELLEKEERELDEILDSLKQETEGIREEIEKLEKELMPLLKQVNEARSELDVAE  506 (1293)
T ss_pred             HHHhCchhhHhHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3445555555555444   23455555555555555555555555555555555666665321    2222344444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhh----hcchhHHHHHHHHHHHHHHHHHhhhhhHHhhhHHHHHHHHHHHHHH
Q 039268          126 AEVQKLNNLRNELNGKVQTLQKDLAKLQAD----NQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNL  201 (276)
Q Consensus       126 aE~q~L~~~RqeL~~qvq~l~~eL~r~~ad----~qqipal~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~qaMEknl  201 (276)
                      +|+.-|...-..+..++..+..-|.....+    .--|..++.+|+.+.+|+..+...++--+       .-.+.|-+++
T Consensus       507 sel~~L~~~~~~~~~~~e~lk~~L~~~~~~~~e~~~~l~~~k~~l~~~k~e~~~~~k~l~~~~-------~e~~~~~~~~  579 (1293)
T KOG0996|consen  507 SELDILLSRHETGLKKVEELKGKLLASSESLKEKKTELDDLKEELPSLKQELKEKEKELPKLR-------KEERNLKSQL  579 (1293)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhHHHHH-------HHHHHHHHHH
Confidence            444444444444445555555555543332    22345555666666666655554433222       2234444555


Q ss_pred             HHHHHHHHHHHHHhhhccCCC
Q 039268          202 VSMAREVEKLRAELTNFDGRP  222 (276)
Q Consensus       202 isMarEvEKLRaElanae~r~  222 (276)
                      -..-.+|+-++.-+....+|.
T Consensus       580 ~~~rqrveE~ks~~~~~~s~~  600 (1293)
T KOG0996|consen  580 NKLRQRVEEAKSSLSSSRSRN  600 (1293)
T ss_pred             HHHHHHHHHHHHHHHhhhhhh
Confidence            566666777777766666664

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

Probab=93.80  E-value=10  Score=42.19  Aligned_cols=53  Identities=28%  Similarity=0.466  Sum_probs=26.7

Q ss_pred             hhHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHH
Q 039268          116 PLKKEAVQLRAEV-QKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQ  171 (276)
Q Consensus       116 ~lk~El~q~raE~-q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrq  171 (276)
                      .++..+..++.+. +.|...+-+...+...|.+|+.+++.   ++..|+.|++.++.
T Consensus       376 ~l~k~I~~~~~~~~~~~~~~~~e~e~k~~~L~~evek~e~---~~~~L~~e~~~~~~  429 (1074)
T KOG0250|consen  376 RLEKQIADLEKQTNNELGSELEERENKLEQLKKEVEKLEE---QINSLREELNEVKE  429 (1074)
T ss_pred             HHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHH
Confidence            3344444444444 55555555555555566665555554   44444444444433

>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=93.67  E-value=9.5  Score=43.00  Aligned_cols=96  Identities=19%  Similarity=0.265  Sum_probs=51.3

Q ss_pred             chhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHHhhhHH
Q 039268          114 TEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDL----AKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIE  189 (276)
Q Consensus       114 ~e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL----~r~~ad~qqipal~aEie~lrqElqr~Raa~EyEKk~~~e  189 (276)
                      .++++.|....+.++-.+...-++..++++....||    .+...-+.++..|+.-|+.++..+..-++.+.--|+.-..
T Consensus       474 t~~~~~e~~~~ekel~~~~~~~n~~~~e~~vaesel~~L~~~~~~~~~~~e~lk~~L~~~~~~~~e~~~~l~~~k~~l~~  553 (1293)
T KOG0996|consen  474 TEGIREEIEKLEKELMPLLKQVNEARSELDVAESELDILLSRHETGLKKVEELKGKLLASSESLKEKKTELDDLKEELPS  553 (1293)
T ss_pred             hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence            344555555555555555555555555555555552    2333444555555555555555555555555544444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q 039268          190 LMEQRQAMEKNLVSMAREVE  209 (276)
Q Consensus       190 ~~Eq~qaMEknlisMarEvE  209 (276)
                      .-...+.-+|||-.+..|..
T Consensus       554 ~k~e~~~~~k~l~~~~~e~~  573 (1293)
T KOG0996|consen  554 LKQELKEKEKELPKLRKEER  573 (1293)
T ss_pred             HHHHHHHHHHhHHHHHHHHH
Confidence            44445555666666666655

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

Probab=93.64  E-value=11  Score=42.10  Aligned_cols=87  Identities=22%  Similarity=0.373  Sum_probs=40.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhh---hhHHHHHHHHHHhhhhhhhhhh----hchhhHHHHHHHHHHHHHHHHHHHHHHH
Q 039268           68 MQRELAAAKEELHRMNLVIGEIR---AEQEVHVRDLVEKGLKLEADLR----ATEPLKKEAVQLRAEVQKLNNLRNELNG  140 (276)
Q Consensus        68 LrqeLaaaq~Elqrl~~~~~~i~---ae~e~q~R~l~ek~~KmEAelr----a~e~lk~El~q~raE~q~L~~~RqeL~~  140 (276)
                      .++.+.-.++.+......+..++   +|.|.++-++.+-.--+..|+.    ..+.++.|..++..++..-...-+++..
T Consensus       293 ~qek~~~l~~ki~~~~~k~~~~r~k~teiea~i~~~~~e~~~~d~Ei~~~r~~~~~~~re~~~~~~~~~~~~n~i~~~k~  372 (1074)
T KOG0250|consen  293 KQEKVDTLQEKIEEKQGKIEEARQKLTEIEAKIGELKDEVDAQDEEIEEARKDLDDLRREVNDLKEEIREIENSIRKLKK  372 (1074)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34445555555555555555555   5556555555554443333332    2244444444444444443334444444


Q ss_pred             HHHHHHHHHHHHHh
Q 039268          141 KVQTLQKDLAKLQA  154 (276)
Q Consensus       141 qvq~l~~eL~r~~a  154 (276)
                      .+..+.+.+..++.
T Consensus       373 ~~d~l~k~I~~~~~  386 (1074)
T KOG0250|consen  373 EVDRLEKQIADLEK  386 (1074)
T ss_pred             HHHHHHHHHHHHHH
Confidence            44444444443333

>PRK10884 SH3 domain-containing protein; Provisional

Probab=93.50  E-value=1.4  Score=40.06  Aligned_cols=27  Identities=4%  Similarity=0.185  Sum_probs=14.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 039268           66 MAMQRELAAAKEELHRMNLVIGEIRAE   92 (276)
Q Consensus        66 vaLrqeLaaaq~Elqrl~~~~~~i~ae   92 (276)
                      ..++..|...++||..+.....++..+
T Consensus        89 p~~~~rlp~le~el~~l~~~l~~~~~~  115 (206)
T PRK10884         89 PSLRTRVPDLENQVKTLTDKLNNIDNT  115 (206)
T ss_pred             ccHHHHHHHHHHHHHHHHHHHHHHHhH
Confidence            344555566666666655555544444

>TIGR01005 eps_transp_fam exopolysaccharide transport protein family

Probab=93.42  E-value=6.8  Score=40.92  Aligned_cols=36  Identities=22%  Similarity=0.339  Sum_probs=17.1

Q ss_pred             HHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhh
Q 039268          144 TLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAA  179 (276)
Q Consensus       144 ~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa  179 (276)
                      .+.+.+..+++.+.++|....|+..|..|..-.|..
T Consensus       356 ~L~~~l~~~~~~~~~~~~~~~e~~~L~Re~~~~~~~  391 (754)
T TIGR01005       356 QLVSDVNQLKAASAQAGEQQVDLDALQRDAAAKRQL  391 (754)
T ss_pred             HHHHHHHHHHHHHHhCcHhHHHHHHHHHHHHHHHHH
Confidence            344444444444444555555554444444444444

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.

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

Probab=93.37  E-value=5.2  Score=36.03  Aligned_cols=23  Identities=30%  Similarity=0.512  Sum_probs=19.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhc
Q 039268          196 AMEKNLVSMAREVEKLRAELTNF  218 (276)
Q Consensus       196 aMEknlisMarEvEKLRaElana  218 (276)
                      .+|+.|..|...+|+--|+|...
T Consensus       147 lLEkKl~~l~~~lE~keaqL~ev  169 (201)
T PF13851_consen  147 LLEKKLQALSEQLEKKEAQLNEV  169 (201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            57888999999999998888654

>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89

Probab=93.36  E-value=1.1  Score=34.35  Aligned_cols=43  Identities=23%  Similarity=0.299  Sum_probs=27.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHh
Q 039268          126 AEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARA  178 (276)
Q Consensus       126 aE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Ra  178 (276)
                      .+.+.|...|.....+++....+.          -.|++|++.|++|+.+.|+
T Consensus        26 ~~~k~L~~ERd~~~~~l~~a~~e~----------~~Lk~E~e~L~~el~~~r~   68 (69)
T PF14197_consen   26 IENKRLRRERDSAERQLGDAYEEN----------NKLKEENEALRKELEELRA   68 (69)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHhhc
Confidence            444445555555555555554443          4456889999999988774

>PF10186 Atg14: UV radiation resistance protein and autophagy-related subunit 14; InterPro: IPR018791 Class III phosphatidylinositol 3-kinase (PI3-kinase) regulates multiple membrane trafficking

Probab=93.34  E-value=3.4  Score=37.21  Aligned_cols=51  Identities=22%  Similarity=0.444  Sum_probs=24.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhh
Q 039268          128 VQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVD  181 (276)
Q Consensus       128 ~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~E  181 (276)
                      ++.+.....++..++..+...+.+.+   ++|-..+..++.+++.+...|..+.
T Consensus        58 ~~~~~~~~~~~~~r~~~l~~~i~~~~---~~i~~~r~~l~~~~~~l~~~~~~l~  108 (302)
T PF10186_consen   58 IQQLKREIEELRERLERLRERIERLR---KRIEQKRERLEELRESLEQRRSRLS  108 (302)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333334444444444444433333   2234445566666666666666554

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

>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=93.30  E-value=3  Score=33.35  Aligned_cols=49  Identities=24%  Similarity=0.304  Sum_probs=39.5

Q ss_pred             chhHHHHHHHHHHHHHHHHHhhhhhHHhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 039268          158 QIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEK  210 (276)
Q Consensus       158 qipal~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~qaMEknlisMarEvEK  210 (276)
                      ..=++..-.|+|..|+..++.-+.    .+.+..++++.+|+++++--.+.||
T Consensus        46 kyfa~mr~~d~l~~e~k~L~~~~~----Ks~~~i~~L~~~E~~~~~~l~~~Ek   94 (96)
T PF08647_consen   46 KYFAAMRSKDALDNEMKKLNTQLS----KSSELIEQLKETEKEFVRKLKNLEK   94 (96)
T ss_pred             HHHHHHHhHHHHHHHHHHHHHHHH----HhHHHHHHHHHHHHHHHHHHHHhhc
Confidence            344556678999999999988753    4678889999999999999888876

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

Probab=93.27  E-value=10  Score=38.36  Aligned_cols=21  Identities=24%  Similarity=0.264  Sum_probs=11.4

Q ss_pred             hhHHHHHHHHHHHHHHHHHHH
Q 039268           63 EDRMAMQRELAAAKEELHRMN   83 (276)
Q Consensus        63 atHvaLrqeLaaaq~Elqrl~   83 (276)
                      ++--++|-||..++++.....
T Consensus        81 ~qlr~~rtel~~a~~~k~~~e  101 (499)
T COG4372          81 PQLRALRTELGTAQGEKRAAE  101 (499)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            344456666666665554443

>KOG4603 consensus TBP-1 interacting protein [Signal transduction mechanisms]

Probab=93.27  E-value=4.1  Score=37.04  Aligned_cols=96  Identities=17%  Similarity=0.166  Sum_probs=76.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHHhhh----HHHHHHH
Q 039268          119 KEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKAN----IELMEQR  194 (276)
Q Consensus       119 ~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~EyEKk~~----~e~~Eq~  194 (276)
                      .||.++-.++++|..--|+|....-.+..|+.-+.+-+ .+|.|..+|..|+.|.---|--++.-|.+.    .+-.+|.
T Consensus        79 eel~~ld~~i~~l~ek~q~l~~t~s~veaEik~L~s~L-t~eemQe~i~~L~kev~~~~erl~~~k~g~~~vtpedk~~v  157 (201)
T KOG4603|consen   79 EELQVLDGKIVALTEKVQSLQQTCSYVEAEIKELSSAL-TTEEMQEEIQELKKEVAGYRERLKNIKAGTNHVTPEDKEQV  157 (201)
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc-ChHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHH
Confidence            58899999999988888888888888888877776655 688899999999998887777777777665    5677888


Q ss_pred             HHHHHHHHHHHHHHHHHHHHh
Q 039268          195 QAMEKNLVSMAREVEKLRAEL  215 (276)
Q Consensus       195 qaMEknlisMarEvEKLRaEl  215 (276)
                      .-|=...++|-|....+=-||
T Consensus       158 ~~~y~~~~~~wrk~krmf~ei  178 (201)
T KOG4603|consen  158 YREYQKYCKEWRKRKRMFREI  178 (201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            888888888888876655554

>PF14662 CCDC155: Coiled-coil region of CCDC155

Probab=93.17  E-value=6.7  Score=35.83  Aligned_cols=156  Identities=21%  Similarity=0.281  Sum_probs=68.1

Q ss_pred             HHHHHHHhhhccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhhhhhhhchhhHHHHHHH
Q 039268           45 EIQHAEIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRATEPLKKEAVQL  124 (276)
Q Consensus        45 ~~Q~~EiqrLl~dNqRLaatHvaLrqeLaaaq~Elqrl~~~~~~i~ae~e~q~R~l~ek~~KmEAelra~e~lk~El~q~  124 (276)
                      ..-++.|..+--.|.+|+...-.|+..+..+||=++.-.    .|.-|.|    +|=.-+..          +..+-.++
T Consensus        25 ~kL~~~ve~~ee~na~L~~e~~~L~~q~~s~Qqal~~aK----~l~eEle----dLk~~~~~----------lEE~~~~L   86 (193)
T PF14662_consen   25 AKLQRSVETAEEGNAQLAEEITDLRKQLKSLQQALQKAK----ALEEELE----DLKTLAKS----------LEEENRSL   86 (193)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHH----HHHHHHHH----------HHHHHHHH
Confidence            334455555566667777777777777766654333322    1221211    00011111          12233333


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhH----HHHHHHHHHHHHHHHHhhhhhHHhhhHHHHHHHHHHHHH
Q 039268          125 RAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPL----LRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKN  200 (276)
Q Consensus       125 raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipa----l~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~qaMEkn  200 (276)
                      .+....|...-|.|+++++.+..|..++.++...+-.    |-.+..+|+.-+...-+-|--=...-.+..-|.....+-
T Consensus        87 ~aq~rqlEkE~q~L~~~i~~Lqeen~kl~~e~~~lk~~~~eL~~~~~~Lq~Ql~~~e~l~~~~da~l~e~t~~i~eL~~~  166 (193)
T PF14662_consen   87 LAQARQLEKEQQSLVAEIETLQEENGKLLAERDGLKKRSKELATEKATLQRQLCEFESLICQRDAILSERTQQIEELKKT  166 (193)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHhhhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHH
Confidence            4444444444444555555555554444443322211    112223333322111111111111123444555556666


Q ss_pred             HHHHHHHHHHHHHHhhhc
Q 039268          201 LVSMAREVEKLRAELTNF  218 (276)
Q Consensus       201 lisMarEvEKLRaElana  218 (276)
                      +.-...=++-||+|+...
T Consensus       167 ieEy~~~teeLR~e~s~L  184 (193)
T PF14662_consen  167 IEEYRSITEELRLEKSRL  184 (193)
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            666666677777777654

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

Probab=93.15  E-value=4  Score=44.34  Aligned_cols=83  Identities=24%  Similarity=0.308  Sum_probs=58.5

Q ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh----hcchhHHHHHHHHHHHHHHHHHhhhhhHHhhhHHH
Q 039268          115 EPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQAD----NQQIPLLRAEIDGLHQELMHARAAVDYEKKANIEL  190 (276)
Q Consensus       115 e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad----~qqipal~aEie~lrqElqr~Raa~EyEKk~~~e~  190 (276)
                      .-+++-+.|++-|+..|+---|+|+.+++...-++...+.+    .+|+.-++.||+-|+++|+-.-...-+----++++
T Consensus       433 v~~nak~~ql~~eletLn~k~qqls~kl~Dvr~~~tt~kt~ie~~~~q~e~~isei~qlqarikE~q~kl~~l~~Ekq~l  512 (1118)
T KOG1029|consen  433 VYLNAKKKQLQQELETLNFKLQQLSGKLQDVRVDITTQKTEIEEVTKQRELMISEIDQLQARIKELQEKLQKLAPEKQEL  512 (1118)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhhhheeccchHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHH
Confidence            34677788899999999999999999999887776665554    35667777888888888877666555444444444


Q ss_pred             HHHHHHH
Q 039268          191 MEQRQAM  197 (276)
Q Consensus       191 ~Eq~qaM  197 (276)
                      -+|++.|
T Consensus       513 ~~qlkq~  519 (1118)
T KOG1029|consen  513 NHQLKQK  519 (1118)
T ss_pred             HHHHHHh
Confidence            4444444

>PF13514 AAA_27: AAA domain

Probab=93.15  E-value=16  Score=40.24  Aligned_cols=49  Identities=16%  Similarity=0.273  Sum_probs=28.0

Q ss_pred             HHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHHhhhHH
Q 039268          141 KVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIE  189 (276)
Q Consensus       141 qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~EyEKk~~~e  189 (276)
                      .+..+...|...+...+++-.+..+++.+++++..+...++.-.+...+
T Consensus       785 ~~~~L~~~l~~a~~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~  833 (1111)
T PF13514_consen  785 ALEALRARLEEAREAQEERERLQEQLEELEEELEQAEEELEELEAELAE  833 (1111)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4445555566666666666666666666666666665555444443333

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

Probab=93.08  E-value=5.1  Score=34.29  Aligned_cols=127  Identities=20%  Similarity=0.248  Sum_probs=81.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhh---hHHHHHHHHHHhhhhhhhhhhhchhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039268           67 AMQRELAAAKEELHRMNLVIGEIRA---EQEVHVRDLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQ  143 (276)
Q Consensus        67 aLrqeLaaaq~Elqrl~~~~~~i~a---e~e~q~R~l~ek~~KmEAelra~e~lk~El~q~raE~q~L~~~RqeL~~qvq  143 (276)
                      +||-|...+..-...+-+.+..+..   ..|.+|.+|-.|+..+|.+|-..+.==.++...-.+..+....=.-|+-+|+
T Consensus         4 ~lk~E~d~a~~r~e~~e~~~K~le~~~~~~E~EI~sL~~K~~~lE~eld~~~~~l~~~k~~lee~~~~~~~~E~l~rriq   83 (143)
T PF12718_consen    4 ALKLEADNAQDRAEELEAKVKQLEQENEQKEQEITSLQKKNQQLEEELDKLEEQLKEAKEKLEESEKRKSNAEQLNRRIQ   83 (143)
T ss_pred             HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhHHHHHhhHH
Confidence            4555555555555555544444433   4568888888888888887665533333444444444444444446888899


Q ss_pred             HHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHHhhhHHHHHH
Q 039268          144 TLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQ  193 (276)
Q Consensus       144 ~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq  193 (276)
                      .|-.||.++...+.....--.+++.-=.++-|-..+++.+....-.-++.
T Consensus        84 ~LEeele~ae~~L~e~~ekl~e~d~~ae~~eRkv~~le~~~~~~E~k~ee  133 (143)
T PF12718_consen   84 LLEEELEEAEKKLKETTEKLREADVKAEHFERKVKALEQERDQWEEKYEE  133 (143)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhhHHHHHHHHHH
Confidence            99999888888887777766777766667777777776665554444443

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 [].

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

Probab=93.07  E-value=10  Score=39.64  Aligned_cols=32  Identities=13%  Similarity=0.290  Sum_probs=16.7

Q ss_pred             HHHHHHHHHHHHHHHHHH-------HHHHHHHhhhccCC
Q 039268          190 LMEQRQAMEKNLVSMARE-------VEKLRAELTNFDGR  221 (276)
Q Consensus       190 ~~Eq~qaMEknlisMarE-------vEKLRaElanae~r  221 (276)
                      .+..+|.+...+-.+..|       ..+|..|+++..+.
T Consensus       445 ~~~~ik~~r~~~k~~~~e~~~Kee~~~qL~~e~e~~~k~  483 (594)
T PF05667_consen  445 KLQEIKELREEIKEIEEEIRQKEELYKQLVKELEKLPKD  483 (594)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCC
Confidence            344444444444444443       55666777766655

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

Probab=92.94  E-value=16  Score=39.46  Aligned_cols=162  Identities=22%  Similarity=0.266  Sum_probs=85.3

Q ss_pred             ccchhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhhhhhhhchhhHHHHHHHHHHHHHHHHHHHHH
Q 039268           59 RRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNEL  138 (276)
Q Consensus        59 qRLaatHvaLrqeLaaaq~Elqrl~~~~~~i~ae~e~q~R~l~ek~~KmEAelra~e~lk~El~q~raE~q~L~~~RqeL  138 (276)
                      .++...+..+...+...+..+++|......+..+...... .......++..+.....+...+..+.-++..|...-.+|
T Consensus       270 ~~~~~~~~~~~~~~~~~~~~~~~L~~~~~e~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~l  348 (908)
T COG0419         270 KIREEELRELERLLEELEEKIERLEELEREIEELEEELEG-LRALLEELEELLEKLKSLEERLEKLEEKLEKLESELEEL  348 (908)
T ss_pred             HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4556667778888888888888888777766666554444 333333333333333333333333333333333333333


Q ss_pred             HHHHHHHHHHHHHHHhhhcc-hhHHHHHH-------HHHHHHHHHHHhhhhhHHhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 039268          139 NGKVQTLQKDLAKLQADNQQ-IPLLRAEI-------DGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEK  210 (276)
Q Consensus       139 ~~qvq~l~~eL~r~~ad~qq-ipal~aEi-------e~lrqElqr~Raa~EyEKk~~~e~~Eq~qaMEknlisMarEvEK  210 (276)
                      ..........+.+....++. +-.+..++       ..+..+++...+....-.....+..++....++++....+++++
T Consensus       349 ~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~le~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~l~~  428 (908)
T COG0419         349 AEEKNELAKLLEERLKELEERLEELEKELEKALERLKQLEEAIQELKEELAELSAALEEIQEELEELEKELEELERELEE  428 (908)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            22222222222222222211 12222222       33445555555565666666667777777777777777777777


Q ss_pred             HHHHhhhccCC
Q 039268          211 LRAELTNFDGR  221 (276)
Q Consensus       211 LRaElanae~r  221 (276)
                      ++.++.+.+..
T Consensus       429 ~~~~~~~~~~~  439 (908)
T COG0419         429 LEEEIKKLEEQ  439 (908)
T ss_pred             HHHHHHHHHHH
Confidence            77766665543

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

Probab=92.88  E-value=4.3  Score=34.18  Aligned_cols=40  Identities=20%  Similarity=0.330  Sum_probs=19.6

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 039268          117 LKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADN  156 (276)
Q Consensus       117 lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~  156 (276)
                      +..|+..+..+...|...-..+...+.....|++|++..+
T Consensus        85 ~ere~~~~~~~~~~l~~~~~~~~~~~k~~kee~~klk~~~  124 (151)
T PF11559_consen   85 LERELASAEEKERQLQKQLKSLEAKLKQEKEELQKLKNQL  124 (151)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444445444544444445555555555555555443

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.

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

Probab=92.86  E-value=7.4  Score=43.92  Aligned_cols=109  Identities=22%  Similarity=0.274  Sum_probs=61.0

Q ss_pred             hhhHHHHHHHHHHHhhhccccccch---hhHHHHHHHHHHH---HHHHHH-HHHHHHHhhhhHHHHHHHHHHhhhhhhhh
Q 039268           38 ALLEEELEIQHAEIQRLLGDNRRLV---EDRMAMQRELAAA---KEELHR-MNLVIGEIRAEQEVHVRDLVEKGLKLEAD  110 (276)
Q Consensus        38 ~~LEe~l~~Q~~EiqrLl~dNqRLa---atHvaLrqeLaaa---q~Elqr-l~~~~~~i~ae~e~q~R~l~ek~~KmEAe  110 (276)
                      .+||+-+.--..++..|...++.++   ..+--|.+.+.-.   ..|+++ -.+....=..|.+.++.+.-++..+++++
T Consensus       437 ~~le~~l~~~~~~~~~~~~~~~~~~~~~~~~keL~e~i~~lk~~~~el~~~q~~l~q~~~ke~~ek~~~~~~~~~~l~~~  516 (1317)
T KOG0612|consen  437 QILEQSLVNEMQEKEKLDEKCQAVAELEEMDKELEETIEKLKSEESELQREQKALLQHEQKEVEEKLSEEEAKKRKLEAL  516 (1317)
T ss_pred             hhcccchhhHHHHhhhHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHH
Confidence            5666666666667777777777776   4555555443333   333332 11222233344555666666666666666


Q ss_pred             hhhc----hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039268          111 LRAT----EPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQ  146 (276)
Q Consensus       111 lra~----e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~  146 (276)
                      +|..    +.+++...+++-..+++.+.|++|-.....+.
T Consensus       517 ~~~~~eele~~q~~~~~~~~~~~kv~~~rk~le~~~~d~~  556 (1317)
T KOG0612|consen  517 VRQLEEELEDAQKKNDNAADSLEKVNSLRKQLEEAELDMR  556 (1317)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHhhhhhh
Confidence            6654    33455555666666666777776665554444

>cd07651 F-BAR_PombeCdc15_like The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Schizosaccharomyces pombe Cdc15, and similar proteins

Probab=92.68  E-value=7.4  Score=35.07  Aligned_cols=145  Identities=11%  Similarity=0.168  Sum_probs=79.3

Q ss_pred             HhhhccccccchhhHHHHHHHHH-HHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhhhhhhhchhhHHHHHHHHHHHH
Q 039268           51 IQRLLGDNRRLVEDRMAMQRELA-AAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRATEPLKKEAVQLRAEVQ  129 (276)
Q Consensus        51 iqrLl~dNqRLaatHvaLrqeLa-aaq~Elqrl~~~~~~i~ae~e~q~R~l~ek~~KmEAelra~e~lk~El~q~raE~q  129 (276)
                      +..++....++|..|..|-+.|. ..-..|..+......-+-..+..+..+...-.....   ..+-.|..-.++-.++.
T Consensus        62 ~~~i~~e~e~~a~~H~~~a~~L~~~v~~~l~~~~~~~~~~rK~~~~~~~k~~k~~~~~~~---~l~KaK~~Y~~~c~~~e  138 (236)
T cd07651          62 LDTLRLETESMAKSHLKFAKQIRQDLEEKLAAFASSYTQKRKKIQSHMEKLLKKKQDQEK---YLEKAREKYEADCSKIN  138 (236)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHhHH
Confidence            44677788888999988888876 345556555433332222222222222222222222   22333333333333332


Q ss_pred             HHHHHHHHHH----HHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHHhhhHHHHHHHHHHHHHHHHHH
Q 039268          130 KLNNLRNELN----GKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMA  205 (276)
Q Consensus       130 ~L~~~RqeL~----~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~qaMEknlisMa  205 (276)
                      .   ++....    .+++.+...|.++..++   ...+.+....-+++...+.-  |+.+- .+.+...|.||..=|.+.
T Consensus       139 ~---~~~~~~~~~~ke~eK~~~k~~k~~~~~---~~~~~~Y~~~v~~~~~~~~~--~~~~~-~~~~~~~Q~lEe~Ri~~l  209 (236)
T cd07651         139 S---YTLQSQLTWGKELEKNNAKLNKAQSSI---NSSRRDYQNAVKALRELNEI--WNREW-KAALDDFQDLEEERIQFL  209 (236)
T ss_pred             H---HHHHHcccCcchHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHH--HHHHH-HHHHHHHHHHHHHHHHHH
Confidence            2   222211    23344444444444443   33567777777888888774  66666 688889999998887777


Q ss_pred             HH
Q 039268          206 RE  207 (276)
Q Consensus       206 rE  207 (276)
                      ++
T Consensus       210 k~  211 (236)
T cd07651         210 KS  211 (236)
T ss_pred             HH
Confidence            76

F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. This subfamily is composed of Schizosaccharomyces pombe Cdc15 and Imp2, and similar proteins. These proteins contain an N-terminal F-BAR domain and a C-terminal SH3 domain. S. pombe Cdc15 and Imp2 play both distinct and overlapping roles in the maintenance and strengthening of the contractile ring at the division site, which is required in cell division. Cdc15 is a component of the actomyosin ring and is required in normal cytokinesis. Imp2 colocalizes with the medial ring during septation and is required for normal septation. F-BAR domains form banana-shaped dimers with a positively-charged concave surface that binds to negatively-charged lipid membranes. They can induce membrane deformation

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

Probab=92.46  E-value=16  Score=38.34  Aligned_cols=155  Identities=20%  Similarity=0.288  Sum_probs=90.2

Q ss_pred             hHHHHHHHHHHHhhhccccccchhhH----------HHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhhh
Q 039268           40 LEEELEIQHAEIQRLLGDNRRLVEDR----------MAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEA  109 (276)
Q Consensus        40 LEe~l~~Q~~EiqrLl~dNqRLaatH----------vaLrqeLaaaq~Elqrl~~~~~~i~ae~e~q~R~l~ek~~KmEA  109 (276)
                      |++-...+.-+|.+|=..|++|-...          -.||...+..+.|++...+.           +-.+-.|...|+.
T Consensus       226 l~~~~~~i~~~ie~l~~~n~~l~e~i~e~ek~~~~~eslre~~~~L~~D~nK~~~y-----------~~~~~~k~~~~~~  294 (581)
T KOG0995|consen  226 LEKYFTSIANEIEDLKKTNRELEEMINEREKDPGKEESLREKKARLQDDVNKFQAY-----------VSQMKSKKQHMEK  294 (581)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcchHHHHHHHHHHHHhHHHHHHHH-----------HHHHHhhhHHHHH
Confidence            44444556667777777776665443          23444445555555554433           4456667777777


Q ss_pred             hhhhchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHHhh
Q 039268          110 DLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTL---QKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKA  186 (276)
Q Consensus       110 elra~e~lk~El~q~raE~q~L~~~RqeL~~qvq~l---~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~EyEKk~  186 (276)
                         ..+-|+.|+.....|+++|...+.+|..+|..-   ..|+.+...|.+   .|..+|+.+.-|+.+.+.-+-..+..
T Consensus       295 ---~l~~l~~Eie~kEeE~e~lq~~~d~Lk~~Ie~Q~iS~~dve~mn~Er~---~l~r~l~~i~~~~d~l~k~vw~~~l~  368 (581)
T KOG0995|consen  295 ---KLEMLKSEIEEKEEEIEKLQKENDELKKQIELQGISGEDVERMNLERN---KLKRELNKIQSELDRLSKEVWELKLE  368 (581)
T ss_pred             ---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHhHHHH
Confidence               677799999999999999999999998776432   223333333331   22233344444444433333333222


Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039268          187 NIELMEQRQAMEKNLVSMAREVEKLRAE  214 (276)
Q Consensus       187 ~~e~~Eq~qaMEknlisMarEvEKLRaE  214 (276)
                      .   -.+-+..|+.++..+.=+-+|---
T Consensus       369 ~---~~~f~~le~~~~~~~~l~~~i~l~  393 (581)
T KOG0995|consen  369 I---EDFFKELEKKFIDLNSLIRRIKLG  393 (581)
T ss_pred             H---HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            2   344556667777777776666655

>COG2433 Uncharacterized conserved protein [Function unknown]

Probab=92.31  E-value=3.4  Score=43.47  Aligned_cols=92  Identities=24%  Similarity=0.382  Sum_probs=50.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHHhhhHHH---HHHH
Q 039268          118 KKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIEL---MEQR  194 (276)
Q Consensus       118 k~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~EyEKk~~~e~---~Eq~  194 (276)
                      +-|+.+...++.++...=+.|..+++.|..++.+++          +||+.|+.+|.++|.-++.+...+-+.   -+..
T Consensus       414 ~~ei~~~~~~i~~~~~~ve~l~~e~~~L~~~~ee~k----------~eie~L~~~l~~~~r~~~~~~~~~rei~~~~~~I  483 (652)
T COG2433         414 RREITVYEKRIKKLEETVERLEEENSELKRELEELK----------REIEKLESELERFRREVRDKVRKDREIRARDRRI  483 (652)
T ss_pred             ccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence            334455555555555555555555555555444433          556666666666655555443333222   2334


Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhcc
Q 039268          195 QAMEKNLVSMAREVEKLRAELTNFD  219 (276)
Q Consensus       195 qaMEknlisMarEvEKLRaElanae  219 (276)
                      -.++++|..=.++||.|..+|+...
T Consensus       484 ~~L~~~L~e~~~~ve~L~~~l~~l~  508 (652)
T COG2433         484 ERLEKELEEKKKRVEELERKLAELR  508 (652)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5567777777777777777776665

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

Probab=92.27  E-value=7.3  Score=42.49  Aligned_cols=84  Identities=19%  Similarity=0.299  Sum_probs=46.8

Q ss_pred             chhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhhhhhhhchhhHHHHHHHHHHHHHHHHHHHHHHH
Q 039268           61 LVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNG  140 (276)
Q Consensus        61 LaatHvaLrqeLaaaq~Elqrl~~~~~~i~ae~e~q~R~l~ek~~KmEAelra~e~lk~El~q~raE~q~L~~~RqeL~~  140 (276)
                      |-+.---|.+||.+.+.-+|.|..-+.+++...--+--++-.-.-..|-.+-.++.+++.+.-.+.-+++|+-.+|+|..
T Consensus       435 ~nak~~ql~~eletLn~k~qqls~kl~Dvr~~~tt~kt~ie~~~~q~e~~isei~qlqarikE~q~kl~~l~~Ekq~l~~  514 (1118)
T KOG1029|consen  435 LNAKKKQLQQELETLNFKLQQLSGKLQDVRVDITTQKTEIEEVTKQRELMISEIDQLQARIKELQEKLQKLAPEKQELNH  514 (1118)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhhhhheeccchHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHH
Confidence            44555566678888888888888777777776654444433333333333333444444444444445555555555555


Q ss_pred             HHHH
Q 039268          141 KVQT  144 (276)
Q Consensus       141 qvq~  144 (276)
                      ++..
T Consensus       515 qlkq  518 (1118)
T KOG1029|consen  515 QLKQ  518 (1118)
T ss_pred             HHHH
Confidence            4443

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

Probab=92.25  E-value=19  Score=38.81  Aligned_cols=75  Identities=28%  Similarity=0.427  Sum_probs=50.6

Q ss_pred             HHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Q 039268          140 GKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAELTNF  218 (276)
Q Consensus       140 ~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~qaMEknlisMarEvEKLRaElana  218 (276)
                      ..+..+...+...+...+.+-.+..++..+..++...++.    .+-..+..++.+..+.++..+..++++|..++...
T Consensus       274 ~~~~~~~~~~~~~~~~~~~L~~~~~e~~~~~~~~~~~~~~----~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~l  348 (908)
T COG0419         274 EELRELERLLEELEEKIERLEELEREIEELEEELEGLRAL----LEELEELLEKLKSLEERLEKLEEKLEKLESELEEL  348 (908)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4456666667777777777777778887777777773333    23344556666777777777777777777776654

>PF13805 Pil1: Eisosome component PIL1; PDB: 3PLT_B

Probab=92.24  E-value=5.4  Score=38.07  Aligned_cols=94  Identities=19%  Similarity=0.277  Sum_probs=66.4

Q ss_pred             hHHHHHHHHHHhhhhhhhhhhhchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHH
Q 039268           92 EQEVHVRDLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQ  171 (276)
Q Consensus        92 e~e~q~R~l~ek~~KmEAelra~e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrq  171 (276)
                      .+--++|..+.-+...|+   ++.+.|.--..+..+|++|..- +--+.++..|.+||.++.+++.   ..-++|.++..
T Consensus       121 ~~~d~yR~~LK~IR~~E~---sl~p~R~~r~~l~d~I~kLk~k-~P~s~kl~~LeqELvraEae~l---vaEAqL~n~kR  193 (271)
T PF13805_consen  121 DRLDQYRIHLKSIRNREE---SLQPSRDRRRKLQDEIAKLKYK-DPQSPKLVVLEQELVRAEAENL---VAEAQLSNIKR  193 (271)
T ss_dssp             HHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHH--TTTTTHHHHHHHHHHHHHHHH---HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHH---HHhHHHHHhHHHHHHHHHHHhc-CCCChHHHHHHHHHHHHHHHhh---HHHHHHHHhhH
Confidence            455788888999999998   5556676667778888888653 4447788888888888887773   22344777766


Q ss_pred             HHHHHHhhhhhHHhhhHHHHHHH
Q 039268          172 ELMHARAAVDYEKKANIELMEQR  194 (276)
Q Consensus       172 Elqr~Raa~EyEKk~~~e~~Eq~  194 (276)
                      +  .++.+|.+.=++-.|.-|.+
T Consensus       194 ~--~lKEa~~~~f~Al~E~aEK~  214 (271)
T PF13805_consen  194 Q--KLKEAYSLKFDALIERAEKQ  214 (271)
T ss_dssp             H--HHHHHHHHHHHHHHHHHHHH
T ss_pred             H--HHHHHHHHHHHHHHHHHHHH
Confidence            5  56777777777766665543

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

Probab=92.14  E-value=1.1  Score=47.91  Aligned_cols=58  Identities=26%  Similarity=0.466  Sum_probs=53.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHH
Q 039268          119 KEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHA  176 (276)
Q Consensus       119 ~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~  176 (276)
                      -||-++..||-+|.+.|.-|..++-.||-|+.+++...+.+|.|+++++.|+|=+.-+
T Consensus       866 GElthlq~e~~~le~~Rs~laeElvklT~e~e~l~ek~~~~p~~~~~ledL~qRy~a~  923 (961)
T KOG4673|consen  866 GELTHLQTELASLESIRSSLAEELVKLTAECEKLREKADRVPGIKAELEDLRQRYAAA  923 (961)
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHH
Confidence            3888999999999999999999999999999999999999999999999999865433

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

Probab=92.13  E-value=19  Score=42.32  Aligned_cols=87  Identities=16%  Similarity=0.197  Sum_probs=53.7

Q ss_pred             ccchhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhhhhhhhchhhHHHHHHHHHHHHHHHHHHHHH
Q 039268           59 RRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNEL  138 (276)
Q Consensus        59 qRLaatHvaLrqeLaaaq~Elqrl~~~~~~i~ae~e~q~R~l~ek~~KmEAelra~e~lk~El~q~raE~q~L~~~RqeL  138 (276)
                      +++-....-|..+|+.++.+++-....+..+.-..+.++....-.+.-+..   -...+..+|.-++.++.+|...-.+|
T Consensus       801 ~~~e~~i~eL~~el~~lk~klq~~~~~~r~l~~~~~~~l~~~~~~i~~~~~---~~~~~~~~l~~~~~~~~~le~k~~eL  877 (1822)
T KOG4674|consen  801 DKCESRIKELERELQKLKKKLQEKSSDLRELTNSLEKQLENAQNLVDELES---ELKSLLTSLDSVSTNIAKLEIKLSEL  877 (1822)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344455566667777777777777777777777777776666554443333   44456666666666666666666666


Q ss_pred             HHHHHHHHHH
Q 039268          139 NGKVQTLQKD  148 (276)
Q Consensus       139 ~~qvq~l~~e  148 (276)
                      ..+++.+...
T Consensus       878 ~k~l~~~~~~  887 (1822)
T KOG4674|consen  878 EKRLKSAKTQ  887 (1822)
T ss_pred             HHHHHHhHHH
Confidence            6665555444

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

Probab=92.08  E-value=7.3  Score=33.63  Aligned_cols=15  Identities=13%  Similarity=0.372  Sum_probs=6.6

Q ss_pred             HHHHHHHHHHHHHhh
Q 039268           76 KEELHRMNLVIGEIR   90 (276)
Q Consensus        76 q~Elqrl~~~~~~i~   90 (276)
                      +.|+.-....+..+.
T Consensus        80 ~~e~~~~~~~l~~l~   94 (191)
T PF04156_consen   80 QGELSELQQQLQQLQ   94 (191)
T ss_pred             hhhHHhHHHHHHHHH
Confidence            344444444444333

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

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

Probab=92.07  E-value=10  Score=39.87  Aligned_cols=123  Identities=23%  Similarity=0.343  Sum_probs=61.9

Q ss_pred             HHHHHHhhhhHHHHHHHHHHhhhhhhhhhhhchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcch---
Q 039268           83 NLVIGEIRAEQEVHVRDLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQI---  159 (276)
Q Consensus        83 ~~~~~~i~ae~e~q~R~l~ek~~KmEAelra~e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqi---  159 (276)
                      ...+..|++|+|.+.--|-.-++.          +++...++..++..|...+...+.+|+.|-..|++++...+..   
T Consensus         3 ~e~l~qlq~Erd~ya~~lk~e~a~----------~qqr~~qmseev~~L~eEk~~~~~~V~eLE~sL~eLk~q~~~~~~~   72 (617)
T PF15070_consen    3 MESLKQLQAERDQYAQQLKEESAQ----------WQQRMQQMSEEVRTLKEEKEHDISRVQELERSLSELKNQMAEPPPP   72 (617)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCc
Confidence            345667788888655444433333          4445555666666666666666666666666666665443321   


Q ss_pred             --h--------HHHHHHHHHHHHHHHHHhhhhhHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 039268          160 --P--------LLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAEL  215 (276)
Q Consensus       160 --p--------al~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~qaMEknlisMarEvEKLRaEl  215 (276)
                        |        .|.+|++.|+.|+..+-.-+..--+-|..+..-.+..|.-|..+=+.++.+..+.
T Consensus        73 ~~pa~pse~E~~Lq~E~~~L~kElE~L~~qlqaqv~~ne~Ls~L~~EqEerL~ELE~~le~~~e~~  138 (617)
T PF15070_consen   73 EPPAGPSEVEQQLQAEAEHLRKELESLEEQLQAQVENNEQLSRLNQEQEERLAELEEELERLQEQQ  138 (617)
T ss_pred             cccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence              1        3455556666666555544433222222221111333444444444444444443

>PF05557 MAD: Mitotic checkpoint protein; InterPro: IPR008672 This family consists of several eukaryotic mitotic checkpoint (Mitotic arrest deficient or MAD) proteins

Probab=92.06  E-value=0.044  Score=57.10  Aligned_cols=26  Identities=23%  Similarity=0.316  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHHhhhhHHHHHHHH
Q 039268           75 AKEELHRMNLVIGEIRAEQEVHVRDL  100 (276)
Q Consensus        75 aq~Elqrl~~~~~~i~ae~e~q~R~l  100 (276)
                      ++.++.........++...|...+.|
T Consensus       126 le~el~~~~e~~~~~k~~le~~~~~L  151 (722)
T PF05557_consen  126 LEEELEEAEEELEQLKRKLEEEKRRL  151 (722)
T ss_dssp             --------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333344444444444444

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.

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

Probab=92.00  E-value=7.7  Score=42.88  Aligned_cols=99  Identities=15%  Similarity=0.270  Sum_probs=63.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHHhhhHHHHHHHH----
Q 039268          120 EAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQ----  195 (276)
Q Consensus       120 El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~q----  195 (276)
                      ||..++.+...|..+|--+.++...|.++|.+++-+.++.-+.+.+.-..=.+++-.=-.+-.+|.---|-.+.+|    
T Consensus       256 ElekmkiqleqlqEfkSkim~qqa~Lqrel~raR~e~keaqe~ke~~k~emad~ad~iEmaTldKEmAEERaesLQ~eve  335 (1243)
T KOG0971|consen  256 ELEKMKIQLEQLQEFKSKIMEQQADLQRELKRARKEAKEAQEAKERYKEEMADTADAIEMATLDKEMAEERAESLQQEVE  335 (1243)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHH
Confidence            7777777777888888888888888888888888877766665554433223333222222234433333333332    


Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhc
Q 039268          196 AMEKNLVSMAREVEKLRAELTNF  218 (276)
Q Consensus       196 aMEknlisMarEvEKLRaElana  218 (276)
                      +....+..|.-++|=|++|.+|-
T Consensus       336 ~lkEr~deletdlEILKaEmeek  358 (1243)
T KOG0971|consen  336 ALKERVDELETDLEILKAEMEEK  358 (1243)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhc
Confidence            34455778888999999999986

>PF15035 Rootletin: Ciliary rootlet component, centrosome cohesion

Probab=91.97  E-value=8.8  Score=34.31  Aligned_cols=115  Identities=19%  Similarity=0.311  Sum_probs=62.7

Q ss_pred             HHHHhhhhhhhhhhhchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHh
Q 039268           99 DLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARA  178 (276)
Q Consensus        99 ~l~ek~~KmEAelra~e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Ra  178 (276)
                      +|-+-+.+||.|-+-.+.|-+--.-+|..+.....+=+.|+.+++.+|.++.+++.++      ...=...+.|-.....
T Consensus        61 dLe~~l~rLeEEqqR~~~L~qvN~lLReQLEq~~~~N~~L~~dl~klt~~~~~l~~eL------~~ke~~~~~ee~~~~~  134 (182)
T PF15035_consen   61 DLEEALIRLEEEQQRSEELAQVNALLREQLEQARKANEALQEDLQKLTQDWERLRDEL------EQKEAEWREEEENFNQ  134 (182)
T ss_pred             cHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHh
Confidence            3444555666665555552222222333333333333444555555555555544333      0111345555566666


Q ss_pred             hhhhHHhhhHHHHHHHHHHHHHHHHHH----HHHHHHHHHhhhcc
Q 039268          179 AVDYEKKANIELMEQRQAMEKNLVSMA----REVEKLRAELTNFD  219 (276)
Q Consensus       179 a~EyEKk~~~e~~Eq~qaMEknlisMa----rEvEKLRaElanae  219 (276)
                      -|.-|.+.-..+-.++.+.-.++.-|-    +++.++|+|++.+.
T Consensus       135 y~~~eh~rll~LWr~v~~lRr~f~elr~~TerdL~~~r~e~~r~~  179 (182)
T PF15035_consen  135 YLSSEHSRLLSLWREVVALRRQFAELRTATERDLSDMRAEFARTS  179 (182)
T ss_pred             hhcccccHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            666666666777788888888887665    44778888887653

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

Probab=91.95  E-value=0.046  Score=56.93  Aligned_cols=103  Identities=24%  Similarity=0.396  Sum_probs=0.0

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHH---HHHHhhhhhHHhh
Q 039268          116 PLKKEAVQLRAEVQKLNNLRNEL------NGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQEL---MHARAAVDYEKKA  186 (276)
Q Consensus       116 ~lk~El~q~raE~q~L~~~RqeL------~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqEl---qr~Raa~EyEKk~  186 (276)
                      -|+++...+.++++...+.|.||      +.++..+..++.+.+--++-+..++..++.|+...   ..-...+|.+-+.
T Consensus       278 ~L~q~~~eL~~~A~~a~~LrDElD~lR~~a~r~~klE~~ve~YKkKLed~~~lk~qvk~Lee~N~~l~e~~~~LEeel~~  357 (713)
T PF05622_consen  278 ELRQENEELQAEAREARALRDELDELREKADRADKLENEVEKYKKKLEDLEDLKRQVKELEEDNAVLLETKAMLEEELKK  357 (713)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444555544      23455555666667766766777777776665532   2233334443333


Q ss_pred             hHHH-------HHHHHHHHHHHHHHHHHHHHHHHHhhhc
Q 039268          187 NIEL-------MEQRQAMEKNLVSMAREVEKLRAELTNF  218 (276)
Q Consensus       187 ~~e~-------~Eq~qaMEknlisMarEvEKLRaElana  218 (276)
                      ....       -.|...++..+..+.+++++|..|+...
T Consensus       358 ~~~~~~qle~~k~qi~eLe~~l~~~~~~~~~l~~e~~~L  396 (713)
T PF05622_consen  358 ARALKSQLEEYKKQIQELEQKLSEESRRADKLEFENKQL  396 (713)
T ss_dssp             ---------------------------------------
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            2222       2345556666666666666655555443

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.

>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=91.90  E-value=6.7  Score=34.61  Aligned_cols=104  Identities=21%  Similarity=0.297  Sum_probs=54.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhhhhhhhchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039268           68 MQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQK  147 (276)
Q Consensus        68 LrqeLaaaq~Elqrl~~~~~~i~ae~e~q~R~l~ek~~KmEAelra~e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~  147 (276)
                      |+.+|.++..++....+....-+++-+..--.|---..+|.+.+-++.++.      =.++..+..++..|..+++.+.+
T Consensus        20 L~~~L~~~r~al~~~~a~~~~~~a~v~~~~~~l~~~~~ri~~m~~gg~~f~------i~~~~~~~~~r~~l~~~~~~~e~   93 (158)
T PF09486_consen   20 LRARLAAQRRALAAAEAELAEQQAEVEAARQRLRAHDARIDAMMTGGAPFS------IDEYLALRRYRDVLEERVRAAEA   93 (158)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHcCCCCcc------HHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444444444444322222222233333333666666      23556677788888888888888


Q ss_pred             HHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhh
Q 039268          148 DLAKLQADNQQIPLLRAEIDGLHQELMHARAAV  180 (276)
Q Consensus       148 eL~r~~ad~qqipal~aEie~lrqElqr~Raa~  180 (276)
                      ++.+++..+   -....+|-.+++.|-+.++.|
T Consensus        94 ~~a~l~~~l---~~~~~~ia~~~raIarn~a~i  123 (158)
T PF09486_consen   94 ELAALRQAL---RAAEDEIAATRRAIARNDARI  123 (158)
T ss_pred             HHHHHHHHH---HHHHHHHHHHHHHHHHhhhhH
Confidence            888777433   333445555555555444443

>PRK01156 chromosome segregation protein; Provisional

Probab=91.74  E-value=21  Score=38.11  Aligned_cols=22  Identities=9%  Similarity=0.152  Sum_probs=8.4

Q ss_pred             HHHHHHHHHHhhhcchhHHHHH
Q 039268          144 TLQKDLAKLQADNQQIPLLRAE  165 (276)
Q Consensus       144 ~l~~eL~r~~ad~qqipal~aE  165 (276)
                      .+.++|..+..+++.+-....+
T Consensus       309 ~l~~~l~~l~~~l~~~e~~~~~  330 (895)
T PRK01156        309 NKKQILSNIDAEINKYHAIIKK  330 (895)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            3333344444444333333333

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

Probab=91.72  E-value=15  Score=41.71  Aligned_cols=11  Identities=36%  Similarity=0.655  Sum_probs=5.1

Q ss_pred             HHHHHHHHHhh
Q 039268           43 ELEIQHAEIQR   53 (276)
Q Consensus        43 ~l~~Q~~Eiqr   53 (276)
                      ++..+..|.++
T Consensus       476 ~lk~~~~el~~  486 (1317)
T KOG0612|consen  476 KLKSEESELQR  486 (1317)
T ss_pred             HHHHHHHHHHH
Confidence            34444555553

>TIGR01005 eps_transp_fam exopolysaccharide transport protein family

Probab=91.72  E-value=13  Score=38.81  Aligned_cols=27  Identities=11%  Similarity=0.133  Sum_probs=15.4

Q ss_pred             chhhHHHHHHHHHHHHHHHHHHHHHHH
Q 039268           61 LVEDRMAMQRELAAAKEELHRMNLVIG   87 (276)
Q Consensus        61 LaatHvaLrqeLaaaq~Elqrl~~~~~   87 (276)
                      |...-..|+++|..++.+++.......
T Consensus       199 L~~ql~~l~~~l~~aE~~l~~fk~~~~  225 (754)
T TIGR01005       199 LAPEIADLSKQSRDAEAEVAAYRAQSD  225 (754)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence            344445566666666666666654433

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.

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

Probab=91.58  E-value=6.6  Score=40.62  Aligned_cols=149  Identities=17%  Similarity=0.310  Sum_probs=86.9

Q ss_pred             hhHHHHHHHHHHHH-HHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhhhhhhhc----hhhHHHHHHHHHHHHHHHHHHHH
Q 039268           63 EDRMAMQRELAAAK-EELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRAT----EPLKKEAVQLRAEVQKLNNLRNE  137 (276)
Q Consensus        63 atHvaLrqeLaaaq-~Elqrl~~~~~~i~ae~e~q~R~l~ek~~KmEAelra~----e~lk~El~q~raE~q~L~~~Rqe  137 (276)
                      +.-.++.|||.+.= +=.|.+...|.+++++.|- +-+.+.-++||..-+...    -+|+.++....+=+..|..-.|+
T Consensus       249 ~~~~~~e~Elk~~f~~~~~~i~~~i~~lk~~n~~-l~e~i~ea~k~s~~i~~l~ek~r~l~~D~nk~~~~~~~mk~K~~~  327 (622)
T COG5185         249 DNYEPSEQELKLGFEKFVHIINTDIANLKTQNDN-LYEKIQEAMKISQKIKTLREKWRALKSDSNKYENYVNAMKQKSQE  327 (622)
T ss_pred             CccCchHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHh
Confidence            33445677776653 4467788888888887762 222233334444422222    23444444444444444455555


Q ss_pred             HHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 039268          138 LNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAELTN  217 (276)
Q Consensus       138 L~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~qaMEknlisMarEvEKLRaElan  217 (276)
                      -.+.+..|..|......   +|-+|++-+|+|+..+..-+-.+|.-++-|+|-    -.+.+||-.|.-++++|+.++-.
T Consensus       328 ~~g~l~kl~~eie~kEe---ei~~L~~~~d~L~~q~~kq~Is~e~fe~mn~Er----e~L~reL~~i~~~~~~L~k~V~~  400 (622)
T COG5185         328 WPGKLEKLKSEIELKEE---EIKALQSNIDELHKQLRKQGISTEQFELMNQER----EKLTRELDKINIQSDKLTKSVKS  400 (622)
T ss_pred             cchHHHHHHHHHHHHHH---HHHHHHhhHHHHHHHHHhcCCCHHHHHHHHHHH----HHHHHHHHHhcchHHHHHHHHHh
Confidence            55555555555444443   345677777777777777666666555555543    34677888888888888887655


Q ss_pred             cc
Q 039268          218 FD  219 (276)
Q Consensus       218 ae  219 (276)
                      .+
T Consensus       401 ~~  402 (622)
T COG5185         401 RK  402 (622)
T ss_pred             HH
Confidence            44

>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=91.51  E-value=7.3  Score=32.49  Aligned_cols=66  Identities=27%  Similarity=0.443  Sum_probs=30.1

Q ss_pred             HHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHHhhh----HHHHHHHHHHHHHHHHHHHHHHHH
Q 039268          146 QKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKAN----IELMEQRQAMEKNLVSMAREVEKL  211 (276)
Q Consensus       146 ~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~EyEKk~~----~e~~Eq~qaMEknlisMarEvEKL  211 (276)
                      .+||.+--.+++.|..|+.++..++.++..+++..+-=+...    ...-++.+.+++.+..+-.=++-|
T Consensus        48 E~El~~Ha~~~~~L~~lr~e~~~~~~~~~~l~~~~~~a~~~l~~~e~sw~~qk~~le~e~~~~~~r~~dL  117 (132)
T PF07926_consen   48 ERELVKHAEDIKELQQLREELQELQQEINELKAEAESAKAELEESEASWEEQKEQLEKELSELEQRIEDL  117 (132)
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence            344555555555555555555555555554444433322222    233444445555544444434333

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

>PF15619 Lebercilin: Ciliary protein causing Leber congenital amaurosis disease

Probab=91.50  E-value=10  Score=34.16  Aligned_cols=88  Identities=20%  Similarity=0.263  Sum_probs=57.6

Q ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHH-----HHHHHHHHHHHHHhhhhhHHhhhHH
Q 039268          115 EPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRA-----EIDGLHQELMHARAAVDYEKKANIE  189 (276)
Q Consensus       115 e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~a-----Eie~lrqElqr~Raa~EyEKk~~~e  189 (276)
                      .....|+..++..+.+....-.++..++.....||.+.+..++.+-.|..     |.+.|.++|..+.+.++-..+...+
T Consensus        64 ~~h~eEvr~Lr~~LR~~q~~~r~~~~klk~~~~el~k~~~~l~~L~~L~~dknL~eReeL~~kL~~~~~~l~~~~~ki~~  143 (194)
T PF15619_consen   64 QRHNEEVRVLRERLRKSQEQERELERKLKDKDEELLKTKDELKHLKKLSEDKNLAEREELQRKLSQLEQKLQEKEKKIQE  143 (194)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCchhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44555666666666666666666777777777777777776666555543     5677777777777777766666666


Q ss_pred             HHHHHHHHHHHHH
Q 039268          190 LMEQRQAMEKNLV  202 (276)
Q Consensus       190 ~~Eq~qaMEknli  202 (276)
                      +--|.....+|+.
T Consensus       144 Lek~leL~~k~~~  156 (194)
T PF15619_consen  144 LEKQLELENKSFR  156 (194)
T ss_pred             HHHHHHHHhhHHH
Confidence            5555555555543

>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=91.43  E-value=14  Score=41.21  Aligned_cols=127  Identities=17%  Similarity=0.322  Sum_probs=68.1

Q ss_pred             ccchhhHHHHHHHHHHHHHHHH--------------HHHHHHHHhhhhHHHHHHHHHHhhhhhhhhh----hhchhhHHH
Q 039268           59 RRLVEDRMAMQRELAAAKEELH--------------RMNLVIGEIRAEQEVHVRDLVEKGLKLEADL----RATEPLKKE  120 (276)
Q Consensus        59 qRLaatHvaLrqeLaaaq~Elq--------------rl~~~~~~i~ae~e~q~R~l~ek~~KmEAel----ra~e~lk~E  120 (276)
                      +++.++.-.++.++.-.+++|-              .|-..+.+.++++|-.+-++...+-.....+    +-.+--..|
T Consensus       737 ~~~~~~~~~~~e~v~e~~~~Ike~~~~~k~~~~~i~~lE~~~~d~~~~re~rlkdl~keik~~k~~~e~~~~~~ek~~~e  816 (1174)
T KOG0933|consen  737 HKLLDDLKELLEEVEESEQQIKEKERALKKCEDKISTLEKKMKDAKANRERRLKDLEKEIKTAKQRAEESSKELEKRENE  816 (1174)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5566777777777776665553              3444555666777777766665554444422    111222233


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHHhhhH
Q 039268          121 AVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANI  188 (276)
Q Consensus       121 l~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~EyEKk~~~  188 (276)
                      .+-+..|+..|....+.+..+.+.+...+..+.+   +++.+++.|++...+...+-+.+..+|+.-.
T Consensus       817 ~e~l~lE~e~l~~e~~~~k~~l~~~~~~~~~l~~---e~~~l~~kv~~~~~~~~~~~~el~~~k~k~~  881 (1174)
T KOG0933|consen  817 YERLQLEHEELEKEISSLKQQLEQLEKQISSLKS---ELGNLEAKVDKVEKDVKKAQAELKDQKAKQR  881 (1174)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHhHHhHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333333333333333333   3466777777777777777777777766543

>PF08826 DMPK_coil: DMPK coiled coil domain like; InterPro: IPR014930 This domain is found in the myotonic dystrophy protein kinase (DMPK) and adopts a coiled coil structure

Probab=91.38  E-value=1.9  Score=32.56  Aligned_cols=50  Identities=30%  Similarity=0.504  Sum_probs=28.7

Q ss_pred             HHHHHH---HHHHHHHHHHHhhhhhHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 039268          161 LLRAEI---DGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAELTN  217 (276)
Q Consensus       161 al~aEi---e~lrqElqr~Raa~EyEKk~~~e~~Eq~qaMEknlisMarEvEKLRaElan  217 (276)
                      +|.+||   +.+..||.+++++       |...-.++|..|+..-.+..||+.|+-++..
T Consensus         5 aL~~EirakQ~~~eEL~kvk~~-------n~~~e~kLqeaE~rn~eL~~ei~~L~~e~ee   57 (61)
T PF08826_consen    5 ALEAEIRAKQAIQEELTKVKSA-------NLAFESKLQEAEKRNRELEQEIERLKKEMEE   57 (61)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            456666   5677777777654       3334444555555555555555555555543

It plays a role in dimerisation []. ; GO: 0004674 protein serine/threonine kinase activity, 0005524 ATP binding, 0006468 protein phosphorylation; PDB: 1WT6_D.

>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=91.35  E-value=11  Score=34.06  Aligned_cols=20  Identities=30%  Similarity=0.341  Sum_probs=9.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q 039268           68 MQRELAAAKEELHRMNLVIG   87 (276)
Q Consensus        68 LrqeLaaaq~Elqrl~~~~~   87 (276)
                      ++.+|..++.+...|...+.
T Consensus        25 ~~~~l~~~~~~~~~l~~~i~   44 (302)
T PF10186_consen   25 LRSELQQLKEENEELRRRIE   44 (302)
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444333

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

>KOG0993 consensus Rab5 GTPase effector Rabaptin-5 [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.20  E-value=19  Score=36.76  Aligned_cols=46  Identities=22%  Similarity=0.320  Sum_probs=35.6

Q ss_pred             HHHHHHHHHHHhhhhhHHhhhHHHHHHHH-------HHHHHHHHHHHHHHHHH
Q 039268          167 DGLHQELMHARAAVDYEKKANIELMEQRQ-------AMEKNLVSMAREVEKLR  212 (276)
Q Consensus       167 e~lrqElqr~Raa~EyEKk~~~e~~Eq~q-------aMEknlisMarEvEKLR  212 (276)
                      +.|+.||+-++-+++.|.-...++-+|.+       .-+-.+.|+..|.|.|+
T Consensus       437 e~l~~ei~~L~eqle~e~~~~~~le~ql~~~ve~c~~~~aS~~slk~e~erl~  489 (542)
T KOG0993|consen  437 EDLVKEIQSLQEQLEKERQSEQELEWQLDDDVEQCSNCDASFASLKVEPERLH  489 (542)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccHHHHH
Confidence            67888999999999999888877655554       45666777777887776

>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=91.16  E-value=10  Score=36.16  Aligned_cols=66  Identities=18%  Similarity=0.304  Sum_probs=58.5

Q ss_pred             chhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcch----hHHHHHHHHHHHHHHHHHhh
Q 039268          114 TEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQI----PLLRAEIDGLHQELMHARAA  179 (276)
Q Consensus       114 ~e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqi----pal~aEie~lrqElqr~Raa  179 (276)
                      ...+..++.+.+..+..|.+.-..|.++++.-++||.|.+--++.+    |+-..|-|.|..||+..=..
T Consensus       171 i~~~~~~~~~~~~~l~~l~~de~~Le~KIekkk~ELER~qKRL~sLq~vRPAfmdEyEklE~EL~~lY~~  240 (267)
T PF10234_consen  171 IKAVQQQLQQTQQQLNNLASDEANLEAKIEKKKQELERNQKRLQSLQSVRPAFMDEYEKLEEELQKLYEI  240 (267)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHHHHH
Confidence            4678889999999999999999999999999999999999877766    78889999999999988655

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 [].

>KOG1962 consensus B-cell receptor-associated protein and related proteins [Defense mechanisms]

Probab=91.13  E-value=2.5  Score=39.12  Aligned_cols=94  Identities=23%  Similarity=0.332  Sum_probs=48.9

Q ss_pred             HHHHHHHHHHhhhhHHH--------HHHHHHHhhhhhhhhhhhchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039268           79 LHRMNLVIGEIRAEQEV--------HVRDLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLA  150 (276)
Q Consensus        79 lqrl~~~~~~i~ae~e~--------q~R~l~ek~~KmEAelra~e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~  150 (276)
                      |+|+...+..+-..++.        +.+...++..++|+   ..+.+++|+..++.|+++....-..+..++..+.+   
T Consensus       113 I~R~~~ll~~l~~l~~~~~~~~~~~~lk~~~~~~~~~~~---~~~~~~~~~~kL~~el~~~~~~Le~~~~~~~al~K---  186 (216)
T KOG1962|consen  113 IRRLHTLLRELATLRANEKAMKENEALKKQLENSSKLEE---ENDKLKADLEKLETELEKKQKKLEKAQKKVDALKK---  186 (216)
T ss_pred             HHHHHHHHHHHHHHHhhHHHHHHHHHHHHhhhcccchhh---hHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHH---
Confidence            45555555555555542        23333333334444   22334555555555555444333333333333333   


Q ss_pred             HHHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHHh
Q 039268          151 KLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKK  185 (276)
Q Consensus       151 r~~ad~qqipal~aEie~lrqElqr~Raa~EyEKk  185 (276)
                             |...+..|.|.|-.|.+++|..|+-..|
T Consensus       187 -------q~e~~~~EydrLlee~~~Lq~~i~~~~~  214 (216)
T KOG1962|consen  187 -------QSEGLQDEYDRLLEEYSKLQEQIESGGK  214 (216)
T ss_pred             -------HHHHcccHHHHHHHHHHHHHHHHhccCC
Confidence                   3444457888888888888888775544

>PRK11519 tyrosine kinase; Provisional

Probab=91.08  E-value=4.4  Score=42.55  Aligned_cols=110  Identities=15%  Similarity=0.249  Sum_probs=55.0

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHhhhhH-----HHHHHHHHHhhhhhhhhhhhchhhHHHHHHH----HHHHHHHHHH
Q 039268           64 DRMAMQRELAAAKEELHRMNLVIGEIRAEQ-----EVHVRDLVEKGLKLEADLRATEPLKKEAVQL----RAEVQKLNNL  134 (276)
Q Consensus        64 tHvaLrqeLaaaq~Elqrl~~~~~~i~ae~-----e~q~R~l~ek~~KmEAelra~e~lk~El~q~----raE~q~L~~~  134 (276)
                      +-.=|.++|..++++|...-..+.+.+.+.     +.+.+.+++.+..+++++...+...+++.+.    |-.+      
T Consensus       268 a~~fL~~ql~~l~~~L~~aE~~l~~fr~~~~~vd~~~ea~~~l~~~~~l~~ql~~l~~~~~~l~~~y~~~hP~v------  341 (719)
T PRK11519        268 SLAFLAQQLPEVRSRLDVAENKLNAFRQDKDSVDLPLEAKAVLDSMVNIDAQLNELTFKEAEISKLYTKEHPAY------  341 (719)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCcHH------
Confidence            333455555555555555555555444433     2444555666555554433322222222111    0111      


Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhh
Q 039268          135 RNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAV  180 (276)
Q Consensus       135 RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~  180 (276)
                       +.|..+.+.+.+++..+++....+|....|+..|..|..-.+.-+
T Consensus       342 -~~l~~~~~~L~~~~~~l~~~~~~lp~~e~~~~~L~Re~~~~~~lY  386 (719)
T PRK11519        342 -RTLLEKRKALEDEKAKLNGRVTAMPKTQQEIVRLTRDVESGQQVY  386 (719)
T ss_pred             -HHHHHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHH
Confidence             234455566666777777777777776666666665555555443

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

Probab=91.00  E-value=16  Score=36.06  Aligned_cols=33  Identities=6%  Similarity=0.111  Sum_probs=20.3

Q ss_pred             chhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhH
Q 039268           61 LVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQ   93 (276)
Q Consensus        61 LaatHvaLrqeLaaaq~Elqrl~~~~~~i~ae~   93 (276)
                      ...+-.-|.+++..++++|......+.+.+.+.
T Consensus       159 ~~~~~~fl~~ql~~~~~~L~~ae~~l~~f~~~~  191 (498)
T TIGR03007       159 SDSAQRFIDEQIKTYEKKLEAAENRLKAFKQEN  191 (498)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            344555666677777777766666666655444

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.

>KOG0249 consensus LAR-interacting protein and related proteins [General function prediction only]

Probab=91.00  E-value=7  Score=42.18  Aligned_cols=23  Identities=30%  Similarity=0.367  Sum_probs=16.6

Q ss_pred             hhhhHHHHHHHHHHHhhhccccc
Q 039268           37 PALLEEELEIQHAEIQRLLGDNR   59 (276)
Q Consensus        37 P~~LEe~l~~Q~~EiqrLl~dNq   59 (276)
                      .+-||+.|+-+.++...+..-|.
T Consensus        93 ndklE~~Lankda~lrq~eekn~  115 (916)
T KOG0249|consen   93 NDKLENELANKDADLRQNEEKNR  115 (916)
T ss_pred             hHHHHHHHhCcchhhchhHHhhh
Confidence            36788888888888776665553

>PRK11546 zraP zinc resistance protein; Provisional

Probab=90.94  E-value=0.53  Score=40.90  Aligned_cols=50  Identities=24%  Similarity=0.284  Sum_probs=37.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhh
Q 039268          130 KLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAA  179 (276)
Q Consensus       130 ~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa  179 (276)
                      +....|++|.++-..|...++....|-+.|-+|..||..||+.|.-.|..
T Consensus        62 ~t~~LRqqL~aKr~ELnALl~~~~pD~~kI~aL~kEI~~Lr~kL~e~r~~  111 (143)
T PRK11546         62 QTSALRQQLVSKRYEYNALLTANPPDSSKINAVAKEMENLRQSLDELRVK  111 (143)
T ss_pred             HHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34445666666666666777778889988989999999988888766653

>PRK10361 DNA recombination protein RmuC; Provisional

Probab=90.87  E-value=21  Score=36.61  Aligned_cols=88  Identities=18%  Similarity=0.331  Sum_probs=56.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHh-----hhcc-----hhHHHHHHHHHHHHHHHHHhhhhhHHhhhHHHHHHHHH
Q 039268          127 EVQKLNNLRNELNGKVQTLQKDLAKLQA-----DNQQ-----IPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQA  196 (276)
Q Consensus       127 E~q~L~~~RqeL~~qvq~l~~eL~r~~a-----d~qq-----ipal~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~qa  196 (276)
                      -++.|...++.|+.+-+.|..++-..++     .+++     +--|+..|+..++.+.   ..+..+.+.+..+.+|.+.
T Consensus       100 k~~~l~~~~~~L~~~F~~LA~~ile~k~~~f~~~~~~~l~~ll~Pl~e~l~~f~~~v~---~~~~~~~~~~~~L~~qi~~  176 (475)
T PRK10361        100 KIRQMINSEQRLSEQFENLANRIFEHSNRRVDEQNRQSLNSLLSPLREQLDGFRRQVQ---DSFGKEAQERHTLAHEIRN  176 (475)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHH
Confidence            3445667777788777777776322222     1111     2344555555555443   3344578889999999998


Q ss_pred             HHHHHHHHHHHHHHHHHHhhh
Q 039268          197 MEKNLVSMAREVEKLRAELTN  217 (276)
Q Consensus       197 MEknlisMarEvEKLRaElan  217 (276)
                      |-+--..|..|..+|-.=|-.
T Consensus       177 L~~~n~~i~~ea~nLt~ALkg  197 (475)
T PRK10361        177 LQQLNAQMAQEAINLTRALKG  197 (475)
T ss_pred             HHHHHHHHHHHHHHHHHHHcC
Confidence            877778999999988776643

>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=90.68  E-value=9  Score=37.64  Aligned_cols=80  Identities=25%  Similarity=0.426  Sum_probs=43.3

Q ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHHhhhHHHHHHH
Q 039268          115 EPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQR  194 (276)
Q Consensus       115 e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~  194 (276)
                      +++-+|..+++.++..+...-+++++-|..++++|+++.          .||+.+++|+.                 |.+
T Consensus       269 e~l~~eYr~~~~~ls~~~~~y~~~s~~V~~~t~~L~~Is----------eeLe~vK~eme-----------------erg  321 (359)
T PF10498_consen  269 EPLIQEYRSAQDELSEVQEKYKQASEGVSERTRELAEIS----------EELEQVKQEME-----------------ERG  321 (359)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH----------HHHHHHHHHHH-----------------Hhc
Confidence            444445555555555555555555555555555555444          33344444432                 112


Q ss_pred             HHHH--HHHHHHHHHHHHHHHHhhhccCC
Q 039268          195 QAME--KNLVSMAREVEKLRAELTNFDGR  221 (276)
Q Consensus       195 qaME--knlisMarEvEKLRaElanae~r  221 (276)
                      ..|.  ..||.+.+=|-||+.||..++-|
T Consensus       322 ~~mtD~sPlv~IKqAl~kLk~EI~qMdvr  350 (359)
T PF10498_consen  322 SSMTDGSPLVKIKQALTKLKQEIKQMDVR  350 (359)
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHHhhhh
Confidence            2222  23677777788999999888765

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.

>TIGR03017 EpsF chain length determinant protein EpsF

Probab=90.53  E-value=17  Score=35.11  Aligned_cols=32  Identities=19%  Similarity=0.311  Sum_probs=18.5

Q ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhH
Q 039268           62 VEDRMAMQRELAAAKEELHRMNLVIGEIRAEQ   93 (276)
Q Consensus        62 aatHvaLrqeLaaaq~Elqrl~~~~~~i~ae~   93 (276)
                      ..+-.-|.++|..++++|......+.+.+.+.
T Consensus       170 ~~~~~fl~~ql~~~~~~l~~ae~~l~~fr~~~  201 (444)
T TIGR03017       170 QKAALWFVQQIAALREDLARAQSKLSAYQQEK  201 (444)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            34455566666666666666665555555544

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.

>PRK10246 exonuclease subunit SbcC; Provisional

Probab=90.50  E-value=32  Score=38.02  Aligned_cols=48  Identities=15%  Similarity=0.198  Sum_probs=21.1

Q ss_pred             HHHHHHHHHHHhhhccccccchhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 039268           41 EEELEIQHAEIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGE   88 (276)
Q Consensus        41 Ee~l~~Q~~EiqrLl~dNqRLaatHvaLrqeLaaaq~Elqrl~~~~~~   88 (276)
                      +..+..-..+++.+...-..+..+...|.+.+...+..+..+...+..
T Consensus       529 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  576 (1047)
T PRK10246        529 QSRLDALEKEVKKLGEEGAALRGQLDALTKQLQRDESEAQSLRQEEQA  576 (1047)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            445555555555543333333333334444444444444444444333

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

Probab=90.45  E-value=5.8  Score=41.43  Aligned_cols=94  Identities=27%  Similarity=0.372  Sum_probs=48.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchh----HHHHHHHHHHHHHHHHHhhhhhHHh--hhHHHH-HHHHH
Q 039268          124 LRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIP----LLRAEIDGLHQELMHARAAVDYEKK--ANIELM-EQRQA  196 (276)
Q Consensus       124 ~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqip----al~aEie~lrqElqr~Raa~EyEKk--~~~e~~-Eq~qa  196 (276)
                      -..|++.|...-++|..++..+..++....+.++|+-    ..+.+...+.+++..-..+++....  .|++.+ +.+++
T Consensus       326 ~~~el~~l~~~l~~l~~~i~~~~~~~~~l~~~~~q~~~e~~~~~~~~~~le~~~~l~~k~~~lL~d~e~ni~kL~~~v~~  405 (594)
T PF05667_consen  326 QEQELEELQEQLDELESQIEELEAEIKMLKSSLKQLEEELEEKEAENEELEEELKLKKKTVELLPDAEENIAKLQALVEA  405 (594)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence            3344444444444444444444444444444443322    2223334444444444444443322  233222 23455


Q ss_pred             HHHHHHHHHHHHHHHHHHhhh
Q 039268          197 MEKNLVSMAREVEKLRAELTN  217 (276)
Q Consensus       197 MEknlisMarEvEKLRaElan  217 (276)
                      =+.||+.++.+-|+.|+.|..
T Consensus       406 s~~rl~~L~~qWe~~R~pL~~  426 (594)
T PF05667_consen  406 SEQRLVELAQQWEKHRAPLIE  426 (594)
T ss_pred             HHHHHHHHHHHHHHHHhHHHH
Confidence            589999999999998887653

>PLN03229 acetyl-coenzyme A carboxylase carboxyl transferase subunit alpha; Provisional

Probab=90.42  E-value=29  Score=37.53  Aligned_cols=83  Identities=24%  Similarity=0.368  Sum_probs=59.2

Q ss_pred             HHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHHhhhHHHHHHHHHHHHHHHH------HHHHHHH
Q 039268          137 ELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVS------MAREVEK  210 (276)
Q Consensus       137 eL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~qaMEknlis------MarEvEK  210 (276)
                      ++..+|+.|.+|+.+--.++=..+.|+.=+|.|+-|+-.+=.+=+-|-|.++|-++|-  +.+.|..      +----|.
T Consensus       646 ~~k~KIe~L~~eIkkkIe~av~ss~LK~k~E~Lk~Evaka~~~pd~~~k~kieal~~q--ik~~~~~a~~~~~lkek~e~  723 (762)
T PLN03229        646 NLQEKIESLNEEINKKIERVIRSSDLKSKIELLKLEVAKASKTPDVTEKEKIEALEQQ--IKQKIAEALNSSELKEKFEE  723 (762)
T ss_pred             hhHHHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHH--HHHHHHHHhccHhHHHHHHH
Confidence            3466777777787777777777888888888888888777777777777888888762  2233322      2222799


Q ss_pred             HHHHhhhccCC
Q 039268          211 LRAELTNFDGR  221 (276)
Q Consensus       211 LRaElanae~r  221 (276)
                      |++||+.+..-
T Consensus       724 l~~e~~~~~~~  734 (762)
T PLN03229        724 LEAELAAARET  734 (762)
T ss_pred             HHHHHHHhhcc
Confidence            99999886544

>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=90.40  E-value=5.9  Score=38.24  Aligned_cols=109  Identities=18%  Similarity=0.323  Sum_probs=54.0

Q ss_pred             HHHHHHHHHHHHHHhhhhHHH---HHHHHH----HhhhhhhhhhhhchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039268           75 AKEELHRMNLVIGEIRAEQEV---HVRDLV----EKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQK  147 (276)
Q Consensus        75 aq~Elqrl~~~~~~i~ae~e~---q~R~l~----ek~~KmEAelra~e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~  147 (276)
                      |-+-|+-|-..+..++-|+-.   |+-.|-    ..-.|.|-+--...+||.|.+-+.-.+..|...||-|+.+++.-..
T Consensus        16 aLqKIqelE~QldkLkKE~qQrQfQleSlEAaLqKQKqK~e~ek~e~s~LkREnq~l~e~c~~lek~rqKlshdlq~Ke~   95 (307)
T PF10481_consen   16 ALQKIQELEQQLDKLKKERQQRQFQLESLEAALQKQKQKVEEEKNEYSALKRENQSLMESCENLEKTRQKLSHDLQVKES   95 (307)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhHHHHHHHHHHHHHHhhHHHhhhHH
Confidence            345556666666666655542   222211    1112334433334444444444444444444444444444443333


Q ss_pred             HHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHHhh
Q 039268          148 DLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKA  186 (276)
Q Consensus       148 eL~r~~ad~qqipal~aEie~lrqElqr~Raa~EyEKk~  186 (276)
                      -+.=   --.|+...+..|+.|.+||.++++.+|--..+
T Consensus        96 qv~~---lEgQl~s~Kkqie~Leqelkr~KsELErsQ~~  131 (307)
T PF10481_consen   96 QVNF---LEGQLNSCKKQIEKLEQELKRCKSELERSQQA  131 (307)
T ss_pred             HHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3222   22355666777788888888887776644443

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 [].

>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=90.06  E-value=7.2  Score=31.25  Aligned_cols=38  Identities=26%  Similarity=0.417  Sum_probs=25.1

Q ss_pred             hhhHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 039268          180 VDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAELTN  217 (276)
Q Consensus       180 ~EyEKk~~~e~~Eq~qaMEknlisMarEvEKLRaElan  217 (276)
                      +++-++.-..+-.++..+++++..+..++.+|+..+..
T Consensus        89 ~~~l~~r~~~l~~~~~~l~~~~~~~~~~~~~l~~~l~~  126 (129)
T cd00890          89 IEFLKKRLETLEKQIEKLEKQLEKLQDQITELQEELQQ  126 (129)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444556666777777777777777777776653

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.

>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89

Probab=89.96  E-value=4  Score=31.23  Aligned_cols=62  Identities=19%  Similarity=0.225  Sum_probs=44.4

Q ss_pred             ccchhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhhhhhhhchhhHHHHHHHHHH
Q 039268           59 RRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRATEPLKKEAVQLRAE  127 (276)
Q Consensus        59 qRLaatHvaLrqeLaaaq~Elqrl~~~~~~i~ae~e~q~R~l~ek~~KmEAelra~e~lk~El~q~raE  127 (276)
                      ++|-++..+|+-.|..+...+...-..+..|..|+|.-++.|-+......-       ||.|+..++.|
T Consensus         1 ~~Lea~~~~Lr~rLd~~~rk~~~~~~~~k~L~~ERd~~~~~l~~a~~e~~~-------Lk~E~e~L~~e   62 (69)
T PF14197_consen    1 QKLEAEIATLRNRLDSLTRKNSVHEIENKRLRRERDSAERQLGDAYEENNK-------LKEENEALRKE   62 (69)
T ss_pred             ChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHH
Confidence            467788888999998888888888888888888998766666555544443       44455544444

>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=89.88  E-value=26  Score=37.48  Aligned_cols=80  Identities=18%  Similarity=0.315  Sum_probs=46.4

Q ss_pred             HHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHHh----hhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039268          138 LNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKK----ANIELMEQRQAMEKNLVSMAREVEKLRA  213 (276)
Q Consensus       138 L~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~EyEKk----~~~e~~Eq~qaMEknlisMarEvEKLRa  213 (276)
                      |+.--..+++||.+++..+   ..|++=|+.++.-+.+.+..++..++    ...=.-.|++.+...|-.++.+|..|--
T Consensus       630 LS~AEr~~~~EL~~~~~~l---~~l~~si~~lk~k~~~Q~~~i~~~~~~~~~s~~L~~~Q~~~I~~iL~~~~~~I~~~v~  706 (717)
T PF10168_consen  630 LSEAEREFKKELERMKDQL---QDLKASIEQLKKKLDYQQRQIESQKSPKKKSIVLSESQKRTIKEILKQQGEEIDELVK  706 (717)
T ss_pred             CCHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHhccccccCCCccCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3433455566666665543   33445555555544444443332221    1122346888899999999999999888


Q ss_pred             HhhhccC
Q 039268          214 ELTNFDG  220 (276)
Q Consensus       214 Elanae~  220 (276)
                      +|-+-.+
T Consensus       707 ~ik~i~~  713 (717)
T PF10168_consen  707 QIKNIKK  713 (717)
T ss_pred             HHHHHHH
Confidence            8776543

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 [].

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

Probab=89.82  E-value=24  Score=35.68  Aligned_cols=25  Identities=12%  Similarity=0.352  Sum_probs=9.9

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHH
Q 039268           63 EDRMAMQRELAAAKEELHRMNLVIG   87 (276)
Q Consensus        63 atHvaLrqeLaaaq~Elqrl~~~~~   87 (276)
                      .++-.|..+|..++.++..+...|.
T Consensus        73 ~~i~~~~~ql~~s~~~l~~~~~~I~   97 (420)
T COG4942          73 TEIASLEAQLIETADDLKKLRKQIA   97 (420)
T ss_pred             HHHHHHHHHHHHHHhHHHHHHhhHH
Confidence            3333333444444444444433333

>PF14362 DUF4407: Domain of unknown function (DUF4407)

Probab=89.81  E-value=17  Score=33.85  Aligned_cols=36  Identities=17%  Similarity=0.050  Sum_probs=26.1

Q ss_pred             HHHHHHHHHHHHHHhhhhhHHhhhHHHHHHHHHHHH
Q 039268          164 AEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEK  199 (276)
Q Consensus       164 aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~qaMEk  199 (276)
                      .+++.+....+...+..+...+.+..++....+|..
T Consensus       218 ~~~~~l~~~~~~~~a~~~~~~~~~~G~l~R~~Al~~  253 (301)
T PF14362_consen  218 ARKARLDEARQAKVAEFQAIISANDGFLARLEALWE  253 (301)
T ss_pred             HHHHHHHHHHHHHHHHHhHhhccCCCHHHHHHHHHH
Confidence            566666666677777766666788888888888853

>PRK12704 phosphodiesterase; Provisional

Probab=89.77  E-value=25  Score=36.06  Aligned_cols=55  Identities=18%  Similarity=0.268  Sum_probs=24.3

Q ss_pred             HHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHHhhhHHHHH
Q 039268          138 LNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELME  192 (276)
Q Consensus       138 L~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~EyEKk~~~e~~E  192 (276)
                      |..+.+.+.+....+...-+.|-....+|+...+++......++.-+......+|
T Consensus        91 L~~Ree~Le~r~e~Lekke~eL~~re~~Le~re~eLe~~~~~~~~~~~~~~~~l~  145 (520)
T PRK12704         91 LLQKEENLDRKLELLEKREEELEKKEKELEQKQQELEKKEEELEELIEEQLQELE  145 (520)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444444444444444444444445555555555554444433333333333

>PRK01156 chromosome segregation protein; Provisional

Probab=89.44  E-value=33  Score=36.63  Aligned_cols=29  Identities=10%  Similarity=0.117  Sum_probs=11.0

Q ss_pred             chhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039268          114 TEPLKKEAVQLRAEVQKLNNLRNELNGKV  142 (276)
Q Consensus       114 ~e~lk~El~q~raE~q~L~~~RqeL~~qv  142 (276)
                      .+..+.++.....++..+.....+|..++
T Consensus       631 le~~~~~l~~~~~~i~~~~~~i~~l~~~i  659 (895)
T PRK01156        631 LNNKYNEIQENKILIEKLRGKIDNYKKQI  659 (895)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333333333333

>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=89.33  E-value=7.5  Score=37.25  Aligned_cols=76  Identities=25%  Similarity=0.341  Sum_probs=58.0

Q ss_pred             chhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHHhhhHH
Q 039268          114 TEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIE  189 (276)
Q Consensus       114 ~e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~EyEKk~~~e  189 (276)
                      .+.|-+-...+-.|..++...-..+.-+...+.+|...+++++.+...++.-++.|..|||+-...+..|-+..+.
T Consensus        24 ~~~L~kk~~ell~e~k~~~k~~~~~~Kk~~~l~kek~~l~~E~~k~~~~k~KLE~LCRELQk~Nk~lkeE~~~~~~   99 (309)
T PF09728_consen   24 LEALCKKYAELLEEMKRLQKQLKKLQKKQEQLQKEKDQLQSELSKAILAKSKLESLCRELQKQNKKLKEESKRRAR   99 (309)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3445555666666666666666677777888888888889999999999999999999999988888776654433

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 [].

>PF09787 Golgin_A5: Golgin subfamily A member 5; InterPro: IPR019177 This entry represents a family of proteins involved in maintaining Golgi structure

Probab=89.27  E-value=27  Score=35.44  Aligned_cols=22  Identities=23%  Similarity=0.341  Sum_probs=18.6

Q ss_pred             hhHHHHHHHHHHHHHHHHHhhh
Q 039268          159 IPLLRAEIDGLHQELMHARAAV  180 (276)
Q Consensus       159 ipal~aEie~lrqElqr~Raa~  180 (276)
                      +|.|+.|.+.++.|++.++..|
T Consensus       276 l~~l~~E~~~~~ee~~~l~~Qi  297 (511)
T PF09787_consen  276 LEELKQERDHLQEEIQLLERQI  297 (511)
T ss_pred             chhhHHHHHHHHHHHHHHHHHH
Confidence            7888888888888888888877

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 [].

>PF05557 MAD: Mitotic checkpoint protein; InterPro: IPR008672 This family consists of several eukaryotic mitotic checkpoint (Mitotic arrest deficient or MAD) proteins

Probab=89.19  E-value=0.11  Score=54.06  Aligned_cols=60  Identities=23%  Similarity=0.283  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHHHHhhhhhHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCC
Q 039268          162 LRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAELTNFDGR  221 (276)
Q Consensus       162 l~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~qaMEknlisMarEvEKLRaElanae~r  221 (276)
                      +...++.|..|+..+..-++..+.....+-....-+|+-.+-+.+|++-||+-|.+.++=
T Consensus       369 l~~~~~~Le~e~~~l~~~~~~l~~~~~~~~~~~~RLerq~~L~~kE~d~LR~~L~syd~e  428 (722)
T PF05557_consen  369 LEEEIQELEQEKEQLLKEIEELEASLEALKKLIRRLERQKALATKERDYLRAQLKSYDKE  428 (722)
T ss_dssp             ------------------------------------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence            344456666666666666666666555555666778888889999999999999987754

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.

>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=89.14  E-value=24  Score=34.71  Aligned_cols=57  Identities=16%  Similarity=0.241  Sum_probs=47.3

Q ss_pred             HHHHHHHHHHHHHHhhhhhHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccC
Q 039268          164 AEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAELTNFDG  220 (276)
Q Consensus       164 aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~qaMEknlisMarEvEKLRaElanae~  220 (276)
                      ..++.+.+|+..++..+.--+..+.+..+-+..+.+-|-.+.-|+|+...++..-..
T Consensus       266 ~qle~l~~eYr~~~~~ls~~~~~y~~~s~~V~~~t~~L~~IseeLe~vK~emeerg~  322 (359)
T PF10498_consen  266 NQLEPLIQEYRSAQDELSEVQEKYKQASEGVSERTRELAEISEELEQVKQEMEERGS  322 (359)
T ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            467778888888888888888888888888888888999999999999999876543

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.

>COG3206 GumC Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]

Probab=89.07  E-value=10  Score=37.38  Aligned_cols=45  Identities=27%  Similarity=0.426  Sum_probs=34.4

Q ss_pred             HHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhh
Q 039268          138 LNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDY  182 (276)
Q Consensus       138 L~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~Ey  182 (276)
                      |..+.+.+.++++.+++.+..+|....++..|..|++-.|+.|+-
T Consensus       347 l~~~~~~L~~~~~~l~~~~~~~~~~~~~l~~L~Re~~~~r~~ye~  391 (458)
T COG3206         347 LEQQEAALEKELAQLKGRLSKLPKLQVQLRELEREAEAARSLYET  391 (458)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhchHhhhHHHHHHHHHHHHHHHHHH
Confidence            667777777777777777878888888888888888777777553

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

Probab=89.03  E-value=38  Score=36.81  Aligned_cols=50  Identities=28%  Similarity=0.370  Sum_probs=32.6

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhhhhhhhch
Q 039268           64 DRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRATE  115 (276)
Q Consensus        64 tHvaLrqeLaaaq~Elqrl~~~~~~i~ae~e~q~R~l~ek~~KmEAelra~e  115 (276)
                      .+-+||.++-..+.|++-  ....+.-+|++-+|+.|+.-.-||-.+.-+..
T Consensus       424 ERDalr~e~kslk~ela~--~l~~DeLaEkdE~I~~lm~EGEkLSK~ql~qs  473 (961)
T KOG4673|consen  424 ERDALRREQKSLKKELAA--ALLKDELAEKDEIINQLMAEGEKLSKKQLAQS  473 (961)
T ss_pred             hHHHHHHHHHHHHHHHHH--hhhhHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Confidence            455677777777776653  22335777888888888887777665544333

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

Probab=89.02  E-value=17  Score=32.75  Aligned_cols=91  Identities=21%  Similarity=0.306  Sum_probs=49.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHHhhhHHHHHHHHHH
Q 039268          118 KKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAM  197 (276)
Q Consensus       118 k~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~qaM  197 (276)
                      +.++..+..|.++|..--+.+..++..|.++|.....|.+.+-.+++-+..+.++|..++-..+--.-.+.........+
T Consensus        47 ~k~m~ei~~eN~~L~epL~~a~~e~~eL~k~L~~y~kdK~~L~~~k~rl~~~ek~l~~Lk~e~evL~qr~~kle~ErdeL  126 (201)
T PF13851_consen   47 EKLMAEISQENKRLSEPLKKAEEEVEELRKQLKNYEKDKQSLQNLKARLKELEKELKDLKWEHEVLEQRFEKLEQERDEL  126 (201)
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444455555555555555555555555555555555555555555555555555555555555555555555555555


Q ss_pred             HHHHHHHHHHH
Q 039268          198 EKNLVSMAREV  208 (276)
Q Consensus       198 EknlisMarEv  208 (276)
                      ...+.++..||
T Consensus       127 ~~kf~~~i~ev  137 (201)
T PF13851_consen  127 YRKFESAIQEV  137 (201)
T ss_pred             HHHHHHHHHHH
Confidence            55555555554

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

Probab=88.92  E-value=5.7  Score=35.08  Aligned_cols=101  Identities=26%  Similarity=0.327  Sum_probs=24.2

Q ss_pred             hhhhHHHHHHHHHHHhhhccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhhhhh----h
Q 039268           37 PALLEEELEIQHAEIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADL----R  112 (276)
Q Consensus        37 P~~LEe~l~~Q~~EiqrLl~dNqRLaatHvaLrqeLaaaq~Elqrl~~~~~~i~ae~e~q~R~l~ek~~KmEAel----r  112 (276)
                      ..-+++++.....|+..+.-.+-.|+..=+.+-.+|...+.++......|..++++...    |-.++..++.+|    +
T Consensus        69 ~~~le~~~~~l~~ELael~r~~~el~~~L~~~~~~l~~l~~~~~~~~~~l~~l~~~~~~----L~~~~~~l~~~l~ek~k  144 (194)
T PF08614_consen   69 ISSLEQKLAKLQEELAELYRSKGELAQQLVELNDELQELEKELSEKERRLAELEAELAQ----LEEKIKDLEEELKEKNK  144 (194)
T ss_dssp             ---------------------------------------------HHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHH
T ss_pred             ccccccccccccccccccccccccccccccccccccchhhhhHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHH
Confidence            35678888888888888888887777766666677766666666666666655544332    222222222222    2


Q ss_pred             hchhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 039268          113 ATEPLKKEAVQLRAEVQKLNNLRNELNGK  141 (276)
Q Consensus       113 a~e~lk~El~q~raE~q~L~~~RqeL~~q  141 (276)
                      +++.++.|+..++.+.-.|..-.+.|..+
T Consensus       145 ~~e~l~DE~~~L~l~~~~~e~k~~~l~~E  173 (194)
T PF08614_consen  145 ANEILQDELQALQLQLNMLEEKLRKLEEE  173 (194)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44555555555555444443333333333

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.

>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=88.90  E-value=18  Score=33.48  Aligned_cols=51  Identities=22%  Similarity=0.390  Sum_probs=29.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHH
Q 039268          119 KEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQE  172 (276)
Q Consensus       119 ~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqE  172 (276)
                      .||.|++.|+..|.+.-+.+..+-........++..+   +--|+.+||.||.|
T Consensus        53 eeLrqI~~DIn~lE~iIkqa~~er~~~~~~i~r~~ee---y~~Lk~~in~~R~e  103 (230)
T PF10146_consen   53 EELRQINQDINTLENIIKQAESERNKRQEKIQRLYEE---YKPLKDEINELRKE  103 (230)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHH
Confidence            3666777777776666555555555555555555532   23445666666666

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.

>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=88.81  E-value=38  Score=36.56  Aligned_cols=147  Identities=24%  Similarity=0.311  Sum_probs=97.7

Q ss_pred             chhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhhhhhhhchhhHHHHHHHHHHHHHHHHHHHHHHH
Q 039268           61 LVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNG  140 (276)
Q Consensus        61 LaatHvaLrqeLaaaq~Elqrl~~~~~~i~ae~e~q~R~l~ek~~KmEAelra~e~lk~El~q~raE~q~L~~~RqeL~~  140 (276)
                      |-.+-..||-+|.....|+..-...+-.---..|.-.|.+.--..+.+..+.   .+...+.-++..|..-...-.+|.-
T Consensus       539 Lee~~~~Lrneles~~eel~~k~~Ev~~kl~ksEen~r~~e~e~~~k~kq~k---~lenk~~~LrKqvEnk~K~ieeLqq  615 (786)
T PF05483_consen  539 LEETNTQLRNELESVKEELKQKGEEVKCKLDKSEENARSIECEILKKEKQMK---ILENKCNNLRKQVENKNKNIEELQQ  615 (786)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHhhHHHHHHHhhhHHHHH---HHHHHHHHHHHHHHHHHhHHHHHHH
Confidence            4445555677777777777666554444444445555555555555555333   3444555555555555555555655


Q ss_pred             HHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 039268          141 KVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAELT  216 (276)
Q Consensus       141 qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~qaMEknlisMarEvEKLRaEla  216 (276)
                      +-..+.+.   .-++..|+.++---|..|+-|+..+.--|+.+...+..-+|.-.+-|-||.   -||+|++.-..
T Consensus       616 eNk~LKKk---~~aE~kq~~~~eikVn~L~~E~e~~kk~~eE~~~~~~keie~K~~~e~~L~---~EveK~k~~a~  685 (786)
T PF05483_consen  616 ENKALKKK---ITAESKQSNVYEIKVNKLQEELENLKKKHEEETDKYQKEIESKSISEEELL---GEVEKAKLTAD  685 (786)
T ss_pred             HHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHhhhhHHHHH---HHHHHHHHHHH
Confidence            55666554   567788888888888888889988888899998888888888888887765   47777776543

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

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

Probab=88.80  E-value=11  Score=36.08  Aligned_cols=117  Identities=21%  Similarity=0.301  Sum_probs=33.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhh--hHHHHHHHHHHhhhhhhhhhhhchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039268           68 MQRELAAAKEELHRMNLVIGEIRA--EQEVHVRDLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTL  145 (276)
Q Consensus        68 LrqeLaaaq~Elqrl~~~~~~i~a--e~e~q~R~l~ek~~KmEAelra~e~lk~El~q~raE~q~L~~~RqeL~~qvq~l  145 (276)
                      |+.++..+..|..........++.  ..+..+..+-+...+++.   ..+.+.+||..+..|-..|.....+|..+...+
T Consensus        14 l~~~~~~~~~E~~~Y~~fL~~l~~~~~~~~~~~~~~~el~~le~---Ee~~l~~eL~~LE~e~~~l~~el~~le~e~~~l   90 (314)
T PF04111_consen   14 LDKQLEQAEKERDTYQEFLKKLEEESDSEEDIEELEEELEKLEQ---EEEELLQELEELEKEREELDQELEELEEELEEL   90 (314)
T ss_dssp             ----------------------------HH--HHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            445555555555555555555542  112223333333333333   222233333333333333333333333333333


Q ss_pred             HHHHHHHHhhh----cchhHHHHHHHHHHHHHHHHHhhhhhHHhhh
Q 039268          146 QKDLAKLQADN----QQIPLLRAEIDGLHQELMHARAAVDYEKKAN  187 (276)
Q Consensus       146 ~~eL~r~~ad~----qqipal~aEie~lrqElqr~Raa~EyEKk~~  187 (276)
                      .++-.+...+.    .++-.+..|.+.+...++++..-++--+|.|
T Consensus        91 ~~eE~~~~~~~n~~~~~l~~~~~e~~sl~~q~~~~~~~L~~L~ktN  136 (314)
T PF04111_consen   91 DEEEEEYWREYNELQLELIEFQEERDSLKNQYEYASNQLDRLRKTN  136 (314)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHT--
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            33322221111    1122333555555555666666555555555

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.

>TIGR03017 EpsF chain length determinant protein EpsF

Probab=88.77  E-value=24  Score=34.17  Aligned_cols=28  Identities=25%  Similarity=0.345  Sum_probs=18.2

Q ss_pred             cchhhHHHHHHHHHHHHHHHHHHHHHHH
Q 039268           60 RLVEDRMAMQRELAAAKEELHRMNLVIG   87 (276)
Q Consensus        60 RLaatHvaLrqeLaaaq~Elqrl~~~~~   87 (276)
                      -|...-..++++|..++..|+....-..
T Consensus       175 fl~~ql~~~~~~l~~ae~~l~~fr~~~~  202 (444)
T TIGR03017       175 WFVQQIAALREDLARAQSKLSAYQQEKG  202 (444)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence            3445556677788888777777665443

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.

>TIGR03319 YmdA_YtgF conserved hypothetical protein YmdA/YtgF

Probab=88.74  E-value=31  Score=35.41  Aligned_cols=17  Identities=18%  Similarity=0.231  Sum_probs=6.8

Q ss_pred             hhHHHHHHHHHHHHHHH
Q 039268          159 IPLLRAEIDGLHQELMH  175 (276)
Q Consensus       159 ipal~aEie~lrqElqr  175 (276)
                      +-....+++.+.+|+..
T Consensus       113 L~~re~eLee~~~e~~~  129 (514)
T TIGR03319       113 LSNKEKNLDEKEEELEE  129 (514)
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            33333444444444333

>TIGR01010 BexC_CtrB_KpsE polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family

Probab=88.66  E-value=9.8  Score=36.20  Aligned_cols=23  Identities=35%  Similarity=0.585  Sum_probs=13.2

Q ss_pred             hcchhHHHHHHHHHHHHHHHHHh
Q 039268          156 NQQIPLLRAEIDGLHQELMHARA  178 (276)
Q Consensus       156 ~qqipal~aEie~lrqElqr~Ra  178 (276)
                      .-++-.++++|+.|++.|...+.
T Consensus       241 ~P~v~~l~~~i~~l~~~i~~e~~  263 (362)
T TIGR01010       241 NPQVPSLQARIKSLRKQIDEQRN  263 (362)
T ss_pred             CCchHHHHHHHHHHHHHHHHHHH
Confidence            55555566666666666655443

This family contains gamma proteobacterial proteins involved in capsule polysaccharide export.

>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=88.59  E-value=32  Score=37.00  Aligned_cols=145  Identities=23%  Similarity=0.312  Sum_probs=76.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhhhhhhhchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039268           67 AMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQ  146 (276)
Q Consensus        67 aLrqeLaaaq~Elqrl~~~~~~i~ae~e~q~R~l~ek~~KmEAelra~e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~  146 (276)
                      .|.+.|...+.||..+.+.+..+++|.|.=.-..    ..|-.   ..+.+..+..++|.|++.+-.--+-|-.+--.|-
T Consensus        31 ~~~~~i~~l~~elk~~~~~~~~~~~e~~rl~~~~----~~~~~---~~~~~e~~~~~lr~e~ke~K~rE~rll~dyselE  103 (717)
T PF09730_consen   31 YLQQRILELENELKQLRQELSNVQAENERLSQLN----QELRK---ECEDLELERKRLREEIKEYKFREARLLQDYSELE  103 (717)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHH
Confidence            3445555555555555555555555555211000    01111   1233444556666666665554444444444444


Q ss_pred             HHHHHHHhhhcchhHH---HHHHHHHHHHHHHHHhhhhhHHhhhHHHHHHHH----HHHHHHHHHHHHHH---HHHHHhh
Q 039268          147 KDLAKLQADNQQIPLL---RAEIDGLHQELMHARAAVDYEKKANIELMEQRQ----AMEKNLVSMAREVE---KLRAELT  216 (276)
Q Consensus       147 ~eL~r~~ad~qqipal---~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~q----aMEknlisMarEvE---KLRaEla  216 (276)
                      .|=--++   +||..|   ..|.|+|++||.|+--.+++-+.---|...-..    -||-=|-++..|=|   .||-||.
T Consensus       104 eENislQ---Kqvs~Lk~sQvefE~~Khei~rl~Ee~~~l~~qlee~~rLk~iae~qleEALesl~~EReqk~~LrkEL~  180 (717)
T PF09730_consen  104 EENISLQ---KQVSVLKQSQVEFEGLKHEIKRLEEEIELLNSQLEEAARLKEIAEKQLEEALESLKSEREQKNALRKELD  180 (717)
T ss_pred             HHHHHHH---HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4411111   223333   357888888888888877776655444433222    26667778887755   4888887


Q ss_pred             hccCC
Q 039268          217 NFDGR  221 (276)
Q Consensus       217 nae~r  221 (276)
                      .-=+.
T Consensus       181 ~~~~~  185 (717)
T PF09730_consen  181 QHLNI  185 (717)
T ss_pred             HhcCc
Confidence            64443

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

>PF02050 FliJ: Flagellar FliJ protein; InterPro: IPR012823 Many flagellar proteins are exported by a flagellum-specific export pathway

Probab=88.56  E-value=9.2  Score=29.16  Aligned_cols=81  Identities=21%  Similarity=0.296  Sum_probs=35.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHHhhhHHHHHHHH
Q 039268          118 KKEAVQLRAEVQKLNNLRNELNGKVQTLQ--KDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQ  195 (276)
Q Consensus       118 k~El~q~raE~q~L~~~RqeL~~qvq~l~--~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~q  195 (276)
                      ..++.++...+..|...+.++...+....  -.+..+..-...+..|...|+.+.+++..++..++.-.+...+..-..+
T Consensus        11 ~~~~~~~~~~l~~L~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~l~~~i~~~~~~~~~~~~~~~~~r~~l~~a~~~~k   90 (123)
T PF02050_consen   11 QQELQEAEEQLEQLQQERQEYQEQLSESQQGVSVAQLRNYQRYISALEQAIQQQQQELERLEQEVEQAREELQEARRERK   90 (123)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHT-----SGGGHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34455555555555555555544444333  0011222222334445555555555555555555554444444444444


Q ss_pred             HHH
Q 039268          196 AME  198 (276)
Q Consensus       196 aME  198 (276)
                      +||
T Consensus        91 ~~e   93 (123)
T PF02050_consen   91 KLE   93 (123)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            444

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.

>KOG0921 consensus Dosage compensation complex, subunit MLE [Transcription]

Probab=88.47  E-value=0.64  Score=51.00  Aligned_cols=24  Identities=21%  Similarity=0.436  Sum_probs=14.2

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHH
Q 039268          186 ANIELMEQRQAMEKNLVSMAREVE  209 (276)
Q Consensus       186 ~~~e~~Eq~qaMEknlisMarEvE  209 (276)
                      .+....-|+------|+.|.|+|-
T Consensus      1114 knPaiIsqLdpvnarllnmiRdIs 1137 (1282)
T KOG0921|consen 1114 KNPAIISQLDPVNARLLNMIRDIS 1137 (1282)
T ss_pred             cChhHhhccCchhHHHHHHHHHhc
Confidence            345555555555555777777754

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

Probab=88.46  E-value=15  Score=38.38  Aligned_cols=23  Identities=43%  Similarity=0.543  Sum_probs=13.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHh
Q 039268          132 NNLRNELNGKVQTLQKDLAKLQA  154 (276)
Q Consensus       132 ~~~RqeL~~qvq~l~~eL~r~~a  154 (276)
                      ...|.++..++|.|.+||.=...
T Consensus       196 tllr~d~~n~~q~Lleel~f~~~  218 (546)
T KOG0977|consen  196 TLLRVDLQNRVQTLLEELAFLKR  218 (546)
T ss_pred             HHHHHHHHhHHHHHHHHHHHHHh
Confidence            34556666666666666555443

>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=88.41  E-value=40  Score=36.37  Aligned_cols=115  Identities=22%  Similarity=0.349  Sum_probs=66.6

Q ss_pred             hhhHHHH------HHHHHHHhhhccccccchhhH---HHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhh
Q 039268           38 ALLEEEL------EIQHAEIQRLLGDNRRLVEDR---MAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLE  108 (276)
Q Consensus        38 ~~LEe~l------~~Q~~EiqrLl~dNqRLaatH---vaLrqeLaaaq~Elqrl~~~~~~i~ae~e~q~R~l~ek~~KmE  108 (276)
                      +-||+..      +.+-.|+...|..|+.|...-   ..+..+|.++.+||-.+..+...--.|-+.++-..+..-...-
T Consensus       391 ~eleEmtk~k~~ke~eleeL~~~L~e~qkll~ekk~~eki~E~lq~~eqel~~llq~~ekev~dLe~~l~~~~~~eq~ys  470 (786)
T PF05483_consen  391 SELEEMTKQKNNKEVELEELKKILAEKQKLLDEKKQFEKIAEELQGTEQELTGLLQIREKEVHDLEIQLTTIKESEQHYS  470 (786)
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhhHHHH
Confidence            3455554      456667788888898777543   4556788888888888877666555566666666655444333


Q ss_pred             hhhhhchhhHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 039268          109 ADLRATEPLKKEAVQLR-------AEVQKLNNLRNELNGKVQTLQKDLAKLQAD  155 (276)
Q Consensus       109 Aelra~e~lk~El~q~r-------aE~q~L~~~RqeL~~qvq~l~~eL~r~~ad  155 (276)
                      -   .++.||.||.+-.       +-+.+|......|.-+...+.-||.+.+.|
T Consensus       471 k---QVeeLKtELE~EkLKN~ELt~~~nkLslEkk~laQE~~~~~~elKk~qed  521 (786)
T PF05483_consen  471 K---QVEELKTELEQEKLKNTELTVNCNKLSLEKKQLAQETSDMALELKKQQED  521 (786)
T ss_pred             H---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHH
Confidence            2   4455666666532       222333333334444444444445444444

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

>PRK03947 prefoldin subunit alpha; Reviewed

Probab=88.06  E-value=9.5  Score=31.71  Aligned_cols=43  Identities=23%  Similarity=0.355  Sum_probs=33.2

Q ss_pred             HhhhhhHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcc
Q 039268          177 RAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAELTNFD  219 (276)
Q Consensus       177 Raa~EyEKk~~~e~~Eq~qaMEknlisMarEvEKLRaElanae  219 (276)
                      -.|+++-++.-..+-++.+.+++++.....+++++...+....
T Consensus        93 ~eA~~~l~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~l~~l~  135 (140)
T PRK03947         93 DEAIEILDKRKEELEKALEKLEEALQKLASRIAQLAQELQQLQ  135 (140)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3466777777777888888888888888888888888776543

>TIGR03794 NHPM_micro_HlyD NHPM bacteriocin system secretion protein

Probab=88.04  E-value=27  Score=33.94  Aligned_cols=30  Identities=20%  Similarity=0.242  Sum_probs=19.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhh-hccCCC
Q 039268          193 QRQAMEKNLVSMAREVEKLRAELT-NFDGRP  222 (276)
Q Consensus       193 q~qaMEknlisMarEvEKLRaEla-nae~r~  222 (276)
                      +....+.++.....++.+++.++. +..-++
T Consensus       228 ~~~~~~~~l~~~~~~l~~~~~~l~~~~~i~A  258 (421)
T TIGR03794       228 ELETVEARIKEARYEIEELENKLNLNTRIVS  258 (421)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhcCCeEEc
Confidence            344555667777778888888886 354443

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.

>KOG3478 consensus Prefoldin subunit 6, KE2 family [Posttranslational modification, protein turnover, chaperones]

Probab=87.93  E-value=15  Score=31.18  Aligned_cols=97  Identities=26%  Similarity=0.393  Sum_probs=70.7

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHhhhcc---h-hHHHHHHHHHHHHHHHHHhhhhhHHhhhHH
Q 039268          117 LKKEAVQLRAEVQKLNNLRNELNGKVQT---LQKDLAKLQADNQQ---I-PLLRAEIDGLHQELMHARAAVDYEKKANIE  189 (276)
Q Consensus       117 lk~El~q~raE~q~L~~~RqeL~~qvq~---l~~eL~r~~ad~qq---i-pal~aEie~lrqElqr~Raa~EyEKk~~~e  189 (276)
                      .-..+++++.|+.+....||.|..|++.   ...||..+..|+.-   | |.|      ++||+--+|+.++  |  +.|
T Consensus        10 ~~~kyq~LQk~l~k~~~~rqkle~qL~Enk~V~~Eldlle~d~~VYKliGpvL------vkqel~EAr~nV~--k--Rle   79 (120)
T KOG3478|consen   10 EANKYQNLQKELEKYVESRQKLETQLQENKIVLEELDLLEEDSNVYKLIGPVL------VKQELEEARTNVG--K--RLE   79 (120)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHhcccchHHHHhcchh------hHHHHHHHHhhHH--H--HHH
Confidence            4457788888999999999999998874   45677777777521   1 222      5788888888753  2  222


Q ss_pred             H-HHHHHHHHHHHHHHHHHHHHHHHHhhhccCCCC
Q 039268          190 L-MEQRQAMEKNLVSMAREVEKLRAELTNFDGRPW  223 (276)
Q Consensus       190 ~-~Eq~qaMEknlisMarEvEKLRaElanae~r~~  223 (276)
                      . .-..+-.|+++-.+-+|.+|.|..+++..+-+.
T Consensus        80 fI~~Eikr~e~~i~d~q~e~~k~R~~v~k~Q~~~q  114 (120)
T KOG3478|consen   80 FISKEIKRLENQIRDSQEEFEKQREAVIKLQQAAQ  114 (120)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            2 234677889999999999999999998876543

>PF08776 VASP_tetra: VASP tetramerisation domain; InterPro: IPR014885 Vasodilator-stimulated phosphoprotein (VASP) is an actin cytoskeletal regulatory protein

Probab=87.91  E-value=2.6  Score=29.60  Aligned_cols=34  Identities=29%  Similarity=0.602  Sum_probs=21.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHH
Q 039268          131 LNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHA  176 (276)
Q Consensus       131 L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~  176 (276)
                      |-...||+   ++.+.+||++++-+.         ||+++|||.+.
T Consensus         5 le~~KqEI---L~EvrkEl~K~K~EI---------IeA~~~eL~r~   38 (40)
T PF08776_consen    5 LERLKQEI---LEEVRKELQKVKEEI---------IEAIRQELSRR   38 (40)
T ss_dssp             HHHHHHHH---HHHHHHHHHHHHHHH---------HHHHHHHHHHH
T ss_pred             HHHHHHHH---HHHHHHHHHHHHHHH---------HHHHHHHHhcc
Confidence            33444444   344567777777555         58888888764

This region corresponds to the tetramerisation domain which forms a right handed alpha helical coiled coil structure []. ; PDB: 1USE_A 1USD_A.

>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD

Probab=87.79  E-value=37  Score=35.24  Aligned_cols=30  Identities=20%  Similarity=0.371  Sum_probs=14.0

Q ss_pred             HHHHHHHhhhhHHHHHHHHHHhhhhhhhhh
Q 039268           82 MNLVIGEIRAEQEVHVRDLVEKGLKLEADL  111 (276)
Q Consensus        82 l~~~~~~i~ae~e~q~R~l~ek~~KmEAel  111 (276)
                      +...+..+....-.++-.+.++..++|.+|
T Consensus       378 ~~~~~~~~~~~~~~~~~~~~~~~~~~e~el  407 (650)
T TIGR03185       378 LEVLIQQVKRELQDAKSQLLKELRELEEEL  407 (650)
T ss_pred             HHHHHHHhhhhHHHHHHHHHHHHHHHHHHH
Confidence            333334333333344555555555555544

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.

>PF07794 DUF1633: Protein of unknown function (DUF1633); InterPro: IPR012436 This family contains sequences derived from a group of hypothetical proteins expressed by Arabidopsis thaliana (Mouse-ear cress)

Probab=87.75  E-value=15  Score=38.43  Aligned_cols=115  Identities=21%  Similarity=0.293  Sum_probs=73.0

Q ss_pred             HHHHHhhhhhhhhhhhchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHH
Q 039268           98 RDLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHAR  177 (276)
Q Consensus        98 R~l~ek~~KmEAelra~e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~R  177 (276)
                      +...+|+--||.|+.   .++.+.+-++.-|..|...|.||+-+|-.|+.-.+-++   +-+-.-+-|+-.   -+-++=
T Consensus       593 kG~Aeki~~me~Ei~---glq~DkQ~ar~qIh~Le~~Reelsk~V~DLtssaQgak---KAVhdaK~ElA~---~Y~klL  663 (790)
T PF07794_consen  593 KGYAEKIGFMEMEIG---GLQADKQTARNQIHRLEQRREELSKRVMDLTSSAQGAK---KAVHDAKVELAA---AYSKLL  663 (790)
T ss_pred             hhhHhhhhhhhhhhc---chhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhH---HHHHHHHHHHHH---HHHHHH
Confidence            456788888998665   47788899999999999999999999998886533222   112222223211   122222


Q ss_pred             hhhhh---HHhhhHHHHHH----------HHHHHHHHHHHHHHHHHHHHHhhhccCC
Q 039268          178 AAVDY---EKKANIELMEQ----------RQAMEKNLVSMAREVEKLRAELTNFDGR  221 (276)
Q Consensus       178 aa~Ey---EKk~~~e~~Eq----------~qaMEknlisMarEvEKLRaElanae~r  221 (276)
                      +-|+.   -||-+.-+.-|          .+.|-||-|..+-|-..|.|||-.++.+
T Consensus       664 agiKEKwv~KKe~t~le~qAaEvesNlaLidqi~kaaIdltvEkprlqAeLdd~ea~  720 (790)
T PF07794_consen  664 AGIKEKWVAKKEYTVLEGQAAEVESNLALIDQITKAAIDLTVEKPRLQAELDDLEAR  720 (790)
T ss_pred             HHHHHHHhhhhhHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhhhHHHhhchHHHhh
Confidence            22221   13333333333          3456677788887888899999888766

These sequences are highly similar and the region concerned is about 100 residues long.

>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=87.69  E-value=52  Score=36.84  Aligned_cols=170  Identities=15%  Similarity=0.219  Sum_probs=102.2

Q ss_pred             HHHHHHHhhhccccccchh-------hHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHH-----HHHHHHHhhhhhhhhhh
Q 039268           45 EIQHAEIQRLLGDNRRLVE-------DRMAMQRELAAAKEELHRMNLVIGEIRAEQEV-----HVRDLVEKGLKLEADLR  112 (276)
Q Consensus        45 ~~Q~~EiqrLl~dNqRLaa-------tHvaLrqeLaaaq~Elqrl~~~~~~i~ae~e~-----q~R~l~ek~~KmEAelr  112 (276)
                      -.+|.|+..|-.|-++|-.       +-.-|++++.....++.++..-- ..+..-|+     ...+.-+.-.+..+...
T Consensus       177 l~~h~eL~~lr~~e~~Le~~~~~~~~~l~~L~~~~~~l~kdVE~~rer~-~~~~~Ie~l~~k~~~v~y~~~~~ey~~~k~  255 (1072)
T KOG0979|consen  177 LQYHIELMDLREDEKSLEDKLTTKTEKLNRLEDEIDKLEKDVERVRERE-RKKSKIELLEKKKKWVEYKKHDREYNAYKQ  255 (1072)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHhccccchHhhhHHHHHHHH
Confidence            3455555555555555442       33445555555555554443211 11111110     11122234456677777


Q ss_pred             hchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh----cchhHHHHHHHHHHHHHHHHHhhhhhHHhhhH
Q 039268          113 ATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADN----QQIPLLRAEIDGLHQELMHARAAVDYEKKANI  188 (276)
Q Consensus       113 a~e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~----qqipal~aEie~lrqElqr~Raa~EyEKk~~~  188 (276)
                      +.+-+|.++..+--+++.+...+.+|-.++.....+....+.++    ..+-.+-..++.+.+++...-.+.|+-|+.--
T Consensus       256 ~~~r~k~~~r~l~k~~~pi~~~~eeLe~~~~et~~~~s~~~~~~~e~~~k~~~~~ek~~~~~~~v~~~~~~le~lk~~~~  335 (1072)
T KOG0979|consen  256 AKDRAKKELRKLEKEIKPIEDKKEELESEKKETRSKISQKQRELNEALAKVQEKFEKLKEIEDEVEEKKNKLESLKKAAE  335 (1072)
T ss_pred             HHHHHHHHHHHHHHhhhhhhhhhhhHHhHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            88888889988888888888888888777766666655544433    33444455667788888888777776665432


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCCC
Q 039268          189 ELMEQRQAMEKNLVSMAREVEKLRAELTNFDGRP  222 (276)
Q Consensus       189 e~~Eq~qaMEknlisMarEvEKLRaElanae~r~  222 (276)
                      .       -.+++..-..++..+++||.+++...
T Consensus       336 ~-------rq~~i~~~~k~i~~~q~el~~~~~~e  362 (1072)
T KOG0979|consen  336 K-------RQKRIEKAKKMILDAQAELQETEDPE  362 (1072)
T ss_pred             H-------HHHHHHHHHHHHHHHHhhhhhcCCcc
Confidence            2       24567777778888888888887653

>KOG0288 consensus WD40 repeat protein TipD [General function prediction only]

Probab=87.63  E-value=18  Score=36.86  Aligned_cols=82  Identities=18%  Similarity=0.153  Sum_probs=44.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhHH---HHHHHHHHhhhhhhhhhhhchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039268           69 QRELAAAKEELHRMNLVIGEIRAEQE---VHVRDLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTL  145 (276)
Q Consensus        69 rqeLaaaq~Elqrl~~~~~~i~ae~e---~q~R~l~ek~~KmEAelra~e~lk~El~q~raE~q~L~~~RqeL~~qvq~l  145 (276)
                      .|.|+.+.++|+.-...-..+.+++.   +..+.+..+..+.|.+|+   -|+.|.-|+..|.=...+.-.-|+.++..+
T Consensus        12 dqr~~~~~~~laq~~k~~s~~~aq~~~~~a~~~ai~a~~~~~E~~l~---~Lq~e~~~l~e~~v~~~a~~~~~t~~~~~~   88 (459)
T KOG0288|consen   12 DQRLIDLNTELAQCEKAQSRLSAQLVILRAESRAIKAKLQEKELELN---RLQEENTQLNEERVREEATEKTLTVDVLIA   88 (459)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444433333333333332   334556677777777554   367777777777666666666666666655


Q ss_pred             HHHHHHHH
Q 039268          146 QKDLAKLQ  153 (276)
Q Consensus       146 ~~eL~r~~  153 (276)
                      ..+-.|+.
T Consensus        89 en~~~r~~   96 (459)
T KOG0288|consen   89 ENLRIRSL   96 (459)
T ss_pred             HHHHHHHH
Confidence            55533333

>COG3524 KpsE Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]

Probab=87.55  E-value=16  Score=36.02  Aligned_cols=28  Identities=36%  Similarity=0.684  Sum_probs=25.2

Q ss_pred             hhhcchhHHHHHHHHHHHHHHHHHhhhh
Q 039268          154 ADNQQIPLLRAEIDGLHQELMHARAAVD  181 (276)
Q Consensus       154 ad~qqipal~aEie~lrqElqr~Raa~E  181 (276)
                      -|+-|||.|++++++||+||.+-+.+|-
T Consensus       248 ~~nPqi~~LkarieSlrkql~qe~q~is  275 (372)
T COG3524         248 PENPQIPGLKARIESLRKQLLQEKQAIS  275 (372)
T ss_pred             CCCCcchhHHHHHHHHHHHHHHHHHHhc
Confidence            3789999999999999999999888774

>TIGR01000 bacteriocin_acc bacteriocin secretion accessory protein

Probab=87.33  E-value=32  Score=34.00  Aligned_cols=30  Identities=13%  Similarity=0.275  Sum_probs=15.1

Q ss_pred             ccccchhhHHHHHHHHHHHHHHHHHHHHHH
Q 039268           57 DNRRLVEDRMAMQRELAAAKEELHRMNLVI   86 (276)
Q Consensus        57 dNqRLaatHvaLrqeLaaaq~Elqrl~~~~   86 (276)
                      |+..+-+..-.|+..+..++.++.+|.+-+
T Consensus        91 d~~~~~~~~~~~~~~~~~~~~~~~rL~a~~  120 (457)
T TIGR01000        91 DNGNEENQKQLLEQQLDNLKDQKKSLDTLK  120 (457)
T ss_pred             CchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444444455555555555555555554443

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

>KOG2391 consensus Vacuolar sorting protein/ubiquitin receptor VPS23 [Posttranslational modification, protein turnover, chaperones; Intracellular trafficking, secretion, and vesicular transport]

Probab=87.31  E-value=3.1  Score=41.08  Aligned_cols=89  Identities=22%  Similarity=0.222  Sum_probs=59.6

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcc-hhHHHHHHHHHHHHHHHHHhhhhhHHhhhHHHHHHHH
Q 039268          117 LKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQ-IPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQ  195 (276)
Q Consensus       117 lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qq-ipal~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~q  195 (276)
                      +|+++.  ++...+|-..++|-+...+.+..+|.|-+-++.. .-.|++++++|.|+++.+-..||--|+.-.|++|-.+
T Consensus       207 irasvi--sa~~eklR~r~eeeme~~~aeq~slkRt~EeL~~G~~kL~~~~etLEqq~~~L~~niDIL~~k~~eal~~~~  284 (365)
T KOG2391|consen  207 IRASVI--SAVREKLRRRREEEMERLQAEQESLKRTEEELNIGKQKLVAMKETLEQQLQSLQKNIDILKSKVREALEKAE  284 (365)
T ss_pred             hhHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHhhHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhhc
Confidence            444444  4444555666666666666666666666655543 3457788888889999999999988888888777666


Q ss_pred             HHHHHHHHHHHH
Q 039268          196 AMEKNLVSMARE  207 (276)
Q Consensus       196 aMEknlisMarE  207 (276)
                      ..+-+=|.++.+
T Consensus       285 n~~~~~~D~~~~  296 (365)
T KOG2391|consen  285 NLEALDIDEAIE  296 (365)
T ss_pred             cCcCCCchhhhh
Confidence            655555555554

>KOG0243 consensus Kinesin-like protein [Cytoskeleton]

Probab=87.28  E-value=33  Score=38.37  Aligned_cols=162  Identities=26%  Similarity=0.326  Sum_probs=94.2

Q ss_pred             CCChhhhHHHH-----HHHHHHHhhhccccccc---------hhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHH--HH
Q 039268           34 PPHPALLEEEL-----EIQHAEIQRLLGDNRRL---------VEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEV--HV   97 (276)
Q Consensus        34 pp~P~~LEe~l-----~~Q~~EiqrLl~dNqRL---------aatHvaLrqeLaaaq~Elqrl~~~~~~i~ae~e~--q~   97 (276)
                      .|.+.=||+=|     |....=|..=--=||-|         .....-||+||.|+..=.       +-.-+|.-.  +.
T Consensus       368 SPa~~~lEETlSTLEYA~RAKnIkNKPevNQkl~K~~llKd~~~EIerLK~dl~AaReKn-------Gvyisee~y~~~e  440 (1041)
T KOG0243|consen  368 SPAKHNLEETLSTLEYAHRAKNIKNKPEVNQKLMKKTLLKDLYEEIERLKRDLAAAREKN-------GVYISEERYTQEE  440 (1041)
T ss_pred             CCCcccHHHHHHHHHHHHHhhhccCCCccchHHHHHHHHHHHHHHHHHHHHHHHHhHhhC-------ceEechHHHHHHH
Confidence            46666788877     33434455444555554         344555566665555322       222222211  22


Q ss_pred             HHHHHhhhhhhhhhhhchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHH
Q 039268           98 RDLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHAR  177 (276)
Q Consensus        98 R~l~ek~~KmEAelra~e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~R  177 (276)
                      .+.=.+..++|.--.-.++++..+.++......+.-.++.|..+++.+...|....          .|+..+..|++++.
T Consensus       441 ~e~~~~~~~ieele~el~~~~~~l~~~~e~~~~~~~~~~~l~~~~~~~k~~L~~~~----------~el~~~~ee~~~~~  510 (1041)
T KOG0243|consen  441 KEKKEMAEQIEELEEELENLEKQLKDLTELYMNQLEIKELLKEEKEKLKSKLQNKN----------KELESLKEELQQAK  510 (1041)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHH
Confidence            22223333333322345557777777777777777777788888888877776666          78899999999998


Q ss_pred             hhhhhHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcc
Q 039268          178 AAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAELTNFD  219 (276)
Q Consensus       178 aa~EyEKk~~~e~~Eq~qaMEknlisMarEvEKLRaElanae  219 (276)
                      +.+..+    .+.+.++..-|.+++.-   ..+||..+..+-
T Consensus       511 ~~l~~~----e~ii~~~~~se~~l~~~---a~~l~~~~~~s~  545 (1041)
T KOG0243|consen  511 ATLKEE----EEIISQQEKSEEKLVDR---ATKLRRSLEESQ  545 (1041)
T ss_pred             HHHHHH----HHHHHHHHHHHHHHHHH---HHHHHHHHHHHH
Confidence            885432    34445555555555555   556666665553

>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=87.25  E-value=19  Score=38.68  Aligned_cols=56  Identities=27%  Similarity=0.445  Sum_probs=40.6

Q ss_pred             HHHHHhhhhhhhhhhhchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 039268           98 RDLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADN  156 (276)
Q Consensus        98 R~l~ek~~KmEAelra~e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~  156 (276)
                      -.+..++..|++||+-   +|.++.-+++|..+|...-++|....+.+..+-.+++.|+
T Consensus        30 ~~~~~~i~~l~~elk~---~~~~~~~~~~e~~rl~~~~~~~~~~~~~~e~~~~~lr~e~   85 (717)
T PF09730_consen   30 AYLQQRILELENELKQ---LRQELSNVQAENERLSQLNQELRKECEDLELERKRLREEI   85 (717)
T ss_pred             HHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4567777888887765   6777777788888888877777777777776666665544

Glycogen synthase kinase-3beta (GSK-3beta) is required for the binding of BICD to dynein but not to dynactin, acting to maintain the anchoring of microtubules to the centromere []. It appears that amino-acid residues 437-617 of BicD and the kinase activity of GSK-3 are necessary for the formation of a complex between BicD and GSK-3beta in intact cells [].; GO: 0006810 transport, 0005794 Golgi apparatus

>PRK10884 SH3 domain-containing protein; Provisional

Probab=87.19  E-value=9.1  Score=34.83  Aligned_cols=17  Identities=29%  Similarity=0.438  Sum_probs=7.8

Q ss_pred             HHHHHHHHHHHHHHHHh
Q 039268          162 LRAEIDGLHQELMHARA  178 (276)
Q Consensus       162 l~aEie~lrqElqr~Ra  178 (276)
                      |+.|.+.|++|+..+++
T Consensus       137 L~~~n~~L~~~l~~~~~  153 (206)
T PRK10884        137 LKEENQKLKNQLIVAQK  153 (206)
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            44444444444444333

>PF09731 Mitofilin: Mitochondrial inner membrane protein; InterPro: IPR019133 Mitofilin controls mitochondrial cristae morphology

Probab=86.93  E-value=38  Score=34.41  Aligned_cols=137  Identities=19%  Similarity=0.298  Sum_probs=66.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhh-hhhhhhc--hhhHHHHH-HHHHHHHHHHHHHHHHHHHH-
Q 039268           68 MQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKL-EADLRAT--EPLKKEAV-QLRAEVQKLNNLRNELNGKV-  142 (276)
Q Consensus        68 LrqeLaaaq~Elqrl~~~~~~i~ae~e~q~R~l~ek~~Km-EAelra~--e~lk~El~-q~raE~q~L~~~RqeL~~qv-  142 (276)
                      +..-+..++.++..|..-+..++++.+..+...+++..+= -..++.-  ..++..+. +-..-...+...+.+|.... 
T Consensus       249 ~~~~i~~a~~~i~~L~~~l~~l~~~~~~~l~~~L~~q~~e~~~~~~~~~~~~le~~~~~~~~~~~~e~~~~~~~l~~~~~  328 (582)
T PF09731_consen  249 LNSLIAHAKERIDALQKELAELKEEEEEELERALEEQREELLSKLREELEQELEEKRAELEEELREEFEREREELEEKYE  328 (582)
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4455667777777777777777777665555444433210 1111110  01111110 00111112233333333332 


Q ss_pred             HHHHHHHHHHHhhhcchhHHHHHHHHHHHHH-----HHHHhhhhhHHhhhHHHHH----HHHHHHHHHHHHHH
Q 039268          143 QTLQKDLAKLQADNQQIPLLRAEIDGLHQEL-----MHARAAVDYEKKANIELME----QRQAMEKNLVSMAR  206 (276)
Q Consensus       143 q~l~~eL~r~~ad~qqipal~aEie~lrqEl-----qr~Raa~EyEKk~~~e~~E----q~qaMEknlisMar  206 (276)
                      +.|.++|.+.....  .-.|+.++.....|+     +.+...++-|+.++...++    +++.+|+-+.+...
T Consensus       329 ~~L~~eL~~~~~~~--~~~l~~~l~~~~~e~~~~~~~~i~~~v~~Er~~~~~~l~~~~~~~~~le~~~~~~~~  399 (582)
T PF09731_consen  329 EELRQELKRQEEAH--EEHLKNELREQAIELQREFEKEIKEKVEQERNGRLAKLAELNSRLKALEEALDARSE  399 (582)
T ss_pred             HHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            22333444444333  223455555555665     3457888999988876665    45667766655543

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

>KOG1937 consensus Uncharacterized conserved protein [Function unknown]

Probab=86.89  E-value=21  Score=36.79  Aligned_cols=19  Identities=26%  Similarity=0.527  Sum_probs=10.1

Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q 039268          191 MEQRQAMEKNLVSMAREVE  209 (276)
Q Consensus       191 ~Eq~qaMEknlisMarEvE  209 (276)
                      ....|.||.+|-+.+.|++
T Consensus       344 ~~~IqeleqdL~a~~eei~  362 (521)
T KOG1937|consen  344 IRRIQELEQDLEAVDEEIE  362 (521)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            3445555555555555544

>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=86.58  E-value=13  Score=31.91  Aligned_cols=61  Identities=25%  Similarity=0.384  Sum_probs=26.6

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHh
Q 039268          117 LKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARA  178 (276)
Q Consensus       117 lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Ra  178 (276)
                      |..|+.+++.++..|......|.+++..+.+.+.-... ..+|..|..|++.|..-|..+|+
T Consensus        77 ld~ei~~L~~el~~l~~~~k~l~~eL~~L~~~~t~~el-~~~i~~l~~e~~~l~~kL~~l~~  137 (169)
T PF07106_consen   77 LDAEIKELREELAELKKEVKSLEAELASLSSEPTNEEL-REEIEELEEEIEELEEKLEKLRS  137 (169)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHH-HHHHHHHHHHHHHHHHHHHHHHh
Confidence            34444445555544444444444444444444221111 12334444455555555555444

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 [].

>PRK10246 exonuclease subunit SbcC; Provisional

Probab=86.55  E-value=57  Score=36.09  Aligned_cols=63  Identities=22%  Similarity=0.249  Sum_probs=38.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh----h---hcchhHHHHHHHHHHHHHHHHHhhh
Q 039268          118 KKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQA----D---NQQIPLLRAEIDGLHQELMHARAAV  180 (276)
Q Consensus       118 k~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~a----d---~qqipal~aEie~lrqElqr~Raa~  180 (276)
                      ..++..++.+++.+...++.+.+.+..+.+.|.....    +   -..+..+.+.+..+.+++..++..+
T Consensus       776 ~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~  845 (1047)
T PRK10246        776 EETLTQLEQLKQNLENQRQQAQTLVTQTAQALAQHQQHRPDGLDLTVTVEQIQQELAQLAQQLRENTTRQ  845 (1047)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            3466677777888777777777777766555544111    1   1245556666666666665555444

>KOG0982 consensus Centrosomal protein Nuf [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]

Probab=86.52  E-value=42  Score=34.48  Aligned_cols=66  Identities=17%  Similarity=0.179  Sum_probs=40.3

Q ss_pred             hHHHHHHHHHHHhhhccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHh-------hhhHHHHHHHHHHhhh
Q 039268           40 LEEELEIQHAEIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEI-------RAEQEVHVRDLVEKGL  105 (276)
Q Consensus        40 LEe~l~~Q~~EiqrLl~dNqRLaatHvaLrqeLaaaq~Elqrl~~~~~~i-------~ae~e~q~R~l~ek~~  105 (276)
                      +++++.--..+.+.|..|----.+.|.-|+||-.+.++=.+.|-....+.       -.|.+-.-|+++-|..
T Consensus       220 i~~kv~flerkv~eledd~~~~gd~~SrlkqEnlqLvhR~h~LEEq~reqElraeE~l~Ee~rrhrEil~k~e  292 (502)
T KOG0982|consen  220 IERKVRFLERKVQELEDDQNIAGDRSSRLKQENLQLVHRYHMLEEQRREQELRAEESLSEEERRHREILIKKE  292 (502)
T ss_pred             HHHHHHHHHHHHHHhhcchhccccchhHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHH
Confidence            44555555666777766655555678999999999998666554433321       1234445556554433

>PF05478 Prominin: Prominin; InterPro: IPR008795 The prominins are an emerging family of proteins that, among the multispan membrane proteins, display a novel topology

Probab=86.48  E-value=43  Score=35.92  Aligned_cols=117  Identities=20%  Similarity=0.325  Sum_probs=77.1

Q ss_pred             HHHHHHHHhhhccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhhhhhhhchhhHHHHHH
Q 039268           44 LEIQHAEIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRATEPLKKEAVQ  123 (276)
Q Consensus        44 l~~Q~~EiqrLl~dNqRLaatHvaLrqeLaaaq~Elqrl~~~~~~i~ae~e~q~R~l~ek~~KmEAelra~e~lk~El~q  123 (276)
                      +..=..+|+.|+.+|=....+|  +..+|..+-      ......|+.+.+..+-..++.+..|-.   +....+..|.+
T Consensus       189 l~~~~~qi~~l~~~ny~~~~~~--v~~~L~~~~------~~lg~~i~~~l~~~~~~~L~~i~~l~~---~~~~~~~~L~~  257 (806)
T PF05478_consen  189 LNDTPQQIDHLLVQNYSELKDH--VSSDLDNIG------SLLGGDIQDQLGSNVYPALDSILDLAQ---AMQETKELLQN  257 (806)
T ss_pred             HHhhHHHHHHHHHHHHHHHHHH--HHHHHHhcc------chhhHHHHHHHhhhhHHHHHHHHHHHH---HHHHHHHHHHH
Confidence            3444456666666665555554  223333333      234567778888888888888888777   44556667777


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh----------------------hcchhHHHHHHHHHHH
Q 039268          124 LRAEVQKLNNLRNELNGKVQTLQKDLAKLQAD----------------------NQQIPLLRAEIDGLHQ  171 (276)
Q Consensus       124 ~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad----------------------~qqipal~aEie~lrq  171 (276)
                      +.....+|...-++|..-+..+.++|.....+                      ..|+|.+...++++..
T Consensus       258 v~~~~~~L~~~~~qL~~~L~~vK~~L~~~l~~~C~~~~C~~i~~~~~~l~l~~~~~qLP~v~~~l~~l~~  327 (806)
T PF05478_consen  258 VNSSLKDLQEYQSQLRDGLRGVKRDLNNTLQDLCTNRECNSILSSLDILQLDADFSQLPNVTSQLNNLEE  327 (806)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCChhhHHHHHhccccccCCCcccCCChHHHHHHHHH
Confidence            77777777777777777777777666555544                      4579999988887774

Mouse and Homo sapiens prominin and (Mus musculus) prominin-like 1 (PROML1) are predicted to contain five membrane spanning domains, with an N-terminal domain exposed to the extracellular space followed by four, alternating small cytoplasmic and large extracellular, loops and a cytoplasmic C-terminal domain []. The exact function of prominin is unknown although in humans defects in PROM1, the gene coding for prominin, cause retinal degeneration [].; GO: 0016021 integral to membrane

>TIGR02971 heterocyst_DevB ABC exporter membrane fusion protein, DevB family

Probab=86.43  E-value=27  Score=32.31  Aligned_cols=29  Identities=14%  Similarity=0.014  Sum_probs=17.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhccCCC
Q 039268          194 RQAMEKNLVSMAREVEKLRAELTNFDGRP  222 (276)
Q Consensus       194 ~qaMEknlisMarEvEKLRaElanae~r~  222 (276)
                      ....+.++-+.-..++..+..+.++.-++
T Consensus       181 ~~~~~~~~~~~~~~l~~a~~~l~~~~i~A  209 (327)
T TIGR02971       181 VDLAQAEVKSALEAVQQAEALLELTYVKA  209 (327)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhcCEEEC
Confidence            33444555556666666677777666554

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.

>COG2433 Uncharacterized conserved protein [Function unknown]

Probab=86.43  E-value=9.9  Score=40.17  Aligned_cols=106  Identities=18%  Similarity=0.310  Sum_probs=48.6

Q ss_pred             hchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHHhhhHHHHH
Q 039268          113 ATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELME  192 (276)
Q Consensus       113 a~e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~EyEKk~~~e~~E  192 (276)
                      ..+.++.|...+..++..|-..-.+|-+++..+..++..-.--...+-++..+|+.|+.+|+.-...+|.-++. ...+.
T Consensus       430 ~ve~l~~e~~~L~~~~ee~k~eie~L~~~l~~~~r~~~~~~~~~rei~~~~~~I~~L~~~L~e~~~~ve~L~~~-l~~l~  508 (652)
T COG2433         430 TVERLEEENSELKRELEELKREIEKLESELERFRREVRDKVRKDREIRARDRRIERLEKELEEKKKRVEELERK-LAELR  508 (652)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHH
Confidence            33334444444444444444444444444444444433222223345555666666666666666666544433 34455


Q ss_pred             HHHHHHHHHH-HHHHHHHHHHHH-hhhcc
Q 039268          193 QRQAMEKNLV-SMAREVEKLRAE-LTNFD  219 (276)
Q Consensus       193 q~qaMEknli-sMarEvEKLRaE-lanae  219 (276)
                      +++.||-.=- .=...|+||+-+ |+.++
T Consensus       509 k~~~lE~sG~g~pvk~ve~~t~~~Ie~~e  537 (652)
T COG2433         509 KMRKLELSGKGTPVKVVEKLTLEAIEEAE  537 (652)
T ss_pred             HHHhhhhcCCCcceehhhhhhHHHHHhHH
Confidence            6666652210 011346666633 44443

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

Probab=86.42  E-value=31  Score=38.10  Aligned_cols=98  Identities=26%  Similarity=0.341  Sum_probs=53.5

Q ss_pred             HhhhhHHHHHHHHHHhhhhhhhhhhhc----hhhHHHHHHHHHHHHHHHH----HHHHHHHH---HHHHHHHHHHHHhhh
Q 039268           88 EIRAEQEVHVRDLVEKGLKLEADLRAT----EPLKKEAVQLRAEVQKLNN----LRNELNGK---VQTLQKDLAKLQADN  156 (276)
Q Consensus        88 ~i~ae~e~q~R~l~ek~~KmEAelra~----e~lk~El~q~raE~q~L~~----~RqeL~~q---vq~l~~eL~r~~ad~  156 (276)
                      +=.-+.+-|||.|--+...+|.++.+.    ..+..++.+...|+..+.+    .-|+|+++   ++....+|.-..   
T Consensus        99 ddlk~~~sQiriLQn~c~~lE~ekq~lQ~ti~~~q~d~ke~etelE~~~srlh~le~eLsAk~~eIf~~~~~L~nk~---  175 (1265)
T KOG0976|consen   99 DDLKHHESQIRILQNKCLRLEMEKQKLQDTIQGAQDDKKENEIEIENLNSRLHKLEDELSAKAHDIFMIGEDLHDKN---  175 (1265)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHhhhhHHHHHHHHHHhhhh---
Confidence            334456677888888888888777654    3344455555555554433    23444443   223333332222   


Q ss_pred             cchhHHHHHHHHHHHHHHHHHhhhhhHHhhhHHHHHHHH
Q 039268          157 QQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQ  195 (276)
Q Consensus       157 qqipal~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~q  195 (276)
                             .+|..+.-|++..-+.+-.|||.+.+.+++.+
T Consensus       176 -------~~lt~~~~q~~tkl~e~~~en~~le~k~~k~~  207 (1265)
T KOG0976|consen  176 -------EELNEFNMEFQTKLAEANREKKALEEKLEKFK  207 (1265)
T ss_pred             -------hHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                   44555556666666666666666666666554

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

Probab=86.40  E-value=28  Score=36.84  Aligned_cols=32  Identities=28%  Similarity=0.318  Sum_probs=26.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcc
Q 039268          188 IELMEQRQAMEKNLVSMAREVEKLRAELTNFD  219 (276)
Q Consensus       188 ~e~~Eq~qaMEknlisMarEvEKLRaElanae  219 (276)
                      ..+..|.++.|+-+-+...++|+|+..|.+..
T Consensus       313 e~~~~qI~~le~~l~~~~~~leel~~kL~~~s  344 (629)
T KOG0963|consen  313 EKHKAQISALEKELKAKISELEELKEKLNSRS  344 (629)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            45567889999999999999999999888773

>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=86.32  E-value=8.4  Score=33.10  Aligned_cols=67  Identities=27%  Similarity=0.404  Sum_probs=44.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHHh
Q 039268          118 KKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKK  185 (276)
Q Consensus       118 k~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~EyEKk  185 (276)
                      ..|+..+..++..|...-.+|..++..+..||..+.+.. ....|...|..|.+|+..+.+-++.-+.
T Consensus        71 ~eel~~ld~ei~~L~~el~~l~~~~k~l~~eL~~L~~~~-t~~el~~~i~~l~~e~~~l~~kL~~l~~  137 (169)
T PF07106_consen   71 PEELAELDAEIKELREELAELKKEVKSLEAELASLSSEP-TNEELREEIEELEEEIEELEEKLEKLRS  137 (169)
T ss_pred             chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC-CHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            345666677777777777777777777777766666544 3446777777777777777766665444

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 [].

>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=86.24  E-value=20  Score=34.75  Aligned_cols=102  Identities=17%  Similarity=0.298  Sum_probs=64.3

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hh-hcchhHHHHHHHHHHHHHHHHHhhhh-hHHhh------
Q 039268          116 PLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQ-AD-NQQIPLLRAEIDGLHQELMHARAAVD-YEKKA------  186 (276)
Q Consensus       116 ~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~-ad-~qqipal~aEie~lrqElqr~Raa~E-yEKk~------  186 (276)
                      .+-+..+|+|-++..++..-.++..+++.|+..=.+.. ++ ...|++.+.+|+.++.++..++..|+ |.+..      
T Consensus        38 ~~yQ~~EQAr~~A~~fA~~ld~~~~kl~~Ms~~ql~~~~~k~~~si~~q~~~i~~l~~~i~~l~~~i~~y~~~~~~~~~~  117 (301)
T PF06120_consen   38 YFYQNAEQARQEAIEFADSLDELKEKLKEMSSTQLRANIAKAEESIAAQKRAIEDLQKKIDSLKDQIKNYQQQLAEKGIT  117 (301)
T ss_pred             HHHHHHHHHHHHHHHHHHhhHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCC
Confidence            35678888999999999999999999888887622222 11 24578888888888888888888774 43321      


Q ss_pred             ---h-HHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 039268          187 ---N-IELMEQRQAMEKNLVSMAREVEKLRAELTN  217 (276)
Q Consensus       187 ---~-~e~~Eq~qaMEknlisMarEvEKLRaElan  217 (276)
                         + +..+.........+....+|+.+....|.+
T Consensus       118 ~~~~~~n~~~~~~~~t~~la~~t~~L~~~~~~l~q  152 (301)
T PF06120_consen  118 ENGYIINHLMSQADATRKLAEATRELAVAQERLEQ  152 (301)
T ss_pred             cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence               1 222333344444555555554444444433

>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=86.20  E-value=34  Score=33.19  Aligned_cols=101  Identities=20%  Similarity=0.239  Sum_probs=56.6

Q ss_pred             HHhhhhhhhhhhhchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhh
Q 039268          101 VEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAV  180 (276)
Q Consensus       101 ~ek~~KmEAelra~e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~  180 (276)
                      +.||..||.   -.|-||+|-+|=+--+..|.++-|--..+                 ++.-+.|+-.|+.|.|.+.-.|
T Consensus        17 LqKIqelE~---QldkLkKE~qQrQfQleSlEAaLqKQKqK-----------------~e~ek~e~s~LkREnq~l~e~c   76 (307)
T PF10481_consen   17 LQKIQELEQ---QLDKLKKERQQRQFQLESLEAALQKQKQK-----------------VEEEKNEYSALKRENQSLMESC   76 (307)
T ss_pred             HHHHHHHHH---HHHHHHHHHHHHHHhHHHHHHHHHHHHHH-----------------HHHHhhhhhhhhhhhhhHHHHH
Confidence            456666666   44556666666665555555544433333                 3444455555555555555555


Q ss_pred             hhHHhhhHHHHH--------------HHHHHHHHHHHHHHHHHHHHHHhhhccCC
Q 039268          181 DYEKKANIELME--------------QRQAMEKNLVSMAREVEKLRAELTNFDGR  221 (276)
Q Consensus       181 EyEKk~~~e~~E--------------q~qaMEknlisMarEvEKLRaElanae~r  221 (276)
                      +..-|.+..+..              |+..-.|.+-.+..|+-+++.||+..-.-
T Consensus        77 ~~lek~rqKlshdlq~Ke~qv~~lEgQl~s~Kkqie~Leqelkr~KsELErsQ~~  131 (307)
T PF10481_consen   77 ENLEKTRQKLSHDLQVKESQVNFLEGQLNSCKKQIEKLEQELKRCKSELERSQQA  131 (307)
T ss_pred             HHHHHHHHHhhHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            555555544433              33334455566666777777777766544

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 [].

>PRK04778 septation ring formation regulator EzrA; Provisional

Probab=85.93  E-value=45  Score=34.28  Aligned_cols=104  Identities=16%  Similarity=0.243  Sum_probs=62.2

Q ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcc----------------hhHHH----HHHHHHHHHHH
Q 039268          115 EPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQ----------------IPLLR----AEIDGLHQELM  174 (276)
Q Consensus       115 e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qq----------------ipal~----aEie~lrqElq  174 (276)
                      ..++.++..+...+..+...+.++...++.+.++-..++..++.                +|.+-    .-+..+..++.
T Consensus       379 sel~e~leel~e~leeie~eq~ei~e~l~~Lrk~E~eAr~kL~~~~~~L~~ikr~l~k~~lpgip~~y~~~~~~~~~~i~  458 (569)
T PRK04778        379 SELQEELEEILKQLEEIEKEQEKLSEMLQGLRKDELEAREKLERYRNKLHEIKRYLEKSNLPGLPEDYLEMFFEVSDEIE  458 (569)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCcHHHHHHHHHHHHHHH
Confidence            44556666666666666666666666666666664333322222                22222    22366678888


Q ss_pred             HHHhhhhhHHhhhHHHHH-HHHHHHHHHHHHHHHHHHHHHHhhhcc
Q 039268          175 HARAAVDYEKKANIELME-QRQAMEKNLVSMAREVEKLRAELTNFD  219 (276)
Q Consensus       175 r~Raa~EyEKk~~~e~~E-q~qaMEknlisMarEvEKLRaElanae  219 (276)
                      ++...++. ...|.+-++ +....+..+-.+..+.+-|......++
T Consensus       459 ~l~~~L~~-g~VNm~ai~~e~~e~~~~~~~L~~q~~dL~~~a~~lE  503 (569)
T PRK04778        459 ALAEELEE-KPINMEAVNRLLEEATEDVETLEEETEELVENATLTE  503 (569)
T ss_pred             HHHHHhcc-CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            88888888 777877777 666666666666666555555444444

>PF14735 HAUS4: HAUS augmin-like complex subunit 4

Probab=85.92  E-value=23  Score=33.09  Aligned_cols=133  Identities=20%  Similarity=0.241  Sum_probs=0.0

Q ss_pred             HHHhhhccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHh--------hhhHH-HHHHHHHHhhhhhhhhhhhchhhHH
Q 039268           49 AEIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEI--------RAEQE-VHVRDLVEKGLKLEADLRATEPLKK  119 (276)
Q Consensus        49 ~EiqrLl~dNqRLaatHvaLrqeLaaaq~Elqrl~~~~~~i--------~ae~e-~q~R~l~ek~~KmEAelra~e~lk~  119 (276)
                      .|++++...-..+-..-+.|.+-...--++|.+..+....+        +++.| +...-|.-|+..|..-||..+.-=-
T Consensus        85 ~ek~~~~~~k~~~~e~~~~l~~q~~~y~~vL~~cl~~L~~li~~~rl~~q~~~d~~~~~~L~~kceam~lKLr~~~~~iL  164 (238)
T PF14735_consen   85 EEKQRLEKEKAQLRELLVLLERQFATYYQVLLQCLQLLQKLIEKHRLGTQAELDKIKAEYLEAKCEAMILKLRVLELEIL  164 (238)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcchHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhh
Q 039268          120 EAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVD  181 (276)
Q Consensus       120 El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~E  181 (276)
                      ------.-|.-|...|+.|.+.++.+.+++.++...+..--.+-.|.+.+-+|+.+++..|+
T Consensus       165 ~~TYTpe~v~Al~~Ir~~L~~~~~~~e~~~~~a~~~L~~Ye~lg~~F~~ivreY~~l~~~ie  226 (238)
T PF14735_consen  165 SDTYTPETVPALRKIRDHLEEAIEELEQELQKARQRLESYEGLGPEFEEIVREYTDLQQEIE  226 (238)
T ss_pred             HccCCHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccHhHHHHHHHHHHHHHHHH

>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=85.85  E-value=32  Score=33.49  Aligned_cols=81  Identities=25%  Similarity=0.260  Sum_probs=42.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHh--hhhHHHHHHHHHHhhhhhhhhhhhc----hhhHHHHHHHHHHHHHHHHHHHHHH
Q 039268           66 MAMQRELAAAKEELHRMNLVIGEI--RAEQEVHVRDLVEKGLKLEADLRAT----EPLKKEAVQLRAEVQKLNNLRNELN  139 (276)
Q Consensus        66 vaLrqeLaaaq~Elqrl~~~~~~i--~ae~e~q~R~l~ek~~KmEAelra~----e~lk~El~q~raE~q~L~~~RqeL~  139 (276)
                      -.+.+.|....+++..+...-..+  .++.+..|-+||+..-+++.=.-..    +-|| -|..+|.++......-..|-
T Consensus       264 d~i~~rl~~L~~~~~~l~~~~~~~~~~~~~e~KI~eLy~~l~~~~~~~~~lP~lv~RL~-tL~~lH~~a~~~~~~l~~le  342 (388)
T PF04912_consen  264 DSIERRLKSLLSELEELAEKRKEAKEDAEQESKIDELYEILPRWDPYAPSLPSLVERLK-TLKSLHEEAAEFSQTLSELE  342 (388)
T ss_pred             HHHHHHHHHHHHHHHHHHhccccccccccchhHHHHHHHHHHHHHHHhhhhhHHHHHHH-HHHHHHHHHHHHHHHHHHHH
Confidence            345566666666666665443333  4456677778888877777633221    3333 45555555555444433333


Q ss_pred             HHHHHHHH
Q 039268          140 GKVQTLQK  147 (276)
Q Consensus       140 ~qvq~l~~  147 (276)
                      .....+..
T Consensus       343 ~~q~~l~~  350 (388)
T PF04912_consen  343 SQQSDLQS  350 (388)
T ss_pred             HHHHHHHH
Confidence            33333333

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

>PF08172 CASP_C: CASP C terminal; InterPro: IPR012955 This domain is the C-terminal region of the CASP family of proteins

Probab=85.84  E-value=5.3  Score=37.34  Aligned_cols=21  Identities=19%  Similarity=0.309  Sum_probs=15.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHH
Q 039268           67 AMQRELAAAKEELHRMNLVIG   87 (276)
Q Consensus        67 aLrqeLaaaq~Elqrl~~~~~   87 (276)
                      .|+.+|..+..++......|.
T Consensus         3 ~lq~~l~~l~~~~~~~~~L~~   23 (248)
T PF08172_consen    3 ELQKELSELEAKLEEQKELNA   23 (248)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            466777777777777777777

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

>PF12592 DUF3763: Protein of unknown function (DUF3763); InterPro: IPR022547 This domain is found in bacterial regulartory ATPases 3

Probab=85.83  E-value=3.4  Score=30.70  Aligned_cols=55  Identities=22%  Similarity=0.205  Sum_probs=44.2

Q ss_pred             hhHHHHHHHHHHHHHHHHHhhhhhHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039268          159 IPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRA  213 (276)
Q Consensus       159 ipal~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~qaMEknlisMarEvEKLRa  213 (276)
                      -..+.++|+.+.++|.+.|+-|.---.=++-..+=.-.||..|..++..|+.++.
T Consensus         2 ~~e~~~qL~~~~~~l~~qR~~F~~~qPhlFI~~~wl~~IE~Sl~~l~eqL~q~~~   56 (57)
T PF12592_consen    2 PEEALAQLDEAEHELRQQRSLFHQHQPHLFIDSEWLAAIEASLQQLAEQLEQLKQ   56 (57)
T ss_dssp             -HHHHHHHHHHHHHHHHHHHHHHTT---TTS-HHHHHHHHHHHHHHHHHHHHH--
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHhhcCCCcCcCHHHHHHHHHHHHHHHHHHHHHhc
Confidence            3567899999999999999999988888888888899999999999999998874

6.3. from EC, and is approximately 60 amino acids in length. The domain is found C-terminal to PF07728 from PFAM. There is a single completely conserved residue F that may be functionally important. ; GO: 0016820 hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances; PDB: 3NBX_X.

>PF02403 Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal domain; InterPro: IPR015866 The aminoacyl-tRNA synthetases (6

Probab=85.74  E-value=6.1  Score=31.36  Aligned_cols=63  Identities=29%  Similarity=0.415  Sum_probs=35.0

Q ss_pred             hhhhhhhhchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHH
Q 039268          106 KLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMH  175 (276)
Q Consensus       106 KmEAelra~e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr  175 (276)
                      ....++-..-.+-.+..++..+++.|.+.|..++.++..+++.       -.....|++++..++.++..
T Consensus        23 ~~~~~vd~i~~ld~~~r~l~~~~e~lr~~rN~~sk~I~~~~~~-------~~~~~~l~~e~~~lk~~i~~   85 (108)
T PF02403_consen   23 GDEEDVDEIIELDQERRELQQELEELRAERNELSKEIGKLKKA-------GEDAEELKAEVKELKEEIKE   85 (108)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHT-------TCCTHHHHHHHHHHHHHHHH
T ss_pred             CCHhhHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhC-------cccHHHHHHHHHHHHHHHHH
Confidence            4445555555555566666677777777777777666665552       13344444444444444433

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 ....

>KOG2264 consensus Exostosin EXT1L [Signal transduction mechanisms]

Probab=85.49  E-value=5.2  Score=42.32  Aligned_cols=52  Identities=21%  Similarity=0.311  Sum_probs=30.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhh
Q 039268          120 EAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVD  181 (276)
Q Consensus       120 El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~E  181 (276)
                      =+.-|+-|+..|.+-||||.+++..+..-          |.+++.+|..-++||.++...||
T Consensus        87 I~~sVs~EL~ele~krqel~seI~~~n~k----------iEelk~~i~~~q~eL~~Lk~~ie  138 (907)
T KOG2264|consen   87 ILASVSLELTELEVKRQELNSEIEEINTK----------IEELKRLIPQKQLELSALKGEIE  138 (907)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhHHHHHHHH----------HHHHHHHHHHhHHHHHHHHhHHH
Confidence            33444555556667777777776665443          44555666666666665554444

>PF15294 Leu_zip: Leucine zipper

Probab=85.47  E-value=36  Score=32.74  Aligned_cols=126  Identities=21%  Similarity=0.287  Sum_probs=76.2

Q ss_pred             HHHHHHHHHhhhhhhhhhhhc----------------------hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039268           94 EVHVRDLVEKGLKLEADLRAT----------------------EPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAK  151 (276)
Q Consensus        94 e~q~R~l~ek~~KmEAelra~----------------------e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r  151 (276)
                      +++=|+|++.++++|..-=+.                      +.+..|...++.|.++|-.--+.|..+.-.+..|-.+
T Consensus        85 elEn~eLLe~i~~~E~~~~~~~~~~~~~~~~~KL~pl~e~g~~~ll~kEi~rLq~EN~kLk~rl~~le~~at~~l~Ek~k  164 (278)
T PF15294_consen   85 ELENRELLEQIAEFEKQEFTSSFKPNQETSKPKLEPLNESGGSELLNKEIDRLQEENEKLKERLKSLEKQATSALDEKSK  164 (278)
T ss_pred             HHHHHHHHHHHHHHHHhhhcccCCccccccccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            466778888888876532222                      2366777777777777766555555555555544333


Q ss_pred             HHhhhcchhHHH-------------HHHHHHHHHHHHHHhhhhhHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Q 039268          152 LQADNQQIPLLR-------------AEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAELTNF  218 (276)
Q Consensus       152 ~~ad~qqipal~-------------aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~qaMEknlisMarEvEKLRaElana  218 (276)
                      +++.++.+-.+.             ++|-.|..=+..+.  .++||. -.+..++.++++-||++--.||=+++..|..+
T Consensus       165 l~~~L~~lq~~~~~~~~k~~~~~~~q~l~dLE~k~a~lK--~e~ek~-~~d~~~~~k~L~e~L~~~KhelL~~QeqL~~a  241 (278)
T PF15294_consen  165 LEAQLKELQDEQGDQKGKKDLSFKAQDLSDLENKMAALK--SELEKA-LQDKESQQKALEETLQSCKHELLRVQEQLSLA  241 (278)
T ss_pred             HHHHHHHHHHHHHhhhccccccccccchhhHHHHHHHHH--HHHHHH-HHHHHHHHHHHHHHHHHHHHHHHhcchhhhcc
Confidence            333332222211             12222222222222  345554 45566799999999999999999999999888


Q ss_pred             cCCC
Q 039268          219 DGRP  222 (276)
Q Consensus       219 e~r~  222 (276)
                      ++-.
T Consensus       242 ekeL  245 (278)
T PF15294_consen  242 EKEL  245 (278)
T ss_pred             hhhH
Confidence            7653

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

Probab=85.34  E-value=26  Score=40.10  Aligned_cols=44  Identities=16%  Similarity=0.284  Sum_probs=27.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhHH---HHHHHHHHhhhhhhh
Q 039268           66 MAMQRELAAAKEELHRMNLVIGEIRAEQE---VHVRDLVEKGLKLEA  109 (276)
Q Consensus        66 vaLrqeLaaaq~Elqrl~~~~~~i~ae~e---~q~R~l~ek~~KmEA  109 (276)
                      -+-++......+|++-|-..|.+..+...   -+|++|.++.++||-
T Consensus      1460 ~as~~q~~~s~~el~~Li~~v~~Flt~~~adp~si~~vA~~vL~l~l 1506 (1758)
T KOG0994|consen 1460 NASRSQMEESNRELRNLIQQVRDFLTQPDADPDSIEEVAEEVLALEL 1506 (1758)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhccC
Confidence            34455566666677777666666655544   566666666666654

>PRK00106 hypothetical protein; Provisional

Probab=85.23  E-value=51  Score=34.30  Aligned_cols=54  Identities=7%  Similarity=0.148  Sum_probs=24.2

Q ss_pred             HHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHHhhhHHHHH
Q 039268          139 NGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELME  192 (276)
Q Consensus       139 ~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~EyEKk~~~e~~E  192 (276)
                      ..+.+.|.+....+...-+.+-....+|+...+++......++--.......+|
T Consensus       107 ~qREE~LekRee~LekrE~eLe~kekeLe~reeeLee~~~~~~~~~~~~~~~Le  160 (535)
T PRK00106        107 TERATSLDRKDENLSSKEKTLESKEQSLTDKSKHIDEREEQVEKLEEQKKAELE  160 (535)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333344444444445555555555555555554443333333333

>KOG0249 consensus LAR-interacting protein and related proteins [General function prediction only]

Probab=85.15  E-value=17  Score=39.47  Aligned_cols=114  Identities=19%  Similarity=0.260  Sum_probs=60.8

Q ss_pred             HHHHHHHHHHHHHH---HHHHHHHHHHhhhhHHHHHHHHHHhhhhhhhhhhhchhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 039268           65 RMAMQRELAAAKEE---LHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGK  141 (276)
Q Consensus        65 HvaLrqeLaaaq~E---lqrl~~~~~~i~ae~e~q~R~l~ek~~KmEAelra~e~lk~El~q~raE~q~L~~~RqeL~~q  141 (276)
                      .+++.+-+..++.|   ++.++.-...--+++|..+|-+-+|.+-+--   ..+-...+|.|.+. +.+|-.+--+|...
T Consensus        72 itt~e~rflnaqre~t~~~d~ndklE~~Lankda~lrq~eekn~slqe---rLelaE~~l~qs~r-ae~lpeveael~qr  147 (916)
T KOG0249|consen   72 ITTLEKRFLNAQRESTSIHDLNDKLENELANKDADLRQNEEKNRSLQE---RLELAEPKLQQSLR-AETLPEVEAELAQR  147 (916)
T ss_pred             cchHHHHHHhccCCCCCcccchHHHHHHHhCcchhhchhHHhhhhhhH---HHHHhhHhhHhHHh-hhhhhhhHHHHHHH
Confidence            45556666666654   3444444444445566666666666655544   33444556666665 55554444444333


Q ss_pred             HHHHHHHHHHHHhhhcc----hhHHHHHHHHHHHHHHHHHhhhhhHHhh
Q 039268          142 VQTLQKDLAKLQADNQQ----IPLLRAEIDGLHQELMHARAAVDYEKKA  186 (276)
Q Consensus       142 vq~l~~eL~r~~ad~qq----ipal~aEie~lrqElqr~Raa~EyEKk~  186 (276)
                      +..+    .+.+-+.-.    +--|..+++.+-+||+|+|--.+.+...
T Consensus       148 ~~al----~~aee~~~~~eer~~kl~~~~qe~naeL~rarqreemneeh  192 (916)
T KOG0249|consen  148 NAAL----TKAEEHSGNIEERTRKLEEQLEELNAELQRARQREKMNEEH  192 (916)
T ss_pred             HHHH----HHHHHhhccHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Confidence            3333    333333322    2345667777778888887766554433

>KOG3478 consensus Prefoldin subunit 6, KE2 family [Posttranslational modification, protein turnover, chaperones]

Probab=85.12  E-value=23  Score=30.16  Aligned_cols=72  Identities=21%  Similarity=0.338  Sum_probs=45.2

Q ss_pred             HHHHHHHHHHHhhhhHHHHHHHHHHhhhhhhhhhhhchhhHHHHHHHHHHH------------HHHHHHHHHHHHHHHHH
Q 039268           78 ELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRATEPLKKEAVQLRAEV------------QKLNNLRNELNGKVQTL  145 (276)
Q Consensus        78 Elqrl~~~~~~i~ae~e~q~R~l~ek~~KmEAelra~e~lk~El~q~raE~------------q~L~~~RqeL~~qvq~l  145 (276)
                      .++.+....+.++.|.+    ..+.-..|||..|.....++.||..+..|.            |.|..+|.-.-..+.=+
T Consensus         6 kmee~~~kyq~LQk~l~----k~~~~rqkle~qL~Enk~V~~Eldlle~d~~VYKliGpvLvkqel~EAr~nV~kRlefI   81 (120)
T KOG3478|consen    6 KMEEEANKYQNLQKELE----KYVESRQKLETQLQENKIVLEELDLLEEDSNVYKLIGPVLVKQELEEARTNVGKRLEFI   81 (120)
T ss_pred             HHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHhhhHHHHHHHHHhcccchHHHHhcchhhHHHHHHHHhhHHHHHHHH
Confidence            33344444444444333    345566799999999999999999888774            34444455555555566


Q ss_pred             HHHHHHHH
Q 039268          146 QKDLAKLQ  153 (276)
Q Consensus       146 ~~eL~r~~  153 (276)
                      ++|+.|..
T Consensus        82 ~~Eikr~e   89 (120)
T KOG3478|consen   82 SKEIKRLE   89 (120)
T ss_pred             HHHHHHHH
Confidence            66666655

>PF05837 CENP-H: Centromere protein H (CENP-H); InterPro: IPR008426 Chromosome segregation in eukaryotes requires the kinetochore, a multi-protein structure that assembles on centromeric DNA, and which acts to link chromosomes to spindle microtubules

Probab=84.99  E-value=17  Score=29.55  Aligned_cols=71  Identities=15%  Similarity=0.194  Sum_probs=51.3

Q ss_pred             hchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHHhhh
Q 039268          113 ATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKAN  187 (276)
Q Consensus       113 a~e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~EyEKk~~  187 (276)
                      +.-.+..+|..++.+--.|...-++|..+++.++++...-..    -+.++.+|+.++++++..|.-..--|...
T Consensus        11 ~~~~l~~~L~~v~~~~l~l~~~n~el~~el~~l~~~~~~~~~----~~~~~~~l~~~~~~lk~~r~~~~v~k~v~   81 (106)
T PF05837_consen   11 ESRSLQEKLSDVEKKRLRLKRRNQELAQELLELAEKQKSQRE----DEELSEKLEKLEKELKKSRQRWRVMKNVF   81 (106)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcc----chHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334456677777777777778888888888888877444333    57788999999999988887765555443

Kinetochore structure and composition is highly conserved among vertebrates. The inner kinetochore is essential for kinetochore assembly, and is involved in chromosome segregation via regulation of the spindle. Inner kinetochore components include the multi-subunit CENP-H/I complex, which may function, in part, in directing centromere protein A (CENP-A) deposition to centromeres, where CENP-A is a centromere-specific histone H3 variant required for the organisation of centromeric chromatin during interphase. The CENP-H/I complex contains three functional classes of proteins [, ]: CENP-H class (includes CENP-H, -I, -K, -L) CENP-M class (includes CENP-M) CENP-O class (includes CENP-O, -P, -Q, -R, -50) CENP-H is required for the localisation of CENP-C, but not CENP-A, to the centromere. However, it may be involved in the incorporation of newly synthesised CENP-A into centromeres via its interaction with the CENP-A/CENP-HI complex. CENP-H contains a coiled-coil structure and a nuclear localisation signal. CENP-H is specifically and constitutively localised in kinetochores throughout the cell cycle, and may play a role in kinetochore organisation and function throughout the cell cycle []. Studies show that CENP-H may be associated with certain human cancers [, ]. This entry also includes Kinetochore protein Fta3 which is a subunit of the Sim4 complex. This complex is required for loading the DASH complex onto the kinetochore via interaction with dad1. Fta2, Fta3 and Fta4 associate with the central core and inner repeat region of the centromere [].; GO: 0043515 kinetochore binding, 0007059 chromosome segregation, 0051301 cell division, 0000777 condensed chromosome kinetochore, 0005634 nucleus

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

Probab=84.94  E-value=31  Score=31.63  Aligned_cols=148  Identities=19%  Similarity=0.230  Sum_probs=82.3

Q ss_pred             CCChhhhHHHHHHHHHHHhhhccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhhhhhhh
Q 039268           34 PPHPALLEEELEIQHAEIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRA  113 (276)
Q Consensus        34 pp~P~~LEe~l~~Q~~EiqrLl~dNqRLaatHvaLrqeLaaaq~Elqrl~~~~~~i~ae~e~q~R~l~ek~~KmEAelra  113 (276)
                      -|+|.-|+-.++--..+++.+.....-       -+..+.....++..|...+..++.    ++.....++-++..   .
T Consensus        16 ~~~~~~l~~~~e~~~~~L~~~~~~~~~-------~~~~~~~~e~~l~~L~~d~~~L~~----k~~~~~~~~~~l~~---~   81 (264)
T PF06008_consen   16 WPAPYKLLSSIEDLTNQLRSYRSKLNP-------QKQQLDPLEKELESLEQDVENLQE----KATKVSRKAQQLNN---N   81 (264)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHhccchh-------HHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHH---H
Confidence            466666666666666666665544321       223344444444444444432221    22223333334433   4


Q ss_pred             chhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHH-----HHHHhhhhhHHhhhH
Q 039268          114 TEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQEL-----MHARAAVDYEKKANI  188 (276)
Q Consensus       114 ~e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqEl-----qr~Raa~EyEKk~~~  188 (276)
                      .+.+......+...|+.|...-++|..++..+..+  -.......++.+.+|++.|=+|+     ..-|..-+.|++.-.
T Consensus        82 t~~t~~~a~~L~~~i~~l~~~i~~l~~~~~~l~~~--~~~~~~~~l~~~l~ea~~mL~emr~r~f~~~~~~Ae~El~~A~  159 (264)
T PF06008_consen   82 TERTLQRAQDLEQFIQNLQDNIQELIEQVESLNEN--GDQLPSEDLQRALAEAQRMLEEMRKRDFTPQRQNAEDELKEAE  159 (264)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcc--cCCCCHHHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHH
Confidence            44455555556666666555555555555555551  11224455666777887777777     456777788888888


Q ss_pred             HHHHHHHHH
Q 039268          189 ELMEQRQAM  197 (276)
Q Consensus       189 e~~Eq~qaM  197 (276)
                      +++..++.-
T Consensus       160 ~LL~~v~~~  168 (264)
T PF06008_consen  160 DLLSRVQKW  168 (264)
T ss_pred             HHHHHHHHH
Confidence            888887765

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

>PF04728 LPP: Lipoprotein leucine-zipper; InterPro: IPR006817 This repeating sequence, NAKVDQLSNDV, is found in the enterobacterial outer membrane lipoprotein LPP

Probab=84.93  E-value=6.7  Score=29.32  Aligned_cols=42  Identities=31%  Similarity=0.449  Sum_probs=22.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhh
Q 039268          130 KLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVD  181 (276)
Q Consensus       130 ~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~E  181 (276)
                      +|.+-=|.|.++|..|..|+          .+|++++...+.|-.|+-.-|+
T Consensus         7 ~Ls~dVq~L~~kvdqLs~dv----------~~lr~~v~~ak~EAaRAN~RlD   48 (56)
T PF04728_consen    7 QLSSDVQTLNSKVDQLSSDV----------NALRADVQAAKEEAARANQRLD   48 (56)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHH
Confidence            33333344555555555553          3444556666777777655444

The outer membrane lipoprotein is the most abundant protein in an Escherichia coli cell. The messenger RNA for the lipoprotein of the E. coli outer membrane codes for a putative precursor, prolipoprotein, which has 20 additional amino acid residues extending from the amino terminus of the lipoprotein.; GO: 0019867 outer membrane; PDB: 1JCC_A 2GUV_C 2GUS_A 1JCD_A 1KFM_A 1T8Z_D 1KFN_A 1EQ7_A.

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

Probab=84.84  E-value=20  Score=38.01  Aligned_cols=104  Identities=24%  Similarity=0.302  Sum_probs=58.4

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHhhh-cchhHHHHHHHHHHHHHHHHHhhhhh---------
Q 039268          116 PLKKEAVQLRAEVQKLNNLRNELNGKVQTLQK---DLAKLQADN-QQIPLLRAEIDGLHQELMHARAAVDY---------  182 (276)
Q Consensus       116 ~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~---eL~r~~ad~-qqipal~aEie~lrqElqr~Raa~Ey---------  182 (276)
                      .+.++++.+++||.+|+..-.+-+.......+   +|-+-+.++ ||...|.+|.|.+|+||....-||-.         
T Consensus         5 ~aeq~ve~lr~eierLT~el~q~t~e~~qaAeyGL~lLeeK~~Lkqq~eEleaeyd~~R~Eldqtkeal~q~~s~hkk~~   84 (772)
T KOG0999|consen    5 MAEQEVEKLRQEIERLTEELEQTTEEKIQAAEYGLELLEEKEDLKQQLEELEAEYDLARTELDQTKEALGQYRSQHKKVA   84 (772)
T ss_pred             hhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            34567777888887776654444433222211   122333333 56778888888888888776655532         


Q ss_pred             ------HHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcc
Q 039268          183 ------EKKANIELMEQRQAMEKNLVSMAREVEKLRAELTNFD  219 (276)
Q Consensus       183 ------EKk~~~e~~Eq~qaMEknlisMarEvEKLRaElanae  219 (276)
                            |-..-.|....-.-.=..+.-|-.|+-+||.||+|..
T Consensus        85 ~~g~e~EesLLqESaakE~~yl~kI~eleneLKq~r~el~~~q  127 (772)
T KOG0999|consen   85 RDGEEREESLLQESAAKEEYYLQKILELENELKQLRQELTNVQ  127 (772)
T ss_pred             ccchhhHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                  2222222222222222344566677888888888763

>KOG4403 consensus Cell surface glycoprotein STIM, contains SAM domain [General function prediction only]

Probab=84.77  E-value=52  Score=34.01  Aligned_cols=28  Identities=11%  Similarity=0.157  Sum_probs=19.7

Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCc
Q 039268          227 GPYGMNFSGVDGSFPAPFGDGYGVHRGL  254 (276)
Q Consensus       227 ~~Yg~~yg~p~~~~~~~Y~d~Yg~~~g~  254 (276)
                      .-|+.+|+|..+|.+.+-|.-|.++-+.
T Consensus       443 sl~s~h~~~ssm~~ss~sgs~~~it~~~  470 (575)
T KOG4403|consen  443 SLYSDHFYNSSMGMSSSSGSISNITSNV  470 (575)
T ss_pred             HHhcccccccccccCCCCCCcccccCCh
Confidence            4688888888887776667777766333

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

Probab=84.38  E-value=23  Score=35.34  Aligned_cols=97  Identities=21%  Similarity=0.293  Sum_probs=64.7

Q ss_pred             HHhhhccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHh----hhhhhhhhhhchhhHHHHHHHH
Q 039268           50 EIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEK----GLKLEADLRATEPLKKEAVQLR  125 (276)
Q Consensus        50 EiqrLl~dNqRLaatHvaLrqeLaaaq~Elqrl~~~~~~i~ae~e~q~R~l~ek----~~KmEAelra~e~lk~El~q~r  125 (276)
                      -|++|...|..|---    +.-+.--|.|.+.|.....++.++- .++|+++-|    ..+||.   .+-.++.|-+++.
T Consensus        76 kirk~~e~~eglr~i----~es~~e~q~e~~qL~~qnqkL~nqL-~~~~~vf~k~k~~~q~LE~---li~~~~EEn~~lq  147 (401)
T PF06785_consen   76 KIRKITEKDEGLRKI----RESVEERQQESEQLQSQNQKLKNQL-FHVREVFMKTKGDIQHLEG---LIRHLREENQCLQ  147 (401)
T ss_pred             HHHHHHhccHHHHHH----HHHHHHHHHHHHHHHHhHHHHHHHH-HHHHHHHHHhcchHHHHHH---HHHHHHHHHHHHH
Confidence            366666666655433    3455556777777777777776654 355555543    346666   4455777888888


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 039268          126 AEVQKLNNLRNELNGKVQTLQKDLAKLQA  154 (276)
Q Consensus       126 aE~q~L~~~RqeL~~qvq~l~~eL~r~~a  154 (276)
                      .-++.+...+.|...+.|.|.+||+-..+
T Consensus       148 lqL~~l~~e~~Ekeeesq~LnrELaE~la  176 (401)
T PF06785_consen  148 LQLDALQQECGEKEEESQTLNRELAEALA  176 (401)
T ss_pred             HhHHHHHHHHhHhHHHHHHHHHHHHHHHH
Confidence            88888888888888888888888665443

>TIGR03752 conj_TIGR03752 integrating conjugative element protein, PFL_4705 family

Probab=84.38  E-value=12  Score=38.40  Aligned_cols=46  Identities=15%  Similarity=0.184  Sum_probs=29.2

Q ss_pred             HHHhhhccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhHH
Q 039268           49 AEIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQE   94 (276)
Q Consensus        49 ~EiqrLl~dNqRLaatHvaLrqeLaaaq~Elqrl~~~~~~i~ae~e   94 (276)
                      .|+..|..|=.-..+|--.|--++.....+++.|...+.++++|.|
T Consensus        45 ee~kalGiegDTP~DTlrTlva~~k~~r~~~~~l~~~N~~l~~eN~   90 (472)
T TIGR03752        45 EELKALGIEGDTPADTLRTLVAEVKELRKRLAKLISENEALKAENE   90 (472)
T ss_pred             chhHhcCCCCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4456666666556666666666666666666666666666666665

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.

>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=84.32  E-value=23  Score=29.64  Aligned_cols=72  Identities=24%  Similarity=0.343  Sum_probs=45.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHHhhhHHHHHHHHHHH
Q 039268          119 KEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAME  198 (276)
Q Consensus       119 ~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~qaME  198 (276)
                      .++...-.....|...|.+|.+.++.|.++   ..+-+|.+       ..|+.+|.-+|..+|-||-++.++--+.--++
T Consensus        23 ~slE~~K~S~~eL~kqkd~L~~~l~~L~~q---~~s~~qr~-------~eLqaki~ea~~~le~eK~ak~~l~~r~~k~~   92 (107)
T PF09304_consen   23 RSLEDEKTSQGELAKQKDQLRNALQSLQAQ---NASRNQRI-------AELQAKIDEARRNLEDEKQAKLELESRLLKAQ   92 (107)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHhHHHHHHHHHHHHHH---HHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            355555566667777788888888887777   33333334       44455555566777778877766655555555


Q ss_pred             HH
Q 039268          199 KN  200 (276)
Q Consensus       199 kn  200 (276)
                      |+
T Consensus        93 ~d   94 (107)
T PF09304_consen   93 KD   94 (107)
T ss_dssp             HH
T ss_pred             hh
Confidence            44

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.

>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=84.10  E-value=17  Score=28.04  Aligned_cols=23  Identities=22%  Similarity=0.486  Sum_probs=12.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHh
Q 039268          193 QRQAMEKNLVSMAREVEKLRAEL  215 (276)
Q Consensus       193 q~qaMEknlisMarEvEKLRaEl  215 (276)
                      ....+++++-.+..+++++.+.|
T Consensus        77 ~i~~l~~~~~~l~~~l~~~~~~l   99 (106)
T PF01920_consen   77 EIKKLEKQLKYLEKKLKELKKKL   99 (106)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            34445555555555555555554

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.

>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=83.88  E-value=11  Score=28.93  Aligned_cols=22  Identities=32%  Similarity=0.471  Sum_probs=17.7

Q ss_pred             HhhhhHHHHHHHHHHhhhhhhh
Q 039268           88 EIRAEQEVHVRDLVEKGLKLEA  109 (276)
Q Consensus        88 ~i~ae~e~q~R~l~ek~~KmEA  109 (276)
                      +.=+|+|.+|-.|++-+-+|..
T Consensus         5 ~~l~EKDe~Ia~L~eEGekLSk   26 (74)
T PF12329_consen    5 KKLAEKDEQIAQLMEEGEKLSK   26 (74)
T ss_pred             HHHHhHHHHHHHHHHHHHHHHH
Confidence            3457899999999988888876

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.

>PF02050 FliJ: Flagellar FliJ protein; InterPro: IPR012823 Many flagellar proteins are exported by a flagellum-specific export pathway

Probab=83.84  E-value=17  Score=27.68  Aligned_cols=28  Identities=25%  Similarity=0.429  Sum_probs=17.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhHHH
Q 039268           68 MQRELAAAKEELHRMNLVIGEIRAEQEV   95 (276)
Q Consensus        68 LrqeLaaaq~Elqrl~~~~~~i~ae~e~   95 (276)
                      .+++|+.+.+++......+..+....+.
T Consensus         3 a~~~l~~~~~~~~~~~~~l~~L~~~~~~   30 (123)
T PF02050_consen    3 AEQELAEAQQELQEAEEQLEQLQQERQE   30 (123)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4566777777777776666666555553

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.

>PRK12704 phosphodiesterase; Provisional

Probab=83.79  E-value=38  Score=34.82  Aligned_cols=20  Identities=15%  Similarity=0.101  Sum_probs=7.9

Q ss_pred             HHHHHHHHHhhhhhHHhhhH
Q 039268          169 LHQELMHARAAVDYEKKANI  188 (276)
Q Consensus       169 lrqElqr~Raa~EyEKk~~~  188 (276)
                      +++|....-..++.|-|.++
T Consensus       167 ~~~~~~~~~~~~~~~~~~~a  186 (520)
T PRK12704        167 ARHEAAVLIKEIEEEAKEEA  186 (520)
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            33333333333444444433

>PRK10476 multidrug resistance protein MdtN; Provisional

Probab=83.73  E-value=33  Score=32.35  Aligned_cols=22  Identities=9%  Similarity=0.009  Sum_probs=14.0

Q ss_pred             HHHHHHHHHHHHHHhhhccCCC
Q 039268          201 LVSMAREVEKLRAELTNFDGRP  222 (276)
Q Consensus       201 lisMarEvEKLRaElanae~r~  222 (276)
                      +-....+++..+..|.++.=++
T Consensus       192 ~~~~~a~l~~a~~~l~~~~I~A  213 (346)
T PRK10476        192 RAAREAALAIAELHLEDTTVRA  213 (346)
T ss_pred             HHHHHHHHHHHHHHhhcCEEEC
Confidence            3344455667777777777665

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

Probab=83.55  E-value=22  Score=30.23  Aligned_cols=68  Identities=25%  Similarity=0.365  Sum_probs=43.0

Q ss_pred             hhhhhhhhchhhHHHHHHHHHHHH------------HHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHH
Q 039268          106 KLEADLRATEPLKKEAVQLRAEVQ------------KLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQEL  173 (276)
Q Consensus       106 KmEAelra~e~lk~El~q~raE~q------------~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqEl  173 (276)
                      ++|++|+-.+-+..||..+-.|..            +...+.++|..++..+.-.+..++   .|.-.+..+++.|+.+|
T Consensus        31 ~le~qL~E~~~al~Ele~l~eD~~vYk~VG~llvk~~k~~~~~eL~er~E~Le~ri~tLe---kQe~~l~e~l~eLq~~i  107 (119)
T COG1382          31 QLEAQLKEIEKALEELEKLDEDAPVYKKVGNLLVKVSKEEAVDELEERKETLELRIKTLE---KQEEKLQERLEELQSEI  107 (119)
T ss_pred             HHHHHHHHHHHHHHHHhcCCcccHHHHHhhhHHhhhhHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHH
Confidence            677777777777777776655521            234456666666666666655544   34555667777777777


Q ss_pred             HHH
Q 039268          174 MHA  176 (276)
Q Consensus       174 qr~  176 (276)
                      +.+
T Consensus       108 ~~~  110 (119)
T COG1382         108 QKA  110 (119)
T ss_pred             HHH
Confidence            654

>TIGR02231 conserved hypothetical protein

Probab=83.52  E-value=14  Score=37.16  Aligned_cols=27  Identities=11%  Similarity=0.206  Sum_probs=13.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 039268           66 MAMQRELAAAKEELHRMNLVIGEIRAE   92 (276)
Q Consensus        66 vaLrqeLaaaq~Elqrl~~~~~~i~ae   92 (276)
                      ..|+++|..++.++.++...+..+++.
T Consensus        74 ~~l~~~l~~l~~~~~~~~~~~~~~~~~  100 (525)
T TIGR02231        74 AELRKQIRELEAELRDLEDRGDALKAL  100 (525)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345555555555555555544444433

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.

>cd07653 F-BAR_CIP4-like The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Cdc42-Interacting Protein 4 and similar proteins

Probab=83.46  E-value=33  Score=30.77  Aligned_cols=24  Identities=8%  Similarity=0.187  Sum_probs=17.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q 039268          188 IELMEQRQAMEKNLVSMAREVEKL  211 (276)
Q Consensus       188 ~e~~Eq~qaMEknlisMarEvEKL  211 (276)
                      .+.+...|.||..-|.+.+++=..
T Consensus       204 p~~~~~~q~le~~ri~~~k~~l~~  227 (251)
T cd07653         204 PQIFDKLQELDEKRINRTVELLLQ  227 (251)
T ss_pred             HHHHHHHHHHhHHHHHHHHHHHHH
Confidence            345577888888888888875443

F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. This subfamily is composed of Cdc42-Interacting Protein 4 (CIP4), Formin Binding Protein 17 (FBP17), FormiN Binding Protein 1-Like (FNBP1L), and similar proteins. CIP4 and FNBP1L are Cdc42 effectors that bind Wiskott-Aldrich syndrome protein (WASP) and function in endocytosis. CIP4 and FBP17 bind to the Fas ligand and may be implicated in the inflammatory response. CIP4 may also play a role in phagocytosis. Members of this subfamily typically contain an N-terminal F-BAR domain and a C-terminal SH3 domain. In addition, some members such as FNBP1L contain a central Cdc42-binding HR1 domain. F-BAR domains form banana-shaped dimers with a positively-charged concave surface that binds to negatively-charged l

>PRK06569 F0F1 ATP synthase subunit B'; Validated

Probab=83.44  E-value=31  Score=30.38  Aligned_cols=101  Identities=15%  Similarity=0.231  Sum_probs=49.8

Q ss_pred             HHhhhhHHHHHHHHHHhhhhhhhhhhhc-hhhHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHhhhcchhHHHH
Q 039268           87 GEIRAEQEVHVRDLVEKGLKLEADLRAT-EPLKKEAVQLRAEVQKLNNL-RNELNGKVQTLQKDLAKLQADNQQIPLLRA  164 (276)
Q Consensus        87 ~~i~ae~e~q~R~l~ek~~KmEAelra~-e~lk~El~q~raE~q~L~~~-RqeL~~qvq~l~~eL~r~~ad~qqipal~a  164 (276)
                      .++=.++...|.+=++.+.+.-+++... ..++++|..++.+++.+... |..|.++...-.+.   +.+++  .     
T Consensus        36 ~~iLe~R~~~I~~~L~~Ae~~k~eAe~l~a~ye~~L~~Ar~eA~~I~~e~~~~~~a~~~~~~~~---~ea~L--~-----  105 (155)
T PRK06569         36 EEIFNNRQTNIQDNITQADTLTIEVEKLNKYYNEEIDKTNTEIDRLKKEKIDSLESEFLIKKKN---LEQDL--K-----  105 (155)
T ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHH--H-----
Confidence            3344455555555555555554444333 44666667777777776555 66665554433332   33333  2     


Q ss_pred             HHHHHHHHHHHHHhhhhhHHhhhHHHHHHHHHHHHHHH
Q 039268          165 EIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLV  202 (276)
Q Consensus       165 Eie~lrqElqr~Raa~EyEKk~~~e~~Eq~qaMEknli  202 (276)
                        ..|.+|++..-..++   +-+.+..+++..|--|++
T Consensus       106 --~~~~~~~~~~~~~~~---~~~~~~~~~~i~~~~~i~  138 (155)
T PRK06569        106 --NSINQNIEDINLAAK---QFRTNKSEAIIKLAVNII  138 (155)
T ss_pred             --HHHHHHHHHHHHHHH---HHHHhHHHHHHHHHHHHH
Confidence              334444444444444   334444455444444444

>PRK09343 prefoldin subunit beta; Provisional

Probab=83.37  E-value=16  Score=30.26  Aligned_cols=34  Identities=15%  Similarity=0.260  Sum_probs=23.7

Q ss_pred             HHHHhhhhhhhhhhhchhhHHHHHHHHHHHHHHH
Q 039268           99 DLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLN  132 (276)
Q Consensus        99 ~l~ek~~KmEAelra~e~lk~El~q~raE~q~L~  132 (276)
                      .+......++++++-.+....||..+-.|..-..
T Consensus        25 ~~~~q~~~le~q~~e~~~~~~EL~~L~~d~~VYk   58 (121)
T PRK09343         25 RLLQQKSQIDLELREINKALEELEKLPDDTPIYK   58 (121)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHcCCCcchhHH
Confidence            4445555888888888888888888776654433

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

Probab=83.37  E-value=38  Score=31.38  Aligned_cols=95  Identities=20%  Similarity=0.265  Sum_probs=42.0

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHHhhhHHHHHHHHH
Q 039268          117 LKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQA  196 (276)
Q Consensus       117 lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~qa  196 (276)
                      |-.++.++..+...|...++++-...+.|..+-.....+..+   |.+++.....++.++..+    +.....-.++.| 
T Consensus        38 Leek~k~aeeea~~Le~k~~eaee~~~rL~~~~~~~~eEk~~---Le~e~~e~~~~i~~l~ee----~~~ke~Ea~~lq-  109 (246)
T PF00769_consen   38 LEEKLKQAEEEAEELEQKRQEAEEEKQRLEEEAEMQEEEKEQ---LEQELREAEAEIARLEEE----SERKEEEAEELQ-  109 (246)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------------HHHHHHHHHHHHHHHHH----HHHHHHHHHHHH-
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHH----HHHHHHHHHHHH-
Confidence            344566666666666666666666666665554444433332   445555555555544433    222233333333 


Q ss_pred             HHHHHHHHHHHHHHHHHHhhhccCC
Q 039268          197 MEKNLVSMAREVEKLRAELTNFDGR  221 (276)
Q Consensus       197 MEknlisMarEvEKLRaElanae~r  221 (276)
                        +.+..+-...++-..+|.++-..
T Consensus       110 --~el~~ar~~~~~ak~~L~~~~~~  132 (246)
T PF00769_consen  110 --EELEEAREDEEEAKEELLEVMSA  132 (246)
T ss_dssp             --HHHHHHHHHHHHHHHHH----HT
T ss_pred             --HHHHHHHHHHHHHHHHHHHHHhc
Confidence              33555555566667777655443

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.

>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=83.17  E-value=54  Score=34.13  Aligned_cols=88  Identities=19%  Similarity=0.305  Sum_probs=49.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHHhhhHHHHHHHHHH
Q 039268          118 KKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAM  197 (276)
Q Consensus       118 k~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~qaM  197 (276)
                      -.+++.+++-+-.+....+.|..++....++......+   +-.+...|..|+.||.-.|.-+|          +|+.+|
T Consensus       426 t~qlQ~adSKa~~f~~Ec~aL~~rL~~aE~ek~~l~ee---L~~a~~~i~~LqDEL~TTr~NYE----------~QLs~M  492 (518)
T PF10212_consen  426 TSQLQHADSKAVHFYAECRALQKRLESAEKEKESLEEE---LKEANQNISRLQDELETTRRNYE----------EQLSMM  492 (518)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHhhHH----------HHHHHH
Confidence            33455555555555555555555555554443332222   22333444445555554444422          578888


Q ss_pred             HHHHHHHHHHHHHHHHHhhhc
Q 039268          198 EKNLVSMAREVEKLRAELTNF  218 (276)
Q Consensus       198 EknlisMarEvEKLRaElana  218 (276)
                      ---|++|.-.+.|-+.||.+-
T Consensus       493 SEHLasmNeqL~~Q~eeI~~L  513 (518)
T PF10212_consen  493 SEHLASMNEQLAKQREEIQTL  513 (518)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            888888888888888887654

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.

>TIGR00634 recN DNA repair protein RecN

Probab=83.09  E-value=58  Score=33.28  Aligned_cols=25  Identities=0%  Similarity=-0.031  Sum_probs=13.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhh
Q 039268           67 AMQRELAAAKEELHRMNLVIGEIRA   91 (276)
Q Consensus        67 aLrqeLaaaq~Elqrl~~~~~~i~a   91 (276)
                      .|++++..+.++++.+...+..++.
T Consensus       158 ~~~~~~~~~~~~~~~~~~~L~~l~~  182 (563)
T TIGR00634       158 EKVKAYRELYQAWLKARQQLKDRQQ  182 (563)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            4555555555555555555444433

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

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

Probab=83.01  E-value=85  Score=36.23  Aligned_cols=32  Identities=19%  Similarity=0.343  Sum_probs=17.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhccCCC
Q 039268          191 MEQRQAMEKNLVSMAREVEKLRAELTNFDGRP  222 (276)
Q Consensus       191 ~Eq~qaMEknlisMarEvEKLRaElanae~r~  222 (276)
                      +.-++.||-.+.+=-+-++.+-+||+-.++|-
T Consensus      1709 l~~l~dLe~~y~~~~~~L~~~~aeL~~Le~r~ 1740 (1758)
T KOG0994|consen 1709 LDRLKDLELEYLRNEQALEDKAAELAGLEKRV 1740 (1758)
T ss_pred             HHHHHHHHHHHhhhhHHHHHHHHHhhhHHHHH
Confidence            33444444444444444666667776666653

>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=82.74  E-value=14  Score=29.12  Aligned_cols=60  Identities=28%  Similarity=0.437  Sum_probs=36.0

Q ss_pred             hhHHHHHHHHHHHHHHHHHhhh-hhHHhhhHHHHHHHH-------HHHHHHHHHHH----HHHHHHHHhhhcc
Q 039268          159 IPLLRAEIDGLHQELMHARAAV-DYEKKANIELMEQRQ-------AMEKNLVSMAR----EVEKLRAELTNFD  219 (276)
Q Consensus       159 ipal~aEie~lrqElqr~Raa~-EyEKk~~~e~~Eq~q-------aMEknlisMar----EvEKLRaElanae  219 (276)
                      +.+||+|+|.+-+|+...+..- +||.|.+ ..+--++       .||.+-..|..    ||-+||.||.+..
T Consensus         6 Ld~ir~Ef~~~~~e~~~~k~~~~e~e~ki~-~Qi~Em~~ir~~v~eLE~~h~kmK~~YEeEI~rLr~eLe~r~   77 (79)
T PF08581_consen    6 LDAIRQEFENLSQEANSYKHQKDEYEHKIN-SQIQEMQQIRQKVYELEQAHRKMKQQYEEEIARLRRELEQRG   77 (79)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHT
T ss_pred             HHHHHHHHHHHHHHHHHHHHhHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence            4567777777777777666543 4555533 2222233       34555555543    5889999998764

; PDB: 3VP9_B 3VP8_B.

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

Probab=82.60  E-value=30  Score=29.62  Aligned_cols=83  Identities=22%  Similarity=0.338  Sum_probs=43.0

Q ss_pred             HhhhhHHHHHHHHHHhhhhhhhhhhhchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchh-------
Q 039268           88 EIRAEQEVHVRDLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIP-------  160 (276)
Q Consensus        88 ~i~ae~e~q~R~l~ek~~KmEAelra~e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqip-------  160 (276)
                      .+++|.|.    ..++.-.+|+.++.   +..+..+...||..|..--+-|-.+|..+...|..+...+....       
T Consensus         4 ~lk~E~d~----a~~r~e~~e~~~K~---le~~~~~~E~EI~sL~~K~~~lE~eld~~~~~l~~~k~~lee~~~~~~~~E   76 (143)
T PF12718_consen    4 ALKLEADN----AQDRAEELEAKVKQ---LEQENEQKEQEITSLQKKNQQLEEELDKLEEQLKEAKEKLEESEKRKSNAE   76 (143)
T ss_pred             HHHHhHHH----HHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhHH
Confidence            34455442    44555555554433   44455566666666666666666666666666555554433332       


Q ss_pred             HHHHHHHHHHHHHHHHH
Q 039268          161 LLRAEIDGLHQELMHAR  177 (276)
Q Consensus       161 al~aEie~lrqElqr~R  177 (276)
                      .|..-|.-|-.||..+-
T Consensus        77 ~l~rriq~LEeele~ae   93 (143)
T PF12718_consen   77 QLNRRIQLLEEELEEAE   93 (143)
T ss_pred             HHHhhHHHHHHHHHHHH
Confidence            33344444444444443

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 [].

>PF07889 DUF1664: Protein of unknown function (DUF1664); InterPro: IPR012458 The members of this family are hypothetical plant proteins of unknown function

Probab=82.53  E-value=24  Score=30.14  Aligned_cols=82  Identities=13%  Similarity=0.247  Sum_probs=0.0

Q ss_pred             hchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHHhhhHHHHH
Q 039268          113 ATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELME  192 (276)
Q Consensus       113 a~e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~EyEKk~~~e~~E  192 (276)
                      +...+-+-|.|+..   .|.+.|.+|+.+++.+..-|.....=.   -.++.|+..++..+.+.+..++.=...-..+=.
T Consensus        44 A~~~v~kql~~vs~---~l~~tKkhLsqRId~vd~klDe~~ei~---~~i~~eV~~v~~dv~~i~~dv~~v~~~V~~Le~  117 (126)
T PF07889_consen   44 AVASVSKQLEQVSE---SLSSTKKHLSQRIDRVDDKLDEQKEIS---KQIKDEVTEVREDVSQIGDDVDSVQQMVEGLEG  117 (126)
T ss_pred             HHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHhhHHHHHHHH---HHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHH


Q ss_pred             HHHHHHHH
Q 039268          193 QRQAMEKN  200 (276)
Q Consensus       193 q~qaMEkn  200 (276)
                      .+-.+|.|
T Consensus       118 ki~~ie~~  125 (126)
T PF07889_consen  118 KIDEIEEK  125 (126)
T ss_pred             HHHHHhcC

The region featured in this family is approximately 100 amino acids long.

>TIGR03319 YmdA_YtgF conserved hypothetical protein YmdA/YtgF

Probab=82.49  E-value=63  Score=33.22  Aligned_cols=21  Identities=14%  Similarity=0.180  Sum_probs=8.3

Q ss_pred             HHHHHHHHHhhhhhHHhhhHH
Q 039268          169 LHQELMHARAAVDYEKKANIE  189 (276)
Q Consensus       169 lrqElqr~Raa~EyEKk~~~e  189 (276)
                      +++|.-..-..++.|-+.+++
T Consensus       161 ~~~~~~~~~~~~~~~~~~~a~  181 (514)
T TIGR03319       161 ARHEAAKLIKEIEEEAKEEAD  181 (514)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            333333333334444444333

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

Probab=82.48  E-value=38  Score=33.77  Aligned_cols=89  Identities=20%  Similarity=0.319  Sum_probs=53.7

Q ss_pred             HHHHHHHhhhccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhHH---HHHHHHHHhhhhhhhhhhhchhhHHHH
Q 039268           45 EIQHAEIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQE---VHVRDLVEKGLKLEADLRATEPLKKEA  121 (276)
Q Consensus        45 ~~Q~~EiqrLl~dNqRLaatHvaLrqeLaaaq~Elqrl~~~~~~i~ae~e---~q~R~l~ek~~KmEAelra~e~lk~El  121 (276)
                      +....|.+.|-..||.|-..-.-.+.=+..++-+.|+|-..+..++.|+-   +|+-++..-+..+|.          |.
T Consensus        95 ~e~q~e~~qL~~qnqkL~nqL~~~~~vf~k~k~~~q~LE~li~~~~EEn~~lqlqL~~l~~e~~Ekee----------es  164 (401)
T PF06785_consen   95 EERQQESEQLQSQNQKLKNQLFHVREVFMKTKGDIQHLEGLIRHLREENQCLQLQLDALQQECGEKEE----------ES  164 (401)
T ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhHhHH----------HH
Confidence            44556778888888888777666777777778888888777776666653   444444444444443          33


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q 039268          122 VQLRAEVQKLNNLRNELNGKVQ  143 (276)
Q Consensus       122 ~q~raE~q~L~~~RqeL~~qvq  143 (276)
                      +++--|+..-.+.-|+|.++-|
T Consensus       165 q~LnrELaE~layqq~L~~eyQ  186 (401)
T PF06785_consen  165 QTLNRELAEALAYQQELNDEYQ  186 (401)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhh
Confidence            3344444444444445544443

>PLN03229 acetyl-coenzyme A carboxylase carboxyl transferase subunit alpha; Provisional

Probab=82.45  E-value=58  Score=35.41  Aligned_cols=78  Identities=23%  Similarity=0.327  Sum_probs=57.3

Q ss_pred             HHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHHhhhHHHHHHHHHHHHHHHH------HHHHHHH
Q 039268          137 ELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVS------MAREVEK  210 (276)
Q Consensus       137 eL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~qaMEknlis------MarEvEK  210 (276)
                      .|+.++..|++|+.+--++.-.-|.|+.-+|.|+.+. ++.+.  -|.+.++.-+  -+..-|.++.      |..+||.
T Consensus       508 ~L~eK~~kLk~Efnkkl~ea~n~p~lk~Kle~Lk~~~-~~~~~--s~g~~~a~~L--k~ei~kki~e~~~~~~~kek~ea  582 (762)
T PLN03229        508 VLMEKIEKLKDEFNKRLSRAPNYLSLKYKLDMLNEFS-RAKAL--SEKKSKAEKL--KAEINKKFKEVMDRPEIKEKMEA  582 (762)
T ss_pred             HHHHHHHHHHHHHHHhhhcccccHHHHHHHHHHHHHH-Hhhhh--cccchhhhhh--hHHHHHHHHHhcccHHHHHHHHH
Confidence            3777899999999888888888899999999999887 54444  2222223222  3567777777      8888888


Q ss_pred             HHHHhhhcc
Q 039268          211 LRAELTNFD  219 (276)
Q Consensus       211 LRaElanae  219 (276)
                      |+||+.+..
T Consensus       583 ~~aev~~~g  591 (762)
T PLN03229        583 LKAEVASSG  591 (762)
T ss_pred             HHHHHHhcC
Confidence            888888843

>PF03962 Mnd1: Mnd1 family; InterPro: IPR005647 This family of proteins includes meiotic nuclear division protein 1 (MND1) from Saccharomyces cerevisiae (Baker's yeast)

Probab=82.24  E-value=10  Score=33.77  Aligned_cols=76  Identities=18%  Similarity=0.313  Sum_probs=41.1

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHHhhhHHHHHHHHH
Q 039268          117 LKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQA  196 (276)
Q Consensus       117 lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~qa  196 (276)
                      ++..+..+..++.++.....+|..+++....+    +.+...=..+.++++.|+.++..+.+.++--++...+.+++++.
T Consensus        67 ~~~~~~~l~~~~~~~~~~i~~l~~~i~~~~~~----r~~~~eR~~~l~~l~~l~~~~~~l~~el~~~~~~Dp~~i~~~~~  142 (188)
T PF03962_consen   67 RQNKLEKLQKEIEELEKKIEELEEKIEEAKKG----REESEEREELLEELEELKKELKELKKELEKYSENDPEKIEKLKE  142 (188)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc----ccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            44445555555555555555555444444222    12223334566777777777777777776555555555555443

The mnd1 protein forms a complex with hop2 to promote homologous chromosome pairing and meiotic double-strand break repair [].

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

Probab=82.17  E-value=81  Score=34.31  Aligned_cols=143  Identities=23%  Similarity=0.296  Sum_probs=76.8

Q ss_pred             hhHHHHHHHHHHHHHH-------HHHH-------HHHHHHhhhhHHHHHHHHHHhhh--------hhhhhhhhchhhHHH
Q 039268           63 EDRMAMQRELAAAKEE-------LHRM-------NLVIGEIRAEQEVHVRDLVEKGL--------KLEADLRATEPLKKE  120 (276)
Q Consensus        63 atHvaLrqeLaaaq~E-------lqrl-------~~~~~~i~ae~e~q~R~l~ek~~--------KmEAelra~e~lk~E  120 (276)
                      +.-++||++|.++-+-       +-+|       -..+..++-|.|..|.+.+-+.-        .||+   -...+.++
T Consensus        24 ~e~~~lk~~l~~~~~~~~~~e~r~~hld~aLkec~~qlr~~ree~eq~i~~~~~~~s~e~e~~~~~le~---~l~e~~~~  100 (769)
T PF05911_consen   24 AEAASLKQQLEAATQQKLALEDRVSHLDGALKECMRQLRQVREEQEQKIHEAVAKKSKEWEKIKSELEA---KLAELSKR  100 (769)
T ss_pred             HHHHHHHHHHHHHHHHhHHHHHHhhhhhHHHHHHHHHHHHhhHHHHHHHHHHHHHHhHHHHHHHHHHHH---HHHHHHHH
Confidence            3446677777655332       2222       22345667788887777765531        2333   22345567


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHHhhhHHHHHHHHHHHHH
Q 039268          121 AVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKN  200 (276)
Q Consensus       121 l~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~qaMEkn  200 (276)
                      |..+.+|.-.|..+-++-..-+..++....++.+|.   ..|..-|+++..|.-    +..||=-.-.+-+| ....|+|
T Consensus       101 l~~~~~e~~~l~~~l~~~~~~i~~l~~~~~~~e~~~---~~l~~~l~~~eken~----~Lkye~~~~~kele-ir~~E~~  172 (769)
T PF05911_consen  101 LAESAAENSALSKALQEKEKLIAELSEEKSQAEAEI---EDLMARLESTEKENS----SLKYELHVLSKELE-IRNEERE  172 (769)
T ss_pred             HHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHhHH---HHHHHHHHHHHHHHH----HHHHHHHHHHHHHH-HHHHHHH
Confidence            777777777777777776666666666655555443   444444444444432    22233333333332 3345555


Q ss_pred             HHHHHHH------------HHHHHHHhh
Q 039268          201 LVSMARE------------VEKLRAELT  216 (276)
Q Consensus       201 lisMarE------------vEKLRaEla  216 (276)
                      |..=+.|            |-||-||-.
T Consensus       173 ~~~~~ae~a~kqhle~vkkiakLEaEC~  200 (769)
T PF05911_consen  173 YSRRAAEAASKQHLESVKKIAKLEAECQ  200 (769)
T ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5544444            667777743

The function of this family is unknown.

>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=82.07  E-value=20  Score=28.18  Aligned_cols=43  Identities=12%  Similarity=0.319  Sum_probs=36.2

Q ss_pred             chhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 039268          114 TEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADN  156 (276)
Q Consensus       114 ~e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~  156 (276)
                      .+++|+|...+-.|+..+.+.+.++-.++..-.+|++.++--+
T Consensus         6 Ld~ir~Ef~~~~~e~~~~k~~~~e~e~ki~~Qi~Em~~ir~~v   48 (79)
T PF08581_consen    6 LDAIRQEFENLSQEANSYKHQKDEYEHKINSQIQEMQQIRQKV   48 (79)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence            3568999999999999999999999999999888887777544

; PDB: 3VP9_B 3VP8_B.

>TIGR00634 recN DNA repair protein RecN

Probab=81.98  E-value=64  Score=32.98  Aligned_cols=13  Identities=15%  Similarity=0.350  Sum_probs=4.7

Q ss_pred             HHHHHHHHHHHHH
Q 039268          137 ELNGKVQTLQKDL  149 (276)
Q Consensus       137 eL~~qvq~l~~eL  149 (276)
                      ++....+.+.++|
T Consensus       326 ~l~~~~~~l~~eL  338 (563)
T TIGR00634       326 EVLEYAEKIKEEL  338 (563)
T ss_pred             HHHHHHHHHHHHH
Confidence            3333333333333

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

>PRK13453 F0F1 ATP synthase subunit B; Provisional

Probab=81.93  E-value=34  Score=29.72  Aligned_cols=85  Identities=18%  Similarity=0.224  Sum_probs=49.6

Q ss_pred             HhhhhhhhhhhhchhhHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhh
Q 039268          102 EKGLKLEADLRATEPLKKEAVQLRAEV-QKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAV  180 (276)
Q Consensus       102 ek~~KmEAelra~e~lk~El~q~raE~-q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~  180 (276)
                      +|-.++..+|...+..+.+...+..+. ++|..++++-..-+....++-.+...+.  +...+.|.+   +-+..++..|
T Consensus        49 ~R~~~I~~~l~~Ae~~~~eA~~~~~e~e~~l~~a~~ea~~ii~~a~~~a~~~~~~~--~~~A~~ea~---~~~~~A~~~I  123 (173)
T PRK13453         49 KRERDINRDIDDAEQAKLNAQKLEEENKQKLKETQEEVQKILEDAKVQARQQQEQI--IHEANVRAN---GMIETAQSEI  123 (173)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHH---HHHHHHHHHH
Confidence            344455556666666666666666665 4566666666666666666644444333  333334443   3455688888


Q ss_pred             hhHHhhhHHHH
Q 039268          181 DYEKKANIELM  191 (276)
Q Consensus       181 EyEKk~~~e~~  191 (276)
                      +.|++.-...+
T Consensus       124 ~~ek~~a~~~l  134 (173)
T PRK13453        124 NSQKERAIADI  134 (173)
T ss_pred             HHHHHHHHHHH
Confidence            88887765543

>PRK10361 DNA recombination protein RmuC; Provisional

Probab=81.90  E-value=66  Score=33.10  Aligned_cols=39  Identities=15%  Similarity=0.101  Sum_probs=17.3

Q ss_pred             HHHHHHHHHHHHHHhhhhhHHhhhHHHHHHHHHHHHHHH
Q 039268          164 AEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLV  202 (276)
Q Consensus       164 aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~qaMEknli  202 (276)
                      ..|+.+..+-.+.|+++..+=+.=.++..++..=-.||.
T Consensus       154 ~~v~~~~~~~~~~~~~L~~qi~~L~~~n~~i~~ea~nLt  192 (475)
T PRK10361        154 RQVQDSFGKEAQERHTLAHEIRNLQQLNAQMAQEAINLT  192 (475)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444444444445555544444433333344333333443

>PF08912 Rho_Binding: Rho Binding; InterPro: IPR015008 Rho is responsible for the recognition and binding of Rho binding domain-containing proteins (such as ROCK) to Rho, resulting in activation of the GTPase which in turn modulates the phosphorylation of various signalling proteins

Probab=81.79  E-value=12  Score=29.02  Aligned_cols=58  Identities=36%  Similarity=0.549  Sum_probs=42.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHHhhhHHHHHHHHHH
Q 039268          124 LRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAM  197 (276)
Q Consensus       124 ~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~qaM  197 (276)
                      +..++..|.....||..++..+..|+.+.+.+.+++..+++.                |||..+.|.+=-.||.
T Consensus         1 L~kdv~~l~~EkeeL~~klk~~qeel~~~k~~~~~~~~ik~~----------------~eK~L~~E~~LK~QAV   58 (69)
T PF08912_consen    1 LTKDVANLAKEKEELNNKLKKQQEELQKLKEEEQEIEEIKAQ----------------YEKQLNTERTLKQQAV   58 (69)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHH----------------HHHCHHHHHHHHHHHH
T ss_pred             CchHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------------HHHHHHHHHHHHHHHH
Confidence            356888899999999999999999999888877555544443                6666666665444443

This domain is within an amphipathic alpha-helical coiled-coil and interacts with Rho through predominantly hydrophobic interactions []. ; GO: 0004674 protein serine/threonine kinase activity, 0005524 ATP binding, 0000910 cytokinesis, 0006468 protein phosphorylation; PDB: 1UIX_A 1S1C_X.

>smart00806 AIP3 Actin interacting protein 3

Probab=81.48  E-value=34  Score=34.71  Aligned_cols=119  Identities=20%  Similarity=0.302  Sum_probs=87.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhhhh-hh-hchhhHHHH----HHHHHHHHHHHHHHHHHHHHH
Q 039268           69 QRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEAD-LR-ATEPLKKEA----VQLRAEVQKLNNLRNELNGKV  142 (276)
Q Consensus        69 rqeLaaaq~Elqrl~~~~~~i~ae~e~q~R~l~ek~~KmEAe-lr-a~e~lk~El----~q~raE~q~L~~~RqeL~~qv  142 (276)
                      .+||...++||-.|.++..+.+++-..-|-.+.+|+.++-.= +- +..+=|+=+    .++-.+.++|.+-=.+|..-|
T Consensus       154 ~~el~~lrrdLavlRQ~~~~~~~~~~~sm~~i~~k~~~~k~~~~~~~~~s~R~y~e~~k~kL~~~Sd~lltkVDDLQD~v  233 (426)
T smart00806      154 RAELKSLQRELAVLRQTHNSFFTEIKESIKDILEKIDKFKSSSLSASGSSNRAYVESSKKKLSEDSDSLLTKVDDLQDII  233 (426)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCCCcchHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence            488888899998898888888888888888888888877431 11 112222222    223356667777777777778


Q ss_pred             HHHHHHHHH--HHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHHhhh
Q 039268          143 QTLQKDLAK--LQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKAN  187 (276)
Q Consensus       143 q~l~~eL~r--~~ad~qqipal~aEie~lrqElqr~Raa~EyEKk~~  187 (276)
                      ..|.+|+..  ++.-.+|+-.+..||+...+||+..-.-|.-||-.-
T Consensus       234 E~LRkDV~~RgVRp~~~qLe~v~kdi~~a~keL~~m~~~i~~eKP~W  280 (426)
T smart00806      234 EALRKDVAQRGVRPSKKQLETVQKELETARKELKKMEEYIDIEKPIW  280 (426)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcChHH
Confidence            888888553  455678999999999999999999999998887654

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.

>TIGR02231 conserved hypothetical protein

Probab=81.27  E-value=16  Score=36.84  Aligned_cols=29  Identities=14%  Similarity=0.391  Sum_probs=17.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhcc
Q 039268          191 MEQRQAMEKNLVSMAREVEKLRAELTNFD  219 (276)
Q Consensus       191 ~Eq~qaMEknlisMarEvEKLRaElanae  219 (276)
                      ..+....+.-+-.+.+++++|+.+|....
T Consensus       144 ~~~~~~~~~~~~~~~~~l~~l~~~l~~l~  172 (525)
T TIGR02231       144 LTEDREAERRIRELEKQLSELQNELNALL  172 (525)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            34444555555666666777777765554

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.

>PF13094 CENP-Q: CENP-Q, a CENPA-CAD centromere complex subunit

Probab=81.22  E-value=33  Score=29.20  Aligned_cols=73  Identities=26%  Similarity=0.238  Sum_probs=51.2

Q ss_pred             ccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhhhhhhhchhhHHHHHHHHHHHHHHHHH
Q 039268           55 LGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNL  134 (276)
Q Consensus        55 l~dNqRLaatHvaLrqeLaaaq~Elqrl~~~~~~i~ae~e~q~R~l~ek~~KmEAelra~e~lk~El~q~raE~q~L~~~  134 (276)
                      ..+-..|...+.+|.+.|++..+=|.-|...+.                  ++|+   +.+.....|.++...++.+.+.
T Consensus        19 ~~~~e~ll~~~~~LE~qL~~~~~~l~lLq~e~~------------------~~e~---~le~d~~~L~~Le~~~~~~~~e   77 (160)
T PF13094_consen   19 SFDYEQLLDRKRALERQLAANLHQLELLQEEIE------------------KEEA---ALERDYEYLQELEKNAKALERE   77 (160)
T ss_pred             cccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------------------HHHH---HHHHHHHHHHHHHHHHHHHHHH
Confidence            344466778889999999988887777777666                  5555   4455566677777777777777


Q ss_pred             HHHHHHHHHHHHHH
Q 039268          135 RNELNGKVQTLQKD  148 (276)
Q Consensus       135 RqeL~~qvq~l~~e  148 (276)
                      +.++..++..+.+.
T Consensus        78 ~~~~~~~~~~vL~~   91 (160)
T PF13094_consen   78 REEEEKKAHPVLQL   91 (160)
T ss_pred             HHHHHhccchhhcc
Confidence            77777775444433

>TIGR02473 flagell_FliJ flagellar export protein FliJ

Probab=81.19  E-value=27  Score=28.22  Aligned_cols=41  Identities=27%  Similarity=0.319  Sum_probs=24.8

Q ss_pred             hhHHHHHHHHHHHHHHHHHhhhhhHHhhhHHHHHHHHHHHH
Q 039268          159 IPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEK  199 (276)
Q Consensus       159 ipal~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~qaMEk  199 (276)
                      +..|...|+..++.+..++..++.-++.-.+-.-..++|||
T Consensus        70 ~~~l~~~i~~q~~~l~~~~~~~e~~r~~l~~a~~~~k~lek  110 (141)
T TIGR02473        70 IRQLDQRIQQQQQELALLQQEVEAKRERLLEARRELKALEK  110 (141)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45555666666666666666666666555555555555554

Members of this family are the FliJ protein found, in nearly every case, in the midst of other flagellar biosynthesis genes in bacgterial genomes. Typically the fliJ gene is found adjacent to the gene for the flagellum-specific ATPase FliI. Sequence scoring in the gray zone between trusted and noise cutoffs include both probable FliJ proteins and components of bacterial type III secretion systems.

>TIGR00414 serS seryl-tRNA synthetase

Probab=81.10  E-value=11  Score=37.41  Aligned_cols=33  Identities=27%  Similarity=0.390  Sum_probs=20.7

Q ss_pred             hhchhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039268          112 RATEPLKKEAVQLRAEVQKLNNLRNELNGKVQT  144 (276)
Q Consensus       112 ra~e~lk~El~q~raE~q~L~~~RqeL~~qvq~  144 (276)
                      -..-.+..+..++..+++.|.+.|..++.++..
T Consensus        30 d~i~~ld~~~r~~~~~~~~l~~erN~~sk~i~~   62 (418)
T TIGR00414        30 EKLIALDDERKKLLSEIEELQAKRNELSKQIGK   62 (418)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334445556666667777777777777776654

This model represents the seryl-tRNA synthetase found in most organisms. This protein is a class II tRNA synthetase, and is recognized by the pfam model tRNA-synt_2b. The seryl-tRNA synthetases of two archaeal species, Methanococcus jannaschii and Methanobacterium thermoautotrophicum, differ considerably and are included in a different model.

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

Probab=81.05  E-value=46  Score=30.75  Aligned_cols=44  Identities=18%  Similarity=0.282  Sum_probs=22.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhH---HHHHHHHHHhhhhhhh
Q 039268           66 MAMQRELAAAKEELHRMNLVIGEIRAEQ---EVHVRDLVEKGLKLEA  109 (276)
Q Consensus        66 vaLrqeLaaaq~Elqrl~~~~~~i~ae~---e~q~R~l~ek~~KmEA  109 (276)
                      ..|.|.|-.++.+|..+...+..+.+..   +.++..+...+.|+|.
T Consensus        27 ~~l~Q~ird~~~~l~~ar~~~A~~~a~~k~~e~~~~~~~~~~~k~e~   73 (225)
T COG1842          27 KMLEQAIRDMESELAKARQALAQAIARQKQLERKLEEAQARAEKLEE   73 (225)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4555555556655555555555444432   3444444444445444

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

Probab=80.84  E-value=83  Score=33.56  Aligned_cols=59  Identities=27%  Similarity=0.253  Sum_probs=37.0

Q ss_pred             HHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHHhhhHHHHHHHHHHHHHHHHHHHH
Q 039268          149 LAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMARE  207 (276)
Q Consensus       149 L~r~~ad~qqipal~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~qaMEknlisMarE  207 (276)
                      -+|-..=+++|-.|..|+..+|+||-+.++.-|---+.+.++-+...+.|-.-+.|-.|
T Consensus        99 aakE~~yl~kI~eleneLKq~r~el~~~q~E~erl~~~~sd~~e~~~~~E~qR~rlr~e  157 (772)
T KOG0999|consen   99 AAKEEYYLQKILELENELKQLRQELTNVQEENERLEKVHSDLKESNAAVEDQRRRLRDE  157 (772)
T ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhhHHHHHHHHHH
Confidence            34455567777777777777777777777766666666666655555555444444333

>PF05266 DUF724: Protein of unknown function (DUF724); InterPro: IPR007930 This family contains several uncharacterised proteins found exclusively in Arabidopsis thaliana

Probab=80.83  E-value=25  Score=31.68  Aligned_cols=44  Identities=20%  Similarity=0.386  Sum_probs=22.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHH
Q 039268          130 KLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHA  176 (276)
Q Consensus       130 ~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~  176 (276)
                      .|....+-+..+.+...+|+.++++++   .++..++++++.+.+..
T Consensus       142 el~~~~~~~~~~ke~~~~ei~~lks~~---~~l~~~~~~~e~~F~~~  185 (190)
T PF05266_consen  142 ELQRQAAKLKEKKEAKDKEISRLKSEA---EALKEEIENAELEFQSV  185 (190)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHH
Confidence            333344445555666666666666554   33445555555554443

>PF11180 DUF2968: Protein of unknown function (DUF2968); InterPro: IPR021350 This family of proteins has no known function

Probab=80.60  E-value=41  Score=30.81  Aligned_cols=84  Identities=24%  Similarity=0.333  Sum_probs=47.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhhhhhhhch----hhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039268           69 QRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRATE----PLKKEAVQLRAEVQKLNNLRNELNGKVQT  144 (276)
Q Consensus        69 rqeLaaaq~Elqrl~~~~~~i~ae~e~q~R~l~ek~~KmEAelra~e----~lk~El~q~raE~q~L~~~RqeL~~qvq~  144 (276)
                      +|-..-+.-||+|..-...+...|+-+...+  ++...|.+||.-.-    .+-..-.+++.|++.|...|++..+++..
T Consensus        95 ~Qt~~LA~~eirR~~LeAQka~~eR~ia~~~--~ra~~LqaDl~~~~~Q~~~va~~Q~q~r~ea~aL~~e~~aaqaQL~~  172 (192)
T PF11180_consen   95 QQTARLADVEIRRAQLEAQKAQLERLIAESE--ARANRLQADLQIARQQQQQVAARQQQARQEAQALEAERRAAQAQLRQ  172 (192)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4555667778888776666555555443332  45555555554432    22233345666666666666666666666


Q ss_pred             HHHHHHHHHh
Q 039268          145 LQKDLAKLQA  154 (276)
Q Consensus       145 l~~eL~r~~a  154 (276)
                      +.+.+..++.
T Consensus       173 lQ~qv~~Lq~  182 (192)
T PF11180_consen  173 LQRQVRQLQR  182 (192)
T ss_pred             HHHHHHHHHH
Confidence            6555444443

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

Probab=80.54  E-value=1.1e+02  Score=34.57  Aligned_cols=170  Identities=19%  Similarity=0.251  Sum_probs=87.3

Q ss_pred             HhhhccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhhhhhhhchhhHHHHHHHHHHHHH
Q 039268           51 IQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRATEPLKKEAVQLRAEVQK  130 (276)
Q Consensus        51 iqrLl~dNqRLaatHvaLrqeLaaaq~Elqrl~~~~~~i~ae~e~q~R~l~ek~~KmEAelra~e~lk~El~q~raE~q~  130 (276)
                      +.+.-..|.-|-.-..-+-+..+..|.||++-......++.-+|...+++-|-.--||.--=--|-...-..-++.|+..
T Consensus       257 lekmkiqleqlqEfkSkim~qqa~Lqrel~raR~e~keaqe~ke~~k~emad~ad~iEmaTldKEmAEERaesLQ~eve~  336 (1243)
T KOG0971|consen  257 LEKMKIQLEQLQEFKSKIMEQQADLQRELKRARKEAKEAQEAKERYKEEMADTADAIEMATLDKEMAEERAESLQQEVEA  336 (1243)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHH
Confidence            33333344433333334445555666666666666777777788888888777666654110001111112334455666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhcch-----hHHHHHHHHHHHHHHHHHhhhhhHHhhhHHHHHHHHHHHHHHHHHH
Q 039268          131 LNNLRNELNGKVQTLQKDLAKLQADNQQI-----PLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMA  205 (276)
Q Consensus       131 L~~~RqeL~~qvq~l~~eL~r~~ad~qqi-----pal~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~qaMEknlisMa  205 (276)
                      |..--.||+.++..|..|.+--=+|.+-.     --|...-+.|+.=|.|+|..--.||--...+..-+...-.-+--+-
T Consensus       337 lkEr~deletdlEILKaEmeekG~~~~~~ss~qfkqlEqqN~rLKdalVrLRDlsA~ek~d~qK~~kelE~k~sE~~eL~  416 (1243)
T KOG0971|consen  337 LKERVDELETDLEILKAEMEEKGSDGQAASSYQFKQLEQQNARLKDALVRLRDLSASEKQDHQKLQKELEKKNSELEELR  416 (1243)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhcCCCCcccchHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhhHHHHHH
Confidence            66666677777777766654443443221     1222233556666666666655555544444332222222233333


Q ss_pred             HHHHHHHHHhhhccC
Q 039268          206 REVEKLRAELTNFDG  220 (276)
Q Consensus       206 rEvEKLRaElanae~  220 (276)
                      +--|+|..++.++|.
T Consensus       417 r~kE~Lsr~~d~aEs  431 (1243)
T KOG0971|consen  417 RQKERLSRELDQAES  431 (1243)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            445566666666654

>PF07139 DUF1387: Protein of unknown function (DUF1387); InterPro: IPR009816 This family represents a conserved region approximately 300 residues long within a number of hypothetical proteins of unknown function that seem to be restricted to mammals

Probab=80.37  E-value=32  Score=33.50  Aligned_cols=90  Identities=23%  Similarity=0.299  Sum_probs=71.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcch-----hHHHHHHHHHHHHHHHHHhhhhhHHhhhHHHHHH
Q 039268          119 KEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQI-----PLLRAEIDGLHQELMHARAAVDYEKKANIELMEQ  193 (276)
Q Consensus       119 ~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqi-----pal~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq  193 (276)
                      ++|+.--+   .|+.+|..|-.++..--+.+.+..+++++.     -+|.+|||..++|-...=.+       +...-|-
T Consensus       160 KDLqRctv---SL~RYr~~lkee~d~S~k~ik~~F~~l~~cL~dREvaLl~EmdkVK~EAmeiL~a-------RqkkAee  229 (302)
T PF07139_consen  160 KDLQRCTV---SLTRYRVVLKEEMDSSIKKIKQTFAELQSCLMDREVALLAEMDKVKAEAMEILDA-------RQKKAEE  229 (302)
T ss_pred             HHHHHHHH---HHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHH
Confidence            37876666   889999999999999999999888888765     47889999999986655332       4445566


Q ss_pred             HHHHHHHHHHHHHH-HHHHHHHhhhc
Q 039268          194 RQAMEKNLVSMARE-VEKLRAELTNF  218 (276)
Q Consensus       194 ~qaMEknlisMarE-vEKLRaElana  218 (276)
                      ++.|..--+.|+-+ |--|||||-.+
T Consensus       230 Lkrltd~A~~MsE~Ql~ELRadIK~f  255 (302)
T PF07139_consen  230 LKRLTDRASQMSEEQLAELRADIKHF  255 (302)
T ss_pred             HHHHHHHHhhcCHHHHHHHHHHHHHH
Confidence            77777778888876 88899999865

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

Probab=80.21  E-value=1.1e+02  Score=34.64  Aligned_cols=155  Identities=21%  Similarity=0.251  Sum_probs=92.3

Q ss_pred             chhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhH-------H--------------HHHHHHHHhhhhhhhhhhhchhhHH
Q 039268           61 LVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQ-------E--------------VHVRDLVEKGLKLEADLRATEPLKK  119 (276)
Q Consensus        61 LaatHvaLrqeLaaaq~Elqrl~~~~~~i~ae~-------e--------------~q~R~l~ek~~KmEAelra~e~lk~  119 (276)
                      |.+..--|+.+++.|..+.++...-...|.+|+       +              .|.--.+=+.-+.|+   ..+-+..
T Consensus       158 lK~EYeelK~E~~kAE~~t~~~~~kkk~I~aEkk~aK~~k~eaeky~~lkde~~~~q~e~~L~qLfhvE~---~i~k~~~  234 (1141)
T KOG0018|consen  158 LKPEYEELKYEMAKAEETTTGNYKKKKSIAAEKKEAKEGKEEAEKYQRLKDEKGKAQKEQFLWELFHVEA---CIEKAND  234 (1141)
T ss_pred             hhHHHHHHHHHHHHHHHHHhhHhhhhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh---hHhhhhH
Confidence            556667778888888888877776666666665       1              111112223334455   3445666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHH-----------------HHHHHHHHHhhhhh
Q 039268          120 EAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDG-----------------LHQELMHARAAVDY  182 (276)
Q Consensus       120 El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~-----------------lrqElqr~Raa~Ey  182 (276)
                      ||....+|+.+|...+..-..++....++..+..-+++++.....+.+.                 ++..|....-.|+-
T Consensus       235 els~~~~ei~~~~~~~d~~e~ei~~~k~e~~ki~re~~~~Dk~i~~ke~~l~erp~li~~ke~~~~~k~rl~~~~k~i~~  314 (1141)
T KOG0018|consen  235 ELSRLNAEIPKLKERMDKKEREIRVRKKERGKIRRELQKVDKKISEKEEKLAERPELIKVKENASHLKKRLEEIEKDIET  314 (1141)
T ss_pred             HHHHHhhhhHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHhhcchhhccchhHHHHhhhhHHH
Confidence            7777777777777776666666666665555555555555444444333                 33344445555555


Q ss_pred             HHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Q 039268          183 EKKANIELMEQRQAMEKNLVSMAREVEKLRAELTNF  218 (276)
Q Consensus       183 EKk~~~e~~Eq~qaMEknlisMarEvEKLRaElana  218 (276)
                      =++.+..+-+..+.++|.++++..=-+-+-.|+.+.
T Consensus       315 ~kk~~~~~~~~ie~~ek~l~av~~~~~~fekei~~~  350 (1141)
T KOG0018|consen  315 AKKDYRALKETIERLEKELKAVEGAKEEFEKEIEER  350 (1141)
T ss_pred             HHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            566777777888888888877655444444444443

>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=80.07  E-value=31  Score=28.11  Aligned_cols=38  Identities=29%  Similarity=0.468  Sum_probs=27.1

Q ss_pred             hhhhHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 039268          179 AVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAELT  216 (276)
Q Consensus       179 a~EyEKk~~~e~~Eq~qaMEknlisMarEvEKLRaEla  216 (276)
                      |+++-++.-..+-+++..+++++..+..++..+.+.+.
T Consensus        88 A~~~l~~r~~~l~~~~~~l~~~l~~l~~~~~~~~~~l~  125 (129)
T cd00584          88 AIEFLDKKIEELTKQIEKLQKELAKLKDQINTLEAELQ  125 (129)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55666666666777777778888877777777776554

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.

---

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	276
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	3e-11
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	5e-10
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	6e-10
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	8e-09
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	3e-08
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	4e-10
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	4e-07
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	8e-05
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	2e-04
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	3e-04
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	2e-04
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	4e-04

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 62.5 bits (152), Expect = 3e-11
 Identities = 33/186 (17%), Positives = 73/186 (39%), Gaps = 17/186 (9%)

Query: 40   LEEELEIQHAEIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIG---------EIR 90
            +E+++ I   +  +L  + + L E    +   LA  +E+   +  +           E+R
Sbjct: 988  MEDDILIMEDQNNKLTKERKLLEERVSDLTTNLAEEEEKAKNLTKLKNKHESMISELEVR 1047

Query: 91   AEQEVHVRDLVEKGL-KLEADLRATEP----LKKEAVQLRAEVQKLNNLRNELNGKVQTL 145
             ++E   R  +EK   KLE +          L+ +  +L+A++ K          +++  
Sbjct: 1048 LKKEEKSRQELEKIKRKLEGESSDLHEQIAELQAQIAELKAQLAKKEEELQAALARLEDE 1107

Query: 146  QKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMA 205
                       ++I  L + I  L ++L   +AA +  +K   +L E+ +A++  L    
Sbjct: 1108 TSQKNNAL---KKIRELESHISDLQEDLESEKAARNKAEKQKRDLSEELEALKTELEDTL 1164

Query: 206  REVEKL 211
                  
Sbjct: 1165 DTTATQ 1170

>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 = 59.1 bits (143), Expect = 5e-10
 Identities = 34/177 (19%), Positives = 81/177 (45%), Gaps = 10/177 (5%)

Query: 40   LEEELEIQHAEIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRD 99
            L+ E      +I+++  D   + +    + +E    +E +  +   +    AE+E   ++
Sbjct: 974  LQLEKVTADGKIKKMEDDILIMEDQNNKLTKERKLLEERVSDLTTNL----AEEEEKAKN 1029

Query: 100  LVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQI 159
            L +   K E+ +   E   K+  + R E++K+     +L G+   L + +A+LQA   + 
Sbjct: 1030 LTKLKNKHESMISELEVRLKKEEKSRQELEKIKR---KLEGESSDLHEQIAELQAQIAE- 1085

Query: 160  PLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAELT 216
              L+A++    +EL  A A ++ E       +++ + +E ++  +  ++E  +A   
Sbjct: 1086 --LKAQLAKKEEELQAALARLEDETSQKNNALKKIRELESHISDLQEDLESEKAARN 1140

>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 = 58.7 bits (142), Expect = 6e-10
 Identities = 29/180 (16%), Positives = 67/180 (37%), Gaps = 11/180 (6%)

Query: 40   LEEELEIQHAEIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRD 99
            +E  +E +    Q+L  + +++ +  + ++ +L   +    ++       +   +  ++ 
Sbjct: 932  MEARIEEEEERSQQLQAEKKKMQQQMLDLEEQLEEEEAARQKLQ----LEKVTADGKIKK 987

Query: 100  LVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQI 159
            + +  L +E        L KE   L   V  L     E   K + L K   K ++   ++
Sbjct: 988  MEDDILIMEDQNNK---LTKERKLLEERVSDLTTNLAEEEEKAKNLTKLKNKHESMISEL 1044

Query: 160  PLLRAEIDGLHQELMHARAAVDYEKKANI----ELMEQRQAMEKNLVSMAREVEKLRAEL 215
             +   + +   QEL   +  ++ E         EL  Q   ++  L     E++   A L
Sbjct: 1045 EVRLKKEEKSRQELEKIKRKLEGESSDLHEQIAELQAQIAELKAQLAKKEEELQAALARL 1104

>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 = 55.2 bits (133), Expect = 8e-09
 Identities = 31/183 (16%), Positives = 71/183 (38%), Gaps = 7/183 (3%)

Query: 40   LEEE---LEIQHAEIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVH 96
            L+ E   ++ Q  +++  L +     +     +       +++    L++ +   +    
Sbjct: 946  LQAEKKKMQQQMLDLEEQLEEEEAARQKLQLEKVTADGKIKKMEDDILIMEDQNNKLTKE 1005

Query: 97   VRDLVEKGLKLEADLRATEP----LKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKL 152
             + L E+   L  +L   E     L K   +  + + +L     +     Q L+K   KL
Sbjct: 1006 RKLLEERVSDLTTNLAEEEEKAKNLTKLKNKHESMISELEVRLKKEEKSRQELEKIKRKL 1065

Query: 153  QADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLR 212
            + ++  +    AE+     EL    A  + E +A +  +E   + + N +   RE+E   
Sbjct: 1066 EGESSDLHEQIAELQAQIAELKAQLAKKEEELQAALARLEDETSQKNNALKKIRELESHI 1125

Query: 213  AEL 215
            ++L
Sbjct: 1126 SDL 1128

>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 = 53.7 bits (129), Expect = 3e-08
 Identities = 33/198 (16%), Positives = 76/198 (38%), Gaps = 22/198 (11%)

Query: 42   EELEIQHAEIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLV 101
             +L  +   +Q  L     L  +   M+  LAA K+EL  +   +     E+E   + L 
Sbjct: 888  TQLCEEKNLLQEKLQAETELYAEAEEMRVRLAAKKQELEEILHEMEARIEEEEERSQQLQ 947

Query: 102  EKGLKLEADL-----------RATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLA 150
             +  K++  +            A + L+ E V    +++K+ +    +  +   L K+  
Sbjct: 948  AEKKKMQQQMLDLEEQLEEEEAARQKLQLEKVTADGKIKKMEDDILIMEDQNNKLTKERK 1007

Query: 151  KLQADNQQIPLLRAEIDGLHQELMHARAA-----------VDYEKKANIELMEQRQAMEK 199
             L+     +    AE +   + L   +             +  E+K+  EL + ++ +E 
Sbjct: 1008 LLEERVSDLTTNLAEEEEKAKNLTKLKNKHESMISELEVRLKKEEKSRQELEKIKRKLEG 1067

Query: 200  NLVSMAREVEKLRAELTN 217
                +  ++ +L+A++  
Sbjct: 1068 ESSDLHEQIAELQAQIAE 1085

>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 = 4e-10
 Identities = 30/175 (17%), Positives = 68/175 (38%), Gaps = 20/175 (11%)

Query: 40   LEEELEIQHAEIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRD 99
            LE ++     +I     + + L+E    ++   +   E+L        E     E   ++
Sbjct: 926  LENKIMQLQRKIDEQNKEYKSLLEKMNNLEITYSTETEKLRSDV----ERLRMSEEEAKN 981

Query: 100  LVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQI 159
               + L L+ ++     L+KE  Q + E + +    ++   + + L  +L +        
Sbjct: 982  ATNRVLSLQEEIAK---LRKELHQTQTEKKTIEEWADKYKHETEQLVSELKEQNT----- 1033

Query: 160  PLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAE 214
             LL+ E + L++ +         + K   E ME++   E   + +    E+LR +
Sbjct: 1034 -LLKTEKEELNRRI-------HDQAKEITETMEKKLVEETKQLELDLNDERLRYQ 1080

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus} Length = 1080

 Score = 50.1 bits (120), Expect = 4e-07
 Identities = 34/196 (17%), Positives = 74/196 (37%), Gaps = 21/196 (10%)

Query: 41   EEELEIQHAEIQRLLGDNRRLVEDRMAMQRELAAAK--EELHRMNLVIGE-------IRA 91
            +    ++ A I         LV ++  M      +   ++  R  L           I  
Sbjct: 833  KRYQCMRDATIALQALLRGYLVRNKYQMMLREHKSIIIQKHVRGWLARVHYHRTLKAIVY 892

Query: 92   EQEVHVRDLVEKGL-KLEADLRATEPLKKEAVQLRAEVQKL-------NNLRNELNGKVQ 143
             Q  + R + ++ L KL+ + R+ E  KK  + L  ++ +L       N     L  K+ 
Sbjct: 893  LQCCYRRMMAKRELKKLKIEARSVERYKKLHIGLENKIMQLQRKIDEQNKEYKSLLEKMN 952

Query: 144  TLQKDL----AKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEK 199
             L+        KL++D +++ +   E       ++  +  +   +K   +   +++ +E+
Sbjct: 953  NLEITYSTETEKLRSDVERLRMSEEEAKNATNRVLSLQEEIAKLRKELHQTQTEKKTIEE 1012

Query: 200  NLVSMAREVEKLRAEL 215
                   E E+L +EL
Sbjct: 1013 WADKYKHETEQLVSEL 1028

>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 = 42.9 bits (100), Expect = 8e-05
 Identities = 33/216 (15%), Positives = 71/216 (32%), Gaps = 60/216 (27%)

Query: 36  HPALLEEELEIQHAEIQRLLGDNR---------RLVED--RMAMQRE----LAAAKEELH 80
           H   ++ E      + + +L             + V+D  +  + +E    +  +K+ + 
Sbjct: 3   HHHHMDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVS 62

Query: 81  RMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNG 140
               +   + ++QE  V+  VE+ L++        P+K E  Q     +     R+ L  
Sbjct: 63  GTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLM-SPIKTEQRQPSMMTRMYIEQRDRLYN 121

Query: 141 KVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKN 200
             Q   K           +   R +    + +L          ++A   L+E R    KN
Sbjct: 122 DNQVFAKY---------NVS--RLQ---PYLKL----------RQA---LLELRP--AKN 152

Query: 201 LV----------SMAREVEKLRAE--LTNFDGRP-W 223
           ++           +A +V    +       D +  W
Sbjct: 153 VLIDGVLGSGKTWVALDV--CLSYKVQCKMDFKIFW 186

>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 = 2e-04
 Identities = 18/176 (10%), Positives = 62/176 (35%), Gaps = 3/176 (1%)

Query: 40  LEEELEIQHAEIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRD 99
           +++++++   + +  L        D+ A +      ++EL  +   +     E + +   
Sbjct: 4   IKKKMQMLKLDKENALDRADEAEADKKAAEDRSKQLEDELVSLQKKLKATEDELDKYSEA 63

Query: 100 LVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQI 159
           L +   KLE   +     + +   L   +Q      +    ++ T  + L + +    + 
Sbjct: 64  LKDAQEKLELAEKKATDAEADVASLNRRIQLFEEELDRAQERLATALQKLEEAEKAADE- 122

Query: 160 PLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAEL 215
                 +  +          ++ ++    E     +  ++    +AR++  + ++L
Sbjct: 123 --SERGMKVIESRAQKDEEKMEIQEIQLKEAKHIAEDADRKYEEVARKLVIIESDL 176

>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1 PDB: 2tma_A 2w49_A 2w4u_A Length = 284

 Score = 40.4 bits (94), Expect = 3e-04
 Identities = 19/182 (10%), Positives = 61/182 (33%), Gaps = 3/182 (1%)

Query: 40  LEEELEIQHAEIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRD 99
             E L+    +++           D  ++ R +   +EEL R    +     + E   + 
Sbjct: 60  YSEALKDAQEKLELAEKKATDAEADVASLNRRIQLFEEELDRAQERLATALQKLEEAEKA 119

Query: 100 LVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQI 159
             E    ++      +  +++      ++++  ++  + + K + + + L  +++D ++ 
Sbjct: 120 ADESERGMKVIESRAQKDEEKMEIQEIQLKEAKHIAEDADRKYEEVARKLVIIESDLER- 178

Query: 160 PLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAELTNFD 219
                  +    +       +         L  Q +   +       E++ L  +L   +
Sbjct: 179 --AEERAELSEGKCAELEEEIKTVTNNLKSLEAQAEKYSQKEDKYEEEIKVLSDKLKEAE 236

Query: 220 GR 221
            R
Sbjct: 237 TR 238

>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 = 40.9 bits (95), Expect = 2e-04
 Identities = 21/154 (13%), Positives = 60/154 (38%), Gaps = 1/154 (0%)

Query: 62  VEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRATEPLKKEA 121
               +    E++   +E+  +  +I E R + +  + D   K   +         LK + 
Sbjct: 3   SNTHLKQLIEISHLDKEIDSLEPLIREKRKDLDKALNDKEAKNKAILNLEEEKLALKLQV 62

Query: 122 VQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVD 181
            +    +Q  N     +  K+  + K   +L++ N +  + +   +  ++E+ + +  + 
Sbjct: 63  SKNEQTLQDTNAKIASIQKKMSEI-KSERELRSLNIEEDIAKERSNQANREIENLQNEIK 121

Query: 182 YEKKANIELMEQRQAMEKNLVSMAREVEKLRAEL 215
            + +   +L ++   +EK  + +   VE     +
Sbjct: 122 RKSEKQEDLKKEMLELEKLALELESLVENEVKNI 155

>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 = 40.1 bits (93), Expect = 4e-04
 Identities = 20/185 (10%), Positives = 58/185 (31%), Gaps = 16/185 (8%)

Query: 43  ELEIQHAEIQRLLGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDL-- 100
           E+     EI  L    R   +D      +  A  + +  +      ++ +   + + L  
Sbjct: 12  EISHLDKEIDSLEPLIREKRKDLDKALNDKEAKNKAILNLEEEKLALKLQVSKNEQTLQD 71

Query: 101 -------VEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQ 153
                  ++K +      R    L  E    +    + N     L  +++   +    L+
Sbjct: 72  TNAKIASIQKKMSEIKSERELRSLNIEEDIAKERSNQANREIENLQNEIKRKSEKQEDLK 131

Query: 154 ADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVS-MAREVEKLR 212
            +  +   L      L   + +    +   ++    + ++++ + +     +    E++R
Sbjct: 132 KEMLE---LEKLALELESLVENEVKNIKETQQ---IIFKKKEDLVEKTEPKIYSFYERIR 185

Query: 213 AELTN 217
               N
Sbjct: 186 RWAKN 190

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	276
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	97.01
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	96.98
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	96.93
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	96.69
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	96.32
3ol1_A	119	Vimentin; structural genomics, PSI-2, protein stru	95.84
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	95.67
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	95.65
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	95.58
3o0z_A	168	RHO-associated protein kinase 1; coiled-coil, tran	95.57
3swk_A	86	Vimentin; cytoskeleton, intermediate filament, alp	95.42
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	94.56
2v71_A	189	Nuclear distribution protein NUDE-like 1; developm	94.55
2no2_A	107	HIP-I, huntingtin-interacting protein 1; clathrin	94.55
2fxo_A	129	Myosin heavy chain, cardiac muscle beta isoform; c	94.24
2v71_A	189	Nuclear distribution protein NUDE-like 1; developm	92.82
3ghg_A	562	Fibrinogen alpha chain; triple-stranded coiled coi	92.54
1wt6_A	81	Myotonin-protein kinase; coiled-coil, kinase activ	92.32
3tnu_B	129	Keratin, type II cytoskeletal 5; coiled-coil, stru	92.06
3ol1_A	119	Vimentin; structural genomics, PSI-2, protein stru	91.16
1x79_B	112	RAB GTPase binding effector protein 1; rabaptin5,	91.14
3o0z_A	168	RHO-associated protein kinase 1; coiled-coil, tran	91.09
3tnu_A	131	Keratin, type I cytoskeletal 14; coiled-coil, stru	91.09
2v4h_A	110	NF-kappa-B essential modulator; transcription, met	90.8
3swk_A	86	Vimentin; cytoskeleton, intermediate filament, alp	90.28
3iox_A	497	AGI/II, PA; alpha helix, PPII helix, supersandwich	89.93
3plt_A	234	Sphingolipid long chain base-responsive protein L;	89.38
1x79_B	112	RAB GTPase binding effector protein 1; rabaptin5,	89.08
2w6b_A	56	RHO guanine nucleotide exchange factor 7; X-RAY cr	88.88
2xnx_M	146	M protein, M1-BC1; cell adhesion, virulence factor	88.32
3hnw_A	138	Uncharacterized protein; coiled-coil, structural g	88.31
1deq_A	390	Fibrinogen (alpha chain); coiled-coil, blood clott	88.3
1l8d_A	112	DNA double-strand break repair RAD50 ATPase; zinc	88.2
3ghg_A	562	Fibrinogen alpha chain; triple-stranded coiled coi	88.0
1m1j_B	464	Fibrinogen beta chain; coiled coils, disulfide rin	87.61
2fxo_A	129	Myosin heavy chain, cardiac muscle beta isoform; c	87.6
2w83_C	77	C-JUN-amino-terminal kinase-interacting protein 4;	87.4
3mq9_A	471	Bone marrow stromal antigen 2 fused to maltose-BI	86.92
2v4h_A	110	NF-kappa-B essential modulator; transcription, met	86.53
4dzn_A	33	Coiled-coil peptide CC-PIL; de novo protein; HET:	86.47
3jsv_C	94	NF-kappa-B essential modulator; ubiquitin, coiled-	86.46
1jcd_A	52	Major outer membrane lipoprotein; protein folding,	86.13
2ocy_A	154	RAB guanine nucleotide exchange factor SEC2; RAB,	85.89
3i00_A	120	HIP-I, huntingtin-interacting protein 1; transcrip	85.84
3a7p_A	152	Autophagy protein 16; coiled-coil, coiled coil, cy	85.39
1deq_A	390	Fibrinogen (alpha chain); coiled-coil, blood clott	85.36
3tnu_A	131	Keratin, type I cytoskeletal 14; coiled-coil, stru	85.12
3tnu_B	129	Keratin, type II cytoskeletal 5; coiled-coil, stru	85.1
3i00_A	120	HIP-I, huntingtin-interacting protein 1; transcrip	85.05
3lay_A	175	Zinc resistance-associated protein; salmonella typ	84.68
1gk4_A	84	Vimentin; intermediate filament, dimer, parallel c	84.64
3bas_A	89	Myosin heavy chain, striated muscle/general contro	84.35
1use_A	45	VAsp, vasodilator-stimulated phosphoprotein; signa	84.34
3s4r_A	93	Vimentin; alpha-helix, cytoskeleton, intermediate	84.1
4dk0_A	369	Putative MACA; alpha-hairpin, lipoyl, beta-barrel,	83.65
2d1l_A	253	Metastasis suppressor protein 1; IRSP53, actin bin	82.93
2jee_A	81	YIIU; FTSZ, septum, coiled-coil, cell division, ce	82.43
4e61_A	106	Protein BIM1; EB1-like motif, coiled-coil, spindle	81.93
3s9g_A	104	Protein hexim1; cyclin T-binding domain (TBD), cyc	80.99
2efk_A	301	CDC42-interacting protein 4; EFC domain, structura	80.63
3jsv_C	94	NF-kappa-B essential modulator; ubiquitin, coiled-	80.51
3fpp_A	341	Macrolide-specific efflux protein MACA; hexameric	80.43

>3na7_A HP0958; flagellar biogenesis, flagellum export, C4 Zn-ribbon, coiled post-transcriptional, gene regulation, chaperone; HET: EPE; 2.20A {Helicobacter pylori}

Probab=97.01  E-value=0.12  Score=46.05  Aligned_cols=118  Identities=14%  Similarity=0.155  Sum_probs=68.7

Q ss_pred             chhhHHHHHHHHHHHHHHHHHHHHHHHHhhhh---HHHHHHHHHHhhhhhhhhhhhchhhHHHHHHHHHHHHHHHHHHHH
Q 039268           61 LVEDRMAMQRELAAAKEELHRMNLVIGEIRAE---QEVHVRDLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNE  137 (276)
Q Consensus        61 LaatHvaLrqeLaaaq~Elqrl~~~~~~i~ae---~e~q~R~l~ek~~KmEAelra~e~lk~El~q~raE~q~L~~~Rqe  137 (276)
                      |...-..|..+++..+..+..+...+.+++.+   .+..+..+-.++.+.+..+-++-.-| |+..+..|+..+....+.
T Consensus        30 lp~el~~le~~~~~l~~~~~~~~~~l~d~~~~~~~~e~~i~~~~~ri~~~~~~l~~v~~~k-E~~aL~kEie~~~~~i~~  108 (256)
T 3na7_A           30 KRKDLDKALNDKEAKNKAILNLEEEKLALKLQVSKNEQTLQDTNAKIASIQKKMSEIKSER-ELRSLNIEEDIAKERSNQ  108 (256)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCSSSS-HHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCCHH-HHHHHHHHHHHHHHHHHH
Confidence            44555555555555555555555555555444   45777788888888888776665444 666666666666666666


Q ss_pred             HHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhh
Q 039268          138 LNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDY  182 (276)
Q Consensus       138 L~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~Ey  182 (276)
                      |..++..++..+...+.++   ..+.++++.++.++...++.++-
T Consensus       109 lE~eile~~e~ie~~~~~l---~~~~~~l~~~~~~l~~~~~~~~~  150 (256)
T 3na7_A          109 ANREIENLQNEIKRKSEKQ---EDLKKEMLELEKLALELESLVEN  150 (256)
T ss_dssp             HHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHH
Confidence            6666666666655544432   23334445555555544444443

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus}

Probab=96.98  E-value=0.019  Score=61.18  Aligned_cols=123  Identities=11%  Similarity=0.106  Sum_probs=44.5

Q ss_pred             ccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhhhhhhhchhhHHHHHHHHHHHHHHHHH
Q 039268           55 LGDNRRLVEDRMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNL  134 (276)
Q Consensus        55 l~dNqRLaatHvaLrqeLaaaq~Elqrl~~~~~~i~ae~e~q~R~l~ek~~KmEAelra~e~lk~El~q~raE~q~L~~~  134 (276)
                      ...|..|-..-..|++.|.....+...|...+..++...+.++-+|       +.++...+...+|+.++...+..|...
T Consensus       920 ~~~~~~LE~kl~eLq~rL~~~e~~n~~L~~~~~~~~~~~~~e~~~L-------~~~l~~le~~~~e~~~~~~~v~~L~~e  992 (1080)
T 2dfs_A          920 KKLHIGLENKIMQLQRKIDEQNKEYKSLLEKMNNLEITYSTETEKL-------RSDVERLRMSEEEAKNATNRVLSLQEE  992 (1080)
T ss_dssp             -------------------------------CHHHHHHHHHHHHHH-------HHTHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444444444555554444444444444443433333444444       333333333444555555555555555


Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhcch-hHHHHHHHHHHHHHHHHHhhhhhHH
Q 039268          135 RNELNGKVQTLQKDLAKLQADNQQI-PLLRAEIDGLHQELMHARAAVDYEK  184 (276)
Q Consensus       135 RqeL~~qvq~l~~eL~r~~ad~qqi-pal~aEie~lrqElqr~Raa~EyEK  184 (276)
                      -.+|..+++.+.+|...++...+++ -.|...+..|..|.+.+|..++.-.
T Consensus       993 ~~~l~~~~~~~~ke~~~lee~~~~~~~~L~~kv~~L~~e~~~L~qq~~~l~ 1043 (1080)
T 2dfs_A          993 IAKLRKELHQTQTEKKTIEEWADKYKHETEQLVSELKEQNTLLKTEKEELN 1043 (1080)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5555555555555544444433332 2444556667777777766655433

>3na7_A HP0958; flagellar biogenesis, flagellum export, C4 Zn-ribbon, coiled post-transcriptional, gene regulation, chaperone; HET: EPE; 2.20A {Helicobacter pylori}

Probab=96.93  E-value=0.083  Score=47.04  Aligned_cols=22  Identities=18%  Similarity=0.134  Sum_probs=9.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q 039268           66 MAMQRELAAAKEELHRMNLVIG   87 (276)
Q Consensus        66 vaLrqeLaaaq~Elqrl~~~~~   87 (276)
                      ..|..+|...+.++..+...+.
T Consensus        28 ~~lp~el~~le~~~~~l~~~~~   49 (256)
T 3na7_A           28 REKRKDLDKALNDKEAKNKAIL   49 (256)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444444444444

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=96.69  E-value=0.04  Score=52.98  Aligned_cols=29  Identities=21%  Similarity=0.270  Sum_probs=14.9

Q ss_pred             HHHHHHHHHHHHHHHHHhhhhhHHhhhHH
Q 039268          161 LLRAEIDGLHQELMHARAAVDYEKKANIE  189 (276)
Q Consensus       161 al~aEie~lrqElqr~Raa~EyEKk~~~e  189 (276)
                      +.+.+++.+++|..+.+..++..|+.-.+
T Consensus       534 ~~~~~~~~~~~~~~~le~~~~~~~~~~~~  562 (597)
T 3oja_B          534 AKQKETEDLEQENIALEKQLDNKRAKQAE  562 (597)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhcchhhHHhhhHHHHHHHhhhhhHHHH
Confidence            34455555555555555555554444433

>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=96.32  E-value=0.017  Score=61.44  Aligned_cols=82  Identities=17%  Similarity=0.194  Sum_probs=39.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhhhhhhhchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039268           67 AMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQ  146 (276)
Q Consensus        67 aLrqeLaaaq~Elqrl~~~~~~i~ae~e~q~R~l~ek~~KmEAelra~e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~  146 (276)
                      .|+++|...+..+..+...+.    +-+.++..|-+...+++.++.   ..+.++..+..++..|....++|..+++.+.
T Consensus       861 ~L~~eL~el~~~L~~le~~l~----ele~~l~~Le~e~~~l~~~L~---~e~~~l~~~e~~l~~l~~~~~~Le~~l~ele  933 (1184)
T 1i84_S          861 AKDEELQRTKERQQKAEAELK----ELEQKHTQLCEEKNLLQEKLQ---AETELYAEAEEMRVRLAAKKQELEEILHEME  933 (1184)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHT---THHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344555555555544443332    333344444444444444333   2334444455555555555556666666555


Q ss_pred             HHHHHHHhh
Q 039268          147 KDLAKLQAD  155 (276)
Q Consensus       147 ~eL~r~~ad  155 (276)
                      .++.....+
T Consensus       934 ~elee~ee~  942 (1184)
T 1i84_S          934 ARIEEEEER  942 (1184)
T ss_dssp             HHHHHHHHC
T ss_pred             HHHHHHHHH
Confidence            555444443

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus}

Probab=95.67  E-value=0.28  Score=52.31  Aligned_cols=58  Identities=16%  Similarity=0.235  Sum_probs=29.6

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhh
Q 039268          117 LKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAV  180 (276)
Q Consensus       117 lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~  180 (276)
                      +..|+..++.+++++.....+|..+.+.+..+|+      +++..|..|...|+|++..+-.-+
T Consensus       989 L~~e~~~l~~~~~~~~ke~~~lee~~~~~~~~L~------~kv~~L~~e~~~L~qq~~~l~~~~ 1046 (1080)
T 2dfs_A          989 LQEEIAKLRKELHQTQTEKKTIEEWADKYKHETE------QLVSELKEQNTLLKTEKEELNRRI 1046 (1080)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344555555555555555555555555544443      344555555555555555555433

>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=95.65  E-value=0.18  Score=48.41  Aligned_cols=49  Identities=14%  Similarity=0.162  Sum_probs=25.4

Q ss_pred             HHHHHHHHhhhhhHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Q 039268          170 HQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAELTNF  218 (276)
Q Consensus       170 rqElqr~Raa~EyEKk~~~e~~Eq~qaMEknlisMarEvEKLRaElana  218 (276)
                      +++++.-...++..++-..++-.+.+.|.+.+..+.+|+.++++||...
T Consensus       529 ~~~~~~~~~~~~~~~~~~~~le~~~~~~~~~~~~l~~e~~~~~~~~~~l  577 (597)
T 3oja_B          529 RTEADAKQKETEDLEQENIALEKQLDNKRAKQAELRQETSLKRQKVKQL  577 (597)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhhhhhhcchhhHHhhhHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHH
Confidence            3333333333344444444555555566666666666666666665544

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=95.58  E-value=0.43  Score=56.35  Aligned_cols=60  Identities=17%  Similarity=0.263  Sum_probs=37.8

Q ss_pred             HHHHHHHHHHHHHHHHhhhhhHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCC
Q 039268          162 LRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAELTNFDGR  221 (276)
Q Consensus       162 l~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~qaMEknlisMarEvEKLRaElanae~r  221 (276)
                      +++++..+..++..+.+....=++.=.+.-+.++.++.++-...+|.++|..|+..++++
T Consensus      2012 kr~~l~~ae~~l~~~~~~L~~~~~~L~~le~~l~~L~~~~~~~~~ek~~L~~e~~~~~~k 2071 (3245)
T 3vkg_A         2012 LREEVEQLENAANELKLKQDEIVATITALEKSIATYKEEYATLIRETEQIKTESSKVKNK 2071 (3245)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            566666666666666666555444455555666666666777777777777666665544

>3o0z_A RHO-associated protein kinase 1; coiled-coil, transferase; HET: MSE; 2.33A {Homo sapiens}

Probab=95.57  E-value=0.52  Score=40.75  Aligned_cols=64  Identities=22%  Similarity=0.324  Sum_probs=38.5

Q ss_pred             HhhhhHHHHHHHHHHhhhhhhhhhhhchhhHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHh
Q 039268           88 EIRAEQEVHVRDLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLN-------NLRNELNGKVQTLQKDLAKLQA  154 (276)
Q Consensus        88 ~i~ae~e~q~R~l~ek~~KmEAelra~e~lk~El~q~raE~q~L~-------~~RqeL~~qvq~l~~eL~r~~a  154 (276)
                      ...+-.|..+|+|-+++..|++   ..+.|.+|+.++++.+..=-       ..-.||.+++++|..||.+...
T Consensus        41 k~~~~~E~~~rELq~~~~~L~~---~k~~Leke~~~LQa~L~qEr~~r~q~se~~~elq~ri~~L~~El~~~k~  111 (168)
T 3o0z_A           41 KSISQLESLNRELQERNRILEN---SKSQTDKDYYQLQAILEAERRDRGHDSEMIGDLQARITSLQEEVKHLKH  111 (168)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3335566777888888888887   66677777776666433211       1124555566666666555443

>3swk_A Vimentin; cytoskeleton, intermediate filament, alpha-helix, structural; 1.70A {Homo sapiens}

Probab=95.42  E-value=0.11  Score=40.08  Aligned_cols=79  Identities=19%  Similarity=0.298  Sum_probs=60.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhhhhhhhchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039268           67 AMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQ  146 (276)
Q Consensus        67 aLrqeLaaaq~Elqrl~~~~~~i~ae~e~q~R~l~ek~~KmEAelra~e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~  146 (276)
                      -||+.|..+..|-.+|...+..++..-|       +=-.|.|.|+..+..+..|+.-++-++..+.-.|-+|-++|++|+
T Consensus         4 eLr~qi~~l~~e~~~l~~e~dn~~~~~e-------dfk~KyE~E~~~R~~~E~d~~~LrkdvD~a~l~r~dLE~kvesL~   76 (86)
T 3swk_A            4 ELRRQVDQLTNDKARVEVERDNLAEDIM-------RLREKLQEEMLQREEAENTLQSFRQDVDNASLARLDLERKVESLQ   76 (86)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHH
Confidence            3566666666666555555554433322       234588999999999999999999999999999999999999999


Q ss_pred             HHHHHH
Q 039268          147 KDLAKL  152 (276)
Q Consensus       147 ~eL~r~  152 (276)
                      .||.=+
T Consensus        77 eEl~fL   82 (86)
T 3swk_A           77 EEIAFL   82 (86)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            997644

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=94.56  E-value=4.1  Score=48.41  Aligned_cols=43  Identities=23%  Similarity=0.238  Sum_probs=22.2

Q ss_pred             hhhHHHHHHHHHHHhhhccccccchhhH---HHHHHHHHHHHHHHH
Q 039268           38 ALLEEELEIQHAEIQRLLGDNRRLVEDR---MAMQRELAAAKEELH   80 (276)
Q Consensus        38 ~~LEe~l~~Q~~EiqrLl~dNqRLaatH---vaLrqeLaaaq~Elq   80 (276)
                      .+|.+|...-...+.||-..=..|..|.   ..|+.+|+..+.+|.
T Consensus      1906 ~ll~~K~~el~~~~~rl~~GL~KL~et~~~V~~l~~~L~~~~~~L~ 1951 (3245)
T 3vkg_A         1906 LLINEKRDQLEEEQLHLNIGLKKLRDTEAQVKDLQVSLAQKNRELD 1951 (3245)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3455555555555666655555565554   334444444444443

>2v71_A Nuclear distribution protein NUDE-like 1; developmental protein, nuclear protein, neurogenesis, cytosk LIS1 binding, differentiation; 2.24A {Rattus norvegicus}

Probab=94.55  E-value=2.2  Score=37.37  Aligned_cols=93  Identities=24%  Similarity=0.303  Sum_probs=57.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhhhhhhhchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039268           68 MQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQK  147 (276)
Q Consensus        68 LrqeLaaaq~Elqrl~~~~~~i~ae~e~q~R~l~ek~~KmEAelra~e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~  147 (276)
                      +++.+..++.|+.-+...-..+.+|-|.++-.+=.+...|..   ...-++.|+..++.   ++.....+...++..|..
T Consensus        22 ~~q~~~~le~El~EFqesSrELE~ELE~eL~~~Ek~~~~L~~---~~~~L~~E~e~~k~---K~~~~~~e~~~~~~~Lq~   95 (189)
T 2v71_A           22 YKQSFQEARDELVEFQEGSRELEAELEAQLVQAEQRNRDLQA---DNQRLKYEVEALKE---KLEHQYAQSYKQVSVLED   95 (189)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHH
Confidence            467777788888777777777777777666665555555555   34445555555555   445555566666666666


Q ss_pred             HHHHHHhhhcchhHHHHHH
Q 039268          148 DLAKLQADNQQIPLLRAEI  166 (276)
Q Consensus       148 eL~r~~ad~qqipal~aEi  166 (276)
                      |+..++..+.++-.=..+|
T Consensus        96 el~~l~~~~~~l~~~ireL  114 (189)
T 2v71_A           96 DLSQTRAIKEQLHKYVREL  114 (189)
T ss_dssp             HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            6666665554444444444

>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=94.55  E-value=0.84  Score=36.45  Aligned_cols=78  Identities=14%  Similarity=0.217  Sum_probs=60.0

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHHhhhHHHHHHH
Q 039268          117 LKKEAVQLRAEVQKLNNLRNELNGKVQTLQKD-LAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQR  194 (276)
Q Consensus       117 lk~El~q~raE~q~L~~~RqeL~~qvq~l~~e-L~r~~ad~qqipal~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~  194 (276)
                      +-+.|-..+.....+...+++|..+++.+..+ ..+++..+.+|-.|+.||+.=..|++++..+++--...+..+..+.
T Consensus        13 ~~KqL~~~~q~~~e~e~~k~eL~~~~~~~~~~~~~k~~eq~~~le~lk~eL~~~~~el~~lq~~l~~~~~~~~~l~~~~   91 (107)
T 2no2_A           13 VTKQVSMARQAQVDLEREKKELEDSLERISDQGQRKTQEQLEVLESLKQELATSQRELQVLQGSLETSAQSEANWAAEF   91 (107)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34466666666667777888888888887755 6678888999999999999999999998887766666666665555

>2fxo_A Myosin heavy chain, cardiac muscle beta isoform; coiled coil (dimeric, parallel), familial hypertrophic cardiomyopathy, FHC-associated mutant E924K; 2.50A {Homo sapiens} SCOP: h.1.26.1 PDB: 2fxm_A

Probab=94.24  E-value=1.8  Score=35.03  Aligned_cols=111  Identities=21%  Similarity=0.314  Sum_probs=58.5

Q ss_pred             HHHHHHHHhhhhhhhhhhhchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHH
Q 039268           95 VHVRDLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELM  174 (276)
Q Consensus        95 ~q~R~l~ek~~KmEAelra~e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElq  174 (276)
                      -+|+.+-+.+.+|...+...+..+.||..   ...+|...+..|..++++-+.-++-+.--...+-.-+.+++.--.|  
T Consensus        13 ~E~~~~~eel~~lke~l~k~e~~r~ele~---~~~~l~~Ek~~L~~qL~~E~~~l~e~EE~~~~L~~~k~eLe~~l~e--   87 (129)
T 2fxo_A           13 KEMASMKEEFTRLKEALEKSEARRKELEE---KMVSLLQEKNDLQLQVQAEQDNLADAEERCDQLIKNKIQLEAKVKE--   87 (129)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH--
Confidence            33444444444554444444444444432   2234555555555555554444444444344444444444433333  


Q ss_pred             HHHhhhhhHHhhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 039268          175 HARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKL  211 (276)
Q Consensus       175 r~Raa~EyEKk~~~e~~Eq~qaMEknlisMarEvEKL  211 (276)
                       +..-++.+...+.++....+-|+.++-.+-.+++-|
T Consensus        88 -l~~rleeeee~~~~L~~~kkkle~e~~~Lk~~led~  123 (129)
T 2fxo_A           88 -MNKRLEDEEEMNAELTAKKRKLEDECSELKRDIDDL  123 (129)
T ss_dssp             -HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             -HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence             346667777777777777777777776666666654

>2v71_A Nuclear distribution protein NUDE-like 1; developmental protein, nuclear protein, neurogenesis, cytosk LIS1 binding, differentiation; 2.24A {Rattus norvegicus}

Probab=92.82  E-value=1.4  Score=38.61  Aligned_cols=38  Identities=24%  Similarity=0.275  Sum_probs=20.5

Q ss_pred             HHHHHHHHHHHhhhccccccchhhHHHHHHHHHHHHHH
Q 039268           41 EEELEIQHAEIQRLLGDNRRLVEDRMAMQRELAAAKEE   78 (276)
Q Consensus        41 Ee~l~~Q~~EiqrLl~dNqRLaatHvaLrqeLaaaq~E   78 (276)
                      |..|..-..-+..|-..|.+|......+|..+..++.|
T Consensus        48 E~eL~~~Ek~~~~L~~~~~~L~~E~e~~k~K~~~~~~e   85 (189)
T 2v71_A           48 EAQLVQAEQRNRDLQADNQRLKYEVEALKEKLEHQYAQ   85 (189)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333334445555566666666666665555555555

>3ghg_A Fibrinogen alpha chain; triple-stranded coiled coil, beta sheets, alpha helices, AMY amyloidosis, blood coagulation, disease mutation, glycoprot phosphoprotein; HET: NAG NDG BMA MAN GAL SIA; 2.90A {Homo sapiens} PDB: 3h32_A* 2a45_G*

Probab=92.54  E-value=0.72  Score=46.21  Aligned_cols=64  Identities=16%  Similarity=0.310  Sum_probs=31.0

Q ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhh
Q 039268          115 EPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVD  181 (276)
Q Consensus       115 e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~E  181 (276)
                      +.|+..+.|..-.-.....+-+||.-+++.|..+   +...+++|-+|+.=|+.++.+|||+=.+|+
T Consensus        92 E~Lr~rq~q~~dNdNtynE~S~ELRRrIqyLKek---VdnQlsnIrvLQsnLedq~~kIQRLEvDId  155 (562)
T 3ghg_A           92 EILRGDFSSANNRDNTYNRVSEDLRSRIEVLKRK---VIEKVQHIQLLQKNVRAQLVDMKRLEVDID  155 (562)
T ss_dssp             HTTSSHHHHHHHHHHHHHHTTHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhccchhHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444422222233333555555555554   333345666666666666666666555543

>1wt6_A Myotonin-protein kinase; coiled-coil, kinase activation, DMPK, molecular replacement, transferase; 1.60A {Homo sapiens}

Probab=92.32  E-value=0.52  Score=36.46  Aligned_cols=44  Identities=18%  Similarity=0.301  Sum_probs=32.4

Q ss_pred             hhhhhhhhhchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039268          105 LKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKD  148 (276)
Q Consensus       105 ~KmEAelra~e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~e  148 (276)
                      --|++||++-..+..||-+++++.+.+..--+|--.+-+.+..|
T Consensus        17 SALeaEIqAKQ~i~EELs~vr~~ni~~eskL~eae~rn~eL~~e   60 (81)
T 1wt6_A           17 EALEEEVLTRQSLSREMEAIRTDNQNFASQLREAEARNRDLEAH   60 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            36899999999999999999998888766555444444444333

>3tnu_B Keratin, type II cytoskeletal 5; coiled-coil, structural support, cytosolic protein; 3.00A {Homo sapiens}

Probab=92.06  E-value=1.9  Score=34.71  Aligned_cols=23  Identities=39%  Similarity=0.590  Sum_probs=11.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhh
Q 039268           70 RELAAAKEELHRMNLVIGEIRAE   92 (276)
Q Consensus        70 qeLaaaq~Elqrl~~~~~~i~ae   92 (276)
                      .+|..++.||..|+..+..++.|
T Consensus        29 ~~l~~~k~Ei~elrr~iq~L~~e   51 (129)
T 3tnu_B           29 DDLRNTKHEISEMNRMIQRLRAE   51 (129)
T ss_dssp             -----CHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            45556666666666666644444

>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=91.14  E-value=2.4  Score=34.39  Aligned_cols=86  Identities=19%  Similarity=0.224  Sum_probs=51.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhhhhhhhchhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039268           65 RMAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQT  144 (276)
Q Consensus        65 HvaLrqeLaaaq~Elqrl~~~~~~i~ae~e~q~R~l~ek~~KmEAelra~e~lk~El~q~raE~q~L~~~RqeL~~qvq~  144 (276)
                      =+-|+.+|.....|-..|......-+.|.-.||-+|.+++..-|..|.   .|++-..|++.+++.   .-+.|+..-..
T Consensus        15 ~~ql~~qL~k~~~~r~~Le~~w~~k~E~~k~qV~~L~~~~q~sE~~L~---~Lqq~fsq~q~~vq~---qL~~Lt~~Re~   88 (112)
T 1x79_B           15 LRQANDQLEKTMKDKQELEDFIKQSSEDSSHQISALVLRAQASEILLE---ELQQGLSQAKRDVQE---QMAVLMQSREQ   88 (112)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHH---HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHH---HHHHHHHHHHH
Confidence            356777788887777777777888888889999999999999998443   355555555554443   12223333333


Q ss_pred             HHHHHHHHHhhh
Q 039268          145 LQKDLAKLQADN  156 (276)
Q Consensus       145 l~~eL~r~~ad~  156 (276)
                      +..+|.+++.||
T Consensus        89 V~~eL~rLQ~eN  100 (112)
T 1x79_B           89 VSEELVRLQKDN  100 (112)
T ss_dssp             HHTC--------
T ss_pred             HHHHHHHHHhhc
Confidence            334444555444

>3o0z_A RHO-associated protein kinase 1; coiled-coil, transferase; HET: MSE; 2.33A {Homo sapiens}

Probab=91.09  E-value=7  Score=33.73  Aligned_cols=117  Identities=15%  Similarity=0.162  Sum_probs=84.8

Q ss_pred             HHHHHhhhhHHHHHHHHHHhhhhhhhhhhhc-hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHH
Q 039268           84 LVIGEIRAEQEVHVRDLVEKGLKLEADLRAT-EPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLL  162 (276)
Q Consensus        84 ~~~~~i~ae~e~q~R~l~ek~~KmEAelra~-e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal  162 (276)
                      -....+++|.|.     ..|..|.-+|++.. -.+..-+.-++.=+..|...|.+|-.++..|...|..-+.+-.+...+
T Consensus        17 E~n~kLk~EsE~-----~~rlkK~~tEl~k~~~~~E~~~rELq~~~~~L~~~k~~Leke~~~LQa~L~qEr~~r~q~se~   91 (168)
T 3o0z_A           17 EANDLLRTESDT-----AVRLRKSHTEMSKSISQLESLNRELQERNRILENSKSQTDKDYYQLQAILEAERRDRGHDSEM   91 (168)
T ss_dssp             HHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345677888775     45667888887743 344444444455566788888888888888888888888888887777


Q ss_pred             HHHH----HHHHHHHHHHHhhhhhHHhhhHHHHHHHHHHHHHHHHHH
Q 039268          163 RAEI----DGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMA  205 (276)
Q Consensus       163 ~aEi----e~lrqElqr~Raa~EyEKk~~~e~~Eq~qaMEknlisMa  205 (276)
                      .+|+    .+|..|+.+.+....-=...+-.+.|.+-.+||--.+|-
T Consensus        92 ~~elq~ri~~L~~El~~~k~~~~k~~~e~r~L~Ekl~~lEKe~a~~e  138 (168)
T 3o0z_A           92 IGDLQARITSLQEEVKHLKHNLEKVEGERKEAQDMLNHSEKEKNNLE  138 (168)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            7765    789999999998776666666777777777887665554

>3tnu_A Keratin, type I cytoskeletal 14; coiled-coil, structural support, cytosolic protein; 3.00A {Homo sapiens}

Probab=91.09  E-value=2.5  Score=34.19  Aligned_cols=24  Identities=13%  Similarity=0.259  Sum_probs=8.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhhH
Q 039268           70 RELAAAKEELHRMNLVIGEIRAEQ   93 (276)
Q Consensus        70 qeLaaaq~Elqrl~~~~~~i~ae~   93 (276)
                      .+|..++.||..|+..+..+++|-
T Consensus        31 ~~l~~~k~Ei~elrr~iq~L~~el   54 (131)
T 3tnu_A           31 ELVQSGKSEISELRRTMQNLEIEL   54 (131)
T ss_dssp             ----------CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            456666777777776666554443

>2v4h_A NF-kappa-B essential modulator; transcription, metal-binding, NEMO - IKK gamma - NFKB pathwa darpin, transcription regulation; 2.9A {Mus musculus}

Probab=90.80  E-value=3.7  Score=33.30  Aligned_cols=81  Identities=23%  Similarity=0.304  Sum_probs=45.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhhhhhhhchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039268           67 AMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQ  146 (276)
Q Consensus        67 aLrqeLaaaq~Elqrl~~~~~~i~ae~e~q~R~l~ek~~KmEAelra~e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~  146 (276)
                      -|+..|..|+.=|.-....|..++.|           +.++++++-.+.-|++-+.--+.|-..=-+.|..+.++.+.|.
T Consensus        28 ~L~~~L~~AEeaL~~Kq~~idelk~e-----------i~q~~~~lE~I~vLkaQv~IY~~DF~aERadREkl~~eKe~L~   96 (110)
T 2v4h_A           28 DLRQQLQQAEEALVAKQELIDKLKEE-----------AEQHKIVMETVPVLKAQADIYKADFQAERHAREKLVEKKEYLQ   96 (110)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHccchhhHHHHHhHHHHHH
Confidence            35566666665555555555555543           2334555545555555555555555555566666666666666


Q ss_pred             HHHHHHHhhhcc
Q 039268          147 KDLAKLQADNQQ  158 (276)
Q Consensus       147 ~eL~r~~ad~qq  158 (276)
                      .+|..++..+++
T Consensus        97 ~ql~~Lq~q~~~  108 (110)
T 2v4h_A           97 EQLEQLQREFNK  108 (110)
T ss_dssp             HHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHh
Confidence            666666655543

>3swk_A Vimentin; cytoskeleton, intermediate filament, alpha-helix, structural; 1.70A {Homo sapiens}

Probab=90.28  E-value=3.6  Score=31.40  Aligned_cols=44  Identities=30%  Similarity=0.417  Sum_probs=30.2

Q ss_pred             HHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHHhhhHH
Q 039268          136 NELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIE  189 (276)
Q Consensus       136 qeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~EyEKk~~~e  189 (276)
                      .+|..|+..++.|-+++.          .|||+++..+...|.-||.|-..+.+
T Consensus         3 ~eLr~qi~~l~~e~~~l~----------~e~dn~~~~~edfk~KyE~E~~~R~~   46 (86)
T 3swk_A            3 RELRRQVDQLTNDKARVE----------VERDNLAEDIMRLREKLQEEMLQREE   46 (86)
T ss_dssp             HHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            467777777777766555          67788777777777777766555443

>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=89.93  E-value=6.1  Score=39.22  Aligned_cols=58  Identities=24%  Similarity=0.248  Sum_probs=45.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhhhhhhhchhhHHHHHHHHH
Q 039268           66 MAMQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRATEPLKKEAVQLRA  126 (276)
Q Consensus        66 vaLrqeLaaaq~Elqrl~~~~~~i~ae~e~q~R~l~ek~~KmEAelra~e~lk~El~q~ra  126 (276)
                      ..-+-+|++-|.||-|+....++++++-|.-+.+.-.+.+.++|   ..+++|+.=.++.+
T Consensus         5 a~yq~~la~yq~elarvqkana~aka~Ye~~~ae~~a~n~~i~a---eNeaikkrNa~aka   62 (497)
T 3iox_A            5 ADYQAKLTAYQTELARVQKANADAKAAYEAAVAANNAANAALTA---ENTAIKKRNADAKA   62 (497)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHH---HHHHHHHHHHHHHH
Confidence            34567899999999999999999999999999999888888888   44445544443333

>3plt_A Sphingolipid long chain base-responsive protein L; eisosomes, LSP1, PIL1, BAR domain, plasma membrane, SELF-ASS phosphoprotein; 2.90A {Saccharomyces cerevisiae}

Probab=89.38  E-value=9.7  Score=34.38  Aligned_cols=94  Identities=18%  Similarity=0.269  Sum_probs=64.9

Q ss_pred             hHHHHHHHHHHhhhhhhhhhhhchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHH
Q 039268           92 EQEVHVRDLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQ  171 (276)
Q Consensus        92 e~e~q~R~l~ek~~KmEAelra~e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrq  171 (276)
                      .+--++|..+..+...|.   ++.+.|.--..+..+|++|..-. =-+.++..+.+||.|+.+++   -.--+.|.++..
T Consensus        87 ~~~d~yR~~LK~IR~~E~---svqp~R~~R~~l~~~I~kLk~k~-P~s~kl~~LeqELvraEae~---lvaEAqL~n~kR  159 (234)
T 3plt_A           87 DKYDQYRVTLKSIRNIEA---SVQPSRDRKEKITDEIAHLKYKD-PQSTKIPVLEQELVRAEAES---LVAEAQLSNITR  159 (234)
T ss_dssp             HHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHHHHH---HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHH---HhhHHHHHHHHHHHHHHHHhccC-CCCchHHHHHHHHHHHHHHh---hHHHHHHHHhHH
Confidence            445678888888888887   66677777777788888876432 33567788888888888776   233356666666


Q ss_pred             HHHHHHhhhhhHHhhhHHHHHHH
Q 039268          172 ELMHARAAVDYEKKANIELMEQR  194 (276)
Q Consensus       172 Elqr~Raa~EyEKk~~~e~~Eq~  194 (276)
                        +.+|.+|.+.=.+-.|.-|.+
T Consensus       160 --~~lKEa~~~~f~Al~E~aEK~  180 (234)
T 3plt_A          160 --EKLKAAYSYMFDSLRELSEKF  180 (234)
T ss_dssp             --HHHHHHHHHHHHHHHHHHHHH
T ss_pred             --HHHHHHHHHHHHHHHHHHHHH
Confidence              456777777766666665543

>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=89.08  E-value=5.5  Score=32.29  Aligned_cols=95  Identities=16%  Similarity=0.184  Sum_probs=64.0

Q ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHHhhhHHHHHHH
Q 039268          115 EPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQR  194 (276)
Q Consensus       115 e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~  194 (276)
                      +.|-.++.|++-++.++...|++|....+.-+.|      -..||..|..-+++-.+.|.-+|.+|.--|   .+-.+|+
T Consensus         9 ~~lq~~~~ql~~qL~k~~~~r~~Le~~w~~k~E~------~k~qV~~L~~~~q~sE~~L~~Lqq~fsq~q---~~vq~qL   79 (112)
T 1x79_B            9 KKLQLMLRQANDQLEKTMKDKQELEDFIKQSSED------SSHQISALVLRAQASEILLEELQQGLSQAK---RDVQEQM   79 (112)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHH
Confidence            5577788999999999999999999987665555      234567777778888888888888876544   4456677


Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhc
Q 039268          195 QAMEKNLVSMAREVEKLRAELTNF  218 (276)
Q Consensus       195 qaMEknlisMarEvEKLRaElana  218 (276)
                      +..-..--.+..|+.+|.+|=.+-
T Consensus        80 ~~Lt~~Re~V~~eL~rLQ~eNd~L  103 (112)
T 1x79_B           80 AVLMQSREQVSEELVRLQKDNDSL  103 (112)
T ss_dssp             HHHHHHHHHHHTC-----------
T ss_pred             HHHHHHHHHHHHHHHHHHhhccch
Confidence            777777778888888887775443

>2w6b_A RHO guanine nucleotide exchange factor 7; X-RAY crystallography, phosphoprotein, guanine-nucleotide releasing factor, GIT, PAK, PIX, COOL; 2.80A {Rattus norvegicus}

Probab=88.88  E-value=1.2  Score=32.17  Aligned_cols=39  Identities=18%  Similarity=0.310  Sum_probs=32.8

Q ss_pred             hhHHHHHHHHHHHHHHHHHhhhhhHHhhhHHHHHHHHHH
Q 039268          159 IPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAM  197 (276)
Q Consensus       159 ipal~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~qaM  197 (276)
                      +=+|+.|+..|+||..+...++|.|.+++-++-.=+.-|
T Consensus        12 VYaLkDqV~eL~qe~k~m~k~lEeEqkARk~LE~~vrk~   50 (56)
T 2w6b_A           12 VYALKDEVQELRQDNKKMKKSLEEEQRARKDLEKLVRKV   50 (56)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            778999999999999999999999999987654444444

>2xnx_M M protein, M1-BC1; cell adhesion, virulence factor, streptococcal toxic shock S; 3.30A {Streptococcus pyogenes}

Probab=88.32  E-value=5  Score=33.99  Aligned_cols=63  Identities=22%  Similarity=0.240  Sum_probs=32.1

Q ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhh
Q 039268          115 EPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAV  180 (276)
Q Consensus       115 e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~  180 (276)
                      ..++.++...+...+.+.+.-+.|++++..++.|++++..++|-.-+.+   .+|+.+|.-.|.+-
T Consensus        69 ~~l~rdleasr~akk~~ea~la~l~~~~~~LeAE~aKLeEekQIseASR---qgLrRDLeASReAK  131 (146)
T 2xnx_M           69 EAITREQEINRNLLGNAKLELDQLSSEKEQLTIEKAKLEEEKQISDASR---QSLRRDLDASREAK  131 (146)
T ss_dssp             TTHHHHHHTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHGGGTTTC---------------------
T ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHhhHHHHHHHHHHHHHHHHHhHHHH---HHHHHHHHHHHHHH
Confidence            3455566666666666666666677778888889999988887655555   77888888888774

>3hnw_A Uncharacterized protein; coiled-coil, structural genomics, PSI-2, protein structure initiative, midwest center for structural genomics, MCSG; 2.20A {Eubacterium eligens}

Probab=88.31  E-value=6.9  Score=32.32  Aligned_cols=59  Identities=10%  Similarity=0.165  Sum_probs=31.6

Q ss_pred             hHHHHHHHHHHh--hhhhhhhhhhc---hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039268           92 EQEVHVRDLVEK--GLKLEADLRAT---EPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLA  150 (276)
Q Consensus        92 e~e~q~R~l~ek--~~KmEAelra~---e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~  150 (276)
                      .-|.+|+++-.+  .-.+..+-.++   -.+=.|+.+++.++..|...-+++..++..+..||.
T Consensus        36 ~vd~km~ei~~~~~~~~l~~~r~aVLaALNiadEl~k~~~~~~~L~~~l~~~~kE~~~lK~el~   99 (138)
T 3hnw_A           36 YINNKITEFNKEESYRRMSAELRTDMMYLNIADDYFKAKKMADSLSLDIENKDKEIYDLKHELI   99 (138)
T ss_dssp             HHHHHHHHHTTCHHHHTSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345667777733  66665544333   334457777776666655444444444444444433

>1l8d_A DNA double-strand break repair RAD50 ATPase; zinc finger, DNA repair, recombination, HOOK motif, replication; HET: DNA CIT; 2.20A {Pyrococcus furiosus} SCOP: h.4.12.1

Probab=88.20  E-value=3.2  Score=31.92  Aligned_cols=98  Identities=15%  Similarity=0.241  Sum_probs=57.5

Q ss_pred             chhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHHhhhHHHHHH
Q 039268          114 TEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQ  193 (276)
Q Consensus       114 ~e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq  193 (276)
                      .+.++.++.+++.++.+|...+.++..++..+.+.+.-+..+-.--|.--+.++.-...     ..++.-...-.++..+
T Consensus         5 ~~~~~~~~~~~~~~l~~L~~~~~~l~~~i~~l~~~l~~l~~~g~~CPvCgs~l~~~~~~-----~~i~~~~~~l~~l~~~   79 (112)
T 1l8d_A            5 LEELETKKTTIEEERNEITQRIGELKNKIGDLKTAIEELKKAKGKCPVCGRELTDEHRE-----ELLSKYHLDLNNSKNT   79 (112)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECTTTCCEECHHHHH-----HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCCCCCcCCHHHHH-----HHHHHHHHHHHHHHHH
Confidence            34567788888888999988999999999999988888776444444433322210000     0111111112222344


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhh
Q 039268          194 RQAMEKNLVSMAREVEKLRAELT  216 (276)
Q Consensus       194 ~qaMEknlisMarEvEKLRaEla  216 (276)
                      ...++..+...-+++++|+.++.
T Consensus        80 i~~l~~~i~~l~~~~~~l~~~~~  102 (112)
T 1l8d_A           80 LAKLIDRKSELERELRRIDMEIK  102 (112)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            45555556666666677766665

>3ghg_A Fibrinogen alpha chain; triple-stranded coiled coil, beta sheets, alpha helices, AMY amyloidosis, blood coagulation, disease mutation, glycoprot phosphoprotein; HET: NAG NDG BMA MAN GAL SIA; 2.90A {Homo sapiens} PDB: 3h32_A* 2a45_G*

Probab=88.00  E-value=5.4  Score=40.02  Aligned_cols=72  Identities=13%  Similarity=0.071  Sum_probs=36.3

Q ss_pred             HHHHhhhhHHHHHHHHHHhhhhhhhhhhhchh--------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 039268           85 VIGEIRAEQEVHVRDLVEKGLKLEADLRATEP--------LKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADN  156 (276)
Q Consensus        85 ~~~~i~ae~e~q~R~l~ek~~KmEAelra~e~--------lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~  156 (276)
                      .+..-..+.+..++.+++...+=-......+.        |+.-++-++.+|+.-....+-|..-|..+..+++|+..|+
T Consensus        75 dlsKnsKdseqy~k~~~E~Lr~rq~q~~dNdNtynE~S~ELRRrIqyLKekVdnQlsnIrvLQsnLedq~~kIQRLEvDI  154 (562)
T 3ghg_A           75 EYQKNNKDSHSLTTNIMEILRGDFSSANNRDNTYNRVSEDLRSRIEVLKRKVIEKVQHIQLLQKNVRAQLVDMKRLEVDI  154 (562)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTSSHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhhchhHHHHHHHHHHHHHHHHHhhhccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33455556666677777665433332223333        3333344444444444444555555555555666666554

>1m1j_B Fibrinogen beta chain; coiled coils, disulfide rings, fibrinogen, blood clotting; HET: NDG NAG; 2.70A {Gallus gallus} SCOP: d.171.1.1 h.1.8.1 PDB: 1ei3_B*

Probab=87.61  E-value=3.4  Score=40.61  Aligned_cols=22  Identities=36%  Similarity=0.629  Sum_probs=10.8

Q ss_pred             hhHHHHHHHHHHHHHHHHHhhh
Q 039268          159 IPLLRAEIDGLHQELMHARAAV  180 (276)
Q Consensus       159 ipal~aEie~lrqElqr~Raa~  180 (276)
                      |-.|+..++.++..|+.+-..+
T Consensus       170 i~~L~~~~~~l~~ki~~l~~~~  191 (464)
T 1m1j_B          170 LRVLRAVIDSLHKKIQKLENAI  191 (464)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            3444445555555555554443

>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=87.60  E-value=9.8  Score=30.61  Aligned_cols=89  Identities=19%  Similarity=0.251  Sum_probs=69.6

Q ss_pred             hhhhhhhhhhchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhhH
Q 039268          104 GLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYE  183 (276)
Q Consensus       104 ~~KmEAelra~e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~EyE  183 (276)
                      +.+-+.+++.   +..++.++...+.+....|++|..+...+.++...++..++.--.+-++.+.++.-|+.-+..++..
T Consensus         8 ~~~~e~E~~~---~~eel~~lke~l~k~e~~r~ele~~~~~l~~Ek~~L~~qL~~E~~~l~e~EE~~~~L~~~k~eLe~~   84 (129)
T 2fxo_A            8 SAEREKEMAS---MKEEFTRLKEALEKSEARRKELEEKMVSLLQEKNDLQLQVQAEQDNLADAEERCDQLIKNKIQLEAK   84 (129)
T ss_dssp             HHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhhHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Confidence            3455565543   7779999999999999999999999999999999999999888888889998888888777766644


Q ss_pred             HhhhHHHHHHHH
Q 039268          184 KKANIELMEQRQ  195 (276)
Q Consensus       184 Kk~~~e~~Eq~q  195 (276)
                      =+.-.+.++...
T Consensus        85 l~el~~rleeee   96 (129)
T 2fxo_A           85 VKEMNKRLEDEE   96 (129)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            444444444433

>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=87.40  E-value=1.4  Score=33.81  Aligned_cols=35  Identities=26%  Similarity=0.368  Sum_probs=14.2

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039268          117 LKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAK  151 (276)
Q Consensus       117 lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r  151 (276)
                      |-.|-..++.|+..+..+++-|..++..+.+||.|
T Consensus        42 Lt~E~e~l~~El~s~~~~~~r~~~ri~elEeElkr   76 (77)
T 2w83_C           42 LTCEKDVLQGELEAVKQAKLKLEEKNRELEEELRK   76 (77)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHC---------
T ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            44444455555555555555555555555555544

>3mq9_A Bone marrow stromal antigen 2 fused to maltose-BI periplasmic protein; HIV, antiviral protein; 2.80A {Escherichia coli}

Probab=86.92  E-value=15  Score=34.34  Aligned_cols=28  Identities=29%  Similarity=0.406  Sum_probs=21.8

Q ss_pred             cchhHHHHHHHHHHHHHHHHHhhhhhHH
Q 039268          157 QQIPLLRAEIDGLHQELMHARAAVDYEK  184 (276)
Q Consensus       157 qqipal~aEie~lrqElqr~Raa~EyEK  184 (276)
                      +.|-.|..||-.+-++|+.+|+.|+.-|
T Consensus       443 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~  470 (471)
T 3mq9_A          443 KKVEELEGEITTLNHKLQDASAEVERLR  470 (471)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            4677888888888888888888877544

>2v4h_A NF-kappa-B essential modulator; transcription, metal-binding, NEMO - IKK gamma - NFKB pathwa darpin, transcription regulation; 2.9A {Mus musculus}

Probab=86.53  E-value=7.1  Score=31.66  Aligned_cols=66  Identities=20%  Similarity=0.377  Sum_probs=40.8

Q ss_pred             HHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHHhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 039268          138 LNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEK  210 (276)
Q Consensus       138 L~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~qaMEknlisMarEvEK  210 (276)
                      -..++..+.+++.+...++-+||.|++.++--+....       -|..++-.+-+-...++..+-++-+++.+
T Consensus        43 Kq~~idelk~ei~q~~~~lE~I~vLkaQv~IY~~DF~-------aERadREkl~~eKe~L~~ql~~Lq~q~~~  108 (110)
T 2v4h_A           43 KQELIDKLKEEAEQHKIVMETVPVLKAQADIYKADFQ-------AERHAREKLVEKKEYLQEQLEQLQREFNK  108 (110)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc-------cchhhHHHHHhHHHHHHHHHHHHHHHHHh
Confidence            3445666777888888888788888877777655544       44444544444455555555555555444

>4dzn_A Coiled-coil peptide CC-PIL; de novo protein; HET: PHI; 1.59A {Synthetic} PDB: 4dzm_A* 4dzl_A* 4dzk_A 1u0i_A 1u0i_B

Probab=86.47  E-value=1.2  Score=28.53  Aligned_cols=28  Identities=25%  Similarity=0.485  Sum_probs=22.1

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 039268           64 DRMAMQRELAAAKEELHRMNLVIGEIRA   91 (276)
Q Consensus        64 tHvaLrqeLaaaq~Elqrl~~~~~~i~a   91 (276)
                      ...+|+||+++.+.||-.|.-.|.+++.
T Consensus         3 eiaalkqeiaalkkeiaalkfeiaalkq   30 (33)
T 4dzn_A            3 EIAALKQEIAALKKEIAALKFEIAALKQ   30 (33)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            3468899999999999888877776653

>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=86.46  E-value=4.6  Score=31.92  Aligned_cols=59  Identities=25%  Similarity=0.270  Sum_probs=29.9

Q ss_pred             HHHHhhhhhhhhhhhchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Q 039268           99 DLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQ  157 (276)
Q Consensus        99 ~l~ek~~KmEAelra~e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~q  157 (276)
                      +|-+.+.++++++-.+.-|++-+.--+.|.+.=-+.|..|.++.+.+..+|..++..+.
T Consensus        27 ~lke~~~q~~~~~E~i~vLk~Qv~IY~~DF~aERadREkl~~eKe~L~~ql~~lq~q~~   85 (94)
T 3jsv_C           27 KLKEEAEQHKIVMETVPVLKAQADIYKADFQAERHAREKLVEKKEYLQEQLEQLQREFN   85 (94)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHH
Confidence            33334445555555555555555444555555555555555555555555555554443

>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=86.13  E-value=2.4  Score=30.10  Aligned_cols=21  Identities=14%  Similarity=0.242  Sum_probs=13.5

Q ss_pred             HHHHHHHHHHHHHHHHHhhhh
Q 039268          161 LLRAEIDGLHQELMHARAAVD  181 (276)
Q Consensus       161 al~aEie~lrqElqr~Raa~E  181 (276)
                      +|+.++...+.|-.|+-.-|+
T Consensus        29 al~~~v~~ak~eA~RAN~RlD   49 (52)
T 1jcd_A           29 AARSDAQAAKDDAARANQRAD   49 (52)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHhhh
Confidence            455666677777777765544

>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=85.89  E-value=7.7  Score=32.95  Aligned_cols=34  Identities=26%  Similarity=0.412  Sum_probs=17.4

Q ss_pred             HHhhhhhhhhhhhchhhHHHHHHHHHHHHHHHHHHHH
Q 039268          101 VEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNE  137 (276)
Q Consensus       101 ~ek~~KmEAelra~e~lk~El~q~raE~q~L~~~Rqe  137 (276)
                      |++..-||-+|   -..+.+|...+.-++.|...|.+
T Consensus        12 in~qs~LeD~L---~~~R~el~~~~~ri~~lE~~r~~   45 (154)
T 2ocy_A           12 VDKQSHLEEQL---NKSLKTIASQKAAIENYNQLKED   45 (154)
T ss_dssp             HHHHHHHHHHH---HHHHHHHHHHHHHHHTTHHHHHH
T ss_pred             HHhhccHHHHH---HHHHHHHHHHHHHHHHHHHHHHH
Confidence            45555555522   23455555555555555555544

>3i00_A HIP-I, huntingtin-interacting protein 1; transcription; 2.30A {Homo sapiens} PDB: 2qa7_A

Probab=85.84  E-value=6.6  Score=31.91  Aligned_cols=35  Identities=20%  Similarity=0.225  Sum_probs=19.5

Q ss_pred             HHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhhh
Q 039268           75 AKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEA  109 (276)
Q Consensus        75 aq~Elqrl~~~~~~i~ae~e~q~R~l~ek~~KmEA  109 (276)
                      .+.||.+|...+..|+.|.-..|..|-.++..||+
T Consensus        20 Lkreie~lk~ele~l~~E~q~~v~ql~~~i~~Le~   54 (120)
T 3i00_A           20 LYREISGLKAQLENMKTESQRVVLQLKGHVSELEA   54 (120)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444444444455555555666666666666666

>3a7p_A Autophagy protein 16; coiled-coil, coiled coil, cytoplasmic vesicle, protein transport, transport, vacuole; 2.80A {Saccharomyces cerevisiae}

Probab=85.39  E-value=11  Score=32.11  Aligned_cols=50  Identities=20%  Similarity=0.143  Sum_probs=32.2

Q ss_pred             hhHHHHHHHHHHHHHHHHHhhhhhHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039268          159 IPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAE  214 (276)
Q Consensus       159 ipal~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~qaMEknlisMarEvEKLRaE  214 (276)
                      +-.|+.|+.+|+-++..+-..+.--++-|.++++.-      |-.|++|.++|-.+
T Consensus        98 ~e~l~DEl~aLqlq~n~lE~kl~kLq~EN~~LV~RW------M~rk~qEAe~MN~a  147 (152)
T 3a7p_A           98 TERLNAALISGTIENNVLQQKLSDLKKEHSQLVARW------LKKTEKETEAMNSE  147 (152)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHC---
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHh
Confidence            445667777777777777666666566666666543      66788888887544

>3tnu_A Keratin, type I cytoskeletal 14; coiled-coil, structural support, cytosolic protein; 3.00A {Homo sapiens}

Probab=85.12  E-value=13  Score=29.81  Aligned_cols=15  Identities=20%  Similarity=0.308  Sum_probs=0.0

Q ss_pred             HHHHHHHHhhhcccc
Q 039268           44 LEIQHAEIQRLLGDN   58 (276)
Q Consensus        44 l~~Q~~EiqrLl~dN   58 (276)
                      ...+..|++....-|
T Consensus        15 y~~K~eel~~~~~~~   29 (131)
T 3tnu_A           15 FFTKTEELNREVATN   29 (131)
T ss_dssp             ---------------
T ss_pred             HHHHHHHHHHHHHhh
Confidence            334444555444433

>3tnu_B Keratin, type II cytoskeletal 5; coiled-coil, structural support, cytosolic protein; 3.00A {Homo sapiens}

Probab=85.10  E-value=13  Score=29.72  Aligned_cols=20  Identities=15%  Similarity=0.391  Sum_probs=8.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHh
Q 039268           70 RELAAAKEELHRMNLVIGEI   89 (276)
Q Consensus        70 qeLaaaq~Elqrl~~~~~~i   89 (276)
                      .|+.-...-||.|..-+.++
T Consensus        36 ~Ei~elrr~iq~L~~el~~l   55 (129)
T 3tnu_B           36 HEISEMNRMIQRLRAEIDNV   55 (129)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444333

>3i00_A HIP-I, huntingtin-interacting protein 1; transcription; 2.30A {Homo sapiens} PDB: 2qa7_A

Probab=85.05  E-value=5.1  Score=32.61  Aligned_cols=72  Identities=25%  Similarity=0.291  Sum_probs=40.5

Q ss_pred             hhhhHHHHHHHHHHhhhhhhhhhhhchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHH
Q 039268           89 IRAEQEVHVRDLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDG  168 (276)
Q Consensus        89 i~ae~e~q~R~l~ek~~KmEAelra~e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~  168 (276)
                      .+.++|.+|..|+-          .++.||.|+..+..|.|..+   -.|.++|-.|..||.-.+...|   ....|.+.
T Consensus         9 ~~d~rD~~Ie~Lkr----------eie~lk~ele~l~~E~q~~v---~ql~~~i~~Le~eL~e~r~~~q---~a~~e~e~   72 (120)
T 3i00_A            9 NKDEKDHLIERLYR----------EISGLKAQLENMKTESQRVV---LQLKGHVSELEADLAEQQHLRQ---QAADDCEF   72 (120)
T ss_dssp             -CCTHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHH---HHHHHHHH
T ss_pred             CCCcHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHH---HHHHHHHH
Confidence            45667766655442          23446666666666666643   3566666667777666553322   23455566


Q ss_pred             HHHHHHHH
Q 039268          169 LHQELMHA  176 (276)
Q Consensus       169 lrqElqr~  176 (276)
                      |+.|+..+
T Consensus        73 Lr~e~~~l   80 (120)
T 3i00_A           73 LRAELDEL   80 (120)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            66666655

>3lay_A Zinc resistance-associated protein; salmonella typhimurium L structural genomics, center for structural genomics of INFE diseases; 2.70A {Salmonella enterica subsp}

Probab=84.68  E-value=4.1  Score=35.00  Aligned_cols=25  Identities=28%  Similarity=0.417  Sum_probs=13.1

Q ss_pred             hhhcchhHHHHHHHHHHHHHHHHHh
Q 039268          154 ADNQQIPLLRAEIDGLHQELMHARA  178 (276)
Q Consensus       154 ad~qqipal~aEie~lrqElqr~Ra  178 (276)
                      .|-.+|.+|..||..||+++...|.
T Consensus       110 ~DeakI~aL~~Ei~~Lr~qL~~~R~  134 (175)
T 3lay_A          110 PDTAKINAVAKEMESLGQKLDEQRV  134 (175)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444555555555555555554443

>1gk4_A Vimentin; intermediate filament, dimer, parallel coiled coil, heptad repeat, stutter; 2.3A {Homo sapiens} SCOP: h.1.20.1

Probab=84.64  E-value=11  Score=28.35  Aligned_cols=31  Identities=10%  Similarity=0.104  Sum_probs=16.2

Q ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHhhhhhhh
Q 039268           79 LHRMNLVIGEIRAEQEVHVRDLVEKGLKLEA  109 (276)
Q Consensus        79 lqrl~~~~~~i~ae~e~q~R~l~ek~~KmEA  109 (276)
                      ...|...+.++..--+.++..+=.++..+|+
T Consensus        10 ~~sLE~~l~e~e~~~~~~~~~~q~~i~~lE~   40 (84)
T 1gk4_A           10 NESLERQMREMEENFAVEAANYQDTIGRLQD   40 (84)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444555555555555555555555555

>3bas_A Myosin heavy chain, striated muscle/general control protein GCN4 chimera; alpha-helical coiled coil, disorder, salt links; 2.30A {Argopecten irradians} SCOP: h.1.26.1 PDB: 1nkn_A 3bat_A

Probab=84.35  E-value=12  Score=28.51  Aligned_cols=65  Identities=15%  Similarity=0.273  Sum_probs=46.3

Q ss_pred             hhhhhhhhhchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhh
Q 039268          105 LKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAA  179 (276)
Q Consensus       105 ~KmEAelra~e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa  179 (276)
                      .+.|.+++.   +..|+.++...+.+....|.+|..+...+.+|-..+...       -+|++.++..|...+..
T Consensus        10 ~~~eeEm~~---~eeel~~lke~l~k~e~~rkele~~~~~l~~ek~~L~~q-------l~eaEe~~~~L~~~K~e   74 (89)
T 3bas_A           10 ARQEEEMKE---QLKQMDKMKEDLAKTERIKKELEEQNVTLLEQKNDLFGS-------MKQLEDKVEELLSKNYH   74 (89)
T ss_dssp             CHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHH
T ss_pred             chhHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHhHHHHHHHHHHHHHH
Confidence            444554443   667888888888888999999999999998886666654       46666666666544443

>1use_A VAsp, vasodilator-stimulated phosphoprotein; signaling protein, null; 1.3A {Homo sapiens} SCOP: h.1.29.1 PDB: 1usd_A

Probab=84.34  E-value=2.1  Score=29.72  Aligned_cols=33  Identities=30%  Similarity=0.576  Sum_probs=20.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHH
Q 039268          131 LNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMH  175 (276)
Q Consensus       131 L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr  175 (276)
                      |.+..||+   ++.+.+||++++-|.         ||++++|+.+
T Consensus         9 le~~KqEI---L~E~RkElqK~K~EI---------IeAi~~El~~   41 (45)
T 1use_A            9 LQRVKQEL---LEEVKKELQKVKEEI---------IEAFVQELRK   41 (45)
T ss_dssp             HHHHHHHH---HHHHHHHHHHHHHHH---------HHHHHHHHHH
T ss_pred             HHHHHHHH---HHHHHHHHHHHHHHH---------HHHHHHHHHh
Confidence            33344444   344567777777555         5777777765

>3s4r_A Vimentin; alpha-helix, cytoskeleton, intermediate filament, structural; 2.45A {Homo sapiens} PDB: 3ssu_A

Probab=84.10  E-value=12  Score=28.87  Aligned_cols=15  Identities=33%  Similarity=0.521  Sum_probs=6.1

Q ss_pred             HHHHHHHHHHHHHHH
Q 039268          138 LNGKVQTLQKDLAKL  152 (276)
Q Consensus       138 L~~qvq~l~~eL~r~  152 (276)
                      |..+|..++.|-+++
T Consensus        61 Lr~~i~~~~~ek~~l   75 (93)
T 3s4r_A           61 LRRQVDQLTNDKARV   75 (93)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH
Confidence            334444444443333

>4dk0_A Putative MACA; alpha-hairpin, lipoyl, beta-barrel, periplasmic protein, MEM protein; 3.50A {Aggregatibacter actinomycetemcomitans} PDB: 4dk1_A

Probab=83.65  E-value=6.2  Score=35.34  Aligned_cols=92  Identities=11%  Similarity=0.041  Sum_probs=52.0

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHhhhhhHHhhhHHHHHHHHH
Q 039268          117 LKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARAAVDYEKKANIELMEQRQA  196 (276)
Q Consensus       117 lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~qa  196 (276)
                      +..++.++++++..+.+......+++....+++.|.+.-.++--.-+.+++..+.++..+++.+              +.
T Consensus        68 ~~~~l~~~~a~l~~~~a~l~~a~~~~~~a~~~~~r~~~L~~~~~~s~~~~~~a~~~~~~a~a~~--------------~~  133 (369)
T 4dk0_A           68 QINTLNTRKAALASYQAQLVARKTAYDVALSNYQRLSKLYGQKATSLDTLNTAKATLNNAKAEM--------------DV  133 (369)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTTHHHHHHGGGSSCSCGGGHHHHHHHHHHHHHHH--------------HH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCcCHHHHHHHHHHHHHHHHHH--------------HH
Confidence            3445555555555544444444555555566666666544444444556666666666655443              23


Q ss_pred             HHHHHHHHHHHHHHHHHHhhhccCCC
Q 039268          197 MEKNLVSMAREVEKLRAELTNFDGRP  222 (276)
Q Consensus       197 MEknlisMarEvEKLRaElanae~r~  222 (276)
                      .+.++-..-.+++.++..+.+..-++
T Consensus       134 ~~~~l~~~~~~l~~a~~~l~~~~i~A  159 (369)
T 4dk0_A          134 VQENIKQAEIEVNTAETNLGYTKITS  159 (369)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCCSSCCC
T ss_pred             HHHHHHHHHHHHHHHHHHhhcCEEEC
Confidence            34445555556777777777776665

>2d1l_A Metastasis suppressor protein 1; IRSP53, actin binding, IMD, protein binding; HET: MSE; 1.85A {Mus musculus}

Probab=82.93  E-value=19  Score=32.53  Aligned_cols=53  Identities=13%  Similarity=0.125  Sum_probs=42.2

Q ss_pred             HHHHHHHHHHHHHHHhhhhhHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 039268          163 RAEIDGLHQELMHARAAVDYEKKANIELMEQRQAMEKNLVSMAREVEKLRAELTN  217 (276)
Q Consensus       163 ~aEie~lrqElqr~Raa~EyEKk~~~e~~Eq~qaMEknlisMarEvEKLRaElan  217 (276)
                      ..|||...+  +-+|.|+-.|+.-+--+++..+..=+.-++|..|+..|+.=|.+
T Consensus       180 ~~~le~~~~--~~~r~AL~EERrRycflv~~l~pv~~~e~~~~~e~~~l~~~l~~  232 (253)
T 2d1l_A          180 YLLLEETEK--QAVRKALIEERGRFCTFISMLRPVIEEEISMLGEITHLQTISED  232 (253)
T ss_dssp             HHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHGGGGGHHHHHHHHHH
T ss_pred             HHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhHHHHHHHHHH
Confidence            344444333  55789999999999999999999999999999999998875544

>2jee_A YIIU; FTSZ, septum, coiled-coil, cell division, cell cycle, hypothetical protein; 2.8A {Escherichia coli}

Probab=82.43  E-value=7.8  Score=29.79  Aligned_cols=58  Identities=26%  Similarity=0.303  Sum_probs=38.7

Q ss_pred             HHHHHHHHHHhhhhhhhhhhhchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039268           93 QEVHVRDLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQ  153 (276)
Q Consensus        93 ~e~q~R~l~ek~~KmEAelra~e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~  153 (276)
                      -|..|...+|.|..|..   -++.||.+-..+..+++.+.+.|..|..+.+.+.+|..-.+
T Consensus        11 LE~KIq~avdtI~lLqm---EieELKekN~~L~~e~~e~~~~~~~L~~en~qLk~E~~~wq   68 (81)
T 2jee_A           11 LEAKVQQAIDTITLLQM---EIEELKEKNNSLSQEVQNAQHQREELERENNHLKEQQNGWQ   68 (81)
T ss_dssp             HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHH
Confidence            34556666776666666   33557777777777777777777777777777777755444

>4e61_A Protein BIM1; EB1-like motif, coiled-coil, spindle orientation, mitosis, K phosphorylation, mitotic spindle, microtubules, cell cycle; 2.45A {Saccharomyces cerevisiae}

Probab=81.93  E-value=6.1  Score=31.77  Aligned_cols=58  Identities=17%  Similarity=0.181  Sum_probs=46.0

Q ss_pred             hhhchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHH
Q 039268          111 LRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMH  175 (276)
Q Consensus       111 lra~e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr  175 (276)
                      |-+..++.+||.+.+.++..|...-++|...++.+.+|=.=.-+-+       ..||-|.|+.+.
T Consensus         3 ~~s~~al~~eL~~~~~ei~~L~~ei~eLk~~ve~lEkERDFYF~KL-------RdIEiLcQe~~~   60 (106)
T 4e61_A            3 LGSLVAIQAELTKSQETIGSLNEEIEQYKGTVSTLEIEREFYFNKL-------RDIEILVHTTQD   60 (106)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHH
Confidence            3466789999999999999999999999999999999855455555       467777777543

>3s9g_A Protein hexim1; cyclin T-binding domain (TBD), cyclin T1/P-TEFB/7SK snRNA, N transcription; 2.10A {Homo sapiens} PDB: 2gd7_A

Probab=80.99  E-value=5  Score=32.13  Aligned_cols=48  Identities=27%  Similarity=0.477  Sum_probs=29.5

Q ss_pred             HHHHhhhhhhhhhhhchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 039268           99 DLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADN  156 (276)
Q Consensus        99 ~l~ek~~KmEAelra~e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~  156 (276)
                      +||..-+.||.          .+.++..|-.+|....+...++|+.|..||.|+.++|
T Consensus        34 ELIqEYl~LE~----------~~s~le~e~~rlr~~~~~~~~~v~eLe~everL~~EN   81 (104)
T 3s9g_A           34 ELIKEYLELEK----------SLSRMEDENNRLRLESKRLDARVRELELELDRLRAEN   81 (104)
T ss_dssp             HHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHH----------HHHHHHHHHHHHHHHhccchhhHHHHHHHHHHHHHHH
Confidence            45566666665          4455555555655556666667777766666666555

>2efk_A CDC42-interacting protein 4; EFC domain, structural genomics, NPPSFA, national project on structural and functional analyses; 2.30A {Homo sapiens} SCOP: a.238.1.4

Probab=80.63  E-value=28  Score=30.18  Aligned_cols=19  Identities=16%  Similarity=0.295  Sum_probs=11.5

Q ss_pred             hccccccchhhHHHHHHHH
Q 039268           54 LLGDNRRLVEDRMAMQREL   72 (276)
Q Consensus        54 Ll~dNqRLaatHvaLrqeL   72 (276)
                      ++....++|..|..|-+.|
T Consensus        74 ~l~~~e~~a~~h~~~a~~L   92 (301)
T 2efk_A           74 ILQEVNDFAGQRELVAENL   92 (301)
T ss_dssp             HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            4445556677776666655

>3jsv_C NF-kappa-B essential modulator; ubiquitin, coiled-coil, cellular signaling, cytoplasm, isopeptide bond, nucleus, phosphoprotein, UBL conjugation; 2.70A {Mus musculus} PDB: 3f89_A 2zvo_B 2zvn_B

Probab=80.51  E-value=18  Score=28.55  Aligned_cols=85  Identities=20%  Similarity=0.282  Sum_probs=58.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhhhhhhhchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039268           68 MQRELAAAKEELHRMNLVIGEIRAEQEVHVRDLVEKGLKLEADLRATEPLKKEAVQLRAEVQKLNNLRNELNGKVQTLQK  147 (276)
Q Consensus        68 LrqeLaaaq~Elqrl~~~~~~i~ae~e~q~R~l~ek~~KmEAelra~e~lk~El~q~raE~q~L~~~RqeL~~qvq~l~~  147 (276)
                      |...|..|..=|......|..++. ...+.+..++.+-=|.+   -++.++.+-..=|++=.+|....++|..++..+.+
T Consensus         7 L~~~L~~aEeaL~~kq~~id~lke-~~~q~~~~~E~i~vLk~---Qv~IY~~DF~aERadREkl~~eKe~L~~ql~~lq~   82 (94)
T 3jsv_C            7 LRQQLQQAEEALVAKQELIDKLKE-EAEQHKIVMETVPVLKA---QADIYKADFQAERHAREKLVEKKEYLQEQLEQLQR   82 (94)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHTTSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHH-HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence            555566665555555555665555 44566666777777777   66778888888888888898889999999988888


Q ss_pred             HHHHHHhhh
Q 039268          148 DLAKLQADN  156 (276)
Q Consensus       148 eL~r~~ad~  156 (276)
                      ++.++.++.
T Consensus        83 q~~~L~~~~   91 (94)
T 3jsv_C           83 EFNKLKVGC   91 (94)
T ss_dssp             TTC------
T ss_pred             HHHHHHHhh
Confidence            888877654

>3fpp_A Macrolide-specific efflux protein MACA; hexameric assembly, membrane fusion protein, drug efflux pump, periplasmic protein; 2.99A {Escherichia coli}

Probab=80.43  E-value=9  Score=33.94  Aligned_cols=62  Identities=13%  Similarity=0.204  Sum_probs=30.8

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHh
Q 039268          117 LKKEAVQLRAEVQKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQELMHARA  178 (276)
Q Consensus       117 lk~El~q~raE~q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqElqr~Ra  178 (276)
                      ++.++.++++++..+.+......+++....+++.|.+.=.++--.-+.++|..+.++..+++
T Consensus        67 ~~~~~~~~~a~l~~~~a~l~~a~~~~~~a~~~~~r~~~L~~~~~~s~~~~~~a~~~~~~~~a  128 (341)
T 3fpp_A           67 AENQIKEVEATLMELRAQRQQAEAELKLARVTYSRQQRLAQTQAVSQQDLDNAATEMAVKQA  128 (341)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTSSSTTHHHHHHHHHHHHTHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCccHHHHHHHHHHHHHHHH
Confidence            34455555555555444444444455555555555554433333344555555555544443

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	276
d1fxka_	107	Prefoldin beta subunit {Archaeon Methanobacterium	89.16
d2efla1	288	Formin-binding protein 1, FNBP1 {Human (Homo sapie	84.71

>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=89.16  E-value=0.56  Score=34.71  Aligned_cols=66  Identities=17%  Similarity=0.244  Sum_probs=36.5

Q ss_pred             hhhhhhhhchhhHHHHHHHHHHH------------HHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHH
Q 039268          106 KLEADLRATEPLKKEAVQLRAEV------------QKLNNLRNELNGKVQTLQKDLAKLQADNQQIPLLRAEIDGLHQEL  173 (276)
Q Consensus       106 KmEAelra~e~lk~El~q~raE~------------q~L~~~RqeL~~qvq~l~~eL~r~~ad~qqipal~aEie~lrqEl  173 (276)
                      .++++++-++-+-.||..+-.|.            +....+..+|..++..+..++.++.   +|+-.+..+++.++.+|
T Consensus        26 ~le~q~~E~~~vl~eL~~l~~d~~vyk~vG~vLv~~~~~e~~~~l~~~~e~l~~~i~~l~---~q~~~l~~~l~~~~~~l  102 (107)
T d1fxka_          26 TVEMQINETQKALEELSRAADDAEVYKSSGNILIRVAKDELTEELQEKLETLQLREKTIE---RQEERVMKKLQEMQVNI  102 (107)
T ss_dssp             HHHHHHHHHHHHHHHHHHSCTTCCEEEEETTEEEEECHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHcCCcccHHHHHhcchhhcCcHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHH
Confidence            55555555555555555443321            2345556666677777777766655   33455555566555555


Q ss_pred             H
Q 039268          174 M  174 (276)
Q Consensus       174 q  174 (276)
                      +
T Consensus       103 ~  103 (107)
T d1fxka_         103 Q  103 (107)
T ss_dssp             H
T ss_pred             H
Confidence            4

>d2efla1 a.238.1.4 (A:1-288) Formin-binding protein 1, FNBP1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: BAR/IMD domain-like
superfamily: BAR/IMD domain-like
family: FCH domain
domain: Formin-binding protein 1, FNBP1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.71  E-value=7.9  Score=30.61  Aligned_cols=20  Identities=20%  Similarity=0.263  Sum_probs=13.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q 039268          188 IELMEQRQAMEKNLVSMARE  207 (276)
Q Consensus       188 ~e~~Eq~qaMEknlisMarE  207 (276)
                      ...+.+.|.||...+...++
T Consensus       210 ~~~~~~~q~~e~~r~~~~k~  229 (288)
T d2efla1         210 PNIFQKIQEMEERRIVRMGE  229 (288)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            45677777777766655554