Citrus Sinensis ID: 025526

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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-
Protein Sequence
MAAKSQIVTGFTMPMTPAPSSSSSSSSSSLCMVKKPLTTSFFNGGVGALKVTRLRIAPSSRSHCYRQGGGALNTRMNLFDRLARVVKSYANAILSSFEDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALKAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKARAQSAKFVFPLSLLEFPVFSASATSLVLLVMVAIA
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHccccccccccccccccccHHccHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHc
Secondary Structure Prediction (SSPRO)
ccccccEEccccccccccccccccccccccEEEcccccccHccccccEEEEEEEEEccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHc
Coil and Loop (DISEMBL)
maaksqivtgftmpmtpapsssssssssslcmvkkplttsffnggvgalkvtrlriapssrshcyrqgggalntRMNLFDRLARVVKSYANAILSSFEDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALKAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKARAQSAkfvfplsllefpvfsasATSLVLLVMVAIA
Flexible Loop (DISEMBL)
maaksqivtgftmpmtpapssssssssssLCMVKKPLTTSFFNGGVGALKVTrlriapssrshcyrqgggalntRMNLFDRLARVVKSYANAilssfedpEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALKaqldqqknvVNNLVSNTRLLESKIQEARSKKDTLKARAQSAKFVFPLSLLEFPVFSASATSLVLLVMVAIA
Low Complexity Region (SEG)
MAAKSQIVTGFTMPMTPAPssssssssssLCMVKKPLTTSFFNGGVGALKVTRLRIAPSSRSHCYRQGGGALNTRMNLFDRLARVVKSYANAILSSFEDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALKAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKARAQSAKFVFPLSLLEFPVFSASATSLVLLVMVAIA
Disordered region (IsUnstruct)
******************************CMVKKPLTTSFFNGGVGALKVTRLRIAPSSRSHCYRQGGGALNTRMNLFDRLARVVKSYANAILSSFEDPEKILEQAVLEMNDDLVK*******************************************************************************************************AKFVFPLSLLEFPVFSASATSLVLLVMVAI*
Disordered Region (DISOPRED)
****SQI*TGFT**************************TSFFNGGVGALK*************************MNLFDRLARVVKSYANAILSSFEDPEKILEQAVLEMNDDLVKMRQATA*********************DWYRKAQLALQKGEEDLAREALKRRKSYA****A******************************S***********************************LVMVAI*
Disordered Region (DISEMBL)
MAAKSQIVTGFTMPM****************MVKKPLTTSFFNGGVGALKVTRLRIAPSSRSHCYRQGGGALNTRMNLFDRLARVVKSYANAILSSFEDPEKILEQAVLEMNDDLVKMRQATAQVLAS**************SEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALKAQLDQQKNVVNNLVSNTRLLESKIQE***********AQSAKFVFPLSLLEFPVFSASATSLVLLVMVAIA
Disordered Region (DISPRO)
*****Q**TGFTMPMTPA**********SLCMVKKPLTTSFFNGGVGALKVTRLRIAPSSRSHCYRQGGGALNTRMNLFDRLARVVKSYANAILSSFEDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALKAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKARAQSAKFVFPLSLLEFPVFSASATSLVLLVMVAIA
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHoo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHHHHo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MAAKSQIVTGFTMPMTPAPSSSSSSSSSSLCMVKKPLTTSFFNGGVGALKVTRLRIAPSSRSHCYRQGGGALNTRMNLFDRLARVVKSYANAILSSFEDPEKILEQAVLEMNDDLVKMRQATAQVLASxxxxxxxxxxxxxxxxxxxxxAQLALQKGEEDLxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxAQSAKFVFPLSLLEFPVFSASATSLVLLVMVAIA
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	251	2.2.26 [Sep-21-2011]
Q03943	323	Membrane-associated 30 kD	N/A	no	0.896	0.696	0.690	2e-81
O80796	330	Membrane-associated prote	yes	no	0.864	0.657	0.677	2e-72
Q8S0J7	317	Probable membrane-associa	yes	no	0.780	0.618	0.682	5e-72
Q55707	267	Uncharacterized protein s	N/A	no	0.557	0.524	0.5	2e-31
Q9RUB7	223	Phage shock protein A hom	yes	no	0.585	0.659	0.367	9e-18
P0AFM8	222	Phage shock protein A OS=	yes	no	0.581	0.657	0.335	2e-13
P0AFM6	222	Phage shock protein A OS=	N/A	no	0.581	0.657	0.335	2e-13
P0AFM7	222	Phage shock protein A OS=	N/A	no	0.581	0.657	0.335	2e-13
P54617	227	Phage shock protein A hom	yes	no	0.370	0.409	0.353	2e-06
O32201	225	Protein LiaH OS=Bacillus	no	no	0.513	0.573	0.317	5e-06

>sp|Q03943|IM30_PEA Membrane-associated 30 kDa protein, chloroplastic OS=Pisum sativum GN=IM30 PE=2 SV=1

 Score =  301 bits (772), Expect = 2e-81,   Method: Compositional matrix adjust.
 Identities = 167/242 (69%), Positives = 188/242 (77%), Gaps = 17/242 (7%)

Query: 1   MAAKSQIVTGFTMPMTPAPSSSSSSSSSSLCMVKKPLTTSFFNG-GVGALKVTRLRIAPS 59
           M  K QI +G  +P  P   SSS        ++KKPL T+ F    V  LK   +RIA  
Sbjct: 1   MTTKFQIFSG--LPSAPLQPSSS--------LLKKPLATTLFGTRPVDTLKFRVMRIAKP 50

Query: 60  SRSHCYRQGGGALNTRMNLFDRLARVVKSYANAILSSFEDPEKILEQAVLEMNDDLVKMR 119
            R      GGGA+  RMNLFDR ARVVKSYANA++S+FEDPEKILEQAVLEMNDDL KMR
Sbjct: 51  VR------GGGAIGVRMNLFDRFARVVKSYANALVSTFEDPEKILEQAVLEMNDDLTKMR 104

Query: 120 QATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANAL 179
           QATAQVLASQKRLENK KAA+QASE+WYRKAQLALQKGEEDLAREALKRRKS+ADNA++L
Sbjct: 105 QATAQVLASQKRLENKYKAAQQASEEWYRKAQLALQKGEEDLAREALKRRKSFADNASSL 164

Query: 180 KAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKARAQSAKFVFPLSLLEFPVFSASA 239
           KAQLDQQK+VV+NLVSNTRLLESKIQEARSKKDTLKARAQSAK    +S +   V ++SA
Sbjct: 165 KAQLDQQKSVVDNLVSNTRLLESKIQEARSKKDTLKARAQSAKTATKVSEMLGNVNTSSA 224

Query: 240 TS 241
            S
Sbjct: 225 LS 226

Pisum sativum (taxid: 3888)

>sp|O80796|VIPP1_ARATH Membrane-associated protein VIPP1, chloroplastic OS=Arabidopsis thaliana GN=VIPP1 PE=1 SV=1

 Score =  272 bits (696), Expect = 2e-72,   Method: Compositional matrix adjust.
 Identities = 151/223 (67%), Positives = 179/223 (80%), Gaps = 6/223 (2%)

Query: 1   MAAKSQIVTGFTMPMTPAPSSSSSSSSSSLCMVKK-PLTTSFFNGGVGALKVTRLRIAPS 59
           MA K+  VTG   P+ P  SSS S+SS+  C ++  PL TSFF    GAL+V  LR+A  
Sbjct: 1   MALKASPVTGLFPPLRPTASSSPSTSSNRPCSLRILPLRTSFFGNSSGALRVNVLRLACD 60

Query: 60  SRSHCYRQGGGALNTRMNLFDRLARVVKSYANAILSSFEDPEKILEQAVLEMNDDLVKMR 119
           +R  C   G GA    MNLF+R +RVVKSYANA++SSFEDPEKILEQ V+EMN DL KMR
Sbjct: 61  NRLRC--NGHGAT---MNLFERFSRVVKSYANALISSFEDPEKILEQTVIEMNSDLTKMR 115

Query: 120 QATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANAL 179
           QATAQVLASQK+L+NK KAA+Q+S+DWY++AQLAL KG+EDLAREALKRRKS+ADNA AL
Sbjct: 116 QATAQVLASQKQLQNKYKAAQQSSDDWYKRAQLALAKGDEDLAREALKRRKSFADNATAL 175

Query: 180 KAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKARAQSAK 222
           K QLDQQK VV+NLVSNTRLLESKIQEA++KKDTL ARA++AK
Sbjct: 176 KTQLDQQKGVVDNLVSNTRLLESKIQEAKAKKDTLLARARTAK 218

Required for plastid vesicle formation and thylakoid membrane biogenesis, but not for functional assembly of thylakoid protein complexes.

Arabidopsis thaliana (taxid: 3702)

>sp|Q8S0J7|IM30_ORYSJ Probable membrane-associated 30 kDa protein, chloroplastic OS=Oryza sativa subsp. japonica GN=Os01g0895100 PE=1 SV=1

 Score =  270 bits (691), Expect = 5e-72,   Method: Compositional matrix adjust.
 Identities = 144/211 (68%), Positives = 167/211 (79%), Gaps = 15/211 (7%)

Query: 12  TMPMTPAPSSSSSSSSSSLCMVKKPLTTSFFNGGVGALKVTRLRIAPSSRSHCYRQGGGA 71
           ++ + P P +S+S         +  L TSF NG V +L++ ++R +  +R  C       
Sbjct: 9   SLRLAPPPPASAS-------FRRTALRTSFLNGSV-SLRLIQVRQSNVNRFKCN------ 54

Query: 72  LNTRMNLFDRLARVVKSYANAILSSFEDPEKILEQAVLEMNDDLVKMRQATAQVLASQKR 131
              R NL DR +RVVKSYANA+LSSFEDPEKIL+QAVLEMNDDL KMRQATAQVLASQKR
Sbjct: 55  -GIRSNLLDRFSRVVKSYANAVLSSFEDPEKILDQAVLEMNDDLTKMRQATAQVLASQKR 113

Query: 132 LENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALKAQLDQQKNVVN 191
           LENK KAAEQAS+DWYR+AQLALQKG+EDLAREALKRRKSYADNA++LKAQLDQQK VV 
Sbjct: 114 LENKYKAAEQASDDWYRRAQLALQKGDEDLAREALKRRKSYADNASSLKAQLDQQKGVVE 173

Query: 192 NLVSNTRLLESKIQEARSKKDTLKARAQSAK 222
           NLVSNTR+LESKI EA+ KKDTLKARAQSAK
Sbjct: 174 NLVSNTRVLESKIAEAKQKKDTLKARAQSAK 204

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q55707|Y617_SYNY3 Uncharacterized protein sll0617 OS=Synechocystis sp. (strain PCC 6803 / Kazusa) GN=sll0617 PE=3 SV=1

 Score =  135 bits (341), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 70/140 (50%), Positives = 98/140 (70%)

Query: 76  MNLFDRLARVVKSYANAILSSFEDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENK 135
           M LFDRL RVV++  N ++S  EDPEK+LEQAV++M +DLV++RQA A+ +A +KR E +
Sbjct: 1   MGLFDRLGRVVRANLNDLVSKAEDPEKVLEQAVIDMQEDLVQLRQAVARTIAEEKRTEQR 60

Query: 136 CKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALKAQLDQQKNVVNNLVS 195
                Q ++ W  +A+LAL  GEE+LAREAL R+KS  D A A + QL QQ+ +  NL  
Sbjct: 61  LNQDTQEAKKWEDRAKLALTNGEENLAREALARKKSLTDTAAAYQTQLAQQRTMSENLRR 120

Query: 196 NTRLLESKIQEARSKKDTLK 215
           N   LE+KI EA++KK+ L+
Sbjct: 121 NLAALEAKISEAKTKKNMLQ 140

Synechocystis sp. (strain PCC 6803 / Kazusa) (taxid: 1111708)

>sp|Q9RUB7|PSPA_DEIRA Phage shock protein A homolog OS=Deinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422) GN=DR_1473 PE=1 SV=1

 Score = 90.5 bits (223), Expect = 9e-18,   Method: Compositional matrix adjust.
 Identities = 54/147 (36%), Positives = 89/147 (60%)

Query: 76  MNLFDRLARVVKSYANAILSSFEDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENK 135
           M++FDRL+R++++  N ++S  EDP KI++QA+ +M       R   A  +A   +LE +
Sbjct: 1   MSIFDRLSRLLRANVNDMISKAEDPAKIIDQALRDMRSAYADARNEVAGAMAQAAKLERE 60

Query: 136 CKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALKAQLDQQKNVVNNLVS 195
                + + ++ +KA+ AL+ G EDLAREAL+R +++ D A     Q   Q++ V+ L +
Sbjct: 61  AGTNSKLAAEYEKKAEEALRGGSEDLAREALRRAQNHKDLAKGFDEQRTVQQSTVDQLKT 120

Query: 196 NTRLLESKIQEARSKKDTLKARAQSAK 222
             R LE+KI E  SKK  L AR ++A+
Sbjct: 121 QLRALEAKIDEMESKKTLLAARQKTAQ 147

Deinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422) (taxid: 243230)

>sp|P0AFM8|PSPA_SHIFL Phage shock protein A OS=Shigella flexneri GN=pspA PE=3 SV=2

 Score = 76.6 bits (187), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 49/146 (33%), Positives = 82/146 (56%)

Query: 76  MNLFDRLARVVKSYANAILSSFEDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENK 135
           M +F R A +V +  NA+L   EDP+K++   + EM D LV++R  +A+ LA +K+L  +
Sbjct: 1   MGIFSRFADIVNANINALLEKAEDPQKLVRLMIQEMEDTLVEVRSTSARALAEKKQLTRR 60

Query: 136 CKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALKAQLDQQKNVVNNLVS 195
            + A     +W  KA+LAL K  EDLAR AL  ++   D   +L+ ++    + +  +  
Sbjct: 61  IEQASAREVEWQEKAELALLKEREDLARAALIEKQKLTDLIKSLEHEVTLVDDTLARMKK 120

Query: 196 NTRLLESKIQEARSKKDTLKARAQSA 221
               LE+K+ E R+++  L  R Q+A
Sbjct: 121 EIGELENKLSETRARQQALMLRHQAA 146

The phage shock protein (psp) operon (pspABCDE) may play a significant role in the competition for survival under nutrient-or energy-limited conditions. PspA negatively regulates expression of the pspABCDE promoter and of pspG through negative regulation of the psp-specific transcriptional activator PspF. Is also required for membrane integrity, efficient translocation and maintenance of the proton motive force.

Shigella flexneri (taxid: 623)

>sp|P0AFM6|PSPA_ECOLI Phage shock protein A OS=Escherichia coli (strain K12) GN=pspA PE=1 SV=2

 Score = 76.6 bits (187), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 49/146 (33%), Positives = 82/146 (56%)

Query: 76  MNLFDRLARVVKSYANAILSSFEDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENK 135
           M +F R A +V +  NA+L   EDP+K++   + EM D LV++R  +A+ LA +K+L  +
Sbjct: 1   MGIFSRFADIVNANINALLEKAEDPQKLVRLMIQEMEDTLVEVRSTSARALAEKKQLTRR 60

Query: 136 CKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALKAQLDQQKNVVNNLVS 195
            + A     +W  KA+LAL K  EDLAR AL  ++   D   +L+ ++    + +  +  
Sbjct: 61  IEQASAREVEWQEKAELALLKEREDLARAALIEKQKLTDLIKSLEHEVTLVDDTLARMKK 120

Query: 196 NTRLLESKIQEARSKKDTLKARAQSA 221
               LE+K+ E R+++  L  R Q+A
Sbjct: 121 EIGELENKLSETRARQQALMLRHQAA 146

The phage shock protein (psp) operon (pspABCDE) may play a significant role in the competition for survival under nutrient-or energy-limited conditions. PspA negatively regulates expression of the pspABCDE promoter and of pspG through negative regulation of the psp-specific transcriptional activator PspF. Is also required for membrane integrity, efficient translocation and maintenance of the proton motive force.

Escherichia coli (strain K12) (taxid: 83333)

>sp|P0AFM7|PSPA_ECO57 Phage shock protein A OS=Escherichia coli O157:H7 GN=pspA PE=3 SV=2

 Score = 76.6 bits (187), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 49/146 (33%), Positives = 82/146 (56%)

Query: 76  MNLFDRLARVVKSYANAILSSFEDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENK 135
           M +F R A +V +  NA+L   EDP+K++   + EM D LV++R  +A+ LA +K+L  +
Sbjct: 1   MGIFSRFADIVNANINALLEKAEDPQKLVRLMIQEMEDTLVEVRSTSARALAEKKQLTRR 60

Query: 136 CKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALKAQLDQQKNVVNNLVS 195
            + A     +W  KA+LAL K  EDLAR AL  ++   D   +L+ ++    + +  +  
Sbjct: 61  IEQASAREVEWQEKAELALLKEREDLARAALIEKQKLTDLIKSLEHEVTLVDDTLARMKK 120

Query: 196 NTRLLESKIQEARSKKDTLKARAQSA 221
               LE+K+ E R+++  L  R Q+A
Sbjct: 121 EIGELENKLSETRARQQALMLRHQAA 146

The phage shock protein (psp) operon (pspABCDE) may play a significant role in the competition for survival under nutrient-or energy-limited conditions. PspA negatively regulates expression of the pspABCDE promoter and of pspG through negative regulation of the psp-specific transcriptional activator PspF. Is also required for membrane integrity, efficient translocation and maintenance of the proton motive force.

Escherichia coli O157:H7 (taxid: 83334)

>sp|P54617|PSPA_BACSU Phage shock protein A homolog OS=Bacillus subtilis (strain 168) GN=ydjF PE=1 SV=3

 Score = 53.1 bits (126), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 35/99 (35%), Positives = 58/99 (58%), Gaps = 6/99 (6%)

Query: 76  MNLFDRLARVVKSYANAILSSFEDPEKILEQAVLEMNDDLVKMRQATAQVLASQ---KRL 132
           M++  R   ++ +  NA+L   E+PEK+++Q +  MN DL K++  TA V+A +   KR 
Sbjct: 1   MSIIGRFKDIMSANINALLDKAENPEKMVDQYLRNMNSDLAKVKAETAAVMAEEQRAKRE 60

Query: 133 ENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKS 171
            ++C+A  +  E +  K   ALQ G E  AR+ L+R+ S
Sbjct: 61  YHECQADMEKMESYAMK---ALQAGNESDARKFLERKTS 96

Bacillus subtilis (strain 168) (taxid: 224308)

>sp|O32201|LIAH_BACSU Protein LiaH OS=Bacillus subtilis (strain 168) GN=liaH PE=2 SV=1

 Score = 51.6 bits (122), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 41/129 (31%), Positives = 66/129 (51%)

Query: 94  LSSFEDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLA 153
           L   E+P+ +L Q V +M  D+ K +Q   +      + + K + A + +     +AQLA
Sbjct: 18  LDKMENPKVMLNQYVRDMESDIAKAKQTIVKQHTIAYQFKKKYEEAAEVAGKRKNQAQLA 77

Query: 154 LQKGEEDLAREALKRRKSYADNANALKAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDT 213
              GEE+LA++AL   K     A   KA  +Q  + + +L      LE+K+Q+ + KK  
Sbjct: 78  FDAGEEELAKKALTEMKYLEGKAAEHKASYEQANSQLADLKEQLAALETKLQDVKDKKQA 137

Query: 214 LKARAQSAK 222
           L ARA +AK
Sbjct: 138 LIARANAAK 146

Bacillus subtilis (strain 168) (taxid: 224308)

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	251
224138834	339	predicted protein [Populus trichocarpa]	0.884	0.654	0.776	4e-94
255578930	312	Membrane-associated 30 kDa protein, chlo	0.872	0.701	0.776	1e-90
363807044	323	uncharacterized protein LOC100781742 [Gl	0.912	0.708	0.747	5e-88
363806682	322	uncharacterized protein LOC100818209 [Gl	0.908	0.708	0.743	4e-87
449468854	332	PREDICTED: membrane-associated 30 kDa pr	0.956	0.722	0.702	3e-84
225430912	324	PREDICTED: probable membrane-associated	0.920	0.712	0.692	2e-82
359478255	314	PREDICTED: membrane-associated 30 kDa pr	0.800	0.640	0.716	4e-81
729842	323	RecName: Full=Membrane-associated 30 kDa	0.896	0.696	0.690	1e-79
388510656	326	unknown [Lotus japonicus]	0.924	0.711	0.698	5e-79
147795803	465	hypothetical protein VITISV_012616 [Viti	0.828	0.447	0.686	2e-76

>gi|224138834|ref|XP_002322913.1| predicted protein [Populus trichocarpa] gi|222867543|gb|EEF04674.1| predicted protein [Populus trichocarpa]

 Score =  350 bits (897), Expect = 4e-94,   Method: Compositional matrix adjust.
 Identities = 177/228 (77%), Positives = 199/228 (87%), Gaps = 6/228 (2%)

Query: 1   MAAKSQIVTGFTMPMTPAP-----SSSSSSSSSSLCMVKK-PLTTSFFNGGVGALKVTRL 54
           MA KSQ++TG T+PM   P     S+++ +++++LCMVK+  LTTSFFNGGV ALKV R+
Sbjct: 1   MAIKSQLITGLTLPMPHPPYTSSSSNNNGNNNTTLCMVKRRTLTTSFFNGGVEALKVARI 60

Query: 55  RIAPSSRSHCYRQGGGALNTRMNLFDRLARVVKSYANAILSSFEDPEKILEQAVLEMNDD 114
           R + S+RS CYRQGGGAL T MNLFDR  RVVKSYANAI+SSFEDPEKILEQ VLEMNDD
Sbjct: 61  RTSLSTRSQCYRQGGGALGTCMNLFDRFGRVVKSYANAIISSFEDPEKILEQTVLEMNDD 120

Query: 115 LVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYAD 174
           L KMRQATAQVLASQKRLENK KAA+ ASE+WYRKAQLALQKGEEDLAREALKRRK+YAD
Sbjct: 121 LTKMRQATAQVLASQKRLENKYKAAQLASEEWYRKAQLALQKGEEDLAREALKRRKTYAD 180

Query: 175 NANALKAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKARAQSAK 222
           NAN+ KAQLDQQK VV NLVSNTRLLESK+QEA+SKKDTLKARAQSAK
Sbjct: 181 NANSFKAQLDQQKGVVENLVSNTRLLESKMQEAKSKKDTLKARAQSAK 228

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255578930|ref|XP_002530318.1| Membrane-associated 30 kDa protein, chloroplast precursor, putative [Ricinus communis] gi|223530174|gb|EEF32085.1| Membrane-associated 30 kDa protein, chloroplast precursor, putative [Ricinus communis]

 Score =  338 bits (868), Expect = 1e-90,   Method: Compositional matrix adjust.
 Identities = 181/233 (77%), Positives = 199/233 (85%), Gaps = 14/233 (6%)

Query: 1   MAAKSQIVTGFTMPMTPAPSSSSSSSSSSLC----------MVKKP-LTTSFFNGGVGAL 49
           MA KSQ++TG T+P+ P P  +S+SSSS+            MVK P LTTSFFNGGV AL
Sbjct: 1   MAIKSQLITGLTLPVPPPPPHASTSSSSNCNSSSSSGNTLSMVKPPYLTTSFFNGGVKAL 60

Query: 50  KVTRLRIAPSSRSHCYRQGGGALNTRMNLFDRLARVVKSYANAILSSFEDPEKILEQAVL 109
           KVTR R   +SRSHC+  GGG L TRMNLFDR +RVVKSYANAILSSFEDPEKIL+Q VL
Sbjct: 61  KVTRTR---TSRSHCFAHGGGGLGTRMNLFDRFSRVVKSYANAILSSFEDPEKILDQTVL 117

Query: 110 EMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRR 169
           EMNDDL KMRQATAQVLASQKRLENK KAAEQASEDWYRKAQLALQKGEEDLAREALKRR
Sbjct: 118 EMNDDLTKMRQATAQVLASQKRLENKYKAAEQASEDWYRKAQLALQKGEEDLAREALKRR 177

Query: 170 KSYADNANALKAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKARAQSAK 222
           KSYADNA +LK+QLDQQ++VV+NLVSNTRLLESK+QEA+SKKDTLKARAQSAK
Sbjct: 178 KSYADNAKSLKSQLDQQRSVVDNLVSNTRLLESKMQEAKSKKDTLKARAQSAK 230

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|363807044|ref|NP_001242581.1| uncharacterized protein LOC100781742 [Glycine max] gi|255641682|gb|ACU21113.1| unknown [Glycine max]

 Score =  330 bits (845), Expect = 5e-88,   Method: Compositional matrix adjust.
 Identities = 181/242 (74%), Positives = 197/242 (81%), Gaps = 13/242 (5%)

Query: 1   MAAKSQIVTGFTMPMTPAPSSSSSSSSSSLCMVKKPLTTSFFNGG-VGALKVTRLRIAPS 59
           MAAK QI TG    + PAP  SSSSS+  LC++KKPLTTSFF    V  LK+  +RI   
Sbjct: 1   MAAKLQIFTG----LPPAPFQSSSSST--LCVLKKPLTTSFFGTARVEVLKLRVMRIVKP 54

Query: 60  SRSHCYRQGGGALNTRMNLFDRLARVVKSYANAILSSFEDPEKILEQAVLEMNDDLVKMR 119
           +R      GGGAL  RMNLFDR ARVVKSYANA+LSSFEDPEKILEQAVLEMNDDL KMR
Sbjct: 55  TR------GGGALGARMNLFDRFARVVKSYANAVLSSFEDPEKILEQAVLEMNDDLTKMR 108

Query: 120 QATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANAL 179
           QATAQVLASQKRLENK KAA+QASE+WYRKAQLALQKGEEDLAREALKRRKSYADNA++L
Sbjct: 109 QATAQVLASQKRLENKYKAAQQASEEWYRKAQLALQKGEEDLAREALKRRKSYADNASSL 168

Query: 180 KAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKARAQSAKFVFPLSLLEFPVFSASA 239
           KAQLDQQK VV NLVSNTRLLESKIQEARSKKDTLKARAQSAK    +S +   V ++SA
Sbjct: 169 KAQLDQQKTVVENLVSNTRLLESKIQEARSKKDTLKARAQSAKTATKVSEMLGNVNTSSA 228

Query: 240 TS 241
            S
Sbjct: 229 LS 230

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|363806682|ref|NP_001242008.1| uncharacterized protein LOC100818209 [Glycine max] gi|255639265|gb|ACU19931.1| unknown [Glycine max]

 Score =  327 bits (837), Expect = 4e-87,   Method: Compositional matrix adjust.
 Identities = 180/242 (74%), Positives = 196/242 (80%), Gaps = 14/242 (5%)

Query: 1   MAAKSQIVTGFTMPMTPAPSSSSSSSSSSLCMVKKPLTTSFFNGG-VGALKVTRLRIAPS 59
           MAAK QI TG    + PAP  SSSS+   LC++KKPLTTSFF    V  LK+  +RIA  
Sbjct: 1   MAAKLQIFTG----LPPAPFQSSSST---LCVLKKPLTTSFFGTARVEVLKLRVMRIAKP 53

Query: 60  SRSHCYRQGGGALNTRMNLFDRLARVVKSYANAILSSFEDPEKILEQAVLEMNDDLVKMR 119
           +R      GGGAL  RMNLFDR ARVVKSYANA+LSSFEDPEKILEQAVLEMNDDL KMR
Sbjct: 54  AR------GGGALGARMNLFDRFARVVKSYANAVLSSFEDPEKILEQAVLEMNDDLTKMR 107

Query: 120 QATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANAL 179
           QATAQVLASQKRLENK KAA+QASE+WYRKAQLALQKGEEDLAR ALKRRKSYADNA++L
Sbjct: 108 QATAQVLASQKRLENKYKAAQQASEEWYRKAQLALQKGEEDLARGALKRRKSYADNASSL 167

Query: 180 KAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKARAQSAKFVFPLSLLEFPVFSASA 239
           KAQLDQQK VV NLVSNTRLLESKIQEARSKKDTLKARAQSAK    +S +   V ++SA
Sbjct: 168 KAQLDQQKTVVENLVSNTRLLESKIQEARSKKDTLKARAQSAKTATKVSEMLGNVNTSSA 227

Query: 240 TS 241
            S
Sbjct: 228 LS 229

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449468854|ref|XP_004152136.1| PREDICTED: membrane-associated 30 kDa protein, chloroplastic-like [Cucumis sativus] gi|449484741|ref|XP_004156967.1| PREDICTED: membrane-associated 30 kDa protein, chloroplastic-like [Cucumis sativus]

 Score =  317 bits (813), Expect = 3e-84,   Method: Compositional matrix adjust.
 Identities = 170/242 (70%), Positives = 196/242 (80%), Gaps = 2/242 (0%)

Query: 1   MAAKSQIVTGFTMPMTPAPSSSSSSSS-SSLCMVKKPLTTSFFNGGVGALKVTRLRIAPS 59
           MAA++ + TG  +  TP+ S   SSS  ++LC+  K L TSF NGG   L++TR+     
Sbjct: 1   MAAQTHVFTGLALASTPSSSFQPSSSKPATLCVASKLLRTSFLNGGGNTLQITRMNSLHL 60

Query: 60  SRSHCYRQGGGALNTRMNLFDRLARVVKSYANAILSSFEDPEKILEQAVLEMNDDLVKMR 119
            RSH  R+GG AL  RMNLFDR+AR+VKSYANA++SSFEDPEKILEQ VLEMNDDL KMR
Sbjct: 61  DRSHGSRRGG-ALGARMNLFDRVARLVKSYANALVSSFEDPEKILEQTVLEMNDDLTKMR 119

Query: 120 QATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANAL 179
           QATAQVLASQKRLENK K+A+QA++DWYRKAQLALQKG++DLAREALKRRKSYADNANAL
Sbjct: 120 QATAQVLASQKRLENKYKSAQQAADDWYRKAQLALQKGDDDLAREALKRRKSYADNANAL 179

Query: 180 KAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKARAQSAKFVFPLSLLEFPVFSASA 239
           KAQLDQQK VV NLVSNTRLLESKIQEARSKKDTLKARAQSAK    +S +   V ++SA
Sbjct: 180 KAQLDQQKGVVENLVSNTRLLESKIQEARSKKDTLKARAQSAKTATKVSEMLGNVNTSSA 239

Query: 240 TS 241
            S
Sbjct: 240 LS 241

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225430912|ref|XP_002276816.1| PREDICTED: probable membrane-associated 30 kDa protein, chloroplastic [Vitis vinifera] gi|297735245|emb|CBI17607.3| unnamed protein product [Vitis vinifera]

 Score =  311 bits (796), Expect = 2e-82,   Method: Compositional matrix adjust.
 Identities = 167/241 (69%), Positives = 188/241 (78%), Gaps = 10/241 (4%)

Query: 1   MAAKSQIVTGFTMPMTPAPSSSSSSSSSSLCMVKKPLTTSFFNGGVGALKVTRLRIAPSS 60
           MA K  I  G ++   P  S+  S       +V   L ++FF  GVGALKV  +RIA SS
Sbjct: 1   MATKVPIGAGLSLASPPCASNVRS-------LV---LKSAFFGHGVGALKVRGIRIARSS 50

Query: 61  RSHCYRQGGGALNTRMNLFDRLARVVKSYANAILSSFEDPEKILEQAVLEMNDDLVKMRQ 120
              C   GGGAL T+MNLFDR ARVVKSYANA+LSSFEDPEKILEQ VLEMNDDL KMRQ
Sbjct: 51  TYRCNGHGGGALGTQMNLFDRFARVVKSYANAVLSSFEDPEKILEQTVLEMNDDLTKMRQ 110

Query: 121 ATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALK 180
           ATAQVLASQK+LEN+ KAA+QASEDWY++AQLAL KG+EDLAREALKRRKSYADNA+ALK
Sbjct: 111 ATAQVLASQKQLENRYKAAQQASEDWYKRAQLALGKGDEDLAREALKRRKSYADNASALK 170

Query: 181 AQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKARAQSAKFVFPLSLLEFPVFSASAT 240
           AQLDQQK VV NLVSNTRLLESKIQEA+SKKDTLKARAQSAK    +S +   V ++SA 
Sbjct: 171 AQLDQQKTVVENLVSNTRLLESKIQEAKSKKDTLKARAQSAKTASKVSEMLGNVNTSSAL 230

Query: 241 S 241
           S
Sbjct: 231 S 231

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359478255|ref|XP_002273068.2| PREDICTED: membrane-associated 30 kDa protein, chloroplastic-like [Vitis vinifera]

 Score =  306 bits (785), Expect = 4e-81,   Method: Compositional matrix adjust.
 Identities = 159/222 (71%), Positives = 178/222 (80%), Gaps = 21/222 (9%)

Query: 1   MAAKSQIVTGFTMPMTPAPSSSSSSSSSSLCMVKKPLTTSFFNGGVGALKVTRLRIAPSS 60
           M   SQI+TG  MP+  AP+SS+S S   +C+V +PLT+SFFNGG  +L           
Sbjct: 1   MPLNSQIITG--MPLASAPASSTSDS---VCVVGQPLTSSFFNGGGVSL----------- 44

Query: 61  RSHCYRQGGGALNTRMNLFDRLARVVKSYANAILSSFEDPEKILEQAVLEMNDDLVKMRQ 120
                  G  AL  RM+L DR ARVVKSYANAI+SS EDPEKILEQ VLEMNDDL+KMRQ
Sbjct: 45  -----LHGAAALGARMSLLDRFARVVKSYANAIISSMEDPEKILEQTVLEMNDDLIKMRQ 99

Query: 121 ATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALK 180
           ATAQVLASQKRLENK KAA+QASEDWYRKAQ AL+KG+EDLAREALKRRKSYADNA+ALK
Sbjct: 100 ATAQVLASQKRLENKYKAAQQASEDWYRKAQFALEKGDEDLAREALKRRKSYADNASALK 159

Query: 181 AQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKARAQSAK 222
           AQ DQQKNV+ NLVSNT+LLESKIQEA+SKKDTLKARAQSAK
Sbjct: 160 AQFDQQKNVIENLVSNTQLLESKIQEAKSKKDTLKARAQSAK 201

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|729842|sp|Q03943.1|IM30_PEA RecName: Full=Membrane-associated 30 kDa protein, chloroplastic; Short=M30; Flags: Precursor gi|169107|gb|AAA53545.1| IM30 [Pisum sativum]

 Score =  301 bits (772), Expect = 1e-79,   Method: Compositional matrix adjust.
 Identities = 167/242 (69%), Positives = 188/242 (77%), Gaps = 17/242 (7%)

Query: 1   MAAKSQIVTGFTMPMTPAPSSSSSSSSSSLCMVKKPLTTSFFNG-GVGALKVTRLRIAPS 59
           M  K QI +G  +P  P   SSS        ++KKPL T+ F    V  LK   +RIA  
Sbjct: 1   MTTKFQIFSG--LPSAPLQPSSS--------LLKKPLATTLFGTRPVDTLKFRVMRIAKP 50

Query: 60  SRSHCYRQGGGALNTRMNLFDRLARVVKSYANAILSSFEDPEKILEQAVLEMNDDLVKMR 119
            R      GGGA+  RMNLFDR ARVVKSYANA++S+FEDPEKILEQAVLEMNDDL KMR
Sbjct: 51  VR------GGGAIGVRMNLFDRFARVVKSYANALVSTFEDPEKILEQAVLEMNDDLTKMR 104

Query: 120 QATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANAL 179
           QATAQVLASQKRLENK KAA+QASE+WYRKAQLALQKGEEDLAREALKRRKS+ADNA++L
Sbjct: 105 QATAQVLASQKRLENKYKAAQQASEEWYRKAQLALQKGEEDLAREALKRRKSFADNASSL 164

Query: 180 KAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKARAQSAKFVFPLSLLEFPVFSASA 239
           KAQLDQQK+VV+NLVSNTRLLESKIQEARSKKDTLKARAQSAK    +S +   V ++SA
Sbjct: 165 KAQLDQQKSVVDNLVSNTRLLESKIQEARSKKDTLKARAQSAKTATKVSEMLGNVNTSSA 224

Query: 240 TS 241
            S
Sbjct: 225 LS 226

Source: Pisum sativum

Species: Pisum sativum

Genus: Pisum

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388510656|gb|AFK43394.1| unknown [Lotus japonicus]

 Score =  300 bits (767), Expect = 5e-79,   Method: Compositional matrix adjust.
 Identities = 169/242 (69%), Positives = 191/242 (78%), Gaps = 10/242 (4%)

Query: 1   MAAKSQIVTGFTMPMTPAPSSSSSSSSSSLCMVKKPLTTSFFNGG-VGALKVTRLRIAPS 59
           M+ K QI TG          SSS S SS+LCM+KKPLTTSF   G V  L+++ +R+   
Sbjct: 1   MSTKLQIFTGLPSTPF---QSSSPSPSSTLCMLKKPLTTSFLGTGTVEVLRLSGMRVVKP 57

Query: 60  SRSHCYRQGGGALNTRMNLFDRLARVVKSYANAILSSFEDPEKILEQAVLEMNDDLVKMR 119
            R+   R+GG     RMNLFDR ARVVKSYANA++SSFEDPEKILEQAVLEMNDDL KMR
Sbjct: 58  VRAP--RRGGA----RMNLFDRFARVVKSYANAVISSFEDPEKILEQAVLEMNDDLTKMR 111

Query: 120 QATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANAL 179
           QATAQVLASQKR+ENK KAA+QASE+WYRKAQLALQKGEEDLAREALKRRKS+ADNA++ 
Sbjct: 112 QATAQVLASQKRMENKYKAAQQASEEWYRKAQLALQKGEEDLAREALKRRKSFADNASSS 171

Query: 180 KAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKARAQSAKFVFPLSLLEFPVFSASA 239
           KAQLDQQK VV NLVSNTRLLESKI EARSKKDTLKARAQSAK    +S +   V ++SA
Sbjct: 172 KAQLDQQKGVVENLVSNTRLLESKISEARSKKDTLKARAQSAKTATKVSEMLGNVNTSSA 231

Query: 240 TS 241
            S
Sbjct: 232 LS 233

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147795803|emb|CAN69783.1| hypothetical protein VITISV_012616 [Vitis vinifera]

 Score =  291 bits (744), Expect = 2e-76,   Method: Compositional matrix adjust.
 Identities = 149/217 (68%), Positives = 171/217 (78%), Gaps = 9/217 (4%)

Query: 1   MAAKSQIVTGFTMPMTPAPSSSSSSSSSSLCMVKKPLTTSFFNGGVGALKVTRLRIAPSS 60
           M   SQI+TG  MP+  AP+SS+S S   +C+V +PLT+SFFNGGV  LKV    +A S+
Sbjct: 1   MPLNSQIITG--MPLASAPASSTSDS---VCVVXQPLTSSFFNGGVRVLKVRGTXVANSN 55

Query: 61  RSHCYRQGGGALNTRMNLFDRLARVVKSYANAILSSFEDPEKILEQAVLEMNDDLVKMRQ 120
            S C R G  AL  RM+L DR ARVVKSYANAI+SS EDPEKILEQ VLEMNDDL+KMRQ
Sbjct: 56  XSQCSRHGAAALGARMSLLDRFARVVKSYANAIISSMEDPEKILEQTVLEMNDDLIKMRQ 115

Query: 121 ATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALK 180
           ATAQVLASQKRLENK KAA+QASEDWYRKAQ AL+KG+EDLAREALKRRKSYADNA+ALK
Sbjct: 116 ATAQVLASQKRLENKYKAAQQASEDWYRKAQFALEKGDEDLAREALKRRKSYADNASALK 175

Query: 181 AQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKAR 217
           AQ DQQKNV+ NLVSNT++   K    R ++   KAR
Sbjct: 176 AQFDQQKNVIENLVSNTQMSRMK----RKRRSFHKAR 208

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

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	251
TAIR|locus:2206290	330	PTAC4 "plastid transcriptional	0.864	0.657	0.650	1.9e-67
UNIPROTKB|Q9KRG4	222	VC1678 "Phage shock protein A"	0.581	0.657	0.376	8e-21
TIGR_CMR|VC_1678	222	VC_1678 "phage shock protein A	0.581	0.657	0.376	8e-21
TIGR_CMR|SO_1807	227	SO_1807 "phage shock protein A	0.581	0.643	0.349	1.7e-20
TIGR_CMR|CPS_3772	221	CPS_3772 "phage shock protein	0.581	0.660	0.342	9.2e-20
TIGR_CMR|CPS_4751	220	CPS_4751 "phage shock protein	0.585	0.668	0.319	2.5e-19
UNIPROTKB|P0AFM6	222	pspA [Escherichia coli K-12 (t	0.581	0.657	0.335	4e-19
UNIPROTKB|Q9F4H4	221	pspA "Phage shock protein A" [	0.581	0.660	0.328	2.2e-18
UNIPROTKB|Q81KD9	221	BAS4700 "Uncharacterized prote	0.585	0.665	0.272	4.4e-13
TIGR_CMR|BA_5061	221	BA_5061 "conserved hypothetica	0.585	0.665	0.272	4.4e-13

TAIR|locus:2206290 PTAC4 "plastid transcriptionally active 4" [Arabidopsis thaliana (taxid:3702)]

 Score = 685 (246.2 bits), Expect = 1.9e-67, P = 1.9e-67
 Identities = 145/223 (65%), Positives = 171/223 (76%)

Query:     1 MAAKSQIVTGFTMPMTPAPXXXXXXXXXXLCMVK-KPLTTSFFNGGVGALKVTRLRIAPS 59
             MA K+  VTG   P+ P             C ++  PL TSFF    GAL+V  LR+A  
Sbjct:     1 MALKASPVTGLFPPLRPTASSSPSTSSNRPCSLRILPLRTSFFGNSSGALRVNVLRLACD 60

Query:    60 SRSHCYRQGGGALNTRMNLFDRLARVVKSYANAILSSFEDPEKILEQAVLEMNDDLVKMR 119
             +R  C   G GA    MNLF+R +RVVKSYANA++SSFEDPEKILEQ V+EMN DL KMR
Sbjct:    61 NRLRC--NGHGAT---MNLFERFSRVVKSYANALISSFEDPEKILEQTVIEMNSDLTKMR 115

Query:   120 QATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANAL 179
             QATAQVLASQK+L+NK KAA+Q+S+DWY++AQLAL KG+EDLAREALKRRKS+ADNA AL
Sbjct:   116 QATAQVLASQKQLQNKYKAAQQSSDDWYKRAQLALAKGDEDLAREALKRRKSFADNATAL 175

Query:   180 KAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKARAQSAK 222
             K QLDQQK VV+NLVSNTRLLESKIQEA++KKDTL ARA++AK
Sbjct:   176 KTQLDQQKGVVDNLVSNTRLLESKIQEAKAKKDTLLARARTAK 218

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0016020 "membrane" evidence=ISS

GO:0010027 "thylakoid membrane organization" evidence=RCA;IMP

GO:0016050 "vesicle organization" evidence=IMP

GO:0009534 "chloroplast thylakoid" evidence=IDA

GO:0009941 "chloroplast envelope" evidence=IDA

GO:0009535 "chloroplast thylakoid membrane" evidence=IDA

GO:0009570 "chloroplast stroma" evidence=IDA

GO:0009295 "nucleoid" evidence=IDA

GO:0009508 "plastid chromosome" evidence=IDA

UNIPROTKB|Q9KRG4 VC1678 "Phage shock protein A" [Vibrio cholerae O1 biovar El Tor str. N16961 (taxid:243277)]

 Score = 245 (91.3 bits), Expect = 8.0e-21, P = 8.0e-21
 Identities = 55/146 (37%), Positives = 80/146 (54%)

Query:    76 MNLFDRLARVVKSYANAILSSFEDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENK 135
             M +F R A +V S  +A+L   EDPEK++   + EM D LV++R  +A+ +A +K L  K
Sbjct:     1 MGIFSRFADIVNSNISALLDKAEDPEKMIRLIIQEMEDTLVEVRTNSAKAMADKKELARK 60

Query:   136 CKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALKAQLDQQKNVVNNLVS 195
              ++ EQ  EDW  KA LAL K  EDLAR AL  ++        L  +    +  +  L  
Sbjct:    61 VESIEQQLEDWQNKATLALTKQREDLARAALIEKQKLQHVLKGLHTEQMLVEETIEKLTG 120

Query:   196 NTRLLESKIQEARSKKDTLKARAQSA 221
                 LE+KI E R+K+  L  R+Q+A
Sbjct:   121 EIGKLETKITETRAKQQALAIRSQAA 146

GO:0009271 "phage shock" evidence=ISS

TIGR_CMR|VC_1678 VC_1678 "phage shock protein A" [Vibrio cholerae O1 biovar El Tor (taxid:686)]

 Score = 245 (91.3 bits), Expect = 8.0e-21, P = 8.0e-21
 Identities = 55/146 (37%), Positives = 80/146 (54%)

Query:    76 MNLFDRLARVVKSYANAILSSFEDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENK 135
             M +F R A +V S  +A+L   EDPEK++   + EM D LV++R  +A+ +A +K L  K
Sbjct:     1 MGIFSRFADIVNSNISALLDKAEDPEKMIRLIIQEMEDTLVEVRTNSAKAMADKKELARK 60

Query:   136 CKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALKAQLDQQKNVVNNLVS 195
              ++ EQ  EDW  KA LAL K  EDLAR AL  ++        L  +    +  +  L  
Sbjct:    61 VESIEQQLEDWQNKATLALTKQREDLARAALIEKQKLQHVLKGLHTEQMLVEETIEKLTG 120

Query:   196 NTRLLESKIQEARSKKDTLKARAQSA 221
                 LE+KI E R+K+  L  R+Q+A
Sbjct:   121 EIGKLETKITETRAKQQALAIRSQAA 146

GO:0009271 "phage shock" evidence=ISS

TIGR_CMR|SO_1807 SO_1807 "phage shock protein A" [Shewanella oneidensis MR-1 (taxid:211586)]

 Score = 242 (90.2 bits), Expect = 1.7e-20, P = 1.7e-20
 Identities = 51/146 (34%), Positives = 83/146 (56%)

Query:    76 MNLFDRLARVVKSYANAILSSFEDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENK 135
             M +F R A ++ S  +A+L   EDPEK++   + EM D LV++R  +A+VLA +K L  +
Sbjct:     1 MGIFSRFADIINSNISALLDKAEDPEKMVRLIIQEMEDTLVEVRSTSAKVLAEKKELHRR 60

Query:   136 CKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALKAQLDQQKNVVNNLVS 195
                 E+  +DW  KA+LAL K  EDLA+ AL  ++  A   + L  +L      +  L  
Sbjct:    61 ISRVEEQVQDWQDKAELALSKDREDLAKAALVEKQKAAGLVDTLNQELAVLDEHIARLKD 120

Query:   196 NTRLLESKIQEARSKKDTLKARAQSA 221
                LL+ K+ +A++++ T+  R Q+A
Sbjct:   121 EVSLLQEKLLDAKARQKTIILRTQTA 146

GO:0009271 "phage shock" evidence=ISS

TIGR_CMR|CPS_3772 CPS_3772 "phage shock protein A" [Colwellia psychrerythraea 34H (taxid:167879)]

 Score = 235 (87.8 bits), Expect = 9.2e-20, P = 9.2e-20
 Identities = 50/146 (34%), Positives = 81/146 (55%)

Query:    76 MNLFDRLARVVKSYANAILSSFEDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENK 135
             M +F R   ++ S  N +L   EDP K++   + EM D LV++R ++A+ LA +K L  +
Sbjct:     1 MGIFSRFTDIINSNINNLLDKAEDPAKMVRLIIQEMEDTLVEVRSSSAKTLADKKELARQ 60

Query:   136 CKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALKAQLDQQKNVVNNLVS 195
                 EQ +E W  KA+LAL K  EDLAR AL  +K  +++A AL  +L      ++ L  
Sbjct:    61 VSRLEQDAEQWQAKAELALSKDREDLARAALMEKKKSSESAQALVDELAHTNEHLSKLQG 120

Query:   196 NTRLLESKIQEARSKKDTLKARAQSA 221
                 L+ K+ +A+ ++  +  R +SA
Sbjct:   121 EISQLQDKLSDAKVRQKAIVIREKSA 146

GO:0009271 "phage shock" evidence=ISS

TIGR_CMR|CPS_4751 CPS_4751 "phage shock protein A" [Colwellia psychrerythraea 34H (taxid:167879)]

 Score = 231 (86.4 bits), Expect = 2.5e-19, P = 2.5e-19
 Identities = 47/147 (31%), Positives = 83/147 (56%)

Query:    76 MNLFDRLARVVKSYANAILSSFEDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENK 135
             M LF R   +V +  N++L   E PEK++   + EM + LV++R   A+ +A QK L  K
Sbjct:     1 MGLFSRFTDIVNANLNSMLDKAEHPEKMIRMIIGEMEETLVEVRSTAAKNIAEQKTLARK 60

Query:   136 CKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALKAQLDQQKNVVNNLVS 195
              K  ++    W+ KA++AL KG EDLA+ AL ++         L  +  Q  ++++ +  
Sbjct:    61 VKTTQEGVAHWHDKAEIALNKGREDLAKSALAQKHKCQAELTQLNEENVQLTDLLSAIQE 120

Query:   196 NTRLLESKIQEARSKKDTLKARAQSAK 222
             + + L+ K+ EA+ ++D L+ R +SA+
Sbjct:   121 DAQRLQDKLSEAKRRQDALRLRQESAE 147

GO:0009271 "phage shock" evidence=ISS

UNIPROTKB|P0AFM6 pspA [Escherichia coli K-12 (taxid:83333)]

 Score = 229 (85.7 bits), Expect = 4.0e-19, P = 4.0e-19
 Identities = 49/146 (33%), Positives = 82/146 (56%)

Query:    76 MNLFDRLARVVKSYANAILSSFEDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENK 135
             M +F R A +V +  NA+L   EDP+K++   + EM D LV++R  +A+ LA +K+L  +
Sbjct:     1 MGIFSRFADIVNANINALLEKAEDPQKLVRLMIQEMEDTLVEVRSTSARALAEKKQLTRR 60

Query:   136 CKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALKAQLDQQKNVVNNLVS 195
              + A     +W  KA+LAL K  EDLAR AL  ++   D   +L+ ++    + +  +  
Sbjct:    61 IEQASAREVEWQEKAELALLKEREDLARAALIEKQKLTDLIKSLEHEVTLVDDTLARMKK 120

Query:   196 NTRLLESKIQEARSKKDTLKARAQSA 221
                 LE+K+ E R+++  L  R Q+A
Sbjct:   121 EIGELENKLSETRARQQALMLRHQAA 146

GO:0009408 "response to heat" evidence=IEP

GO:0009271 "phage shock" evidence=IEP

GO:0005737 "cytoplasm" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

GO:0016020 "membrane" evidence=IEA

UNIPROTKB|Q9F4H4 pspA "Phage shock protein A" [Yersinia enterocolitica (taxid:630)]

 Score = 222 (83.2 bits), Expect = 2.2e-18, P = 2.2e-18
 Identities = 48/146 (32%), Positives = 79/146 (54%)

Query:    76 MNLFDRLARVVKSYANAILSSFEDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENK 135
             M +F R A +V +  N +L   EDP+K++   + EM D LV++R  +A+ LA +K+L  +
Sbjct:     1 MGIFSRFADIVNANINTLLDKAEDPQKLVRLMIQEMEDTLVEIRSTSARALAEKKQLLRR 60

Query:   136 CKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALKAQLDQQKNVVNNLVS 195
                 E   ++W  KA+LAL+K +EDLAR AL  ++        L  ++      +  +  
Sbjct:    61 IDHCESQQQEWQDKAELALRKDKEDLARAALIEKQKVVALIETLTREVATVDETLTRMKH 120

Query:   196 NTRLLESKIQEARSKKDTLKARAQSA 221
                 LESK+ E R+++  L  R Q+A
Sbjct:   121 EITELESKLTETRARQQALTLRHQAA 146

GO:0005515 "protein binding" evidence=IPI

UNIPROTKB|Q81KD9 BAS4700 "Uncharacterized protein" [Bacillus anthracis (taxid:1392)]

 Score = 172 (65.6 bits), Expect = 4.4e-13, P = 4.4e-13
 Identities = 40/147 (27%), Positives = 77/147 (52%)

Query:    76 MNLFDRLARVVKSYANAILSSFEDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENK 135
             M++F RL  +  S   +++   EDP K+ +Q + +M  D+ +  ++ A  +A +K+ +  
Sbjct:     1 MSVFKRLRDLTMSNVYSLIEKAEDPVKMTDQYLRDMQADVQEAEKSVAAQIALEKKFKIL 60

Query:   136 CKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALKAQLDQQKNVVNNLVS 195
              +  E   +    +A +A+Q    DLAR AL+ +++     N  KA  +Q K   +NL  
Sbjct:    61 FEEQEALVKKREEQAHMAVQASNLDLARRALEEKQNAEQKMNEYKASYEQNKAAADNLRL 120

Query:   196 NTRLLESKIQEARSKKDTLKARAQSAK 222
                 +  ++ E ++K++TL AR  +AK
Sbjct:   121 KLEEMRKQLTELKNKRETLVARVNAAK 147

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

TIGR_CMR|BA_5061 BA_5061 "conserved hypothetical protein" [Bacillus anthracis str. Ames (taxid:198094)]

 Score = 172 (65.6 bits), Expect = 4.4e-13, P = 4.4e-13
 Identities = 40/147 (27%), Positives = 77/147 (52%)

Query:    76 MNLFDRLARVVKSYANAILSSFEDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENK 135
             M++F RL  +  S   +++   EDP K+ +Q + +M  D+ +  ++ A  +A +K+ +  
Sbjct:     1 MSVFKRLRDLTMSNVYSLIEKAEDPVKMTDQYLRDMQADVQEAEKSVAAQIALEKKFKIL 60

Query:   136 CKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALKAQLDQQKNVVNNLVS 195
              +  E   +    +A +A+Q    DLAR AL+ +++     N  KA  +Q K   +NL  
Sbjct:    61 FEEQEALVKKREEQAHMAVQASNLDLARRALEEKQNAEQKMNEYKASYEQNKAAADNLRL 120

Query:   196 NTRLLESKIQEARSKKDTLKARAQSAK 222
                 +  ++ E ++K++TL AR  +AK
Sbjct:   121 KLEEMRKQLTELKNKRETLVARVNAAK 147

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
O80796	VIPP1_ARATH	No assigned EC number	0.6771	0.8645	0.6575	yes	no
Q8S0J7	IM30_ORYSJ	No assigned EC number	0.6824	0.7808	0.6182	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	251
COG1842	225	COG1842, PspA, Phage shock protein A (IM30), suppr	1e-37
pfam04012	220	pfam04012, PspA_IM30, PspA/IM30 family	1e-35
TIGR02977	219	TIGR02977, phageshock_pspA, phage shock protein A	2e-33
PRK10698	222	PRK10698, PRK10698, phage shock protein PspA; Prov	3e-22
TIGR01069	771	TIGR01069, mutS2, MutS2 family protein	0.002

>gnl|CDD|224755 COG1842, PspA, Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]

 Score =  131 bits (331), Expect = 1e-37
 Identities = 72/147 (48%), Positives = 95/147 (64%)

Query: 76  MNLFDRLARVVKSYANAILSSFEDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENK 135
           M +F RL  +VK+  N +L   EDPEK+LEQA+ +M  +L K RQA AQ +A QK+LE K
Sbjct: 1   MGIFSRLKDLVKANINELLDKAEDPEKMLEQAIRDMESELAKARQALAQAIARQKQLERK 60

Query: 136 CKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALKAQLDQQKNVVNNLVS 195
            + A+  +E    KA+LALQ G EDLAREAL+ ++S  D A AL+A+L Q +  V  L  
Sbjct: 61  LEEAQARAEKLEEKAELALQAGNEDLAREALEEKQSLEDLAKALEAELQQAEEQVEKLKK 120

Query: 196 NTRLLESKIQEARSKKDTLKARAQSAK 222
               LE KI E R+KK+ LKAR  +AK
Sbjct: 121 QLAALEQKIAELRAKKEALKARKAAAK 147

Length = 225

>gnl|CDD|217843 pfam04012, PspA_IM30, PspA/IM30 family

 Score =  125 bits (317), Expect = 1e-35
 Identities = 64/146 (43%), Positives = 93/146 (63%)

Query: 77  NLFDRLARVVKSYANAILSSFEDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKC 136
            +F RL R++++  +  L   EDPEK+LEQA+ +M  +L K RQA AQV+A QK+LE K 
Sbjct: 1   GIFKRLLRLLRANIHEGLDKAEDPEKMLEQAIRDMQSELGKARQALAQVIARQKQLERKL 60

Query: 137 KAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALKAQLDQQKNVVNNLVSN 196
           +  ++ ++    KA+ AL KG E+LAREAL    +    A AL+ QL QQ++ V  L   
Sbjct: 61  EEQKEQAKKLENKARAALTKGNEELAREALAEIATLEKQAEALETQLTQQRSAVEQLRKQ 120

Query: 197 TRLLESKIQEARSKKDTLKARAQSAK 222
              LE+KIQ+ ++KK  LKAR ++AK
Sbjct: 121 LAALETKIQQLKAKKTALKARLKAAK 146

This family includes PspA a protein that suppresses sigma54-dependent transcription. The PspA protein, a negative regulator of the Escherichia coli phage shock psp operon, is produced when virulence factors are exported through secretins in many Gram-negative pathogenic bacteria and its homologue in plants, VIPP1, plays a critical role in thylakoid biogenesis, essential for photosynthesis. Activation of transcription by the enhancer-dependent bacterial sigma(54) containing RNA polymerase occurs through ATP hydrolysis-driven protein conformational changes enabled by activator proteins that belong to the large AAA(+) mechanochemical protein family. It has been shown that PspA directly and specifically acts upon and binds to the AAA(+) domain of the PspF transcription activator. Length = 220

>gnl|CDD|213755 TIGR02977, phageshock_pspA, phage shock protein A

 Score =  120 bits (303), Expect = 2e-33
 Identities = 57/147 (38%), Positives = 86/147 (58%)

Query: 76  MNLFDRLARVVKSYANAILSSFEDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENK 135
           M +F R A +V S  NA+L   EDPEK++   + EM D LV++R A+A+ +A +K LE +
Sbjct: 1   MGIFSRFADIVNSNLNALLDKAEDPEKMIRLIIQEMEDTLVEVRTASARTIADKKELERR 60

Query: 136 CKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALKAQLDQQKNVVNNLVS 195
               E    DW  KA+LAL KG EDLAR AL  ++   + A AL+ +L   +  +  L  
Sbjct: 61  VSRLEAQVADWQDKAELALSKGREDLARAALIEKQKAQELAEALERELAAVEETLAKLQE 120

Query: 196 NTRLLESKIQEARSKKDTLKARAQSAK 222
           +   L++K+ EAR+++  L  R Q+A 
Sbjct: 121 DIAKLQAKLAEARARQKALAIRHQAAS 147

Members of this family are the phage shock protein PspA, from the phage shock operon. This is a narrower family than the set of PspA and its homologs, sometimes several in a genome, as described by pfam04012. PspA appears to maintain the protonmotive force under stress conditions that include overexpression of certain phage secretins, heat shock, ethanol, and protein export defects [Cellular processes, Adaptations to atypical conditions]. Length = 219

>gnl|CDD|182657 PRK10698, PRK10698, phage shock protein PspA; Provisional

 Score = 91.0 bits (226), Expect = 3e-22
 Identities = 50/146 (34%), Positives = 83/146 (56%)

Query: 76  MNLFDRLARVVKSYANAILSSFEDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENK 135
           M +F R A +V +  NA+L   EDP+K++   + EM D LV++R  +A+ LA +K+L  +
Sbjct: 1   MGIFSRFADIVNANINALLEKAEDPQKLVRLMIQEMEDTLVEVRSTSARALAEKKQLTRR 60

Query: 136 CKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALKAQLDQQKNVVNNLVS 195
            + AE    +W  KA+LAL+K +EDLAR AL  ++   D    L+ ++      +  +  
Sbjct: 61  IEQAEAQQVEWQEKAELALRKEKEDLARAALIEKQKLTDLIATLEHEVTLVDETLARMKK 120

Query: 196 NTRLLESKIQEARSKKDTLKARAQSA 221
               LE+K+ E R+++  L  R Q+A
Sbjct: 121 EIGELENKLSETRARQQALMLRHQAA 146

Length = 222

>gnl|CDD|130141 TIGR01069, mutS2, MutS2 family protein

 Score = 38.6 bits (90), Expect = 0.002
 Identities = 31/127 (24%), Positives = 57/127 (44%), Gaps = 6/127 (4%)

Query: 87  KSYANAILSSFEDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDW 146
           +SYA  I   +  P  I+EQA     +   ++     ++ A +K LE K +  E+  ++ 
Sbjct: 482 ESYAFEIAQRYGIPHFIIEQAKTFYGEFKEEINVLIEKLSALEKELEQKNEHLEKLLKEQ 541

Query: 147 YRKAQLALQKGEEDLAREALKRRKSYADNANALKAQLDQQKNVVNNLVSNTRLLESKIQE 206
            +  +   Q+ EE   RE  K+ +   +   ALKA   + ++++        L E KI +
Sbjct: 542 EKLKKELEQEMEELKERERNKKLELEKEAQEALKALKKEVESII------RELKEKKIHK 595

Query: 207 ARSKKDT 213
           A+  K  
Sbjct: 596 AKEIKSI 602

Function of MutS2 is unknown. It should not be considered a DNA mismatch repair protein. It is likely a DNA mismatch binding protein of unknown cellular function [DNA metabolism, Other]. Length = 771

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	251
PRK10698	222	phage shock protein PspA; Provisional	100.0
TIGR02977	219	phageshock_pspA phage shock protein A. Members of	100.0
COG1842	225	PspA Phage shock protein A (IM30), suppresses sigm	100.0
PF04012	221	PspA_IM30: PspA/IM30 family; InterPro: IPR007157 T	100.0
PF03357	171	Snf7: Snf7; InterPro: IPR005024 This is a family o	97.34
PTZ00446	191	vacuolar sorting protein SNF7-like; Provisional	97.07
PF04012	221	PspA_IM30: PspA/IM30 family; InterPro: IPR007157 T	97.06
PRK10698	222	phage shock protein PspA; Provisional	96.83
PF08317	325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	96.78
PRK09039	343	hypothetical protein; Validated	96.56
TIGR02977	219	phageshock_pspA phage shock protein A. Members of	96.44
PRK09039	343	hypothetical protein; Validated	96.37
PF08317	325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	96.25
PRK04863	1486	mukB cell division protein MukB; Provisional	96.12
COG1842	225	PspA Phage shock protein A (IM30), suppresses sigm	96.11
PRK11637	428	AmiB activator; Provisional	96.09
PF00261	237	Tropomyosin: Tropomyosin; InterPro: IPR000533 Trop	95.54
smart00787	312	Spc7 Spc7 kinetochore protein. This domain is foun	95.52
KOG2911	439	consensus Uncharacterized conserved protein [Funct	95.41
PF06008	264	Laminin_I: Laminin Domain I; InterPro: IPR009254 L	95.19
smart00787	312	Spc7 Spc7 kinetochore protein. This domain is foun	95.04
KOG0963	629	consensus Transcription factor/CCAAT displacement	95.03
PRK11637	428	AmiB activator; Provisional	94.95
COG4372	499	Uncharacterized protein conserved in bacteria with	94.92
TIGR01843	423	type_I_hlyD type I secretion membrane fusion prote	94.79
KOG0971	1243	consensus Microtubule-associated protein dynactin	94.78
PRK02224	880	chromosome segregation protein; Provisional	94.76
KOG0994	1758	consensus Extracellular matrix glycoprotein Lamini	94.64
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	94.52
TIGR00606	1311	rad50 rad50. This family is based on the phylogeno	94.5
PF10168	717	Nup88: Nuclear pore component; InterPro: IPR019321	94.48
TIGR02168	1179	SMC_prok_B chromosome segregation protein SMC, com	94.46
TIGR03319	514	YmdA_YtgF conserved hypothetical protein YmdA/YtgF	94.46
PF12718	143	Tropomyosin_1: Tropomyosin like; InterPro: IPR0005	94.4
COG1579	239	Zn-ribbon protein, possibly nucleic acid-binding [	94.18
KOG0977	546	consensus Nuclear envelope protein lamin, intermed	94.14
PRK10884	206	SH3 domain-containing protein; Provisional	94.07
PF00261	237	Tropomyosin: Tropomyosin; InterPro: IPR000533 Trop	93.94
PRK04863	1486	mukB cell division protein MukB; Provisional	93.91
KOG0996	1293	consensus Structural maintenance of chromosome pro	93.85
COG1382	119	GimC Prefoldin, chaperonin cofactor [Posttranslati	93.81
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	93.74
PF13851	201	GAS: Growth-arrest specific micro-tubule binding	93.73
PTZ00464	211	SNF-7-like protein; Provisional	93.71
PRK02224	880	chromosome segregation protein; Provisional	93.62
COG4942	420	Membrane-bound metallopeptidase [Cell division and	93.6
PF06120	301	Phage_HK97_TLTM: Tail length tape measure protein;	93.56
PF13166	712	AAA_13: AAA domain	93.53
TIGR02231	525	conserved hypothetical protein. This family consis	93.53
KOG0250	1074	consensus DNA repair protein RAD18 (SMC family pro	93.41
KOG0971	1243	consensus Microtubule-associated protein dynactin	93.4
KOG0250	1074	consensus DNA repair protein RAD18 (SMC family pro	93.24
PHA02562	562	46 endonuclease subunit; Provisional	93.03
PF00038	312	Filament: Intermediate filament protein; InterPro:	93.03
TIGR01005	754	eps_transp_fam exopolysaccharide transport protein	92.94
COG1196	1163	Smc Chromosome segregation ATPases [Cell division	92.87
PF10046	99	BLOC1_2: Biogenesis of lysosome-related organelles	92.83
PF05384	159	DegS: Sensor protein DegS; InterPro: IPR008595 Thi	92.56
PRK03918	880	chromosome segregation protein; Provisional	92.29
KOG3232	203	consensus Vacuolar assembly/sorting protein DID2 [	92.14
TIGR03017	444	EpsF chain length determinant protein EpsF. Sequen	91.74
KOG2910	209	consensus Uncharacterized conserved protein predic	91.71
TIGR03007	498	pepcterm_ChnLen polysaccharide chain length determ	91.68
PF15619	194	Lebercilin: Ciliary protein causing Leber congenit	91.67
PF09726	697	Macoilin: Transmembrane protein; InterPro: IPR0191	91.64
PF15290	305	Syntaphilin: Golgi-localised syntaxin-1-binding cl	91.47
PF12325	120	TMF_TATA_bd: TATA element modulatory factor 1 TATA	91.46
TIGR01000	457	bacteriocin_acc bacteriocin secretion accessory pr	91.33
KOG0994	1758	consensus Extracellular matrix glycoprotein Lamini	91.27
TIGR02680	1353	conserved hypothetical protein TIGR02680. Members	91.16
PF03148	384	Tektin: Tektin family; InterPro: IPR000435 Tektin	91.01
PF10168	717	Nup88: Nuclear pore component; InterPro: IPR019321	90.99
TIGR03752	472	conj_TIGR03752 integrating conjugative element pro	90.59
COG3883	265	Uncharacterized protein conserved in bacteria [Fun	90.56
PF07888	546	CALCOCO1: Calcium binding and coiled-coil domain (	90.56
PF12128	1201	DUF3584: Protein of unknown function (DUF3584); In	90.52
PF09726	697	Macoilin: Transmembrane protein; InterPro: IPR0191	90.43
PF05816	333	TelA: Toxic anion resistance protein (TelA); Inter	90.09
PRK04778	569	septation ring formation regulator EzrA; Provision	90.05
PF09325	236	Vps5: Vps5 C terminal like; InterPro: IPR015404 Vp	90.03
PF05266	190	DUF724: Protein of unknown function (DUF724); Inte	89.97
PF00769	246	ERM: Ezrin/radixin/moesin family; InterPro: IPR011	89.9
KOG0161	1930	consensus Myosin class II heavy chain [Cytoskeleto	89.74
CHL00118	156	atpG ATP synthase CF0 B' subunit; Validated	89.66
PRK11281	1113	hypothetical protein; Provisional	89.5
PRK08476	141	F0F1 ATP synthase subunit B'; Validated	89.48
PRK10476	346	multidrug resistance protein MdtN; Provisional	89.41
TIGR03007	498	pepcterm_ChnLen polysaccharide chain length determ	89.36
PF04111	314	APG6: Autophagy protein Apg6; InterPro: IPR007243	89.35
PF12718	143	Tropomyosin_1: Tropomyosin like; InterPro: IPR0005	89.3
PRK13454	181	F0F1 ATP synthase subunit B'; Provisional	89.15
PRK09343	121	prefoldin subunit beta; Provisional	89.12
PF06785	401	UPF0242: Uncharacterised protein family (UPF0242);	89.03
KOG0996	1293	consensus Structural maintenance of chromosome pro	88.93
PRK03918	880	chromosome segregation protein; Provisional	88.89
PF04156	191	IncA: IncA protein; InterPro: IPR007285 Chlamydia	88.89
PF03194	254	LUC7: LUC7 N_terminus; InterPro: IPR004882 This fa	88.85
PF11932	251	DUF3450: Protein of unknown function (DUF3450); In	88.72
PF10174	775	Cast: RIM-binding protein of the cytomatrix active	88.68
PF08614	194	ATG16: Autophagy protein 16 (ATG16); InterPro: IPR	88.65
PRK00409	782	recombination and DNA strand exchange inhibitor pr	88.6
COG3883	265	Uncharacterized protein conserved in bacteria [Fun	88.56
PRK07720	146	fliJ flagellar biosynthesis chaperone; Validated	88.51
COG4942	420	Membrane-bound metallopeptidase [Cell division and	88.39
TIGR00606	1311	rad50 rad50. This family is based on the phylogeno	88.28
KOG2685	421	consensus Cystoskeletal protein Tektin [Cytoskelet	88.25
PHA02562	562	46 endonuclease subunit; Provisional	88.23
COG1579	239	Zn-ribbon protein, possibly nucleic acid-binding [	88.19
KOG4673	961	consensus Transcription factor TMF, TATA element m	88.15
PRK13729	475	conjugal transfer pilus assembly protein TraB; Pro	88.03
KOG0982	502	consensus Centrosomal protein Nuf [Cell cycle cont	87.9
KOG0249	916	consensus LAR-interacting protein and related prot	87.85
TIGR02971	327	heterocyst_DevB ABC exporter membrane fusion prote	87.76
PF05701	522	WEMBL: Weak chloroplast movement under blue light;	87.71
COG4372	499	Uncharacterized protein conserved in bacteria with	87.56
PF06810	155	Phage_GP20: Phage minor structural protein GP20; I	87.34
TIGR00998	334	8a0101 efflux pump membrane protein (multidrug res	87.33
PF05667	594	DUF812: Protein of unknown function (DUF812); Inte	87.29
COG1566	352	EmrA Multidrug resistance efflux pump [Defense mec	87.22
PRK15136	390	multidrug efflux system protein EmrA; Provisional	86.98
KOG0979	1072	consensus Structural maintenance of chromosome pro	86.9
PRK12704	520	phosphodiesterase; Provisional	86.67
KOG0980	980	consensus Actin-binding protein SLA2/Huntingtin-in	86.62
PRK09174	204	F0F1 ATP synthase subunit B'; Validated	86.55
PRK10884	206	SH3 domain-containing protein; Provisional	86.51
KOG0161	1930	consensus Myosin class II heavy chain [Cytoskeleto	86.31
KOG0249	916	consensus LAR-interacting protein and related prot	86.13
PF00038	312	Filament: Intermediate filament protein; InterPro:	85.99
TIGR03545	555	conserved hypothetical protein TIGR03545. This mod	85.96
PF06637	442	PV-1: PV-1 protein (PLVAP); InterPro: IPR009538 Th	85.76
KOG0976	1265	consensus Rho/Rac1-interacting serine/threonine ki	85.53
smart00502	127	BBC B-Box C-terminal domain. Coiled coil region C-	85.25
KOG1029	1118	consensus Endocytic adaptor protein intersectin [S	85.22
PF04111	314	APG6: Autophagy protein Apg6; InterPro: IPR007243	84.94
PF00769	246	ERM: Ezrin/radixin/moesin family; InterPro: IPR011	84.73
KOG1003	205	consensus Actin filament-coating protein tropomyos	84.71
PRK00846	77	hypothetical protein; Provisional	84.69
PRK05689	147	fliJ flagellar biosynthesis chaperone; Validated	84.67
PLN02718	603	Probable galacturonosyltransferase	84.66
TIGR01010	362	BexC_CtrB_KpsE polysaccharide export inner-membran	84.52
smart00685	59	DM14 Repeats in fly CG4713, worm Y37H9A.3 and huma	84.41
KOG0964	1200	consensus Structural maintenance of chromosome pro	84.25
PF10186	302	Atg14: UV radiation resistance protein and autopha	84.11
PF04102	69	SlyX: SlyX; InterPro: IPR007236 The SlyX protein h	83.99
PRK04778	569	septation ring formation regulator EzrA; Provision	83.73
PF07888	546	CALCOCO1: Calcium binding and coiled-coil domain (	83.7
KOG1029	1118	consensus Endocytic adaptor protein intersectin [S	83.65
cd00632	105	Prefoldin_beta Prefoldin beta; Prefoldin is a hexa	83.56
TIGR02231	525	conserved hypothetical protein. This family consis	83.55
TIGR02473	141	flagell_FliJ flagellar export protein FliJ. Member	83.31
KOG0288	459	consensus WD40 repeat protein TipD [General functi	83.3
TIGR01005	754	eps_transp_fam exopolysaccharide transport protein	83.21
PF12761	195	End3: Actin cytoskeleton-regulatory complex protei	83.18
TIGR02338	110	gimC_beta prefoldin, beta subunit, archaeal. Chape	83.15
PF12128	1201	DUF3584: Protein of unknown function (DUF3584); In	83.14
KOG1656	221	consensus Protein involved in glucose derepression	83.08
PRK15422	79	septal ring assembly protein ZapB; Provisional	82.98
KOG0933	1174	consensus Structural maintenance of chromosome pro	82.96
PF05529	192	Bap31: B-cell receptor-associated protein 31-like	82.89
PRK00736	68	hypothetical protein; Provisional	82.51
KOG0980	980	consensus Actin-binding protein SLA2/Huntingtin-in	82.34
PF13094	160	CENP-Q: CENP-Q, a CENPA-CAD centromere complex sub	82.21
PRK04406	75	hypothetical protein; Provisional	82.18
PF15070	617	GOLGA2L5: Putative golgin subfamily A member 2-lik	81.96
PRK03947	140	prefoldin subunit alpha; Reviewed	81.93
KOG0933	1174	consensus Structural maintenance of chromosome pro	81.9
PF15112	307	DUF4559: Domain of unknown function (DUF4559)	81.78
PRK00295	68	hypothetical protein; Provisional	81.65
PRK04325	74	hypothetical protein; Provisional	81.59
COG3206	458	GumC Uncharacterized protein involved in exopolysa	81.21
PF05335	188	DUF745: Protein of unknown function (DUF745); Inte	81.16
PLN02829	639	Probable galacturonosyltransferase	81.12
PRK11281	1113	hypothetical protein; Provisional	81.11
PF09787	511	Golgin_A5: Golgin subfamily A member 5; InterPro:	80.71
KOG0995	581	consensus Centromere-associated protein HEC1 [Cell	80.53
PRK14475	167	F0F1 ATP synthase subunit B; Provisional	80.51
PF05103	131	DivIVA: DivIVA protein; InterPro: IPR007793 The Ba	80.5
PRK02793	72	phi X174 lysis protein; Provisional	80.35
COG2433	652	Uncharacterized conserved protein [Function unknow	80.34
PF07743	78	HSCB_C: HSCB C-terminal oligomerisation domain; In	80.31
TIGR03017	444	EpsF chain length determinant protein EpsF. Sequen	80.21
PF05103	131	DivIVA: DivIVA protein; InterPro: IPR007793 The Ba	80.18

>PRK10698 phage shock protein PspA; Provisional

Probab=100.00  E-value=1.2e-38  Score=281.67  Aligned_cols=171  Identities=30%  Similarity=0.412  Sum_probs=169.4

Q ss_pred             CchHHHHHHHHHHHHHHhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 025526           76 MNLFDRLARVVKSYANAILSSFEDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQ  155 (251)
Q Consensus        76 M~if~Rl~~lira~in~~lDk~EDP~~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~  155 (251)
                      ||||+||+++|+|++|+++|++|||++||+|+|+||++++.++++++|++++.++++++++.++...+++|+.+|++||+
T Consensus         1 M~if~Rl~~ii~a~in~~ldkaEDP~k~l~q~i~em~~~l~~~r~alA~~~A~~k~~er~~~~~~~~~~~~e~kA~~Al~   80 (222)
T PRK10698          1 MGIFSRFADIVNANINALLEKAEDPQKLVRLMIQEMEDTLVEVRSTSARALAEKKQLTRRIEQAEAQQVEWQEKAELALR   80 (222)
T ss_pred             CCHHHHHHHHHHhHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCC
Q 025526          156 KGEEDLAREALKRRKSYADNANALKAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKARAQSAKFVFPLSLLEFPVF  235 (251)
Q Consensus       156 ~G~EdLAreAL~rk~~~e~~~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~LkAr~~~AkAq~~vn~~l~~~~  235 (251)
                      +|+|||||+||.+|..++.++..|+.+++.+...+++|+.++.+|+.+|.+++.|+++|++|.++|+++.++++.+++++
T Consensus        81 ~G~EdLAr~AL~~K~~~~~~~~~l~~~~~~~~~~~~~L~~~l~~L~~ki~eak~k~~~L~aR~~~A~a~~~~~~~~~~~~  160 (222)
T PRK10698         81 KEKEDLARAALIEKQKLTDLIATLEHEVTLVDETLARMKKEIGELENKLSETRARQQALMLRHQAASSSRDVRRQLDSGK  160 (222)
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             chhHHHHHHHH
Q 025526          236 SASATSLVLLV  246 (251)
Q Consensus       236 ~~~a~~~f~~~  246 (251)
                      +++++.+|+..
T Consensus       161 ~~~a~~~f~rm  171 (222)
T PRK10698        161 LDEAMARFESF  171 (222)
T ss_pred             cchHHHHHHHH
Confidence            99999999864

>TIGR02977 phageshock_pspA phage shock protein A

Probab=100.00  E-value=2.4e-37  Score=272.50  Aligned_cols=172  Identities=34%  Similarity=0.459  Sum_probs=170.1

Q ss_pred             CchHHHHHHHHHHHHHHhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 025526           76 MNLFDRLARVVKSYANAILSSFEDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQ  155 (251)
Q Consensus        76 M~if~Rl~~lira~in~~lDk~EDP~~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~  155 (251)
                      ||||+||+++|+|++|+++|++|||++||+|+|+||+++|.++++++|++++.+++++++++++...+++|+++|+.||+
T Consensus         1 M~if~Rl~~iv~a~~n~~~dk~EDP~~~l~q~irem~~~l~~ar~~lA~~~a~~k~~e~~~~~~~~~~~~~~~~A~~Al~   80 (219)
T TIGR02977         1 MGIFSRFADIVNSNLNALLDKAEDPEKMIRLIIQEMEDTLVEVRTTSARTIADKKELERRVSRLEAQVADWQEKAELALS   80 (219)
T ss_pred             CcHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCC
Q 025526          156 KGEEDLAREALKRRKSYADNANALKAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKARAQSAKFVFPLSLLEFPVF  235 (251)
Q Consensus       156 ~G~EdLAreAL~rk~~~e~~~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~LkAr~~~AkAq~~vn~~l~~~~  235 (251)
                      +|+||||++||.++..++.++..|+.+++.+...+++|+..+..|+.+|.+++.++++|+||.+.|+++.++++.+++++
T Consensus        81 ~G~EdLAr~Al~~k~~~~~~~~~l~~~~~~~~~~v~~l~~~l~~L~~ki~~~k~k~~~l~ar~~~A~a~~~~~~~~~~~~  160 (219)
T TIGR02977        81 KGREDLARAALIEKQKAQELAEALERELAAVEETLAKLQEDIAKLQAKLAEARARQKALAIRHQAASSRLDVRRQLDSGR  160 (219)
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             chhHHHHHHHHH
Q 025526          236 SASATSLVLLVM  247 (251)
Q Consensus       236 ~~~a~~~f~~~~  247 (251)
                      .+++++.|+.+.
T Consensus       161 ~~~a~~~fer~e  172 (219)
T TIGR02977       161 SDEAMARFEQYE  172 (219)
T ss_pred             chhHHHHHHHHH
Confidence            999999998764

Members of this family are the phage shock protein PspA, from the phage shock operon. This is a narrower family than the set of PspA and its homologs, sometimes several in a genome, as described by PFAM model pfam04012. PspA appears to maintain the protonmotive force under stress conditions that include overexpression of certain phage secretins, heat shock, ethanol, and protein export defects.

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

Probab=100.00  E-value=1.1e-35  Score=263.05  Aligned_cols=171  Identities=44%  Similarity=0.516  Sum_probs=169.2

Q ss_pred             CchHHHHHHHHHHHHHHhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 025526           76 MNLFDRLARVVKSYANAILSSFEDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQ  155 (251)
Q Consensus        76 M~if~Rl~~lira~in~~lDk~EDP~~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~  155 (251)
                      ||||+||+++++|++|+++|++|||.+||+|+||||+.+|.++++.+|++++.+++++++++++...+++|+.+|+.||.
T Consensus         1 M~i~~r~~~~~~a~~~~~~dk~EDp~~~l~Q~ird~~~~l~~ar~~~A~~~a~~k~~e~~~~~~~~~~~k~e~~A~~Al~   80 (225)
T COG1842           1 MGIFSRLKDLVKANINELLDKAEDPEKMLEQAIRDMESELAKARQALAQAIARQKQLERKLEEAQARAEKLEEKAELALQ   80 (225)
T ss_pred             CchHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCC
Q 025526          156 KGEEDLAREALKRRKSYADNANALKAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKARAQSAKFVFPLSLLEFPVF  235 (251)
Q Consensus       156 ~G~EdLAreAL~rk~~~e~~~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~LkAr~~~AkAq~~vn~~l~~~~  235 (251)
                      +|+|+||+++|.+++.+++++..++.++..+...+++|+.++..|+.||.+++++++.+++|.++++++.+|++++++++
T Consensus        81 ~g~E~LAr~al~~~~~le~~~~~~~~~~~~~~~~~~~l~~~~~~Le~Ki~e~~~~~~~l~ar~~~akA~~~v~~~~~~~s  160 (225)
T COG1842          81 AGNEDLAREALEEKQSLEDLAKALEAELQQAEEQVEKLKKQLAALEQKIAELRAKKEALKARKAAAKAQEKVNRSLGGGS  160 (225)
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             chhHHHHHHHH
Q 025526          236 SASATSLVLLV  246 (251)
Q Consensus       236 ~~~a~~~f~~~  246 (251)
                      ++++...|+.+
T Consensus       161 ~~sa~~~fer~  171 (225)
T COG1842         161 SSSAMAAFERM  171 (225)
T ss_pred             chhhHHHHHHH
Confidence            99999999865

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

Probab=100.00  E-value=1.4e-35  Score=260.21  Aligned_cols=171  Identities=42%  Similarity=0.557  Sum_probs=168.5

Q ss_pred             chHHHHHHHHHHHHHHhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 025526           77 NLFDRLARVVKSYANAILSSFEDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQK  156 (251)
Q Consensus        77 ~if~Rl~~lira~in~~lDk~EDP~~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~  156 (251)
                      |||+||+++|+|++|+++|++|||++||+|+||||+++|.+++++++.+++.+++++++++++...+.+|+.+|..||++
T Consensus         1 ~lf~Rl~~~~~a~~~~~ld~~EDP~~~l~q~ird~e~~l~~a~~~~a~~~a~~~~le~~~~~~~~~~~~~~~~A~~Al~~   80 (221)
T PF04012_consen    1 GLFKRLKTLVKANINELLDKAEDPEKMLEQAIRDMEEQLRKARQALARVMANQKRLERKLDEAEEEAEKWEKQAELALAA   80 (221)
T ss_pred             CHHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            79999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCc
Q 025526          157 GEEDLAREALKRRKSYADNANALKAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKARAQSAKFVFPLSLLEFPVFS  236 (251)
Q Consensus       157 G~EdLAreAL~rk~~~e~~~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~LkAr~~~AkAq~~vn~~l~~~~~  236 (251)
                      |+||||++||.++.+++.++..|+.+++.+..++++|+..+.+++.+|.+++++++.|++|.++++++.++++++++++.
T Consensus        81 g~edLAr~al~~k~~~e~~~~~l~~~~~~~~~~~~~l~~~l~~l~~kl~e~k~k~~~l~ar~~~a~a~~~~~~~~~~~~~  160 (221)
T PF04012_consen   81 GREDLAREALQRKADLEEQAERLEQQLDQAEAQVEKLKEQLEELEAKLEELKSKREELKARENAAKAQKKVNEALASFSV  160 (221)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHH
Q 025526          237 ASATSLVLLVM  247 (251)
Q Consensus       237 ~~a~~~f~~~~  247 (251)
                      +++...|+.+-
T Consensus       161 ~~a~~~~er~e  171 (221)
T PF04012_consen  161 SSAMDSFERME  171 (221)
T ss_pred             cchHHHHHHHH
Confidence            99999998753

The PspA protein, a negative regulator of the Escherichia coli phage shock psp operon, is produced when virulence factors are exported through secretins in many Gram-negative pathogenic bacteria and its homologue in plants, VIPP1, plays a critical role in thylakoid biogenesis, essential for photosynthesis. Activation of transcription by the enhancer-dependent bacterial sigma54-containing RNA polymerase occurs through ATP hydrolysis-driven protein conformational changes enabled by activator proteins that belong to the large AAA(+) mechanochemical protein family. It has been shown that PspA directly and specifically acts upon and binds to the AAA(+) domain of the PspF transcription activator [].

>PF03357 Snf7: Snf7; InterPro: IPR005024 This is a family of eukaryotic proteins which are variously described as either hypothetical protein, developmental protein or related to yeast SNF7

Probab=97.34  E-value=0.0084  Score=49.76  Aligned_cols=115  Identities=23%  Similarity=0.199  Sum_probs=81.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          121 ATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALKAQLDQQKNVVNNLVSNTRLL  200 (251)
Q Consensus       121 ~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~EdLAreAL~rk~~~e~~~~~l~~ql~~~~~~v~~Lk~~l~~L  200 (251)
                      ++..+....++++++...++..+.+...+|..++++|+.+.|+-.|.++..++..+..+...+..++           .+
T Consensus         2 ai~~Lk~~~~~L~~~~~~le~~i~~~~~~~k~~~~~~~~~~A~~~lk~~k~~~k~~~~~~~~~~~l~-----------~~   70 (171)
T PF03357_consen    2 AILKLKKTIRRLEKQIKRLEKKIKKLEKKAKKAIKKGNKERAKIYLKRKKRLEKQLEKLLNQLSNLE-----------SV   70 (171)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHCTT-HHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------HH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------HH
Confidence            3556677788999999999999999999999999999999999999999999888877776655444           44


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCchhHHHHHHHH
Q 025526          201 ESKIQEARSKKDTLKARAQSAKFVFPLSLLEFPVFSASATSLVLLV  246 (251)
Q Consensus       201 e~ki~e~k~k~~~LkAr~~~AkAq~~vn~~l~~~~~~~a~~~f~~~  246 (251)
                      ..+|+.+......+.+=....++-++++..+.--+....+..|...
T Consensus        71 ~~~ie~a~~~~~v~~al~~~~~~Lk~~~~~i~~~~v~~~~d~~~e~  116 (171)
T PF03357_consen   71 LLQIETAQSNQQVVKALKQSSKALKKINKQINLDKVEKLMDDFQEE  116 (171)
T ss_dssp             HHHHHHHHHHHHHSSS----SHHHHHHHHSTTSCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHH
Confidence            4455555666666666666666666666655544455555555443

The family contains human CHMP1. CHMP1 (CHromatin Modifying Protein; CHarged Multivesicular body Protein), is encoded by an alternative open reading frame in the PRSM1 gene [] and is conserved in both complex and simple eukaryotes. CHMP1 contains a predicted bipartite nuclear localisation signal and distributes as distinct forms to the cytoplasm and the nuclear matrix in all cell lines tested. Human CHMP1 is strongly implicated in multivesicular body formation. A multivesicular body is a vesicle-filled endosome that targets proteins to the interior of lysosomes. Immunocytochemistry and biochemical fractionation localise CHMP1 to early endosomes and CHMP1 physically interacts with SKD1/VPS4, a highly conserved protein directly linked to multivesicular body sorting in yeast. Similar to the action of a mutant SKD1 protein, over expression of a fusion derivative of human CHMP1 dilates endosomal compartments and disrupts the normal distribution of several endosomal markers. Genetic studies in Saccharomyces cerevisiae (Baker's yeast) further support a conserved role of CHMP1 in vesicle trafficking. Deletion of CHM1, the budding yeast homologue of CHMP1, results in defective sorting of carboxypeptidases S and Y and produces abnormal, multi-lamellar prevacuolar compartments. This phenotype classifies CHM1 as a member of the class E vacuolar protein sorting genes []. ; GO: 0015031 protein transport; PDB: 2V6X_B 2W2U_D 2GD5_D 3FRT_B 3FRV_A 4ABM_D 3EAB_H 3HTU_D.

>PTZ00446 vacuolar sorting protein SNF7-like; Provisional

Probab=97.07  E-value=0.066  Score=46.82  Aligned_cols=74  Identities=18%  Similarity=0.144  Sum_probs=58.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          123 AQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALKAQLDQQKNVVNNLVSN  196 (251)
Q Consensus       123 A~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~EdLAreAL~rk~~~e~~~~~l~~ql~~~~~~v~~Lk~~  196 (251)
                      ..+......++.+...++..+++....|+..+.+|+-+-|..+|.+|+.|+.++..+..++.+++.++..+...
T Consensus        30 l~Lk~~~~~L~krq~~Le~kIe~e~~~Ak~~~~~~kk~~Al~~LkrKK~~E~ql~q~~~ql~nLEq~~~~iE~a  103 (191)
T PTZ00446         30 LKNREAIDALEKKQVQVEKKIKQLEIEAKQKVEQNQMSNAKILLKRKKLYEQEIENILNNRLTLEDNMINLENM  103 (191)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344445556666666666666667788889999999999999999999999999999999988887776543

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

Probab=97.06  E-value=0.18  Score=44.21  Aligned_cols=136  Identities=15%  Similarity=0.155  Sum_probs=100.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Q 025526          101 EKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASED-----WYRKAQLALQKGEEDLAREALKRRKSYADN  175 (251)
Q Consensus       101 ~~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~-----~e~rA~~AL~~G~EdLAreAL~rk~~~e~~  175 (251)
                      ..-++..|.+++..+..+...--........++..+......+..     -++-|+.|+..-     ..+-.....++.+
T Consensus        32 ird~e~~l~~a~~~~a~~~a~~~~le~~~~~~~~~~~~~~~~A~~Al~~g~edLAr~al~~k-----~~~e~~~~~l~~~  106 (221)
T PF04012_consen   32 IRDMEEQLRKARQALARVMANQKRLERKLDEAEEEAEKWEKQAELALAAGREDLAREALQRK-----ADLEEQAERLEQQ  106 (221)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH-----HHHHHHHHHHHHH
Confidence            344666666777777776666666666666666666666555544     355666666542     2344556778899


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCchhHHHHHHH
Q 025526          176 ANALKAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKARAQSAKFVFPLSLLEFPVFSASATSLVLL  245 (251)
Q Consensus       176 ~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~LkAr~~~AkAq~~vn~~l~~~~~~~a~~~f~~  245 (251)
                      +..+..+++.+...+.+|+..+.+++.+...+..+....+++.....+...++    ..+..+.|++++-
T Consensus       107 ~~~~~~~~~~l~~~l~~l~~kl~e~k~k~~~l~ar~~~a~a~~~~~~~~~~~~----~~~a~~~~er~e~  172 (221)
T PF04012_consen  107 LDQAEAQVEKLKEQLEELEAKLEELKSKREELKARENAAKAQKKVNEALASFS----VSSAMDSFERMEE  172 (221)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCC----ccchHHHHHHHHH
Confidence            99999999999999999999999999999999999999999988887655544    5567777877764

The PspA protein, a negative regulator of the Escherichia coli phage shock psp operon, is produced when virulence factors are exported through secretins in many Gram-negative pathogenic bacteria and its homologue in plants, VIPP1, plays a critical role in thylakoid biogenesis, essential for photosynthesis. Activation of transcription by the enhancer-dependent bacterial sigma54-containing RNA polymerase occurs through ATP hydrolysis-driven protein conformational changes enabled by activator proteins that belong to the large AAA(+) mechanochemical protein family. It has been shown that PspA directly and specifically acts upon and binds to the AAA(+) domain of the PspF transcription activator [].

>PRK10698 phage shock protein PspA; Provisional

Probab=96.83  E-value=0.2  Score=44.64  Aligned_cols=134  Identities=9%  Similarity=0.021  Sum_probs=92.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHH
Q 025526          104 LEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASE-----DWYRKAQLALQKGEEDLAREALKRRKSYADNANA  178 (251)
Q Consensus       104 LdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~-----~~e~rA~~AL~~G~EdLAreAL~rk~~~e~~~~~  178 (251)
                      ++..+.+++..+.++...--........++.........+.     -.++=|+.||..-     ..+......++.++..
T Consensus        36 m~~~l~~~r~alA~~~A~~k~~er~~~~~~~~~~~~e~kA~~Al~~G~EdLAr~AL~~K-----~~~~~~~~~l~~~~~~  110 (222)
T PRK10698         36 MEDTLVEVRSTSARALAEKKQLTRRIEQAEAQQVEWQEKAELALRKEKEDLARAALIEK-----QKLTDLIATLEHEVTL  110 (222)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHH-----HHHHHHHHHHHHHHHH
Confidence            33444444555555444444444444444444444443333     3455666666542     3456777899999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCchhHHHHHHHH
Q 025526          179 LKAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKARAQSAKFVFPLSLLEFPVFSASATSLVLLV  246 (251)
Q Consensus       179 l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~LkAr~~~AkAq~~vn~~l~~~~~~~a~~~f~~~  246 (251)
                      .+.+++.++..+.+|+..+.+++.|...+..+.....++....++-.    .+...+..+.|++||.-
T Consensus       111 ~~~~~~~L~~~l~~L~~ki~eak~k~~~L~aR~~~A~a~~~~~~~~~----~~~~~~a~~~f~rmE~k  174 (222)
T PRK10698        111 VDETLARMKKEIGELENKLSETRARQQALMLRHQAASSSRDVRRQLD----SGKLDEAMARFESFERR  174 (222)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh----CCCcchHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999988766554    35556777888888753

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

Probab=96.78  E-value=0.19  Score=46.91  Aligned_cols=120  Identities=15%  Similarity=0.194  Sum_probs=54.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          102 KILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALKA  181 (251)
Q Consensus       102 ~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~EdLAreAL~rk~~~e~~~~~l~~  181 (251)
                      ++++.....+++.+..++...+.+......+..-+..+....+.+....... +..-+++...--.+...+...+..+..
T Consensus       145 ~ll~gl~~~L~~~~~~L~~D~~~L~~~~~~l~~~~~~l~~~~~~L~~e~~~L-k~~~~e~~~~D~~eL~~lr~eL~~~~~  223 (325)
T PF08317_consen  145 QLLEGLKEGLEENLELLQEDYAKLDKQLEQLDELLPKLRERKAELEEELENL-KQLVEEIESCDQEELEALRQELAEQKE  223 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHhhhhhcCHHHHHHHHHHHHHHHH
Confidence            3444444445555555555444444444444444444444444433333321 111111222222333334444555555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          182 QLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKARAQSAK  222 (251)
Q Consensus       182 ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~LkAr~~~Ak  222 (251)
                      .++..+..+.+++..+..++.+|++...++..+.+..+.++
T Consensus       224 ~i~~~k~~l~el~~el~~l~~~i~~~~~~k~~l~~eI~e~~  264 (325)
T PF08317_consen  224 EIEAKKKELAELQEELEELEEKIEELEEQKQELLAEIAEAE  264 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55555555555555555555555555555555555544433

>PRK09039 hypothetical protein; Validated

Probab=96.56  E-value=0.41  Score=45.23  Aligned_cols=52  Identities=17%  Similarity=0.143  Sum_probs=33.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          173 ADNANALKAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKARAQSAKFV  224 (251)
Q Consensus       173 e~~~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~LkAr~~~AkAq  224 (251)
                      ..++..|..+++.++.++..|...|..++.+..+.+.+++.|..+.+.+.++
T Consensus       136 ~~~V~~L~~qI~aLr~Qla~le~~L~~ae~~~~~~~~~i~~L~~~L~~a~~~  187 (343)
T PRK09039        136 LAQVELLNQQIAALRRQLAALEAALDASEKRDRESQAKIADLGRRLNVALAQ  187 (343)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3445666666666666666666666666666666666666666666666544

>TIGR02977 phageshock_pspA phage shock protein A

Probab=96.44  E-value=0.57  Score=41.35  Aligned_cols=129  Identities=10%  Similarity=0.053  Sum_probs=69.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          107 AVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASE-----DWYRKAQLALQKGEEDLAREALKRRKSYADNANALKA  181 (251)
Q Consensus       107 ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~-----~~e~rA~~AL~~G~EdLAreAL~rk~~~e~~~~~l~~  181 (251)
                      .|.+++..+.++...--........++.........+.     --+.-|+.||.     --.........++.++..++.
T Consensus        39 ~l~~ar~~lA~~~a~~k~~e~~~~~~~~~~~~~~~~A~~Al~~G~EdLAr~Al~-----~k~~~~~~~~~l~~~~~~~~~  113 (219)
T TIGR02977        39 TLVEVRTTSARTIADKKELERRVSRLEAQVADWQEKAELALSKGREDLARAALI-----EKQKAQELAEALERELAAVEE  113 (219)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHH
Confidence            44455555555444433333333334443333333332     23445555554     233344555566777777777


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCchhHHHHHH
Q 025526          182 QLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKARAQSAKFVFPLSLLEFPVFSASATSLVL  244 (251)
Q Consensus       182 ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~LkAr~~~AkAq~~vn~~l~~~~~~~a~~~f~  244 (251)
                      +++.++..+..|+..+..++.+-..+..+.....++.....+-.    .....+....|++++
T Consensus       114 ~v~~l~~~l~~L~~ki~~~k~k~~~l~ar~~~A~a~~~~~~~~~----~~~~~~a~~~fer~e  172 (219)
T TIGR02977       114 TLAKLQEDIAKLQAKLAEARARQKALAIRHQAASSRLDVRRQLD----SGRSDEAMARFEQYE  172 (219)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh----CCCchhHHHHHHHHH
Confidence            77777777777777777777777777777766666555443332    233334445555553

Members of this family are the phage shock protein PspA, from the phage shock operon. This is a narrower family than the set of PspA and its homologs, sometimes several in a genome, as described by PFAM model pfam04012. PspA appears to maintain the protonmotive force under stress conditions that include overexpression of certain phage secretins, heat shock, ethanol, and protein export defects.

>PRK09039 hypothetical protein; Validated

Probab=96.37  E-value=0.56  Score=44.35  Aligned_cols=54  Identities=19%  Similarity=0.204  Sum_probs=36.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          164 EALKRRKSYADNANALKAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKAR  217 (251)
Q Consensus       164 eAL~rk~~~e~~~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~LkAr  217 (251)
                      ++-.....+..+++.|+.|+..++..++..+......+.+|++++.+++...++
T Consensus       134 e~~~~V~~L~~qI~aLr~Qla~le~~L~~ae~~~~~~~~~i~~L~~~L~~a~~~  187 (343)
T PRK09039        134 RALAQVELLNQQIAALRRQLAALEAALDASEKRDRESQAKIADLGRRLNVALAQ  187 (343)
T ss_pred             HhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444555666666777777777777777777666666666666666666666655

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

Probab=96.25  E-value=0.55  Score=43.87  Aligned_cols=114  Identities=14%  Similarity=0.158  Sum_probs=82.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHH
Q 025526          101 EKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALK  180 (251)
Q Consensus       101 ~~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~EdLAreAL~rk~~~e~~~~~l~  180 (251)
                      ...|+..+..|+++...+...+..+-...-.+..+++.+..++..+...... +...|-+--..+-.+...+...++..+
T Consensus       151 ~~~L~~~~~~L~~D~~~L~~~~~~l~~~~~~l~~~~~~L~~e~~~Lk~~~~e-~~~~D~~eL~~lr~eL~~~~~~i~~~k  229 (325)
T PF08317_consen  151 KEGLEENLELLQEDYAKLDKQLEQLDELLPKLRERKAELEEELENLKQLVEE-IESCDQEELEALRQELAEQKEEIEAKK  229 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh-hhhcCHHHHHHHHHHHHHHHHHHHHHH
Confidence            4567777888888888888888888888888888888888888888777665 566665555566666777777777666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          181 AQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLK  215 (251)
Q Consensus       181 ~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~Lk  215 (251)
                      ..+++.+.+...++..+..++.++.+++.+...+.
T Consensus       230 ~~l~el~~el~~l~~~i~~~~~~k~~l~~eI~e~~  264 (325)
T PF08317_consen  230 KELAELQEELEELEEKIEELEEQKQELLAEIAEAE  264 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            66666666666666666666666666666655554

>PRK04863 mukB cell division protein MukB; Provisional

Probab=96.12  E-value=1.1  Score=50.17  Aligned_cols=114  Identities=20%  Similarity=0.212  Sum_probs=73.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHH-HHHHHHHHHHHHHHHHH
Q 025526          101 EKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLA-REALKRRKSYADNANAL  179 (251)
Q Consensus       101 ~~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~EdLA-reAL~rk~~~e~~~~~l  179 (251)
                      ..+|+.+ --......+++..+...-....+++..+.++..++.+++.++..|.+.-...-- .....++..+...+..+
T Consensus       282 R~liEEA-ag~r~rk~eA~kkLe~tE~nL~rI~diL~ELe~rL~kLEkQaEkA~kyleL~ee~lr~q~ei~~l~~~LeEL  360 (1486)
T PRK04863        282 RVHLEEA-LELRRELYTSRRQLAAEQYRLVEMARELAELNEAESDLEQDYQAASDHLNLVQTALRQQEKIERYQADLEEL  360 (1486)
T ss_pred             HHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3777777 457788888888888888888888888888998998888888888665332211 12244455555555666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          180 KAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLK  215 (251)
Q Consensus       180 ~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~Lk  215 (251)
                      ...++.....++.++..+..++.++.+++.+.+.++
T Consensus       361 ee~Lee~eeeLeeleeeleeleeEleelEeeLeeLq  396 (1486)
T PRK04863        361 EERLEEQNEVVEEADEQQEENEARAEAAEEEVDELK  396 (1486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            666655555555555555555444444444444443

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

Probab=96.11  E-value=0.97  Score=40.48  Aligned_cols=55  Identities=11%  Similarity=0.109  Sum_probs=27.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          175 NANALKAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKARAQSAKFVFPLSL  229 (251)
Q Consensus       175 ~~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~LkAr~~~AkAq~~vn~  229 (251)
                      ....|+.++...+.++..+...+.+|+..+..++.|...++++.....+......
T Consensus        93 ~~~~le~~~~~~~~~~~~~~~~~~~l~~~~~~Le~Ki~e~~~~~~~l~ar~~~ak  147 (225)
T COG1842          93 EKQSLEDLAKALEAELQQAEEQVEKLKKQLAALEQKIAELRAKKEALKARKAAAK  147 (225)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444445555555555555555555555555555555555544444444333

>PRK11637 AmiB activator; Provisional

Probab=96.09  E-value=1.1  Score=43.16  Aligned_cols=40  Identities=18%  Similarity=0.179  Sum_probs=16.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          104 LEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQAS  143 (251)
Q Consensus       104 LdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~  143 (251)
                      ++..|.+.+..|......+..+-.+...++.++++++.++
T Consensus        80 l~~qi~~~~~~i~~~~~~i~~~~~ei~~l~~eI~~~q~~l  119 (428)
T PRK11637         80 QEEAISQASRKLRETQNTLNQLNKQIDELNASIAKLEQQQ  119 (428)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333444444444444444444444444444444444333

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

Probab=95.54  E-value=1.7  Score=38.82  Aligned_cols=127  Identities=14%  Similarity=0.144  Sum_probs=69.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc--CCHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          104 LEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQK--GEEDLAREALKRRKSYADNANALKA  181 (251)
Q Consensus       104 LdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~--G~EdLAreAL~rk~~~e~~~~~l~~  181 (251)
                      +.....+.+..+.++.+-+..+-..-.+.+.+.+.++..+..++......-..  .-+.--..+-.+...|+.++..|..
T Consensus       104 a~~~~ee~e~k~~E~~rkl~~~E~~Le~aEeR~e~~E~ki~eLE~el~~~~~~lk~lE~~~~~~~~re~~~e~~i~~L~~  183 (237)
T PF00261_consen  104 AKRRAEEAERKYEEVERKLKVLEQELERAEERAEAAESKIKELEEELKSVGNNLKSLEASEEKASEREDEYEEKIRDLEE  183 (237)
T ss_dssp             HHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhchhHHHHHHHHHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHH
Confidence            33333344444444444444444444444444444444444444333322110  0011223456666778888888888


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC
Q 025526          182 QLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKARAQSAKFVFPLSLLEF  232 (251)
Q Consensus       182 ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~LkAr~~~AkAq~~vn~~l~  232 (251)
                      .+..++...+.....+..|+..|..+...+...+.+...  .+..+..+++
T Consensus       184 ~lkeaE~Rae~aE~~v~~Le~~id~le~eL~~~k~~~~~--~~~eld~~l~  232 (237)
T PF00261_consen  184 KLKEAENRAEFAERRVKKLEKEIDRLEDELEKEKEKYKK--VQEELDQTLN  232 (237)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHH
Confidence            888888888888888888888888887777766655443  3334444443

In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].; PDB: 2EFR_A 2Z5H_C 2Z5I_D 2D3E_B 2EFS_D 3U59_B 1C1G_C 1IHQ_A 3AZD_B 1MV4_B ....

>smart00787 Spc7 Spc7 kinetochore protein

Probab=95.52  E-value=2.1  Score=40.09  Aligned_cols=112  Identities=16%  Similarity=0.192  Sum_probs=52.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          103 ILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALKAQ  182 (251)
Q Consensus       103 mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~EdLAreAL~rk~~~e~~~~~l~~q  182 (251)
                      .|+..+..|+.+.......+..+-.-.-.+..+++.+..++..+.+.... ++.-+.+..+.+=       +.+.....+
T Consensus       148 ~L~~~~~~l~~D~~~L~~~~~~l~~~~~~l~~~~~~L~~e~~~L~~~~~e-~~~~d~~eL~~lk-------~~l~~~~~e  219 (312)
T smart00787      148 GLDENLEGLKEDYKLLMKELELLNSIKPKLRDRKDALEEELRQLKQLEDE-LEDCDPTELDRAK-------EKLKKLLQE  219 (312)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHH-HHhCCHHHHHHHH-------HHHHHHHHH
Confidence            34444444444444444444444444444555555555555554443333 2232333333332       334444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          183 LDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKARAQSAK  222 (251)
Q Consensus       183 l~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~LkAr~~~Ak  222 (251)
                      +......+++++..+..++.+|++...++..+...-+.++
T Consensus       220 i~~~~~~l~e~~~~l~~l~~~I~~~~~~k~e~~~~I~~ae  259 (312)
T smart00787      220 IMIKVKKLEELEEELQELESKIEDLTNKKSELNTEIAEAE  259 (312)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444445555555555555555555555555555444444

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

>KOG2911 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.41  E-value=0.78  Score=44.66  Aligned_cols=79  Identities=19%  Similarity=0.316  Sum_probs=68.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          115 LVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALKAQLDQQKNVVNNL  193 (251)
Q Consensus       115 L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~EdLAreAL~rk~~~e~~~~~l~~ql~~~~~~v~~L  193 (251)
                      +.+.-.+++.++-....+.++++.+++++++...+++.|+..|.--+|..-|.+++..++.++..-..+.+++..+.++
T Consensus       228 it~~D~~V~~L~~~~~~L~kqie~L~qeie~~~~~~r~~~k~g~K~iA~~ylr~rk~~eK~~er~~~~l~~l~~vl~~I  306 (439)
T KOG2911|consen  228 ITEIDGSVADLIQARAKLAKQIEFLEQEIEKSKEKLRQALKEGKKQIAITYLRARKLLEKDLERKVSSLNNLETVLSQI  306 (439)
T ss_pred             CccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHH
Confidence            4455667788888888999999999999999999999999999999999999999999999998888877766655544

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

Probab=95.19  E-value=2.3  Score=38.35  Aligned_cols=155  Identities=18%  Similarity=0.225  Sum_probs=98.9

Q ss_pred             cccCCCcccccCchHHHHHHH------HHHHHHHhhcccC--------CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526           65 YRQGGGALNTRMNLFDRLARV------VKSYANAILSSFE--------DPEKILEQAVLEMNDDLVKMRQATAQVLASQK  130 (251)
Q Consensus        65 ~~~~~~~~~~~M~if~Rl~~l------ira~in~~lDk~E--------DP~~mLdQ~Ireme~~L~kar~~lA~v~A~~k  130 (251)
                      .++|+.....-..+++|..++      +...|+++++++.        -|..-|..++.|.+.=|.++|.-  .......
T Consensus        72 ~~~~~~l~~~t~~t~~~a~~L~~~i~~l~~~i~~l~~~~~~l~~~~~~~~~~~l~~~l~ea~~mL~emr~r--~f~~~~~  149 (264)
T PF06008_consen   72 SRKAQQLNNNTERTLQRAQDLEQFIQNLQDNIQELIEQVESLNENGDQLPSEDLQRALAEAQRMLEEMRKR--DFTPQRQ  149 (264)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcccCCCCHHHHHHHHHHHHHHHHHHHhc--cchhHHH
Confidence            345555555555666666664      4455666666652        25677777777887777777665  2444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          131 RLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALKAQLDQQKNVVNNLVSNTRLLESKIQEARSK  210 (251)
Q Consensus       131 ~le~k~~~~~~~~~~~e~rA~~AL~~G~EdLAreAL~rk~~~e~~~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k  210 (251)
                      ..+.++.+++.........-.. .....+.|+..+-....+|...+..++..+.++...+.+...-...-+..+.+++.+
T Consensus       150 ~Ae~El~~A~~LL~~v~~~~~~-~~~~~~~l~~~i~~~L~~~~~kL~Dl~~~l~eA~~~~~ea~~ln~~n~~~l~~~~~k  228 (264)
T PF06008_consen  150 NAEDELKEAEDLLSRVQKWFQK-PQQENESLAEAIRDDLNDYNAKLQDLRDLLNEAQNKTREAEDLNRANQKNLEDLEKK  228 (264)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhh-HHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444554444432222221111 345667888888888899999999999999998888888777666666666666666


Q ss_pred             HHHHHHHHHHHH
Q 025526          211 KDTLKARAQSAK  222 (251)
Q Consensus       211 ~~~LkAr~~~Ak  222 (251)
                      +..+.-......
T Consensus       229 ~~~l~~~~~~~~  240 (264)
T PF06008_consen  229 KQELSEQQNEVS  240 (264)
T ss_pred             HHHHHHHHHHHH
Confidence            666665544443

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

>smart00787 Spc7 Spc7 kinetochore protein

Probab=95.04  E-value=3.1  Score=39.02  Aligned_cols=35  Identities=20%  Similarity=0.379  Sum_probs=14.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          175 NANALKAQLDQQKNVVNNLVSNTRLLESKIQEARS  209 (251)
Q Consensus       175 ~~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~  209 (251)
                      .+..++.++......++..+....+++..|++++.
T Consensus       226 ~l~e~~~~l~~l~~~I~~~~~~k~e~~~~I~~ae~  260 (312)
T smart00787      226 KLEELEEELQELESKIEDLTNKKSELNTEIAEAEK  260 (312)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33334444444444444444444444444444433

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

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

Probab=95.03  E-value=2.4  Score=43.04  Aligned_cols=135  Identities=16%  Similarity=0.218  Sum_probs=99.9

Q ss_pred             ccccCchHHHHHHH-----HHHHHHHhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526           72 LNTRMNLFDRLARV-----VKSYANAILSSFEDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDW  146 (251)
Q Consensus        72 ~~~~M~if~Rl~~l-----ira~in~~lDk~EDP~~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~  146 (251)
                      ..++|+++.+|.++     +-..+-.++++..+    ..-.++++...+.+....++.....+-.+++-.+.+.+.-...
T Consensus        86 E~afl~vye~L~eaPDP~pll~sa~~~l~k~~~----~~~e~~~lk~~lee~~~el~~~k~qq~~v~~l~e~l~k~~~~~  161 (629)
T KOG0963|consen   86 EAAFLDVYEKLIEAPDPVPLLASAAELLNKQQK----ASEENEELKEELEEVNNELADLKTQQVTVRNLKERLRKLEQLL  161 (629)
T ss_pred             HHHHHHHHHHHhhCCCCchHHHHHHHHhhhhhh----hhhhHHHHHHHHHHHHHHHhhhhhhHHHHHhHHHHHHHHHHHH
Confidence            34566666666642     22233333333333    2234567788888888888888888888888888888888888


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          147 YRKAQLALQKGEEDLAREALKRRKSYADNANALKAQLDQQKNVVNNLVSNTRLLESKIQEARSK  210 (251)
Q Consensus       147 e~rA~~AL~~G~EdLAreAL~rk~~~e~~~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k  210 (251)
                      +..++.++.-=.+.+.+....+...+.+.-..++.++..++..+..|...+.....++-+++++
T Consensus       162 ~~~ie~~a~~~e~~~~q~~~e~e~~L~~~~~~~~~q~~~le~ki~~lq~a~~~t~~el~~~~s~  225 (629)
T KOG0963|consen  162 EIFIENAANETEEKLEQEWAEREAGLKDEEQNLQEQLEELEKKISSLQSAIEDTQNELFDLKSK  225 (629)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHh
Confidence            8888888888888999999999999999999999999999999998877776666666655555

>PRK11637 AmiB activator; Provisional

Probab=94.95  E-value=3.3  Score=39.92  Aligned_cols=43  Identities=19%  Similarity=0.212  Sum_probs=20.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          102 KILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASE  144 (251)
Q Consensus       102 ~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~  144 (251)
                      .-+++.|.+.+.+|.+....+.....+...++.+++..+....
T Consensus        85 ~~~~~~i~~~~~~i~~~~~ei~~l~~eI~~~q~~l~~~~~~l~  127 (428)
T PRK11637         85 SQASRKLRETQNTLNQLNKQIDELNASIAKLEQQQAAQERLLA  127 (428)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344445555555555555555554444444444444444433

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

Probab=94.92  E-value=3.9  Score=39.62  Aligned_cols=50  Identities=18%  Similarity=0.258  Sum_probs=31.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          102 KILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQ  151 (251)
Q Consensus       102 ~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~  151 (251)
                      +..++..++++.++.++.+.++++......+..+++.+..+-.+++.++.
T Consensus       119 ~~v~~~~~~a~~n~~kAqQ~lar~t~Q~q~lqtrl~~l~~qr~ql~aq~q  168 (499)
T COG4372         119 EAVRQELAAARQNLAKAQQELARLTKQAQDLQTRLKTLAEQRRQLEAQAQ  168 (499)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55566666666666666666666666666666666666665555555544

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

Probab=94.79  E-value=3.3  Score=38.78  Aligned_cols=11  Identities=27%  Similarity=0.280  Sum_probs=5.3

Q ss_pred             cCccceeEeec
Q 025526           43 NGGVGALKVTR   53 (251)
Q Consensus        43 ~~~~~~~~~~~   53 (251)
                      +|-+..+.|..
T Consensus        51 ~G~v~~i~V~e   61 (423)
T TIGR01843        51 GGIVREILVRE   61 (423)
T ss_pred             CcEEEEEEeCC
Confidence            34455555543

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.

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

Probab=94.78  E-value=5.9  Score=42.20  Aligned_cols=105  Identities=20%  Similarity=0.332  Sum_probs=59.7

Q ss_pred             hcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHH------HHHHH
Q 025526           94 LSSFEDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLA------REALK  167 (251)
Q Consensus        94 lDk~EDP~~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~EdLA------reAL~  167 (251)
                      +.+.||..++.+  +..|.=++.+...=-.++|..+-.+++++.+.+.+..+...    |-....+++|      .-+--
T Consensus       245 ~kR~EDk~Kl~E--lekmkiqleqlqEfkSkim~qqa~Lqrel~raR~e~keaqe----~ke~~k~emad~ad~iEmaTl  318 (1243)
T KOG0971|consen  245 LKRAEDKAKLKE--LEKMKIQLEQLQEFKSKIMEQQADLQRELKRARKEAKEAQE----AKERYKEEMADTADAIEMATL  318 (1243)
T ss_pred             hhhhhhHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHh
Confidence            335678777665  34555555555555566677777777777766655443221    1111112121      11223


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          168 RRKSYADNANALKAQLDQQKNVVNNLVSNTRLLESKI  204 (251)
Q Consensus       168 rk~~~e~~~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki  204 (251)
                      .|.-.|++++.|+..++..++.+++|..++.-|+..+
T Consensus       319 dKEmAEERaesLQ~eve~lkEr~deletdlEILKaEm  355 (1243)
T KOG0971|consen  319 DKEMAEERAESLQQEVEALKERVDELETDLEILKAEM  355 (1243)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4555667777777777777777777777776666443

>PRK02224 chromosome segregation protein; Provisional

Probab=94.76  E-value=3.9  Score=42.75  Aligned_cols=32  Identities=16%  Similarity=0.214  Sum_probs=12.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          115 LVKMRQATAQVLASQKRLENKCKAAEQASEDW  146 (251)
Q Consensus       115 L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~  146 (251)
                      +..++..+..+......++.++..+.....++
T Consensus       208 l~~~~~~l~el~~~i~~~~~~~~~l~~~l~~l  239 (880)
T PRK02224        208 LNGLESELAELDEEIERYEEQREQARETRDEA  239 (880)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333334444443334444443333333333

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

Probab=94.64  E-value=1.6  Score=47.30  Aligned_cols=111  Identities=14%  Similarity=0.124  Sum_probs=56.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HhcCCHHHHHHHHHHHHHHHHHHHHH
Q 025526          102 KILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLA--LQKGEEDLAREALKRRKSYADNANAL  179 (251)
Q Consensus       102 ~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~A--L~~G~EdLAreAL~rk~~~e~~~~~l  179 (251)
                      +-.+-.|+..++.|.+++..++.+..-....-.++.+++..++++..++..-  -.+.=+..|-.+..+..+.++.+..+
T Consensus      1587 ~~a~~~~~~a~~~l~kv~~~t~~aE~~~~~a~q~~~eL~~~~e~lk~~~~qns~~A~~a~~~a~sa~~~A~~a~q~~~~l 1666 (1758)
T KOG0994|consen 1587 QGADRDIRLAQQLLAKVQEETAAAEKLATSATQQLGELETRMEELKHKAAQNSAEAKQAEKTAGSAKEQALSAEQGLEIL 1666 (1758)
T ss_pred             HhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4445556666666666666666666666666666666666666665554320  01111344555555555555555555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          180 KAQLDQQKNVVNNLVSNTRLLESKIQEARSKKD  212 (251)
Q Consensus       180 ~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~  212 (251)
                      +..++...+.+++--+.....+.+.+.++.+-.
T Consensus      1667 q~~~~~~~~l~~~r~~g~~~ar~rAe~L~~eA~ 1699 (1758)
T KOG0994|consen 1667 QKYYELVDRLLEKRMEGSQAARERAEQLRTEAE 1699 (1758)
T ss_pred             HHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHH
Confidence            555554444443333333333333444443333

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

Probab=94.52  E-value=2.3  Score=41.73  Aligned_cols=120  Identities=16%  Similarity=0.107  Sum_probs=54.1

Q ss_pred             CHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHH
Q 025526           99 DPEKILEQAVLEMND-DLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNAN  177 (251)
Q Consensus        99 DP~~mLdQ~Ireme~-~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~EdLAreAL~rk~~~e~~~~  177 (251)
                      +-.+..+|.+-+|++ +|...++-+-..+.+.+.++......++...-.+++... ++.--+++..+.-..+..-...+.
T Consensus       332 Sqr~y~e~~~~e~~qsqlen~k~~~e~~~~e~~~l~~~~~~~e~~kk~~e~k~~q-~q~k~~k~~kel~~~~E~n~~l~k  410 (493)
T KOG0804|consen  332 SQRKYYEQIMSEYEQSQLENQKQYYELLITEADSLKQESSDLEAEKKIVERKLQQ-LQTKLKKCQKELKEEREENKKLIK  410 (493)
T ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHh
Confidence            334556666666666 555555554444444444444444444333333333322 111111222222222211122222


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          178 ALKAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKARAQ  219 (251)
Q Consensus       178 ~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~LkAr~~  219 (251)
                      .+..-...+++..+..+..+...+.+|.+++.++..|+.-..
T Consensus       411 nq~vw~~kl~~~~e~~~~~~~s~d~~I~dLqEQlrDlmf~le  452 (493)
T KOG0804|consen  411 NQDVWRGKLKELEEREKEALGSKDEKITDLQEQLRDLMFFLE  452 (493)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHheehh
Confidence            233333444555555556666666666666666666665443

>TIGR00606 rad50 rad50

Probab=94.50  E-value=2.6  Score=46.40  Aligned_cols=65  Identities=14%  Similarity=0.230  Sum_probs=51.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHH
Q 025526          165 ALKRRKSYADNANALKAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKARAQ--SAKFVFPLSL  229 (251)
Q Consensus       165 AL~rk~~~e~~~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~LkAr~~--~AkAq~~vn~  229 (251)
                      .+.++..++.++..+...++.+...+..++..+..+..++..+..+++.++.+.+  ..+++.+++.
T Consensus       879 ~l~~r~~le~~L~el~~el~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  945 (1311)
T TIGR00606       879 NLQRRQQFEEQLVELSTEVQSLIREIKDAKEQDSPLETFLEKDQQEKEELISSKETSNKKAQDKVND  945 (1311)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6778899999999999999999999999999999999999999888888775533  3334444433

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

>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=94.48  E-value=2.9  Score=43.48  Aligned_cols=146  Identities=12%  Similarity=0.200  Sum_probs=80.6

Q ss_pred             chHHHHHHHHHHHHHH-----hhcccCCH-----HHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526           77 NLFDRLARVVKSYANA-----ILSSFEDP-----EKILEQAVLEMNDDL-VKMRQATAQVLASQKRLENKCKAAEQASED  145 (251)
Q Consensus        77 ~if~Rl~~lira~in~-----~lDk~EDP-----~~mLdQ~Ireme~~L-~kar~~lA~v~A~~k~le~k~~~~~~~~~~  145 (251)
                      ++-..+..++....+.     ..|+..+|     -.+|-|++.-+.+++ .+....-..+....+.++.+++....++.+
T Consensus       504 sF~~~Ik~lL~r~~~qPill~s~~k~~~p~~~E~l~lL~~a~~vlreeYi~~~~~ar~ei~~rv~~Lk~~~e~Ql~~L~~  583 (717)
T PF10168_consen  504 SFEKHIKSLLQRSSSQPILLKSSDKSSSPSPQECLELLSQATKVLREEYIEKQDLAREEIQRRVKLLKQQKEQQLKELQE  583 (717)
T ss_pred             hHHHHHHHHhcCCCCCCeecCCCccccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4555566666655331     23555543     267777777776663 444444444444445555555555555555


Q ss_pred             HHHHHHHHHhcCCHHHHH---HHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          146 WYRKAQLALQKGEEDLAR---EALKRRKSYADNANALKAQLDQ----QKNVVNNLVSNTRLLESKIQEARSKKDTLKARA  218 (251)
Q Consensus       146 ~e~rA~~AL~~G~EdLAr---eAL~rk~~~e~~~~~l~~ql~~----~~~~v~~Lk~~l~~Le~ki~e~k~k~~~LkAr~  218 (251)
                      .++. ...++...+.||.   ++..+...+.++++.+-..+..    ......++++.++.++.+++.++...+.++.+.
T Consensus       584 l~e~-~~~l~~~ae~LaeR~e~a~d~Qe~L~~R~~~vl~~l~~~~P~LS~AEr~~~~EL~~~~~~l~~l~~si~~lk~k~  662 (717)
T PF10168_consen  584 LQEE-RKSLRESAEKLAERYEEAKDKQEKLMKRVDRVLQLLNSQLPVLSEAEREFKKELERMKDQLQDLKASIEQLKKKL  662 (717)
T ss_pred             HHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5554 2224444444442   3344444444445444444433    344556677778888888888888888887777


Q ss_pred             HHHHH
Q 025526          219 QSAKF  223 (251)
Q Consensus       219 ~~AkA  223 (251)
                      +.++.
T Consensus       663 ~~Q~~  667 (717)
T PF10168_consen  663 DYQQR  667 (717)
T ss_pred             HHHHH
Confidence            66554

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 [].

>TIGR02168 SMC_prok_B chromosome segregation protein SMC, common bacterial type

Probab=94.46  E-value=3.8  Score=43.30  Aligned_cols=14  Identities=21%  Similarity=0.306  Sum_probs=5.0

Q ss_pred             HHHHHHHHHHHHHH
Q 025526          197 TRLLESKIQEARSK  210 (251)
Q Consensus       197 l~~Le~ki~e~k~k  210 (251)
                      +..+..++..++.+
T Consensus       463 ~~~l~~~~~~~~~~  476 (1179)
T TIGR02168       463 LEELREELEEAEQA  476 (1179)
T ss_pred             HHHHHHHHHHHHHH
Confidence            33333333333333

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.

>TIGR03319 YmdA_YtgF conserved hypothetical protein YmdA/YtgF

Probab=94.46  E-value=3  Score=41.61  Aligned_cols=49  Identities=18%  Similarity=0.170  Sum_probs=24.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          101 EKILEQAVLEMNDDLVKMRQAT-AQVLASQKRLENKCKAAEQASEDWYRK  149 (251)
Q Consensus       101 ~~mLdQ~Ireme~~L~kar~~l-A~v~A~~k~le~k~~~~~~~~~~~e~r  149 (251)
                      ..++++...+.++...+++... ..+...+..+++++++.+.++.+++++
T Consensus        35 e~i~keA~~eAke~~ke~~~EaeeE~~~~R~Ele~el~~~e~rL~qrE~r   84 (514)
T TIGR03319        35 KRIIEEAKKEAETLKKEALLEAKEEVHKLRAELERELKERRNELQRLERR   84 (514)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4555666666655555555443 333334444444444444444444443

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

Probab=94.40  E-value=2.5  Score=35.10  Aligned_cols=64  Identities=16%  Similarity=0.152  Sum_probs=40.2

Q ss_pred             HHHHHHHhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526           86 VKSYANAILSSFEDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLA  153 (251)
Q Consensus        86 ira~in~~lDk~EDP~~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~A  153 (251)
                      ++.-...+.+++    .-++.-+.++++...+....+..+...-..++.+++.+...+......+...
T Consensus         5 lk~E~d~a~~r~----e~~e~~~K~le~~~~~~E~EI~sL~~K~~~lE~eld~~~~~l~~~k~~lee~   68 (143)
T PF12718_consen    5 LKLEADNAQDRA----EELEAKVKQLEQENEQKEQEITSLQKKNQQLEEELDKLEEQLKEAKEKLEES   68 (143)
T ss_pred             HHHhHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH
Confidence            444444444444    4466666677777777777777776666777777777766666665555443

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 [].

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

Probab=94.18  E-value=4.2  Score=36.82  Aligned_cols=129  Identities=16%  Similarity=0.160  Sum_probs=65.2

Q ss_pred             HHHHhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHhcC-CHHHHHH
Q 025526           89 YANAILSSFEDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRK---AQLALQKG-EEDLARE  164 (251)
Q Consensus        89 ~in~~lDk~EDP~~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~r---A~~AL~~G-~EdLAre  164 (251)
                      .+..-+++++--..=..-++..++..+..++..+....-....++.++...+..+.+...+   ++..+... ++.-.+.
T Consensus        14 ~lD~e~~rl~~~~~~~~~~l~k~~~e~e~~~~~~~~~~~e~e~le~qv~~~e~ei~~~r~r~~~~e~kl~~v~~~~e~~a   93 (239)
T COG1579          14 KLDLEKDRLEPRIKEIRKALKKAKAELEALNKALEALEIELEDLENQVSQLESEIQEIRERIKRAEEKLSAVKDERELRA   93 (239)
T ss_pred             HHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccHHHHHH
Confidence            4444444444222223333334444444444444444444444444444444444333332   23334333 3333444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          165 ALKRRKSYADNANALKAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKAR  217 (251)
Q Consensus       165 AL~rk~~~e~~~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~LkAr  217 (251)
                      .-.+.....++...+..++..+...+.++...+..++.++..++.....+..+
T Consensus        94 L~~E~~~ak~r~~~le~el~~l~~~~~~l~~~i~~l~~~~~~~e~~~~e~~~~  146 (239)
T COG1579          94 LNIEIQIAKERINSLEDELAELMEEIEKLEKEIEDLKERLERLEKNLAEAEAR  146 (239)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44555666666677777777766666666666666666666666665555544

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

Probab=94.14  E-value=3.3  Score=41.68  Aligned_cols=99  Identities=17%  Similarity=0.273  Sum_probs=55.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          114 DLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLA--LQKGEEDLAREALKRRKSYADNANALKAQLDQQKNVVN  191 (251)
Q Consensus       114 ~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~A--L~~G~EdLAreAL~rk~~~e~~~~~l~~ql~~~~~~v~  191 (251)
                      ++..++..+...-.....++.++..+..+++++..+-..+  ...|...-.+..+.+...++.....++..+..++..+.
T Consensus        93 El~~ar~~l~e~~~~ra~~e~ei~kl~~e~~elr~~~~~~~k~~~~~re~~~~~~~~l~~leAe~~~~krr~~~le~e~~  172 (546)
T KOG0977|consen   93 ELATARKLLDETARERAKLEIEITKLREELKELRKKLEKAEKERRGAREKLDDYLSRLSELEAEINTLKRRIKALEDELK  172 (546)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhhhHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHH
Confidence            4445555555555555555555555555555555555554  33444445555555555666666666666666666666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHH
Q 025526          192 NLVSNTRLLESKIQEARSKKD  212 (251)
Q Consensus       192 ~Lk~~l~~Le~ki~e~k~k~~  212 (251)
                      .|+.....|...|..++..++
T Consensus       173 ~Lk~en~rl~~~l~~~r~~ld  193 (546)
T KOG0977|consen  173 RLKAENSRLREELARARKQLD  193 (546)
T ss_pred             HHHHHhhhhHHHHHHHHHHHH
Confidence            666666666655555554443

>PRK10884 SH3 domain-containing protein; Provisional

Probab=94.07  E-value=2.7  Score=37.08  Aligned_cols=60  Identities=13%  Similarity=0.237  Sum_probs=40.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCC
Q 025526          175 NANALKAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKARAQSAKFVFPLSLLEFPV  234 (251)
Q Consensus       175 ~~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~LkAr~~~AkAq~~vn~~l~~~  234 (251)
                      ....++..+++....+.+|++...+|+.++.+++.+.+.+.+.....+-...+.=.+.|.
T Consensus       119 ~~~~l~~~~~~~~~~~~~L~~~n~~L~~~l~~~~~~~~~l~~~~~~~~~~~~~~wf~~Gg  178 (206)
T PRK10884        119 RTAEMQQKVAQSDSVINGLKEENQKLKNQLIVAQKKVDAANLQLDDKQRTIIMQWFMYGG  178 (206)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHch
Confidence            344445555555566666777777777777777777777777777777666666666553

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

Probab=93.94  E-value=4.4  Score=36.12  Aligned_cols=116  Identities=16%  Similarity=0.168  Sum_probs=51.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          102 KILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALKA  181 (251)
Q Consensus       102 ~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~EdLAreAL~rk~~~e~~~~~l~~  181 (251)
                      +.|+.-....++.+......+..+.......+++|++......-.+.....|-     +-+..+=.+...++..+..+..
T Consensus        81 k~lE~r~~~~eeri~~lE~~l~ea~~~~ee~e~k~~E~~rkl~~~E~~Le~aE-----eR~e~~E~ki~eLE~el~~~~~  155 (237)
T PF00261_consen   81 KVLENREQSDEERIEELEQQLKEAKRRAEEAERKYEEVERKLKVLEQELERAE-----ERAEAAESKIKELEEELKSVGN  155 (237)
T ss_dssp             HHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHhhhchhHHHHHHHHHHHHH
Confidence            33444444444444444444444444444444444444444444433333331     1222333344444444444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          182 QLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKARAQSAK  222 (251)
Q Consensus       182 ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~LkAr~~~Ak  222 (251)
                      .+..++....+.......++.+|..+..++...-.|...|.
T Consensus       156 ~lk~lE~~~~~~~~re~~~e~~i~~L~~~lkeaE~Rae~aE  196 (237)
T PF00261_consen  156 NLKSLEASEEKASEREDEYEEKIRDLEEKLKEAENRAEFAE  196 (237)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444444444444445555555555555555555544443

In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].; PDB: 2EFR_A 2Z5H_C 2Z5I_D 2D3E_B 2EFS_D 3U59_B 1C1G_C 1IHQ_A 3AZD_B 1MV4_B ....

>PRK04863 mukB cell division protein MukB; Provisional

Probab=93.91  E-value=3.4  Score=46.33  Aligned_cols=46  Identities=11%  Similarity=0.097  Sum_probs=22.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          102 KILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWY  147 (251)
Q Consensus       102 ~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e  147 (251)
                      .-|++.|..+++...+++..+-++.......+..+..+....+.+.
T Consensus       988 ~~Le~~Le~iE~~~~~areql~qaq~q~~q~~q~l~slksslq~~~ 1033 (1486)
T PRK04863        988 EKLRQRLEQAEQERTRAREQLRQAQAQLAQYNQVLASLKSSYDAKR 1033 (1486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4455555555555555555555554444444444444444444333

>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=93.85  E-value=4.7  Score=43.81  Aligned_cols=46  Identities=20%  Similarity=0.244  Sum_probs=25.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          104 LEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRK  149 (251)
Q Consensus       104 LdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~r  149 (251)
                      +++.+++++..+.+++-.+-...++.+++...+..++.++...+..
T Consensus       804 ~ee~~~~lr~~~~~l~~~l~~~~~~~k~~~~~~~~l~~~i~~~E~~  849 (1293)
T KOG0996|consen  804 LEERVRKLRERIPELENRLEKLTASVKRLAELIEYLESQIAELEAA  849 (1293)
T ss_pred             HHHHHHHHHHhhHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444455555555555555555556666655566666666555554

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

Probab=93.81  E-value=3.1  Score=33.87  Aligned_cols=99  Identities=19%  Similarity=0.257  Sum_probs=63.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HhcCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          107 AVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLA---LQKGEEDLAREALKRRKSYADNANALKAQL  183 (251)
Q Consensus       107 ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~A---L~~G~EdLAreAL~rk~~~e~~~~~l~~ql  183 (251)
                      .+.+.-.++.+....+..++..+..++.++.+.....++++.=...|   ..-|+      +|.+. +.+.-...|+...
T Consensus         7 ~~q~~l~q~QqLq~ql~~~~~qk~~le~qL~E~~~al~Ele~l~eD~~vYk~VG~------llvk~-~k~~~~~eL~er~   79 (119)
T COG1382           7 EVQAQLAQLQQLQQQLQKVILQKQQLEAQLKEIEKALEELEKLDEDAPVYKKVGN------LLVKV-SKEEAVDELEERK   79 (119)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcccHHHHHhhh------HHhhh-hHHHHHHHHHHHH
Confidence            44556667788889999999999999999999887777666543332   22332      23322 4555555555555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          184 DQQKNVVNNLVSNTRLLESKIQEARSKKD  212 (251)
Q Consensus       184 ~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~  212 (251)
                      +..+-.+..|+.+-+.++.++.+++.++.
T Consensus        80 E~Le~ri~tLekQe~~l~e~l~eLq~~i~  108 (119)
T COG1382          80 ETLELRIKTLEKQEEKLQERLEELQSEIQ  108 (119)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55556666666666556555555555544

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

Probab=93.74  E-value=2.6  Score=41.41  Aligned_cols=98  Identities=13%  Similarity=0.113  Sum_probs=71.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          104 LEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALKAQL  183 (251)
Q Consensus       104 LdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~EdLAreAL~rk~~~e~~~~~l~~ql  183 (251)
                      .+|++.+.-.+....++..-.+.+.++-+++++.+.+..+++|+++-.. ++.-+.-|-+.-...+..+++.-+.++..+
T Consensus       352 ~k~~~e~~~~e~~~l~~~~~~~e~~kk~~e~k~~q~q~k~~k~~kel~~-~~E~n~~l~knq~vw~~kl~~~~e~~~~~~  430 (493)
T KOG0804|consen  352 QKQYYELLITEADSLKQESSDLEAEKKIVERKLQQLQTKLKKCQKELKE-EREENKKLIKNQDVWRGKLKELEEREKEAL  430 (493)
T ss_pred             HHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHhhHHHHHHHHHHHHHHHHHHH
Confidence            5677777777777788888999999999999999999999999988654 343344455555555556666666666666


Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q 025526          184 DQQKNVVNNLVSNTRLLES  202 (251)
Q Consensus       184 ~~~~~~v~~Lk~~l~~Le~  202 (251)
                      ......+..|+++++.|--
T Consensus       431 ~s~d~~I~dLqEQlrDlmf  449 (493)
T KOG0804|consen  431 GSKDEKITDLQEQLRDLMF  449 (493)
T ss_pred             HHHHHHHHHHHHHHHhHhe
Confidence            6666667777766666543

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

Probab=93.73  E-value=4.4  Score=35.48  Aligned_cols=121  Identities=20%  Similarity=0.216  Sum_probs=85.4

Q ss_pred             HHHHHHHHHHHHHhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCH
Q 025526           80 DRLARVVKSYANAILSSFEDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEE  159 (251)
Q Consensus        80 ~Rl~~lira~in~~lDk~EDP~~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~E  159 (251)
                      .+-+.=++.+-|++...-=+=++-|...|.+|+......+..++.+..+-+++..-+..++.++.++......- .+...
T Consensus         8 e~af~~iK~YYndIT~~NL~lIksLKeei~emkk~e~~~~k~m~ei~~eN~~L~epL~~a~~e~~eL~k~L~~y-~kdK~   86 (201)
T PF13851_consen    8 EKAFQEIKNYYNDITLNNLELIKSLKEEIAEMKKKEERNEKLMAEISQENKRLSEPLKKAEEEVEELRKQLKNY-EKDKQ   86 (201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHH-HHHHH
Confidence            34445566677777666556678899999999999999999999999999999999999999999998887752 33222


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          160 DLAREALKRRKSYADNANALKAQLDQQKNVVNNLVSNTRLLES  202 (251)
Q Consensus       160 dLAreAL~rk~~~e~~~~~l~~ql~~~~~~v~~Lk~~l~~Le~  202 (251)
                      .|+ .+-.+....+.++..++-+.+.+.....++.....+|..
T Consensus        87 ~L~-~~k~rl~~~ek~l~~Lk~e~evL~qr~~kle~ErdeL~~  128 (201)
T PF13851_consen   87 SLQ-NLKARLKELEKELKDLKWEHEVLEQRFEKLEQERDELYR  128 (201)
T ss_pred             HHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            222 233344455666666666666666666666555554443

>PTZ00464 SNF-7-like protein; Provisional

Probab=93.71  E-value=4.7  Score=35.74  Aligned_cols=37  Identities=11%  Similarity=0.160  Sum_probs=29.6

Q ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          158 EEDLAREALKRRKSYADNANALKAQLDQQKNVVNNLV  194 (251)
Q Consensus       158 ~EdLAreAL~rk~~~e~~~~~l~~ql~~~~~~v~~Lk  194 (251)
                      .-.-|..+|.+|+.||.++..+..++.++++.+..+.
T Consensus        59 ~K~~Al~~LK~KK~~E~ql~~l~~q~~nleq~~~~ie   95 (211)
T PTZ00464         59 HKQRAMQLLQQKRMYQNQQDMMMQQQFNMDQLQFTTE   95 (211)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3457888999999999999998888877776665554

>PRK02224 chromosome segregation protein; Provisional

Probab=93.62  E-value=11  Score=39.52  Aligned_cols=45  Identities=16%  Similarity=0.305  Sum_probs=25.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          163 REALKRRKSYADNANALKAQLDQQKNVVNNLVSNTRLLESKIQEA  207 (251)
Q Consensus       163 reAL~rk~~~e~~~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~  207 (251)
                      ..+..+...++..+..+...+...+...+.+...+..++.++.++
T Consensus       649 e~l~~~~~~~~~~~~~l~~~l~~~~~~~~~l~~~i~~~~~~~e~~  693 (880)
T PRK02224        649 EEAREDKERAEEYLEQVEEKLDELREERDDLQAEIGAVENELEEL  693 (880)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344455555666666665555555655555555555555544443

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

Probab=93.60  E-value=7.8  Score=37.87  Aligned_cols=112  Identities=17%  Similarity=0.146  Sum_probs=66.7

Q ss_pred             hhcccCCHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 025526           93 ILSSFEDPE--KILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRK  170 (251)
Q Consensus        93 ~lDk~EDP~--~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~EdLAreAL~rk~  170 (251)
                      ++..-|||.  .-+-.+++.|...+.+.-.++......-...+..+..-+.+...    ++.........|++...++  
T Consensus       135 ll~~~eda~~~~R~ai~~~~l~~~~~~~i~~l~~~~~~l~~~~~~iaaeq~~l~~----~~~eq~~q~~kl~~~~~E~--  208 (420)
T COG4942         135 LLVSPEDAQRSVRLAIYYGALNPARAERIDALKATLKQLAAVRAEIAAEQAELTT----LLSEQRAQQAKLAQLLEER--  208 (420)
T ss_pred             hhcChhhhhHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHH--
Confidence            355556764  55666677776666666666666655555555555544444332    2223333444555554444  


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          171 SYADNANALKAQLDQQKNVVNNLVSNTRLLESKIQEARSKKD  212 (251)
Q Consensus       171 ~~e~~~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~  212 (251)
                        ......+..++...++..++|..+-..|+..|..+.....
T Consensus       209 --kk~~~~l~~~l~~~q~~l~eL~~~~~~L~~~Ias~e~~aA  248 (420)
T COG4942         209 --KKTLAQLNSELSADQKKLEELRANESRLKNEIASAEAAAA  248 (420)
T ss_pred             --HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHH
Confidence              4445566777777777777777777777777777775554

>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=93.56  E-value=6.4  Score=36.82  Aligned_cols=105  Identities=9%  Similarity=0.128  Sum_probs=65.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          110 EMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALKAQLDQQKNV  189 (251)
Q Consensus       110 eme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~EdLAreAL~rk~~~e~~~~~l~~ql~~~~~~  189 (251)
                      ++...+.+++.++......-..++.+++.++..+..+...... -..+...-....+....++.+....+..+|...+..
T Consensus        71 ql~~~~~k~~~si~~q~~~i~~l~~~i~~l~~~i~~y~~~~~~-~~~~~~~~~~n~~~~~~~~t~~la~~t~~L~~~~~~  149 (301)
T PF06120_consen   71 QLRANIAKAEESIAAQKRAIEDLQKKIDSLKDQIKNYQQQLAE-KGITENGYIINHLMSQADATRKLAEATRELAVAQER  149 (301)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc-cCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4445555566666666655666666666666666665533211 111122222344455667777778888888888888


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          190 VNNLVSNTRLLESKIQEARSKKDTLK  215 (251)
Q Consensus       190 v~~Lk~~l~~Le~ki~e~k~k~~~Lk  215 (251)
                      ++++..........+.....++-.+.
T Consensus       150 l~q~~~k~~~~q~~l~~~~~~~~~~i  175 (301)
T PF06120_consen  150 LEQMQSKASETQATLNDLTEQRIDLI  175 (301)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            88888888888888888777777554

>PF13166 AAA_13: AAA domain

Probab=93.53  E-value=5.7  Score=40.42  Aligned_cols=65  Identities=8%  Similarity=0.099  Sum_probs=46.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHhhCCCC
Q 025526          171 SYADNANALKAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKARAQ-SAKFVFPLSLLEFPVF  235 (251)
Q Consensus       171 ~~e~~~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~LkAr~~-~AkAq~~vn~~l~~~~  235 (251)
                      .+...+..+...+...+..+..+...+..++..+...+.+...|.+... ...+...+|..+..++
T Consensus       407 ~~~~~i~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~i~~l~~~~~~~~~~~~~iN~~L~~~g  472 (712)
T PF13166_consen  407 KLKEDIEEYQKEIKELEKEINSLEKKLKKAKEEIKKIEKEIKELEAQLKNTEPAADRINEELKRLG  472 (712)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhC
Confidence            4445555666666667777777777777777777777777777777755 6777788888777663

>TIGR02231 conserved hypothetical protein

Probab=93.53  E-value=1  Score=44.55  Aligned_cols=33  Identities=9%  Similarity=0.128  Sum_probs=18.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          107 AVLEMNDDLVKMRQATAQVLASQKRLENKCKAA  139 (251)
Q Consensus       107 ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~  139 (251)
                      .+.+++++|.+++..++++.+...-++.+++-+
T Consensus        72 ~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~l  104 (525)
T TIGR02231        72 RLAELRKQIRELEAELRDLEDRGDALKALAKFL  104 (525)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455566666666666666655555555554433

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.

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

Probab=93.41  E-value=14  Score=40.08  Aligned_cols=122  Identities=14%  Similarity=0.201  Sum_probs=67.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          104 LEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALKAQL  183 (251)
Q Consensus       104 LdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~EdLAreAL~rk~~~e~~~~~l~~ql  183 (251)
                      -+-.|.++.+.+...+...-++.......++.+.+.....+.++++...+-..    +-...-.++.+.++.+..|+.++
T Consensus       335 ~d~Ei~~~r~~~~~~~re~~~~~~~~~~~~n~i~~~k~~~d~l~k~I~~~~~~----~~~~~~~~~~e~e~k~~~L~~ev  410 (1074)
T KOG0250|consen  335 QDEEIEEARKDLDDLRREVNDLKEEIREIENSIRKLKKEVDRLEKQIADLEKQ----TNNELGSELEERENKLEQLKKEV  410 (1074)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHhhhhhhHHHHHHHHHHHHHHH
Confidence            33444555555555555555555555555555555555555555555443222    22333344455566667777777


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHH
Q 025526          184 DQQKNVVNNLVSNTRLLESKIQEARSKKDTLKAR-AQSAKFVFPLSL  229 (251)
Q Consensus       184 ~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~LkAr-~~~AkAq~~vn~  229 (251)
                      +.++.++..|+..+..+..++.+.+-++..+.-. ....+..+..+.
T Consensus       411 ek~e~~~~~L~~e~~~~~~~~~~~~ee~~~i~~~i~~l~k~i~~~~~  457 (1074)
T KOG0250|consen  411 EKLEEQINSLREELNEVKEKAKEEEEEKEHIEGEILQLRKKIENISE  457 (1074)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            7777777777777776666666666555555322 333334444443

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

Probab=93.40  E-value=7.4  Score=41.50  Aligned_cols=115  Identities=16%  Similarity=0.245  Sum_probs=82.2

Q ss_pred             CCCcccccCchHHHHHHHHHHHHHHhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526           68 GGGALNTRMNLFDRLARVVKSYANAILSSFEDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWY  147 (251)
Q Consensus        68 ~~~~~~~~M~if~Rl~~lira~in~~lDk~EDP~~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e  147 (251)
                      ||++-+.--+=|++|-. -...+.+.+=++-|-..--.|-+..+.+++..-+..+-.+...+.++.++++.++..+.++.
T Consensus       359 G~~~~~~ss~qfkqlEq-qN~rLKdalVrLRDlsA~ek~d~qK~~kelE~k~sE~~eL~r~kE~Lsr~~d~aEs~iadlk  437 (1243)
T KOG0971|consen  359 GSDGQAASSYQFKQLEQ-QNARLKDALVRLRDLSASEKQDHQKLQKELEKKNSELEELRRQKERLSRELDQAESTIADLK  437 (1243)
T ss_pred             CCCCcccchHHHHHHHH-HHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55553433356766643 23444555556666555556667778888888999999999999999999999999999999


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          148 RKAQLALQKGEEDLAREALKRRKSYADNANALKAQLDQ  185 (251)
Q Consensus       148 ~rA~~AL~~G~EdLAreAL~rk~~~e~~~~~l~~ql~~  185 (251)
                      .+.-.||  |-|+.-.....++..+|+.+..|+..+.+
T Consensus       438 EQVDAAl--GAE~MV~qLtdknlnlEekVklLeetv~d  473 (1243)
T KOG0971|consen  438 EQVDAAL--GAEEMVEQLTDKNLNLEEKVKLLEETVGD  473 (1243)
T ss_pred             HHHHHhh--cHHHHHHHHHhhccCHHHHHHHHHHHHHH
Confidence            9999987  55666666666666666666666655543

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

Probab=93.24  E-value=8  Score=41.73  Aligned_cols=45  Identities=9%  Similarity=0.267  Sum_probs=17.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          106 QAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKA  150 (251)
Q Consensus       106 Q~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA  150 (251)
                      +.+++......+++........+-+.++..++.+++.+.+++.+-
T Consensus       344 ~~~~~~~re~~~~~~~~~~~~n~i~~~k~~~d~l~k~I~~~~~~~  388 (1074)
T KOG0250|consen  344 KDLDDLRREVNDLKEEIREIENSIRKLKKEVDRLEKQIADLEKQT  388 (1074)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333333333333344444444444444443333

>PHA02562 46 endonuclease subunit; Provisional

Probab=93.03  E-value=5.4  Score=39.24  Aligned_cols=44  Identities=11%  Similarity=0.125  Sum_probs=19.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          167 KRRKSYADNANALKAQLDQQKNVVNNLVSNTRLLESKIQEARSK  210 (251)
Q Consensus       167 ~rk~~~e~~~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k  210 (251)
                      .+...++..+..++.........+.++...+..+...+.+...+
T Consensus       358 ~~~~~l~~ei~~l~~~~~~~~~~l~~l~~~l~~~~~~~~~~~ke  401 (562)
T PHA02562        358 DKAKKVKAAIEELQAEFVDNAEELAKLQDELDKIVKTKSELVKE  401 (562)
T ss_pred             HHHHHHHHHHHHHHhhhhchHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444444444444444444444444444444333

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

Probab=93.03  E-value=7  Score=35.67  Aligned_cols=103  Identities=14%  Similarity=0.229  Sum_probs=50.8

Q ss_pred             HHHHHHHHhhcccCCH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHH
Q 025526           85 VVKSYANAILSSFEDP----EKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEED  160 (251)
Q Consensus        85 lira~in~~lDk~EDP----~~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~Ed  160 (251)
                      .+.+.++.+-++...+    ..+++..|++++..|..+...-+.+......+...++++..+.+..              
T Consensus        29 ~Le~~i~~~~~~~~~~~~~~~~~ye~el~~lr~~id~~~~eka~l~~e~~~l~~e~~~~r~k~e~e--------------   94 (312)
T PF00038_consen   29 RLESEIEELREKKGEEVSRIKEMYEEELRELRRQIDDLSKEKARLELEIDNLKEELEDLRRKYEEE--------------   94 (312)
T ss_dssp             HHHHHHHH---------HHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------------
T ss_pred             hhHHHHHHHHhcccccCcccccchhhHHHHhHHhhhhHHHHhhHHhhhhhhHHHHHHHHHHHHHHH--------------
Confidence            4555666665553222    3556666666666666666655555555555555555554444443              


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          161 LAREALKRRKSYADNANALKAQLDQQKNVVNNLVSNTRLLESKIQE  206 (251)
Q Consensus       161 LAreAL~rk~~~e~~~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e  206 (251)
                           ......++..+..++..++........|...+..|+..|.-
T Consensus        95 -----~~~~~~le~el~~lrk~ld~~~~~r~~le~~i~~L~eEl~f  135 (312)
T PF00038_consen   95 -----LAERKDLEEELESLRKDLDEETLARVDLENQIQSLKEELEF  135 (312)
T ss_dssp             -----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             -----HHHHHHHHHHHhhhhhhhhhhhhhHhHHHHHHHHHHHHHHH
Confidence                 44444555555555555555555545554444444444433

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 ....

>TIGR01005 eps_transp_fam exopolysaccharide transport protein family

Probab=92.94  E-value=5.5  Score=41.12  Aligned_cols=111  Identities=10%  Similarity=0.092  Sum_probs=59.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHH
Q 025526          106 QAVLEMNDDLVKMRQATAQVLASQ-------KRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANA  178 (251)
Q Consensus       106 Q~Ireme~~L~kar~~lA~v~A~~-------k~le~k~~~~~~~~~~~e~rA~~AL~~G~EdLAreAL~rk~~~e~~~~~  178 (251)
                      ..|.+++.++.+++..++.....-       ..++.++++++.++.+--++....+           -.+......+...
T Consensus       288 ~~i~~L~~~l~~l~~~~~~l~~~y~~~hP~v~~l~~qi~~l~~~i~~e~~~~~~~~-----------~~~~~~a~~~~~~  356 (754)
T TIGR01005       288 DLIQRLRERQAELRATIADLSTTMLANHPRVVAAKSSLADLDAQIRSELQKITKSL-----------LMQADAAQARESQ  356 (754)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHH
Confidence            678888888888888877766643       3344444444444433222222211           1112222333334


Q ss_pred             HHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          179 LKAQLDQQKNVVNNL---VSNTRLLESKIQEARSKKDTLKARAQSAKFVFPL  227 (251)
Q Consensus       179 l~~ql~~~~~~v~~L---k~~l~~Le~ki~e~k~k~~~LkAr~~~AkAq~~v  227 (251)
                      ++.++++++..+.++   ...+..|+...+-.+.-.+.+..|.+.++.+...
T Consensus       357 L~~~l~~~~~~~~~~~~~~~e~~~L~Re~~~~~~~Y~~ll~r~~e~~~~~~~  408 (754)
T TIGR01005       357 LVSDVNQLKAASAQAGEQQVDLDALQRDAAAKRQLYESYLTNYRQAASRQNY  408 (754)
T ss_pred             HHHHHHHHHHHHHhCcHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcC
Confidence            444444444443333   4556666666677777777777777776666543

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.

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

Probab=92.87  E-value=8.5  Score=42.00  Aligned_cols=51  Identities=18%  Similarity=0.305  Sum_probs=22.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          171 SYADNANALKAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKARAQSA  221 (251)
Q Consensus       171 ~~e~~~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~LkAr~~~A  221 (251)
                      .....+..++.+++.....+..++..+..++.++..++.+...+..+....
T Consensus       443 ~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~l  493 (1163)
T COG1196         443 ELNEELEELEEQLEELRDRLKELERELAELQEELQRLEKELSSLEARLDRL  493 (1163)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333444444444444444444444444444444444444444444443333

>PF10046 BLOC1_2: Biogenesis of lysosome-related organelles complex-1 subunit 2 ; InterPro: IPR019269 This entry represents a family of proteins that play a role in cellular proliferation, as well as in the biogenesis of specialised organelles of the endosomal-lysosomal system []

Probab=92.83  E-value=3.6  Score=31.92  Aligned_cols=95  Identities=20%  Similarity=0.317  Sum_probs=61.0

Q ss_pred             hHHHHHHHHHHHHHHhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 025526           78 LFDRLARVVKSYANAILSSFEDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKG  157 (251)
Q Consensus        78 if~Rl~~lira~in~~lDk~EDP~~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G  157 (251)
                      .|..+..++.+.+.......    .+|+.+=+..-..+.+++..++.+-..-..++.++.++                  
T Consensus         4 ~f~~~~~~v~~el~~t~~d~----~LLe~mN~~~~~kY~~~~~~~~~l~~~~~~l~~k~~~l------------------   61 (99)
T PF10046_consen    4 MFSKVSKYVESELEATNEDY----NLLENMNKATSLKYKKMKDIAAGLEKNLEDLNQKYEEL------------------   61 (99)
T ss_pred             HHHHHHHHHHHhHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------------------
Confidence            56777777777766554433    34555544555555555555555544444444444333                  


Q ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          158 EEDLAREALKRRKSYADNANALKAQLDQQKNVVNNLVSNTRLLESKIQE  206 (251)
Q Consensus       158 ~EdLAreAL~rk~~~e~~~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e  206 (251)
                                  ..+-+++..++.++..++..+..|..-..+||.|+..
T Consensus        62 ------------~~~l~~Id~Ie~~V~~LE~~v~~LD~ysk~LE~k~k~   98 (99)
T PF10046_consen   62 ------------QPYLQQIDQIEEQVTELEQTVYELDEYSKELESKFKK   98 (99)
T ss_pred             ------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence                        3455667888888888889999999999999988864

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

Probab=92.56  E-value=6  Score=33.69  Aligned_cols=118  Identities=17%  Similarity=0.245  Sum_probs=71.1

Q ss_pred             hHHHHHHHHHHHHHHhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 025526           78 LFDRLARVVKSYANAILSSFEDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKG  157 (251)
Q Consensus        78 if~Rl~~lira~in~~lDk~EDP~~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G  157 (251)
                      |++.+-+.+..+-..+++=.|.    ..+.+..+..+|.+++..++.++.....++.+....+....+...    -...-
T Consensus         3 Ii~~ti~~ie~sK~qIf~I~E~----~R~E~~~l~~EL~evk~~v~~~I~evD~Le~~er~aR~rL~eVS~----~f~~y   74 (159)
T PF05384_consen    3 IIKKTIDTIESSKEQIFEIAEQ----ARQEYERLRKELEEVKEEVSEVIEEVDKLEKRERQARQRLAEVSR----NFDRY   74 (159)
T ss_pred             HHHHHHHHHHhHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh----hhccc
Confidence            3344444444444444333333    566677888899999999999999999998888777766655433    24455


Q ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          158 EEDLAREALKRRKSYADNANALKAQLDQQKNVVNNLVSNTRLLESK  203 (251)
Q Consensus       158 ~EdLAreAL~rk~~~e~~~~~l~~ql~~~~~~v~~Lk~~l~~Le~k  203 (251)
                      .|+--++|-.+..+++-++..++..-.++...-+.|+..+..++.-
T Consensus        75 sE~dik~AYe~A~~lQ~~L~~~re~E~qLr~rRD~LErrl~~l~~t  120 (159)
T PF05384_consen   75 SEEDIKEAYEEAHELQVRLAMLREREKQLRERRDELERRLRNLEET  120 (159)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5666677766655555555555554444444444444444444433

The DegS-DegU two-component regulatory system of Bacillus subtilis controls various processes that characterise the transition from the exponential to the stationary growth phase, including the induction of extracellular degradative enzymes, expression of late competence genes and down-regulation of the sigma D regulon []. The entry also contains one sequence Q8R9D3 from SWISSPROT from Thermoanaerobacter tengcongensis which is described as a sensory transduction histidine kinase.; GO: 0016301 kinase activity, 0007165 signal transduction

>PRK03918 chromosome segregation protein; Provisional

Probab=92.29  E-value=16  Score=38.06  Aligned_cols=17  Identities=24%  Similarity=0.264  Sum_probs=8.5

Q ss_pred             hHHHHHHHHHHHHHHhh
Q 025526           78 LFDRLARVVKSYANAIL   94 (251)
Q Consensus        78 if~Rl~~lira~in~~l   94 (251)
                      +|....-+-.|.+..++
T Consensus       125 ~f~~~~~~~Qg~~~~~~  141 (880)
T PRK03918        125 VFLNAIYIRQGEIDAIL  141 (880)
T ss_pred             HhceeEEEeccchHHHh
Confidence            44333334456666655

>KOG3232 consensus Vacuolar assembly/sorting protein DID2 [Intracellular trafficking, secretion, and vesicular transport]

Probab=92.14  E-value=5  Score=34.85  Aligned_cols=50  Identities=24%  Similarity=0.278  Sum_probs=39.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHH
Q 025526          118 MRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALK  167 (251)
Q Consensus       118 ar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~EdLAreAL~  167 (251)
                      +...+=...--.++|+++-..++++-..-..++..|+++|+.|.||--.+
T Consensus         7 le~~lf~LkF~sk~L~r~a~kceKeEK~Ek~K~kkAi~kgN~dvArIyAe   56 (203)
T KOG3232|consen    7 LENHLFDLKFTSKQLQRQAKKCEKEEKAEKAKLKKAIQKGNMDVARIYAE   56 (203)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcchHHHHHHHH
Confidence            34445556666788888888888888888889999999999999987643

>TIGR03017 EpsF chain length determinant protein EpsF

Probab=91.74  E-value=11  Score=36.16  Aligned_cols=33  Identities=12%  Similarity=0.187  Sum_probs=20.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          195 SNTRLLESKIQEARSKKDTLKARAQSAKFVFPL  227 (251)
Q Consensus       195 ~~l~~Le~ki~e~k~k~~~LkAr~~~AkAq~~v  227 (251)
                      ..+..|+..++-.+.-.+.|..|...++.....
T Consensus       342 ~~~~~L~r~~~~~~~~y~~ll~r~~e~~l~~~~  374 (444)
T TIGR03017       342 DEMSVLQRDVENAQRAYDAAMQRYTQTRIEAQS  374 (444)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            345566666666677777777777666655433

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.

>KOG2910 consensus Uncharacterized conserved protein predicted to be involved in protein sorting [General function prediction only]

Probab=91.71  E-value=8.8  Score=33.79  Aligned_cols=70  Identities=19%  Similarity=0.193  Sum_probs=52.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          125 VLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALKAQLDQQKNVVNNLV  194 (251)
Q Consensus       125 v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~EdLAreAL~rk~~~e~~~~~l~~ql~~~~~~v~~Lk  194 (251)
                      +..++..+.+=.+.++..++.-...|+..+..|+.|-|+.+|.+|..++.-+.+...++-+.++.+..++
T Consensus        21 lK~QRdkl~qyqkR~e~~le~Er~~Ar~lird~rKdrAlllLKkKryQE~Ll~qt~~qL~nlEqmvsdiE   90 (209)
T KOG2910|consen   21 LKTQRDKLKQYQKRLEKQLEAERQLARDLIRDGRKDRALLLLKKKRYQEELLTQTDNQLINLEQMVSDIE   90 (209)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333444444444444555555667889999999999999999999999999999999888887776664

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

Probab=91.68  E-value=8  Score=37.69  Aligned_cols=117  Identities=14%  Similarity=0.217  Sum_probs=57.8

Q ss_pred             CCHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC---HHHHHHHHHHHHH
Q 025526           98 EDPE---KILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGE---EDLAREALKRRKS  171 (251)
Q Consensus        98 EDP~---~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~---EdLAreAL~rk~~  171 (251)
                      .||+   .+++..+...-+.....+..-+.  .....++.++++++.+.++-+.+...-..++.   .+--.....+...
T Consensus       131 ~dP~~Aa~i~n~l~~~yi~~~~~~~~~~~~--~~~~fl~~ql~~~~~~L~~ae~~l~~f~~~~~~~~~~~~~~~~~~l~~  208 (498)
T TIGR03007       131 KDPELAKDVVQTLLTIFVEETLGSKRQDSD--SAQRFIDEQIKTYEKKLEAAENRLKAFKQENGGILPDQEGDYYSEISE  208 (498)
T ss_pred             CCHHHHHHHHHHHHHHHHHhhcccchhhhH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcccCccchhhHHHHHHH
Confidence            3775   45554444333333322222111  23444555555555555555544443322221   1111234466666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH---------------HHHHHHHHHHHHHHHHHH
Q 025526          172 YADNANALKAQLDQQKNVVNNLVSNTR---------------LLESKIQEARSKKDTLKA  216 (251)
Q Consensus       172 ~e~~~~~l~~ql~~~~~~v~~Lk~~l~---------------~Le~ki~e~k~k~~~LkA  216 (251)
                      ++.+....+.++...+...+.++..+.               .++.++.+++.++..+..
T Consensus       209 l~~~l~~~~~~l~~~~a~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~l~~~l~~l~~  268 (498)
T TIGR03007       209 AQEELEAARLELNEAIAQRDALKRQLGGEEPVLLAGSSVANSELDGRIEALEKQLDALRL  268 (498)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCcCcccccCCCchHHHHHHHHHHHHHHHH
Confidence            777777777777777766666665433               445555555555555543

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.

>PF15619 Lebercilin: Ciliary protein causing Leber congenital amaurosis disease

Probab=91.67  E-value=8.6  Score=33.62  Aligned_cols=114  Identities=17%  Similarity=0.245  Sum_probs=79.2

Q ss_pred             HHHHHHHHHHHHhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHH
Q 025526           81 RLARVVKSYANAILSSFEDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEED  160 (251)
Q Consensus        81 Rl~~lira~in~~lDk~EDP~~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~Ed  160 (251)
                      |+-.-+...-...|+++||++.-|.|.|.-+.+++.-.+..+=........+++++.+.+.++......... |.+=   
T Consensus        36 k~Lk~lq~Rq~kAL~k~e~~e~~Lpqll~~h~eEvr~Lr~~LR~~q~~~r~~~~klk~~~~el~k~~~~l~~-L~~L---  111 (194)
T PF15619_consen   36 KTLKQLQKRQEKALQKYEDTEAELPQLLQRHNEEVRVLRERLRKSQEQERELERKLKDKDEELLKTKDELKH-LKKL---  111 (194)
T ss_pred             HHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHH---
Confidence            344444555667799999999999999999999999999999999999999999999999988877666553 2220   


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          161 LAREALKRRKSYADNANALKAQLDQQKNVVNNLVSNTR  198 (251)
Q Consensus       161 LAreAL~rk~~~e~~~~~l~~ql~~~~~~v~~Lk~~l~  198 (251)
                      ....-|.+...+..++..++..++.....+..|..++.
T Consensus       112 ~~dknL~eReeL~~kL~~~~~~l~~~~~ki~~Lek~le  149 (194)
T PF15619_consen  112 SEDKNLAEREELQRKLSQLEQKLQEKEKKIQELEKQLE  149 (194)
T ss_pred             HHcCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            00112333344455555555555555555555554443

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

Probab=91.64  E-value=14  Score=38.35  Aligned_cols=54  Identities=7%  Similarity=0.257  Sum_probs=29.7

Q ss_pred             cCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHH
Q 025526           97 FEDPEKILEQAVLEMNDDLVKMRQATAQVLASQ-------KRLENKCKAAEQASEDWYRKA  150 (251)
Q Consensus        97 ~EDP~~mLdQ~Ireme~~L~kar~~lA~v~A~~-------k~le~k~~~~~~~~~~~e~rA  150 (251)
                      ....+..+...|.+++.+..+++.-+..+...+       ..+|+++.+.+......|.+.
T Consensus       451 l~~~Er~lk~eL~qlr~ene~Lq~Kl~~L~~aRq~DKq~l~~LEkrL~eE~~~R~~lEkQL  511 (697)
T PF09726_consen  451 LTNNERSLKSELSQLRQENEQLQNKLQNLVQARQQDKQSLQQLEKRLAEERRQRASLEKQL  511 (697)
T ss_pred             ccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444555666666666666666666555555444       345555555555554444443

; GO: 0016021 integral to membrane

>PF15290 Syntaphilin: Golgi-localised syntaxin-1-binding clamp

Probab=91.47  E-value=1.1  Score=41.45  Aligned_cols=33  Identities=9%  Similarity=0.101  Sum_probs=15.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          105 EQAVLEMNDDLVKMRQATAQVLASQKRLENKCK  137 (251)
Q Consensus       105 dQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~  137 (251)
                      +=.||-++..|.+....+..--.+-..|+.++.
T Consensus        67 EV~iRHLkakLkes~~~l~dRetEI~eLksQL~   99 (305)
T PF15290_consen   67 EVCIRHLKAKLKESENRLHDRETEIDELKSQLA   99 (305)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            444555555555555555544444444443333

>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=91.46  E-value=6.6  Score=31.87  Aligned_cols=89  Identities=11%  Similarity=0.220  Sum_probs=52.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          104 LEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALKAQL  183 (251)
Q Consensus       104 LdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~EdLAreAL~rk~~~e~~~~~l~~ql  183 (251)
                      |...||..+-++...+..++++.+.+..+..++-.+-...+.+.                ....+...++.++..++..|
T Consensus        21 L~s~lr~~E~E~~~l~~el~~l~~~r~~l~~Eiv~l~~~~e~~~----------------~~~~~~~~L~~el~~l~~ry   84 (120)
T PF12325_consen   21 LQSQLRRLEGELASLQEELARLEAERDELREEIVKLMEENEELR----------------ALKKEVEELEQELEELQQRY   84 (120)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------------HHHHHHHHHHHHHHHHHHHH
Confidence            44566777788888888888888888887777777666666552                23333344455555555555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          184 DQQKNVVNNLVSNTRLLESKIQEAR  208 (251)
Q Consensus       184 ~~~~~~v~~Lk~~l~~Le~ki~e~k  208 (251)
                      +..-.-.-+=...+.+|+..|.++|
T Consensus        85 ~t~LellGEK~E~veEL~~Dv~DlK  109 (120)
T PF12325_consen   85 QTLLELLGEKSEEVEELRADVQDLK  109 (120)
T ss_pred             HHHHHHhcchHHHHHHHHHHHHHHH
Confidence            5544444333444444444444443

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 [].

>TIGR01000 bacteriocin_acc bacteriocin secretion accessory protein

Probab=91.33  E-value=15  Score=35.71  Aligned_cols=28  Identities=11%  Similarity=0.219  Sum_probs=14.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          124 QVLASQKRLENKCKAAEQASEDWYRKAQ  151 (251)
Q Consensus       124 ~v~A~~k~le~k~~~~~~~~~~~e~rA~  151 (251)
                      ..-+....+..++..++.++..++....
T Consensus       169 ~~~~~~~~~~~~i~~~~~~~~~~~~~~~  196 (457)
T TIGR01000       169 AAEKTKAQLDQQISKTDQKLQDYQALKN  196 (457)
T ss_pred             HHHhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444444555555555555555544444

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

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

Probab=91.27  E-value=17  Score=39.90  Aligned_cols=67  Identities=18%  Similarity=0.198  Sum_probs=28.9

Q ss_pred             HHHHHHHHHhhcccCCH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526           84 RVVKSYANAILSSFEDP---EKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKA  150 (251)
Q Consensus        84 ~lira~in~~lDk~EDP---~~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA  150 (251)
                      +.++..++.+.+.++..   .-...-.|+.....+..+++.++++..+-.-.|.......+++.+++.+.
T Consensus      1559 ~~v~~~ae~V~eaL~~Ad~Aq~~a~~ai~~a~~~~~~a~~~l~kv~~~t~~aE~~~~~a~q~~~eL~~~~ 1628 (1758)
T KOG0994|consen 1559 EDVKGQAEDVVEALEEADVAQGEAQDAIQGADRDIRLAQQLLAKVQEETAAAEKLATSATQQLGELETRM 1628 (1758)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444443322   12333344444444444444444444444444444444444444444443

>TIGR02680 conserved hypothetical protein TIGR02680

Probab=91.16  E-value=28  Score=38.80  Aligned_cols=46  Identities=15%  Similarity=0.201  Sum_probs=21.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          172 YADNANALKAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKAR  217 (251)
Q Consensus       172 ~e~~~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~LkAr  217 (251)
                      +++++..+....+.....+..-+..+.+++.++.+...+.......
T Consensus       338 l~~ql~~~~~~a~~~~~~~~~a~~~~e~~~~~~~~~~~r~~~~~~~  383 (1353)
T TIGR02680       338 ARADAEALQAAAADARQAIREAESRLEEERRRLDEEAGRLDDAERE  383 (1353)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444444444444444455555555544444444433

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.

>PF03148 Tektin: Tektin family; InterPro: IPR000435 Tektin heteropolymers form unique protofilaments of flagellar microtubules []

Probab=91.01  E-value=15  Score=35.19  Aligned_cols=128  Identities=16%  Similarity=0.205  Sum_probs=92.3

Q ss_pred             HHHHHHHHHHHHHHhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----
Q 025526           79 FDRLARVVKSYANAILSSFEDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLA-----  153 (251)
Q Consensus        79 f~Rl~~lira~in~~lDk~EDP~~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~A-----  153 (251)
                      -.-+..++.-..+++-+...--+..|.+-|.|+++...+..-.+..++.+-..+++.+..++..+.+-+.-...|     
T Consensus       224 R~~i~~~l~~~~~dl~~Q~~~vn~al~~Ri~et~~ak~~Le~ql~~~~~ei~~~e~~i~~L~~ai~~k~~~lkvaqTRL~  303 (384)
T PF03148_consen  224 REDIDSILEQTANDLRAQADAVNAALRKRIHETQEAKNELEWQLKKTLQEIAEMEKNIEDLEKAIRDKEGPLKVAQTRLE  303 (384)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHh
Confidence            333444444444444444444467888888888888888888888888888888999988888888887765544     


Q ss_pred             HhcCCH------HHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          154 LQKGEE------DLAREAL-KRRKSYADNANALKAQLDQQKNVVNNLVSNTRLLESKIQE  206 (251)
Q Consensus       154 L~~G~E------dLAreAL-~rk~~~e~~~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e  206 (251)
                      ....+.      |-|-..| .+...+.+.+..|+..+...+.....|......|+..|.-
T Consensus       304 ~R~~RP~vElcrD~~q~~L~~Ev~~l~~~i~~L~~~L~~a~~~l~~L~~~~~~Le~di~~  363 (384)
T PF03148_consen  304 NRTQRPNVELCRDPPQYGLIEEVKELRESIEALQEKLDEAEASLQKLERTRLRLEEDIAV  363 (384)
T ss_pred             hHhcCCchHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            233331      4444444 6788888888888888888888888888888888876654

The proteins are predicted to form extended rods composed of 2 alpha- helical segments (~180 residues long) capable of forming coiled coils, interrupted by non-helical linkers []. The 2 segments are similar in sequence, indicating a gene duplication event. Along each tektin rod, cysteine residues occur with a periodicity of ~8nm, coincident with the axial repeat of tubulin dimers in microtubules []. It is proposed that the assembly of tektin heteropolymers produces filaments with repeats of 8, 16, 24, 32, 40, 48 and 96nm, generating the basis for the complex spatial arrangements of axonemal components [].; GO: 0000226 microtubule cytoskeleton organization, 0005874 microtubule

>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=90.99  E-value=7.3  Score=40.54  Aligned_cols=79  Identities=15%  Similarity=0.275  Sum_probs=50.3

Q ss_pred             chHHHHHHHHHHH-HHH---hhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526           77 NLFDRLARVVKSY-ANA---ILSSFEDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQL  152 (251)
Q Consensus        77 ~if~Rl~~lira~-in~---~lDk~EDP~~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~  152 (251)
                      .+|.+-..+++-. +..   +-+.++--...|...+.+--+.|.+++.....+....+.+..+++++.+.-+++.+|+..
T Consensus       539 ~lL~~a~~vlreeYi~~~~~ar~ei~~rv~~Lk~~~e~Ql~~L~~l~e~~~~l~~~ae~LaeR~e~a~d~Qe~L~~R~~~  618 (717)
T PF10168_consen  539 ELLSQATKVLREEYIEKQDLAREEIQRRVKLLKQQKEQQLKELQELQEERKSLRESAEKLAERYEEAKDKQEKLMKRVDR  618 (717)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5777777777654 222   222233334556666666666666677777777777777777888888777777777765


Q ss_pred             HHh
Q 025526          153 ALQ  155 (251)
Q Consensus       153 AL~  155 (251)
                      -++
T Consensus       619 vl~  621 (717)
T PF10168_consen  619 VLQ  621 (717)
T ss_pred             HHH
Confidence            433

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 [].

>TIGR03752 conj_TIGR03752 integrating conjugative element protein, PFL_4705 family

Probab=90.59  E-value=4.2  Score=40.25  Aligned_cols=53  Identities=11%  Similarity=0.240  Sum_probs=43.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCH
Q 025526          107 AVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEE  159 (251)
Q Consensus       107 ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~E  159 (251)
                      .||.+-.++.+.|..+..++.+-+.+..+-++++++......+...||+..+.
T Consensus        60 TlrTlva~~k~~r~~~~~l~~~N~~l~~eN~~L~~r~~~id~~i~~av~~~~~  112 (472)
T TIGR03752        60 TLRTLVAEVKELRKRLAKLISENEALKAENERLQKREQSIDQQIQQAVQSETQ  112 (472)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhH
Confidence            45566777778888888888888889889999999999999999999887553

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.

>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=90.56  E-value=14  Score=34.03  Aligned_cols=59  Identities=14%  Similarity=0.223  Sum_probs=46.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHhcCC
Q 025526          100 PEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASED----WYRKAQLALQKGE  158 (251)
Q Consensus       100 P~~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~----~e~rA~~AL~~G~  158 (251)
                      -..-|+-.|.+....+.+.+..+.+..++-+.++.+++++...|.+    +..||+.+-..|-
T Consensus        53 ei~~L~~qi~~~~~k~~~~~~~i~~~~~eik~l~~eI~~~~~~I~~r~~~l~~raRAmq~nG~  115 (265)
T COG3883          53 EIESLDNQIEEIQSKIDELQKEIDQSKAEIKKLQKEIAELKENIVERQELLKKRARAMQVNGT  115 (265)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCC
Confidence            3455677777888888888888888888899999999888887765    4568887777776

>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=90.56  E-value=19  Score=36.35  Aligned_cols=28  Identities=11%  Similarity=0.316  Sum_probs=14.4

Q ss_pred             ccccccccccccCcc--ceeEeeccccccC
Q 025526           32 MVKKPLTTSFFNGGV--GALKVTRLRIAPS   59 (251)
Q Consensus        32 ~~~~~l~~~f~~~~~--~~~~~~~~~~~~~   59 (251)
                      ++..|+...+.+|+.  +.|.+.+.-+...
T Consensus        56 f~Wa~~p~~~~~~s~~~~~V~F~ayyLPk~   85 (546)
T PF07888_consen   56 FVWAPVPENYVEGSAVNCQVQFQAYYLPKD   85 (546)
T ss_pred             EEeeccCccccCCCccceEEEECcccCCCC
Confidence            344455555555553  3455555555543

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 [].

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

Probab=90.52  E-value=29  Score=38.15  Aligned_cols=59  Identities=15%  Similarity=0.245  Sum_probs=46.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCH
Q 025526          101 EKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEE  159 (251)
Q Consensus       101 ~~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~E  159 (251)
                      ..-++..+-.....+.+++..+.......++.+.++..+......|+.+...+++.-.+
T Consensus       623 ~~~~e~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~  681 (1201)
T PF12128_consen  623 QEELEKQLKQINKKIEELKREITQAEQELKQAEQDLQRLKNEREQLKQEIEEAKEERKE  681 (1201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34466666667788888888888888888888888888888888888888887766544

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

Probab=90.43  E-value=25  Score=36.65  Aligned_cols=59  Identities=15%  Similarity=0.183  Sum_probs=34.6

Q ss_pred             ccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526           96 SFEDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLAL  154 (251)
Q Consensus        96 k~EDP~~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL  154 (251)
                      ++|.-.+-|.-.|..+++.=.++|..+......+..+..++.+++.+.+.++.+..-..
T Consensus       422 rLE~dvkkLraeLq~~Rq~E~ELRsqis~l~~~Er~lk~eL~qlr~ene~Lq~Kl~~L~  480 (697)
T PF09726_consen  422 RLEADVKKLRAELQSSRQSEQELRSQISSLTNNERSLKSELSQLRQENEQLQNKLQNLV  480 (697)
T ss_pred             HHHHHHHHHHHHHHhhhhhHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444444555555555555555666666666666777777777777666666555443

; GO: 0016021 integral to membrane

>PF05816 TelA: Toxic anion resistance protein (TelA); InterPro: IPR008863 This family consists of several prokaryotic TelA like proteins

Probab=90.09  E-value=17  Score=34.17  Aligned_cols=68  Identities=7%  Similarity=0.103  Sum_probs=48.4

Q ss_pred             CchHHHHHHHHHHHHHHhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526           76 MNLFDRLARVVKSYANAILSSFEDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQAS  143 (251)
Q Consensus        76 M~if~Rl~~lira~in~~lDk~EDP~~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~  143 (251)
                      -|+|+||+.=++..+..++.++++-...+|..+.+++..-.......+..-........-+.++...+
T Consensus        72 ~~~l~klf~k~~~~~~~~~~ky~sv~~qId~I~~~L~~~~~~L~~d~~~L~~l~~~n~~~~~~L~~~I  139 (333)
T PF05816_consen   72 KGFLGKLFGKAKNSLERYFAKYQSVQSQIDKIIAELESGQDELLRDNAMLDQLYEKNWEYYQELEKYI  139 (333)
T ss_pred             hhHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            48888877767788888899999888888888888887777777776665555554444444444433

TelA and KlA are associated with tellurite resistance [] and plasmid fertility inhibition [].

>PRK04778 septation ring formation regulator EzrA; Provisional

Probab=90.05  E-value=23  Score=35.68  Aligned_cols=42  Identities=14%  Similarity=0.146  Sum_probs=16.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          100 PEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQ  141 (251)
Q Consensus       100 P~~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~  141 (251)
                      ...-+...|..+-+.+.+-..+-..+.-+...+...+..+..
T Consensus       283 ~~~~i~~~Id~Lyd~lekE~~A~~~vek~~~~l~~~l~~~~e  324 (569)
T PRK04778        283 KNEEIQERIDQLYDILEREVKARKYVEKNSDTLPDFLEHAKE  324 (569)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            334444444444444443333333333333333333333333

>PF09325 Vps5: Vps5 C terminal like; InterPro: IPR015404 Vps5 is a sorting nexin that functions in membrane trafficking

Probab=90.03  E-value=12  Score=32.45  Aligned_cols=67  Identities=13%  Similarity=0.201  Sum_probs=50.2

Q ss_pred             CchHHHHHHHHHHHHHHhhcccC--CHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526           76 MNLFDRLARVVKSYANAILSSFE--DPE-KILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDW  146 (251)
Q Consensus        76 M~if~Rl~~lira~in~~lDk~E--DP~-~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~  146 (251)
                      .|+|+.+...+...    .-++.  ||. .-..+++..++..|..+...+-.+....+.+-.-+.++-.....|
T Consensus         2 ~~~~~~~~~s~~~~----~~~~~e~D~~F~~~~~~~~~le~~Lk~l~~~~~~l~~~~~~l~~~~~e~~~~~~~l   71 (236)
T PF09325_consen    2 KGLFGKLFDSVSNS----SPKMKEPDEWFEEIKDYVDKLEEQLKKLYKSLERLVKRRQELASALAEFGSSFSQL   71 (236)
T ss_pred             hhHHHHHHHHHHcc----CCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            46788887777665    44444  453 677889999999999999988888888888887777776666554

This is the C-terminal dimerisation domain [].

>PF05266 DUF724: Protein of unknown function (DUF724); InterPro: IPR007930 This family contains several uncharacterised proteins found exclusively in Arabidopsis thaliana

Probab=89.97  E-value=12  Score=32.54  Aligned_cols=33  Identities=30%  Similarity=0.380  Sum_probs=16.4

Q ss_pred             CCCcccccCchHHHHHHHHHHHHHHhhcccCCHHHHHHHH
Q 025526           68 GGGALNTRMNLFDRLARVVKSYANAILSSFEDPEKILEQA  107 (251)
Q Consensus        68 ~~~~~~~~M~if~Rl~~lira~in~~lDk~EDP~~mLdQ~  107 (251)
                      -|-|+|. |-.|.=+.+-|+.-      .+.||...++-.
T Consensus        42 Eg~A~Gl-m~~f~~l~e~v~~l------~idd~~~~f~~~   74 (190)
T PF05266_consen   42 EGMAVGL-MVTFANLAEKVKKL------QIDDSRSSFESL   74 (190)
T ss_pred             hHHHHHH-HHHHHHHHHHHHHc------ccCCcHHHHHHH
Confidence            4555565 33444344333332      566776665533

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

Probab=89.90  E-value=15  Score=33.23  Aligned_cols=52  Identities=27%  Similarity=0.377  Sum_probs=45.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          102 KILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLA  153 (251)
Q Consensus       102 ~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~A  153 (251)
                      .-|..-+..++++..+++..+-........|+.+...++.....++.++..|
T Consensus         8 ~Ele~rL~q~eee~~~a~~~L~e~e~~a~~Leek~k~aeeea~~Le~k~~ea   59 (246)
T PF00769_consen    8 QELEERLRQMEEEMRRAQEALEESEETAEELEEKLKQAEEEAEELEQKRQEA   59 (246)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4577788899999999999999999999999999999999999888887665

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.

>KOG0161 consensus Myosin class II heavy chain [Cytoskeleton]

Probab=89.74  E-value=44  Score=38.76  Aligned_cols=62  Identities=13%  Similarity=0.214  Sum_probs=27.9

Q ss_pred             HHHHHhhcccCCH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526           88 SYANAILSSFEDP---EKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRK  149 (251)
Q Consensus        88 a~in~~lDk~EDP---~~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~r  149 (251)
                      ..++++-++.++-   ...++...+++++.+...+..+.+.-.....++.+....+.++.+++..
T Consensus       908 ~~l~~~~~~~e~~ee~~~~le~~~~~~~~e~~~l~~~~~~~E~~~~k~~~Ek~~~e~~~~~l~~e  972 (1930)
T KOG0161|consen  908 KELKELKERLEEEEEKNAELERKKRKLEQEVQELKEQLEELELTLQKLELEKNAAENKLKNLEEE  972 (1930)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444443   2444555555554444444444444444444444444444444444433

>CHL00118 atpG ATP synthase CF0 B' subunit; Validated

Probab=89.66  E-value=11  Score=31.40  Aligned_cols=55  Identities=18%  Similarity=0.196  Sum_probs=33.2

Q ss_pred             CH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526           99 DP-EKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLA  153 (251)
Q Consensus        99 DP-~~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~A  153 (251)
                      .| ..++++=-..+.+++.++.....++.......+.++.+.+.++.+.-..|...
T Consensus        45 ~Pi~~~l~~R~~~I~~~l~~Ae~~~~ea~~~~~e~e~~L~~A~~ea~~ii~~A~~~  100 (156)
T CHL00118         45 KPLLKVLDERKEYIRKNLTKASEILAKANELTKQYEQELSKARKEAQLEITQSQKE  100 (156)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45 25666666666666666666666666666666666666666555555555544

>PRK11281 hypothetical protein; Provisional

Probab=89.50  E-value=12  Score=40.96  Aligned_cols=47  Identities=15%  Similarity=0.174  Sum_probs=25.5

Q ss_pred             HHHHHHHhhcccCCH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526           86 VKSYANAILSSFEDP---EKILEQAVLEMNDDLVKMRQATAQVLASQKRLE  133 (251)
Q Consensus        86 ira~in~~lDk~EDP---~~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le  133 (251)
                      +++.++.+ .+-++|   .+.+-|.+++.-+-+.++.....+.-+.+++++
T Consensus        41 iq~~l~~~-~~~~~~~~~~k~~~~~l~~tL~~L~qi~~~~~~~~~L~k~l~   90 (1113)
T PRK11281         41 VQAQLDAL-NKQKLLEAEDKLVQQDLEQTLALLDKIDRQKEETEQLKQQLA   90 (1113)
T ss_pred             HHHHHHHh-hcCCCCchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44445553 223444   355666777776666666666555544444433

>PRK08476 F0F1 ATP synthase subunit B'; Validated

Probab=89.48  E-value=11  Score=31.06  Aligned_cols=45  Identities=18%  Similarity=0.322  Sum_probs=20.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          102 KILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDW  146 (251)
Q Consensus       102 ~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~  146 (251)
                      .+|++-=..+.+.+..+...-.++.......+..+.+.+.++...
T Consensus        34 ~~l~~R~~~I~~~l~~A~~~~~ea~~~~~e~e~~l~~Ar~eA~~~   78 (141)
T PRK08476         34 KFMDNRNASIKNDLEKVKTNSSDVSEIEHEIETILKNAREEANKI   78 (141)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444444444444444444444444444444444555444444444

>PRK10476 multidrug resistance protein MdtN; Provisional

Probab=89.41  E-value=17  Score=33.81  Aligned_cols=18  Identities=17%  Similarity=0.154  Sum_probs=8.5

Q ss_pred             HHHHHHHHHHHHHHHHHH
Q 025526          107 AVLEMNDDLVKMRQATAQ  124 (251)
Q Consensus       107 ~Ireme~~L~kar~~lA~  124 (251)
                      .+.+.+.++..++..+..
T Consensus        87 ~l~~a~a~l~~a~a~l~~  104 (346)
T PRK10476         87 TVAQAQADLALADAQIMT  104 (346)
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            344555555554444443

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

Probab=89.36  E-value=22  Score=34.62  Aligned_cols=61  Identities=15%  Similarity=0.183  Sum_probs=34.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          168 RRKSYADNANALKAQLDQQKNVVNNLV----------SNTRLLESKIQEARSKKDTLKARAQSAKFVFPLS  228 (251)
Q Consensus       168 rk~~~e~~~~~l~~ql~~~~~~v~~Lk----------~~l~~Le~ki~e~k~k~~~LkAr~~~AkAq~~vn  228 (251)
                      ...+.+.++..++.+++....++++++          ..+..|+..++-.+...+.+..|.+.++..+.+.
T Consensus       318 ~l~~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~el~~L~Re~~~~~~~Y~~l~~r~eea~~~~~~~  388 (498)
T TIGR03007       318 ELAEAEAEIASLEARVAELTARIERLESLLRTIPEVEAELTQLNRDYEVNKSNYEQLLTRRESAEVSKQME  388 (498)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhh
Confidence            334444444444444444444444333          3444666666666667777777777777666554

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.

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

Probab=89.35  E-value=15  Score=34.42  Aligned_cols=47  Identities=17%  Similarity=0.242  Sum_probs=22.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          176 ANALKAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKARAQSAK  222 (251)
Q Consensus       176 ~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~LkAr~~~Ak  222 (251)
                      +..++.+.+.......+.-.....++..+.++..+++.+.++...+.
T Consensus        80 l~~le~e~~~l~~eE~~~~~~~n~~~~~l~~~~~e~~sl~~q~~~~~  126 (314)
T PF04111_consen   80 LEELEEELEELDEEEEEYWREYNELQLELIEFQEERDSLKNQYEYAS  126 (314)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344444444444444444455555555555555555555544443

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.

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

Probab=89.30  E-value=11  Score=31.18  Aligned_cols=59  Identities=19%  Similarity=0.242  Sum_probs=29.3

Q ss_pred             HhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526           92 AILSSFEDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKA  150 (251)
Q Consensus        92 ~~lDk~EDP~~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA  150 (251)
                      +-.+.++--.+-+++...+.+++|..+..-+..+-.....++.++.++......-+...
T Consensus        14 ~r~e~~e~~~K~le~~~~~~E~EI~sL~~K~~~lE~eld~~~~~l~~~k~~lee~~~~~   72 (143)
T PF12718_consen   14 DRAEELEAKVKQLEQENEQKEQEITSLQKKNQQLEEELDKLEEQLKEAKEKLEESEKRK   72 (143)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHH
Confidence            33444444444455555555555555555555555555555555555555554444443

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 [].

>PRK13454 F0F1 ATP synthase subunit B'; Provisional

Probab=89.15  E-value=13  Score=31.77  Aligned_cols=56  Identities=11%  Similarity=0.189  Sum_probs=33.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 025526          102 KILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKG  157 (251)
Q Consensus       102 ~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G  157 (251)
                      .+|++=-..+.+++.++.....++-......+.++.+.+.+..+.-..|+...++-
T Consensus        58 ~~l~~R~~~I~~~l~~Ae~~~~eA~~~~~eye~~L~~Ar~EA~~ii~~A~~ea~~~  113 (181)
T PRK13454         58 AVLAERQGTITNDLAAAEELKQKAVEAEKAYNKALADARAEAQRIVAETRAEIQAE  113 (181)
T ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            56666555666666666666666666666666666666666666665555443333

>PRK09343 prefoldin subunit beta; Provisional

Probab=89.12  E-value=10  Score=30.47  Aligned_cols=45  Identities=13%  Similarity=0.245  Sum_probs=33.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          104 LEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYR  148 (251)
Q Consensus       104 LdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~  148 (251)
                      |-..+.+.-..+.+.++.+..+......++.++.+.+.-.++++.
T Consensus         5 ~~~~~q~~~~~~q~lq~~l~~~~~q~~~le~q~~e~~~~~~EL~~   49 (121)
T PRK09343          5 IPPEVQAQLAQLQQLQQQLERLLQQKSQIDLELREINKALEELEK   49 (121)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            445566666777788888888888888888888887777666654

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

Probab=89.03  E-value=19  Score=34.35  Aligned_cols=56  Identities=20%  Similarity=0.186  Sum_probs=44.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          160 DLAREALKRRKSYADNANALKAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLK  215 (251)
Q Consensus       160 dLAreAL~rk~~~e~~~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~Lk  215 (251)
                      .|-|++.+.......-.+.|+....++...+++=...+.+||+|++++.-+...|.
T Consensus       166 ~LnrELaE~layqq~L~~eyQatf~eq~~ml~kRQ~yI~~LEsKVqDLm~EirnLL  221 (401)
T PF06785_consen  166 TLNRELAEALAYQQELNDEYQATFVEQHSMLDKRQAYIGKLESKVQDLMYEIRNLL  221 (401)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhcccccchhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            46667777777777778888888888888888888899999999998777766654

>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=88.93  E-value=25  Score=38.54  Aligned_cols=94  Identities=20%  Similarity=0.278  Sum_probs=39.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHH
Q 025526          119 RQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALKAQ-------LDQQKNVVN  191 (251)
Q Consensus       119 r~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~EdLAreAL~rk~~~e~~~~~l~~q-------l~~~~~~v~  191 (251)
                      .+.++.+......+++.++..+.+++.+....     +|.++-+-+.-.+....++-+..++.+       ++..+..+.
T Consensus       934 ~~~i~k~q~~l~~le~~~~~~e~e~~~L~e~~-----~~~~~k~~E~~~~~~e~~~~~~E~k~~~~~~k~~~e~i~k~~~ 1008 (1293)
T KOG0996|consen  934 DRNIAKAQKKLSELEREIEDTEKELDDLTEEL-----KGLEEKAAELEKEYKEAEESLKEIKKELRDLKSELENIKKSEN 1008 (1293)
T ss_pred             cccHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344444444444444444444444433332     333333333333333333333333333       333444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          192 NLVSNTRLLESKIQEARSKKDTLKAR  217 (251)
Q Consensus       192 ~Lk~~l~~Le~ki~e~k~k~~~LkAr  217 (251)
                      .|+...-.++.|+++...+...+...
T Consensus      1009 ~lk~~rId~~~K~e~~~~~l~e~~~~ 1034 (1293)
T KOG0996|consen 1009 ELKAERIDIENKLEAINGELNEIESK 1034 (1293)
T ss_pred             HHHHhhccHHHHHHHHHHHHHHHHhh
Confidence            44442223444555555555555444

>PRK03918 chromosome segregation protein; Provisional

Probab=88.89  E-value=32  Score=35.84  Aligned_cols=41  Identities=12%  Similarity=0.236  Sum_probs=20.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          167 KRRKSYADNANALKAQLDQQKNVVNNLVSNTRLLESKIQEA  207 (251)
Q Consensus       167 ~rk~~~e~~~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~  207 (251)
                      .+...++..+..+...++..+..+..++..+..++.++..+
T Consensus       666 ~~~~~l~~~l~~l~~~~~~l~~~i~~l~~~i~~~~~~~~~l  706 (880)
T PRK03918        666 EEYLELSRELAGLRAELEELEKRREEIKKTLEKLKEELEER  706 (880)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444455555555555555555555555555554444333

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

Probab=88.89  E-value=13  Score=31.43  Aligned_cols=24  Identities=4%  Similarity=0.271  Sum_probs=9.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          107 AVLEMNDDLVKMRQATAQVLASQK  130 (251)
Q Consensus       107 ~Ireme~~L~kar~~lA~v~A~~k  130 (251)
                      .+.++.+++.+....+......-.
T Consensus        89 ~l~~l~~el~~l~~~~~~~~~~l~  112 (191)
T PF04156_consen   89 QLQQLQEELDQLQERIQELESELE  112 (191)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333333333333

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 [].

>PF03194 LUC7: LUC7 N_terminus; InterPro: IPR004882 This family consists of several LUC7 protein homologues that are restricted to eukaryotes

Probab=88.85  E-value=5.6  Score=36.16  Aligned_cols=87  Identities=10%  Similarity=0.237  Sum_probs=71.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Q 025526          101 EKILEQAVLEMNDDLVKMRQATAQVLAS-----QKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADN  175 (251)
Q Consensus       101 ~~mLdQ~Ireme~~L~kar~~lA~v~A~-----~k~le~k~~~~~~~~~~~e~rA~~AL~~G~EdLAreAL~rk~~~e~~  175 (251)
                      ...|+.+|+|++..|.+++.-++.....     ......++..+...|.+.-.+|+.+=..|+-|-|..++.+...+...
T Consensus        85 ~~~L~~~i~d~drrI~~~k~RL~~~~~~~~~~~~~~~~~~i~~l~~~I~~ll~~aE~LGeeG~VdeA~~~~~~~e~Lk~e  164 (254)
T PF03194_consen   85 LRYLQRLIRDCDRRIERAKERLEQTQEEQAKEADEEKAEKIDELDEKIGELLKEAEELGEEGDVDEAQKLMEEVEKLKEE  164 (254)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhCccccccchhhhHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHH
Confidence            4889999999999999998887763332     11126789999999999999999999999999999999998888888


Q ss_pred             HHHHHHHHHHHH
Q 025526          176 ANALKAQLDQQK  187 (251)
Q Consensus       176 ~~~l~~ql~~~~  187 (251)
                      ...++.+.+...
T Consensus       165 k~~le~~~~~~~  176 (254)
T PF03194_consen  165 KEELEKELEEYR  176 (254)
T ss_pred             HHHHHhhhhhhh
Confidence            888888544433

LUC7 has been shown to be a U1 snRNA associated protein [] with a role in splice site recognition []. The entry contains human and mouse LUC7 like (LUC7L) proteins [] and human cisplatin resistance-associated overexpressed protein (CROP) [].

>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=88.72  E-value=17  Score=32.47  Aligned_cols=74  Identities=7%  Similarity=0.053  Sum_probs=32.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHhhCCCCchhHHHHHHHH
Q 025526          174 DNANALKAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKA-------RAQSAKFVFPLSLLEFPVFSASATSLVLLV  246 (251)
Q Consensus       174 ~~~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~LkA-------r~~~AkAq~~vn~~l~~~~~~~a~~~f~~~  246 (251)
                      ..+...+++++.++.+++.+......+.--+.++-..++....       .++..+ -..+...+...+.+. .+.|..|
T Consensus        77 ~~v~~q~~el~~L~~qi~~~~~~~~~l~p~m~~m~~~L~~~v~~d~Pf~~~eR~~R-l~~L~~~l~~~dv~~-~ek~r~v  154 (251)
T PF11932_consen   77 RQVASQEQELASLEQQIEQIEETRQELVPLMEQMIDELEQFVELDLPFLLEERQER-LARLRAMLDDADVSL-AEKFRRV  154 (251)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCChHHHHHH-HHHHHHhhhccCCCH-HHHHHHH
Confidence            3333444444444444444444444444444444444444332       112222 244555665544433 4667776


Q ss_pred             HHH
Q 025526          247 MVA  249 (251)
Q Consensus       247 ~~~  249 (251)
                      |-+
T Consensus       155 lea  157 (251)
T PF11932_consen  155 LEA  157 (251)
T ss_pred             HHH
Confidence            654

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

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

Probab=88.68  E-value=22  Score=37.51  Aligned_cols=51  Identities=14%  Similarity=0.292  Sum_probs=26.9

Q ss_pred             HhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526           92 AILSSFEDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQA  142 (251)
Q Consensus        92 ~~lDk~EDP~~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~  142 (251)
                      .+||.-+.-..-|+-.|+++++++..++.......+...++..++......
T Consensus       231 ~~ie~Kd~ki~~lEr~l~~le~Ei~~L~~~~~~~~~~r~~~~k~le~~~s~  281 (775)
T PF10174_consen  231 TVIEEKDTKIASLERMLRDLEDEIYRLRSRGELSEADRDRLDKQLEVYKSH  281 (775)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccchHHHHHHHHHHHhh
Confidence            333434444455566666666666666665555555555554444444333

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=88.65  E-value=15  Score=31.68  Aligned_cols=110  Identities=13%  Similarity=0.199  Sum_probs=39.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          103 ILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALKAQ  182 (251)
Q Consensus       103 mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~EdLAreAL~rk~~~e~~~~~l~~q  182 (251)
                      -+++.+-..++++.++.+.-+.....-..+..++..++..+.......... ..    -....-.+...++..+......
T Consensus        71 ~le~~~~~l~~ELael~r~~~el~~~L~~~~~~l~~l~~~~~~~~~~l~~l-~~----~~~~L~~~~~~l~~~l~ek~k~  145 (194)
T PF08614_consen   71 SLEQKLAKLQEELAELYRSKGELAQQLVELNDELQELEKELSEKERRLAEL-EA----ELAQLEEKIKDLEEELKEKNKA  145 (194)
T ss_dssp             -------------------------------------------HHHHHHHH-HH----HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccccccccccccccccccccccccccccccccccchhhhhHHHHHHHHHHH-HH----HHHHHHHHHHHHHHHHHHHHHH
Confidence            344445555555555555544444444444444444444443333333221 11    1112233445556666666666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          183 LDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKAR  217 (251)
Q Consensus       183 l~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~LkAr  217 (251)
                      ++.+......|.-.+..++.++..++.+-..|.-|
T Consensus       146 ~e~l~DE~~~L~l~~~~~e~k~~~l~~En~~Lv~R  180 (194)
T PF08614_consen  146 NEILQDELQALQLQLNMLEEKLRKLEEENRELVER  180 (194)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            66666677777777777777777777777777766

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.

>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed

Probab=88.60  E-value=17  Score=38.24  Aligned_cols=57  Identities=16%  Similarity=0.166  Sum_probs=28.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCH
Q 025526          103 ILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEE  159 (251)
Q Consensus       103 mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~E  159 (251)
                      -++..|.+++++..+.++....+......+++..++++.+.++++++-...+.+.++
T Consensus       517 ~~~~li~~l~~~~~~~e~~~~~~~~~~~e~~~~~~~l~~~~~~l~~~~~~~~~~~~~  573 (782)
T PRK00409        517 KLNELIASLEELERELEQKAEEAEALLKEAEKLKEELEEKKEKLQEEEDKLLEEAEK  573 (782)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345555555555555555544444444455555555555555554444444444333

>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=88.56  E-value=17  Score=33.47  Aligned_cols=21  Identities=19%  Similarity=0.226  Sum_probs=12.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHH
Q 025526          209 SKKDTLKARAQSAKFVFPLSL  229 (251)
Q Consensus       209 ~k~~~LkAr~~~AkAq~~vn~  229 (251)
                      .+.+.|+-|.++.......+.
T Consensus        98 ~r~~~l~~raRAmq~nG~~t~  118 (265)
T COG3883          98 ERQELLKKRARAMQVNGTATS  118 (265)
T ss_pred             HHHHHHHHHHHHHHHcCChhH
Confidence            355667777777664443333

>PRK07720 fliJ flagellar biosynthesis chaperone; Validated

Probab=88.51  E-value=12  Score=30.50  Aligned_cols=96  Identities=13%  Similarity=0.146  Sum_probs=65.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          111 MNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALKAQLDQQKNVV  190 (251)
Q Consensus       111 me~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~EdLAreAL~rk~~~e~~~~~l~~ql~~~~~~v  190 (251)
                      .+....++...++.+.......+.++..+.....++..+...-...|-.      +.....+..-+..|...+..+...+
T Consensus        14 ~~~~ee~a~~~L~~a~~~~~~~~~~L~~L~~~~~~~~~~~~~~~~~g~~------~~~l~~~~~fl~~L~~~i~~q~~~v   87 (146)
T PRK07720         14 KENEKEKALGEYEEAVSRFEQVAEKLYELLKQKEDLEQAKEEKLQSGLS------IQEIRHYQQFVTNLERTIDHYQLLV   87 (146)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCC------HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3445567778888888888899999999999999999988776666643      2333455556666666666666666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q 025526          191 NNLVSNTRLLESKIQEARSKKD  212 (251)
Q Consensus       191 ~~Lk~~l~~Le~ki~e~k~k~~  212 (251)
                      ..++..+..-...+.+...++.
T Consensus        88 ~~~~~~ve~~r~~~~ea~~~~k  109 (146)
T PRK07720         88 MQAREQMNRKQQDLTEKNIEVK  109 (146)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            6666666655555555554443

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

Probab=88.39  E-value=27  Score=34.25  Aligned_cols=50  Identities=10%  Similarity=0.157  Sum_probs=30.3

Q ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526           99 DPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYR  148 (251)
Q Consensus        99 DP~~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~  148 (251)
                      |--.-|+..|-+.+.++..++..+.+.-...+.+++++++....++.++.
T Consensus        59 ~~~~kL~~~lk~~e~~i~~~~~ql~~s~~~l~~~~~~I~~~~~~l~~l~~  108 (420)
T COG4942          59 DQRAKLEKQLKSLETEIASLEAQLIETADDLKKLRKQIADLNARLNALEV  108 (420)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHH
Confidence            33455666666666666666666666666666666666666665555543

>TIGR00606 rad50 rad50

Probab=88.28  E-value=46  Score=36.90  Aligned_cols=39  Identities=0%  Similarity=-0.088  Sum_probs=14.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          176 ANALKAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTL  214 (251)
Q Consensus       176 ~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~L  214 (251)
                      +..++..++.....+..++..+..++.....++..++.+
T Consensus       986 ie~le~e~~~l~~~i~~l~kel~~~~~~kr~l~dnL~~~ 1024 (1311)
T TIGR00606       986 LEECEKHQEKINEDMRLMRQDIDTQKIQERWLQDNLTLR 1024 (1311)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333333333333333333333333333

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

>KOG2685 consensus Cystoskeletal protein Tektin [Cytoskeleton]

Probab=88.25  E-value=27  Score=34.12  Aligned_cols=126  Identities=24%  Similarity=0.256  Sum_probs=94.1

Q ss_pred             HHHHHHHHHHHHhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC--
Q 025526           81 RLARVVKSYANAILSSFEDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGE--  158 (251)
Q Consensus        81 Rl~~lira~in~~lDk~EDP~~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~--  158 (251)
                      -+..+++--.|++--....-+..+.--|+++++...+..-.++..+-+-...+..+..++..+.+-+.-.+.|.-.=+  
T Consensus       253 ~l~~~l~~tan~lr~Q~~~ve~af~~ri~etqdar~kL~~ql~k~leEi~~~e~~I~~le~airdK~~pLKVAqTRle~R  332 (421)
T KOG2685|consen  253 ALDQTLRETANDLRTQADAVELAFKKRIRETQDARNKLEWQLAKTLEEIADAENNIEALERAIRDKEGPLKVAQTRLENR  332 (421)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhcccccHHHHHHHHHHc
Confidence            344555555666666666678889999999999999999999999999999999999999999988887777754322  


Q ss_pred             ---------HHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          159 ---------EDLAREA-LKRRKSYADNANALKAQLDQQKNVVNNLVSNTRLLESKIQE  206 (251)
Q Consensus       159 ---------EdLAreA-L~rk~~~e~~~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e  206 (251)
                               -|.|... ..+...+...+..|+..+++++.....|......|+.+|.-
T Consensus       333 t~RPnvELCrD~AQ~~L~~EV~~l~~t~~~L~~kL~eA~~~l~~L~~~~~rLe~di~~  390 (421)
T KOG2685|consen  333 TYRPNVELCRDQAQYRLVDEVHELDDTVAALKEKLDEAEDSLKLLVNHRARLERDIAI  390 (421)
T ss_pred             ccCCchHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                     1555433 34566677777777777777777777777777777766653

>PHA02562 46 endonuclease subunit; Provisional

Probab=88.23  E-value=28  Score=34.27  Aligned_cols=34  Identities=6%  Similarity=0.122  Sum_probs=14.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          106 QAVLEMNDDLVKMRQATAQVLASQKRLENKCKAA  139 (251)
Q Consensus       106 Q~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~  139 (251)
                      +.+.++++++.+..........+...++.++..+
T Consensus       213 ~~i~~l~~e~~~l~~~~~~l~~~l~~l~~~i~~l  246 (562)
T PHA02562        213 ENIARKQNKYDELVEEAKTIKAEIEELTDELLNL  246 (562)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444444444444444444444333

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

Probab=88.19  E-value=20  Score=32.54  Aligned_cols=38  Identities=21%  Similarity=0.348  Sum_probs=15.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          171 SYADNANALKAQLDQQKNVVNNLVSNTRLLESKIQEAR  208 (251)
Q Consensus       171 ~~e~~~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k  208 (251)
                      .++..+..+...+...+..+..++..+..++..+.+.+
T Consensus       107 ~le~el~~l~~~~~~l~~~i~~l~~~~~~~e~~~~e~~  144 (239)
T COG1579         107 SLEDELAELMEEIEKLEKEIEDLKERLERLEKNLAEAE  144 (239)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33334444444444444444444444444444333333

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

Probab=88.15  E-value=36  Score=35.53  Aligned_cols=138  Identities=14%  Similarity=0.209  Sum_probs=84.0

Q ss_pred             chHHHHHHHHH------HHHHHhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526           77 NLFDRLARVVK------SYANAILSSFEDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKA  150 (251)
Q Consensus        77 ~if~Rl~~lir------a~in~~lDk~EDP~~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA  150 (251)
                      +|.++|..-++      ...+..+.+++.-..-|.+.+++-++--...+..+-+..+..++.+..|...+..+++++.++
T Consensus       474 ~iIkKLRAk~ke~etl~~K~ge~i~~L~sE~~~lk~il~~Kee~Ek~~~E~I~k~~ae~~rq~~~~~~sr~~~~~le~~~  553 (961)
T KOG4673|consen  474 AIIKKLRAKIKEAETLEEKKGELITKLQSEENKLKSILRDKEETEKLLQETIEKHQAELTRQKDYYSNSRALAAALEAQA  553 (961)
T ss_pred             HHHHHHHHHhhhhhHHHHHhhhHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence            45566554333      334555666666666777777777776677777788888999999999999999999999887


Q ss_pred             HHHHhcCCH----HH-----HH--HHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          151 QLALQKGEE----DL-----AR--EALKRRKSYADNANALKAQLDQQ----KNVVNNLVSNTRLLESKIQEARSKKDTLK  215 (251)
Q Consensus       151 ~~AL~~G~E----dL-----Ar--eAL~rk~~~e~~~~~l~~ql~~~----~~~v~~Lk~~l~~Le~ki~e~k~k~~~Lk  215 (251)
                      .. +++-.+    ||     ++  +|=.+...|..++..|...+...    ....+.++..+.+|..+++....+-+.|.
T Consensus       554 ~a-~qat~d~a~~Dlqk~nrlkQdear~~~~~lvqqv~dLR~~L~~~Eq~aarrEd~~R~Ei~~LqrRlqaaE~R~eel~  632 (961)
T KOG4673|consen  554 LA-EQATNDEARSDLQKENRLKQDEARERESMLVQQVEDLRQTLSKKEQQAARREDMFRGEIEDLQRRLQAAERRCEELI  632 (961)
T ss_pred             HH-HHHhhhhhhhhHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            64 333322    22     11  23333444445555555444332    23344555666666666666655555443

>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional

Probab=88.03  E-value=2.2  Score=42.18  Aligned_cols=52  Identities=10%  Similarity=0.136  Sum_probs=38.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          171 SYADNANALKAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKARAQSAK  222 (251)
Q Consensus       171 ~~e~~~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~LkAr~~~Ak  222 (251)
                      +.+..+.+|+++++..+.+.+.+......+++||++++.+...|+.+...+.
T Consensus        73 eqQ~kasELEKqLaaLrqElq~~saq~~dle~KIkeLEaE~~~Lk~Ql~a~~  124 (475)
T PRK13729         73 EMQVTAAQMQKQYEEIRRELDVLNKQRGDDQRRIEKLGQDNAALAEQVKALG  124 (475)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHhhh
Confidence            3455667777777777777777777788888888888888888888874433

>KOG0982 consensus Centrosomal protein Nuf [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]

Probab=87.90  E-value=29  Score=34.16  Aligned_cols=97  Identities=15%  Similarity=0.196  Sum_probs=60.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC----H---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          121 ATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGE----E---DLAREALKRRKSYADNANALKAQLDQQKNVVNNL  193 (251)
Q Consensus       121 ~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~----E---dLAreAL~rk~~~e~~~~~l~~ql~~~~~~v~~L  193 (251)
                      ...+.+.+--+|..+|..++++..+-+-+|..+|....    |   -++|++--++..++-.+..++.........+..|
T Consensus       244 ~~SrlkqEnlqLvhR~h~LEEq~reqElraeE~l~Ee~rrhrEil~k~eReasle~Enlqmr~qqleeentelRs~~arl  323 (502)
T KOG0982|consen  244 RSSRLKQENLQLVHRYHMLEEQRREQELRAEESLSEEERRHREILIKKEREASLEKENLQMRDQQLEEENTELRSLIARL  323 (502)
T ss_pred             chhHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34556666667777777777777777777777765321    2   2345555555556666666666666666666666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          194 VSNTRLLESKIQEARSKKDTLKAR  217 (251)
Q Consensus       194 k~~l~~Le~ki~e~k~k~~~LkAr  217 (251)
                      +....++....+.+-..++.+.-|
T Consensus       324 ksl~dklaee~qr~sd~LE~lrlq  347 (502)
T KOG0982|consen  324 KSLADKLAEEDQRSSDLLEALRLQ  347 (502)
T ss_pred             HHHHHHHhhhhhhHHHHHHHHHHH
Confidence            666666665555555555555544

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

Probab=87.85  E-value=9.8  Score=39.64  Aligned_cols=61  Identities=21%  Similarity=0.295  Sum_probs=29.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 025526          168 RRKSYADNANALKAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKARAQSAKFVFPLSLL  230 (251)
Q Consensus       168 rk~~~e~~~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~LkAr~~~AkAq~~vn~~  230 (251)
                      +.....+..+.|..+++.+.++++.+...-.++..-++.++.+.+.|. + ..++-+++++..
T Consensus       210 ermaAle~kn~L~~e~~s~kk~l~~~~~~k~rl~~d~E~Lr~e~~qL~-~-~~~~~~~~mrd~  270 (916)
T KOG0249|consen  210 ERMAALEDKNRLEQELESVKKQLEEMRHDKDKLRTDIEDLRGELDQLR-R-SSLEKEQELRDH  270 (916)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHH-H-HHHhhhhhhcch
Confidence            333334444444444444444444444444445555555555555555 2 444444444443

>TIGR02971 heterocyst_DevB ABC exporter membrane fusion protein, DevB family

Probab=87.76  E-value=22  Score=32.53  Aligned_cols=17  Identities=18%  Similarity=-0.074  Sum_probs=8.8

Q ss_pred             cccccCccceeEeeccc
Q 025526           39 TSFFNGGVGALKVTRLR   55 (251)
Q Consensus        39 ~~f~~~~~~~~~~~~~~   55 (251)
                      .++|+|-+..+-|..-.
T Consensus        20 ~~~~~G~V~~i~V~eG~   36 (327)
T TIGR02971        20 SSGGTDRIKKLLVAEGD   36 (327)
T ss_pred             CCCCCcEEEEEEccCCC
Confidence            34555556665554433

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.

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

Probab=87.71  E-value=32  Score=34.38  Aligned_cols=127  Identities=13%  Similarity=0.165  Sum_probs=60.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC------HHHHH---HHHHHHH
Q 025526          100 PEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGE------EDLAR---EALKRRK  170 (251)
Q Consensus       100 P~~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~------EdLAr---eAL~rk~  170 (251)
                      -...|...+.-++.+|.+.+..+..+..........+..+..+..........+.....      +++..   .+-.+..
T Consensus       303 E~~~L~~~vesL~~ELe~~K~el~~lke~e~~a~~~v~~L~~eL~~~r~eLea~~~~e~~~k~~~~~l~~~Lqql~~Eae  382 (522)
T PF05701_consen  303 EASSLRASVESLRSELEKEKEELERLKEREKEASSEVSSLEAELNKTRSELEAAKAEEEKAKEAMSELPKALQQLSSEAE  382 (522)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhhHHHHHHHHHHHHHHHHhhhcchhhhHHHHHHHHHHHHHHHH
Confidence            33444444445555555555555555544444444444444444444444333322221      11111   1111222


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          171 SYADNANALKAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKARAQSAKFVFP  226 (251)
Q Consensus       171 ~~e~~~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~LkAr~~~AkAq~~  226 (251)
                      .....+...+..+..+...++..+..+..++.+|..+....+..++-...|-++-+
T Consensus       383 ~Ak~ea~~~~~E~~~~k~E~e~~ka~i~t~E~rL~aa~ke~eaaKasEa~Ala~ik  438 (522)
T PF05701_consen  383 EAKKEAEEAKEEVEKAKEEAEQTKAAIKTAEERLEAALKEAEAAKASEALALAEIK  438 (522)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            23334444455555566666666666666666666666666665555555444433

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

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

Probab=87.56  E-value=29  Score=33.82  Aligned_cols=43  Identities=9%  Similarity=0.035  Sum_probs=25.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          102 KILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASE  144 (251)
Q Consensus       102 ~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~  144 (251)
                      ....+..++.+-+-.+++.++-.+-.+++..+.++.++..+..
T Consensus        91 ~~a~~~k~~~e~er~~~~~El~~~r~e~~~v~~~~~~a~~n~~  133 (499)
T COG4372          91 GTAQGEKRAAETEREAARSELQKARQEREAVRQELAAARQNLA  133 (499)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4445555556665555566666666666666666665555443

>PF06810 Phage_GP20: Phage minor structural protein GP20; InterPro: IPR009636 This family consists of several phage minor structural protein Gp20 sequences and prophage sequences of around 180 residues in length

Probab=87.34  E-value=11  Score=31.81  Aligned_cols=66  Identities=17%  Similarity=0.207  Sum_probs=45.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHhhCCCCchh
Q 025526          173 ADNANALKAQLDQQKNVVNNLVS---NTRLLESKIQEARSKKD----TLKARAQSAKFVFPLSLLEFPVFSAS  238 (251)
Q Consensus       173 e~~~~~l~~ql~~~~~~v~~Lk~---~l~~Le~ki~e~k~k~~----~LkAr~~~AkAq~~vn~~l~~~~~~~  238 (251)
                      ..+...++.|+.....++..|+.   ....|+.+|.+++.+..    .+.+.....+-...|..++.+.+..+
T Consensus        26 ~~e~~~~k~ql~~~d~~i~~Lk~~~~d~eeLk~~i~~lq~~~~~~~~~~e~~l~~~~~~~ai~~al~~akakn   98 (155)
T PF06810_consen   26 KEERDNLKTQLKEADKQIKDLKKSAKDNEELKKQIEELQAKNKTAKEEYEAKLAQMKKDSAIKSALKGAKAKN   98 (155)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCC
Confidence            56777788888888888888877   77788888888887777    44444444444555556666555444

The function of this family is unknown.; GO: 0005198 structural molecule activity

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

Probab=87.33  E-value=23  Score=32.32  Aligned_cols=13  Identities=15%  Similarity=0.299  Sum_probs=4.9

Q ss_pred             HHHHHHHHHHHHH
Q 025526          110 EMNDDLVKMRQAT  122 (251)
Q Consensus       110 eme~~L~kar~~l  122 (251)
                      ..+.++..++..+
T Consensus        84 ~a~a~l~~~~~~~   96 (334)
T TIGR00998        84 KAEANLAALVRQT   96 (334)
T ss_pred             HHHHHHHHHHHHH
Confidence            3333333333333

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

Probab=87.29  E-value=33  Score=35.08  Aligned_cols=36  Identities=25%  Similarity=0.315  Sum_probs=16.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          105 EQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAE  140 (251)
Q Consensus       105 dQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~  140 (251)
                      .+.+.++++.|.+++..+..+..+.+.+...+.+..
T Consensus       327 ~~el~~l~~~l~~l~~~i~~~~~~~~~l~~~~~q~~  362 (594)
T PF05667_consen  327 EQELEELQEQLDELESQIEELEAEIKMLKSSLKQLE  362 (594)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444555554444444444444444444443333

>COG1566 EmrA Multidrug resistance efflux pump [Defense mechanisms]

Probab=87.22  E-value=18  Score=34.56  Aligned_cols=39  Identities=15%  Similarity=0.084  Sum_probs=21.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          110 EMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYR  148 (251)
Q Consensus       110 eme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~  148 (251)
                      +.+..+.+++..++.+.+..+.++.++..++..++..+.
T Consensus        88 ~y~~al~qAea~la~a~~~~~~~~a~~~~~~A~i~~a~a  126 (352)
T COG1566          88 DYRAALEQAEAALAAAEAQLRNLRAQLASAQALIAQAEA  126 (352)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444455555555555555555555555555555544444

>PRK15136 multidrug efflux system protein EmrA; Provisional

Probab=86.98  E-value=23  Score=33.81  Aligned_cols=14  Identities=29%  Similarity=0.366  Sum_probs=6.2

Q ss_pred             HHHHHHHHHHHHHH
Q 025526          160 DLAREALKRRKSYA  173 (251)
Q Consensus       160 dLAreAL~rk~~~e  173 (251)
                      ++|+.-+.|...+.
T Consensus       137 ~~a~~~~~R~~~L~  150 (390)
T PRK15136        137 AQAQSDLNRRVPLG  150 (390)
T ss_pred             HHHHHHHHHHHHHH
Confidence            34444444444443

>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=86.90  E-value=24  Score=38.05  Aligned_cols=107  Identities=19%  Similarity=0.246  Sum_probs=58.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHH--HHHHHHHHHHHHHHHHHHHHHHH
Q 025526          109 LEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAR--EALKRRKSYADNANALKAQLDQQ  186 (251)
Q Consensus       109 reme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~EdLAr--eAL~rk~~~e~~~~~l~~ql~~~  186 (251)
                      .|.+.......+.+..-..-..++++.++.+...++.+.++-..   ++.-++-.  .=......+......++...+.+
T Consensus       184 ~~lr~~e~~Le~~~~~~~~~l~~L~~~~~~l~kdVE~~rer~~~---~~~Ie~l~~k~~~v~y~~~~~ey~~~k~~~~r~  260 (1072)
T KOG0979|consen  184 MDLREDEKSLEDKLTTKTEKLNRLEDEIDKLEKDVERVRERERK---KSKIELLEKKKKWVEYKKHDREYNAYKQAKDRA  260 (1072)
T ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHhccccchHhhhHHHHHHHHHHHHH
Confidence            34445555555555555555555555555555555555444321   11111111  11223344556666677777777


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          187 KNVVNNLVSNTRLLESKIQEARSKKDTLKARA  218 (251)
Q Consensus       187 ~~~v~~Lk~~l~~Le~ki~e~k~k~~~LkAr~  218 (251)
                      ...+..+......++.++.+++.++..+..+.
T Consensus       261 k~~~r~l~k~~~pi~~~~eeLe~~~~et~~~~  292 (1072)
T KOG0979|consen  261 KKELRKLEKEIKPIEDKKEELESEKKETRSKI  292 (1072)
T ss_pred             HHHHHHHHHhhhhhhhhhhhHHhHHHhHHHHH
Confidence            77777777777777777777777666555543

>PRK12704 phosphodiesterase; Provisional

Probab=86.67  E-value=37  Score=34.04  Aligned_cols=50  Identities=12%  Similarity=0.161  Sum_probs=26.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          100 PEKILEQAVLEMNDDLVKMRQAT-AQVLASQKRLENKCKAAEQASEDWYRK  149 (251)
Q Consensus       100 P~~mLdQ~Ireme~~L~kar~~l-A~v~A~~k~le~k~~~~~~~~~~~e~r  149 (251)
                      ...+++++..+.++...+++... ..+...+..+++++++.+.++.+.+++
T Consensus        40 Ae~I~keA~~eAke~~ke~~leaeeE~~~~R~Ele~e~~~~e~~L~qrE~r   90 (520)
T PRK12704         40 AKRILEEAKKEAEAIKKEALLEAKEEIHKLRNEFEKELRERRNELQKLEKR   90 (520)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34666666666666555555443 334444444455544445555444443

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

Probab=86.62  E-value=40  Score=36.00  Aligned_cols=65  Identities=14%  Similarity=0.273  Sum_probs=40.7

Q ss_pred             HHHHHHHhhcccCCHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526           86 VKSYANAILSSFEDPE---KILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKA  150 (251)
Q Consensus        86 ira~in~~lDk~EDP~---~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA  150 (251)
                      ++..=++++.+..|-.   .+-++.|-|+++...+....+-++-....+++.++++..+..+.++..-
T Consensus       436 l~~~h~~lL~K~~di~kQle~~~~s~~~~~~~~~~L~d~le~~~~~~~~~~~K~e~~~~~le~l~~El  503 (980)
T KOG0980|consen  436 LRQEHADLLRKYDDIQKQLESAEQSIDDVEEENTNLNDQLEELQRAAGRAETKTESQAKALESLRQEL  503 (980)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence            3444556777777654   3445566666666666666666666666666667766666666665443

>PRK09174 F0F1 ATP synthase subunit B'; Validated

Probab=86.55  E-value=22  Score=31.25  Aligned_cols=56  Identities=16%  Similarity=0.096  Sum_probs=41.1

Q ss_pred             CH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526           99 DP-EKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLAL  154 (251)
Q Consensus        99 DP-~~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL  154 (251)
                      .| ..+|+.=-..+.++|.++.....++.......+.++.+.+.++.+.-..|+...
T Consensus        76 ~pI~~vLe~R~~~I~~~L~~Ae~~k~eAe~~~~~ye~~L~~Ar~eA~~Ii~~Ar~ea  132 (204)
T PRK09174         76 PRIGGIIETRRDRIAQDLDQAARLKQEADAAVAAYEQELAQARAKAHSIAQAAREAA  132 (204)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45 367777777777778888877777777777788888888877777777665544

>PRK10884 SH3 domain-containing protein; Provisional

Probab=86.51  E-value=22  Score=31.35  Aligned_cols=19  Identities=5%  Similarity=0.214  Sum_probs=10.6

Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q 025526          108 VLEMNDDLVKMRQATAQVL  126 (251)
Q Consensus       108 Ireme~~L~kar~~lA~v~  126 (251)
                      +-++++++.+++..++.+.
T Consensus        95 lp~le~el~~l~~~l~~~~  113 (206)
T PRK10884         95 VPDLENQVKTLTDKLNNID  113 (206)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            3456666666665555543

>KOG0161 consensus Myosin class II heavy chain [Cytoskeleton]

Probab=86.31  E-value=73  Score=37.07  Aligned_cols=52  Identities=23%  Similarity=0.321  Sum_probs=34.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          167 KRRKSYADNANALKAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKARA  218 (251)
Q Consensus       167 ~rk~~~e~~~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~LkAr~  218 (251)
                      .+.+.+...+..+..++......+.+|+...+.++..+.+++..++.+.+-.
T Consensus      1491 renk~l~~ei~dl~~~~~e~~k~v~elek~~r~le~e~~elQ~aLeElE~~l 1542 (1930)
T KOG0161|consen 1491 RENKNLSQEIEDLEEQKDEGGKRVHELEKEKRRLEQEKEELQAALEELEAAL 1542 (1930)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3445566666666666666666777777777777777777777777776643

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

Probab=86.13  E-value=48  Score=34.81  Aligned_cols=47  Identities=17%  Similarity=0.319  Sum_probs=42.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          163 REALKRRKSYADNANALKAQLDQQKNVVNNLVSNTRLLESKIQEARS  209 (251)
Q Consensus       163 reAL~rk~~~e~~~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~  209 (251)
                      -.||+++..+.++.+.+++++++....-++|..+...|...+..+++
T Consensus       212 maAle~kn~L~~e~~s~kk~l~~~~~~k~rl~~d~E~Lr~e~~qL~~  258 (916)
T KOG0249|consen  212 MAALEDKNRLEQELESVKKQLEEMRHDKDKLRTDIEDLRGELDQLRR  258 (916)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            36899999999999999999999999999999999988888888884

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

Probab=85.99  E-value=27  Score=31.80  Aligned_cols=115  Identities=12%  Similarity=0.139  Sum_probs=57.5

Q ss_pred             HHHHHHHhhcccC-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHH
Q 025526           86 VKSYANAILSSFE-DPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLARE  164 (251)
Q Consensus        86 ira~in~~lDk~E-DP~~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~EdLAre  164 (251)
                      |++.....+++.- |++......|.++..........+..+..+-+.+..++..+..++..+..+        ++.|-+.
T Consensus       174 iR~~ye~~~~~~~~e~e~~y~~k~~~l~~~~~~~~~~~~~~~~E~~~~r~~~~~l~~el~~l~~~--------~~~Le~~  245 (312)
T PF00038_consen  174 IRAQYEEIAQKNREELEEWYQSKLEELRQQSEKSSEELESAKEELKELRRQIQSLQAELESLRAK--------NASLERQ  245 (312)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHH
T ss_pred             HHHHHHHHHhhhhhhhhhhcccccccccccccccccccchhHhHHHHHHhhhhHhhhhhhccccc--------hhhhhhh
Confidence            4444444444332 455666666666666666666666666666666666666666666554443        1223333


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          165 ALKRRKSYADNANALKAQLDQQKNVVNNLVSNTRLLESKIQEAR  208 (251)
Q Consensus       165 AL~rk~~~e~~~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k  208 (251)
                      +-.-...+......++..+...+..+.+++..+......++++-
T Consensus       246 l~~le~~~~~~~~~~~~~i~~le~el~~l~~~~~~~~~ey~~Ll  289 (312)
T PF00038_consen  246 LRELEQRLDEEREEYQAEIAELEEELAELREEMARQLREYQELL  289 (312)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhhhccchhHHHHHHHHHHHHHHHHHHH
Confidence            33333344444444444444444444444444444444444333

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 ....

>TIGR03545 conserved hypothetical protein TIGR03545

Probab=85.96  E-value=13  Score=37.69  Aligned_cols=60  Identities=13%  Similarity=0.231  Sum_probs=33.6

Q ss_pred             HhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526           92 AILSSFEDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQL  152 (251)
Q Consensus        92 ~~lDk~EDP~~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~  152 (251)
                      ..-..+-||..+|++.=..-.+...++++.+-......+....++- -....+.+.++...
T Consensus       143 ~~~~~lp~~~eil~~~~L~T~~~~~~~~~~~k~~~~~w~~~~~~Lp-~~~~~~~yk~~v~~  202 (555)
T TIGR03545       143 KVDSQLPDPRALLKGEDLKTVETAEEIEKSLKAMQQKWKKRKKDLP-NKQDLEEYKKRLEA  202 (555)
T ss_pred             cccccCCCHHHHhccCCCCcHHHHHHHHHHHHHHHHHHHHHHHhcC-CchhHHHHHHHHHH
Confidence            3334556899999877666666666666655555444443333332 14555555555554

This model represents a relatively rare but broadly distributed uncharacterized protein family, distributed in 1-2 percent of bacterial genomes, all of which have outer membranes. In many of these genomes, it is part of a two-gene pair.

>PF06637 PV-1: PV-1 protein (PLVAP); InterPro: IPR009538 This family consists of several PV-1 (PLVAP) proteins, which seem to be specific to mammals

Probab=85.76  E-value=26  Score=34.02  Aligned_cols=30  Identities=20%  Similarity=0.412  Sum_probs=11.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          165 ALKRRKSYADNANALKAQLDQQKNVVNNLV  194 (251)
Q Consensus       165 AL~rk~~~e~~~~~l~~ql~~~~~~v~~Lk  194 (251)
                      ||++|..+.++-+.|.++++.-+.++++++
T Consensus       347 aLEEKaaLrkerd~L~keLeekkreleql~  376 (442)
T PF06637_consen  347 ALEEKAALRKERDSLAKELEEKKRELEQLK  376 (442)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444443333333333

PV-1 is a novel protein component of the endothelial fenestral and stomatal diaphragms []. The function of this family is unknown.

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

Probab=85.53  E-value=55  Score=34.94  Aligned_cols=60  Identities=18%  Similarity=0.271  Sum_probs=30.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHH
Q 025526          163 REALKRRKSYADNANALKAQLDQQKNVVNNLVSNTRLLE----------SKIQEARSKKDTLKARAQSAK  222 (251)
Q Consensus       163 reAL~rk~~~e~~~~~l~~ql~~~~~~v~~Lk~~l~~Le----------~ki~e~k~k~~~LkAr~~~Ak  222 (251)
                      |..-+.+...+.....|....+..+++++.++..+-.++          ..++++..|.+.+.+....+.
T Consensus       368 r~i~e~k~nve~elqsL~~l~aerqeQidelKn~if~~e~~~~dhe~~kneL~~a~ekld~mgthl~mad  437 (1265)
T KOG0976|consen  368 RSIQEKKENVEEELQSLLELQAERQEQIDELKNHIFRLEQGKKDHEAAKNELQEALEKLDLMGTHLSMAD  437 (1265)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhccchhHHHHHHHHHHHHHHHHHhHHHHHHH
Confidence            444444444444444444444555555555554443333          346666666666665554444

>smart00502 BBC B-Box C-terminal domain

Probab=85.25  E-value=15  Score=28.15  Aligned_cols=98  Identities=15%  Similarity=0.252  Sum_probs=55.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          104 LEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALKAQL  183 (251)
Q Consensus       104 LdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~EdLAreAL~rk~~~e~~~~~l~~ql  183 (251)
                      |...+.++......+...+..+......++.+.+.....+.........+|..-.++|-.+.=..   .......+..++
T Consensus         5 L~~~l~~l~~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~I~~~f~~l~~~L~~~e~~ll~~l~~~---~~~~~~~l~~q~   81 (127)
T smart00502        5 LEELLTKLRKKAAELEDALKQLISIIQEVEENAADVEAQIKAAFDELRNALNKRKKQLLEDLEEQ---KENKLKVLEQQL   81 (127)
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHH
Confidence            45555566666666666666666666777777777777777777777777766555444333222   223334444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHH
Q 025526          184 DQQKNVVNNLVSNTRLLESKI  204 (251)
Q Consensus       184 ~~~~~~v~~Lk~~l~~Le~ki  204 (251)
                      +.++..+..+...+.-.+..+
T Consensus        82 ~~l~~~l~~l~~~~~~~e~~l  102 (127)
T smart00502       82 ESLTQKQEKLSHAINFTEEAL  102 (127)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            444445555544444444433

Coiled coil region C-terminal to (some) B-Box domains

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

Probab=85.22  E-value=56  Score=34.74  Aligned_cols=47  Identities=6%  Similarity=0.090  Sum_probs=24.3

Q ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526           99 DPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASED  145 (251)
Q Consensus        99 DP~~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~  145 (251)
                      +-...|++-|-|.+-.+...+..+..+.......-..++++..++.+
T Consensus       451 ~k~qqls~kl~Dvr~~~tt~kt~ie~~~~q~e~~isei~qlqarikE  497 (1118)
T KOG1029|consen  451 FKLQQLSGKLQDVRVDITTQKTEIEEVTKQRELMISEIDQLQARIKE  497 (1118)
T ss_pred             HHHHHHhhhhhhheeccchHHHHHHHhhhHHHHHHHHHHHHHHHHHH
Confidence            44455666666666666666666655544444333334444433333

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

Probab=84.94  E-value=34  Score=32.01  Aligned_cols=13  Identities=23%  Similarity=0.371  Sum_probs=4.7

Q ss_pred             HHHHHHHHHHHHH
Q 025526          130 KRLENKCKAAEQA  142 (251)
Q Consensus       130 k~le~k~~~~~~~  142 (251)
                      +.++.+.+++.++
T Consensus        67 ~~LE~e~~~l~~e   79 (314)
T PF04111_consen   67 EELEKEREELDQE   79 (314)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            3333333333333

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.

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

Probab=84.73  E-value=30  Score=31.22  Aligned_cols=101  Identities=16%  Similarity=0.232  Sum_probs=37.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          106 QAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALKAQLDQ  185 (251)
Q Consensus       106 Q~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~EdLAreAL~rk~~~e~~~~~l~~ql~~  185 (251)
                      +.+.+.++........+-.+-.....|+.+..++......+...+.. ....++.|+.+.    ..++..+..+....+.
T Consensus        26 ~~L~e~e~~a~~Leek~k~aeeea~~Le~k~~eaee~~~rL~~~~~~-~~eEk~~Le~e~----~e~~~~i~~l~ee~~~  100 (246)
T PF00769_consen   26 EALEESEETAEELEEKLKQAEEEAEELEQKRQEAEEEKQRLEEEAEM-QEEEKEQLEQEL----REAEAEIARLEEESER  100 (246)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------------HHHH----HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHH----HHHHHHHHHHHHHHHH
Confidence            33333333333333333333334444444444444444444433332 122223333222    2334444444444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          186 QKNVVNNLVSNTRLLESKIQEARSKK  211 (251)
Q Consensus       186 ~~~~v~~Lk~~l~~Le~ki~e~k~k~  211 (251)
                      -......|+..+...+......+.++
T Consensus       101 ke~Ea~~lq~el~~ar~~~~~ak~~L  126 (246)
T PF00769_consen  101 KEEEAEELQEELEEAREDEEEAKEEL  126 (246)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444444444444444444444443

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.

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

Probab=84.71  E-value=28  Score=30.82  Aligned_cols=94  Identities=18%  Similarity=0.211  Sum_probs=52.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHH
Q 025526          101 EKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALK  180 (251)
Q Consensus       101 ~~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~EdLAreAL~rk~~~e~~~~~l~  180 (251)
                      ...-+-.+.+++.++..+...+-.+.+....+..+.+.+...+.....+...|                   +..++..+
T Consensus       104 aE~~Es~~~eLeEe~~~~~~nlk~l~~~ee~~~q~~d~~e~~ik~ltdKLkEa-------------------E~rAE~aE  164 (205)
T KOG1003|consen  104 AEAAESQSEELEEDLRILDSNLKSLSAKEEKLEQKEEKYEEELKELTDKLKEA-------------------ETRAEFAE  164 (205)
T ss_pred             HHHHHHHHHHHHHHHHHhHhHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhhh-------------------hhhHHHHH
Confidence            33444555667777777777777777777777777777777666666644333                   33333334


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          181 AQLDQQKNVVNNLVSNTRLLESKIQEARSKKDT  213 (251)
Q Consensus       181 ~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~  213 (251)
                      ..+..++..++.|...+...+.++..++..++.
T Consensus       165 RsVakLeke~DdlE~kl~~~k~ky~~~~~eLD~  197 (205)
T KOG1003|consen  165 RRVAKLEKERDDLEEKLEEAKEKYEEAKKELDE  197 (205)
T ss_pred             HHHHHHcccHHHHHHhhHHHHHHHHHHHHHHHH
Confidence            444444444444444444444444444444443

>PRK00846 hypothetical protein; Provisional

Probab=84.69  E-value=11  Score=28.44  Aligned_cols=54  Identities=9%  Similarity=0.019  Sum_probs=41.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          169 RKSYADNANALKAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKARAQSAK  222 (251)
Q Consensus       169 k~~~e~~~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~LkAr~~~Ak  222 (251)
                      -...++++..|+..+.-++..++.|...+.+....|..++.+...|.-|....+
T Consensus         8 ~~~le~Ri~~LE~rlAfQe~tIe~LN~~v~~qq~~I~~L~~ql~~L~~rL~~~~   61 (77)
T PRK00846          8 DQALEARLVELETRLSFQEQALTELSEALADARLTGARNAELIRHLLEDLGKVR   61 (77)
T ss_pred             HhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            345677788888888888888888888888888888888888887777766554

>PRK05689 fliJ flagellar biosynthesis chaperone; Validated

Probab=84.67  E-value=20  Score=29.16  Aligned_cols=96  Identities=11%  Similarity=0.061  Sum_probs=63.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          110 EMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALKAQLDQQKNV  189 (251)
Q Consensus       110 eme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~EdLAreAL~rk~~~e~~~~~l~~ql~~~~~~  189 (251)
                      =.+....++...++.+.......+.++..+.....++..+.......|=.      ......+..-+..|...+..+...
T Consensus        13 l~~~~ee~a~~~la~a~~~~~~~~~~L~~L~~y~~~y~~~~~~~~~~g~~------~~~l~~~~~fi~~L~~~I~~q~~~   86 (147)
T PRK05689         13 LAEKAEEQAALQLGQARQELQQAEQQLKMLEDYRLEYRQQLNDRGSAGMT------SSWWINYQQFLQQLEKAITQQRQQ   86 (147)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCcC------HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44556667788899999999999999999999898888877665555532      123344455555666666666666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q 025526          190 VNNLVSNTRLLESKIQEARSKK  211 (251)
Q Consensus       190 v~~Lk~~l~~Le~ki~e~k~k~  211 (251)
                      +..++..+......+.+...++
T Consensus        87 v~~~~~~ve~~r~~~~~a~~~~  108 (147)
T PRK05689         87 LTQWTQKVDNARKYWQEKKQRL  108 (147)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            6666655555555554444443

>PLN02718 Probable galacturonosyltransferase

Probab=84.66  E-value=7.9  Score=39.46  Aligned_cols=110  Identities=17%  Similarity=0.217  Sum_probs=90.4

Q ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHH
Q 025526           98 EDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNAN  177 (251)
Q Consensus        98 EDP~~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~EdLAreAL~rk~~~e~~~~  177 (251)
                      .+|..+-|-.|+.|+++|..||.=+  .+|..+.-..-..++...+.+.+.-.-.|  ..|.||=..+..+....+..+.
T Consensus       157 ~~~~~~~d~~v~~~~dql~~ak~y~--~~a~~~~~~~~~~el~~~i~e~~~~l~~~--~~d~~lp~~~~~~~~~m~~~~~  232 (603)
T PLN02718        157 VQPRRATDEKVKEIRDKIIQAKAYL--NLAPPGSNSQLVKELRLRTKELERAVGDA--TKDKDLSKSALQRMKSMEVTLY  232 (603)
T ss_pred             CCcccCcHHHHHHHHHHHHHHHHHH--HHhccCCcHHHHHHHHHHHHHHHHHHhcc--cCCCCCCHhHHHHHHHHHHHHH
Confidence            3567888999999999999999876  67766667777778888888887776666  6666799999999888888888


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          178 ALKAQLDQQKNVVNNLVSNTRLLESKIQEARSKK  211 (251)
Q Consensus       178 ~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k~  211 (251)
                      .-+.........+.+|+.-+..+|.+....+.+-
T Consensus       233 ~a~~~~~d~~~~~~klr~~~~~~e~~~~~~~~q~  266 (603)
T PLN02718        233 KASRVFPNCPAIATKLRAMTYNTEEQVRAQKNQA  266 (603)
T ss_pred             HHHhccccHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            8888888899999999999999888877665543

>TIGR01010 BexC_CtrB_KpsE polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family

Probab=84.52  E-value=35  Score=31.90  Aligned_cols=86  Identities=20%  Similarity=0.090  Sum_probs=39.1

Q ss_pred             CCHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-C---HHHHHHHHHHHH
Q 025526           98 EDPE---KILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKG-E---EDLAREALKRRK  170 (251)
Q Consensus        98 EDP~---~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G-~---EdLAreAL~rk~  170 (251)
                      .||+   .+.+-.+..++.-+...+...  .......++.++.+++.+..+.+.+...=-.+. .   +.-+........
T Consensus       140 ~dP~~A~~ian~l~~~~~~~i~~~~~~~--~~~a~~fl~~ql~~~~~~l~~ae~~l~~fr~~~~~~d~~~~~~~~~~~i~  217 (362)
T TIGR01010       140 FDAEEAQKINQRLLKEGERLINRLNERA--RKDTIAFAENEVKEAEQRLNATKAELLKYQIKNKVFDPKAQSSAQLSLIS  217 (362)
T ss_pred             cCHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcChHHHHHHHHHHHH
Confidence            3785   566666555555444432222  223334555555555555555554443322222 1   222334444444


Q ss_pred             HHHHHHHHHHHHHHH
Q 025526          171 SYADNANALKAQLDQ  185 (251)
Q Consensus       171 ~~e~~~~~l~~ql~~  185 (251)
                      +++.++..++.++..
T Consensus       218 ~L~~~l~~~~~~l~~  232 (362)
T TIGR01010       218 TLEGELIRVQAQLAQ  232 (362)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            444444444444443

This family contains gamma proteobacterial proteins involved in capsule polysaccharide export.

>smart00685 DM14 Repeats in fly CG4713, worm Y37H9A

Probab=84.41  E-value=5.5  Score=28.47  Aligned_cols=44  Identities=27%  Similarity=0.379  Sum_probs=37.3

Q ss_pred             HHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHH
Q 025526          137 KAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALK  180 (251)
Q Consensus       137 ~~~~~~~~~~e~rA~~AL~~G~EdLAreAL~rk~~~e~~~~~l~  180 (251)
                      +.++....+|..-|..|-++||.+-||..+.--+.+++.+...+
T Consensus         2 ~~L~~R~~~yk~Aa~~AK~~gd~~kAr~~~R~~K~~~~~I~~~~   45 (59)
T smart00685        2 ALLQQRQEQYKQAALQAKRAGDEEKARRHLRIAKQFDDAIKAAR   45 (59)
T ss_pred             hHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHhhHHHHHHHHH
Confidence            45677788889999999999999999999999888888776654

3 and human FLJ20241.

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

Probab=84.25  E-value=47  Score=35.99  Aligned_cols=51  Identities=22%  Similarity=0.289  Sum_probs=24.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          166 LKRRKSYADNANALKAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKA  216 (251)
Q Consensus       166 L~rk~~~e~~~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~LkA  216 (251)
                      |...+.+.+.+..-+..++........+...-..+..+|..++.++..|.+
T Consensus       327 l~~l~~~~~ki~e~~~EL~~I~Pky~~l~~ee~~~~~rl~~l~~~~~~l~~  377 (1200)
T KOG0964|consen  327 LHVLQKVKDKIEEKKDELSKIEPKYNSLVDEEKRLKKRLAKLEQKQRDLLA  377 (1200)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhhHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence            333344444455555555555555455544444555555555554444443

>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=84.11  E-value=30  Score=30.80  Aligned_cols=21  Identities=10%  Similarity=0.205  Sum_probs=8.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHH
Q 025526          193 LVSNTRLLESKIQEARSKKDT  213 (251)
Q Consensus       193 Lk~~l~~Le~ki~e~k~k~~~  213 (251)
                      ....+.++...+.+.+.+...
T Consensus       117 ~~~~~~~~~~~~~~~~~~l~~  137 (302)
T PF10186_consen  117 RQEQLEELQNELEERKQRLSQ  137 (302)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            333334444444444444333

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

>PF04102 SlyX: SlyX; InterPro: IPR007236 The SlyX protein has no known function

Probab=83.99  E-value=8.7  Score=27.89  Aligned_cols=48  Identities=15%  Similarity=0.243  Sum_probs=26.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          173 ADNANALKAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKARAQS  220 (251)
Q Consensus       173 e~~~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~LkAr~~~  220 (251)
                      ++++..|+..+.-++..+++|..-+.+-..+|..++.+...|..|...
T Consensus         3 e~Ri~~LE~~la~qe~~ie~Ln~~v~~Qq~~I~~L~~~l~~L~~rl~~   50 (69)
T PF04102_consen    3 EERIEELEIKLAFQEDTIEELNDVVTEQQRQIDRLQRQLRLLRERLRE   50 (69)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT---
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455555555555566666666655555555555555555555555444

It is short, less than 80 amino acids, and its gene is found close to the slyD gene. The SlyX protein has a conserved PPH(Y/W) motif at its C terminus. The protein may be a coiled-coil structure.; PDB: 3EFG_A.

>PRK04778 septation ring formation regulator EzrA; Provisional

Probab=83.73  E-value=52  Score=33.16  Aligned_cols=49  Identities=10%  Similarity=0.165  Sum_probs=20.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          164 EALKRRKSYADNANALKAQLDQQKNVVNNLVSNTRLLESKIQEARSKKD  212 (251)
Q Consensus       164 eAL~rk~~~e~~~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~  212 (251)
                      .+..+...+.+++..++.+.......+..|+......+.++.+++.+..
T Consensus       380 el~e~leel~e~leeie~eq~ei~e~l~~Lrk~E~eAr~kL~~~~~~L~  428 (569)
T PRK04778        380 ELQEELEEILKQLEEIEKEQEKLSEMLQGLRKDELEAREKLERYRNKLH  428 (569)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333334444444444444444444444444444444444444444333

>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=83.70  E-value=53  Score=33.29  Aligned_cols=11  Identities=0%  Similarity=0.087  Sum_probs=4.9

Q ss_pred             HHHHHHHHHhh
Q 025526           84 RVVKSYANAIL   94 (251)
Q Consensus        84 ~lira~in~~l   94 (251)
                      .++.+.+....
T Consensus       139 ~~lQ~qlE~~q  149 (546)
T PF07888_consen  139 QLLQNQLEECQ  149 (546)
T ss_pred             HHHHHHHHHHH
Confidence            34445544443

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 [].

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

Probab=83.65  E-value=32  Score=36.41  Aligned_cols=8  Identities=38%  Similarity=0.252  Sum_probs=3.3

Q ss_pred             HHHHHHHH
Q 025526          103 ILEQAVLE  110 (251)
Q Consensus       103 mLdQ~Ire  110 (251)
                      +.+|.-|+
T Consensus       336 leeqqqre  343 (1118)
T KOG1029|consen  336 LEEQQQRE  343 (1118)
T ss_pred             HHHHHHHH
Confidence            44444443

>cd00632 Prefoldin_beta Prefoldin beta; Prefoldin is a hexameric molecular chaperone complex, composed of two evolutionarily related subunits (alpha and beta), which are found in both eukaryotes and archaea

Probab=83.56  E-value=19  Score=27.95  Aligned_cols=96  Identities=17%  Similarity=0.255  Sum_probs=49.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          112 NDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYR---KAQLALQKGEEDLAREALKRRKSYADNANALKAQLDQQKN  188 (251)
Q Consensus       112 e~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~---rA~~AL~~G~EdLAreAL~rk~~~e~~~~~l~~ql~~~~~  188 (251)
                      -..+.+.+..+..+......++.++.+...-.+.+..   -...=..-|      .++.+ .+..+-...++..++..+.
T Consensus         5 ~~~~q~l~~~~~~l~~~~~~l~~~~~E~~~v~~EL~~l~~d~~vy~~VG------~vfv~-~~~~ea~~~Le~~~e~le~   77 (105)
T cd00632           5 LAQLQQLQQQLQAYIVQRQKVEAQLNENKKALEELEKLADDAEVYKLVG------NVLVK-QEKEEARTELKERLETIEL   77 (105)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcchHHHHhh------hHHhh-ccHHHHHHHHHHHHHHHHH
Confidence            3455556666666666666666666666555555442   111111112      22222 3444445555555555666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          189 VVNNLVSNTRLLESKIQEARSKKDTL  214 (251)
Q Consensus       189 ~v~~Lk~~l~~Le~ki~e~k~k~~~L  214 (251)
                      .+..+..++..++.++.+++.+...+
T Consensus        78 ~i~~l~~~~~~l~~~~~elk~~l~~~  103 (105)
T cd00632          78 RIKRLERQEEDLQEKLKELQEKIQQA  103 (105)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            66666666666666666665555443

Prefoldin binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The hexameric structure consists of a double beta barrel assembly with six protruding coiled-coils. The alpha prefoldin subunits have two beta hairpin structures while the beta prefoldin subunits (this CD) have only one hairpin that is most similar to the second hairpin of the alpha subunit. The prefoldin hexamer consists of two alpha and four beta subunits and is assembled from the beta hairpins of all six subunits. The alpha subunits initially dimerize providing a structural nucleus for the assembly of the beta subunits. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the st

>TIGR02231 conserved hypothetical protein

Probab=83.55  E-value=16  Score=36.23  Aligned_cols=35  Identities=20%  Similarity=0.214  Sum_probs=24.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          101 EKILEQAVLEMNDDLVKMRQATAQVLASQKRLENK  135 (251)
Q Consensus       101 ~~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k  135 (251)
                      ..-|+..|+++++++.+++..+..+.+..+.++.-
T Consensus        73 ~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~l~~~  107 (525)
T TIGR02231        73 LAELRKQIRELEAELRDLEDRGDALKALAKFLEDI  107 (525)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            36677777777777777777777666666666554

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.

>TIGR02473 flagell_FliJ flagellar export protein FliJ

Probab=83.31  E-value=21  Score=28.37  Aligned_cols=95  Identities=18%  Similarity=0.204  Sum_probs=59.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          108 VLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALKAQLDQQK  187 (251)
Q Consensus       108 Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~EdLAreAL~rk~~~e~~~~~l~~ql~~~~  187 (251)
                      +.=-+....+++..++.+.......+.++..+.....++......-...|-.--      ....+..-+..+...+..+.
T Consensus         8 l~lr~~~ed~a~~~la~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~g~~~~------~l~~~~~f~~~l~~~i~~q~   81 (141)
T TIGR02473         8 LDLREKEEEQAKLELAKAQAEFERLETQLQQLIKYREEYEQQALEKVGAGTSAL------ELSNYQRFIRQLDQRIQQQQ   81 (141)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCHH------HHHHHHHHHHHHHHHHHHHH
Confidence            334456677888999999999999999999999999999888776666662211      11233344444444444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHH
Q 025526          188 NVVNNLVSNTRLLESKIQEAR  208 (251)
Q Consensus       188 ~~v~~Lk~~l~~Le~ki~e~k  208 (251)
                      ..+..++..+...+..+.+..
T Consensus        82 ~~l~~~~~~~e~~r~~l~~a~  102 (141)
T TIGR02473        82 QELALLQQEVEAKRERLLEAR  102 (141)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            444444444444444444443

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.

>KOG0288 consensus WD40 repeat protein TipD [General function prediction only]

Probab=83.30  E-value=48  Score=32.51  Aligned_cols=127  Identities=14%  Similarity=0.143  Sum_probs=60.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          104 LEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALKAQL  183 (251)
Q Consensus       104 LdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~EdLAreAL~rk~~~e~~~~~l~~ql  183 (251)
                      .||-+-+++..+.+..+....+.++.--++..++.+.+...+.|.-... |+..+.+|-.+...    .+.....+..+.
T Consensus        11 ~dqr~~~~~~~laq~~k~~s~~~aq~~~~~a~~~ai~a~~~~~E~~l~~-Lq~e~~~l~e~~v~----~~a~~~~~t~~~   85 (459)
T KOG0288|consen   11 NDQRLIDLNTELAQCEKAQSRLSAQLVILRAESRAIKAKLQEKELELNR-LQEENTQLNEERVR----EEATEKTLTVDV   85 (459)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHH----HHHHHHHHHHHH
Confidence            4555666666666666666666666655555555555555554433222 33333333222222    233333333333


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCC
Q 025526          184 DQQKNVVNNLVSNTRLLESKIQEARSKKDTLKARAQSAKFVFPLSLLEFPVF  235 (251)
Q Consensus       184 ~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~LkAr~~~AkAq~~vn~~l~~~~  235 (251)
                      ...+.....+...++++..+-.++...-..|.-..+.-+-++++++....++
T Consensus        86 ~~~en~~~r~~~eir~~~~q~~e~~n~~~~l~~~~~~~r~~e~la~~~~~l~  137 (459)
T KOG0288|consen   86 LIAENLRIRSLNEIRELREQKAEFENAELALREMRRKMRIAERLAEALKDLG  137 (459)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhhhccchhhHHHHHHHHHHHHHHHHHhhhcc
Confidence            3344444444445555555555555444444444444444455555544433

>TIGR01005 eps_transp_fam exopolysaccharide transport protein family

Probab=83.21  E-value=60  Score=33.54  Aligned_cols=25  Identities=8%  Similarity=0.162  Sum_probs=15.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          101 EKILEQAVLEMNDDLVKMRQATAQV  125 (251)
Q Consensus       101 ~~mLdQ~Ireme~~L~kar~~lA~v  125 (251)
                      ..-|+..|.++++++.+++..+..-
T Consensus       196 ~~~L~~ql~~l~~~l~~aE~~l~~f  220 (754)
T TIGR01005       196 ADFLAPEIADLSKQSRDAEAEVAAY  220 (754)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4566666666666666666555544

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.

>PF12761 End3: Actin cytoskeleton-regulatory complex protein END3

Probab=83.18  E-value=24  Score=31.13  Aligned_cols=24  Identities=29%  Similarity=0.437  Sum_probs=18.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          101 EKILEQAVLEMNDDLVKMRQATAQ  124 (251)
Q Consensus       101 ~~mLdQ~Ireme~~L~kar~~lA~  124 (251)
                      +..|.-.+.+++..|.++......
T Consensus        98 evrLkrELa~Le~~l~~~~~~~~~  121 (195)
T PF12761_consen   98 EVRLKRELAELEEKLSKVEQAAES  121 (195)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHh
Confidence            477888888888888888777665

>TIGR02338 gimC_beta prefoldin, beta subunit, archaeal

Probab=83.15  E-value=20  Score=28.07  Aligned_cols=100  Identities=20%  Similarity=0.237  Sum_probs=57.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          108 VLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKA---QLALQKGEEDLAREALKRRKSYADNANALKAQLD  184 (251)
Q Consensus       108 Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA---~~AL~~G~EdLAreAL~rk~~~e~~~~~l~~ql~  184 (251)
                      +.+.-..+.+.++.+..+......++.++.+...-.+.++.=-   .-=---|.      .+.+ .+.++-...++..++
T Consensus         5 ~q~~~~~~q~~q~~~~~l~~q~~~le~~~~E~~~v~~eL~~l~~d~~vyk~VG~------vlv~-~~~~e~~~~l~~r~e   77 (110)
T TIGR02338         5 VQNQLAQLQQLQQQLQAVATQKQQVEAQLKEAEKALEELERLPDDTPVYKSVGN------LLVK-TDKEEAIQELKEKKE   77 (110)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcchhHHHhch------hhhe-ecHHHHHHHHHHHHH
Confidence            4455566777777777777778888888887777766665421   11111122      2222 334444555555555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          185 QQKNVVNNLVSNTRLLESKIQEARSKKDTL  214 (251)
Q Consensus       185 ~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~L  214 (251)
                      ..+..+..+..++..++.++.+++.+...+
T Consensus        78 ~ie~~i~~lek~~~~l~~~l~e~q~~l~~~  107 (110)
T TIGR02338        78 TLELRVKTLQRQEERLREQLKELQEKIQEA  107 (110)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            555666666666666666666655555443

Chaperonins are cytosolic, ATP-dependent molecular chaperones, with a conserved toroidal architecture, that assist in the folding of nascent and/or denatured polypeptide chains. The group I chaperonin system consists of GroEL and GroES, and is found (usually) in bacteria and organelles of bacterial origin. The group II chaperonin system, called the thermosome in Archaea and TRiC or CCT in the Eukaryota, is structurally similar but only distantly related. Prefoldin, also called GimC, is a complex in Archaea and Eukaryota, that works with group II chaperonins. Members of this protein family are the archaeal clade of the beta class of prefoldin subunit. Closely related, but outside the scope of this family are the eukaryotic beta-class prefoldin subunits, Gim-1,3,4 and 6. The alpha class prefoldin subunits are more distantly related.

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

Probab=83.14  E-value=79  Score=34.86  Aligned_cols=46  Identities=17%  Similarity=0.243  Sum_probs=18.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          105 EQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKA  150 (251)
Q Consensus       105 dQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA  150 (251)
                      ...|.+...++.+++..+........++..+....+.+++.+-...
T Consensus       634 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~  679 (1201)
T PF12128_consen  634 NKKIEELKREITQAEQELKQAEQDLQRLKNEREQLKQEIEEAKEER  679 (1201)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444444444444444444444444444444444443333333

>KOG1656 consensus Protein involved in glucose derepression and pre-vacuolar endosome protein sorting [Intracellular trafficking, secretion, and vesicular transport]

Probab=83.08  E-value=33  Score=30.51  Aligned_cols=37  Identities=24%  Similarity=0.339  Sum_probs=31.0

Q ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          158 EEDLAREALKRRKSYADNANALKAQLDQQKNVVNNLV  194 (251)
Q Consensus       158 ~EdLAreAL~rk~~~e~~~~~l~~ql~~~~~~v~~Lk  194 (251)
                      +--.|..||.||+.||+++..+...+...+.+...|+
T Consensus        59 NKR~AlqaLkrKK~~E~qL~qidG~l~tie~Qr~alE   95 (221)
T KOG1656|consen   59 NKRMALQALKRKKRYEKQLAQIDGTLSTIEFQREALE   95 (221)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            5567889999999999999999998888777766554

>PRK15422 septal ring assembly protein ZapB; Provisional

Probab=82.98  E-value=18  Score=27.42  Aligned_cols=61  Identities=15%  Similarity=0.262  Sum_probs=53.8

Q ss_pred             ccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 025526           96 SFEDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQK  156 (251)
Q Consensus        96 k~EDP~~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~  156 (251)
                      .+.|.+.+|...|.|+++.=....+....+...+..++++...+..+...|+.+.+.-|-+
T Consensus        15 qAvdtI~LLqmEieELKekn~~L~~e~~~~~~~r~~L~~en~qLk~E~~~WqerLr~LLGk   75 (79)
T PRK15422         15 QAIDTITLLQMEIEELKEKNNSLSQEVQNAQHQREELERENNHLKEQQNGWQERLQALLGR   75 (79)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3446678999999999999999999999999999999999999999999999998765543

>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=82.96  E-value=76  Score=34.56  Aligned_cols=71  Identities=21%  Similarity=0.248  Sum_probs=48.2

Q ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 025526           98 EDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKR  168 (251)
Q Consensus        98 EDP~~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~EdLAreAL~r  168 (251)
                      ++-.+-+.-.|.+|++-+.++...+.....+-+.++.+++++..+.++-..-...+|...-..+.......
T Consensus       243 ~~~~~~~~~~i~e~~~~i~~l~e~~~k~~~ei~~le~~ikei~~~rd~em~~~~~~L~~~~~~~~~~~tr~  313 (1174)
T KOG0933|consen  243 EEKRKNSAHEIEEMKDKIAKLDESLGKTDKEIESLEKEIKEIEQQRDAEMGGEVKALEDKLDSLQNEITRE  313 (1174)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhchhhhhHHHHHHHHHHHHHHH
Confidence            34445566667788888888888888888888888888888777776666666666665555554444444

>PF05529 Bap31: B-cell receptor-associated protein 31-like ; InterPro: IPR008417 Bap31 is a polytopic integral protein of the endoplasmic reticulum membrane and a substrate of caspase-8

Probab=82.89  E-value=16  Score=31.27  Aligned_cols=73  Identities=16%  Similarity=0.205  Sum_probs=36.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          127 ASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALKAQLDQQKNVVNNLVSNTRLLESK  203 (251)
Q Consensus       127 A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~EdLAreAL~rk~~~e~~~~~l~~ql~~~~~~v~~Lk~~l~~Le~k  203 (251)
                      ..-..+-.++...++..+....++..+.+..+.-    .-.+.....++++.++.+++..+..++.|+.+.+.++..
T Consensus       118 ~r~~~li~~l~~~~~~~~~~~kq~~~~~~~~~~~----~~~~~~~~~~ei~~lk~el~~~~~~~~~LkkQ~~~l~~e  190 (192)
T PF05529_consen  118 RRVHSLIKELIKLEEKLEALKKQAESASEAAEKL----LKEENKKLSEEIEKLKKELEKKEKEIEALKKQSEGLQKE  190 (192)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhh----hhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            3333444445555555555555555443222211    122334445566666666666666666666666655543

Bap31 is cleaved within its cytosolic domain, generating pro-apoptotic p20 Bap31 [].; GO: 0006886 intracellular protein transport, 0005783 endoplasmic reticulum, 0016021 integral to membrane

>PRK00736 hypothetical protein; Provisional

Probab=82.51  E-value=12  Score=27.27  Aligned_cols=49  Identities=18%  Similarity=0.251  Sum_probs=33.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          172 YADNANALKAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKARAQS  220 (251)
Q Consensus       172 ~e~~~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~LkAr~~~  220 (251)
                      .++++..|+..+.-++..++.|..-+.+-...|..++.+...|.-|...
T Consensus         3 ~e~Ri~~LE~klafqe~tie~Ln~~v~~Qq~~i~~L~~ql~~L~~rl~~   51 (68)
T PRK00736          3 AEERLTELEIRVAEQEKTIEELSDQLAEQWKTVEQMRKKLDALTERFLS   51 (68)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3455667777777777777777777777777777777776666655544

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

Probab=82.34  E-value=75  Score=34.05  Aligned_cols=34  Identities=29%  Similarity=0.321  Sum_probs=17.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHH
Q 025526          117 KMRQATAQVLASQKRLENKC---KAAEQASEDWYRKA  150 (251)
Q Consensus       117 kar~~lA~v~A~~k~le~k~---~~~~~~~~~~e~rA  150 (251)
                      +.|..++...+.+.++++-.   ++.+..+--|+++-
T Consensus       390 qLr~elaql~a~r~q~eka~~~~ee~e~~~l~~e~ry  426 (980)
T KOG0980|consen  390 QLRNELAQLLASRTQLEKAQVLVEEAENKALAAENRY  426 (980)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            55555666666655555444   44444444444443

>PF13094 CENP-Q: CENP-Q, a CENPA-CAD centromere complex subunit

Probab=82.21  E-value=17  Score=30.21  Aligned_cols=49  Identities=24%  Similarity=0.270  Sum_probs=25.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 025526          110 EMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGE  158 (251)
Q Consensus       110 eme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~  158 (251)
                      .++.++.+....+.+-...-+.++...........+...++.--+..++
T Consensus        45 lLq~e~~~~e~~le~d~~~L~~Le~~~~~~~~e~~~~~~~~~~vL~~~~   93 (160)
T PF13094_consen   45 LLQEEIEKEEAALERDYEYLQELEKNAKALEREREEEEKKAHPVLQLDD   93 (160)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccchhhcccc
Confidence            4444444444444455555555555555555555555555554454444

>PRK04406 hypothetical protein; Provisional

Probab=82.18  E-value=16  Score=27.24  Aligned_cols=50  Identities=14%  Similarity=0.207  Sum_probs=36.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          171 SYADNANALKAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKARAQS  220 (251)
Q Consensus       171 ~~e~~~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~LkAr~~~  220 (251)
                      ..++++..|+..+.-++..++.|..-+.+-...|..++++...|.-|...
T Consensus         8 ~le~Ri~~LE~~lAfQE~tIe~LN~~v~~Qq~~I~~L~~ql~~L~~rl~~   57 (75)
T PRK04406          8 QLEERINDLECQLAFQEQTIEELNDALSQQQLLITKMQDQMKYVVGKVKN   57 (75)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            45677777777777777777888777777777777777777777655543

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

Probab=81.96  E-value=54  Score=33.68  Aligned_cols=45  Identities=9%  Similarity=0.210  Sum_probs=32.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          100 PEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASE  144 (251)
Q Consensus       100 P~~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~  144 (251)
                      -..++.|.+++|.+++..++...-..+.....|++++.++...+.
T Consensus        23 e~a~~qqr~~qmseev~~L~eEk~~~~~~V~eLE~sL~eLk~q~~   67 (617)
T PF15070_consen   23 ESAQWQQRMQQMSEEVRTLKEEKEHDISRVQELERSLSELKNQMA   67 (617)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            356778888888888887777777777777777777766665554

>PRK03947 prefoldin subunit alpha; Reviewed

Probab=81.93  E-value=26  Score=28.39  Aligned_cols=43  Identities=16%  Similarity=0.210  Sum_probs=30.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          105 EQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWY  147 (251)
Q Consensus       105 dQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e  147 (251)
                      ++.++++...+.+.+..+..+......++..+.++....+.++
T Consensus         5 ~~~l~~l~~~~~~l~~~~~~l~~~~~~l~~~~~e~~~~~e~l~   47 (140)
T PRK03947          5 EQELEELAAQLQALQAQIEALQQQLEELQASINELDTAKETLE   47 (140)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4566677777777777777777777777777777766665554

>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=81.90  E-value=84  Score=34.27  Aligned_cols=45  Identities=18%  Similarity=0.306  Sum_probs=27.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          173 ADNANALKAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKAR  217 (251)
Q Consensus       173 e~~~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~LkAr  217 (251)
                      +...+.++-++++++..+...+..+..++..+..++.+...+.+.
T Consensus       814 ~~e~e~l~lE~e~l~~e~~~~k~~l~~~~~~~~~l~~e~~~l~~k  858 (1174)
T KOG0933|consen  814 ENEYERLQLEHEELEKEISSLKQQLEQLEKQISSLKSELGNLEAK  858 (1174)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334445555556666666666666666666666666666666554

>PF15112 DUF4559: Domain of unknown function (DUF4559)

Probab=81.78  E-value=42  Score=31.52  Aligned_cols=112  Identities=21%  Similarity=0.247  Sum_probs=71.4

Q ss_pred             CHH-HHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHH
Q 025526           99 DPE-KILEQAVLEMN-----------DDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREAL  166 (251)
Q Consensus        99 DP~-~mLdQ~Ireme-----------~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~EdLAreAL  166 (251)
                      +|+ ..+.+.|.++.           ++.+..+..+--.......++.+.+.+++..+++..+++.-...++|++  .-+
T Consensus       182 ipe~~~a~~~Ie~ll~~d~~v~~~~~d~~Dg~~~~~~~~~~~~~i~e~e~e~Lke~lqel~~~~e~~~~~~ee~~--~~l  259 (307)
T PF15112_consen  182 IPEIVAAGSRIEQLLTSDWAVHIPEEDQRDGCESETDVYLSESQILEIEMELLKEKLQELYLQAEEQEVLPEEDS--KRL  259 (307)
T ss_pred             ChHHHHHHHHHHHHHhhhhhhcCchhhccchhhhccchhhhHHHHHHHHHHHHHHHHHHHHHHHhhccccchhhh--HHH
Confidence            674 55666666665           5566666667777788888999999999999999887776554443322  233


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          167 KRRKSYADNANALKAQLDQQKNVVNNLVSNTRLLESKIQEARSKKD  212 (251)
Q Consensus       167 ~rk~~~e~~~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~  212 (251)
                      .-..++-..-..|...+...-+.++.|..++.+++..|.+++.+-.
T Consensus       260 ~~~~~fL~~NkDL~~~l~~e~qkL~~l~~k~~~~~~~v~~~~~~~~  305 (307)
T PF15112_consen  260 EVLKEFLRNNKDLRSNLQEELQKLDSLQTKHQKLESDVKELKSQMP  305 (307)
T ss_pred             HHHHHHHHhcHHHHHHHHHHHHHHHHHHHHhcchhhhhhHHHhhcc
Confidence            3344444444445544444446666666666677766666665543

>PRK00295 hypothetical protein; Provisional

Probab=81.65  E-value=17  Score=26.42  Aligned_cols=48  Identities=13%  Similarity=0.145  Sum_probs=29.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          173 ADNANALKAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKARAQS  220 (251)
Q Consensus       173 e~~~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~LkAr~~~  220 (251)
                      ++++..|+..+.-++..++.|..-+-+-...|..++++...|.-|...
T Consensus         4 e~Ri~~LE~kla~qE~tie~Ln~~v~~Qq~~I~~L~~ql~~L~~rl~~   51 (68)
T PRK00295          4 EERVTELESRQAFQDDTIQALNDVLVEQQRVIERLQLQMAALIKRQEE   51 (68)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            445666666666666666666666666666666666666666554443

>PRK04325 hypothetical protein; Provisional

Probab=81.59  E-value=16  Score=27.06  Aligned_cols=50  Identities=14%  Similarity=0.216  Sum_probs=35.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          171 SYADNANALKAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKARAQS  220 (251)
Q Consensus       171 ~~e~~~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~LkAr~~~  220 (251)
                      ..++++..|+..+.-++..++.|..-+.+-...|..++++...|.-|...
T Consensus         6 ~~e~Ri~~LE~klAfQE~tIe~LN~vv~~Qq~~I~~L~~ql~~L~~rl~~   55 (74)
T PRK04325          6 EMEDRITELEIQLAFQEDLIDGLNATVARQQQTLDLLQAQLRLLYQQMRD   55 (74)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34566777777777777777777777777777777777777777655544

>COG3206 GumC Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]

Probab=81.21  E-value=55  Score=31.74  Aligned_cols=119  Identities=18%  Similarity=0.159  Sum_probs=60.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          103 ILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALKAQ  182 (251)
Q Consensus       103 mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~EdLAreAL~rk~~~e~~~~~l~~q  182 (251)
                      .-...|.++++++..++..++++...-.-..-++...+.++...+.....-+..=-.    ....+...++.+...+..+
T Consensus       282 ~~s~~i~~Lr~~~~~~~~~~~~l~~~~~~~~p~~~~~~~q~~~~~~~~~~e~~~~~~----~~~~~~~~l~~~~~~L~~~  357 (458)
T COG3206         282 LESPTIQDLRQQYAQVRQQIADLSTELGAKHPQLVALEAQLAELRQQIAAELRQILA----SLPNELALLEQQEAALEKE  357 (458)
T ss_pred             hccHHHHHHHHHHHHHHHHHHHHHHhhcccChHHHhHHHHHHHHHHHHHHHHHHHHH----hchhHHHHHHHHHHHHHHH
Confidence            333456666666666666666666555544444444444444444433322211000    0000011233333334433


Q ss_pred             HHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          183 LDQQKNVVN---NLVSNTRLLESKIQEARSKKDTLKARAQSAKFVF  225 (251)
Q Consensus       183 l~~~~~~v~---~Lk~~l~~Le~ki~e~k~k~~~LkAr~~~AkAq~  225 (251)
                      +...+....   +....+.+|+.+.+-.+.-.++|..|++....++
T Consensus       358 ~~~l~~~~~~~~~~~~~l~~L~Re~~~~r~~ye~lL~r~qe~~~~~  403 (458)
T COG3206         358 LAQLKGRLSKLPKLQVQLRELEREAEAARSLYETLLQRYQELSIQE  403 (458)
T ss_pred             HHHHHHHHhhchHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            333333333   3355667777777777888888888877777766

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

Probab=81.16  E-value=37  Score=29.66  Aligned_cols=117  Identities=17%  Similarity=0.126  Sum_probs=62.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          102 KILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALKA  181 (251)
Q Consensus       102 ~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~EdLAreAL~rk~~~e~~~~~l~~  181 (251)
                      ..|++.++|.+.-+.+...+|...-.+..-..+-..+....+..+..-...+-..  -+-+.   .--......+.+-..
T Consensus        70 eqLe~ev~EAe~vV~ee~~sL~~aq~na~aA~~aa~~A~~q~~~L~~~l~~a~~n--l~~a~---~~a~~AQ~el~eK~q  144 (188)
T PF05335_consen   70 EQLEQEVREAEAVVQEEKASLQQAQANAQAAQRAAQQAQQQLETLKAALKAAQAN--LANAE---QVAEGAQQELAEKTQ  144 (188)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHH---HHHHHHHHHHHHHHH
Confidence            5567777777777777777777777666666666666666655555444433111  11111   111222333444445


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          182 QLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKARAQSAKFVF  225 (251)
Q Consensus       182 ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~LkAr~~~AkAq~  225 (251)
                      .++..+..++.|...+......++.  .|..-++|--....+++
T Consensus       145 LLeaAk~Rve~L~~QL~~Ar~D~~~--tk~aA~kA~~AA~eAkq  186 (188)
T PF05335_consen  145 LLEAAKRRVEELQRQLQAARADYEK--TKKAAYKAACAAQEAKQ  186 (188)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHhh
Confidence            5555666666666666555554443  34445555555555544

>PLN02829 Probable galacturonosyltransferase

Probab=81.12  E-value=12  Score=38.29  Aligned_cols=107  Identities=17%  Similarity=0.156  Sum_probs=86.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHH
Q 025526          101 EKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALK  180 (251)
Q Consensus       101 ~~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~EdLAreAL~rk~~~e~~~~~l~  180 (251)
                      +.+-|-.++.|+++|..||.=+  .+|..+.-+.=..++...+.+.+.-.-.|..  |.||=..+..+.+..+..+...+
T Consensus       178 ~~~~d~~v~~lkDql~~AkaY~--~iak~~~~~~l~~el~~~i~e~~r~l~~a~~--d~~lp~~~~~~~~~m~~~i~~ak  253 (639)
T PLN02829        178 TVMPDARVRQLRDQLIKAKVYL--SLPATKANPHFTRELRLRIKEVQRVLGDASK--DSDLPKNANEKLKAMEQTLAKGK  253 (639)
T ss_pred             ccCchHHHHHHHHHHHHHHHHH--HHhccCCcHHHHHHHHHHHHHHHHHHhhccC--CCCCChhHHHHHHHHHHHHHHHH
Confidence            3678999999999999999764  6776666777777888888887665555543  78888899999999999999998


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          181 AQLDQQKNVVNNLVSNTRLLESKIQEARSKK  211 (251)
Q Consensus       181 ~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k~  211 (251)
                      .........+.+|+.-+..+|.+....+.+-
T Consensus       254 ~~~~d~~~~~~KLr~~l~~~Ee~~~~~~~q~  284 (639)
T PLN02829        254 QMQDDCSIVVKKLRAMLHSAEEQLRVHKKQT  284 (639)
T ss_pred             hcccCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            8888888999999999999888877665443

>PRK11281 hypothetical protein; Provisional

Probab=81.11  E-value=93  Score=34.29  Aligned_cols=41  Identities=20%  Similarity=0.203  Sum_probs=26.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          102 KILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQA  142 (251)
Q Consensus       102 ~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~  142 (251)
                      ..|++.+.+.++++.+.+..++..-+.--.++.+.++++..
T Consensus       124 ~qLEq~L~q~~~~Lq~~Q~~La~~NsqLi~~qT~PERAQ~~  164 (1113)
T PRK11281        124 RQLESRLAQTLDQLQNAQNDLAEYNSQLVSLQTQPERAQAA  164 (1113)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchHHHHHH
Confidence            55888888888888888777777755544444444444433

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

Probab=80.71  E-value=63  Score=32.12  Aligned_cols=39  Identities=10%  Similarity=0.053  Sum_probs=20.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          172 YADNANALKAQLDQQKNVVNNLVSNTRLLESKIQEARSK  210 (251)
Q Consensus       172 ~e~~~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k  210 (251)
                      ....+..+..+...+...++-++...+..+..+.++|.|
T Consensus       205 A~~~~~~~l~~~~e~~~~l~l~~~~~~~~~~el~~Yk~k  243 (511)
T PF09787_consen  205 ALRHYIEYLRESGELQEQLELLKAEGESEEAELQQYKQK  243 (511)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            334444455555555555555555555555555555543

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 [].

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

Probab=80.53  E-value=71  Score=32.54  Aligned_cols=62  Identities=21%  Similarity=0.328  Sum_probs=48.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHH
Q 025526          101 EKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAR  163 (251)
Q Consensus       101 ~~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~EdLAr  163 (251)
                      +..|+.-.+.+++++.+.+..+........-.+..++.+..+++.-+...+. |++.+++|=.
T Consensus       261 ~eslre~~~~L~~D~nK~~~y~~~~~~k~~~~~~~l~~l~~Eie~kEeE~e~-lq~~~d~Lk~  322 (581)
T KOG0995|consen  261 EESLREKKARLQDDVNKFQAYVSQMKSKKQHMEKKLEMLKSEIEEKEEEIEK-LQKENDELKK  322 (581)
T ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHH
Confidence            4777888888888888888888888888888888888888888877777665 6666666643

>PRK14475 F0F1 ATP synthase subunit B; Provisional

Probab=80.51  E-value=33  Score=28.77  Aligned_cols=106  Identities=17%  Similarity=0.219  Sum_probs=0.0

Q ss_pred             hHHHHHHHHHHHHHHhhcccCCHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526           78 LFDRLARVVKSYANAILSSFEDPE---KILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLAL  154 (251)
Q Consensus        78 if~Rl~~lira~in~~lDk~EDP~---~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL  154 (251)
                      +|+.+..++...-+.+.+.+++.+   .-.++...+.+..|.+++.....++...+.--.+.  .....++-+..+..-+
T Consensus        31 l~~pi~~~le~R~~~I~~~l~~Ae~~k~eAe~~~~~~e~~L~~A~~ea~~Ii~~A~~~a~~~--~~~~~~~A~~ea~~~~  108 (167)
T PRK14475         31 LPKALAGALDAYAAKIQAELDEAQRLREEAQALLADVKAEREEAERQAAAMLAAAKADARRM--EAEAKEKLEEQIKRRA  108 (167)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHH


Q ss_pred             hcCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          155 QKGEEDLAREALKRRKSYADNANALKAQLDQ  185 (251)
Q Consensus       155 ~~G~EdLAreAL~rk~~~e~~~~~l~~ql~~  185 (251)
                      +.++.+...+--.-..++..++..+--+...
T Consensus       109 ~~A~~~I~~e~~~a~~el~~e~~~lAv~~A~  139 (167)
T PRK14475        109 EMAERKIAQAEAQAAADVKAAAVDLAAQAAE  139 (167)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH

>PF05103 DivIVA: DivIVA protein; InterPro: IPR007793 The Bacillus subtilis divIVA1 mutation causes misplacement of the septum during cell division, resulting in the formation of small, circular, anucleate minicells []

Probab=80.50  E-value=0.51  Score=37.61  Aligned_cols=50  Identities=14%  Similarity=0.259  Sum_probs=24.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          104 LEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLA  153 (251)
Q Consensus       104 LdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~A  153 (251)
                      +|.+|.++..++..+....+........++.++..+......+.+....|
T Consensus        23 VD~fl~~l~~~~~~l~~e~~~L~~~~~~l~~~l~~~~~~~~~l~~~l~~a   72 (131)
T PF05103_consen   23 VDDFLDELAEELERLQRENAELKEEIEELQAQLEELREEEESLQRALIQA   72 (131)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCT------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHhhhhh
Confidence            57777777777777777777777777777777777766666665554444

Inactivation of divIVA produces a minicell phenotype, whereas overproduction of DivIVA results in a filamentation phenotype []. These proteins appear to contain coiled-coils.; PDB: 2WUK_C 2WUJ_A.

>PRK02793 phi X174 lysis protein; Provisional

Probab=80.35  E-value=18  Score=26.65  Aligned_cols=49  Identities=14%  Similarity=0.188  Sum_probs=34.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          172 YADNANALKAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKARAQS  220 (251)
Q Consensus       172 ~e~~~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~LkAr~~~  220 (251)
                      .++++..|+..+.=++..++.|..-+-+-...|..++++...|.-|...
T Consensus         6 ~e~Ri~~LE~~lafQe~tIe~Ln~~v~~Qq~~I~~L~~~l~~L~~rl~~   54 (72)
T PRK02793          6 LEARLAELESRLAFQEITIEELNVTVTAHEMEMAKLRDHLRLLTEKLKA   54 (72)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            5666777777777777777777777777777777777776666555444

>COG2433 Uncharacterized conserved protein [Function unknown]

Probab=80.34  E-value=46  Score=34.18  Aligned_cols=28  Identities=18%  Similarity=0.148  Sum_probs=16.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          119 RQATAQVLASQKRLENKCKAAEQASEDW  146 (251)
Q Consensus       119 r~~lA~v~A~~k~le~k~~~~~~~~~~~  146 (251)
                      |.++|.+.-....++.++...+..+.+.
T Consensus       344 RDALAAA~kAY~~yk~kl~~vEr~~~~~  371 (652)
T COG2433         344 RDALAAAYKAYLAYKPKLEKVERKLPEL  371 (652)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            4456666655666666666666655544

>PF07743 HSCB_C: HSCB C-terminal oligomerisation domain; InterPro: IPR009073 This entry represents the C-terminal oligomerisation domain found in HscB (heat shock cognate protein B), which is also known as HSC20 (20K heat shock cognate protein)

Probab=80.31  E-value=20  Score=26.06  Aligned_cols=76  Identities=24%  Similarity=0.341  Sum_probs=47.0

Q ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHH
Q 025526           98 EDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNAN  177 (251)
Q Consensus        98 EDP~~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~EdLAreAL~rk~~~e~~~~  177 (251)
                      .||+-+.+|+  |+++.|..+...     .....+..=..+....+.........++..++-+-|+..+.+..-+..-..
T Consensus         2 ~d~eFLme~m--E~rE~le~~~~~-----~~~~~L~~l~~~~~~~~~~~~~~l~~~f~~~d~~~A~~~~~kLky~~kl~~   74 (78)
T PF07743_consen    2 MDPEFLMEQM--ELREELEEAQNS-----DDEAELEELKKEIEERIKELIKELAEAFDAKDWEEAKEALRKLKYLQKLLE   74 (78)
T ss_dssp             S-HHHHHHHH--HHHHHHHHHCCC-----TSHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHH--HHHHHHHHhhcC-----CCHHHHHHHHHHHHHHHHHHHHHHHHHHccCcHHHHHHHHHHHHHHHHHHH
Confidence            4777666654  666777766321     111333334445555566666677777789999999999999877766655


Q ss_pred             HHH
Q 025526          178 ALK  180 (251)
Q Consensus       178 ~l~  180 (251)
                      .++
T Consensus        75 ~ik   77 (78)
T PF07743_consen   75 EIK   77 (78)
T ss_dssp             HHH
T ss_pred             Hhc
Confidence            443

HscB acts as a co-chaperone to regulate the ATPase activity and peptide-binding specificity of the molecular chaperone HscA, also known as HSC66 (HSP70 class). HscB proteins contain two domains, an N-terminal J-domain, which is involved in interactions with HscA, connected by a short loop to the C-terminal oligomerisation domain; the two domains make contact through a hydrophobic interface. The core of the oligomerisation domain is thought to bind and target proteins to HscA and consists of an open, three-helical bundle []. HscB, along with HscA, has been shown to play a role in the biogenesis of iron-sulphur proteins.; GO: 0006457 protein folding; PDB: 1FPO_C 3BVO_B 3HHO_A 3UO2_B 3UO3_B.

>TIGR03017 EpsF chain length determinant protein EpsF

Probab=80.21  E-value=56  Score=31.20  Aligned_cols=118  Identities=13%  Similarity=0.143  Sum_probs=50.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC---HHHHHHHHHHHHHHHHHH
Q 025526          100 PEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGE---EDLAREALKRRKSYADNA  176 (251)
Q Consensus       100 P~~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~---EdLAreAL~rk~~~e~~~  176 (251)
                      |...-+..|.++..++.+.+..++.......--.-++..++.+++.++.+....+..-.   +.--..+..+...++.++
T Consensus       248 ~~~~~~~~i~~l~~~l~~le~~l~~l~~~y~~~hP~v~~l~~~i~~l~~~l~~e~~~~~~~~~~~~~~~~~~~~~l~~~l  327 (444)
T TIGR03017       248 PEVIANPIIQNLKTDIARAESKLAELSQRLGPNHPQYKRAQAEINSLKSQLNAEIKKVTSSVGTNSRILKQREAELREAL  327 (444)
T ss_pred             hhhhcChHHHHHHHHHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33334445666666666666666666543332223333333333333333222111100   000012223333444444


Q ss_pred             HHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          177 NALKAQLD---QQKNVVNNLVSNTRLLESKIQEARSKKDTLKAR  217 (251)
Q Consensus       177 ~~l~~ql~---~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~LkAr  217 (251)
                      +.++.++.   ..+.+...|+.++.-.+..+..+-.+.++....
T Consensus       328 ~~~~~~~~~l~~~~~~~~~L~r~~~~~~~~y~~ll~r~~e~~l~  371 (444)
T TIGR03017       328 ENQKAKVLELNRQRDEMSVLQRDVENAQRAYDAAMQRYTQTRIE  371 (444)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44443322   233344455555555555555555555555443

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.

>PF05103 DivIVA: DivIVA protein; InterPro: IPR007793 The Bacillus subtilis divIVA1 mutation causes misplacement of the septum during cell division, resulting in the formation of small, circular, anucleate minicells []

Probab=80.18  E-value=1.2  Score=35.54  Aligned_cols=64  Identities=9%  Similarity=0.227  Sum_probs=21.6

Q ss_pred             HHHHhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526           89 YANAILSSFEDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQL  152 (251)
Q Consensus        89 ~in~~lDk~EDP~~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~  152 (251)
                      -|+..||.+.+-...|...+.++...+..+...+...-.....+.+.+..++..+++....|..
T Consensus        22 eVD~fl~~l~~~~~~l~~e~~~L~~~~~~l~~~l~~~~~~~~~l~~~l~~aq~~a~~~~~~A~~   85 (131)
T PF05103_consen   22 EVDDFLDELAEELERLQRENAELKEEIEELQAQLEELREEEESLQRALIQAQETADEIKAEAEE   85 (131)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCT-------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHhhhhhhhhHHHHHHHHHH
Confidence            4556666666665666666667777777777666666666666666666665555555444443

Inactivation of divIVA produces a minicell phenotype, whereas overproduction of DivIVA results in a filamentation phenotype []. These proteins appear to contain coiled-coils.; PDB: 2WUK_C 2WUJ_A.

---

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	251
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-05
3lvg_D	190	LCB, clathrin light chain B; SELF assembly, coated	6e-05
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	2e-04

>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 = 44.8 bits (105), Expect = 2e-05
 Identities = 27/205 (13%), Positives = 57/205 (27%), Gaps = 60/205 (29%)

Query: 36  PLTTSFFNGGVGALKVTRLRIAPSSRSHCYRQGGGALNTRMNLFDRLARVVKSYANAI-- 93
           P   S             +R   +     ++             D+L  +++S  N +  
Sbjct: 327 PRRLSII----AES----IRDGLA-TWDNWKH---------VNCDKLTTIIESSLNVLEP 368

Query: 94  ---------LSSFEDPEKILEQAVLEMNDDL-VKMRQATAQVLASQKRLENKCKAAEQAS 143
                    LS F     I    +L +   +   + ++   V+ ++  L       +Q  
Sbjct: 369 AEYRKMFDRLSVFPPSAHIPTI-LLSL---IWFDVIKSDVMVVVNK--LHKYSLVEKQPK 422

Query: 144 EDWYRKAQLALQKGEEDLAREALKRR-----------------KSYADN--ANAL----- 179
           E       + L+   +     AL R                    Y D    + +     
Sbjct: 423 ESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLK 482

Query: 180 KAQLDQQKNVVNNLVSNTRLLESKI 204
             +  ++  +   +  + R LE KI
Sbjct: 483 NIEHPERMTLFRMVFLDFRFLEQKI 507

>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} Length = 190

 Score = 41.7 bits (97), Expect = 6e-05
 Identities = 21/90 (23%), Positives = 36/90 (40%), Gaps = 21/90 (23%)

Query: 98  EDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKG 157
           ++PE I +           +  Q         KRL+    A++   ++W  KA+  L   
Sbjct: 82  QEPESIRKW----------REEQR--------KRLQELDAASKVMEQEWREKAKKDL--- 120

Query: 158 EEDLAREALKRRKSYADNANALKAQLDQQK 187
           EE   R++ +  K+  +N  A KA   Q  
Sbjct: 121 EEWNQRQSEQVEKNKINNRIADKAFYQQPD 150

>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 = 41.7 bits (98), Expect = 2e-04
 Identities = 23/119 (19%), Positives = 50/119 (42%), Gaps = 12/119 (10%)

Query: 104  LEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAR 163
             E  + E+   L K  ++  ++   +++LE +     +   +        LQ    +L +
Sbjct: 1037 HESMISELEVRLKKEEKSRQELEKIKRKLEGESSDLHEQIAE--------LQAQIAEL-K 1087

Query: 164  EALKRRKSYADNANALKAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKARAQSAK 222
              L +++       A  A+L+ + +  NN +   R LES I + +   ++ KA    A+
Sbjct: 1088 AQLAKKEE---ELQAALARLEDETSQKNNALKKIRELESHISDLQEDLESEKAARNKAE 1143

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	251
3mq9_A	471	Bone marrow stromal antigen 2 fused to maltose-BI	97.53
4abm_A	79	Charged multivesicular BODY protein 4B; cell cycle	97.23
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	96.89
2fxo_A	129	Myosin heavy chain, cardiac muscle beta isoform; c	96.78
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	96.31
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	95.85
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	95.4
2gd5_A	179	Charged multivesicular BODY protein 3; CHMP3, ESCR	95.03
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	94.94
3bas_A	89	Myosin heavy chain, striated muscle/general contro	93.28
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	93.26
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	93.17
3ajw_A	150	Flagellar FLIJ protein; flagellum, type III secret	92.46
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	92.33
2efr_A	155	General control protein GCN4 and tropomyosin 1 Al;	91.72
3frt_A	218	Charged multivesicular BODY protein 3; ESCRT, ESCR	91.69
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	91.63
1deq_A	390	Fibrinogen (alpha chain); coiled-coil, blood clott	91.32
3mq9_A	471	Bone marrow stromal antigen 2 fused to maltose-BI	90.96
3ol1_A	119	Vimentin; structural genomics, PSI-2, protein stru	90.9
2v71_A	189	Nuclear distribution protein NUDE-like 1; developm	90.8
3ghg_A	562	Fibrinogen alpha chain; triple-stranded coiled coi	90.7
1m1j_B	464	Fibrinogen beta chain; coiled coils, disulfide rin	90.43
3o0z_A	168	RHO-associated protein kinase 1; coiled-coil, tran	90.31
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	90.12
4fm3_A	98	Uncharacterized hypothetical protein; PF14346 fami	89.91
3ghg_A	562	Fibrinogen alpha chain; triple-stranded coiled coi	89.62
3iox_A	497	AGI/II, PA; alpha helix, PPII helix, supersandwich	89.6
1m1j_C	409	Fibrinogen gamma chain; coiled coils, disulfide ri	88.9
3u59_A	101	Tropomyosin beta chain; muscle contraction, actin,	88.53
3mq7_A	121	Bone marrow stromal antigen 2; HIV, antiviral prot	88.42
3u1c_A	101	Tropomyosin alpha-1 chain; anti-parallel coiled co	88.15
2v4h_A	110	NF-kappa-B essential modulator; transcription, met	87.74
1deq_A	390	Fibrinogen (alpha chain); coiled-coil, blood clott	86.72
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	86.32
3mq7_A	121	Bone marrow stromal antigen 2; HIV, antiviral prot	86.23
1l8d_A	112	DNA double-strand break repair RAD50 ATPase; zinc	86.12
3hnw_A	138	Uncharacterized protein; coiled-coil, structural g	84.91
2v71_A	189	Nuclear distribution protein NUDE-like 1; developm	84.85
3ghg_B	461	Fibrinogen beta chain; triple-stranded coiled coil	84.29
2jee_A	81	YIIU; FTSZ, septum, coiled-coil, cell division, ce	84.15
3ghg_C	411	Fibrinogen gamma chain; triple-stranded coiled coi	83.43
1jcd_A	52	Major outer membrane lipoprotein; protein folding,	82.11
2i1j_A	575	Moesin; FERM, coiled-coil, C-ermad, ERM, radixin,	80.97
2efr_A	155	General control protein GCN4 and tropomyosin 1 Al;	80.06

>3mq9_A Bone marrow stromal antigen 2 fused to maltose-BI periplasmic protein; HIV, antiviral protein; 2.80A {Escherichia coli}

Probab=97.53  E-value=0.0082  Score=56.38  Aligned_cols=121  Identities=16%  Similarity=0.144  Sum_probs=84.9

Q ss_pred             hHHHHHHHHHHHHHHhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 025526           78 LFDRLARVVKSYANAILSSFEDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKG  157 (251)
Q Consensus        78 if~Rl~~lira~in~~lDk~EDP~~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G  157 (251)
                      -+..+.+++...+..++..-.||+..|+.+..++++.|.+.+... +..--...++++++++++...+.+.+|-.|=.  
T Consensus       349 ~~~~~~~~~~~~~~~vl~G~~t~eeal~~~~~~i~~~l~~~~~~~-e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--  425 (471)
T 3mq9_A          349 QMSAFWYAVRTAVINAASGRQTVDEALKDAQTRITAARDGLRAVM-EARNVTHLLQQELTEAQKGFQDVEAQAATANH--  425 (471)
T ss_dssp             THHHHHHHHHHHHHHHHHSSSCHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--
T ss_pred             cHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHhhHHHH-HhhhHHHHHHHHHHHHhhhHHHHHHHhhhcch--
Confidence            356778888888899988888999999999999999998886655 77778889999999999999999999987621  


Q ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          158 EEDLAREALKRRKSYADNANALKAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTL  214 (251)
Q Consensus       158 ~EdLAreAL~rk~~~e~~~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~L  214 (251)
                            ....=..+++.       ...+.+..+++|+..+.+++.+|++++.+.+.+
T Consensus       426 ------~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  469 (471)
T 3mq9_A          426 ------TVMALMASLDA-------EKAQGQKKVEELEGEITTLNHKLQDASAEVERL  469 (471)
T ss_dssp             ------HHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ------hHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence                  22222222333       333333455555555555555555555554444

>4abm_A Charged multivesicular BODY protein 4B; cell cycle, protein transport, HIV-1; 1.80A {Homo sapiens}

Probab=97.23  E-value=0.0062  Score=44.89  Aligned_cols=74  Identities=20%  Similarity=0.206  Sum_probs=62.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          119 RQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALKAQLDQQKNVVNNL  193 (251)
Q Consensus       119 r~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~EdLAreAL~rk~~~e~~~~~l~~ql~~~~~~v~~L  193 (251)
                      +.++..+......++.+...++..++.-...|+..+ .++-.-|..||.+|+.||.+++.+..++.+++.++..+
T Consensus         5 ~~AI~~Lr~~~d~L~kkq~~L~~~i~~e~~~Ak~~~-~knK~~Al~aLkrKK~~E~qL~q~~~ql~~LE~q~~~i   78 (79)
T 4abm_A            5 QEAIQRLRDTEEMLSKKQEFLEKKIEQELTAAKKHG-TKNKRAALQALKRKKRYEKQLAQIDGTLSTIEFQREAL   78 (79)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HcCHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhc
Confidence            455666666677788888888888888889999988 56678999999999999999999999999999888765

>3na7_A HP0958; flagellar biogenesis, flagellum export, C4 Zn-ribbon, coiled post-transcriptional, gene regulation, chaperone; HET: EPE; 2.20A {Helicobacter pylori}

Probab=96.89  E-value=0.18  Score=44.04  Aligned_cols=143  Identities=10%  Similarity=0.015  Sum_probs=76.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHH--H---HHHHHHHHHHHHH
Q 025526          102 KILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLA--R---EALKRRKSYADNA  176 (251)
Q Consensus       102 ~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~EdLA--r---eAL~rk~~~e~~~  176 (251)
                      .-|+..+..+++.+..++..+..+-...++++..+++....+.+++.+-.. +...+|=-|  +   .+-.++..+++.+
T Consensus        35 ~~le~~~~~l~~~~~~~~~~l~d~~~~~~~~e~~i~~~~~ri~~~~~~l~~-v~~~kE~~aL~kEie~~~~~i~~lE~ei  113 (256)
T 3na7_A           35 DKALNDKEAKNKAILNLEEEKLALKLQVSKNEQTLQDTNAKIASIQKKMSE-IKSERELRSLNIEEDIAKERSNQANREI  113 (256)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-CSSSSHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc-cCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            445566666677777777777777777777777777777777777776643 333333111  1   1223334444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHhhCCCCchhHHHHHHHH
Q 025526          177 NALKAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKARAQ--SAKFVFPLSLLEFPVFSASATSLVLLV  246 (251)
Q Consensus       177 ~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~LkAr~~--~AkAq~~vn~~l~~~~~~~a~~~f~~~  246 (251)
                      ..+...++..+..++.++..+..++..+.+.+.+++.-.+...  .+....+-.....++ ..+.+..|+.+
T Consensus       114 le~~e~ie~~~~~l~~~~~~l~~~~~~l~~~~~~~~~~~~e~~~e~~~l~~~r~~l~~~i-~~~lL~~Yeri  184 (256)
T 3na7_A          114 ENLQNEIKRKSEKQEDLKKEMLELEKLALELESLVENEVKNIKETQQIIFKKKEDLVEKT-EPKIYSFYERI  184 (256)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTS-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CHHHHHHHHHH
Confidence            4444455555555555555555555555554444444443322  222223333444455 34666666654

>2fxo_A Myosin heavy chain, cardiac muscle beta isoform; coiled coil (dimeric, parallel), familial hypertrophic cardiomyopathy, FHC-associated mutant E924K; 2.50A {Homo sapiens} SCOP: h.1.26.1 PDB: 2fxm_A

Probab=96.78  E-value=0.14  Score=40.59  Aligned_cols=112  Identities=19%  Similarity=0.298  Sum_probs=91.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHhcCCHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          104 LEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQL--ALQKGEEDLAREALKRRKSYADNANALKA  181 (251)
Q Consensus       104 LdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~--AL~~G~EdLAreAL~rk~~~e~~~~~l~~  181 (251)
                      -+-.+..+++.+.+++..+.......+.++.++..+.....++..+...  ..-..-++.-.....++.+++..+..+..
T Consensus        11 ~e~E~~~~~eel~~lke~l~k~e~~r~ele~~~~~l~~Ek~~L~~qL~~E~~~l~e~EE~~~~L~~~k~eLe~~l~el~~   90 (129)
T 2fxo_A           11 REKEMASMKEEFTRLKEALEKSEARRKELEEKMVSLLQEKNDLQLQVQAEQDNLADAEERCDQLIKNKIQLEAKVKEMNK   90 (129)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3456778899999999999999999999999999998888887665443  22233366667778888899999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          182 QLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLK  215 (251)
Q Consensus       182 ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~Lk  215 (251)
                      .++..+.....|...-+.++..+.+++...+.+-
T Consensus        91 rleeeee~~~~L~~~kkkle~e~~~Lk~~led~e  124 (129)
T 2fxo_A           91 RLEDEEEMNAELTAKKRKLEDECSELKRDIDDLE  124 (129)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999998888764

>3na7_A HP0958; flagellar biogenesis, flagellum export, C4 Zn-ribbon, coiled post-transcriptional, gene regulation, chaperone; HET: EPE; 2.20A {Helicobacter pylori}

Probab=96.31  E-value=0.49  Score=41.28  Aligned_cols=66  Identities=15%  Similarity=0.045  Sum_probs=47.4

Q ss_pred             HHHHHhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526           88 SYANAILSSFEDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLA  153 (251)
Q Consensus        88 a~in~~lDk~EDP~~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~A  153 (251)
                      ..++.-++.++.-..-+...|.++++.+..++..+..+......++.++..++..+++...+....
T Consensus        14 Q~lD~~i~~l~~~~~~lp~el~~le~~~~~l~~~~~~~~~~l~d~~~~~~~~e~~i~~~~~ri~~~   79 (256)
T 3na7_A           14 SHLDKEIDSLEPLIREKRKDLDKALNDKEAKNKAILNLEEEKLALKLQVSKNEQTLQDTNAKIASI   79 (256)
T ss_dssp             HHHHHHHHHTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344555666665555567777788888888888888888888888888877777777777766654

>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=95.85  E-value=0.16  Score=48.68  Aligned_cols=40  Identities=13%  Similarity=0.184  Sum_probs=24.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          111 MNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKA  150 (251)
Q Consensus       111 me~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA  150 (251)
                      +++++.+.+..+..+.....+.+..+...+.+++++....
T Consensus       454 l~~e~~~~~~~i~~l~~~~~~~~~~l~~~~~~i~~~~~~~  493 (597)
T 3oja_B          454 LEAEVNELRAEVQQLTNEQIQQEQLLQGLHAEIDTNLRRY  493 (597)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhc
Confidence            4446666666666666666666666666666666554443

>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=95.40  E-value=0.34  Score=46.29  Aligned_cols=47  Identities=13%  Similarity=0.065  Sum_probs=22.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          168 RRKSYADNANALKAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTL  214 (251)
Q Consensus       168 rk~~~e~~~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~L  214 (251)
                      +.+..++.+...+++++..+++.++++..++..+.++.+++++...+
T Consensus       524 ~~~~~~~~~~~~~~~~~~~~~~~~~le~~~~~~~~~~~~l~~e~~~~  570 (597)
T 3oja_B          524 ETQARRTEADAKQKETEDLEQENIALEKQLDNKRAKQAELRQETSLK  570 (597)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhhhhcchhhHHhhhHHHHHHHhhhhhHHHHHHHHHHHH
Confidence            33334444444444444444555555555555444444444443333

>2gd5_A Charged multivesicular BODY protein 3; CHMP3, ESCRT-III, protein transport; 2.80A {Homo sapiens} PDB: 3frv_A

Probab=95.03  E-value=0.28  Score=40.76  Aligned_cols=58  Identities=22%  Similarity=0.456  Sum_probs=34.2

Q ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHH----HHHHHHHHHH
Q 025526           99 DPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEED----LAREALKRRK  170 (251)
Q Consensus        99 DP~~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~Ed----LAreAL~rk~  170 (251)
                      ||...|+...+.++....              .+++++..++.+-.+.......|.++|+.+    +|++++..+.
T Consensus         7 ~p~e~lr~~~~~L~~~~r--------------~Ldr~~~kle~~ekk~~~~Ikka~k~g~~~~aki~Ak~lvr~rk   68 (179)
T 2gd5_A            7 PPKELVNEWSLKIRKEMR--------------VVDRQIRDIQREEEKVKRSVKDAAKKGQKDVCIVLAKEMIRSRK   68 (179)
T ss_dssp             -CCCHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHH
Confidence            565555555555444444              444455555555556666667888899998    5555555543

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=94.94  E-value=0.91  Score=52.62  Aligned_cols=50  Identities=14%  Similarity=0.207  Sum_probs=27.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          171 SYADNANALKAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKARAQS  220 (251)
Q Consensus       171 ~~e~~~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~LkAr~~~  220 (251)
                      .+++++...++.+...+..+.++.+++.+|+.+++++..+++.|+...+.
T Consensus      2018 ~ae~~l~~~~~~L~~~~~~L~~le~~l~~L~~~~~~~~~ek~~L~~e~~~ 2067 (3245)
T 3vkg_A         2018 QLENAANELKLKQDEIVATITALEKSIATYKEEYATLIRETEQIKTESSK 2067 (3245)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444555555555555555555555556666666555556555555443

>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=93.28  E-value=1.8  Score=31.97  Aligned_cols=46  Identities=20%  Similarity=0.234  Sum_probs=39.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          104 LEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRK  149 (251)
Q Consensus       104 LdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~r  149 (251)
                      -+-.+..+++++.+++..+.......+.++.++..+.....++..+
T Consensus        12 ~eeEm~~~eeel~~lke~l~k~e~~rkele~~~~~l~~ek~~L~~q   57 (89)
T 3bas_A           12 QEEEMKEQLKQMDKMKEDLAKTERIKKELEEQNVTLLEQKNDLFGS   57 (89)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3456678999999999999999999999999998888888888777

>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=93.26  E-value=0.62  Score=49.07  Aligned_cols=41  Identities=15%  Similarity=0.165  Sum_probs=22.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          107 AVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWY  147 (251)
Q Consensus       107 ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e  147 (251)
                      .++++++.+.+.+..+..+......++.++..++.+..++.
T Consensus       858 El~~L~~eL~el~~~L~~le~~l~ele~~l~~Le~e~~~l~  898 (1184)
T 1i84_S          858 EMQAKDEELQRTKERQQKAEAELKELEQKHTQLCEEKNLLQ  898 (1184)
T ss_dssp             HCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44455555666666555555555555555555555555544

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=93.17  E-value=3.2  Score=48.29  Aligned_cols=10  Identities=10%  Similarity=0.278  Sum_probs=3.8

Q ss_pred             HHHHHHHHHH
Q 025526          110 EMNDDLVKMR  119 (251)
Q Consensus       110 eme~~L~kar  119 (251)
                      +|+.+|...+
T Consensus      1938 ~l~~~L~~~~ 1947 (3245)
T 3vkg_A         1938 DLQVSLAQKN 1947 (3245)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            3333333333

>3ajw_A Flagellar FLIJ protein; flagellum, type III secretion, coiled-coil, protein transpor; 2.10A {Salmonella typhimurium}

Probab=92.46  E-value=3.1  Score=32.48  Aligned_cols=104  Identities=11%  Similarity=0.136  Sum_probs=64.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          104 LEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALKAQL  183 (251)
Q Consensus       104 LdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~EdLAreAL~rk~~~e~~~~~l~~ql  183 (251)
                      |+..+.=-+....++...++.+.......+.++..+.....++..+.......|=.      ......+..-+..|...+
T Consensus        10 L~~ll~l~~~~ed~a~~~l~~a~~~~~~~~~~L~~L~~~~~~y~~~~~~~~~~g~~------~~~l~~~~~fi~~L~~~I   83 (150)
T 3ajw_A           10 LETLKDLAEKEVDDAARLLGEMRRGCQQAEEQLKMLIDYQNEYRSNLNTDMGNGIA------SNRWINYQQFIQTLEKAI   83 (150)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCC--CCSGGG------HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCC------HHHHHHHHHHHHHHHHHH
Confidence            34444455667778888888888888888899999888888887655444333321      223344455555666666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          184 DQQKNVVNNLVSNTRLLESKIQEARSKKDT  213 (251)
Q Consensus       184 ~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~  213 (251)
                      +.+...+..+...+......+.+...++..
T Consensus        84 ~~q~~~l~~~~~~~e~~r~~l~~a~~~~k~  113 (150)
T 3ajw_A           84 EQHRLQLTQWTQKVDLALKSWREKKQRLQA  113 (150)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            666666666666666555555555444433

>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=92.33  E-value=0.85  Score=48.02  Aligned_cols=35  Identities=14%  Similarity=0.126  Sum_probs=14.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          116 VKMRQATAQVLASQKRLENKCKAAEQASEDWYRKA  150 (251)
Q Consensus       116 ~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA  150 (251)
                      .+.+..+.........++..+.+++.+...++.+.
T Consensus       860 ~~L~~eL~el~~~L~~le~~l~ele~~l~~Le~e~  894 (1184)
T 1i84_S          860 QAKDEELQRTKERQQKAEAELKELEQKHTQLCEEK  894 (1184)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333444444444444444444444444444333

>2efr_A General control protein GCN4 and tropomyosin 1 Al; destabilizing cluster, hydrophobic core, contractIle protein; 1.80A {Saccharomyces cerevisiae} PDB: 2efs_A 2d3e_A

Probab=91.72  E-value=4.7  Score=32.98  Aligned_cols=57  Identities=16%  Similarity=0.175  Sum_probs=25.0

Q ss_pred             hcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526           94 LSSFEDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKA  150 (251)
Q Consensus        94 lDk~EDP~~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA  150 (251)
                      |+++|+-....+..|.+++++|..+...+-.+-........+-+.++.++..+..+.
T Consensus        30 LEraEERae~aE~k~~eLEeeL~~v~~nlKsLE~seekasqrEd~yEeqIk~L~~kL   86 (155)
T 2efr_A           30 LERAEERAELSEGKSAELEEELKTVTNNLKSLEAQAEKYSQKEDKYEEEIKVLSDKL   86 (155)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhccchhhhhHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444444444444444444444444444444444444444444444333

>3frt_A Charged multivesicular BODY protein 3; ESCRT, ESCRT-111, CHMP, IST1, coiled coil, cytoplasm, lipoprotein, membrane, myristate, phosphoprotein; 4.00A {Homo sapiens}

Probab=91.69  E-value=4.1  Score=35.05  Aligned_cols=41  Identities=17%  Similarity=0.255  Sum_probs=31.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 025526          128 SQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKR  168 (251)
Q Consensus       128 ~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~EdLAreAL~r  168 (251)
                      ..+.|++++..++.+-.+.......|.++|+.+-||-....
T Consensus        22 ~~R~LdR~~~kle~eEkk~~~~IKkaakkg~~~~arilAke   62 (218)
T 3frt_A           22 EMRVVDRQIRDIQREEEKVKRSVKDAAKKGQKDVCIVLAKE   62 (218)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            35567777777777788888889999999999887765444

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus}

Probab=91.63  E-value=6.8  Score=41.06  Aligned_cols=20  Identities=5%  Similarity=0.096  Sum_probs=8.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q 025526          131 RLENKCKAAEQASEDWYRKA  150 (251)
Q Consensus       131 ~le~k~~~~~~~~~~~e~rA  150 (251)
                      .++.++..+++++++.++..
T Consensus       981 ~~~~~v~~L~~e~~~l~~~~ 1000 (1080)
T 2dfs_A          981 NATNRVLSLQEEIAKLRKEL 1000 (1080)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            33344444444444444333

>3mq9_A Bone marrow stromal antigen 2 fused to maltose-BI periplasmic protein; HIV, antiviral protein; 2.80A {Escherichia coli}

Probab=90.96  E-value=4.7  Score=37.37  Aligned_cols=49  Identities=22%  Similarity=0.174  Sum_probs=33.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          170 KSYADNANALKAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKARAQSA  221 (251)
Q Consensus       170 ~~~e~~~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~LkAr~~~A  221 (251)
                      ..+...+-.|+..|+.-..+   -...++++|..|.++..++..+.|.....
T Consensus       421 ~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  469 (471)
T 3mq9_A          421 ATANHTVMALMASLDAEKAQ---GQKKVEELEGEITTLNHKLQDASAEVERL  469 (471)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhcchhHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            34566666677776655444   23588888888888888888877766544

>2v71_A Nuclear distribution protein NUDE-like 1; developmental protein, nuclear protein, neurogenesis, cytosk LIS1 binding, differentiation; 2.24A {Rattus norvegicus}

Probab=90.80  E-value=6.7  Score=33.09  Aligned_cols=25  Identities=12%  Similarity=0.088  Sum_probs=9.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          125 VLASQKRLENKCKAAEQASEDWYRK  149 (251)
Q Consensus       125 v~A~~k~le~k~~~~~~~~~~~e~r  149 (251)
                      .-...+.+..+...+..+++.|..+
T Consensus        54 ~Ek~~~~L~~~~~~L~~E~e~~k~K   78 (189)
T 2v71_A           54 AEQRNRDLQADNQRLKYEVEALKEK   78 (189)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333444444444444333

>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=90.70  E-value=3  Score=40.41  Aligned_cols=100  Identities=11%  Similarity=0.124  Sum_probs=52.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH-HHHHHHHHHHHH
Q 025526          104 LEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRK-SYADNANALKAQ  182 (251)
Q Consensus       104 LdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~EdLAreAL~rk~-~~e~~~~~l~~q  182 (251)
                      |+..=+|+..-|.++|..+.++....+..+.-+   +...+.|.++...+-  +++.    ...+.. +++.++..|+..
T Consensus        55 LdkqErDltkrINELKnqLEdlsKnsKdseqy~---k~~~E~Lr~rq~q~~--dNdN----tynE~S~ELRRrIqyLKek  125 (562)
T 3ghg_A           55 IDEVNQDFTNRINKLKNSLFEYQKNNKDSHSLT---TNIMEILRGDFSSAN--NRDN----TYNRVSEDLRSRIEVLKRK  125 (562)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTHHHHHHHHHHHHH---HHHHHTTSSHHHHHH--HHHH----HHHHTTHHHHHHHHHHHHH
T ss_pred             HHhhcCcHHHHHHHHHHHHHHHHhhchhHHHHH---HHHHHHHHHHHHhhh--ccch----hHHHHHHHHHHHHHHHHHH
Confidence            344445566666666666666644444444443   333444444444443  2221    222222 455666666666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          183 LDQQKNVVNNLVSNTRLLESKIQEARSKKD  212 (251)
Q Consensus       183 l~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~  212 (251)
                      ++.+-..+..|+..|+.+..+|+.++.-++
T Consensus       126 VdnQlsnIrvLQsnLedq~~kIQRLEvDId  155 (562)
T 3ghg_A          126 VIEKVQHIQLLQKNVRAQLVDMKRLEVDID  155 (562)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            666666666666666666666666554443

>1m1j_B Fibrinogen beta chain; coiled coils, disulfide rings, fibrinogen, blood clotting; HET: NDG NAG; 2.70A {Gallus gallus} SCOP: d.171.1.1 h.1.8.1 PDB: 1ei3_B*

Probab=90.43  E-value=11  Score=36.02  Aligned_cols=43  Identities=12%  Similarity=0.296  Sum_probs=21.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          103 ILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASED  145 (251)
Q Consensus       103 mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~  145 (251)
                      -++..|.+|++.+.++......+.-..+.+...++..+.++.+
T Consensus        97 ~V~~~LqeLe~~l~~lsn~Ts~~~~~i~~Iq~slk~~Q~Qi~e  139 (464)
T 1m1j_B           97 TVKPVLRDLKDRVAKFSDTSTTMYQYVNMIDNKLVKTQKQRKD  139 (464)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHhHHHHHHHHHHHHhhhhhHHHHHHHHHHHHhhcccccccc
Confidence            3555666666666666554444333333444444444443333

>3o0z_A RHO-associated protein kinase 1; coiled-coil, transferase; HET: MSE; 2.33A {Homo sapiens}

Probab=90.31  E-value=7  Score=32.43  Aligned_cols=52  Identities=13%  Similarity=0.169  Sum_probs=23.9

Q ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526           99 DPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKA  150 (251)
Q Consensus        99 DP~~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA  150 (251)
                      |-...|+-.+.|+.+.|..=-.+.++..-....+...+..++..+.++..+.
T Consensus         6 eKi~~LekQL~E~n~kLk~EsE~~~rlkK~~tEl~k~~~~~E~~~rELq~~~   57 (168)
T 3o0z_A            6 EKLSQLQKQLEEANDLLRTESDTAVRLRKSHTEMSKSISQLESLNRELQERN   57 (168)
T ss_dssp             ----CTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334455555566665554444444444444444444444444444444443

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=90.12  E-value=12  Score=34.78  Aligned_cols=44  Identities=18%  Similarity=0.181  Sum_probs=27.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 025526          115 LVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGE  158 (251)
Q Consensus       115 L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~  158 (251)
                      +...++.-......++.++..+...+....+.+...+..+.+-+
T Consensus       355 ~~~~~~~~~~l~~~~~~le~~~~~~~~~~~~~~~~~~~~~~~~e  398 (487)
T 3oja_A          355 VTLRKQAKITLEQKKKALDEQVSNGRRAHAELDGTLQQAVGQIE  398 (487)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHhhchhh
Confidence            33334444455666667777777777777777777776655544

>4fm3_A Uncharacterized hypothetical protein; PF14346 family protein, DUF4398, structural genomics, joint for structural genomics, JCSG; HET: PG4; 2.47A {Pseudomonas aeruginosa}

Probab=89.91  E-value=4.7  Score=30.63  Aligned_cols=64  Identities=19%  Similarity=0.209  Sum_probs=49.3

Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          142 ASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALKAQLDQQKNVVNNLVSNTRLLESKIQE  206 (251)
Q Consensus       142 ~~~~~e~rA~~AL~~G~EdLAreAL~rk~~~e~~~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e  206 (251)
                      .+.+.-.+|+.|+..++-+.||..+ +...+..++..-+......++.++.++..+..|+..|-+
T Consensus        33 ~A~dKl~~A~~Am~~~~y~~Ar~lA-EqAe~DArLAeAka~~~Ka~~~~~el~~~I~~LrqEl~~   96 (98)
T 4fm3_A           33 LAQDKYAAAQIAMTAESYKKARLLA-EQAELDARLAESKVLTQKSKDQLGELDKSLKRLRKQLGE   96 (98)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHHHcccHHHHHHHH-HHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            3445557899999999999999764 556777778888888888888888888888887776643

>3ghg_A Fibrinogen alpha chain; triple-stranded coiled coil, beta sheets, alpha helices, AMY amyloidosis, blood coagulation, disease mutation, glycoprot phosphoprotein; HET: NAG NDG BMA MAN GAL SIA; 2.90A {Homo sapiens} PDB: 3h32_A* 2a45_G*

Probab=89.62  E-value=7.9  Score=37.52  Aligned_cols=94  Identities=10%  Similarity=0.146  Sum_probs=47.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          104 LEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALKAQL  183 (251)
Q Consensus       104 LdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~EdLAreAL~rk~~~e~~~~~l~~ql  183 (251)
                      |...|.||+++|.+..+.-..+-..-+.+-..+........+.++    ....=-++|-    .++..++..+...-.++
T Consensus        62 ltkrINELKnqLEdlsKnsKdseqy~k~~~E~Lr~rq~q~~dNdN----tynE~S~ELR----RrIqyLKekVdnQlsnI  133 (562)
T 3ghg_A           62 FTNRINKLKNSLFEYQKNNKDSHSLTTNIMEILRGDFSSANNRDN----TYNRVSEDLR----SRIEVLKRKVIEKVQHI  133 (562)
T ss_dssp             HHHHHHHHHHHHTHHHHHHHHHHHHHHHHHHTTSSHHHHHHHHHH----HHHHTTHHHH----HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhhchhHHHHHHHHHHHHHHHHHhhhccch----hHHHHHHHHH----HHHHHHHHHHHHHHHHH
Confidence            555555666666666555555544444444444333333333333    1121122233    33344444444444666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q 025526          184 DQQKNVVNNLVSNTRLLESKIQ  205 (251)
Q Consensus       184 ~~~~~~v~~Lk~~l~~Le~ki~  205 (251)
                      ..++..|+.+..++++||.-|.
T Consensus       134 rvLQsnLedq~~kIQRLEvDId  155 (562)
T 3ghg_A          134 QLLQKNVRAQLVDMKRLEVDID  155 (562)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            6667777777777777775554

>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=89.60  E-value=12  Score=35.94  Aligned_cols=85  Identities=13%  Similarity=0.172  Sum_probs=47.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          110 EMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALKAQLDQQKNV  189 (251)
Q Consensus       110 eme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~EdLAreAL~rk~~~e~~~~~l~~ql~~~~~~  189 (251)
                      +.+..|..-+.+++++...-..++..|+...++.+.-.    .++++.+|.+-+.-...++.|++.++.+++.++.....
T Consensus         6 ~yq~~la~yq~elarvqkana~aka~Ye~~~ae~~a~n----~~i~aeNeaikkrNa~aka~Ye~~l~kY~~dlakY~~~   81 (497)
T 3iox_A            6 DYQAKLTAYQTELARVQKANADAKAAYEAAVAANNAAN----AALTAENTAIKKRNADAKADYEAKLAKYQADLAKYQKD   81 (497)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45666777777777776665555555544443332211    12444555555555566677777777777777666555


Q ss_pred             HHHHHHHHH
Q 025526          190 VNNLVSNTR  198 (251)
Q Consensus       190 v~~Lk~~l~  198 (251)
                      ..+....+.
T Consensus        82 ~AeY~~kl~   90 (497)
T 3iox_A           82 LADYPVKLK   90 (497)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            444444333

>1m1j_C Fibrinogen gamma chain; coiled coils, disulfide rings, fibrinogen, blood clotting; HET: NDG NAG; 2.70A {Gallus gallus} SCOP: d.171.1.1 h.1.8.1 PDB: 1ei3_C

Probab=88.90  E-value=8.1  Score=36.25  Aligned_cols=51  Identities=14%  Similarity=0.213  Sum_probs=35.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          166 LKRRKSYADNANALKAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKA  216 (251)
Q Consensus       166 L~rk~~~e~~~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~LkA  216 (251)
                      ...-....+++..|+..+...+..+..|+..+..++.+|++++.+...|..
T Consensus        83 tq~skkml~~~~~~e~~~~~~~~~i~~l~~~~~~~~~~i~~l~~~i~~l~~  133 (409)
T 1m1j_C           83 TQKSKKIIEEIIRYENTILAHENTIQQLTDMHIMNSNKITQLKQKIAQLES  133 (409)
T ss_dssp             HHHHHHHHHHHHHTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhhHHHHHHHHHHHHHHHH
Confidence            344445566677777777777777777777777777777777777766653

>3u59_A Tropomyosin beta chain; muscle contraction, actin, contractIle protein; 2.50A {Gallus gallus}

Probab=88.53  E-value=6.3  Score=29.52  Aligned_cols=72  Identities=17%  Similarity=0.259  Sum_probs=35.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          131 RLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALKAQLDQQKNVVNNLVSNTRLLESKIQEA  207 (251)
Q Consensus       131 ~le~k~~~~~~~~~~~e~rA~~AL~~G~EdLAreAL~rk~~~e~~~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~  207 (251)
                      .+..++..+....+.|..+|..+-..     .+.+-.+....+..+..++.-+...+..++.....+.....++.+.
T Consensus         6 ~iKkKm~~lk~e~e~a~d~ae~~e~~-----~k~~e~~~~~~E~ei~sL~kKiq~lE~eld~~~e~l~~a~~kLe~~   77 (101)
T 3u59_A            6 AIKKKMQMLKLDKENAIDRAEQAEAD-----KKQAEDRCKQLEEEQQGLQKKLKGTEDEVEKYSESVKEAQEKLEQA   77 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            35566677777777777777765222     2233333333344444444444444444444444444444444333

>3mq7_A Bone marrow stromal antigen 2; HIV, antiviral protein; 2.28A {Homo sapiens} PDB: 3mqc_A 3mqb_A 3mkx_A 3nwh_A 2xg7_A* 2x7a_A

Probab=88.42  E-value=7.7  Score=30.35  Aligned_cols=81  Identities=12%  Similarity=0.156  Sum_probs=37.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          130 KRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALKAQLDQQKNVVNNLVSNTRLLESKIQEARS  209 (251)
Q Consensus       130 k~le~k~~~~~~~~~~~e~rA~~AL~~G~EdLAreAL~rk~~~e~~~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~  209 (251)
                      ..|++++.+.++-..+|+.+|-.+=+.        ...=+.+++..-..-+.++..++..+..|+..|+....+++.++.
T Consensus        28 ~lLq~qLTqAQe~l~~~eaQAaTCNqT--------V~tL~~SL~~ekaq~q~~vqeLqgEI~~Lnq~Lq~a~ae~erlr~   99 (121)
T 3mq7_A           28 HLLQQELTEAQKGFQDVEAQAATANHT--------VMALMASLDAEKAQGQKKVEELEGEITTLNHKLQDASAEVERLRR   99 (121)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            345566666666666666555544211        111111111111111333445555555555555555555555555


Q ss_pred             HHHHHHHHH
Q 025526          210 KKDTLKARA  218 (251)
Q Consensus       210 k~~~LkAr~  218 (251)
                      .-..+..|.
T Consensus       100 ~~~~~~~r~  108 (121)
T 3mq7_A          100 ENQVLSVRI  108 (121)
T ss_dssp             HHHHHHHHH
T ss_pred             hchhhhhHh
Confidence            555555554

>3u1c_A Tropomyosin alpha-1 chain; anti-parallel coiled coil, contractIle protein; 1.80A {Gallus gallus} PDB: 3u1a_A

Probab=88.15  E-value=6.9  Score=29.47  Aligned_cols=71  Identities=17%  Similarity=0.176  Sum_probs=33.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          131 RLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNANALKAQLDQQKNVVNNLVSNTRLLESKIQE  206 (251)
Q Consensus       131 ~le~k~~~~~~~~~~~e~rA~~AL~~G~EdLAreAL~rk~~~e~~~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e  206 (251)
                      .++.++..+....+.|..+|..+-.     -.+.+-.+....+..+..|+.-+..++..++.+...+.....++.+
T Consensus         6 aIKkKm~~lk~e~e~a~drae~~e~-----~~k~~e~~~~~~E~Ei~sL~kk~~~lE~eld~~ee~L~ea~~kLee   76 (101)
T 3u1c_A            6 AIKKKMQMLKLDKENALDRAEQAEA-----DKKAAEERSKQLEDDIVQLEKQLRVTEDSRDQVLEELHKSEDSLLF   76 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3456666677777777777766522     1223333333334444444444444444444444444444433333

>2v4h_A NF-kappa-B essential modulator; transcription, metal-binding, NEMO - IKK gamma - NFKB pathwa darpin, transcription regulation; 2.9A {Mus musculus}

Probab=87.74  E-value=8.1  Score=29.86  Aligned_cols=28  Identities=11%  Similarity=0.178  Sum_probs=14.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          107 AVLEMNDDLVKMRQATAQVLASQKRLEN  134 (251)
Q Consensus       107 ~Ireme~~L~kar~~lA~v~A~~k~le~  134 (251)
                      .|.++...|..+...++.-+..-..++.
T Consensus        25 ei~~L~~~L~~AEeaL~~Kq~~idelk~   52 (110)
T 2v4h_A           25 QLEDLRQQLQQAEEALVAKQELIDKLKE   52 (110)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3456666666666666654443333333

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=86.32  E-value=16  Score=33.81  Aligned_cols=8  Identities=38%  Similarity=0.563  Sum_probs=3.7

Q ss_pred             hHHHHHHH
Q 025526           78 LFDRLARV   85 (251)
Q Consensus        78 if~Rl~~l   85 (251)
                      +..|+..+
T Consensus       303 ~~~~l~~~  310 (487)
T 3oja_A          303 FADRLIAL  310 (487)
T ss_dssp             HHHHHHHH
T ss_pred             hhhHHHHH
Confidence            33555444

>3mq7_A Bone marrow stromal antigen 2; HIV, antiviral protein; 2.28A {Homo sapiens} PDB: 3mqc_A 3mqb_A 3mkx_A 3nwh_A 2xg7_A* 2x7a_A

Probab=86.23  E-value=10  Score=29.58  Aligned_cols=41  Identities=15%  Similarity=0.312  Sum_probs=30.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          168 RRKSYADNANALKAQLDQQKNVVNNLVSNTRLLESKIQEAR  208 (251)
Q Consensus       168 rk~~~e~~~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k  208 (251)
                      +.++++..+..|.+.+......+++|+.....+..+|...+
T Consensus        72 ~vqeLqgEI~~Lnq~Lq~a~ae~erlr~~~~~~~~r~~~~~  112 (121)
T 3mq7_A           72 KVEELEGEITTLNHKLQDASAEVERLRRENQVLSVRIADKK  112 (121)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC---
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhchhhhhHhhhcc
Confidence            56777788888888888888888888888877777776544

>1l8d_A DNA double-strand break repair RAD50 ATPase; zinc finger, DNA repair, recombination, HOOK motif, replication; HET: DNA CIT; 2.20A {Pyrococcus furiosus} SCOP: h.4.12.1

Probab=86.12  E-value=4.8  Score=30.22  Aligned_cols=40  Identities=15%  Similarity=0.203  Sum_probs=24.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          107 AVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDW  146 (251)
Q Consensus       107 ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~  146 (251)
                      .+.+.++.+.+.+..+..+......++.++..+...+..+
T Consensus         4 ~~~~~~~~~~~~~~~l~~L~~~~~~l~~~i~~l~~~l~~l   43 (112)
T 1l8d_A            4 LLEELETKKTTIEEERNEITQRIGELKNKIGDLKTAIEEL   43 (112)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3455566666666666666666666666666666666555

>3hnw_A Uncharacterized protein; coiled-coil, structural genomics, PSI-2, protein structure initiative, midwest center for structural genomics, MCSG; 2.20A {Eubacterium eligens}

Probab=84.91  E-value=13  Score=29.56  Aligned_cols=18  Identities=11%  Similarity=0.220  Sum_probs=10.5

Q ss_pred             chHHHHHHHHHHHHHHhh
Q 025526           77 NLFDRLARVVKSYANAIL   94 (251)
Q Consensus        77 ~if~Rl~~lira~in~~l   94 (251)
                      .-+.++...|-..+.++-
T Consensus        28 e~L~~vA~~vd~km~ei~   45 (138)
T 3hnw_A           28 EYLQRVASYINNKITEFN   45 (138)
T ss_dssp             HHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            355666666655555554

>2v71_A Nuclear distribution protein NUDE-like 1; developmental protein, nuclear protein, neurogenesis, cytosk LIS1 binding, differentiation; 2.24A {Rattus norvegicus}

Probab=84.85  E-value=17  Score=30.67  Aligned_cols=27  Identities=11%  Similarity=0.268  Sum_probs=12.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          108 VLEMNDDLVKMRQATAQVLASQKRLEN  134 (251)
Q Consensus       108 Ireme~~L~kar~~lA~v~A~~k~le~  134 (251)
                      ..++.+.+.+++..+..-...-+.+|.
T Consensus        19 ~~~~~q~~~~le~El~EFqesSrELE~   45 (189)
T 2v71_A           19 SMKYKQSFQEARDELVEFQEGSRELEA   45 (189)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444444444444444443

>3ghg_B Fibrinogen beta 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_B* 1deq_B 2a45_H*

Probab=84.29  E-value=24  Score=33.56  Aligned_cols=94  Identities=17%  Similarity=0.290  Sum_probs=44.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH--HHHHHHH
Q 025526          104 LEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYAD--NANALKA  181 (251)
Q Consensus       104 LdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~EdLAreAL~rk~~~e~--~~~~l~~  181 (251)
                      ++.-|.+|++.|.++......+....+.++..+...+.....-    ..++++     -+..|++...+++  .......
T Consensus        93 V~~dl~~Le~~l~~isn~Ts~a~~~v~~ik~s~~~~q~~~~~n----~~~~~~-----s~~mle~~~~~~~~~~~~~~~~  163 (461)
T 3ghg_B           93 IRNSVDELNNNVEAVSQTSSSSFQYMYLLKDLWQKRQKQVKDN----ENVVNE-----YSSELEKHQLYIDETVNSNIPT  163 (461)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHHHHHHHHHHHHH----HHTTSC-----HHHHHHHHHTHHHHHHHTHHHH
T ss_pred             hhhHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhccccCCCCcc----hhHHHH-----HHHHHHHHHHHHHhhhhccchh
Confidence            4555666677666666666655555555555555544444332    122221     1234444444444  3333444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          182 QLDQQKNVVNNLVSNTRLLESKIQE  206 (251)
Q Consensus       182 ql~~~~~~v~~Lk~~l~~Le~ki~e  206 (251)
                      .+..++..++.+...+..|+..|..
T Consensus       164 ~i~~l~~~~~~~~~~i~~l~~~~~~  188 (461)
T 3ghg_B          164 NLRVLRSILENLRSKIQKLESDVSA  188 (461)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            4444444444444444444444433

>2jee_A YIIU; FTSZ, septum, coiled-coil, cell division, cell cycle, hypothetical protein; 2.8A {Escherichia coli}

Probab=84.15  E-value=9.1  Score=28.05  Aligned_cols=67  Identities=13%  Similarity=0.286  Sum_probs=55.2

Q ss_pred             HHHHHHHhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 025526           86 VKSYANAILSSFEDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQK  156 (251)
Q Consensus        86 ira~in~~lDk~EDP~~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~  156 (251)
                      +.+.|..++    |-+..|...|.++++.-..+.+....+...+..+.++...+..+...|+.+...-|.+
T Consensus        11 LE~KIq~av----dtI~lLqmEieELKekN~~L~~e~~e~~~~~~~L~~en~qLk~E~~~wq~Rl~~LLgk   77 (81)
T 2jee_A           11 LEAKVQQAI----DTITLLQMEIEELKEKNNSLSQEVQNAQHQREELERENNHLKEQQNGWQERLQALLGR   77 (81)
T ss_dssp             HHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            345555444    4467788899999999999999999999999999999999999999999998876543

>3ghg_C Fibrinogen gamma chain; triple-stranded coiled coil, beta sheets, alpha helices, AMY amyloidosis, blood coagulation, disease mutation, glycoprot phosphoprotein; HET: NAG NDG BMA MAN GAL SIA; 2.90A {Homo sapiens} PDB: 1deq_C

Probab=83.43  E-value=18  Score=33.92  Aligned_cols=40  Identities=18%  Similarity=0.127  Sum_probs=20.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          177 NALKAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKA  216 (251)
Q Consensus       177 ~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~LkA  216 (251)
                      ..++..+..+..++..|+..+.....+|.+++.+...|..
T Consensus        94 ~~~~~~~~~~~~~i~~l~~~~~~~~~~i~~L~~~v~~l~~  133 (411)
T 3ghg_C           94 MKYEASILTHDSSIRYLQEIYNSNNQKIVNLKEKVAQLEA  133 (411)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444444555555555555555555555555555543

>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=82.11  E-value=9.2  Score=25.67  Aligned_cols=45  Identities=11%  Similarity=0.110  Sum_probs=22.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          175 NANALKAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDTLKARAQSAKFVFPLS  228 (251)
Q Consensus       175 ~~~~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~LkAr~~~AkAq~~vn  228 (251)
                      ++..|..+++++...|+.|..++..++..++         .|+..+++|-+++.
T Consensus         5 ki~~Lss~V~~L~~kVdqLssdV~al~~~v~---------~ak~eA~RAN~RlD   49 (52)
T 1jcd_A            5 KADQASSDAQTANAKADQASNDANAARSDAQ---------AAKDDAARANQRAD   49 (52)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHhhh
Confidence            3444444455555555555554444444333         55556666655543

>2i1j_A Moesin; FERM, coiled-coil, C-ermad, ERM, radixin, ezrin, MER actin binding, masking, regulation, SELF-inhibition, cell A membrane protein; 2.10A {Spodoptera frugiperda} PDB: 2i1k_A 1e5w_A

Probab=80.97  E-value=1.8  Score=42.27  Aligned_cols=16  Identities=6%  Similarity=0.054  Sum_probs=11.1

Q ss_pred             hHHHHHHHHHHHHHHh
Q 025526           78 LFDRLARVVKSYANAI   93 (251)
Q Consensus        78 if~Rl~~lira~in~~   93 (251)
                      +-+.|+.++.++..=.
T Consensus       276 ~ak~i~~lc~~~H~ff  291 (575)
T 2i1j_A          276 VNKRILALCMGNHELY  291 (575)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHH
Confidence            3577888888875533

>2efr_A General control protein GCN4 and tropomyosin 1 Al; destabilizing cluster, hydrophobic core, contractIle protein; 1.80A {Saccharomyces cerevisiae} PDB: 2efs_A 2d3e_A

Probab=80.06  E-value=23  Score=28.87  Aligned_cols=103  Identities=11%  Similarity=0.132  Sum_probs=53.6

Q ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHH
Q 025526           98 EDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADNAN  177 (251)
Q Consensus        98 EDP~~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~EdLAreAL~rk~~~e~~~~  177 (251)
                      +|.+.-.+..-| ++.+|..+..-+...-+....++..+......+..++.....+            -.+...|+.++.
T Consensus        14 e~ad~KyeEvaR-~E~dLEraEERae~aE~k~~eLEeeL~~v~~nlKsLE~seeka------------sqrEd~yEeqIk   80 (155)
T 2efr_A           14 SKNYHLENEVAR-LKKLLERAEERAELSEGKSAELEEELKTVTNNLKSLEAQAEKY------------SQKEDKYEEEIK   80 (155)
T ss_dssp             HHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------------HHHHHHHHHHHH
T ss_pred             HHhHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccchhhhhHH------------HHHHHHHHHHHH
Confidence            444444444444 5555555555555555555555555555555555555444444            344555666666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          178 ALKAQLDQQKNVVNNLVSNTRLLESKIQEARSKKDT  213 (251)
Q Consensus       178 ~l~~ql~~~~~~v~~Lk~~l~~Le~ki~e~k~k~~~  213 (251)
                      .|...+..++...+.....+..|+..|..+..++..
T Consensus        81 ~L~~kLKEAE~RAE~AERsv~kLEk~id~lEd~L~~  116 (155)
T 2efr_A           81 VLSDKLKEAETRAEFAERSVTKLEKSIDDLEDELYA  116 (155)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            666666555555555545555554444444444443

---

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	251
d1fxka_	107	Prefoldin beta subunit {Archaeon Methanobacterium	86.65
d1fpoa2	95	HSC20 (HSCB), C-terminal oligomerisation domain {E	84.35

>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=86.65  E-value=2.7  Score=29.90  Aligned_cols=40  Identities=13%  Similarity=0.203  Sum_probs=28.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025526          108 VLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWY  147 (251)
Q Consensus       108 Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e  147 (251)
                      +.+.-..+..+++.+..+......++.++.+.....+.++
T Consensus         3 lqe~~~~~q~lq~el~~~~~q~~~le~q~~E~~~vl~eL~   42 (107)
T d1fxka_           3 VQHQLAQFQQLQQQAQAISVQKQTVEMQINETQKALEELS   42 (107)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4455566777777777777878888888877776666655

>d1fpoa2 a.23.1.1 (A:77-171) HSC20 (HSCB), C-terminal oligomerisation domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: Open three-helical up-and-down bundle
superfamily: HSC20 (HSCB), C-terminal oligomerisation domain
family: HSC20 (HSCB), C-terminal oligomerisation domain
domain: HSC20 (HSCB), C-terminal oligomerisation domain
species: Escherichia coli [TaxId: 562]

Probab=84.35  E-value=4.9  Score=27.91  Aligned_cols=79  Identities=18%  Similarity=0.219  Sum_probs=53.7

Q ss_pred             ccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Q 025526           96 SFEDPEKILEQAVLEMNDDLVKMRQATAQVLASQKRLENKCKAAEQASEDWYRKAQLALQKGEEDLAREALKRRKSYADN  175 (251)
Q Consensus        96 k~EDP~~mLdQ~Ireme~~L~kar~~lA~v~A~~k~le~k~~~~~~~~~~~e~rA~~AL~~G~EdLAreAL~rk~~~e~~  175 (251)
                      .+.||+=+++|+  |.++.|.++...-     ....++.=..+....+..+......++.+++-+-|...+.+..-+.+-
T Consensus         9 T~~DpeFLMeqM--E~RE~lee~~~~~-----d~~~l~~l~~ei~~~~~~~~~~l~~~~~~~d~~~A~~~~~kLkF~~kl   81 (95)
T d1fpoa2           9 TVRDTAFLMEQL--ELREELDEIEQAK-----DEARLESFIKRVKKMFDTRHQLMVEQLDNETWDAAADTCRKLRFLDKL   81 (95)
T ss_dssp             CCSCHHHHHHHH--HHHHHHHHHHHHT-----CHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             hcCCHHHHHHHH--HHHHHHHHhhcCC-----CHHHHHHHHHHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHhHHHHHH
Confidence            467999888876  5666666664320     112334444556667777777888889999999999999887776655


Q ss_pred             HHHHHH
Q 025526          176 ANALKA  181 (251)
Q Consensus       176 ~~~l~~  181 (251)
                      ...++.
T Consensus        82 ~~ei~~   87 (95)
T d1fpoa2          82 RSSAEQ   87 (95)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            444443