Psyllid ID: psy5288

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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------
Protein Sequence
MADNEQKARQLVAEAEKKISSSSKGFFSQFTGGNKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQL
Secondary Structure (PSIPRED)
cccHHHHHHHHHHHHHHHHHcccccccccccccccHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHcccHHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
cccHHHHHHHHHHHHHHHHccccccHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Coil and Loop (DISEMBL)
MADNEQKARQLVAEAEKKIsssskgffsqftggnktdEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLhlknnnkhdaglcfvdaancykksnpaEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAAdcyageenksSANKCLIKIANYSALTDHLDKAIKLYEQL
Flexible Loop (DISEMBL)
MADNEQKARQLVAEAekkisssskgffsqftggNKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQL
Low Complexity Region (SEG)
MADNEQKARQLVAEAEkkisssskgffsqftggNKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQL
Disordered region (IsUnstruct)
****************************QFTGGNKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEEN*SSANKCLIKIANYSALTDHLDKAIKLY***
Disordered Region (DISOPRED)
****EQK**QLVAEAEKKISSSSKGFFSQFTGGNKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQL
Disordered Region (DISEMBL)
***********************KGFFSQFTGGNKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQL
Disordered Region (DISPRO)
*********QLVAEAEKKISSSSKGFFSQFTGGNKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQL
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MADNEQKARQLVAEAEKKISSSSKGFFSQFTGGNKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVxxxxxxxxxxxxxxxxxxxxxxxxxxxxADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQL
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	186	2.2.26 [Sep-21-2011]
Q23983	292	Soluble NSF attachment pr	yes	N/A	0.994	0.633	0.518	6e-53
P54920	295	Alpha-soluble NSF attachm	yes	N/A	0.913	0.576	0.552	4e-51
P28663	298	Beta-soluble NSF attachme	yes	N/A	0.994	0.620	0.518	8e-51
Q9H115	298	Beta-soluble NSF attachme	no	N/A	0.994	0.620	0.518	8e-51
P54921	295	Alpha-soluble NSF attachm	no	N/A	0.913	0.576	0.547	2e-50
P81126	298	Beta-soluble NSF attachme	yes	N/A	0.994	0.620	0.513	2e-50
Q9DB05	295	Alpha-soluble NSF attachm	no	N/A	0.913	0.576	0.547	2e-50
P81125	295	Alpha-soluble NSF attachm	no	N/A	0.913	0.576	0.535	4e-49
P85969	297	Beta-soluble NSF attachme	yes	N/A	0.989	0.619	0.513	5e-49
Q54NP6	291	Alpha-soluble NSF attachm	yes	N/A	0.967	0.618	0.423	5e-34

>sp|Q23983|SNAP_DROME Soluble NSF attachment protein OS=Drosophila melanogaster GN=Snap PE=1 SV=1

 Score =  206 bits (525), Expect = 6e-53,   Method: Compositional matrix adjust.
 Identities = 97/187 (51%), Positives = 136/187 (72%), Gaps = 2/187 (1%)

Query: 1   MADNEQKARQLVAEAEKKISSSSKGFF-SQFTGGNKTDEAIDLYVRAGNLFKLGKKWNDG 59
           M DNEQKA QL+AEAEKK++   KGF  S F G NK ++AI+ Y RAGN+FK+ K W   
Sbjct: 1   MGDNEQKALQLMAEAEKKLTQQ-KGFLGSLFGGSNKVEDAIECYQRAGNMFKMSKNWTKA 59

Query: 60  GNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVA 119
           G  F +A TLH +  ++HDAG C+VDA+NCYKK +   A+  + ++++I+TDMGRF M A
Sbjct: 60  GECFCEAATLHARAGSRHDAGTCYVDASNCYKKVDVESAVNCLMKSIDIYTDMGRFTMAA 119

Query: 120 KHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKA 179
           KHH++IAE+YE +  +  K+I HY+ AAD + GEE+ SSANKC++K+A Y+A  +  +KA
Sbjct: 120 KHHQSIAEMYESDPNNLAKSIQHYEQAADYFKGEESVSSANKCMLKVAQYAAQLEDYEKA 179

Query: 180 IKLYEQL 186
           I +YEQ+
Sbjct: 180 ISIYEQV 186

Required for vesicular transport between the endoplasmic reticulum and the Golgi apparatus. Also between the endosome and phagosome.
Drosophila melanogaster (taxid: 7227)

>sp|P54920|SNAA_HUMAN Alpha-soluble NSF attachment protein OS=Homo sapiens GN=NAPA PE=1 SV=3

 Score =  200 bits (509), Expect = 4e-51,   Method: Compositional matrix adjust.
 Identities = 94/170 (55%), Positives = 123/170 (72%)

Query: 17  KKISSSSKGFFSQFTGGNKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNK 76
           +K+ +S   F   F G +K +EA ++Y RA N+FK+ K W+  GNAF QA  LHL+  +K
Sbjct: 19  RKVKNSQSFFSGLFGGSSKIEEACEIYARAANMFKMAKNWSAAGNAFCQAAQLHLQLQSK 78

Query: 77  HDAGLCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQ 136
           HDA  CFVDA N +KK++P EAI  + RA+EI+TDMGRF + AKHH +IAEIYE EL D 
Sbjct: 79  HDAATCFVDAGNAFKKADPQEAINCLMRAIEIYTDMGRFTIAAKHHISIAEIYETELVDI 138

Query: 137 EKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQL 186
           EKAI HY+ +AD Y GEE+ SSANKCL+K+A Y+AL +   KAI +YEQ+
Sbjct: 139 EKAIAHYEQSADYYKGEESNSSANKCLLKVAGYAALLEQYQKAIDIYEQV 188

Required for vesicular transport between the endoplasmic reticulum and the Golgi apparatus.

Homo sapiens (taxid: 9606)

>sp|P28663|SNAB_MOUSE Beta-soluble NSF attachment protein OS=Mus musculus GN=Napb PE=1 SV=2

 Score =  199 bits (506), Expect = 8e-51,   Method: Compositional matrix adjust.
 Identities = 96/185 (51%), Positives = 130/185 (70%)

Query: 2   ADNEQKARQLVAEAEKKISSSSKGFFSQFTGGNKTDEAIDLYVRAGNLFKLGKKWNDGGN 61
           A  E++A QL+AEAEK++ +S       F G  + +EA ++Y RA N+FK+ K W+  GN
Sbjct: 4   AGKEREAVQLMAEAEKRVKASHSFLRGLFGGNTRIEEACEMYTRAANMFKMAKNWSAAGN 63

Query: 62  AFLQAGTLHLKNNNKHDAGLCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVAKH 121
           AF QA  LH++  +KHD+   FVDA N YKK++P EAI  +  A++I+TDMGRF + AKH
Sbjct: 64  AFCQAAKLHMQLQSKHDSATSFVDAGNAYKKADPQEAINCLNAAIDIYTDMGRFTIAAKH 123

Query: 122 HENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIK 181
           H  IAEIYE EL D EKAI HY+ +AD Y GEE+ SSANKCL+K+A Y+A  +   KAI+
Sbjct: 124 HITIAEIYETELVDIEKAIAHYEQSADYYKGEESNSSANKCLLKVAAYAAQLEQYQKAIE 183

Query: 182 LYEQL 186
           +YEQ+
Sbjct: 184 IYEQV 188

Required for vesicular transport between the endoplasmic reticulum and the Golgi apparatus.

Mus musculus (taxid: 10090)

>sp|Q9H115|SNAB_HUMAN Beta-soluble NSF attachment protein OS=Homo sapiens GN=NAPB PE=1 SV=2

 Score =  199 bits (506), Expect = 8e-51,   Method: Compositional matrix adjust.
 Identities = 96/185 (51%), Positives = 130/185 (70%)

Query: 2   ADNEQKARQLVAEAEKKISSSSKGFFSQFTGGNKTDEAIDLYVRAGNLFKLGKKWNDGGN 61
           A  E++A QL+AEAEK++ +S       F G  + +EA ++Y RA N+FK+ K W+  GN
Sbjct: 4   AGKEREAVQLMAEAEKRVKASHSFLRGLFGGNTRIEEACEMYTRAANMFKMAKNWSAAGN 63

Query: 62  AFLQAGTLHLKNNNKHDAGLCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVAKH 121
           AF QA  LH++  +KHD+   FVDA N YKK++P EAI  +  A++I+TDMGRF + AKH
Sbjct: 64  AFCQAAKLHMQLQSKHDSATSFVDAGNAYKKADPQEAINCLNAAIDIYTDMGRFTIAAKH 123

Query: 122 HENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIK 181
           H  IAEIYE EL D EKAI HY+ +AD Y GEE+ SSANKCL+K+A Y+A  +   KAI+
Sbjct: 124 HITIAEIYETELVDIEKAIAHYEQSADYYKGEESNSSANKCLLKVAAYAAQLEQYQKAIE 183

Query: 182 LYEQL 186
           +YEQ+
Sbjct: 184 IYEQV 188

Required for vesicular transport between the endoplasmic reticulum and the Golgi apparatus.

Homo sapiens (taxid: 9606)

>sp|P54921|SNAA_RAT Alpha-soluble NSF attachment protein OS=Rattus norvegicus GN=Napa PE=1 SV=2

 Score =  198 bits (503), Expect = 2e-50,   Method: Compositional matrix adjust.
 Identities = 93/170 (54%), Positives = 122/170 (71%)

Query: 17  KKISSSSKGFFSQFTGGNKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNK 76
           +K+ +S   F   F G +K +EA ++Y RA N+FK+ K W+  GNAF QA  LHL+  +K
Sbjct: 19  RKVKNSQSFFSGLFGGSSKIEEACEIYARAANMFKMAKNWSAAGNAFCQAAQLHLQLQSK 78

Query: 77  HDAGLCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQ 136
           HDA  CFVDA N +KK++P EAI  + RA+EI+TDMGRF + AKHH +IAEIYE EL D 
Sbjct: 79  HDAATCFVDAGNAFKKADPQEAINCLMRAIEIYTDMGRFTIAAKHHISIAEIYETELVDV 138

Query: 137 EKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQL 186
           EKAI HY+ +AD Y GEE+ SSANKCL+K+A Y+A  +   KAI +YEQ+
Sbjct: 139 EKAIAHYEQSADYYKGEESNSSANKCLLKVAGYAAQLEQYQKAIDIYEQV 188

Required for vesicular transport between the endoplasmic reticulum and the Golgi apparatus.

Rattus norvegicus (taxid: 10116)

>sp|P81126|SNAB_BOVIN Beta-soluble NSF attachment protein OS=Bos taurus GN=NAPB PE=1 SV=1

 Score =  198 bits (503), Expect = 2e-50,   Method: Compositional matrix adjust.
 Identities = 95/185 (51%), Positives = 130/185 (70%)

Query: 2   ADNEQKARQLVAEAEKKISSSSKGFFSQFTGGNKTDEAIDLYVRAGNLFKLGKKWNDGGN 61
           A  E++A QL+AEAEK++ +S       F G  + +EA ++Y RA N+FK+ K W+  GN
Sbjct: 4   AGKEREAVQLMAEAEKRVKASHSFLRGLFGGNTRIEEACEMYTRAANMFKMAKNWSAAGN 63

Query: 62  AFLQAGTLHLKNNNKHDAGLCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVAKH 121
           AF QA  LH++  +KHD+   FVDA N YKK++P EAI  +  A++I+TDMGRF + AKH
Sbjct: 64  AFCQAAKLHMQLQSKHDSATSFVDAGNAYKKADPQEAINCLNAAIDIYTDMGRFTIAAKH 123

Query: 122 HENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIK 181
           H  IAEIYE EL D EKAI HY+ +AD Y GEE+ SSANKCL+K+A Y+A  +   KAI+
Sbjct: 124 HITIAEIYETELVDIEKAIAHYEQSADYYKGEESNSSANKCLLKVAAYAAQLEQYQKAIE 183

Query: 182 LYEQL 186
           ++EQ+
Sbjct: 184 IFEQI 188

Required for vesicular transport between the endoplasmic reticulum and the Golgi apparatus.

Bos taurus (taxid: 9913)

>sp|Q9DB05|SNAA_MOUSE Alpha-soluble NSF attachment protein OS=Mus musculus GN=Napa PE=1 SV=1

 Score =  198 bits (503), Expect = 2e-50,   Method: Compositional matrix adjust.
 Identities = 93/170 (54%), Positives = 122/170 (71%)

Query: 17  KKISSSSKGFFSQFTGGNKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNK 76
           +K+ +S   F   F G +K +EA ++Y RA N+FK+ K W+  GNAF QA  LHL+  +K
Sbjct: 19  RKVKNSQSFFSGLFGGSSKIEEACEIYARAANMFKMAKNWSAAGNAFCQAAQLHLQLQSK 78

Query: 77  HDAGLCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQ 136
           HDA  CFVDA N +KK++P EAI  + RA+EI+TDMGRF + AKHH +IAEIYE EL D 
Sbjct: 79  HDAATCFVDAGNAFKKADPQEAINCLMRAIEIYTDMGRFTIAAKHHISIAEIYETELVDV 138

Query: 137 EKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQL 186
           EKAI HY+ +AD Y GEE+ SSANKCL+K+A Y+A  +   KAI +YEQ+
Sbjct: 139 EKAIAHYEQSADYYKGEESNSSANKCLLKVAGYAAQLEQYQKAIDIYEQV 188

Required for vesicular transport between the endoplasmic reticulum and the Golgi apparatus.

Mus musculus (taxid: 10090)

>sp|P81125|SNAA_BOVIN Alpha-soluble NSF attachment protein OS=Bos taurus GN=NAPA PE=1 SV=1

 Score =  194 bits (492), Expect = 4e-49,   Method: Compositional matrix adjust.
 Identities = 91/170 (53%), Positives = 122/170 (71%)

Query: 17  KKISSSSKGFFSQFTGGNKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNK 76
           +K+ +S   F   F G +K +EA ++Y RA N+FK+ K W+  G+AF QA  +HL+  +K
Sbjct: 19  RKVKNSQSFFSGLFGGSSKIEEACEIYARAANMFKMAKNWSAAGSAFCQAAHVHLQLQSK 78

Query: 77  HDAGLCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQ 136
           HDA  CFVDA N +KK++P EAI  + RA+EI+TDMGRF + AKHH +IAEIYE EL D 
Sbjct: 79  HDAATCFVDAGNAFKKADPQEAINCLMRAIEIYTDMGRFTIAAKHHISIAEIYETELVDI 138

Query: 137 EKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQL 186
           EKAI HY+ +AD Y GEE+ SSANKCL+K+A Y+A  +   KAI +YEQ+
Sbjct: 139 EKAIAHYEQSADYYKGEESNSSANKCLLKVAGYAAQLEQYQKAIDIYEQV 188

Required for vesicular transport between the endoplasmic reticulum and the Golgi apparatus.

Bos taurus (taxid: 9913)

>sp|P85969|SNAB_RAT Beta-soluble NSF attachment protein OS=Rattus norvegicus GN=Napb PE=1 SV=1

 Score =  193 bits (491), Expect = 5e-49,   Method: Compositional matrix adjust.
 Identities = 95/185 (51%), Positives = 130/185 (70%), Gaps = 1/185 (0%)

Query: 2   ADNEQKARQLVAEAEKKISSSSKGFFSQFTGGNKTDEAIDLYVRAGNLFKLGKKWNDGGN 61
           A  E++A QL+AEAEK++ +S       F G  + +EA ++Y RA N+FK+ K W+  GN
Sbjct: 4   AGKEREAVQLMAEAEKRVKASHSFLRGLFGGNTRIEEACEMYTRAANMFKMAKNWSAAGN 63

Query: 62  AFLQAGTLHLKNNNKHDAGLCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVAKH 121
           AF QA  LH++  +KHD+   FVDA N YKK++P EAI  +  A++I+TDMGRF + AKH
Sbjct: 64  AFCQAAKLHMQLQSKHDSATSFVDAGNAYKKADPQEAINCLNAAIDIYTDMGRFTIAAKH 123

Query: 122 HENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIK 181
           H  IAEIYE EL D EKAI HY+ +AD Y GEE+ +SANKCL+K+A Y+A  +   KAI+
Sbjct: 124 HITIAEIYETELVDIEKAIAHYEQSADYYKGEES-NSANKCLLKVAAYAAQLEQYQKAIE 182

Query: 182 LYEQL 186
           +YEQ+
Sbjct: 183 IYEQV 187

Required for vesicular transport between the endoplasmic reticulum and the Golgi apparatus.

Rattus norvegicus (taxid: 10116)

>sp|Q54NP6|SNAA_DICDI Alpha-soluble NSF attachment protein OS=Dictyostelium discoideum GN=snpA PE=1 SV=1

 Score =  144 bits (362), Expect = 5e-34,   Method: Compositional matrix adjust.
 Identities = 78/184 (42%), Positives = 121/184 (65%), Gaps = 4/184 (2%)

Query: 4   NEQKARQLVAEAEKKISSSSKGFFSQFTGGN-KTDEAIDLYVRAGNLFKLGKKWNDGGNA 62
           ++ KA++ +  A+K++   +  FF  F GG+ + D+A   Y +A NLFK+ KKW+  G A
Sbjct: 3   DDAKAKEFLDAADKRLRGGN--FFKMFGGGSSRYDDAASDYTKAANLFKMSKKWDQAGAA 60

Query: 63  FLQAGTLHLKNNNKHDAGLCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVAKHH 122
           F +A    LK ++KHDA   +V AA CYKK N  +AI  ++ A+E +TD GRF + AKH 
Sbjct: 61  FQKAAECFLKGSSKHDAASSYVLAAGCYKKGNVIDAITCLKAAIEYYTDEGRFAISAKHQ 120

Query: 123 ENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKL 182
           + IAE+YE E  D ++AI  YQ A+D + GE +  S+++CL+KIA +SA  +  +K+I++
Sbjct: 121 KEIAELYEAE-GDFDQAIASYQIASDYFDGENSTVSSHQCLLKIALFSAQLERYEKSIEI 179

Query: 183 YEQL 186
           YEQ+
Sbjct: 180 YEQV 183

May be required for vesicular transport between the endoplasmic reticulum and the Golgi apparatus (By similarity). Involved in vesicle fusion with nsfA and probably SNARE proteins.

Dictyostelium discoideum (taxid: 44689)

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	186
242024716	292	Soluble NSF attachment protein, putative	0.994	0.633	0.577	3e-58
357605232	292	putative Soluble NSF attachment protein	1.0	0.636	0.575	9e-58
321463517	293	hypothetical protein DAPPUDRAFT_188735 [	1.0	0.634	0.572	1e-55
380015858	292	PREDICTED: soluble NSF attachment protei	0.994	0.633	0.572	1e-55
427781771	292	Putative protein required for fusion of	1.0	0.636	0.553	2e-55
157130506	293	soluble nsf attachment protein (snap) [A	0.994	0.631	0.547	3e-55
66519254	292	PREDICTED: soluble NSF attachment protei	0.994	0.633	0.572	3e-55
307188146	292	Soluble NSF attachment protein [Camponot	0.994	0.633	0.582	4e-55
58383926	293	AGAP003192-PA [Anopheles gambiae str. PE	1.0	0.634	0.545	4e-55
383849884	292	PREDICTED: soluble NSF attachment protei	0.994	0.633	0.572	7e-55

>gi|242024716|ref|XP_002432772.1| Soluble NSF attachment protein, putative [Pediculus humanus corporis] gi|212518281|gb|EEB20034.1| Soluble NSF attachment protein, putative [Pediculus humanus corporis]

 Score =  229 bits (585), Expect = 3e-58,   Method: Compositional matrix adjust.
 Identities = 108/187 (57%), Positives = 145/187 (77%), Gaps = 2/187 (1%)

Query: 1   MADNEQKARQLVAEAEKKISSSSKGFF-SQFTGGNKTDEAIDLYVRAGNLFKLGKKWNDG 59
           MADNEQKA QL+AEAEKK++SS KGFF S F G +K +EA++ Y RA N+FK+ KKW   
Sbjct: 1   MADNEQKALQLIAEAEKKLTSS-KGFFGSLFGGSSKVEEAVECYTRAANMFKMAKKWGQA 59

Query: 60  GNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVA 119
           G+AF +A +LH K  ++HDA   +VDAANCYKKS+P E++  + +A+EI+TDMGRF M A
Sbjct: 60  GSAFCEAASLHAKAGSRHDAATNYVDAANCYKKSDPNESVNCLLKAIEIYTDMGRFTMAA 119

Query: 120 KHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKA 179
           KHH+ IAE+YE E  D E+A+ HY+ AAD + GEE+ SSANKC++K+A Y+A  ++ DKA
Sbjct: 120 KHHQTIAEVYETEAADLERAVQHYEQAADYFKGEESNSSANKCMLKVAQYAAQLENYDKA 179

Query: 180 IKLYEQL 186
           IK+YEQ+
Sbjct: 180 IKIYEQV 186

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|357605232|gb|EHJ64524.1| putative Soluble NSF attachment protein [Danaus plexippus]

 Score =  228 bits (581), Expect = 9e-58,   Method: Compositional matrix adjust.
 Identities = 107/186 (57%), Positives = 138/186 (74%)

Query: 1   MADNEQKARQLVAEAEKKISSSSKGFFSQFTGGNKTDEAIDLYVRAGNLFKLGKKWNDGG 60
           MADNEQKA QL+AEAEKK+SSS     S F G +K +EA+D Y+RA NLFK+ KKW   G
Sbjct: 1   MADNEQKAMQLIAEAEKKLSSSKSFLGSLFGGSSKVEEAVDCYLRAANLFKMSKKWPQAG 60

Query: 61  NAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVAK 120
            AF  A  LHLK   +HDA   FVDA+NCYKKS+P EA+  + +A+EI+TDMGRF + AK
Sbjct: 61  QAFCSAAQLHLKAGARHDAATNFVDASNCYKKSDPNEAVSCLLKAIEIYTDMGRFTVAAK 120

Query: 121 HHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAI 180
            H+NIAE+YE E  D  +A+ HY+ AAD + GEE+ SSANKC++K+A Y+A  +H DKAI
Sbjct: 121 QHQNIAELYETECVDLTRAMQHYEQAADYFRGEESTSSANKCMLKLAQYAAQLEHYDKAI 180

Query: 181 KLYEQL 186
           ++YEQ+
Sbjct: 181 QIYEQI 186

Source: Danaus plexippus

Species: Danaus plexippus

Genus: Danaus

Family: Nymphalidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|321463517|gb|EFX74532.1| hypothetical protein DAPPUDRAFT_188735 [Daphnia pulex]

 Score =  221 bits (562), Expect = 1e-55,   Method: Compositional matrix adjust.
 Identities = 107/187 (57%), Positives = 139/187 (74%), Gaps = 1/187 (0%)

Query: 1   MADNEQKARQLVAEAEKKISSSSKGFFSQFTGGN-KTDEAIDLYVRAGNLFKLGKKWNDG 59
           MADNEQKA QL+AEAEKK++S    F S F GG+ K DEAI+ Y RA NL+K+ KKW+  
Sbjct: 1   MADNEQKAAQLIAEAEKKLNSGKSFFGSLFGGGSSKVDEAIECYQRAANLYKMAKKWSQA 60

Query: 60  GNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVA 119
           G AF +A  LHLK   +HDA   ++DA NCYKKS P EA+  + +A+EI+TDMGRF + A
Sbjct: 61  GQAFCEAAALHLKAAGRHDAATNYIDAGNCYKKSEPNEAVACLLKAIEIYTDMGRFSIAA 120

Query: 120 KHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKA 179
           KHH+ IAEIYE EL D E+A+ HY+ AAD + GEE+ SSANKCL+K+A Y+A  ++  KA
Sbjct: 121 KHHQTIAEIYETELADLERAVQHYEQAADYFKGEESNSSANKCLLKVAQYAAQLENYQKA 180

Query: 180 IKLYEQL 186
           I++YEQ+
Sbjct: 181 IQIYEQV 187

Source: Daphnia pulex

Species: Daphnia pulex

Genus: Daphnia

Family: Daphniidae

Order: Diplostraca

Class: Branchiopoda

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380015858|ref|XP_003691911.1| PREDICTED: soluble NSF attachment protein-like [Apis florea]

 Score =  221 bits (562), Expect = 1e-55,   Method: Compositional matrix adjust.
 Identities = 107/187 (57%), Positives = 143/187 (76%), Gaps = 2/187 (1%)

Query: 1   MADNEQKARQLVAEAEKKISSSSKGFF-SQFTGGNKTDEAIDLYVRAGNLFKLGKKWNDG 59
           MADNEQKA QL+ EAEKK++SS KGFF S F G +K +EA++ Y RA N+FK+ K W+  
Sbjct: 1   MADNEQKAMQLLVEAEKKLTSS-KGFFGSLFGGSSKFEEAVECYQRAANMFKMAKNWSSA 59

Query: 60  GNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVA 119
           G+AF +A  LH K  N+HDA   +VDAANC+KKSN  EAI  + +A+EI+TDMGRF M A
Sbjct: 60  GSAFYEAAELHAKAGNRHDAATSYVDAANCFKKSNINEAISCLLKAIEIYTDMGRFTMAA 119

Query: 120 KHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKA 179
           KHH++IAE+YE E  D E+A+ HY+ AAD + GEE+ SSANKCL+K+A Y+A  ++ +KA
Sbjct: 120 KHHQSIAEMYESEAVDLERAVHHYEQAADYFRGEESNSSANKCLLKVAQYAAQLENYEKA 179

Query: 180 IKLYEQL 186
           I++YEQ+
Sbjct: 180 IQIYEQV 186

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|427781771|gb|JAA56337.1| Putative protein required for fusion of vesicles in vesicular transport alpha-snap [Rhipicephalus pulchellus]

 Score =  220 bits (560), Expect = 2e-55,   Method: Compositional matrix adjust.
 Identities = 103/186 (55%), Positives = 136/186 (73%)

Query: 1   MADNEQKARQLVAEAEKKISSSSKGFFSQFTGGNKTDEAIDLYVRAGNLFKLGKKWNDGG 60
           MADNEQKA QLVA+AEKKI S+     S F   +K +EA ++Y RA N+FK+ KKW+  G
Sbjct: 1   MADNEQKAMQLVADAEKKIKSAQGFLGSLFGSSSKLEEACEMYARAANMFKMAKKWSAAG 60

Query: 61  NAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVAK 120
           +AF +A  LHLKN ++HDA  CFVDA  CYKKS+P EA+    +A+EI+TDMGRF + AK
Sbjct: 61  SAFCEAANLHLKNGSRHDAATCFVDAGTCYKKSDPQEAVNCHLKAIEIYTDMGRFTIAAK 120

Query: 121 HHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAI 180
           HH  IAEIYE E+ D EKA+ HY+ AAD + GEE+ SSANKC++ +A Y+A  +  +KA+
Sbjct: 121 HHMTIAEIYESEIVDIEKAMSHYEQAADYFKGEESTSSANKCMLNVARYAAQLEQYEKAV 180

Query: 181 KLYEQL 186
            +YEQ+
Sbjct: 181 DIYEQV 186

Source: Rhipicephalus pulchellus

Species: Rhipicephalus pulchellus

Genus: Rhipicephalus

Family: Ixodidae

Order: Ixodida

Class: Arachnida

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|157130506|ref|XP_001661903.1| soluble nsf attachment protein (snap) [Aedes aegypti] gi|108871887|gb|EAT36112.1| AAEL011776-PA [Aedes aegypti]

 Score =  219 bits (559), Expect = 3e-55,   Method: Compositional matrix adjust.
 Identities = 103/188 (54%), Positives = 143/188 (76%), Gaps = 3/188 (1%)

Query: 1   MADNEQKARQLVAEAEKKISSSSKGFFSQF--TGGNKTDEAIDLYVRAGNLFKLGKKWND 58
           MADNEQKA QL+AEAEKK++SS KGFF     +G NK +EA++ Y RA N+FK+ KKW  
Sbjct: 1   MADNEQKALQLIAEAEKKLNSS-KGFFGSLFGSGSNKVEEAVECYQRAANMFKMAKKWAQ 59

Query: 59  GGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMV 118
            G+AF +A  LH K  ++HDA   FVDA+NCYKK++P EA+  + +A++I+TDMGRF M 
Sbjct: 60  AGSAFCEAANLHAKAGSRHDAATNFVDASNCYKKTDPNEAVSCLLKAIDIYTDMGRFTMA 119

Query: 119 AKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDK 178
           AKHH++IAE+YE E  D ++A+ HY+ AAD + GEE+ SSANKC++K+A Y+A  +  +K
Sbjct: 120 AKHHQSIAEMYENEANDLQRAVQHYEQAADYFKGEESTSSANKCMLKVAQYAAQLEDYEK 179

Query: 179 AIKLYEQL 186
           AI++YEQ+
Sbjct: 180 AIQIYEQV 187

Source: Aedes aegypti

Species: Aedes aegypti

Genus: Aedes

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|66519254|ref|XP_625208.1| PREDICTED: soluble NSF attachment protein [Apis mellifera]

 Score =  219 bits (558), Expect = 3e-55,   Method: Compositional matrix adjust.
 Identities = 107/187 (57%), Positives = 143/187 (76%), Gaps = 2/187 (1%)

Query: 1   MADNEQKARQLVAEAEKKISSSSKGFF-SQFTGGNKTDEAIDLYVRAGNLFKLGKKWNDG 59
           MADNEQKA QL+ EAEKK++SS KGFF S F G +K +EA++ Y RA N+FK+ K W+  
Sbjct: 1   MADNEQKAMQLLVEAEKKLTSS-KGFFGSLFGGSSKFEEAVECYQRAANMFKMAKNWSSA 59

Query: 60  GNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVA 119
           G+AF +A  LH K  N+HDA   +VDAANC+KKSN  EAI  + +A+EI+TDMGRF M A
Sbjct: 60  GSAFYEAAELHAKAGNRHDAATNYVDAANCFKKSNINEAISCLLKAIEIYTDMGRFTMAA 119

Query: 120 KHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKA 179
           KHH++IAE+YE E  D E+A+ HY+ AAD + GEE+ SSANKCL+K+A Y+A  ++ +KA
Sbjct: 120 KHHQSIAEMYESEAVDLERAVHHYEQAADYFRGEESNSSANKCLLKVAQYAAQLENYEKA 179

Query: 180 IKLYEQL 186
           I++YEQ+
Sbjct: 180 IQIYEQV 186

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307188146|gb|EFN72978.1| Soluble NSF attachment protein [Camponotus floridanus]

 Score =  219 bits (558), Expect = 4e-55,   Method: Compositional matrix adjust.
 Identities = 109/187 (58%), Positives = 142/187 (75%), Gaps = 2/187 (1%)

Query: 1   MADNEQKARQLVAEAEKKISSSSKGFF-SQFTGGNKTDEAIDLYVRAGNLFKLGKKWNDG 59
           MAD+EQKA QLVAEAEKK+SSS KGFF + F   +K +EA++ Y RA N+FK+ KKWN  
Sbjct: 1   MADSEQKALQLVAEAEKKLSSS-KGFFGALFGSSSKVEEAVECYQRAANMFKMAKKWNSA 59

Query: 60  GNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVA 119
           G AF  AG LH K   +HDA   +VDAANC+KKS+  EAI  + +A+EI+TDMGRF M A
Sbjct: 60  GKAFYSAGDLHAKAGGRHDAANNYVDAANCFKKSDTNEAISCLLKAIEIYTDMGRFTMAA 119

Query: 120 KHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKA 179
           KHH++IAEIYE +  D E+A+ HY+ AAD + GEE+ SSANKCL+K+A Y+A  ++ DKA
Sbjct: 120 KHHQSIAEIYESDAVDLERAVHHYEQAADYFRGEESNSSANKCLLKVAQYAAQLENYDKA 179

Query: 180 IKLYEQL 186
           I++YEQ+
Sbjct: 180 IQIYEQV 186

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|58383926|ref|XP_312889.2| AGAP003192-PA [Anopheles gambiae str. PEST] gi|55241566|gb|EAA08389.2| AGAP003192-PA [Anopheles gambiae str. PEST]

 Score =  219 bits (558), Expect = 4e-55,   Method: Compositional matrix adjust.
 Identities = 102/187 (54%), Positives = 143/187 (76%), Gaps = 1/187 (0%)

Query: 1   MADNEQKARQLVAEAEKKISSSSKGFFSQFTGG-NKTDEAIDLYVRAGNLFKLGKKWNDG 59
           MADNEQKA QL+AEAEKK++SS   F S F GG NK +EA++ Y RA N+FK+ KKW+  
Sbjct: 1   MADNEQKAMQLIAEAEKKLNSSKSFFGSLFGGGSNKVEEAVECYQRAANMFKMAKKWSQA 60

Query: 60  GNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVA 119
           G+AF +A  LH K  ++HDA   +VDA+NCYKK++P EA+  + +A++I+TDMGRF M A
Sbjct: 61  GSAFCEAANLHAKAGSRHDAATNYVDASNCYKKTDPNEAVNCLLKAIDIYTDMGRFTMAA 120

Query: 120 KHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKA 179
           KHH++IAE+YE E  D ++A+ HY+ AAD + GEE+ SSANKC++K+A Y+A  +  +KA
Sbjct: 121 KHHQSIAEMYENEANDLQRAVQHYEQAADYFKGEESTSSANKCMLKVAQYAAQLEDYEKA 180

Query: 180 IKLYEQL 186
           I++YEQ+
Sbjct: 181 IQIYEQV 187

Source: Anopheles gambiae str. PEST

Species: Anopheles gambiae

Genus: Anopheles

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383849884|ref|XP_003700564.1| PREDICTED: soluble NSF attachment protein-like [Megachile rotundata]

 Score =  218 bits (556), Expect = 7e-55,   Method: Compositional matrix adjust.
 Identities = 107/187 (57%), Positives = 144/187 (77%), Gaps = 2/187 (1%)

Query: 1   MADNEQKARQLVAEAEKKISSSSKGFF-SQFTGGNKTDEAIDLYVRAGNLFKLGKKWNDG 59
           MADNEQKA QL+AEAEKK++SS KGFF S F G +K +EA++ Y RA N+FK+ K W+  
Sbjct: 1   MADNEQKAMQLIAEAEKKLTSS-KGFFGSLFGGSSKVEEAVECYQRAANMFKMAKNWSSA 59

Query: 60  GNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVA 119
           G+AF +A  LH K  ++HDA   +VDAANC+KKS+  EAI  + +A+EI+TDMGRF M A
Sbjct: 60  GSAFYEAAELHAKAGSRHDAANNYVDAANCFKKSDINEAISCLLKAIEIYTDMGRFTMAA 119

Query: 120 KHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKA 179
           KHH++IAE+YE E  D E+A+ HY+ AAD + GEE+ SSANKCL+K+A Y+A  ++ DKA
Sbjct: 120 KHHQSIAEMYESEAVDLERAVCHYEQAADYFRGEESNSSANKCLLKVAQYAAQLENYDKA 179

Query: 180 IKLYEQL 186
           I++YEQ+
Sbjct: 180 IQIYEQV 186

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

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	186
UNIPROTKB|P54920	295	NAPA "Alpha-soluble NSF attach	0.978	0.616	0.527	3.7e-48
FB|FBgn0250791	292	Snap "Soluble NSF attachment p	1.0	0.636	0.478	9.8e-48
UNIPROTKB|E2RQE7	295	NAPA "Uncharacterized protein"	0.978	0.616	0.521	1.6e-47
UNIPROTKB|F1RLB6	295	NAPA "Uncharacterized protein"	0.978	0.616	0.521	1.6e-47
MGI|MGI:104563	295	Napa "N-ethylmaleimide sensiti	0.978	0.616	0.516	2.6e-47
RGD|620855	295	Napa "N-ethylmaleimide-sensiti	0.978	0.616	0.516	2.6e-47
UNIPROTKB|A5D7S0	295	NAPA "Alpha-soluble NSF attach	0.978	0.616	0.516	5.4e-47
ZFIN|ZDB-GENE-030131-5290	295	napa "N-ethylmaleimide sensiti	0.978	0.616	0.516	6.9e-47
ZFIN|ZDB-GENE-060503-566	295	si:rp71-81o21.2 "si:rp71-81o21	0.978	0.616	0.5	6.9e-47
UNIPROTKB|P81125	295	NAPA "Alpha-soluble NSF attach	0.978	0.616	0.510	1.4e-46

UNIPROTKB|P54920 NAPA "Alpha-soluble NSF attachment protein" [Homo sapiens (taxid:9606)]

 Score = 503 (182.1 bits), Expect = 3.7e-48, P = 3.7e-48
 Identities = 96/182 (52%), Positives = 124/182 (68%)

Query:     5 EQKARQLVAEAEXXXXXXXXXXXXXXXXXNKTDEAIDLYVRAGNLFKLGKKWNDGGNAFL 64
             E +A  L+AEAE                 +K +EA ++Y RA N+FK+ K W+  GNAF 
Sbjct:     7 EAEAMALLAEAERKVKNSQSFFSGLFGGSSKIEEACEIYARAANMFKMAKNWSAAGNAFC 66

Query:    65 QAGTLHLKNNNKHDAGLCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVAKHHEN 124
             QA  LHL+  +KHDA  CFVDA N +KK++P EAI  + RA+EI+TDMGRF + AKHH +
Sbjct:    67 QAAQLHLQLQSKHDAATCFVDAGNAFKKADPQEAINCLMRAIEIYTDMGRFTIAAKHHIS 126

Query:   125 IAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYE 184
             IAEIYE EL D EKAI HY+ +AD Y GEE+ SSANKCL+K+A Y+AL +   KAI +YE
Sbjct:   127 IAEIYETELVDIEKAIAHYEQSADYYKGEESNSSANKCLLKVAGYAALLEQYQKAIDIYE 186

Query:   185 QL 186
             Q+
Sbjct:   187 QV 188

GO:0006886 "intracellular protein transport" evidence=IEA

GO:0007420 "brain development" evidence=IEA

GO:0010807 "regulation of synaptic vesicle priming" evidence=IEA

GO:0019905 "syntaxin binding" evidence=IEA

GO:0030182 "neuron differentiation" evidence=IEA

GO:0035249 "synaptic transmission, glutamatergic" evidence=IEA

GO:0035494 "SNARE complex disassembly" evidence=IEA

GO:0045176 "apical protein localization" evidence=IEA

GO:0070044 "synaptobrevin 2-SNAP-25-syntaxin-1a complex" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0006891 "intra-Golgi vesicle-mediated transport" evidence=TAS

GO:0006944 "cellular membrane fusion" evidence=TAS

GO:0005829 "cytosol" evidence=TAS

GO:0006892 "post-Golgi vesicle-mediated transport" evidence=TAS

GO:0016044 "cellular membrane organization" evidence=TAS

FB|FBgn0250791 Snap "Soluble NSF attachment protein" [Drosophila melanogaster (taxid:7227)]

 Score = 499 (180.7 bits), Expect = 9.8e-48, P = 9.8e-48
 Identities = 89/186 (47%), Positives = 126/186 (67%)

Query:     1 MADNEQKARQLVAEAEXXXXXXXXXXXXXXXXXNKTDEAIDLYVRAGNLFKLGKKWNDGG 60
             M DNEQKA QL+AEAE                 NK ++AI+ Y RAGN+FK+ K W   G
Sbjct:     1 MGDNEQKALQLMAEAEKKLTQQKGFLGSLFGGSNKVEDAIECYQRAGNMFKMSKNWTKAG 60

Query:    61 NAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVAK 120
               F +A TLH +  ++HDAG C+VDA+NCYKK +   A+  + ++++I+TDMGRF M AK
Sbjct:    61 ECFCEAATLHARAGSRHDAGTCYVDASNCYKKVDVESAVNCLMKSIDIYTDMGRFTMAAK 120

Query:   121 HHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAI 180
             HH++IAE+YE +  +  K+I HY+ AAD + GEE+ SSANKC++K+A Y+A  +  +KAI
Sbjct:   121 HHQSIAEMYESDPNNLAKSIQHYEQAADYFKGEESVSSANKCMLKVAQYAAQLEDYEKAI 180

Query:   181 KLYEQL 186
              +YEQ+
Sbjct:   181 SIYEQV 186

GO:0005483 "soluble NSF attachment protein activity" evidence=NAS

GO:0007269 "neurotransmitter secretion" evidence=NAS

GO:0016082 "synaptic vesicle priming" evidence=NAS

GO:0019898 "extrinsic to membrane" evidence=NAS

GO:0006888 "ER to Golgi vesicle-mediated transport" evidence=NAS

GO:0043679 "axon terminus" evidence=IDA

GO:0007268 "synaptic transmission" evidence=IMP

GO:0048526 "imaginal disc-derived wing expansion" evidence=IMP

GO:0001745 "compound eye morphogenesis" evidence=IMP

GO:0000910 "cytokinesis" evidence=IMP

GO:0006911 "phagocytosis, engulfment" evidence=IMP

GO:0006886 "intracellular protein transport" evidence=IMP

GO:0031410 "cytoplasmic vesicle" evidence=IDA

GO:0016020 "membrane" evidence=IDA

GO:0006891 "intra-Golgi vesicle-mediated transport" evidence=IMP

GO:0048812 "neuron projection morphogenesis" evidence=IMP

GO:0031201 "SNARE complex" evidence=IDA

UNIPROTKB|E2RQE7 NAPA "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 497 (180.0 bits), Expect = 1.6e-47, P = 1.6e-47
 Identities = 95/182 (52%), Positives = 123/182 (67%)

Query:     5 EQKARQLVAEAEXXXXXXXXXXXXXXXXXNKTDEAIDLYVRAGNLFKLGKKWNDGGNAFL 64
             E +A  L+AEAE                 +K +EA ++Y RA N+FK+ K W+  GNAF 
Sbjct:     7 EAEAMALLAEAERKVKNSQSFFSGLFGGSSKIEEACEIYTRAANMFKMAKNWSAAGNAFC 66

Query:    65 QAGTLHLKNNNKHDAGLCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVAKHHEN 124
             QA  LHL+  +KHDA  CFVDA N +KK++P EAI  + RA+EI+TDMGRF + AKHH +
Sbjct:    67 QAAQLHLQLQSKHDAATCFVDAGNAFKKADPQEAINCLMRAIEIYTDMGRFTIAAKHHIS 126

Query:   125 IAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYE 184
             IAEIYE EL D EKAI HY+ +AD Y GEE+ SSANKCL+K+A Y+A  +   KAI +YE
Sbjct:   127 IAEIYETELVDIEKAIAHYEQSADYYKGEESNSSANKCLLKVAGYAAQLEQYQKAIDIYE 186

Query:   185 QL 186
             Q+
Sbjct:   187 QV 188

GO:0070044 "synaptobrevin 2-SNAP-25-syntaxin-1a complex" evidence=IEA

GO:0045176 "apical protein localization" evidence=IEA

GO:0035494 "SNARE complex disassembly" evidence=IEA

GO:0035249 "synaptic transmission, glutamatergic" evidence=IEA

GO:0030182 "neuron differentiation" evidence=IEA

GO:0019905 "syntaxin binding" evidence=IEA

GO:0010807 "regulation of synaptic vesicle priming" evidence=IEA

GO:0007420 "brain development" evidence=IEA

GO:0006886 "intracellular protein transport" evidence=IEA

UNIPROTKB|F1RLB6 NAPA "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 497 (180.0 bits), Expect = 1.6e-47, P = 1.6e-47
 Identities = 95/182 (52%), Positives = 123/182 (67%)

Query:     5 EQKARQLVAEAEXXXXXXXXXXXXXXXXXNKTDEAIDLYVRAGNLFKLGKKWNDGGNAFL 64
             E +A  L+AEAE                 +K +EA ++Y RA N+FK+ K W+  GNAF 
Sbjct:     7 EAEAMALLAEAERKVKNSQSFFSGLFGGSSKIEEACEIYARAANMFKMAKNWSAAGNAFC 66

Query:    65 QAGTLHLKNNNKHDAGLCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVAKHHEN 124
             QA  LHL+  +KHDA  CFVDA N +KK++P EAI  + RA+EI+TDMGRF + AKHH +
Sbjct:    67 QAAQLHLQLQSKHDAATCFVDAGNAFKKADPQEAINCLMRAIEIYTDMGRFTIAAKHHIS 126

Query:   125 IAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYE 184
             IAEIYE EL D EKAI HY+ +AD Y GEE+ SSANKCL+K+A Y+A  +   KAI +YE
Sbjct:   127 IAEIYETELVDIEKAIAHYEQSADYYKGEESNSSANKCLLKVAGYAAQLEQYQKAIDIYE 186

Query:   185 QL 186
             Q+
Sbjct:   187 QV 188

GO:0070044 "synaptobrevin 2-SNAP-25-syntaxin-1a complex" evidence=IEA

GO:0045176 "apical protein localization" evidence=IEA

GO:0035494 "SNARE complex disassembly" evidence=IEA

GO:0035249 "synaptic transmission, glutamatergic" evidence=IEA

GO:0030182 "neuron differentiation" evidence=IEA

GO:0019905 "syntaxin binding" evidence=IEA

GO:0010807 "regulation of synaptic vesicle priming" evidence=IEA

GO:0007420 "brain development" evidence=IEA

GO:0006886 "intracellular protein transport" evidence=IEA

MGI|MGI:104563 Napa "N-ethylmaleimide sensitive fusion protein attachment protein alpha" [Mus musculus (taxid:10090)]

 Score = 495 (179.3 bits), Expect = 2.6e-47, P = 2.6e-47
 Identities = 94/182 (51%), Positives = 123/182 (67%)

Query:     5 EQKARQLVAEAEXXXXXXXXXXXXXXXXXNKTDEAIDLYVRAGNLFKLGKKWNDGGNAFL 64
             + +A  L+AEAE                 +K +EA ++Y RA N+FK+ K W+  GNAF 
Sbjct:     7 QAEAMALLAEAERKVKNSQSFFSGLFGGSSKIEEACEIYARAANMFKMAKNWSAAGNAFC 66

Query:    65 QAGTLHLKNNNKHDAGLCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVAKHHEN 124
             QA  LHL+  +KHDA  CFVDA N +KK++P EAI  + RA+EI+TDMGRF + AKHH +
Sbjct:    67 QAAQLHLQLQSKHDAATCFVDAGNAFKKADPQEAINCLMRAIEIYTDMGRFTIAAKHHIS 126

Query:   125 IAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYE 184
             IAEIYE EL D EKAI HY+ +AD Y GEE+ SSANKCL+K+A Y+A  +   KAI +YE
Sbjct:   127 IAEIYETELVDVEKAIAHYEQSADYYKGEESNSSANKCLLKVAGYAAQLEQYQKAIDIYE 186

Query:   185 QL 186
             Q+
Sbjct:   187 QV 188

GO:0000149 "SNARE binding" evidence=ISO

GO:0005515 "protein binding" evidence=IPI

GO:0006810 "transport" evidence=IEA

GO:0006886 "intracellular protein transport" evidence=IMP

GO:0007420 "brain development" evidence=IMP

GO:0010807 "regulation of synaptic vesicle priming" evidence=IGI

GO:0015031 "protein transport" evidence=IEA

GO:0016020 "membrane" evidence=IEA

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

GO:0019905 "syntaxin binding" evidence=IDA

GO:0030182 "neuron differentiation" evidence=IMP

GO:0035249 "synaptic transmission, glutamatergic" evidence=IGI

GO:0035494 "SNARE complex disassembly" evidence=IGI

GO:0045176 "apical protein localization" evidence=IMP

GO:0070044 "synaptobrevin 2-SNAP-25-syntaxin-1a complex" evidence=ISO;IDA

RGD|620855 Napa "N-ethylmaleimide-sensitive factor attachment protein, alpha" [Rattus norvegicus (taxid:10116)]

 Score = 495 (179.3 bits), Expect = 2.6e-47, P = 2.6e-47
 Identities = 94/182 (51%), Positives = 123/182 (67%)

Query:     5 EQKARQLVAEAEXXXXXXXXXXXXXXXXXNKTDEAIDLYVRAGNLFKLGKKWNDGGNAFL 64
             + +A  L+AEAE                 +K +EA ++Y RA N+FK+ K W+  GNAF 
Sbjct:     7 QAEAMALLAEAERKVKNSQSFFSGLFGGSSKIEEACEIYARAANMFKMAKNWSAAGNAFC 66

Query:    65 QAGTLHLKNNNKHDAGLCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVAKHHEN 124
             QA  LHL+  +KHDA  CFVDA N +KK++P EAI  + RA+EI+TDMGRF + AKHH +
Sbjct:    67 QAAQLHLQLQSKHDAATCFVDAGNAFKKADPQEAINCLMRAIEIYTDMGRFTIAAKHHIS 126

Query:   125 IAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYE 184
             IAEIYE EL D EKAI HY+ +AD Y GEE+ SSANKCL+K+A Y+A  +   KAI +YE
Sbjct:   127 IAEIYETELVDVEKAIAHYEQSADYYKGEESNSSANKCLLKVAGYAAQLEQYQKAIDIYE 186

Query:   185 QL 186
             Q+
Sbjct:   187 QV 188

GO:0000149 "SNARE binding" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0006886 "intracellular protein transport" evidence=IEA;ISO

GO:0006944 "cellular membrane fusion" evidence=NAS

GO:0007420 "brain development" evidence=IEA;ISO

GO:0010807 "regulation of synaptic vesicle priming" evidence=IEA;ISO

GO:0019905 "syntaxin binding" evidence=IEA;ISO

GO:0030182 "neuron differentiation" evidence=IEA;ISO

GO:0035249 "synaptic transmission, glutamatergic" evidence=IEA;ISO

GO:0035494 "SNARE complex disassembly" evidence=IEA;ISO

GO:0045176 "apical protein localization" evidence=IEA;ISO

GO:0070044 "synaptobrevin 2-SNAP-25-syntaxin-1a complex" evidence=ISO;IDA

UNIPROTKB|A5D7S0 NAPA "Alpha-soluble NSF attachment protein" [Bos taurus (taxid:9913)]

 Score = 492 (178.3 bits), Expect = 5.4e-47, P = 5.4e-47
 Identities = 94/182 (51%), Positives = 123/182 (67%)

Query:     5 EQKARQLVAEAEXXXXXXXXXXXXXXXXXNKTDEAIDLYVRAGNLFKLGKKWNDGGNAFL 64
             E +A  L+AEAE                 +K +EA ++Y RA N+FK+ K W+  G+AF 
Sbjct:     7 EAEAMALLAEAERKVKNSQSFFSGLFGGSSKIEEACEIYARAANMFKMAKNWSAAGSAFC 66

Query:    65 QAGTLHLKNNNKHDAGLCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVAKHHEN 124
             QA  LHL+  +KHDA  CFVDA N +KK++P EAI  + RA+EI+TDMGRF + AKHH +
Sbjct:    67 QAAQLHLQLQSKHDAATCFVDAGNAFKKADPQEAINCLMRAIEIYTDMGRFTIAAKHHIS 126

Query:   125 IAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYE 184
             IAEIYE EL D EKAI HY+ +AD Y GEE+ SSANKCL+K+A Y+A  +   KAI +YE
Sbjct:   127 IAEIYETELVDIEKAIAHYEQSADYYKGEESNSSANKCLLKVAGYAAQLEQYQKAIDIYE 186

Query:   185 QL 186
             Q+
Sbjct:   187 QV 188

GO:0070044 "synaptobrevin 2-SNAP-25-syntaxin-1a complex" evidence=IEA

GO:0045176 "apical protein localization" evidence=IEA

GO:0035494 "SNARE complex disassembly" evidence=IEA

GO:0035249 "synaptic transmission, glutamatergic" evidence=IEA

GO:0030182 "neuron differentiation" evidence=IEA

GO:0019905 "syntaxin binding" evidence=IEA

GO:0010807 "regulation of synaptic vesicle priming" evidence=IEA

GO:0007420 "brain development" evidence=IEA

GO:0006886 "intracellular protein transport" evidence=IEA

ZFIN|ZDB-GENE-030131-5290 napa "N-ethylmaleimide sensitive fusion protein attachment protein alpha" [Danio rerio (taxid:7955)]

 Score = 491 (177.9 bits), Expect = 6.9e-47, P = 6.9e-47
 Identities = 94/182 (51%), Positives = 123/182 (67%)

Query:     5 EQKARQLVAEAEXXXXXXXXXXXXXXXXXNKTDEAIDLYVRAGNLFKLGKKWNDGGNAFL 64
             E++A  L+AEAE                 +K ++A DLY RA N+FK+ K W+  GNAF 
Sbjct:     7 EKEATALMAEAEKKVKSSQSFFGSLFGGSSKMEDACDLYGRAANMFKMAKNWSAAGNAFS 66

Query:    65 QAGTLHLKNNNKHDAGLCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVAKHHEN 124
             QA  LHL+  +KHDA   F+DA N +KKS+P EAI  + RA+EI+TDMGRF + AKHH  
Sbjct:    67 QAALLHLQMQSKHDAATNFIDAGNAFKKSDPQEAINCLNRAIEIYTDMGRFTIAAKHHVT 126

Query:   125 IAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYE 184
             IAE+YE EL D +KAI HY+ AAD Y GEE+ SSANKCL+K+A Y+A  +   KAI++YE
Sbjct:   127 IAEVYETELVDIDKAIAHYEQAADYYKGEESTSSANKCLLKVATYAAQLEQYPKAIEIYE 186

Query:   185 QL 186
             Q+
Sbjct:   187 QV 188

GO:0006886 "intracellular protein transport" evidence=IEA

ZFIN|ZDB-GENE-060503-566 si:rp71-81o21.2 "si:rp71-81o21.2" [Danio rerio (taxid:7955)]

 Score = 491 (177.9 bits), Expect = 6.9e-47, P = 6.9e-47
 Identities = 91/182 (50%), Positives = 125/182 (68%)

Query:     5 EQKARQLVAEAEXXXXXXXXXXXXXXXXXNKTDEAIDLYVRAGNLFKLGKKWNDGGNAFL 64
             E++A QL+AEA+                 +K +EA ++Y RA N+FK+ K W+  GNAF 
Sbjct:     7 EKEAIQLMAEADKKVKSSGSFLGGMFGGNHKVEEACEMYARAANMFKMAKNWSAAGNAFC 66

Query:    65 QAGTLHLKNNNKHDAGLCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVAKHHEN 124
             QA  +H++  NKHD+   +VDA N +KK++P EAIK +  A++I+TDMGRF + AKHH  
Sbjct:    67 QAARIHMQLQNKHDSATSYVDAGNAFKKADPQEAIKCLNAAIDIYTDMGRFTIAAKHHIT 126

Query:   125 IAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYE 184
             IAE+YE EL D EKAI HY+ AAD Y GEE+ SSANKCL+K+A+YSA  +   KAI++YE
Sbjct:   127 IAEVYESELVDIEKAIAHYEQAADYYKGEESNSSANKCLLKVASYSAQLEQYQKAIEIYE 186

Query:   185 QL 186
             Q+
Sbjct:   187 QV 188

GO:0006886 "intracellular protein transport" evidence=IEA

UNIPROTKB|P81125 NAPA "Alpha-soluble NSF attachment protein" [Bos taurus (taxid:9913)]

 Score = 488 (176.8 bits), Expect = 1.4e-46, P = 1.4e-46
 Identities = 93/182 (51%), Positives = 123/182 (67%)

Query:     5 EQKARQLVAEAEXXXXXXXXXXXXXXXXXNKTDEAIDLYVRAGNLFKLGKKWNDGGNAFL 64
             E +A  L+AEAE                 +K +EA ++Y RA N+FK+ K W+  G+AF 
Sbjct:     7 EAEAMALLAEAERKVKNSQSFFSGLFGGSSKIEEACEIYARAANMFKMAKNWSAAGSAFC 66

Query:    65 QAGTLHLKNNNKHDAGLCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVAKHHEN 124
             QA  +HL+  +KHDA  CFVDA N +KK++P EAI  + RA+EI+TDMGRF + AKHH +
Sbjct:    67 QAAHVHLQLQSKHDAATCFVDAGNAFKKADPQEAINCLMRAIEIYTDMGRFTIAAKHHIS 126

Query:   125 IAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYE 184
             IAEIYE EL D EKAI HY+ +AD Y GEE+ SSANKCL+K+A Y+A  +   KAI +YE
Sbjct:   127 IAEIYETELVDIEKAIAHYEQSADYYKGEESNSSANKCLLKVAGYAAQLEQYQKAIDIYE 186

Query:   185 QL 186
             Q+
Sbjct:   187 QV 188

GO:0016020 "membrane" evidence=IEA

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

GO:0006886 "intracellular protein transport" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
P93798	SNAA_VITVI	No assigned EC number	0.3924	0.9569	0.6159	yes	N/A
P54920	SNAA_HUMAN	No assigned EC number	0.5529	0.9139	0.5762	yes	N/A
Q75D68	SEC17_ASHGO	No assigned EC number	0.3681	0.9623	0.6151	yes	N/A
P32602	SEC17_YEAST	No assigned EC number	0.3666	0.9462	0.6027	yes	N/A
P85969	SNAB_RAT	No assigned EC number	0.5135	0.9892	0.6195	yes	N/A
Q54NP6	SNAA_DICDI	No assigned EC number	0.4239	0.9677	0.6185	yes	N/A
Q9P4X4	SEC17_SCHPO	No assigned EC number	0.3389	0.9408	0.6055	yes	N/A
Q23983	SNAP_DROME	No assigned EC number	0.5187	0.9946	0.6335	yes	N/A
P28663	SNAB_MOUSE	No assigned EC number	0.5189	0.9946	0.6208	yes	N/A
P81126	SNAB_BOVIN	No assigned EC number	0.5135	0.9946	0.6208	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

No hit with e-value below 0.005

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	186
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	100.0
KOG1586|consensus	288		99.98
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	99.84
KOG1585|consensus	308		99.83
KOG1840|consensus	508		99.62
KOG1586|consensus	288		99.6
KOG4626|consensus	966		99.57
KOG1840|consensus	508		99.55
KOG1130|consensus	639		99.55
KOG4626|consensus	966		99.54
KOG1585|consensus	308		99.51
KOG1130|consensus	639		99.42
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.37
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	99.37
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.35
KOG1155|consensus	559		99.35
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.33
KOG1126|consensus	638		99.27
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.25
KOG2003|consensus	840		99.22
KOG1173|consensus	611		99.22
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	99.22
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.21
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.2
KOG1155|consensus	559		99.2
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.2
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	99.17
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.16
KOG1126|consensus	638		99.14
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.12
PRK12370	553	invasion protein regulator; Provisional	99.08
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.07
PRK15359	144	type III secretion system chaperone protein SscB;	99.07
PRK11189	296	lipoprotein NlpI; Provisional	99.07
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	99.07
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.06
PRK11189	296	lipoprotein NlpI; Provisional	99.06
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.05
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.05
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.01
PRK15359	144	type III secretion system chaperone protein SscB;	99.01
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	98.99
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	98.98
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.98
KOG2003|consensus	840		98.96
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.96
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	98.95
PRK12370	553	invasion protein regulator; Provisional	98.95
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.92
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	98.91
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.91
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	98.9
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.86
PRK04841	903	transcriptional regulator MalT; Provisional	98.84
KOG0553|consensus	304		98.78
KOG1173|consensus	611		98.77
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.77
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.77
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.76
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.75
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.75
KOG1941|consensus	518		98.75
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	98.74
KOG2002|consensus	1018		98.74
KOG1941|consensus	518		98.73
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	98.73
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	98.72
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.72
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	98.71
KOG0553|consensus	304		98.67
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.67
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	98.66
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	98.66
PRK04841	903	transcriptional regulator MalT; Provisional	98.66
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	98.65
KOG1125|consensus	579		98.65
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.65
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.65
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.65
KOG1129|consensus	478		98.65
KOG2002|consensus	1018		98.64
KOG0547|consensus	606		98.64
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.64
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.64
KOG1125|consensus	579		98.61
KOG2076|consensus	895		98.57
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.56
KOG1129|consensus	478		98.55
PRK10803	263	tol-pal system protein YbgF; Provisional	98.54
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.53
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	98.52
KOG0543|consensus	397		98.49
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.48
PRK10803	263	tol-pal system protein YbgF; Provisional	98.47
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.45
PRK14574	822	hmsH outer membrane protein; Provisional	98.45
KOG0547|consensus	606		98.43
KOG2076|consensus	895		98.4
PLN02789	320	farnesyltranstransferase	98.38
PF12688	120	TPR_5: Tetratrico peptide repeat	98.36
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	98.34
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.33
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.3
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.3
PF09986	214	DUF2225: Uncharacterized protein conserved in bact	98.28
PRK14574	822	hmsH outer membrane protein; Provisional	98.26
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	98.25
KOG4234|consensus	271		98.25
KOG3060|consensus	289		98.24
KOG0548|consensus	539		98.23
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	98.21
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	98.2
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	98.18
KOG0548|consensus	539		98.16
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.15
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.15
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	98.14
KOG3616|consensus	1636		98.13
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	98.12
KOG0543|consensus	397		98.08
KOG3616|consensus	1636		98.07
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.07
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	98.06
PF12862	94	Apc5: Anaphase-promoting complex subunit 5	98.04
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	98.0
PRK15331	165	chaperone protein SicA; Provisional	97.98
KOG4162|consensus	799		97.96
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	97.94
PF13371	73	TPR_9: Tetratricopeptide repeat	97.93
KOG3617|consensus	1416		97.93
PLN02789	320	farnesyltranstransferase	97.92
PLN03218	1060	maturation of RBCL 1; Provisional	97.88
PF12688	120	TPR_5: Tetratrico peptide repeat	97.87
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	97.86
KOG3060|consensus	289		97.86
KOG1128|consensus	777		97.85
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	97.79
KOG1127|consensus	1238		97.76
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	97.76
PLN03218	1060	maturation of RBCL 1; Provisional	97.75
KOG4555|consensus	175		97.74
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	97.73
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	97.73
PF09986	214	DUF2225: Uncharacterized protein conserved in bact	97.73
KOG0550|consensus	486		97.71
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	97.7
PRK14720	906	transcript cleavage factor/unknown domain fusion p	97.7
KOG2376|consensus	652		97.69
KOG1156|consensus	700		97.67
KOG0550|consensus	486		97.66
KOG4555|consensus	175		97.66
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	97.61
KOG4234|consensus	271		97.61
KOG1174|consensus	564		97.6
PLN03077	857	Protein ECB2; Provisional	97.59
KOG1128|consensus	777		97.57
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	97.57
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.56
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	97.55
PF12862	94	Apc5: Anaphase-promoting complex subunit 5	97.55
PF11817	247	Foie-gras_1: Foie gras liver health family 1; Inte	97.54
COG0457	291	NrfG FOG: TPR repeat [General function prediction	97.53
PF04190	260	DUF410: Protein of unknown function (DUF410) ; Int	97.48
PF13431	34	TPR_17: Tetratricopeptide repeat	97.48
KOG4340|consensus	459		97.46
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	97.43
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	97.41
KOG4642|consensus	284		97.41
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.41
PF13371	73	TPR_9: Tetratricopeptide repeat	97.4
KOG3617|consensus	1416		97.35
PF12968	144	DUF3856: Domain of Unknown Function (DUF3856); Int	97.34
COG4783	484	Putative Zn-dependent protease, contains TPR repea	97.34
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	97.34
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	97.32
KOG1174|consensus	564		97.3
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.28
COG4105	254	ComL DNA uptake lipoprotein [General function pred	97.26
PRK15331	165	chaperone protein SicA; Provisional	97.24
PLN03077	857	Protein ECB2; Provisional	97.21
KOG3785|consensus	557		97.21
COG4783	484	Putative Zn-dependent protease, contains TPR repea	97.2
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.19
KOG0624|consensus	504		97.18
KOG1127|consensus	1238		97.17
PF13428	44	TPR_14: Tetratricopeptide repeat	97.16
KOG0495|consensus	913		97.12
KOG0495|consensus	913		97.1
PF11817	247	Foie-gras_1: Foie gras liver health family 1; Inte	97.08
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	97.08
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	97.06
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	97.03
COG0457	291	NrfG FOG: TPR repeat [General function prediction	97.03
PF13512	142	TPR_18: Tetratricopeptide repeat	97.0
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.99
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.92
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	96.88
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	96.85
KOG1156|consensus	700		96.85
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	96.85
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	96.84
KOG2300|consensus	629		96.82
KOG0551|consensus	390		96.8
KOG0624|consensus	504		96.78
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	96.73
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	96.68
KOG4162|consensus	799		96.67
KOG4648|consensus	536		96.65
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	96.46
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	96.42
PF12968	144	DUF3856: Domain of Unknown Function (DUF3856); Int	96.38
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	96.38
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	96.35
KOG1070|consensus	1710		96.34
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	96.31
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	96.31
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	96.29
PF13431	34	TPR_17: Tetratricopeptide repeat	96.28
PRK11906	458	transcriptional regulator; Provisional	96.27
KOG2376|consensus	652		96.26
COG0790	292	FOG: TPR repeat, SEL1 subfamily [General function	96.26
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	96.15
PF04190	260	DUF410: Protein of unknown function (DUF410) ; Int	96.07
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	96.07
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	95.94
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	95.9
KOG1839|consensus	1236		95.84
KOG2047|consensus	835		95.8
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	95.76
KOG0545|consensus	329		95.72
PF13512	142	TPR_18: Tetratricopeptide repeat	95.71
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	95.71
KOG2610|consensus	491		95.69
KOG3785|consensus	557		95.68
COG4700	251	Uncharacterized protein conserved in bacteria cont	95.64
KOG0551|consensus	390		95.63
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	95.57
KOG2041|consensus	1189		95.5
COG0790	292	FOG: TPR repeat, SEL1 subfamily [General function	95.49
PF10516	38	SHNi-TPR: SHNi-TPR; InterPro: IPR019544 The tetrat	95.48
PF13428	44	TPR_14: Tetratricopeptide repeat	95.47
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	95.31
PF10516	38	SHNi-TPR: SHNi-TPR; InterPro: IPR019544 The tetrat	95.21
KOG2047|consensus	835		95.13
PF08626	1185	TRAPPC9-Trs120: Transport protein Trs120 or TRAPPC	95.1
KOG2796|consensus	366		95.02
KOG3024|consensus	312		95.01
KOG2471|consensus	696		95.01
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	94.94
KOG4814|consensus	872		94.88
KOG4642|consensus	284		94.85
KOG1070|consensus	1710		94.74
KOG2300|consensus	629		94.53
KOG1550|consensus	552		94.51
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	94.5
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	94.46
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	94.43
PF03704	146	BTAD: Bacterial transcriptional activator domain;	94.35
KOG4340|consensus	459		94.22
KOG1550|consensus	552		94.2
COG5091	368	SGT1 Suppressor of G2 allele of skp1 and related p	94.14
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	94.12
KOG3081|consensus	299		94.06
KOG2581|consensus	493		93.9
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	93.9
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	93.83
KOG4507|consensus	886		93.73
KOG1538|consensus	1081		93.36
cd02681	76	MIT_calpain7_1 MIT: domain contained within Microt	93.28
KOG4648|consensus	536		93.25
KOG4507|consensus	886		93.17
COG4700	251	Uncharacterized protein conserved in bacteria cont	92.82
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	92.76
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	92.74
KOG2796|consensus	366		92.74
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	92.7
KOG1308|consensus	377		92.56
KOG1497|consensus	399		92.46
COG4105	254	ComL DNA uptake lipoprotein [General function pred	92.46
KOG1497|consensus	399		92.45
KOG4521|consensus	1480		92.34
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	92.01
PRK11906	458	transcriptional regulator; Provisional	91.91
cd02682	75	MIT_AAA_Arch MIT: domain contained within Microtub	91.9
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	91.89
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	91.57
COG5159	421	RPN6 26S proteasome regulatory complex component [	91.5
PF04212	69	MIT: MIT (microtubule interacting and transport) d	91.45
KOG4814|consensus	872		90.97
KOG2114|consensus	933		90.92
KOG1464|consensus	440		90.77
cd02680	75	MIT_calpain7_2 MIT: domain contained within Microt	90.76
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	90.72
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	90.69
KOG1915|consensus	677		90.55
PF10373	278	EST1_DNA_bind: Est1 DNA/RNA binding domain; InterP	90.53
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	90.46
PF10952	140	DUF2753: Protein of unknown function (DUF2753); In	90.42
PF12739	414	TRAPPC-Trs85: ER-Golgi trafficking TRAPP I complex	90.37
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	90.29
cd02680	75	MIT_calpain7_2 MIT: domain contained within Microt	90.28
PF12854	34	PPR_1: PPR repeat	90.25
cd02682	75	MIT_AAA_Arch MIT: domain contained within Microtub	90.02
cd02683	77	MIT_1 MIT: domain contained within Microtubule Int	89.8
PF04212	69	MIT: MIT (microtubule interacting and transport) d	89.8
cd02683	77	MIT_1 MIT: domain contained within Microtubule Int	89.64
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	89.63
PRK13184	932	pknD serine/threonine-protein kinase; Reviewed	89.17
KOG2471|consensus	696		88.99
cd02681	76	MIT_calpain7_1 MIT: domain contained within Microt	88.5
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	88.28
COG5159	421	RPN6 26S proteasome regulatory complex component [	88.12
cd02684	75	MIT_2 MIT: domain contained within Microtubule Int	87.47
KOG1839|consensus	1236		87.07
cd02678	75	MIT_VPS4 MIT: domain contained within Microtubule	86.85
cd02679	79	MIT_spastin MIT: domain contained within Microtubu	86.7
PF14853	53	Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repe	86.65
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	86.51
KOG4014|consensus	248		86.48
COG3629	280	DnrI DNA-binding transcriptional activator of the	86.1
KOG0545|consensus	329		86.04
KOG0686|consensus	466		85.96
KOG3824|consensus	472		85.95
KOG3081|consensus	299		85.92
KOG1915|consensus	677		85.57
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	85.39
PF14853	53	Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repe	85.38
KOG1920|consensus	1265		85.05
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	85.0
KOG1914|consensus	656		84.93
smart00745	77	MIT Microtubule Interacting and Trafficking molecu	84.81
PF15015	569	NYD-SP12_N: Spermatogenesis-associated, N-terminal	84.39
cd02656	75	MIT MIT: domain contained within Microtubule Inter	84.03
KOG2053|consensus	932		83.72
cd02677	75	MIT_SNX15 MIT: domain contained within Microtubule	83.66
KOG1463|consensus	411		83.03
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	82.85
KOG0376|consensus	476		82.46
KOG2053|consensus	932		82.09
PF07720	36	TPR_3: Tetratricopeptide repeat; InterPro: IPR0117	82.06
smart00745	77	MIT Microtubule Interacting and Trafficking molecu	81.76
PF04781	111	DUF627: Protein of unknown function (DUF627); Inte	81.74
KOG0686|consensus	466		81.6
cd02678	75	MIT_VPS4 MIT: domain contained within Microtubule	81.56
KOG1464|consensus	440		81.46
PF00244	236	14-3-3: 14-3-3 protein; InterPro: IPR023410 The 14	81.05
cd02656	75	MIT MIT: domain contained within Microtubule Inter	80.66
cd02684	75	MIT_2 MIT: domain contained within Microtubule Int	80.37
PRK10941	269	hypothetical protein; Provisional	80.34
cd02677	75	MIT_SNX15 MIT: domain contained within Microtubule	80.14

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=100.00  E-value=2.2e-32  Score=216.72  Aligned_cols=179  Identities=45%  Similarity=0.703  Sum_probs=160.2

Q ss_pred             HhHHHHHHHHHHhhccCCCCccccccC--CCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHH
Q psy5288           6 QKARQLVAEAEKKISSSSKGFFSQFTG--GNKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCF   83 (186)
Q Consensus         6 ~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~   83 (186)
                      ++|++++++|+|.++ ++.|||+ +|+  +++|++|+++|.+||+.|+..|++++|+++|.++++++.+++++..++.+|
T Consensus         1 ~~a~~l~~~Aek~lk-~~~~~~~-~f~~~~~~~e~Aa~~y~~Aa~~fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~   78 (282)
T PF14938_consen    1 QEAEELIKEAEKKLK-KSSGFFS-FFGSKKPDYEEAADLYEKAANCFKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAY   78 (282)
T ss_dssp             -HHHHHHHHHHHHCS----TCCC-HH--SCHHHHHHHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHH
T ss_pred             CCHHHHHHHHHHHhc-cccchhh-hcCCCCCCHHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            479999999999999 6567884 674  469999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHH
Q psy5288          84 VDAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCL  163 (186)
Q Consensus        84 ~~a~~~y~~~~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~  163 (186)
                      .+++.+|.+.++++|+++|++|++++...|++..++.++.++|.+|+..+|++++|+++|++|+++++..+.+.....++
T Consensus        79 ~~Aa~~~k~~~~~~Ai~~~~~A~~~y~~~G~~~~aA~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~  158 (282)
T PF14938_consen   79 EEAANCYKKGDPDEAIECYEKAIEIYREAGRFSQAAKCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECL  158 (282)
T ss_dssp             HHHHHHHHHTTHHHHHHHHHHHHHHHHHCT-HHHHHHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHH
T ss_pred             HHHHHHHHhhCHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHH
Confidence            99999999999999999999999999999999999999999999999844899999999999999999999999999999


Q ss_pred             HHHHHHHHhccCHHHHHHHHHhC
Q psy5288         164 IKIANYSALTDHLDKAIKLYEQL  186 (186)
Q Consensus       164 ~~la~~y~~~g~~~~A~~~~~~~  186 (186)
                      .++|.++.++|+|++|++.|+++
T Consensus       159 ~~~A~l~~~l~~y~~A~~~~e~~  181 (282)
T PF14938_consen  159 LKAADLYARLGRYEEAIEIYEEV  181 (282)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHH
Confidence            99999999999999999999864

>KOG1586|consensus

Probab=99.98  E-value=9.6e-31  Score=195.56  Aligned_cols=178  Identities=56%  Similarity=0.921  Sum_probs=169.9

Q ss_pred             HhHHHHHHHHHHhhccCCCCcccccc-CCCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHH
Q psy5288           6 QKARQLVAEAEKKISSSSKGFFSQFT-GGNKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFV   84 (186)
Q Consensus         6 ~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~   84 (186)
                      .+|..++++|+|.++ ++.||.  +| +++++++|+++|.++++.|+..++++.|..+|.++++++.+.|+.+.++.+|-
T Consensus         2 ~~a~~l~k~AEkK~~-~s~gF~--lfgg~~k~eeAadl~~~Aan~yklaK~w~~AG~aflkaA~~h~k~~skhDaat~Yv   78 (288)
T KOG1586|consen    2 SDAVQLMKKAEKKLN-GSGGFL--LFGGSNKYEEAAELYERAANMYKLAKNWSAAGDAFLKAADLHLKAGSKHDAATTYV   78 (288)
T ss_pred             ccHHHHHHHHHHhcc-cCCccc--ccCCCcchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhcCCchhHHHHHH
Confidence            478899999999999 777876  45 88999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHH
Q psy5288          85 DAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLI  164 (186)
Q Consensus        85 ~a~~~y~~~~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~  164 (186)
                      +++.||++.++.+|++|+++|++|++..|++..+|..+..||.+|++.|.++++||.+|++|.++|........++.|++
T Consensus        79 eA~~cykk~~~~eAv~cL~~aieIyt~~Grf~~aAk~~~~iaEiyEsdl~d~ekaI~~YE~Aae~yk~ees~ssANKC~l  158 (288)
T KOG1586|consen   79 EAANCYKKVDPEEAVNCLEKAIEIYTDMGRFTMAAKHHIEIAEIYESDLQDFEKAIAHYEQAAEYYKGEESVSSANKCLL  158 (288)
T ss_pred             HHHHHhhccChHHHHHHHHHHHHHHHhhhHHHHHHhhhhhHHHHHhhhHHHHHHHHHHHHHHHHHHcchhhhhhHHHHHH
Confidence            99999999999999999999999999999999999999999999999889999999999999999998877788889999


Q ss_pred             HHHHHHHhccCHHHHHHHHHhC
Q psy5288         165 KIANYSALTDHLDKAIKLYEQL  186 (186)
Q Consensus       165 ~la~~y~~~g~~~~A~~~~~~~  186 (186)
                      +.|..-..+++|.+||..|++|
T Consensus       159 KvA~yaa~leqY~~Ai~iyeqv  180 (288)
T KOG1586|consen  159 KVAQYAAQLEQYSKAIDIYEQV  180 (288)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999875

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=99.84  E-value=1.8e-18  Score=137.13  Aligned_cols=169  Identities=20%  Similarity=0.240  Sum_probs=141.4

Q ss_pred             hHHhHHHHHHHHHHhhccCCCCccccccCCCCHHHHHHHHHHHHHH--------------------HHhcCCHHHHHHHH
Q psy5288           4 NEQKARQLVAEAEKKISSSSKGFFSQFTGGNKTDEAIDLYVRAGNL--------------------FKLGKKWNDGGNAF   63 (186)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~A~~~y~~ag~~--------------------~~~~g~~~~A~~~y   63 (186)
                      +.++|.++..+|.++++           ..++|++|.++|.+++.+                    |+.. ++++|+++|
T Consensus        30 ~~e~Aa~~y~~Aa~~fk-----------~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~k~~-~~~~Ai~~~   97 (282)
T PF14938_consen   30 DYEEAADLYEKAANCFK-----------LAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCYKKG-DPDEAIECY   97 (282)
T ss_dssp             HHHHHHHHHHHHHHHHH-----------HTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHT-THHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHH-----------HHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhh-CHHHHHHHH
Confidence            56899999999999998           235777777777777554                    4443 788899999


Q ss_pred             HHHHHHHHHcCChhHHHHHHHHHHHHHhcC--CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHH
Q psy5288          64 LQAGTLHLKNNNKHDAGLCFVDAANCYKKS--NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAID  141 (186)
Q Consensus        64 ~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~--~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~  141 (186)
                      .+|++++...|++..++.++.++|.+|...  ++++|+++|++|++++...+.+..+..++.++|.++.. +|+|++|++
T Consensus        98 ~~A~~~y~~~G~~~~aA~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~-l~~y~~A~~  176 (282)
T PF14938_consen   98 EKAIEIYREAGRFSQAAKCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYAR-LGRYEEAIE  176 (282)
T ss_dssp             HHHHHHHHHCT-HHHHHHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHH-TT-HHHHHH
T ss_pred             HHHHHHHHhcCcHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHH-hCCHHHHHH
Confidence            999999999999999999999999999886  99999999999999999999999999999999999999 599999999


Q ss_pred             HHHHHHHHHhccC-ChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         142 HYQHAADCYAGEE-NKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       142 ~y~kA~~l~~~~~-~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      .|++.+....+.+ ........+.+.+.++...||+..|.+.|++
T Consensus       177 ~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~  221 (282)
T PF14938_consen  177 IYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALER  221 (282)
T ss_dssp             HHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred             HHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            9999998765544 3445667888999999999999999998875

>KOG1585|consensus

Probab=99.83  E-value=1.7e-18  Score=130.85  Aligned_cols=174  Identities=20%  Similarity=0.220  Sum_probs=154.6

Q ss_pred             CCchHHhHHHHHHHHHHhhccCCCCccccccCCCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHH
Q psy5288           1 MADNEQKARQLVAEAEKKISSSSKGFFSQFTGGNKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAG   80 (186)
Q Consensus         1 ~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa   80 (186)
                      ||+.   +...+.+|..++.   ..- +  -++++|+-|+..|++++..|+...+|++|..|..+|.+.+....++..++
T Consensus         1 MS~~---aakki~ea~e~~a---~t~-~--~wkad~dgaas~yekAAvafRnAk~feKakdcLlkA~~~yEnnrslfhAA   71 (308)
T KOG1585|consen    1 MSSD---AAKKISEADEMTA---LTL-T--RWKADWDGAASLYEKAAVAFRNAKKFEKAKDCLLKASKGYENNRSLFHAA   71 (308)
T ss_pred             CCcc---HHHHHHHHHHHHH---HHh-h--ccCCCchhhHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHhcccHHHHH
Confidence            5554   3455666666655   221 0  14689999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHH
Q psy5288          81 LCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSA  159 (186)
Q Consensus        81 ~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~  159 (186)
                      .+|..++-+.++. .+.+++.+|++|..+|.+.|.++-++-.+.+.|.+.++  -+++.|++.|++++.+++..+.-..+
T Consensus        72 KayEqaamLake~~klsEvvdl~eKAs~lY~E~GspdtAAmaleKAak~len--v~Pd~AlqlYqralavve~~dr~~ma  149 (308)
T KOG1585|consen   72 KAYEQAAMLAKELSKLSEVVDLYEKASELYVECGSPDTAAMALEKAAKALEN--VKPDDALQLYQRALAVVEEDDRDQMA  149 (308)
T ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhc--CCHHHHHHHHHHHHHHHhccchHHHH
Confidence            9999999998887 89999999999999999999999999999999999998  59999999999999999998888888


Q ss_pred             HHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         160 NKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       160 ~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ...+..++.+|+++.+|++|...|.+
T Consensus       150 ~el~gk~sr~lVrl~kf~Eaa~a~lK  175 (308)
T KOG1585|consen  150 FELYGKCSRVLVRLEKFTEAATAFLK  175 (308)
T ss_pred             HHHHHHhhhHhhhhHHhhHHHHHHHH
Confidence            88999999999999999999887764

>KOG1840|consensus

Probab=99.62  E-value=2.2e-13  Score=114.87  Aligned_cols=171  Identities=22%  Similarity=0.214  Sum_probs=144.2

Q ss_pred             HhHHHHHHHHHHhhccCCCCccccccCCCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH-cC-ChhHHHHHH
Q psy5288           6 QKARQLVAEAEKKISSSSKGFFSQFTGGNKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLK-NN-NKHDAGLCF   83 (186)
Q Consensus         6 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~-~~-~~~~aa~~~   83 (186)
                      ++|+.+.+.|-+.+.   .+|     + .+...-..+....|.+|..++++.+|+..|++|+.+... .| +....+..+
T Consensus       216 e~A~~l~k~Al~~l~---k~~-----G-~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~~va~~l  286 (508)
T KOG1840|consen  216 EKAEPLCKQALRILE---KTS-----G-LKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDHPAVAATL  286 (508)
T ss_pred             HHHHHHHHHHHHHHH---Hcc-----C-ccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCCHHHHHHH
Confidence            577888888877776   332     1 245556666667899999999999999999999999986 33 455678899


Q ss_pred             HHHHHHHhcC-CHHHHHHHHHHHHHHHHHc--CChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhcc--CChHH
Q psy5288          84 VDAANCYKKS-NPAEAIKAIERAVEIHTDM--GRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGE--ENKSS  158 (186)
Q Consensus        84 ~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~--~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~--~~~~~  158 (186)
                      .+++..|-.. ++++|..++++|++|+...  .+++.++..+.+++.++..+ +++++|+.+|++++.++.+.  ...+.
T Consensus       287 ~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~-~~~Eea~~l~q~al~i~~~~~g~~~~~  365 (508)
T KOG1840|consen  287 NNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSM-NEYEEAKKLLQKALKIYLDAPGEDNVN  365 (508)
T ss_pred             HHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHh-cchhHHHHHHHHHHHHHHhhccccchH
Confidence            9999999876 9999999999999999774  47789999999999999996 99999999999999998852  24446


Q ss_pred             HHHHHHHHHHHHHhccCHHHHHHHHHhC
Q psy5288         159 ANKCLIKIANYSALTDHLDKAIKLYEQL  186 (186)
Q Consensus       159 ~~~~~~~la~~y~~~g~~~~A~~~~~~~  186 (186)
                      .+.++.+||.+|...|+|++|.+.|+++
T Consensus       366 ~a~~~~nl~~l~~~~gk~~ea~~~~k~a  393 (508)
T KOG1840|consen  366 LAKIYANLAELYLKMGKYKEAEELYKKA  393 (508)
T ss_pred             HHHHHHHHHHHHHHhcchhHHHHHHHHH
Confidence            6789999999999999999999999763

>KOG1586|consensus

Probab=99.60  E-value=2.5e-13  Score=102.49  Aligned_cols=180  Identities=20%  Similarity=0.203  Sum_probs=137.0

Q ss_pred             chHHhHHHHHHHHHHhhccCC------CCcc---ccccCCCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHc
Q psy5288           3 DNEQKARQLVAEAEKKISSSS------KGFF---SQFTGGNKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKN   73 (186)
Q Consensus         3 ~~~~~~~~~~~~a~~~~~~~~------~~~~---~~~~~~~~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~   73 (186)
                      +-.++|.+|..+|...++..+      ..|.   ..-...++-+++++.|..+++.|++. ++++|++|.+++.+|+-..
T Consensus        28 ~k~eeAadl~~~Aan~yklaK~w~~AG~aflkaA~~h~k~~skhDaat~YveA~~cykk~-~~~eAv~cL~~aieIyt~~  106 (288)
T KOG1586|consen   28 NKYEEAAELYERAANMYKLAKNWSAAGDAFLKAADLHLKAGSKHDAATTYVEAANCYKKV-DPEEAVNCLEKAIEIYTDM  106 (288)
T ss_pred             cchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcc-ChHHHHHHHHHHHHHHHhh
Confidence            445899999999988877321      1111   00012345556666777777777765 8999999999999999999


Q ss_pred             CChhHHHHHHHHHHHHHhcC--CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHh
Q psy5288          74 NNKHDAGLCFVDAANCYKKS--NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYA  151 (186)
Q Consensus        74 ~~~~~aa~~~~~a~~~y~~~--~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~  151 (186)
                      |+...++.++.++|++|..-  ++.+|+.+|++|.+.+........+..|+.+.+..-.. +++|.+||..|++...-.-
T Consensus       107 Grf~~aAk~~~~iaEiyEsdl~d~ekaI~~YE~Aae~yk~ees~ssANKC~lKvA~yaa~-leqY~~Ai~iyeqva~~s~  185 (288)
T KOG1586|consen  107 GRFTMAAKHHIEIAEIYESDLQDFEKAIAHYEQAAEYYKGEESVSSANKCLLKVAQYAAQ-LEQYSKAIDIYEQVARSSL  185 (288)
T ss_pred             hHHHHHHhhhhhHHHHHhhhHHHHHHHHHHHHHHHHHHcchhhhhhHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHhc
Confidence            99999999999999999865  89999999999999999999889999999999998777 7999999999999888655


Q ss_pred             ccC-ChHHHHHHHHHHHHHHHhccCH---HHHHHHHH
Q psy5288         152 GEE-NKSSANKCLIKIANYSALTDHL---DKAIKLYE  184 (186)
Q Consensus       152 ~~~-~~~~~~~~~~~la~~y~~~g~~---~~A~~~~~  184 (186)
                      +++ .......++..-|.++.-..|.   ..|++-|+
T Consensus       186 ~n~LLKys~KdyflkAgLChl~~~D~v~a~~ALeky~  222 (288)
T KOG1586|consen  186 DNNLLKYSAKDYFLKAGLCHLCKADEVNAQRALEKYQ  222 (288)
T ss_pred             cchHHHhHHHHHHHHHHHHhHhcccHHHHHHHHHHHH
Confidence            443 2234446778888888775554   44444443

>KOG4626|consensus

Probab=99.57  E-value=5.7e-14  Score=118.25  Aligned_cols=135  Identities=24%  Similarity=0.304  Sum_probs=80.6

Q ss_pred             CCCCHHHHHHHHHHH--------------HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHH
Q psy5288          32 GGNKTDEAIDLYVRA--------------GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPA   96 (186)
Q Consensus        32 ~~~~~~~A~~~y~~a--------------g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~   96 (186)
                      ..|..|-|+++|.++              ++..+..|+..+|.+||.+++.+.     |. .+.+..++|.+|.+. ..+
T Consensus       298 eqG~ldlAI~~Ykral~~~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~-----p~-hadam~NLgni~~E~~~~e  371 (966)
T KOG4626|consen  298 EQGLLDLAIDTYKRALELQPNFPDAYNNLANALKDKGSVTEAVDCYNKALRLC-----PN-HADAMNNLGNIYREQGKIE  371 (966)
T ss_pred             ccccHHHHHHHHHHHHhcCCCchHHHhHHHHHHHhccchHHHHHHHHHHHHhC-----Cc-cHHHHHHHHHHHHHhccch
Confidence            335556666665555              445566666666666666666652     22 234455666666655 666


Q ss_pred             HHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCH
Q psy5288          97 EAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHL  176 (186)
Q Consensus        97 ~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~  176 (186)
                      +|.+.|++|++++...      +..+.+||.+|.++ |++++|+.+|++|+.|-+.      .++.+.|+|++|...|+.
T Consensus       372 ~A~~ly~~al~v~p~~------aaa~nNLa~i~kqq-gnl~~Ai~~YkealrI~P~------fAda~~NmGnt~ke~g~v  438 (966)
T KOG4626|consen  372 EATRLYLKALEVFPEF------AAAHNNLASIYKQQ-GNLDDAIMCYKEALRIKPT------FADALSNMGNTYKEMGDV  438 (966)
T ss_pred             HHHHHHHHHHhhChhh------hhhhhhHHHHHHhc-ccHHHHHHHHHHHHhcCch------HHHHHHhcchHHHHhhhH
Confidence            6777777766665444      44666667776665 6777777777766666432      235556666666666666


Q ss_pred             HHHHHHHHh
Q psy5288         177 DKAIKLYEQ  185 (186)
Q Consensus       177 ~~A~~~~~~  185 (186)
                      +.|+..|++
T Consensus       439 ~~A~q~y~r  447 (966)
T KOG4626|consen  439 SAAIQCYTR  447 (966)
T ss_pred             HHHHHHHHH
Confidence            666655544

>KOG1840|consensus

Probab=99.55  E-value=1.5e-12  Score=109.86  Aligned_cols=172  Identities=19%  Similarity=0.169  Sum_probs=145.7

Q ss_pred             hHHhHHHHHHHHHHhhccCCCCccccccCCCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH--cCChhHHHH
Q psy5288           4 NEQKARQLVAEAEKKISSSSKGFFSQFTGGNKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLK--NNNKHDAGL   81 (186)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~--~~~~~~aa~   81 (186)
                      ...+|..++++|-..+.   ..     || ++.+..+..+.+++..|...|++.+|..++.+|++|+.+  .-++...+.
T Consensus       256 k~~eAv~ly~~AL~i~e---~~-----~G-~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~  326 (508)
T KOG1840|consen  256 KYDEAVNLYEEALTIRE---EV-----FG-EDHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAA  326 (508)
T ss_pred             cHHHHHHHHHHHHHHHH---Hh-----cC-CCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHH
Confidence            34678888888877777   22     34 566788888888899999999999999999999999997  235667778


Q ss_pred             HHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHc-C-ChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccC--Ch
Q psy5288          82 CFVDAANCYKKS-NPAEAIKAIERAVEIHTDM-G-RFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEE--NK  156 (186)
Q Consensus        82 ~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~-~-~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~--~~  156 (186)
                      .+.+++.++... ++++|+.+++++++|+... | +....+.++.++|.+|..+ |++++|.++|++|+.+.++.+  ..
T Consensus       327 ~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~-gk~~ea~~~~k~ai~~~~~~~~~~~  405 (508)
T KOG1840|consen  327 QLSELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAELYLKM-GKYKEAEELYKKAIQILRELLGKKD  405 (508)
T ss_pred             HHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHh-cchhHHHHHHHHHHHHHHhcccCcC
Confidence            888998888766 9999999999999999844 3 4458999999999999997 999999999999999988743  34


Q ss_pred             HHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         157 SSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       157 ~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ...+..+++||..|.+.+++.+|...|.+
T Consensus       406 ~~~~~~l~~la~~~~~~k~~~~a~~l~~~  434 (508)
T KOG1840|consen  406 YGVGKPLNQLAEAYEELKKYEEAEQLFEE  434 (508)
T ss_pred             hhhhHHHHHHHHHHHHhcccchHHHHHHH
Confidence            55568899999999999999999999875

>KOG1130|consensus

Probab=99.55  E-value=5.9e-14  Score=113.51  Aligned_cols=138  Identities=14%  Similarity=0.218  Sum_probs=118.8

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC---------------------CHHHHHHHHHHH
Q psy5288          47 GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS---------------------NPAEAIKAIERA  105 (186)
Q Consensus        47 g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~---------------------~~~~A~~~~~~A  105 (186)
                      |+.++.+|.|++|+.|..+-+++.+.+|+.-..+.+|.++|.+|-..                     .++.|+++|+.-
T Consensus       102 GNtlKv~G~fdeA~~cc~rhLd~areLgDrv~e~RAlYNlgnvYhakGk~~g~~~pee~g~f~~ev~~al~~Av~fy~eN  181 (639)
T KOG1130|consen  102 GNTLKVKGAFDEALTCCFRHLDFARELGDRVLESRALYNLGNVYHAKGKCTGLEAPEEKGAFNAEVTSALENAVKFYMEN  181 (639)
T ss_pred             cchhhhhcccchHHHHHHHHhHHHHHHhHHHhhhHHHhhhhhhhhhcccccCCCChhhcccccHHHHHHHHHHHHHHHHH
Confidence            55677888899999999999999999999888888999999998641                     145778888888


Q ss_pred             HHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         106 VEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       106 l~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      +++..++|+..-++.++-+||+.|.- ||++++||.+.+.=+.|.++-+++......+.|||++++-+|+++-|+++|++
T Consensus       182 L~l~~~lgDr~aqGRa~GnLGNTyYl-LGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~  260 (639)
T KOG1130|consen  182 LELSEKLGDRLAQGRAYGNLGNTYYL-LGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKL  260 (639)
T ss_pred             HHHHHHhhhHHhhcchhcccCceeee-eccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHH
Confidence            88888889888888899999999887 79999999999999999888888888888999999999999999999998864

>KOG4626|consensus

Probab=99.54  E-value=9.2e-14  Score=117.04  Aligned_cols=135  Identities=22%  Similarity=0.328  Sum_probs=119.1

Q ss_pred             CCCCHHHHHHHHHHH--------------HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHH
Q psy5288          32 GGNKTDEAIDLYVRA--------------GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPA   96 (186)
Q Consensus        32 ~~~~~~~A~~~y~~a--------------g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~   96 (186)
                      .+|+.++|..||.++              |++|+.+|.+++|...|.+++.++     | +-+..+.++|.+|... +++
T Consensus       332 d~G~V~ea~~cYnkaL~l~p~hadam~NLgni~~E~~~~e~A~~ly~~al~v~-----p-~~aaa~nNLa~i~kqqgnl~  405 (966)
T KOG4626|consen  332 DKGSVTEAVDCYNKALRLCPNHADAMNNLGNIYREQGKIEEATRLYLKALEVF-----P-EFAAAHNNLASIYKQQGNLD  405 (966)
T ss_pred             hccchHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhccchHHHHHHHHHHhhC-----h-hhhhhhhhHHHHHHhcccHH
Confidence            347999999999988              789999999999999999999994     3 4456678999999987 999


Q ss_pred             HHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCH
Q psy5288          97 EAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHL  176 (186)
Q Consensus        97 ~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~  176 (186)
                      +|+.||+.|++|-..      .|..+.++|..|..+ |+.+.|+.+|.+|+.+.+.      .++...|||.+|...|+.
T Consensus       406 ~Ai~~YkealrI~P~------fAda~~NmGnt~ke~-g~v~~A~q~y~rAI~~nPt------~AeAhsNLasi~kDsGni  472 (966)
T KOG4626|consen  406 DAIMCYKEALRIKPT------FADALSNMGNTYKEM-GDVSAAIQCYTRAIQINPT------FAEAHSNLASIYKDSGNI  472 (966)
T ss_pred             HHHHHHHHHHhcCch------HHHHHHhcchHHHHh-hhHHHHHHHHHHHHhcCcH------HHHHHhhHHHHhhccCCc
Confidence            999999999998654      467999999999995 9999999999999998543      347899999999999999


Q ss_pred             HHHHHHHHh
Q psy5288         177 DKAIKLYEQ  185 (186)
Q Consensus       177 ~~A~~~~~~  185 (186)
                      .+||..|+.
T Consensus       473 ~~AI~sY~~  481 (966)
T KOG4626|consen  473 PEAIQSYRT  481 (966)
T ss_pred             HHHHHHHHH
Confidence            999999875

>KOG1585|consensus

Probab=99.51  E-value=4e-12  Score=96.64  Aligned_cols=150  Identities=17%  Similarity=0.153  Sum_probs=128.4

Q ss_pred             CHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCC
Q psy5288          35 KTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGR  114 (186)
Q Consensus        35 ~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~~~~~A~~~~~~Al~i~~~~~~  114 (186)
                      .+--|+..|++++.+.+.+..++++.++|++|..+|...|.|+.++-++.+++++.+..+|++|+..|++++.+....+.
T Consensus        66 slfhAAKayEqaamLake~~klsEvvdl~eKAs~lY~E~GspdtAAmaleKAak~lenv~Pd~AlqlYqralavve~~dr  145 (308)
T KOG1585|consen   66 SLFHAAKAYEQAAMLAKELSKLSEVVDLYEKASELYVECGSPDTAAMALEKAAKALENVKPDDALQLYQRALAVVEEDDR  145 (308)
T ss_pred             cHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHhccch
Confidence            44556677777788888889999999999999999999999999999999999999988999999999999999999999


Q ss_pred             hhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         115 FIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       115 ~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ...+-..+...++++.. +..+++|...+.+-..++............++-.-.||.-..||..|-++|+.
T Consensus       146 ~~ma~el~gk~sr~lVr-l~kf~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~  215 (308)
T KOG1585|consen  146 DQMAFELYGKCSRVLVR-LEKFTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRD  215 (308)
T ss_pred             HHHHHHHHHHhhhHhhh-hHHhhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcc
Confidence            99999999999999998 79999999999999998877654444334444444555556799999988864

>KOG1130|consensus

Probab=99.42  E-value=2.9e-12  Score=103.82  Aligned_cols=137  Identities=15%  Similarity=0.132  Sum_probs=127.6

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHH
Q psy5288          47 GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENI  125 (186)
Q Consensus        47 g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~l  125 (186)
                      |+.|.-+|+|++|+...+.=+.|.+..|+....-.++.++|.+|.-+ +++.|+++|++.+.+..++|+....|+.+..|
T Consensus       202 GNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEAQscYSL  281 (639)
T KOG1130|consen  202 GNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEAQSCYSL  281 (639)
T ss_pred             CceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHHHHHHHh
Confidence            55677788999999999999999999999998899999999999876 99999999999999999999999999999999


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHH
Q psy5288         126 AEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYE  184 (186)
Q Consensus       126 g~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~  184 (186)
                      |+.|.- +.++++||.|+++-+.|.++.++.......+..||+.+..+|..++|+.+.+
T Consensus       282 gNtytl-l~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae  339 (639)
T KOG1130|consen  282 GNTYTL-LKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAE  339 (639)
T ss_pred             hhHHHH-HHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHH
Confidence            999998 6999999999999999999988888888888899999999999999998764

>TIGR00990 3a0801s09 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70)

Probab=99.37  E-value=3.9e-11  Score=104.72  Aligned_cols=135  Identities=13%  Similarity=0.099  Sum_probs=107.7

Q ss_pred             CCCCHHHHHHHHHHH--------------HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHH
Q psy5288          32 GGNKTDEAIDLYVRA--------------GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPA   96 (186)
Q Consensus        32 ~~~~~~~A~~~y~~a--------------g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~   96 (186)
                      ..|++++|+..|.++              |.++...|++++|+.+|.+++++     +|.. ...+..+|.+|... +++
T Consensus       343 ~~g~~~eA~~~~~kal~l~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~-----~p~~-~~~~~~lg~~~~~~g~~~  416 (615)
T TIGR00990       343 LKGKHLEALADLSKSIELDPRVTQSYIKRASMNLELGDPDKAEEDFDKALKL-----NSED-PDIYYHRAQLHFIKGEFA  416 (615)
T ss_pred             HcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-----CCCC-HHHHHHHHHHHHHcCCHH
Confidence            457888888888777              45677788888898888888776     3333 34566788888766 899


Q ss_pred             HHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCH
Q psy5288          97 EAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHL  176 (186)
Q Consensus        97 ~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~  176 (186)
                      +|+.+|++++++....      ...+..+|.++.. +|++++|+..|++++.+++..      ..++..+|.++...|++
T Consensus       417 ~A~~~~~kal~l~P~~------~~~~~~la~~~~~-~g~~~eA~~~~~~al~~~P~~------~~~~~~lg~~~~~~g~~  483 (615)
T TIGR00990       417 QAGKDYQKSIDLDPDF------IFSHIQLGVTQYK-EGSIASSMATFRRCKKNFPEA------PDVYNYYGELLLDQNKF  483 (615)
T ss_pred             HHHHHHHHHHHcCccC------HHHHHHHHHHHHH-CCCHHHHHHHHHHHHHhCCCC------hHHHHHHHHHHHHccCH
Confidence            9999999998876543      2357789999998 499999999999999987654      36788899999999999


Q ss_pred             HHHHHHHHh
Q psy5288         177 DKAIKLYEQ  185 (186)
Q Consensus       177 ~~A~~~~~~  185 (186)
                      ++|++.|++
T Consensus       484 ~~A~~~~~~  492 (615)
T TIGR00990       484 DEAIEKFDT  492 (615)
T ss_pred             HHHHHHHHH
Confidence            999999876

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=99.37  E-value=1e-10  Score=90.00  Aligned_cols=165  Identities=16%  Similarity=0.135  Sum_probs=121.9

Q ss_pred             chHHhHHHHHHHHHHhhccCCCCccccccCCCCHHHHHHHHHHH-----------------HHHHHhcCCHHHHHHHHHH
Q psy5288           3 DNEQKARQLVAEAEKKISSSSKGFFSQFTGGNKTDEAIDLYVRA-----------------GNLFKLGKKWNDGGNAFLQ   65 (186)
Q Consensus         3 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~A~~~y~~a-----------------g~~~~~~g~~~~A~~~y~~   65 (186)
                      .++..++.++..|...+.            .+++++|+..|.++                 |.++...|++++|+..|.+
T Consensus        28 ~~~~~~~~~~~~g~~~~~------------~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~   95 (235)
T TIGR03302        28 VEEWPAEELYEEAKEALD------------SGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADR   95 (235)
T ss_pred             cccCCHHHHHHHHHHHHH------------cCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHH
Confidence            345667777777777666            24777777777655                 5678889999999999999


Q ss_pred             HHHHHHHcCChhHHHHHHHHHHHHHhcC---------CHHHHHHHHHHHHHHHHHcCChhHHH-----------HHHHHH
Q psy5288          66 AGTLHLKNNNKHDAGLCFVDAANCYKKS---------NPAEAIKAIERAVEIHTDMGRFIMVA-----------KHHENI  125 (186)
Q Consensus        66 a~~~~~~~~~~~~aa~~~~~a~~~y~~~---------~~~~A~~~~~~Al~i~~~~~~~~~~a-----------~~~~~l  125 (186)
                      +++.+...   ......+..+|.++...         ++++|++.++++++.++.......+-           .....+
T Consensus        96 ~l~~~p~~---~~~~~a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~~~~~~~~~~~~~~~~  172 (235)
T TIGR03302        96 FIRLHPNH---PDADYAYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRYPNSEYAPDAKKRMDYLRNRLAGKELYV  172 (235)
T ss_pred             HHHHCcCC---CchHHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHHHHHHHHHH
Confidence            99875321   22233566777777542         57889999999988776654332221           123478


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHhC
Q psy5288         126 AEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQL  186 (186)
Q Consensus       126 g~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~~  186 (186)
                      |.+|..+ |++++|+..|++++..+++..   .....+..+|.+|..+|++++|+.+++.+
T Consensus       173 a~~~~~~-g~~~~A~~~~~~al~~~p~~~---~~~~a~~~l~~~~~~lg~~~~A~~~~~~l  229 (235)
T TIGR03302       173 ARFYLKR-GAYVAAINRFETVVENYPDTP---ATEEALARLVEAYLKLGLKDLAQDAAAVL  229 (235)
T ss_pred             HHHHHHc-CChHHHHHHHHHHHHHCCCCc---chHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            8889985 999999999999999987642   23478899999999999999999998753

Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.35  E-value=1.7e-10  Score=86.81  Aligned_cols=135  Identities=18%  Similarity=0.153  Sum_probs=91.7

Q ss_pred             CCHHHHHHHHHHH--------------HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHH
Q psy5288          34 NKTDEAIDLYVRA--------------GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEA   98 (186)
Q Consensus        34 ~~~~~A~~~y~~a--------------g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A   98 (186)
                      +++++|.+.+.++              |.++...|++++|.+.|.+++++.     +. ....+.++|.++... ++++|
T Consensus        45 ~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-----~~-~~~~~~~~~~~~~~~g~~~~A  118 (234)
T TIGR02521        45 GDLEVAKENLDKALEHDPDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-----PN-NGDVLNNYGTFLCQQGKYEQA  118 (234)
T ss_pred             CCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-----CC-CHHHHHHHHHHHHHcccHHHH
Confidence            4666666666655              456777778888888887777752     21 123455667777655 77888


Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHH
Q psy5288          99 IKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDK  178 (186)
Q Consensus        99 ~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~  178 (186)
                      +..++++++..    ........+..+|.++... |++++|+.++++++...+..      ...+..+|.++...|++++
T Consensus       119 ~~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~~~~~------~~~~~~la~~~~~~~~~~~  187 (234)
T TIGR02521       119 MQQFEQAIEDP----LYPQPARSLENAGLCALKA-GDFDKAEKYLTRALQIDPQR------PESLLELAELYYLRGQYKD  187 (234)
T ss_pred             HHHHHHHHhcc----ccccchHHHHHHHHHHHHc-CCHHHHHHHHHHHHHhCcCC------hHHHHHHHHHHHHcCCHHH
Confidence            88888777532    1222344567778888874 88888888888888775542      2456778888888888888


Q ss_pred             HHHHHHh
Q psy5288         179 AIKLYEQ  185 (186)
Q Consensus       179 A~~~~~~  185 (186)
                      |+.++++
T Consensus       188 A~~~~~~  194 (234)
T TIGR02521       188 ARAYLER  194 (234)
T ss_pred             HHHHHHH
Confidence            8887765

Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.

>KOG1155|consensus

Probab=99.35  E-value=2e-11  Score=100.03  Aligned_cols=134  Identities=22%  Similarity=0.292  Sum_probs=112.2

Q ss_pred             CCCHHHHHHHHHHH--------------HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHH
Q psy5288          33 GNKTDEAIDLYVRA--------------GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAE   97 (186)
Q Consensus        33 ~~~~~~A~~~y~~a--------------g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~   97 (186)
                      ++++++|+.+|.+|              |--|..+.+-..|+++|.+|.++     +|.. -.++.-+|+.|..+ .+.=
T Consensus       343 r~eHEKAv~YFkRALkLNp~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi-----~p~D-yRAWYGLGQaYeim~Mh~Y  416 (559)
T KOG1155|consen  343 RSEHEKAVMYFKRALKLNPKYLSAWTLMGHEYVEMKNTHAAIESYRRAVDI-----NPRD-YRAWYGLGQAYEIMKMHFY  416 (559)
T ss_pred             HHhHHHHHHHHHHHHhcCcchhHHHHHhhHHHHHhcccHHHHHHHHHHHhc-----Cchh-HHHHhhhhHHHHHhcchHH
Confidence            36788999999988              44588899999999999999998     3433 24577899999887 7888


Q ss_pred             HHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHH
Q psy5288          98 AIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLD  177 (186)
Q Consensus        98 A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~  177 (186)
                      |+-+|++|..+-+...      ..++-||.||++ +++.++||.+|.+|+..-..+      +..+..||.+|.++++++
T Consensus       417 aLyYfqkA~~~kPnDs------Rlw~aLG~CY~k-l~~~~eAiKCykrai~~~dte------~~~l~~LakLye~l~d~~  483 (559)
T KOG1155|consen  417 ALYYFQKALELKPNDS------RLWVALGECYEK-LNRLEEAIKCYKRAILLGDTE------GSALVRLAKLYEELKDLN  483 (559)
T ss_pred             HHHHHHHHHhcCCCch------HHHHHHHHHHHH-hccHHHHHHHHHHHHhccccc------hHHHHHHHHHHHHHHhHH
Confidence            9999999987755443      378889999998 799999999999999975443      478999999999999999


Q ss_pred             HHHHHHHh
Q psy5288         178 KAIKLYEQ  185 (186)
Q Consensus       178 ~A~~~~~~  185 (186)
                      +|..+|++
T Consensus       484 eAa~~yek  491 (559)
T KOG1155|consen  484 EAAQYYEK  491 (559)
T ss_pred             HHHHHHHH
Confidence            99999975

>TIGR00990 3a0801s09 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70)

Probab=99.33  E-value=6.8e-11  Score=103.17  Aligned_cols=141  Identities=14%  Similarity=0.103  Sum_probs=105.9

Q ss_pred             CCCCHHHHHHHHHHH--------------HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHH
Q psy5288          32 GGNKTDEAIDLYVRA--------------GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPA   96 (186)
Q Consensus        32 ~~~~~~~A~~~y~~a--------------g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~   96 (186)
                      ..|++++|+.+|.++              |.++..+|++++|+..|.+++.+.     |. ....+..+|.++... +++
T Consensus       411 ~~g~~~~A~~~~~kal~l~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-----P~-~~~~~~~lg~~~~~~g~~~  484 (615)
T TIGR00990       411 IKGEFAQAGKDYQKSIDLDPDFIFSHIQLGVTQYKEGSIASSMATFRRCKKNF-----PE-APDVYNYYGELLLDQNKFD  484 (615)
T ss_pred             HcCCHHHHHHHHHHHHHcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-----CC-ChHHHHHHHHHHHHccCHH
Confidence            457788888877777              456677788888888888877753     22 245566788888776 899


Q ss_pred             HHHHHHHHHHHHHHHcCCh-hHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccC
Q psy5288          97 EAIKAIERAVEIHTDMGRF-IMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDH  175 (186)
Q Consensus        97 ~A~~~~~~Al~i~~~~~~~-~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~  175 (186)
                      +|+.+|++|+++....... ......+...+.++... |++++|+.+|++|+.+.++.      ..++..+|.++..+|+
T Consensus       485 ~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~-~~~~eA~~~~~kAl~l~p~~------~~a~~~la~~~~~~g~  557 (615)
T TIGR00990       485 EAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWK-QDFIEAENLCEKALIIDPEC------DIAVATMAQLLLQQGD  557 (615)
T ss_pred             HHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHh-hhHHHHHHHHHHHHhcCCCc------HHHHHHHHHHHHHccC
Confidence            9999999999987654332 23333445555566654 99999999999999985533      2478899999999999


Q ss_pred             HHHHHHHHHh
Q psy5288         176 LDKAIKLYEQ  185 (186)
Q Consensus       176 ~~~A~~~~~~  185 (186)
                      +++|+++|++
T Consensus       558 ~~eAi~~~e~  567 (615)
T TIGR00990       558 VDEALKLFER  567 (615)
T ss_pred             HHHHHHHHHH
Confidence            9999999986

>KOG1126|consensus

Probab=99.27  E-value=8.1e-12  Score=105.69  Aligned_cols=127  Identities=22%  Similarity=0.211  Sum_probs=86.1

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHHHH-------HcCChh-------HHH--------------HHHHHHHHHHhcC-CHHH
Q psy5288          47 GNLFKLGKKWNDGGNAFLQAGTLHL-------KNNNKH-------DAG--------------LCFVDAANCYKKS-NPAE   97 (186)
Q Consensus        47 g~~~~~~g~~~~A~~~y~~a~~~~~-------~~~~~~-------~aa--------------~~~~~a~~~y~~~-~~~~   97 (186)
                      |++|..+++++.|+.||++|+.+-.       -+|...       .+.              .+|.-+|.+|.+. +++.
T Consensus       428 GNcfSLQkdh~~Aik~f~RAiQldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~~rhYnAwYGlG~vy~Kqek~e~  507 (638)
T KOG1126|consen  428 GNCFSLQKDHDTAIKCFKRAIQLDPRFAYAYTLLGHESIATEEFDKAMKSFRKALGVDPRHYNAWYGLGTVYLKQEKLEF  507 (638)
T ss_pred             cchhhhhhHHHHHHHHHHHhhccCCccchhhhhcCChhhhhHHHHhHHHHHHhhhcCCchhhHHHHhhhhheeccchhhH
Confidence            6778888888888888888887733       122221       122              2333345666655 6777


Q ss_pred             HHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHH
Q psy5288          98 AIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLD  177 (186)
Q Consensus        98 A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~  177 (186)
                      |.-+|++|++|...+--      +..-+|.+++. +|+.|+|+.+|++|+.+.+++.      -+..+.|.++..+++|+
T Consensus       508 Ae~~fqkA~~INP~nsv------i~~~~g~~~~~-~k~~d~AL~~~~~A~~ld~kn~------l~~~~~~~il~~~~~~~  574 (638)
T KOG1126|consen  508 AEFHFQKAVEINPSNSV------ILCHIGRIQHQ-LKRKDKALQLYEKAIHLDPKNP------LCKYHRASILFSLGRYV  574 (638)
T ss_pred             HHHHHHhhhcCCccchh------HHhhhhHHHHH-hhhhhHHHHHHHHHHhcCCCCc------hhHHHHHHHHHhhcchH
Confidence            88888888777655532      55567888777 4888888888888888766542      46677788888888888


Q ss_pred             HHHHHHHhC
Q psy5288         178 KAIKLYEQL  186 (186)
Q Consensus       178 ~A~~~~~~~  186 (186)
                      +|+..++++
T Consensus       575 eal~~LEeL  583 (638)
T KOG1126|consen  575 EALQELEEL  583 (638)
T ss_pred             HHHHHHHHH
Confidence            888877753

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=99.25  E-value=3e-10  Score=85.82  Aligned_cols=135  Identities=13%  Similarity=0.141  Sum_probs=112.4

Q ss_pred             CCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHc
Q psy5288          34 NKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDM  112 (186)
Q Consensus        34 ~~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~  112 (186)
                      -+..++.+...+.|.-|...|++..|...+++++++     +|... .++.-.+.+|.+. +.+.|-+.|++|+.+....
T Consensus        29 ~~~~~aa~arlqLal~YL~~gd~~~A~~nlekAL~~-----DPs~~-~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~~  102 (250)
T COG3063          29 TDRNEAAKARLQLALGYLQQGDYAQAKKNLEKALEH-----DPSYY-LAHLVRAHYYQKLGENDLADESYRKALSLAPNN  102 (250)
T ss_pred             ccHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-----CcccH-HHHHHHHHHHHHcCChhhHHHHHHHHHhcCCCc
Confidence            467899999999999999999999999999999998     45443 3455778888877 8899999999999999888


Q ss_pred             CChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         113 GRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       113 ~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      |+      +++|-|.-+-.+ |+|++|..+|++|+.- +   .......++.|+|.|-.+.|+++.|.++|++
T Consensus       103 Gd------VLNNYG~FLC~q-g~~~eA~q~F~~Al~~-P---~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~r  164 (250)
T COG3063         103 GD------VLNNYGAFLCAQ-GRPEEAMQQFERALAD-P---AYGEPSDTLENLGLCALKAGQFDQAEEYLKR  164 (250)
T ss_pred             cc------hhhhhhHHHHhC-CChHHHHHHHHHHHhC-C---CCCCcchhhhhhHHHHhhcCCchhHHHHHHH
Confidence            88      888888888886 8999999999998873 2   2233357888999999999999999888875

>KOG2003|consensus

Probab=99.22  E-value=2.6e-10  Score=93.73  Aligned_cols=143  Identities=23%  Similarity=0.287  Sum_probs=102.5

Q ss_pred             cCCCCHHHHHHHHHHH--------------HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CH
Q psy5288          31 TGGNKTDEAIDLYVRA--------------GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NP   95 (186)
Q Consensus        31 ~~~~~~~~A~~~y~~a--------------g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~   95 (186)
                      |..|++++|++.|.++              |..+..+|++++|++||.+..-|.      ...+..+..++.+|..+ ++
T Consensus       501 f~ngd~dka~~~ykeal~ndasc~ealfniglt~e~~~~ldeald~f~klh~il------~nn~evl~qianiye~led~  574 (840)
T KOG2003|consen  501 FANGDLDKAAEFYKEALNNDASCTEALFNIGLTAEALGNLDEALDCFLKLHAIL------LNNAEVLVQIANIYELLEDP  574 (840)
T ss_pred             eecCcHHHHHHHHHHHHcCchHHHHHHHHhcccHHHhcCHHHHHHHHHHHHHHH------HhhHHHHHHHHHHHHHhhCH
Confidence            4568999999999988              345788999999999999988875      33467777999999988 89


Q ss_pred             HHHHHHHHHHHHH--------------HHHcCChhHHHHHHH--------------HHHHHHHHhcCCHHHHHHHHHHHH
Q psy5288          96 AEAIKAIERAVEI--------------HTDMGRFIMVAKHHE--------------NIAEIYEKELEDQEKAIDHYQHAA  147 (186)
Q Consensus        96 ~~A~~~~~~Al~i--------------~~~~~~~~~~a~~~~--------------~lg~~y~~~lg~~~~Ai~~y~kA~  147 (186)
                      .+|++.+.++..+              |-+.|+.+++-+|+.              -||..|.+. .=.++||.+|++|.
T Consensus       575 aqaie~~~q~~slip~dp~ilskl~dlydqegdksqafq~~ydsyryfp~nie~iewl~ayyidt-qf~ekai~y~ekaa  653 (840)
T KOG2003|consen  575 AQAIELLMQANSLIPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRYFPCNIETIEWLAAYYIDT-QFSEKAINYFEKAA  653 (840)
T ss_pred             HHHHHHHHHhcccCCCCHHHHHHHHHHhhcccchhhhhhhhhhcccccCcchHHHHHHHHHHHhh-HHHHHHHHHHHHHH
Confidence            9999999887664              344455555555442              234444442 34566666666666


Q ss_pred             HHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHhC
Q psy5288         148 DCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQL  186 (186)
Q Consensus       148 ~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~~  186 (186)
                      -+-+..      ..--..++.++++.|+|++|.+.|..+
T Consensus       654 liqp~~------~kwqlmiasc~rrsgnyqka~d~yk~~  686 (840)
T KOG2003|consen  654 LIQPNQ------SKWQLMIASCFRRSGNYQKAFDLYKDI  686 (840)
T ss_pred             hcCccH------HHHHHHHHHHHHhcccHHHHHHHHHHH
Confidence            553321      122267899999999999999999753

>KOG1173|consensus

Probab=99.22  E-value=3.4e-10  Score=94.67  Aligned_cols=139  Identities=23%  Similarity=0.249  Sum_probs=102.4

Q ss_pred             CCHHHHHHHHHHHHH--------------HHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHh-cCCHHHH
Q psy5288          34 NKTDEAIDLYVRAGN--------------LFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYK-KSNPAEA   98 (186)
Q Consensus        34 ~~~~~A~~~y~~ag~--------------~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~-~~~~~~A   98 (186)
                      +..++|..+|..|..              -|.+++++.-|-.+|.+|..|.     |... ..++++|.+.- ...+.+|
T Consensus       360 ~EhdQAmaaY~tAarl~~G~hlP~LYlgmey~~t~n~kLAe~Ff~~A~ai~-----P~Dp-lv~~Elgvvay~~~~y~~A  433 (611)
T KOG1173|consen  360 GEHDQAMAAYFTAARLMPGCHLPSLYLGMEYMRTNNLKLAEKFFKQALAIA-----PSDP-LVLHELGVVAYTYEEYPEA  433 (611)
T ss_pred             chHHHHHHHHHHHHHhccCCcchHHHHHHHHHHhccHHHHHHHHHHHHhcC-----CCcc-hhhhhhhheeehHhhhHHH
Confidence            455666666666633              3455566666666666666653     2222 23445565544 3488999


Q ss_pred             HHHHHHHHHHHHHcCChh-HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHH
Q psy5288          99 IKAIERAVEIHTDMGRFI-MVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLD  177 (186)
Q Consensus        99 ~~~~~~Al~i~~~~~~~~-~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~  177 (186)
                      +.+|+.++...+..++.. .-.-.+.+||-+|.. ++.+++||.+|++|+.+.+++      ..++-.+|-+|..+|+++
T Consensus       434 ~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rk-l~~~~eAI~~~q~aL~l~~k~------~~~~asig~iy~llgnld  506 (611)
T KOG1173|consen  434 LKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRK-LNKYEEAIDYYQKALLLSPKD------ASTHASIGYIYHLLGNLD  506 (611)
T ss_pred             HHHHHHHHHHhhhccccccchhHHHHhHHHHHHH-HhhHHHHHHHHHHHHHcCCCc------hhHHHHHHHHHHHhcChH
Confidence            999999998777775433 245578999999999 599999999999999998765      368889999999999999


Q ss_pred             HHHHHHHh
Q psy5288         178 KAIKLYEQ  185 (186)
Q Consensus       178 ~A~~~~~~  185 (186)
                      +|+++|++
T Consensus       507 ~Aid~fhK  514 (611)
T KOG1173|consen  507 KAIDHFHK  514 (611)
T ss_pred             HHHHHHHH
Confidence            99999986

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=99.22  E-value=1.7e-10  Score=73.83  Aligned_cols=73  Identities=27%  Similarity=0.414  Sum_probs=64.3

Q ss_pred             HHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCCh-hHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHh
Q psy5288          78 DAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRF-IMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYA  151 (186)
Q Consensus        78 ~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~-~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~  151 (186)
                      ..+.+|.++|.+|... ++++|+.+|++|+++....|+. ...+.++.++|.+|..+ |++++|++++++|+++++
T Consensus         3 ~~a~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~-g~~~~A~~~~~~al~i~~   77 (78)
T PF13424_consen    3 DTANAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRL-GDYEEALEYYQKALDIFE   77 (78)
T ss_dssp             HHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHT-THHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHhhhc
Confidence            4577888999999887 9999999999999998778855 46799999999999995 999999999999999976

...

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.21  E-value=6.8e-10  Score=83.54  Aligned_cols=135  Identities=14%  Similarity=0.147  Sum_probs=110.1

Q ss_pred             CCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHc
Q psy5288          34 NKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDM  112 (186)
Q Consensus        34 ~~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~  112 (186)
                      .+.+.....+...|..+...|++++|.+.+.++++.     +|.. ...+..+|.+|... ++++|+..+++++++....
T Consensus        25 ~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~-----~p~~-~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~   98 (234)
T TIGR02521        25 TDRNKAAKIRVQLALGYLEQGDLEVAKENLDKALEH-----DPDD-YLAYLALALYYQQLGELEKAEDSFRRALTLNPNN   98 (234)
T ss_pred             ccCCcHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-----Cccc-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCC
Confidence            455677888999999999999999999999999876     2333 35666788888876 9999999999999875433


Q ss_pred             CChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         113 GRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       113 ~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                            ...+.++|.++..+ |++++|+.+|++++......    .....+.++|.++...|++++|+.+|++
T Consensus        99 ------~~~~~~~~~~~~~~-g~~~~A~~~~~~~~~~~~~~----~~~~~~~~l~~~~~~~g~~~~A~~~~~~  160 (234)
T TIGR02521        99 ------GDVLNNYGTFLCQQ-GKYEQAMQQFEQAIEDPLYP----QPARSLENAGLCALKAGDFDKAEKYLTR  160 (234)
T ss_pred             ------HHHHHHHHHHHHHc-ccHHHHHHHHHHHHhccccc----cchHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence                  24788899999995 99999999999999753211    1235678899999999999999999875

Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.20  E-value=5.8e-10  Score=101.37  Aligned_cols=135  Identities=10%  Similarity=0.104  Sum_probs=105.1

Q ss_pred             CCCCHHHHHHHHHHHHH-----------HHHh---cCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHH
Q psy5288          32 GGNKTDEAIDLYVRAGN-----------LFKL---GKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPA   96 (186)
Q Consensus        32 ~~~~~~~A~~~y~~ag~-----------~~~~---~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~   96 (186)
                      ..|++++|+.+|.++..           +...   .|++++|+.+|.+++.+     +|.  ...+.++|.++.+. +++
T Consensus       554 ~~Gd~~eA~~~l~qAL~l~P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l-----~P~--~~a~~~LA~~l~~lG~~d  626 (987)
T PRK09782        554 AAGNGAARDRWLQQAEQRGLGDNALYWWLHAQRYIPGQPELALNDLTRSLNI-----APS--ANAYVARATIYRQRHNVP  626 (987)
T ss_pred             HCCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh-----CCC--HHHHHHHHHHHHHCCCHH
Confidence            34677777777665522           1222   37777777777777776     453  45677888888877 999


Q ss_pred             HHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCH
Q psy5288          97 EAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHL  176 (186)
Q Consensus        97 ~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~  176 (186)
                      +|+.+|++++.+....      +.++.++|.++... |++++|+..|++|+.+.+..      ...+.++|.++...|++
T Consensus       627 eA~~~l~~AL~l~Pd~------~~a~~nLG~aL~~~-G~~eeAi~~l~~AL~l~P~~------~~a~~nLA~al~~lGd~  693 (987)
T PRK09782        627 AAVSDLRAALELEPNN------SNYQAALGYALWDS-GDIAQSREMLERAHKGLPDD------PALIRQLAYVNQRLDDM  693 (987)
T ss_pred             HHHHHHHHHHHhCCCC------HHHHHHHHHHHHHC-CCHHHHHHHHHHHHHhCCCC------HHHHHHHHHHHHHCCCH
Confidence            9999999998886544      35889999999995 99999999999999997754      36889999999999999


Q ss_pred             HHHHHHHHhC
Q psy5288         177 DKAIKLYEQL  186 (186)
Q Consensus       177 ~~A~~~~~~~  186 (186)
                      ++|+.+|+++
T Consensus       694 ~eA~~~l~~A  703 (987)
T PRK09782        694 AATQHYARLV  703 (987)
T ss_pred             HHHHHHHHHH
Confidence            9999999863

>KOG1155|consensus

Probab=99.20  E-value=1.1e-09  Score=90.04  Aligned_cols=165  Identities=25%  Similarity=0.295  Sum_probs=125.8

Q ss_pred             HHhHHHHHHHHHHhhccCCCCccccccC-----CCCHHHHHHHHHHH--------------HHHHHhcCCHHHHHHHHHH
Q psy5288           5 EQKARQLVAEAEKKISSSSKGFFSQFTG-----GNKTDEAIDLYVRA--------------GNLFKLGKKWNDGGNAFLQ   65 (186)
Q Consensus         5 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~-----~~~~~~A~~~y~~a--------------g~~~~~~g~~~~A~~~y~~   65 (186)
                      -++|..+-+.|-|.=+ +..+-|- ++|     =.+-..|++.|..|              |+.|..++-+.-|+-+|++
T Consensus       346 HEKAv~YFkRALkLNp-~~~~aWT-LmGHEyvEmKNt~AAi~sYRrAvdi~p~DyRAWYGLGQaYeim~Mh~YaLyYfqk  423 (559)
T KOG1155|consen  346 HEKAVMYFKRALKLNP-KYLSAWT-LMGHEYVEMKNTHAAIESYRRAVDINPRDYRAWYGLGQAYEIMKMHFYALYYFQK  423 (559)
T ss_pred             HHHHHHHHHHHHhcCc-chhHHHH-HhhHHHHHhcccHHHHHHHHHHHhcCchhHHHHhhhhHHHHHhcchHHHHHHHHH
Confidence            3677777777766544 1111111 112     14668999999999              7789999999999999999


Q ss_pred             HHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHH
Q psy5288          66 AGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQ  144 (186)
Q Consensus        66 a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~  144 (186)
                      |..+     .|.. ...+.-+|+||.++ +.++|+.||.+|+......|+      ++..||.+|+. ++++++|..+|+
T Consensus       424 A~~~-----kPnD-sRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~~------~l~~LakLye~-l~d~~eAa~~ye  490 (559)
T KOG1155|consen  424 ALEL-----KPND-SRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEGS------ALVRLAKLYEE-LKDLNEAAQYYE  490 (559)
T ss_pred             HHhc-----CCCc-hHHHHHHHHHHHHhccHHHHHHHHHHHHhccccchH------HHHHHHHHHHH-HHhHHHHHHHHH
Confidence            9998     3333 45688899999998 899999999999987766555      89999999999 699999999999


Q ss_pred             HHHHHHhccC--ChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         145 HAADCYAGEE--NKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       145 kA~~l~~~~~--~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      +-++.....+  .+.. .....-|+.-+.+.++|++|-.+..+
T Consensus       491 k~v~~~~~eg~~~~~t-~ka~~fLA~~f~k~~~~~~As~Ya~~  532 (559)
T KOG1155|consen  491 KYVEVSELEGEIDDET-IKARLFLAEYFKKMKDFDEASYYATL  532 (559)
T ss_pred             HHHHHHHhhcccchHH-HHHHHHHHHHHHhhcchHHHHHHHHH
Confidence            9999764322  2222 24445589999999999999887654

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.20  E-value=1e-09  Score=90.20  Aligned_cols=58  Identities=9%  Similarity=0.088  Sum_probs=27.1

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHH
Q psy5288         121 HHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYE  184 (186)
Q Consensus       121 ~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~  184 (186)
                      .+..+|.+|... |++++|+.++++++...+.     .....+..++.+|...|++++|+..++
T Consensus       216 ~~~~la~~~~~~-g~~~~A~~~~~~~~~~~p~-----~~~~~~~~l~~~~~~~g~~~~A~~~l~  273 (389)
T PRK11788        216 ASILLGDLALAQ-GDYAAAIEALERVEEQDPE-----YLSEVLPKLMECYQALGDEAEGLEFLR  273 (389)
T ss_pred             HHHHHHHHHHHC-CCHHHHHHHHHHHHHHChh-----hHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            344455555542 5555555555555543211     112334445555555555555555544

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=99.17  E-value=7.5e-10  Score=70.77  Aligned_cols=75  Identities=13%  Similarity=0.318  Sum_probs=67.2

Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChh-HHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHH
Q psy5288          37 DEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKH-DAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTD  111 (186)
Q Consensus        37 ~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~-~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~  111 (186)
                      ...+.+|...|.+|..+|++++|+++|++++++.+..|+.. ..+.++.++|.+|... ++++|++++++|++|+++
T Consensus         2 ~~~a~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~i~~k   78 (78)
T PF13424_consen    2 PDTANAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALDIFEK   78 (78)
T ss_dssp             HHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhhcC
Confidence            46788999999999999999999999999999988888765 4699999999999987 999999999999999863

...

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.16  E-value=2.7e-09  Score=87.66  Aligned_cols=57  Identities=18%  Similarity=0.303  Sum_probs=33.7

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         121 HHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       121 ~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      .+..++.+|... |++++|+..+++++...++.       ..+..++.++.+.|++++|+..|++
T Consensus       251 ~~~~l~~~~~~~-g~~~~A~~~l~~~~~~~p~~-------~~~~~la~~~~~~g~~~~A~~~l~~  307 (389)
T PRK11788        251 VLPKLMECYQAL-GDEAEGLEFLRRALEEYPGA-------DLLLALAQLLEEQEGPEAAQALLRE  307 (389)
T ss_pred             HHHHHHHHHHHc-CCHHHHHHHHHHHHHhCCCc-------hHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            445556666663 66666666666666654321       1235666666666666666666653

>KOG1126|consensus

Probab=99.14  E-value=1.7e-10  Score=97.75  Aligned_cols=119  Identities=13%  Similarity=0.141  Sum_probs=91.1

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHH
Q psy5288          47 GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENI  125 (186)
Q Consensus        47 g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~l  125 (186)
                      |.+|.++++++.|.-.|++|++|     +|..... ..=+|.++... +.++|+..|++|+.+-.+.--      +-+..
T Consensus       496 G~vy~Kqek~e~Ae~~fqkA~~I-----NP~nsvi-~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l------~~~~~  563 (638)
T KOG1126|consen  496 GTVYLKQEKLEFAEFHFQKAVEI-----NPSNSVI-LCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPL------CKYHR  563 (638)
T ss_pred             hhheeccchhhHHHHHHHhhhcC-----CccchhH-HhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCch------hHHHH
Confidence            44566666666666666666666     4443322 22456777666 889999999999877655532      66778


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHH
Q psy5288         126 AEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYE  184 (186)
Q Consensus       126 g~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~  184 (186)
                      |.++.. ++++++|...+++...+.+++      ..++.-+|.+|.+.|+.+.|+..|.
T Consensus       564 ~~il~~-~~~~~eal~~LEeLk~~vP~e------s~v~~llgki~k~~~~~~~Al~~f~  615 (638)
T KOG1126|consen  564 ASILFS-LGRYVEALQELEELKELVPQE------SSVFALLGKIYKRLGNTDLALLHFS  615 (638)
T ss_pred             HHHHHh-hcchHHHHHHHHHHHHhCcch------HHHHHHHHHHHHHHccchHHHHhhH
Confidence            999998 699999999999999998764      4788899999999999999998874

>TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein

Probab=99.12  E-value=3.8e-09  Score=93.97  Aligned_cols=124  Identities=17%  Similarity=0.130  Sum_probs=76.2

Q ss_pred             hHHHHHHHHHHhhccCCCCccccccCCCCHHHHHHHHHHH--------------HHHHHhcCCHHHHHHHHHHHHHH---
Q psy5288           7 KARQLVAEAEKKISSSSKGFFSQFTGGNKTDEAIDLYVRA--------------GNLFKLGKKWNDGGNAFLQAGTL---   69 (186)
Q Consensus         7 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~A~~~y~~a--------------g~~~~~~g~~~~A~~~y~~a~~~---   69 (186)
                      .+..++..|...++            .|++++|+..|.++              |.+|...|++++|+..+.++++.   
T Consensus        21 ~~~~~~~~a~~~~~------------~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~   88 (899)
T TIGR02917        21 SPESLIEAAKSYLQ------------KNKYKAAIIQLKNALQKDPNDAEARFLLGKIYLALGDYAAAEKELRKALSLGYP   88 (899)
T ss_pred             CHHHHHHHHHHHHH------------cCChHhHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC
Confidence            55667777777777            35888888887775              66788889999998888877653   


Q ss_pred             -----------HHHcCC---------------hhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHH
Q psy5288          70 -----------HLKNNN---------------KHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHH  122 (186)
Q Consensus        70 -----------~~~~~~---------------~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~  122 (186)
                                 +...|+               +...+..+..+|.+|... ++++|+..|++++++....      ...+
T Consensus        89 ~~~~~~~~a~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~------~~~~  162 (899)
T TIGR02917        89 KNQVLPLLARAYLLQGKFQQVLDELPGKTLLDDEGAAELLALRGLAYLGLGQLELAQKSYEQALAIDPRS------LYAK  162 (899)
T ss_pred             hhhhHHHHHHHHHHCCCHHHHHHhhcccccCCchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCC------hhhH
Confidence                       122222               223344455667777655 7888888888887653321      1133


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHH
Q psy5288         123 ENIAEIYEKELEDQEKAIDHYQHAADC  149 (186)
Q Consensus       123 ~~lg~~y~~~lg~~~~Ai~~y~kA~~l  149 (186)
                      ..+|.++... |++++|+..+++++..
T Consensus       163 ~~la~~~~~~-~~~~~A~~~~~~~~~~  188 (899)
T TIGR02917       163 LGLAQLALAE-NRFDEARALIDEVLTA  188 (899)
T ss_pred             HHHHHHHHHC-CCHHHHHHHHHHHHHh
Confidence            4444444442 4444444444444443

This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.

>PRK12370 invasion protein regulator; Provisional

Probab=99.08  E-value=6.7e-09  Score=89.76  Aligned_cols=136  Identities=16%  Similarity=0.067  Sum_probs=104.7

Q ss_pred             CCCHHHHHHHHHHH--------------HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHH
Q psy5288          33 GNKTDEAIDLYVRA--------------GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAE   97 (186)
Q Consensus        33 ~~~~~~A~~~y~~a--------------g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~   97 (186)
                      .+++++|...+.++              |.++...|++++|+.+|.+++++     +|..+. .+..+|.++... ++++
T Consensus       317 ~~~~~~A~~~~~~Al~ldP~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l-----~P~~~~-a~~~lg~~l~~~G~~~e  390 (553)
T PRK12370        317 QNAMIKAKEHAIKATELDHNNPQALGLLGLINTIHSEYIVGSLLFKQANLL-----SPISAD-IKYYYGWNLFMAGQLEE  390 (553)
T ss_pred             chHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHh-----CCCCHH-HHHHHHHHHHHCCCHHH
Confidence            35688888888877              55788899999999999999998     565544 455788888776 9999


Q ss_pred             HHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHH
Q psy5288          98 AIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLD  177 (186)
Q Consensus        98 A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~  177 (186)
                      |+.++++++++......      ....++.++... |++++|+.++++++...+.. .    ...+.++|.+|..+|+++
T Consensus       391 Ai~~~~~Al~l~P~~~~------~~~~~~~~~~~~-g~~eeA~~~~~~~l~~~~p~-~----~~~~~~la~~l~~~G~~~  458 (553)
T PRK12370        391 ALQTINECLKLDPTRAA------AGITKLWITYYH-TGIDDAIRLGDELRSQHLQD-N----PILLSMQVMFLSLKGKHE  458 (553)
T ss_pred             HHHHHHHHHhcCCCChh------hHHHHHHHHHhc-cCHHHHHHHHHHHHHhcccc-C----HHHHHHHHHHHHhCCCHH
Confidence            99999999988655321      222344445554 99999999999998764221 1    246788999999999999


Q ss_pred             HHHHHHHhC
Q psy5288         178 KAIKLYEQL  186 (186)
Q Consensus       178 ~A~~~~~~~  186 (186)
                      +|+..+.++
T Consensus       459 eA~~~~~~~  467 (553)
T PRK12370        459 LARKLTKEI  467 (553)
T ss_pred             HHHHHHHHh
Confidence            999998763

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.07  E-value=8e-09  Score=96.14  Aligned_cols=148  Identities=16%  Similarity=0.089  Sum_probs=107.9

Q ss_pred             CCCCHHHHHHHHHHH--------------HHHHHhcCCHHHHHHHHHHHHHHHH--------------------------
Q psy5288          32 GGNKTDEAIDLYVRA--------------GNLFKLGKKWNDGGNAFLQAGTLHL--------------------------   71 (186)
Q Consensus        32 ~~~~~~~A~~~y~~a--------------g~~~~~~g~~~~A~~~y~~a~~~~~--------------------------   71 (186)
                      ..+++++|+..|.++              |.++...|++++|+.+|.+++++..                          
T Consensus       281 ~~g~~~~A~~~l~~aL~~~P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~~~g~~  360 (1157)
T PRK11447        281 DSGQGGKAIPELQQAVRANPKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLIQQGDA  360 (1157)
T ss_pred             HCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHHHHHHH
Confidence            457888888888887              5678888999999999988887532                          


Q ss_pred             --HcCChhHHHH--------------HHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcC-------------ChhHH---
Q psy5288          72 --KNNNKHDAGL--------------CFVDAANCYKKS-NPAEAIKAIERAVEIHTDMG-------------RFIMV---  118 (186)
Q Consensus        72 --~~~~~~~aa~--------------~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~-------------~~~~~---  118 (186)
                        ..|++..+..              .+..+|.+|... ++++|+++|++++++.....             +...+   
T Consensus       361 ~~~~g~~~eA~~~~~~Al~~~P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~~~~a~~~L~~l~~~~~~~~A~~~  440 (1157)
T PRK11447        361 ALKANNLAQAERLYQQARQVDNTDSYAVLGLGDVAMARKDYAAAERYYQQALRMDPGNTNAVRGLANLYRQQSPEKALAF  440 (1157)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCHHHHHHH
Confidence              1223333322              344567777766 89999999999997643221             11111   


Q ss_pred             --------------------HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHH
Q psy5288         119 --------------------AKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDK  178 (186)
Q Consensus       119 --------------------a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~  178 (186)
                                          ...+..+|.++... |++++|+.+|++++.+.+..      ...+..+|.+|...|++++
T Consensus       441 l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~-g~~~eA~~~~~~Al~~~P~~------~~~~~~LA~~~~~~G~~~~  513 (1157)
T PRK11447        441 IASLSASQRRSIDDIERSLQNDRLAQQAEALENQ-GKWAQAAELQRQRLALDPGS------VWLTYRLAQDLRQAGQRSQ  513 (1157)
T ss_pred             HHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHC-CCHHHHHHHHHHHHHhCCCC------HHHHHHHHHHHHHcCCHHH
Confidence                                12234567788885 99999999999999997754      2577899999999999999


Q ss_pred             HHHHHHhC
Q psy5288         179 AIKLYEQL  186 (186)
Q Consensus       179 A~~~~~~~  186 (186)
                      |+..|+++
T Consensus       514 A~~~l~~a  521 (1157)
T PRK11447        514 ADALMRRL  521 (1157)
T ss_pred             HHHHHHHH
Confidence            99999763

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=99.07  E-value=1.8e-09  Score=77.40  Aligned_cols=111  Identities=9%  Similarity=-0.028  Sum_probs=81.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHH
Q psy5288          43 YVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKH  121 (186)
Q Consensus        43 y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~  121 (186)
                      +...|.++...|++++|+.+|.+++.+     +|.. ...+..+|.++... ++++|+.+|++++.+....      +..
T Consensus        27 ~~~~g~~~~~~g~~~~A~~~~~~al~~-----~P~~-~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~~------~~a   94 (144)
T PRK15359         27 VYASGYASWQEGDYSRAVIDFSWLVMA-----QPWS-WRAHIALAGTWMMLKEYTTAINFYGHALMLDASH------PEP   94 (144)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHc-----CCCc-HHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCC------cHH
Confidence            566677888888888888888888776     3443 45566777777766 8888888888888765444      337


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHh
Q psy5288         122 HENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSAL  172 (186)
Q Consensus       122 ~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~  172 (186)
                      +.++|.++.. +|++++|+..|++|+.+.+..      ...+.+.+.+...
T Consensus        95 ~~~lg~~l~~-~g~~~eAi~~~~~Al~~~p~~------~~~~~~~~~~~~~  138 (144)
T PRK15359         95 VYQTGVCLKM-MGEPGLAREAFQTAIKMSYAD------ASWSEIRQNAQIM  138 (144)
T ss_pred             HHHHHHHHHH-cCCHHHHHHHHHHHHHhCCCC------hHHHHHHHHHHHH
Confidence            8888888888 488888888888888886654      2455556655543

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.07  E-value=2.4e-08  Score=79.79  Aligned_cols=140  Identities=12%  Similarity=0.066  Sum_probs=84.9

Q ss_pred             CCCHHHHHHHHHHH--------------HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHH
Q psy5288          33 GNKTDEAIDLYVRA--------------GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAE   97 (186)
Q Consensus        33 ~~~~~~A~~~y~~a--------------g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~   97 (186)
                      .|++++|...|.++              |.++...|++++|+..|.+++++     +|... ..+.+.|.++... ++++
T Consensus        77 ~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l-----~P~~~-~a~~~lg~~l~~~g~~~e  150 (296)
T PRK11189         77 LGLRALARNDFSQALALRPDMADAYNYLGIYLTQAGNFDAAYEAFDSVLEL-----DPTYN-YAYLNRGIALYYGGRYEL  150 (296)
T ss_pred             CCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-----CCCCH-HHHHHHHHHHHHCCCHHH
Confidence            35667776666665              55677778888888888888776     34433 3455677776655 7888


Q ss_pred             HHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhcc-----------CC-----------
Q psy5288          98 AIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGE-----------EN-----------  155 (186)
Q Consensus        98 A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~-----------~~-----------  155 (186)
                      |++.+++++.+.+...  .  ...+.   .+.... +++++|+..+.+++......           +.           
T Consensus       151 A~~~~~~al~~~P~~~--~--~~~~~---~l~~~~-~~~~~A~~~l~~~~~~~~~~~~~~~~~~~~lg~~~~~~~~~~~~  222 (296)
T PRK11189        151 AQDDLLAFYQDDPNDP--Y--RALWL---YLAESK-LDPKQAKENLKQRYEKLDKEQWGWNIVEFYLGKISEETLMERLK  222 (296)
T ss_pred             HHHHHHHHHHhCCCCH--H--HHHHH---HHHHcc-CCHHHHHHHHHHHHhhCCccccHHHHHHHHccCCCHHHHHHHHH
Confidence            8888888776543321  0  00111   122222 55666666665444321100           00           


Q ss_pred             ---------hHHHHHHHHHHHHHHHhccCHHHHHHHHHhC
Q psy5288         156 ---------KSSANKCLIKIANYSALTDHLDKAIKLYEQL  186 (186)
Q Consensus       156 ---------~~~~~~~~~~la~~y~~~g~~~~A~~~~~~~  186 (186)
                               .......|.++|.+|..+|++++|+.+|+++
T Consensus       223 ~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~A  262 (296)
T PRK11189        223 AGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLA  262 (296)
T ss_pred             hcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence                     0011247889999999999999999999863

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=99.07  E-value=1e-08  Score=78.81  Aligned_cols=146  Identities=16%  Similarity=0.080  Sum_probs=112.3

Q ss_pred             CCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHc
Q psy5288          34 NKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDM  112 (186)
Q Consensus        34 ~~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~  112 (186)
                      +..+...+.+...|..+...|++++|+..|.+++.....   .......+..+|.+|... ++++|+..|+++++.+...
T Consensus        27 ~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~---~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~  103 (235)
T TIGR03302        27 PVEEWPAEELYEEAKEALDSGDYTEAIKYFEALESRYPF---SPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNH  103 (235)
T ss_pred             CcccCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC---chhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCC
Confidence            466788888999999999999999999999999887421   112345577889999877 9999999999999888754


Q ss_pred             CChhHHHHHHHHHHHHHHHh-------cCCHHHHHHHHHHHHHHHhccCChHHHH-----------HHHHHHHHHHHhcc
Q psy5288         113 GRFIMVAKHHENIAEIYEKE-------LEDQEKAIDHYQHAADCYAGEENKSSAN-----------KCLIKIANYSALTD  174 (186)
Q Consensus       113 ~~~~~~a~~~~~lg~~y~~~-------lg~~~~Ai~~y~kA~~l~~~~~~~~~~~-----------~~~~~la~~y~~~g  174 (186)
                      ..   +...+..+|.++...       .|++++|+..|++++..+++........           .....+|.+|...|
T Consensus       104 ~~---~~~a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~g  180 (235)
T TIGR03302       104 PD---ADYAYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRYPNSEYAPDAKKRMDYLRNRLAGKELYVARFYLKRG  180 (235)
T ss_pred             Cc---hHHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence            43   334677888887752       1789999999999999988753221111           12247899999999


Q ss_pred             CHHHHHHHHHh
Q psy5288         175 HLDKAIKLYEQ  185 (186)
Q Consensus       175 ~~~~A~~~~~~  185 (186)
                      ++.+|+..|++
T Consensus       181 ~~~~A~~~~~~  191 (235)
T TIGR03302       181 AYVAAINRFET  191 (235)
T ss_pred             ChHHHHHHHHH
Confidence            99999999875

Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).

>TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein

Probab=99.06  E-value=5.1e-09  Score=93.15  Aligned_cols=141  Identities=13%  Similarity=0.139  Sum_probs=87.9

Q ss_pred             CCCCHHHHHHHHHHH-------------HHHHHhcCCHHHHHHHHHHHHHHH--------------HHcCChhHH-----
Q psy5288          32 GGNKTDEAIDLYVRA-------------GNLFKLGKKWNDGGNAFLQAGTLH--------------LKNNNKHDA-----   79 (186)
Q Consensus        32 ~~~~~~~A~~~y~~a-------------g~~~~~~g~~~~A~~~y~~a~~~~--------------~~~~~~~~a-----   79 (186)
                      ..|++++|+..|.++             +.++...|++++|.+.+.++++..              ...|+...+     
T Consensus       715 ~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~  794 (899)
T TIGR02917       715 RQKDYPAAIQAYRKALKRAPSSQNAIKLHRALLASGNTAEAVKTLEAWLKTHPNDAVLRTALAELYLAQKDYDKAIKHYR  794 (899)
T ss_pred             HCCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCcCHHHHHHHHH
Confidence            346666666666653             556666666666666665555431              111111111     


Q ss_pred             ---------HHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q psy5288          80 ---------GLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADC  149 (186)
Q Consensus        80 ---------a~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l  149 (186)
                               ...+..++.++... + .+|+..+++++.+....      ..++..+|.++... |++++|+.+|++++++
T Consensus       795 ~~~~~~p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~~~~------~~~~~~~~~~~~~~-g~~~~A~~~~~~a~~~  866 (899)
T TIGR02917       795 TVVKKAPDNAVVLNNLAWLYLELKD-PRALEYAEKALKLAPNI------PAILDTLGWLLVEK-GEADRALPLLRKAVNI  866 (899)
T ss_pred             HHHHhCCCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhCCCC------cHHHHHHHHHHHHc-CCHHHHHHHHHHHHhh
Confidence                     12223334444433 3 44555555555442211      22456788888884 9999999999999998


Q ss_pred             HhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHhC
Q psy5288         150 YAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQL  186 (186)
Q Consensus       150 ~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~~  186 (186)
                      .+..      ..++.+++.+|.+.|++++|+++++++
T Consensus       867 ~~~~------~~~~~~l~~~~~~~g~~~~A~~~~~~~  897 (899)
T TIGR02917       867 APEA------AAIRYHLALALLATGRKAEARKELDKL  897 (899)
T ss_pred             CCCC------hHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            6642      368888999999999999999999874

This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.06  E-value=9.9e-09  Score=82.04  Aligned_cols=129  Identities=15%  Similarity=0.009  Sum_probs=102.3

Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCCh
Q psy5288          37 DEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRF  115 (186)
Q Consensus        37 ~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~  115 (186)
                      +.-...|...|.+|...|++++|...|.+++++     +|.. ...|..+|.+|... ++++|+..|++++++....   
T Consensus        61 ~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l-----~P~~-~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~~---  131 (296)
T PRK11189         61 EERAQLHYERGVLYDSLGLRALARNDFSQALAL-----RPDM-ADAYNYLGIYLTQAGNFDAAYEAFDSVLELDPTY---  131 (296)
T ss_pred             HhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc-----CCCC-HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC---
Confidence            444567888899999999999999999999997     4443 46778999999877 9999999999999886554   


Q ss_pred             hHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         116 IMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       116 ~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                         ...+.++|.++... |++++|+..+++++.+.++..  .  ...|.   .+....+++++|+..|.+
T Consensus       132 ---~~a~~~lg~~l~~~-g~~~eA~~~~~~al~~~P~~~--~--~~~~~---~l~~~~~~~~~A~~~l~~  190 (296)
T PRK11189        132 ---NYAYLNRGIALYYG-GRYELAQDDLLAFYQDDPNDP--Y--RALWL---YLAESKLDPKQAKENLKQ  190 (296)
T ss_pred             ---HHHHHHHHHHHHHC-CCHHHHHHHHHHHHHhCCCCH--H--HHHHH---HHHHccCCHHHHHHHHHH
Confidence               33789999999985 999999999999999876542  1  11222   234567889999998854

>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B

Probab=99.05  E-value=1.4e-08  Score=80.27  Aligned_cols=124  Identities=17%  Similarity=0.157  Sum_probs=77.0

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHH
Q psy5288          44 VRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHH  122 (186)
Q Consensus        44 ~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~  122 (186)
                      ...|.++...|++++|+.+|.+++++     +|.... ....++.++... +.+++...+............      .+
T Consensus       150 ~~~a~~~~~~G~~~~A~~~~~~al~~-----~P~~~~-~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~~------~~  217 (280)
T PF13429_consen  150 LALAEIYEQLGDPDKALRDYRKALEL-----DPDDPD-ARNALAWLLIDMGDYDEAREALKRLLKAAPDDPD------LW  217 (280)
T ss_dssp             HHHHHHHHHCCHHHHHHHHHHHHHHH------TT-HH-HHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSCC------HC
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHc-----CCCCHH-HHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHHH------HH
Confidence            33367788899999999999999888     354332 333566666655 667766666555554444433      56


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHhC
Q psy5288         123 ENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQL  186 (186)
Q Consensus       123 ~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~~  186 (186)
                      ..+|.+|.. +|++++|+.+|++++...+++      ...+.++|.++...|++++|..++.++
T Consensus       218 ~~la~~~~~-lg~~~~Al~~~~~~~~~~p~d------~~~~~~~a~~l~~~g~~~~A~~~~~~~  274 (280)
T PF13429_consen  218 DALAAAYLQ-LGRYEEALEYLEKALKLNPDD------PLWLLAYADALEQAGRKDEALRLRRQA  274 (280)
T ss_dssp             HHHHHHHHH-HT-HHHHHHHHHHHHHHSTT-------HHHHHHHHHHHT---------------
T ss_pred             HHHHHHhcc-ccccccccccccccccccccc------ccccccccccccccccccccccccccc
Confidence            778999998 699999999999999976653      367789999999999999999988764

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.05  E-value=3.7e-09  Score=93.02  Aligned_cols=134  Identities=14%  Similarity=0.015  Sum_probs=61.8

Q ss_pred             CCCCHHHHHHHHHHH---------------HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CH
Q psy5288          32 GGNKTDEAIDLYVRA---------------GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NP   95 (186)
Q Consensus        32 ~~~~~~~A~~~y~~a---------------g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~   95 (186)
                      ..|++++|++.+.++               +.++...|++++|+..|.+++.+.     +.. ...+..+|.+|... ++
T Consensus       189 ~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-----p~~-~~~~~~Lg~~l~~~G~~  262 (656)
T PRK15174        189 NKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-----LDG-AALRRSLGLAYYQSGRS  262 (656)
T ss_pred             HcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-----CCC-HHHHHHHHHHHHHcCCc
Confidence            345666666655542               334555666666666666665541     111 22333444444433 33


Q ss_pred             HH----HHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHH
Q psy5288          96 AE----AIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSA  171 (186)
Q Consensus        96 ~~----A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~  171 (186)
                      ++    |+..|++++.+....      +.++..+|.++..+ |++++|+.++++++.+.+..      ..++.++|.+|.
T Consensus       263 ~eA~~~A~~~~~~Al~l~P~~------~~a~~~lg~~l~~~-g~~~eA~~~l~~al~l~P~~------~~a~~~La~~l~  329 (656)
T PRK15174        263 REAKLQAAEHWRHALQFNSDN------VRIVTLYADALIRT-GQNEKAIPLLQQSLATHPDL------PYVRAMYARALR  329 (656)
T ss_pred             hhhHHHHHHHHHHHHhhCCCC------HHHHHHHHHHHHHC-CCHHHHHHHHHHHHHhCCCC------HHHHHHHHHHHH
Confidence            32    455555554443211      22444445554442 45555555555554443321      123344444444


Q ss_pred             hccCHHHHHHHHH
Q psy5288         172 LTDHLDKAIKLYE  184 (186)
Q Consensus       172 ~~g~~~~A~~~~~  184 (186)
                      ..|++++|+..|+
T Consensus       330 ~~G~~~eA~~~l~  342 (656)
T PRK15174        330 QVGQYTAASDEFV  342 (656)
T ss_pred             HCCCHHHHHHHHH
Confidence            4444444444443

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.01  E-value=8.4e-09  Score=90.78  Aligned_cols=135  Identities=16%  Similarity=0.119  Sum_probs=110.2

Q ss_pred             CCCCHHHHHHHHHHH--------------HHHHHhcCCHHH----HHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC
Q psy5288          32 GGNKTDEAIDLYVRA--------------GNLFKLGKKWND----GGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS   93 (186)
Q Consensus        32 ~~~~~~~A~~~y~~a--------------g~~~~~~g~~~~----A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~   93 (186)
                      ..+++++|+..|.++              |.++...|++++    |...|.+++.+     +|.. ...+..+|.++...
T Consensus       224 ~~g~~~eA~~~~~~al~~~p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l-----~P~~-~~a~~~lg~~l~~~  297 (656)
T PRK15174        224 AVGKYQEAIQTGESALARGLDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQF-----NSDN-VRIVTLYADALIRT  297 (656)
T ss_pred             HCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhh-----CCCC-HHHHHHHHHHHHHC
Confidence            468999999998876              667888999986    89999999987     4543 45667888888876


Q ss_pred             -CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHh
Q psy5288          94 -NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSAL  172 (186)
Q Consensus        94 -~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~  172 (186)
                       ++++|+.++++++.+....      +.++..+|.+|.. +|++++|+..|++++...+..      ...+..+|.++..
T Consensus       298 g~~~eA~~~l~~al~l~P~~------~~a~~~La~~l~~-~G~~~eA~~~l~~al~~~P~~------~~~~~~~a~al~~  364 (656)
T PRK15174        298 GQNEKAIPLLQQSLATHPDL------PYVRAMYARALRQ-VGQYTAASDEFVQLAREKGVT------SKWNRYAAAALLQ  364 (656)
T ss_pred             CCHHHHHHHHHHHHHhCCCC------HHHHHHHHHHHHH-CCCHHHHHHHHHHHHHhCccc------hHHHHHHHHHHHH
Confidence             9999999999999875443      3467789999999 499999999999999975532      1345567899999


Q ss_pred             ccCHHHHHHHHHh
Q psy5288         173 TDHLDKAIKLYEQ  185 (186)
Q Consensus       173 ~g~~~~A~~~~~~  185 (186)
                      .|++++|+..|++
T Consensus       365 ~G~~deA~~~l~~  377 (656)
T PRK15174        365 AGKTSEAESVFEH  377 (656)
T ss_pred             CCCHHHHHHHHHH
Confidence            9999999999976

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=99.01  E-value=1e-08  Score=73.43  Aligned_cols=103  Identities=13%  Similarity=0.089  Sum_probs=83.5

Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHH
Q psy5288          61 NAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKA  139 (186)
Q Consensus        61 ~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~A  139 (186)
                      .++.+++++     +|..    +...|.++... ++++|+.+|++++.+....      ..++..+|.++.. +|++++|
T Consensus        14 ~~~~~al~~-----~p~~----~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~------~~a~~~lg~~~~~-~g~~~~A   77 (144)
T PRK15359         14 DILKQLLSV-----DPET----VYASGYASWQEGDYSRAVIDFSWLVMAQPWS------WRAHIALAGTWMM-LKEYTTA   77 (144)
T ss_pred             HHHHHHHHc-----CHHH----HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCc------HHHHHHHHHHHHH-HhhHHHH
Confidence            466777777     4543    33456665544 9999999999998775444      4588999999999 5999999


Q ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         140 IDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       140 i~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      +.+|++|+.+.+..      ...+.++|.++..+|++++|++.|++
T Consensus        78 ~~~y~~Al~l~p~~------~~a~~~lg~~l~~~g~~~eAi~~~~~  117 (144)
T PRK15359         78 INFYGHALMLDASH------PEPVYQTGVCLKMMGEPGLAREAFQT  117 (144)
T ss_pred             HHHHHHHHhcCCCC------cHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            99999999987654      37889999999999999999999976

>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]

Probab=98.99  E-value=2.4e-08  Score=79.02  Aligned_cols=148  Identities=18%  Similarity=0.167  Sum_probs=98.0

Q ss_pred             cCCCCHHHHHHHHHHH--------------HHHHHhcCCHHHHHHHHHHHHHH-----------HHHcCC----------
Q psy5288          31 TGGNKTDEAIDLYVRA--------------GNLFKLGKKWNDGGNAFLQAGTL-----------HLKNNN----------   75 (186)
Q Consensus        31 ~~~~~~~~A~~~y~~a--------------g~~~~~~g~~~~A~~~y~~a~~~-----------~~~~~~----------   75 (186)
                      +-+.+.++|++.|...              |++|+..|..+.|+...+-..+.           .+.+|.          
T Consensus        46 LLs~Q~dKAvdlF~e~l~~d~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DR  125 (389)
T COG2956          46 LLSNQPDKAVDLFLEMLQEDPETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDR  125 (389)
T ss_pred             HhhcCcchHHHHHHHHHhcCchhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhH
Confidence            3567888888888876              77888888888888776422221           111222          


Q ss_pred             -----------hhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHH
Q psy5288          76 -----------KHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHY  143 (186)
Q Consensus        76 -----------~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y  143 (186)
                                 ++.+-.+...+..+|... ++.+|++..++-+.+-.+. ....+|..+-+++..+... .+.+.|+.++
T Consensus       126 AE~~f~~L~de~efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~-~~~eIAqfyCELAq~~~~~-~~~d~A~~~l  203 (389)
T COG2956         126 AEDIFNQLVDEGEFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQT-YRVEIAQFYCELAQQALAS-SDVDRARELL  203 (389)
T ss_pred             HHHHHHHHhcchhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCcc-chhHHHHHHHHHHHHHhhh-hhHHHHHHHH
Confidence                       222333333344444443 4555555544433332222 2356788888888888876 8999999999


Q ss_pred             HHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHhC
Q psy5288         144 QHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQL  186 (186)
Q Consensus       144 ~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~~  186 (186)
                      .+|+...++.-      ..-+-+|.++...|+|++|++.+++|
T Consensus       204 ~kAlqa~~~cv------RAsi~lG~v~~~~g~y~~AV~~~e~v  240 (389)
T COG2956         204 KKALQADKKCV------RASIILGRVELAKGDYQKAVEALERV  240 (389)
T ss_pred             HHHHhhCccce------ehhhhhhHHHHhccchHHHHHHHHHH
Confidence            99999876542      44577899999999999999998764

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=98.98  E-value=3.3e-08  Score=92.09  Aligned_cols=141  Identities=13%  Similarity=0.118  Sum_probs=111.4

Q ss_pred             CCCCHHHHHHHHH----------HHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHH
Q psy5288          32 GGNKTDEAIDLYV----------RAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIK  100 (186)
Q Consensus        32 ~~~~~~~A~~~y~----------~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~  100 (186)
                      ..|++++|+.++.          ..|.++...|++++|+.+|.+++.+     +|.. ...+..++.+|... ++++|+.
T Consensus       585 ~~G~~~eA~~~l~~~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~-----~P~~-~~a~~~la~~~~~~g~~~eA~~  658 (1157)
T PRK11447        585 DSGKEAEAEALLRQQPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTR-----EPGN-ADARLGLIEVDIAQGDLAAARA  658 (1157)
T ss_pred             HCCCHHHHHHHHHhCCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHh-----CCCC-HHHHHHHHHHHHHCCCHHHHHH
Confidence            3467888877765          3588899999999999999999997     4443 34567889999877 9999999


Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHH
Q psy5288         101 AIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAI  180 (186)
Q Consensus       101 ~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~  180 (186)
                      ++++++......      ...+..+|.++.. +|++++|+.+|++++...++.........++..+|.++...|++++|+
T Consensus       659 ~l~~ll~~~p~~------~~~~~~la~~~~~-~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~  731 (1157)
T PRK11447        659 QLAKLPATANDS------LNTQRRVALAWAA-LGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQAL  731 (1157)
T ss_pred             HHHHHhccCCCC------hHHHHHHHHHHHh-CCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHH
Confidence            999876543222      3467789999998 499999999999999987654322223457788999999999999999


Q ss_pred             HHHHh
Q psy5288         181 KLYEQ  185 (186)
Q Consensus       181 ~~~~~  185 (186)
                      ..|++
T Consensus       732 ~~y~~  736 (1157)
T PRK11447        732 ETYKD  736 (1157)
T ss_pred             HHHHH
Confidence            99976

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=98.98  E-value=1.9e-08  Score=76.16  Aligned_cols=137  Identities=15%  Similarity=0.106  Sum_probs=113.2

Q ss_pred             CCCCHHHHHHHHHHH--------------HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHH-hcCCHH
Q psy5288          32 GGNKTDEAIDLYVRA--------------GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCY-KKSNPA   96 (186)
Q Consensus        32 ~~~~~~~A~~~y~~a--------------g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y-~~~~~~   96 (186)
                      ..|++..|...++++              +.+|...|..+.|-+.|.+|+++..+.|      ..++|-|-.. ...+|+
T Consensus        47 ~~gd~~~A~~nlekAL~~DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~~G------dVLNNYG~FLC~qg~~~  120 (250)
T COG3063          47 QQGDYAQAKKNLEKALEHDPSYYLAHLVRAHYYQKLGENDLADESYRKALSLAPNNG------DVLNNYGAFLCAQGRPE  120 (250)
T ss_pred             HCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCCcc------chhhhhhHHHHhCCChH
Confidence            347889999888888              4479999999999999999999854443      4555655443 444999


Q ss_pred             HHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCH
Q psy5288          97 EAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHL  176 (186)
Q Consensus        97 ~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~  176 (186)
                      +|...|++|+.    .-.+...+..+.|+|.|-... |+.++|.++|++++++.++..      .....++....+.|+|
T Consensus       121 eA~q~F~~Al~----~P~Y~~~s~t~eN~G~Cal~~-gq~~~A~~~l~raL~~dp~~~------~~~l~~a~~~~~~~~y  189 (250)
T COG3063         121 EAMQQFERALA----DPAYGEPSDTLENLGLCALKA-GQFDQAEEYLKRALELDPQFP------PALLELARLHYKAGDY  189 (250)
T ss_pred             HHHHHHHHHHh----CCCCCCcchhhhhhHHHHhhc-CCchhHHHHHHHHHHhCcCCC------hHHHHHHHHHHhcccc
Confidence            99999999863    445667788999999999996 999999999999999987653      5678899999999999


Q ss_pred             HHHHHHHHh
Q psy5288         177 DKAIKLYEQ  185 (186)
Q Consensus       177 ~~A~~~~~~  185 (186)
                      ..|.-++++
T Consensus       190 ~~Ar~~~~~  198 (250)
T COG3063         190 APARLYLER  198 (250)
T ss_pred             hHHHHHHHH
Confidence            999998875

>KOG2003|consensus

Probab=98.96  E-value=9.3e-09  Score=84.74  Aligned_cols=116  Identities=19%  Similarity=0.175  Sum_probs=94.6

Q ss_pred             HHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHH
Q psy5288          49 LFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAE  127 (186)
Q Consensus        49 ~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~  127 (186)
                      +-...|++++|+++|..++.      +-.....++.++|..+..+ +.++|+.||-+.--|+...      +.+++.++.
T Consensus       499 ~~f~ngd~dka~~~ykeal~------ndasc~ealfniglt~e~~~~ldeald~f~klh~il~nn------~evl~qian  566 (840)
T KOG2003|consen  499 IAFANGDLDKAAEFYKEALN------NDASCTEALFNIGLTAEALGNLDEALDCFLKLHAILLNN------AEVLVQIAN  566 (840)
T ss_pred             eeeecCcHHHHHHHHHHHHc------CchHHHHHHHHhcccHHHhcCHHHHHHHHHHHHHHHHhh------HHHHHHHHH
Confidence            33456788999998888876      4556677888999999988 9999999998766665444      668999999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHH
Q psy5288         128 IYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLY  183 (186)
Q Consensus       128 ~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~  183 (186)
                      +|+. +.+..+||++|.++..+.+..      ..++.+||.+|-+.|+-.+|.+++
T Consensus       567 iye~-led~aqaie~~~q~~slip~d------p~ilskl~dlydqegdksqafq~~  615 (840)
T KOG2003|consen  567 IYEL-LEDPAQAIELLMQANSLIPND------PAILSKLADLYDQEGDKSQAFQCH  615 (840)
T ss_pred             HHHH-hhCHHHHHHHHHHhcccCCCC------HHHHHHHHHHhhcccchhhhhhhh
Confidence            9999 699999999999999987754      367888899988888888887765

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.96  E-value=2.7e-07  Score=66.06  Aligned_cols=136  Identities=15%  Similarity=0.108  Sum_probs=102.2

Q ss_pred             CHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcC
Q psy5288          35 KTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMG  113 (186)
Q Consensus        35 ~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~  113 (186)
                      +-+++...|..+...+. .++...+...+....+-   .++...+......++.++... ++++|+..|++++.-.   .
T Consensus         7 ~~~~a~~~y~~~~~~~~-~~~~~~~~~~~~~l~~~---~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~---~   79 (145)
T PF09976_consen    7 QAEQASALYEQALQALQ-AGDPAKAEAAAEQLAKD---YPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANA---P   79 (145)
T ss_pred             HHHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHHH---CCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC---C
Confidence            44678888888877774 78888876655555553   333334555566777777665 9999999999987733   4


Q ss_pred             ChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         114 RFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       114 ~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ++.....+...+|.++..+ |++++|+..++..       ..+.+....+..+|.+|.+.|++++|+..|++
T Consensus        80 d~~l~~~a~l~LA~~~~~~-~~~d~Al~~L~~~-------~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen   80 DPELKPLARLRLARILLQQ-GQYDEALATLQQI-------PDEAFKALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             CHHHHHHHHHHHHHHHHHc-CCHHHHHHHHHhc-------cCcchHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            5566677888999999995 9999999998661       12233456778899999999999999999986

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=98.95  E-value=2.9e-08  Score=72.74  Aligned_cols=116  Identities=14%  Similarity=0.100  Sum_probs=90.6

Q ss_pred             CCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHH
Q psy5288          33 GNKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTD  111 (186)
Q Consensus        33 ~~~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~  111 (186)
                      ...-+..+.++...|..+...|++++|+.+|.+++.+.   .++...+..+.++|.+|... ++++|+.+|++|+.+...
T Consensus        28 ~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~---~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~  104 (168)
T CHL00033         28 TTSGEKEAFTYYRDGMSAQSEGEYAEALQNYYEAMRLE---IDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERNPF  104 (168)
T ss_pred             CCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcc---ccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC
Confidence            34556778889999999999999999999999999883   23334456888999999987 999999999999998654


Q ss_pred             cCC-hhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhc
Q psy5288         112 MGR-FIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAG  152 (186)
Q Consensus       112 ~~~-~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~  152 (186)
                      .+. ....+.++..+|..+.. +|+++.|+..+.+|+.++++
T Consensus       105 ~~~~~~~la~i~~~~~~~~~~-~g~~~~A~~~~~~a~~~~~~  145 (168)
T CHL00033        105 LPQALNNMAVICHYRGEQAIE-QGDSEIAEAWFDQAAEYWKQ  145 (168)
T ss_pred             cHHHHHHHHHHHHHhhHHHHH-cccHHHHHHHHHHHHHHHHH
Confidence            432 23444555555555557 49999999999888888776

>PRK12370 invasion protein regulator; Provisional

Probab=98.95  E-value=2.6e-08  Score=86.16  Aligned_cols=112  Identities=10%  Similarity=-0.044  Sum_probs=70.6

Q ss_pred             CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhc
Q psy5288          55 KWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKEL  133 (186)
Q Consensus        55 ~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~l  133 (186)
                      ++++|...+.+++++     +|... .++..+|.++... ++++|+.+|++|+++....      +..+..+|.++... 
T Consensus       319 ~~~~A~~~~~~Al~l-----dP~~~-~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~~------~~a~~~lg~~l~~~-  385 (553)
T PRK12370        319 AMIKAKEHAIKATEL-----DHNNP-QALGLLGLINTIHSEYIVGSLLFKQANLLSPIS------ADIKYYYGWNLFMA-  385 (553)
T ss_pred             HHHHHHHHHHHHHhc-----CCCCH-HHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCC------HHHHHHHHHHHHHC-
Confidence            366777777777666     34433 3344566666554 7777777777777664333      23567777777774 


Q ss_pred             CCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         134 EDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       134 g~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      |++++|+.++++|+.+.+...      .....++.++...|++++|+..+++
T Consensus       386 G~~~eAi~~~~~Al~l~P~~~------~~~~~~~~~~~~~g~~eeA~~~~~~  431 (553)
T PRK12370        386 GQLEEALQTINECLKLDPTRA------AAGITKLWITYYHTGIDDAIRLGDE  431 (553)
T ss_pred             CCHHHHHHHHHHHHhcCCCCh------hhHHHHHHHHHhccCHHHHHHHHHH
Confidence            888888888888877755421      1223344455667778878777654

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.92  E-value=2.1e-08  Score=75.67  Aligned_cols=114  Identities=14%  Similarity=0.133  Sum_probs=72.9

Q ss_pred             cCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHH-H
Q psy5288          53 GKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIY-E  130 (186)
Q Consensus        53 ~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y-~  130 (186)
                      .++.++++..+.+++..     +|.. ...+..+|.+|... ++++|+.+|++|+.+....      +.++..+|.++ .
T Consensus        52 ~~~~~~~i~~l~~~L~~-----~P~~-~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P~~------~~~~~~lA~aL~~  119 (198)
T PRK10370         52 QQTPEAQLQALQDKIRA-----NPQN-SEQWALLGEYYLWRNDYDNALLAYRQALQLRGEN------AELYAALATVLYY  119 (198)
T ss_pred             chhHHHHHHHHHHHHHH-----CCCC-HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC------HHHHHHHHHHHHH
Confidence            44556666666666655     3333 33566777777665 7777777777777766544      33566677653 4


Q ss_pred             HhcCC--HHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         131 KELED--QEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       131 ~~lg~--~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      . .|+  +++|+..+++++.+.++.      ..++.++|.++...|+|++|+.++++
T Consensus       120 ~-~g~~~~~~A~~~l~~al~~dP~~------~~al~~LA~~~~~~g~~~~Ai~~~~~  169 (198)
T PRK10370        120 Q-AGQHMTPQTREMIDKALALDANE------VTALMLLASDAFMQADYAQAIELWQK  169 (198)
T ss_pred             h-cCCCCcHHHHHHHHHHHHhCCCC------hhHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            4 255  477777777777776543      25667777777777777777777765

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=98.91  E-value=3.1e-08  Score=90.33  Aligned_cols=133  Identities=11%  Similarity=0.052  Sum_probs=113.3

Q ss_pred             CCHHHHHHHHHHH-------------HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHH
Q psy5288          34 NKTDEAIDLYVRA-------------GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAI   99 (186)
Q Consensus        34 ~~~~~A~~~y~~a-------------g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~   99 (186)
                      |++++|+..|.++             |.++...|++++|+.+|.+++.+     +|... ..+.++|.++... ++++|+
T Consensus       590 Gr~~eAl~~~~~AL~l~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l-----~Pd~~-~a~~nLG~aL~~~G~~eeAi  663 (987)
T PRK09782        590 GQPELALNDLTRSLNIAPSANAYVARATIYRQRHNVPAAVSDLRAALEL-----EPNNS-NYQAALGYALWDSGDIAQSR  663 (987)
T ss_pred             CCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-----CCCCH-HHHHHHHHHHHHCCCHHHHH
Confidence            7999999888777             56788999999999999999998     55555 5677899888776 999999


Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHH
Q psy5288         100 KAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKA  179 (186)
Q Consensus       100 ~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A  179 (186)
                      .+|++|+++....      +.++.++|.++.. +|++++|+.+|++|+++.++.      ..+....|.+.....++..|
T Consensus       664 ~~l~~AL~l~P~~------~~a~~nLA~al~~-lGd~~eA~~~l~~Al~l~P~~------a~i~~~~g~~~~~~~~~~~a  730 (987)
T PRK09782        664 EMLERAHKGLPDD------PALIRQLAYVNQR-LDDMAATQHYARLVIDDIDNQ------ALITPLTPEQNQQRFNFRRL  730 (987)
T ss_pred             HHHHHHHHhCCCC------HHHHHHHHHHHHH-CCCHHHHHHHHHHHHhcCCCC------chhhhhhhHHHHHHHHHHHH
Confidence            9999999886544      4589999999999 599999999999999997654      35667889999999999999


Q ss_pred             HHHHHh
Q psy5288         180 IKLYEQ  185 (186)
Q Consensus       180 ~~~~~~  185 (186)
                      .+.+.+
T Consensus       731 ~~~~~r  736 (987)
T PRK09782        731 HEEVGR  736 (987)
T ss_pred             HHHHHH
Confidence            998765

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.91  E-value=5.8e-08  Score=85.55  Aligned_cols=160  Identities=11%  Similarity=0.048  Sum_probs=121.4

Q ss_pred             HHhHHHHHHHHHHhhccCCCCccc-------ccc-CCCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCh
Q psy5288           5 EQKARQLVAEAEKKISSSSKGFFS-------QFT-GGNKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNK   76 (186)
Q Consensus         5 ~~~~~~~~~~a~~~~~~~~~~~~~-------~~~-~~~~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~   76 (186)
                      ++-+.++.++++..++ . ++-+.       ++. -..+|..-.+.+..++.+-...|.+++|...+..++++     .|
T Consensus        45 ~~~~~~~~~~~~~~~~-~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~-----~P  117 (694)
T PRK15179         45 EEAGRELLQQARQVLE-R-HAAVHKPAAALPELLDYVRRYPHTELFQVLVARALEAAHRSDEGLAVWRGIHQR-----FP  117 (694)
T ss_pred             hhHHHHHHHHHHHHHH-H-hhhhcchHhhHHHHHHHHHhccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhh-----CC
Confidence            4566888999988887 2 22110       000 00233444566777788899999999999999999998     56


Q ss_pred             hHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCC
Q psy5288          77 HDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEEN  155 (186)
Q Consensus        77 ~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~  155 (186)
                      +...... ..+.+..+. ++++|+..+++++....+.      +..+..+|.++.. +|++++|+.+|++++.-.+  +.
T Consensus       118 d~~~a~~-~~a~~L~~~~~~eeA~~~~~~~l~~~p~~------~~~~~~~a~~l~~-~g~~~~A~~~y~~~~~~~p--~~  187 (694)
T PRK15179        118 DSSEAFI-LMLRGVKRQQGIEAGRAEIELYFSGGSSS------AREILLEAKSWDE-IGQSEQADACFERLSRQHP--EF  187 (694)
T ss_pred             CcHHHHH-HHHHHHHHhccHHHHHHHHHHHhhcCCCC------HHHHHHHHHHHHH-hcchHHHHHHHHHHHhcCC--Cc
Confidence            6665545 555555554 9999999999998877665      4588889999999 6999999999999998332  21


Q ss_pred             hHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         156 KSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       156 ~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                          ...+..+|.++...|+.++|...|++
T Consensus       188 ----~~~~~~~a~~l~~~G~~~~A~~~~~~  213 (694)
T PRK15179        188 ----ENGYVGWAQSLTRRGALWRARDVLQA  213 (694)
T ss_pred             ----HHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence                37889999999999999999999976

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=98.90  E-value=6.2e-08  Score=70.98  Aligned_cols=107  Identities=12%  Similarity=0.040  Sum_probs=79.1

Q ss_pred             ChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhcc
Q psy5288          75 NKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGE  153 (186)
Q Consensus        75 ~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~  153 (186)
                      .....+.++..+|.++... ++++|+.+|++++.+..   ++...+.++.++|.+|... |++++|+.+|++|+.+.+..
T Consensus        30 ~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~---~~~~~~~~~~~lg~~~~~~-g~~~eA~~~~~~Al~~~~~~  105 (168)
T CHL00033         30 SGEKEAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEI---DPYDRSYILYNIGLIHTSN-GEHTKALEYYFQALERNPFL  105 (168)
T ss_pred             chhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccc---cchhhHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHhCcCc
Confidence            3445677888999999876 99999999999998843   3344566899999999995 99999999999999986543


Q ss_pred             C-ChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         154 E-NKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       154 ~-~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      . .....+.++.++|.++..+|+++.|+..|++
T Consensus       106 ~~~~~~la~i~~~~~~~~~~~g~~~~A~~~~~~  138 (168)
T CHL00033        106 PQALNNMAVICHYRGEQAIEQGDSEIAEAWFDQ  138 (168)
T ss_pred             HHHHHHHHHHHHHhhHHHHHcccHHHHHHHHHH
Confidence            2 1122233444455555589998877666643

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.86  E-value=1.9e-07  Score=70.43  Aligned_cols=115  Identities=16%  Similarity=0.198  Sum_probs=88.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHH-HhcC-C--HHHHHHHHHHHHHHHHHcCChhH
Q psy5288          42 LYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANC-YKKS-N--PAEAIKAIERAVEIHTDMGRFIM  117 (186)
Q Consensus        42 ~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~-y~~~-~--~~~A~~~~~~Al~i~~~~~~~~~  117 (186)
                      .+...|.+|...|++++|+.+|.+++.+     +|.. ...+..+|.+ |... +  +++|...+++++.+......   
T Consensus        75 ~w~~Lg~~~~~~g~~~~A~~a~~~Al~l-----~P~~-~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~~~~---  145 (198)
T PRK10370         75 QWALLGEYYLWRNDYDNALLAYRQALQL-----RGEN-AELYAALATVLYYQAGQHMTPQTREMIDKALALDANEVT---  145 (198)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHh-----CCCC-HHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCChh---
Confidence            4556688999999999999999999998     4444 4445577775 4443 4  69999999999988877644   


Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHH
Q psy5288         118 VAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYS  170 (186)
Q Consensus       118 ~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y  170 (186)
                         .+..+|.++... |++++|+.+|++++++.+...++..... -++.+...
T Consensus       146 ---al~~LA~~~~~~-g~~~~Ai~~~~~aL~l~~~~~~r~~~i~-~i~~a~~~  193 (198)
T PRK10370        146 ---ALMLLASDAFMQ-ADYAQAIELWQKVLDLNSPRVNRTQLVE-SINMAKLL  193 (198)
T ss_pred             ---HHHHHHHHHHHc-CCHHHHHHHHHHHHhhCCCCccHHHHHH-HHHHHHHH
Confidence               889999999995 9999999999999999887665544432 24444433

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.84  E-value=1.5e-06  Score=78.97  Aligned_cols=140  Identities=12%  Similarity=0.063  Sum_probs=115.5

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCCh--hHHHH
Q psy5288          44 VRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRF--IMVAK  120 (186)
Q Consensus        44 ~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~--~~~a~  120 (186)
                      ...|.++...|++++|...+.++....+..|++......+..++.++... ++++|..++++++++....+..  ...+.
T Consensus       495 ~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~  574 (903)
T PRK04841        495 SVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEF  574 (903)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHH
Confidence            34456678899999999999999999999998888777888888888766 9999999999999998877532  22344


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         121 HHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       121 ~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      .+..+|.++..+ |++++|...+.+++.+.+..+. .....++..+|.++...|++++|...+++
T Consensus       575 ~~~~la~~~~~~-G~~~~A~~~~~~al~~~~~~~~-~~~~~~~~~la~~~~~~G~~~~A~~~l~~  637 (903)
T PRK04841        575 LLRIRAQLLWEW-ARLDEAEQCARKGLEVLSNYQP-QQQLQCLAMLAKISLARGDLDNARRYLNR  637 (903)
T ss_pred             HHHHHHHHHHHh-cCHHHHHHHHHHhHHhhhccCc-hHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            566789999885 9999999999999999876543 23346778899999999999999988764

>KOG0553|consensus

Probab=98.78  E-value=9.7e-08  Score=74.85  Aligned_cols=104  Identities=22%  Similarity=0.315  Sum_probs=83.9

Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChh
Q psy5288          38 EAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFI  116 (186)
Q Consensus        38 ~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~  116 (186)
                      .-++-...-|+-+...++|.+|++.|.+|+.+     +|..+.. |.+=+..|.++ +++.|++-++.|+.|...-    
T Consensus        79 ~~AE~LK~eGN~~m~~~~Y~eAv~kY~~AI~l-----~P~nAVy-ycNRAAAy~~Lg~~~~AVkDce~Al~iDp~y----  148 (304)
T KOG0553|consen   79 ALAESLKNEGNKLMKNKDYQEAVDKYTEAIEL-----DPTNAVY-YCNRAAAYSKLGEYEDAVKDCESALSIDPHY----  148 (304)
T ss_pred             HHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhc-----CCCcchH-HHHHHHHHHHhcchHHHHHHHHHHHhcChHH----
Confidence            33444555588888999999999999999999     6666654 44555566666 8999999999999876444    


Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccC
Q psy5288         117 MVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEE  154 (186)
Q Consensus       117 ~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~  154 (186)
                        ...|.+||.+|.. +|++++|++.|++|+++.+.+.
T Consensus       149 --skay~RLG~A~~~-~gk~~~A~~aykKaLeldP~Ne  183 (304)
T KOG0553|consen  149 --SKAYGRLGLAYLA-LGKYEEAIEAYKKALELDPDNE  183 (304)
T ss_pred             --HHHHHHHHHHHHc-cCcHHHHHHHHHhhhccCCCcH
Confidence              3478999999999 5999999999999999988653

>KOG1173|consensus

Probab=98.77  E-value=9.4e-08  Score=80.32  Aligned_cols=139  Identities=17%  Similarity=0.155  Sum_probs=100.8

Q ss_pred             CCCHHHHHHHHHHH--------------HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhc-CCHHH
Q psy5288          33 GNKTDEAIDLYVRA--------------GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKK-SNPAE   97 (186)
Q Consensus        33 ~~~~~~A~~~y~~a--------------g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~-~~~~~   97 (186)
                      .+++.+|..+|.++              |..|...|..++|..||..|.++....-.|     .+ =+|--|.. .+..-
T Consensus       325 i~k~seARry~SKat~lD~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G~hlP-----~L-Ylgmey~~t~n~kL  398 (611)
T KOG1173|consen  325 IGKYSEARRYFSKATTLDPTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPGCHLP-----SL-YLGMEYMRTNNLKL  398 (611)
T ss_pred             hcCcHHHHHHHHHHhhcCccccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccCCcch-----HH-HHHHHHHHhccHHH
Confidence            36667777777766              456667777777777777777775432222     11 23333433 36778


Q ss_pred             HHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCCh--HHHHHHHHHHHHHHHhccC
Q psy5288          98 AIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENK--SSANKCLIKIANYSALTDH  175 (186)
Q Consensus        98 A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~--~~~~~~~~~la~~y~~~g~  175 (186)
                      |-++|.+|+.|.+..      .-++..+|-+.... +.|.+|+.+|+.++...+.....  .|. ..++|||.+|++++.
T Consensus       399 Ae~Ff~~A~ai~P~D------plv~~Elgvvay~~-~~y~~A~~~f~~~l~~ik~~~~e~~~w~-p~~~NLGH~~Rkl~~  470 (611)
T KOG1173|consen  399 AEKFFKQALAIAPSD------PLVLHELGVVAYTY-EEYPEALKYFQKALEVIKSVLNEKIFWE-PTLNNLGHAYRKLNK  470 (611)
T ss_pred             HHHHHHHHHhcCCCc------chhhhhhhheeehH-hhhHHHHHHHHHHHHHhhhccccccchh-HHHHhHHHHHHHHhh
Confidence            888999988876544      23678899998875 89999999999999776654433  354 588999999999999


Q ss_pred             HHHHHHHHHh
Q psy5288         176 LDKAIKLYEQ  185 (186)
Q Consensus       176 ~~~A~~~~~~  185 (186)
                      |++||.+|++
T Consensus       471 ~~eAI~~~q~  480 (611)
T KOG1173|consen  471 YEEAIDYYQK  480 (611)
T ss_pred             HHHHHHHHHH
Confidence            9999999986

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=98.77  E-value=2.4e-07  Score=75.23  Aligned_cols=96  Identities=16%  Similarity=0.152  Sum_probs=76.5

Q ss_pred             HHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHH
Q psy5288          81 LCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSA  159 (186)
Q Consensus        81 ~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~  159 (186)
                      ......|.++... ++++|+..+++++++....      +..+..+|.++... |++++|+.+++++++..+..  +...
T Consensus       115 ~~~~~~a~~~~~~G~~~~A~~~~~~al~~~p~~------~~~~~~la~i~~~~-g~~~eA~~~l~~~l~~~~~~--~~~~  185 (355)
T cd05804         115 YLLGMLAFGLEEAGQYDRAEEAARRALELNPDD------AWAVHAVAHVLEMQ-GRFKEGIAFMESWRDTWDCS--SMLR  185 (355)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCC------cHHHHHHHHHHHHc-CCHHHHHHHHHhhhhccCCC--cchh
Confidence            3444556666655 8999999999999876554      44788899999995 99999999999999987642  2223


Q ss_pred             HHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         160 NKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       160 ~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ..++..+|.++...|++++|+..|++
T Consensus       186 ~~~~~~la~~~~~~G~~~~A~~~~~~  211 (355)
T cd05804         186 GHNWWHLALFYLERGDYEAALAIYDT  211 (355)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            35778999999999999999999976

A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been speculated that StaR could be a flavoprotein hydroxylating a tyrosine sidechain. Some family members have been annotated as proteins containing tetratricopeptide (TPR) repeats, which may at least indicate mostly alpha-helical secondary structure.

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.77  E-value=1e-07  Score=66.91  Aligned_cols=101  Identities=14%  Similarity=0.130  Sum_probs=72.6

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHH
Q psy5288          40 IDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMV  118 (186)
Q Consensus        40 ~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~  118 (186)
                      .......|..+...|++++|.+.+.+++.+     ++. ....+..+|.+|... ++++|+.++++++.+....      
T Consensus        17 ~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~-----~p~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~------   84 (135)
T TIGR02552        17 LEQIYALAYNLYQQGRYDEALKLFQLLAAY-----DPY-NSRYWLGLAACCQMLKEYEEAIDAYALAAALDPDD------   84 (135)
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHh-----CCC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCC------
Confidence            355666677777888888888888887776     232 245566778787665 7888888888877764332      


Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhcc
Q psy5288         119 AKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGE  153 (186)
Q Consensus       119 a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~  153 (186)
                      ...+..+|.+|... |++++|+.+|++++.+.+..
T Consensus        85 ~~~~~~la~~~~~~-g~~~~A~~~~~~al~~~p~~  118 (135)
T TIGR02552        85 PRPYFHAAECLLAL-GEPESALKALDLAIEICGEN  118 (135)
T ss_pred             hHHHHHHHHHHHHc-CCHHHHHHHHHHHHHhcccc
Confidence            34667788888874 88888888888888876654

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.76  E-value=1.5e-07  Score=67.84  Aligned_cols=101  Identities=17%  Similarity=0.154  Sum_probs=58.4

Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCCh
Q psy5288          37 DEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRF  115 (186)
Q Consensus        37 ~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~  115 (186)
                      ++-.+..-..|..+...|++++|...|.-...+     +|... ..|.++|-|+... ++.+|+.+|.+|..+.++.   
T Consensus        32 ~~~l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~-----Dp~~~-~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~dd---  102 (157)
T PRK15363         32 TQPLNTLYRYAMQLMEVKEFAGAARLFQLLTIY-----DAWSF-DYWFRLGECCQAQKHWGEAIYAYGRAAQIKIDA---  102 (157)
T ss_pred             HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-----CcccH-HHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCC---
Confidence            445555555555555666666666666655555     33333 3344666666554 6666666666666555422   


Q ss_pred             hHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHH
Q psy5288         116 IMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCY  150 (186)
Q Consensus       116 ~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~  150 (186)
                         +..+.++|.++.. +|+.+.|...|+.|+.+.
T Consensus       103 ---p~~~~~ag~c~L~-lG~~~~A~~aF~~Ai~~~  133 (157)
T PRK15363        103 ---PQAPWAAAECYLA-CDNVCYAIKALKAVVRIC  133 (157)
T ss_pred             ---chHHHHHHHHHHH-cCCHHHHHHHHHHHHHHh
Confidence               2255666666666 466666666666666665

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.75  E-value=2.9e-07  Score=67.74  Aligned_cols=88  Identities=18%  Similarity=0.215  Sum_probs=47.9

Q ss_pred             HHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCCh
Q psy5288          78 DAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENK  156 (186)
Q Consensus        78 ~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~  156 (186)
                      ..+..+...|.++... ++++|+.+|++++.+.....   ..+.++..+|.++.. +|++++|+.+|++++.+.+..   
T Consensus        33 ~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~---~~~~~~~~la~~~~~-~g~~~~A~~~~~~al~~~p~~---  105 (172)
T PRK02603         33 KEAFVYYRDGMSAQADGEYAEALENYEEALKLEEDPN---DRSYILYNMGIIYAS-NGEHDKALEYYHQALELNPKQ---  105 (172)
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccc---hHHHHHHHHHHHHHH-cCCHHHHHHHHHHHHHhCccc---
Confidence            3344555666655544 66666666666665543321   224456666666666 366666666666666654432   


Q ss_pred             HHHHHHHHHHHHHHHhccC
Q psy5288         157 SSANKCLIKIANYSALTDH  175 (186)
Q Consensus       157 ~~~~~~~~~la~~y~~~g~  175 (186)
                         ...+..+|.+|...|+
T Consensus       106 ---~~~~~~lg~~~~~~g~  121 (172)
T PRK02603        106 ---PSALNNIAVIYHKRGE  121 (172)
T ss_pred             ---HHHHHHHHHHHHHcCC
Confidence               1334455555554443

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=98.75  E-value=1.4e-07  Score=61.11  Aligned_cols=80  Identities=23%  Similarity=0.198  Sum_probs=62.2

Q ss_pred             CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhc
Q psy5288          94 NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALT  173 (186)
Q Consensus        94 ~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~  173 (186)
                      ++++|+.++++.++....  ++  -..++..+|.+|... |+|++|+.++++ ..+.+..      ..+...+|.++.++
T Consensus         4 ~y~~Ai~~~~k~~~~~~~--~~--~~~~~~~la~~~~~~-~~y~~A~~~~~~-~~~~~~~------~~~~~l~a~~~~~l   71 (84)
T PF12895_consen    4 NYENAIKYYEKLLELDPT--NP--NSAYLYNLAQCYFQQ-GKYEEAIELLQK-LKLDPSN------PDIHYLLARCLLKL   71 (84)
T ss_dssp             -HHHHHHHHHHHHHHHCG--TH--HHHHHHHHHHHHHHT-THHHHHHHHHHC-HTHHHCH------HHHHHHHHHHHHHT
T ss_pred             cHHHHHHHHHHHHHHCCC--Ch--hHHHHHHHHHHHHHC-CCHHHHHHHHHH-hCCCCCC------HHHHHHHHHHHHHh
Confidence            678899999998887765  22  334777799999995 999999999999 5554422      24556679999999


Q ss_pred             cCHHHHHHHHHh
Q psy5288         174 DHLDKAIKLYEQ  185 (186)
Q Consensus       174 g~~~~A~~~~~~  185 (186)
                      |+|++|+++|++
T Consensus        72 ~~y~eAi~~l~~   83 (84)
T PF12895_consen   72 GKYEEAIKALEK   83 (84)
T ss_dssp             T-HHHHHHHHHH
T ss_pred             CCHHHHHHHHhc
Confidence            999999999986

>KOG1941|consensus

Probab=98.75  E-value=1.2e-06  Score=70.58  Aligned_cols=175  Identities=17%  Similarity=0.165  Sum_probs=140.7

Q ss_pred             HhHHHHHHHHHHhhccCCCCc--------ccccc-CCCCHHHHHHHHHHHH------------------------HHHHh
Q psy5288           6 QKARQLVAEAEKKISSSSKGF--------FSQFT-GGNKTDEAIDLYVRAG------------------------NLFKL   52 (186)
Q Consensus         6 ~~~~~~~~~a~~~~~~~~~~~--------~~~~~-~~~~~~~A~~~y~~ag------------------------~~~~~   52 (186)
                      +++-+..+.|-|..+.-++..        +..+| .-.|+++|+.+-.+|.                        ..++.
T Consensus       139 q~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~  218 (518)
T KOG1941|consen  139 QKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRL  218 (518)
T ss_pred             HHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHH
Confidence            555666666666555211100        11233 2258888888777773                        35788


Q ss_pred             cCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHH
Q psy5288          53 GKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEK  131 (186)
Q Consensus        53 ~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~  131 (186)
                      +|..-+|-+|.+.+.++....|+..-.+.+..-+|++|+.. +.+.|..-|++|..+....||..+.-.++...+.+.+.
T Consensus       219 ~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR~~gd~e~af~rYe~Am~~m~~~gdrmgqv~al~g~Akc~~~  298 (518)
T KOG1941|consen  219 LGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYRSRGDLERAFRRYEQAMGTMASLGDRMGQVEALDGAAKCLET  298 (518)
T ss_pred             hcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHhcccHhHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999977 99999999999999999999998888899999999887


Q ss_pred             hcCCHHH-----HHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHH
Q psy5288         132 ELEDQEK-----AIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIK  181 (186)
Q Consensus       132 ~lg~~~~-----Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~  181 (186)
                       +.-.++     |+++-++++++....|.......+...++.+|..+|.-++=-.
T Consensus       299 -~r~~~k~~~Crale~n~r~levA~~IG~K~~vlK~hcrla~iYrs~gl~d~~~~  352 (518)
T KOG1941|consen  299 -LRLQNKICNCRALEFNTRLLEVASSIGAKLSVLKLHCRLASIYRSKGLQDELRA  352 (518)
T ss_pred             -HHHhhcccccchhHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhccchhHHHH
Confidence             355666     9999999999999999888888999999999998886655333

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=98.74  E-value=4.4e-08  Score=60.92  Aligned_cols=60  Identities=20%  Similarity=0.301  Sum_probs=53.9

Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhcc-CHHHHHHHHHh
Q psy5288         119 AKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTD-HLDKAIKLYEQ  185 (186)
Q Consensus       119 a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g-~~~~A~~~~~~  185 (186)
                      +..+..+|.++... |++++|+.+|++|+++.++.      ..++.++|.+|..+| ++++|++.|++
T Consensus         3 a~~~~~~g~~~~~~-~~~~~A~~~~~~ai~~~p~~------~~~~~~~g~~~~~~~~~~~~A~~~~~~   63 (69)
T PF13414_consen    3 AEAWYNLGQIYFQQ-GDYEEAIEYFEKAIELDPNN------AEAYYNLGLAYMKLGKDYEEAIEDFEK   63 (69)
T ss_dssp             HHHHHHHHHHHHHT-THHHHHHHHHHHHHHHSTTH------HHHHHHHHHHHHHTTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-CCHHHHHHHHHHHHHcCCCC------HHHHHHHHHHHHHhCccHHHHHHHHHH
Confidence            56889999999995 99999999999999996543      469999999999999 79999999986

...

>KOG2002|consensus

Probab=98.74  E-value=2.4e-07  Score=82.03  Aligned_cols=169  Identities=15%  Similarity=0.199  Sum_probs=113.1

Q ss_pred             HHhHHHHHHHHHHhhcc-C------CCCccccccCCCCHHHHHHHHHHH-----------------HHHHHhcCCHHHHH
Q psy5288           5 EQKARQLVAEAEKKISS-S------SKGFFSQFTGGNKTDEAIDLYVRA-----------------GNLFKLGKKWNDGG   60 (186)
Q Consensus         5 ~~~~~~~~~~a~~~~~~-~------~~~~~~~~~~~~~~~~A~~~y~~a-----------------g~~~~~~g~~~~A~   60 (186)
                      -.+|-.++..|.+.-.. |      -..    ||-+++|..+..+...+                 |..|..+|+|++|.
T Consensus       252 ~~~~~~ll~~ay~~n~~nP~~l~~LAn~----fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~  327 (1018)
T KOG2002|consen  252 YKKGVQLLQRAYKENNENPVALNHLANH----FYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAF  327 (1018)
T ss_pred             HHHHHHHHHHHHhhcCCCcHHHHHHHHH----HhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHH
Confidence            35566666666554331 0      022    23457888777765554                 77888999999999


Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHc---------------------------
Q psy5288          61 NAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDM---------------------------  112 (186)
Q Consensus        61 ~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~---------------------------  112 (186)
                      .+|.+++.+.     +..-.-.+.-+|++|... ++..++.||++.++.++.+                           
T Consensus       328 ~yY~~s~k~~-----~d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k~~p~~~etm~iLG~Lya~~~~~~~~~d~a~~~  402 (1018)
T KOG2002|consen  328 KYYMESLKAD-----NDNFVLPLVGLGQMYIKRGDLEESKFCFEKVLKQLPNNYETMKILGCLYAHSAKKQEKRDKASNV  402 (1018)
T ss_pred             HHHHHHHccC-----CCCccccccchhHHHHHhchHHHHHHHHHHHHHhCcchHHHHHHHHhHHHhhhhhhHHHHHHHHH
Confidence            9999888763     222222233455555443 4445555554444421100                           


Q ss_pred             -----CChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         113 -----GRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       113 -----~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                           .....-...+..+|.+|+.  ++...++.+|.+|++++...+.+ .....++|+|..+...|++.+|.+.|.+
T Consensus       403 l~K~~~~~~~d~~a~l~laql~e~--~d~~~sL~~~~~A~d~L~~~~~~-ip~E~LNNvaslhf~~g~~~~A~~~f~~  477 (1018)
T KOG2002|consen  403 LGKVLEQTPVDSEAWLELAQLLEQ--TDPWASLDAYGNALDILESKGKQ-IPPEVLNNVASLHFRLGNIEKALEHFKS  477 (1018)
T ss_pred             HHHHHhcccccHHHHHHHHHHHHh--cChHHHHHHHHHHHHHHHHcCCC-CCHHHHHhHHHHHHHhcChHHHHHHHHH
Confidence                 1112334578899999986  68888899999999999887766 4458999999999999999999999975

>KOG1941|consensus

Probab=98.73  E-value=9.8e-07  Score=71.15  Aligned_cols=143  Identities=19%  Similarity=0.189  Sum_probs=117.0

Q ss_pred             CCHHHHHHHHHHH--------------------HHHHHhcCCHHHHHHHHHHHHHHHHHcC--Chh---HHHHHHHHHHH
Q psy5288          34 NKTDEAIDLYVRA--------------------GNLFKLGKKWNDGGNAFLQAGTLHLKNN--NKH---DAGLCFVDAAN   88 (186)
Q Consensus        34 ~~~~~A~~~y~~a--------------------g~~~~~~g~~~~A~~~y~~a~~~~~~~~--~~~---~aa~~~~~a~~   88 (186)
                      +.++++++.|+.|                    |.+|-...|+++|+.+-.+|+++-+..+  ++.   .+...| .++.
T Consensus       136 s~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~ly-hmaV  214 (518)
T KOG1941|consen  136 SVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLKYRAMSLY-HMAV  214 (518)
T ss_pred             HHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHH-HHHH
Confidence            4678888888888                    5678889999999999999999988754  433   223333 5556


Q ss_pred             HHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHH
Q psy5288          89 CYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIA  167 (186)
Q Consensus        89 ~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la  167 (186)
                      .++.. +.-.|.++++.|.++..+.||....+.+..-+|.||.+. |+.|.|..-|++|+.+....+++-....++...|
T Consensus       215 alR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR~~-gd~e~af~rYe~Am~~m~~~gdrmgqv~al~g~A  293 (518)
T KOG1941|consen  215 ALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYRSR-GDLERAFRRYEQAMGTMASLGDRMGQVEALDGAA  293 (518)
T ss_pred             HHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHhc-ccHhHHHHHHHHHHHHHhhhhhhHHHHHHHHHHH
Confidence            66655 888999999999999999999999999999999999995 9999999999999999999888877777888888


Q ss_pred             HHHHhccCHHH
Q psy5288         168 NYSALTDHLDK  178 (186)
Q Consensus       168 ~~y~~~g~~~~  178 (186)
                      .++..+.-..+
T Consensus       294 kc~~~~r~~~k  304 (518)
T KOG1941|consen  294 KCLETLRLQNK  304 (518)
T ss_pred             HHHHHHHHhhc
Confidence            88765543333

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=98.73  E-value=6.6e-07  Score=80.24  Aligned_cols=133  Identities=13%  Similarity=0.105  Sum_probs=106.1

Q ss_pred             CCCHHHHHHHHHHH--------------HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHH
Q psy5288          33 GNKTDEAIDLYVRA--------------GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAE   97 (186)
Q Consensus        33 ~~~~~~A~~~y~~a--------------g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~   97 (186)
                      .|+.++|++.|.++              +.++...|++++|+.+|.+++.+     +|... .....++.++... ++++
T Consensus        28 ~g~~~~A~~~~~~~~~~~~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~-----~P~~~-~a~~~la~~l~~~g~~~e  101 (765)
T PRK10049         28 AGQDAEVITVYNRYRVHMQLPARGYAAVAVAYRNLKQWQNSLTLWQKALSL-----EPQND-DYQRGLILTLADAGQYDE  101 (765)
T ss_pred             cCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-----CCCCH-HHHHHHHHHHHHCCCHHH
Confidence            45667777666665              55788999999999999999987     44443 3345778888766 9999


Q ss_pred             HHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHH
Q psy5288          98 AIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLD  177 (186)
Q Consensus        98 A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~  177 (186)
                      |+..+++++......      +. +..+|.++... |++++|+..|++++.+.++.      ...+..++.++...|..+
T Consensus       102 A~~~l~~~l~~~P~~------~~-~~~la~~l~~~-g~~~~Al~~l~~al~~~P~~------~~~~~~la~~l~~~~~~e  167 (765)
T PRK10049        102 ALVKAKQLVSGAPDK------AN-LLALAYVYKRA-GRHWDELRAMTQALPRAPQT------QQYPTEYVQALRNNRLSA  167 (765)
T ss_pred             HHHHHHHHHHhCCCC------HH-HHHHHHHHHHC-CCHHHHHHHHHHHHHhCCCC------HHHHHHHHHHHHHCCChH
Confidence            999999998774433      22 77789999985 99999999999999998764      256677899999999999


Q ss_pred             HHHHHHHh
Q psy5288         178 KAIKLYEQ  185 (186)
Q Consensus       178 ~A~~~~~~  185 (186)
                      +|++.+++
T Consensus       168 ~Al~~l~~  175 (765)
T PRK10049        168 PALGAIDD  175 (765)
T ss_pred             HHHHHHHh
Confidence            99988875

>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B

Probab=98.72  E-value=1.4e-07  Score=74.49  Aligned_cols=122  Identities=12%  Similarity=0.173  Sum_probs=89.1

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHH
Q psy5288          47 GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENI  125 (186)
Q Consensus        47 g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~l  125 (186)
                      ..++...++++++.+.+.++..    ..........|...|.++... ++++|+++|++|+++.+...+      +...+
T Consensus       117 l~~~~~~~~~~~~~~~l~~~~~----~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~P~~~~------~~~~l  186 (280)
T PF13429_consen  117 LQLYYRLGDYDEAEELLEKLEE----LPAAPDSARFWLALAEIYEQLGDPDKALRDYRKALELDPDDPD------ARNAL  186 (280)
T ss_dssp             -H-HHHTT-HHHHHHHHHHHHH-----T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH-TT-HH------HHHHH
T ss_pred             HHHHHHHhHHHHHHHHHHHHHh----ccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHH------HHHHH
Confidence            4567788888888888777653    223345567788889999876 899999999999998877543      66778


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         126 AEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       126 g~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      +.++... |+++++.+.+.......+.+.      ..+..+|.+|..+|++++|+.+|++
T Consensus       187 ~~~li~~-~~~~~~~~~l~~~~~~~~~~~------~~~~~la~~~~~lg~~~~Al~~~~~  239 (280)
T PF13429_consen  187 AWLLIDM-GDYDEAREALKRLLKAAPDDP------DLWDALAAAYLQLGRYEEALEYLEK  239 (280)
T ss_dssp             HHHHCTT-CHHHHHHHHHHHHHHH-HTSC------CHCHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             HHHHHHC-CChHHHHHHHHHHHHHCcCHH------HHHHHHHHHhccccccccccccccc
Confidence            8888885 999998888887777665433      4667889999999999999999976

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.72  E-value=4.7e-07  Score=66.61  Aligned_cols=107  Identities=20%  Similarity=0.285  Sum_probs=80.0

Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCCh
Q psy5288          37 DEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRF  115 (186)
Q Consensus        37 ~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~  115 (186)
                      +.-+..+...|..+...|++++|+.+|.+++++...   +...+..+..+|.+|... ++++|+.++++++.+....   
T Consensus        32 ~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~---~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~---  105 (172)
T PRK02603         32 AKEAFVYYRDGMSAQADGEYAEALENYEEALKLEED---PNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPKQ---  105 (172)
T ss_pred             hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhc---cchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccc---
Confidence            444557778889999999999999999999987432   223456788999999887 9999999999999986543   


Q ss_pred             hHHHHHHHHHHHHHHHh------cCCHHHHHHHHHHHHHHHhc
Q psy5288         116 IMVAKHHENIAEIYEKE------LEDQEKAIDHYQHAADCYAG  152 (186)
Q Consensus       116 ~~~a~~~~~lg~~y~~~------lg~~~~Ai~~y~kA~~l~~~  152 (186)
                         ...+..+|.+|...      .+++++|+..|++|++++.+
T Consensus       106 ---~~~~~~lg~~~~~~g~~~~a~~~~~~A~~~~~~A~~~~~~  145 (172)
T PRK02603        106 ---PSALNNIAVIYHKRGEKAEEAGDQDEAEALFDKAAEYWKQ  145 (172)
T ss_pred             ---HHHHHHHHHHHHHcCChHhHhhCHHHHHHHHHHHHHHHHH
Confidence               23445556665542      25677777777777777665

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=98.71  E-value=6.3e-06  Score=62.38  Aligned_cols=158  Identities=19%  Similarity=0.187  Sum_probs=112.3

Q ss_pred             hHHhHHHHHHHHHHhhccCCCCccccccCCCCHHHHHHHHHHH-----------------HHHHHhcCCHHHHHHHHHHH
Q psy5288           4 NEQKARQLVAEAEKKISSSSKGFFSQFTGGNKTDEAIDLYVRA-----------------GNLFKLGKKWNDGGNAFLQA   66 (186)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~A~~~y~~a-----------------g~~~~~~g~~~~A~~~y~~a   66 (186)
                      |+..++.+..+|...+.            .|+|.+|+..|..+                 |..+...|++++|+..|.+-
T Consensus         1 p~~~~~~lY~~a~~~~~------------~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~f   68 (203)
T PF13525_consen    1 PEDTAEALYQKALEALQ------------QGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERF   68 (203)
T ss_dssp             ----HHHHHHHHHHHHH------------CT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHH------------CCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            35678899999999988            35999999999988                 55788999999999999999


Q ss_pred             HHHHHHcCChhHHHHHHHHHHHHHhcC------------CHHHHHHHHHHHHHHHHHcCChhH-----------HHHHHH
Q psy5288          67 GTLHLKNNNKHDAGLCFVDAANCYKKS------------NPAEAIKAIERAVEIHTDMGRFIM-----------VAKHHE  123 (186)
Q Consensus        67 ~~~~~~~~~~~~aa~~~~~a~~~y~~~------------~~~~A~~~~~~Al~i~~~~~~~~~-----------~a~~~~  123 (186)
                      ++.+-...   .+..++...|.++...            ...+|+..|+..++-+++..-...           .+.--.
T Consensus        69 i~~yP~~~---~~~~A~Y~~g~~~~~~~~~~~~~~~D~~~~~~A~~~~~~li~~yP~S~y~~~A~~~l~~l~~~la~~e~  145 (203)
T PF13525_consen   69 IKLYPNSP---KADYALYMLGLSYYKQIPGILRSDRDQTSTRKAIEEFEELIKRYPNSEYAEEAKKRLAELRNRLAEHEL  145 (203)
T ss_dssp             HHH-TT-T---THHHHHHHHHHHHHHHHHHHH-TT---HHHHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCCc---chhhHHHHHHHHHHHhCccchhcccChHHHHHHHHHHHHHHHHCcCchHHHHHHHHHHHHHHHHHHHHH
Confidence            88875433   2334455555554321            346788888888887776654433           333446


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHH
Q psy5288         124 NIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAI  180 (186)
Q Consensus       124 ~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~  180 (186)
                      .+|..|... |.|..|+..++..++-++...   .....+..++..|.++|..+.|-
T Consensus       146 ~ia~~Y~~~-~~y~aA~~r~~~v~~~yp~t~---~~~~al~~l~~~y~~l~~~~~a~  198 (203)
T PF13525_consen  146 YIARFYYKR-GKYKAAIIRFQYVIENYPDTP---AAEEALARLAEAYYKLGLKQAAD  198 (203)
T ss_dssp             HHHHHHHCT-T-HHHHHHHHHHHHHHSTTSH---HHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             HHHHHHHHc-ccHHHHHHHHHHHHHHCCCCc---hHHHHHHHHHHHHHHhCChHHHH
Confidence            778888885 999999999999999998753   34568899999999999998554

>KOG0553|consensus

Probab=98.67  E-value=1.1e-06  Score=69.03  Aligned_cols=80  Identities=21%  Similarity=0.216  Sum_probs=70.7

Q ss_pred             CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhc
Q psy5288          94 NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALT  173 (186)
Q Consensus        94 ~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~  173 (186)
                      +|.+|+..|.+|+.+...+      |.+|-+-+.+|.+ ||+++.||+-.+.|+.+.+.     . ...|..||.+|..+
T Consensus        96 ~Y~eAv~kY~~AI~l~P~n------AVyycNRAAAy~~-Lg~~~~AVkDce~Al~iDp~-----y-skay~RLG~A~~~~  162 (304)
T KOG0553|consen   96 DYQEAVDKYTEAIELDPTN------AVYYCNRAAAYSK-LGEYEDAVKDCESALSIDPH-----Y-SKAYGRLGLAYLAL  162 (304)
T ss_pred             hHHHHHHHHHHHHhcCCCc------chHHHHHHHHHHH-hcchHHHHHHHHHHHhcChH-----H-HHHHHHHHHHHHcc
Confidence            8999999999999887665      5688888999998 79999999999999998543     2 37999999999999


Q ss_pred             cCHHHHHHHHHhC
Q psy5288         174 DHLDKAIKLYEQL  186 (186)
Q Consensus       174 g~~~~A~~~~~~~  186 (186)
                      |+|.+|++.|+++
T Consensus       163 gk~~~A~~aykKa  175 (304)
T KOG0553|consen  163 GKYEEAIEAYKKA  175 (304)
T ss_pred             CcHHHHHHHHHhh
Confidence            9999999999863

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=98.67  E-value=1.6e-07  Score=59.83  Aligned_cols=89  Identities=24%  Similarity=0.325  Sum_probs=54.1

Q ss_pred             HHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHH
Q psy5288          84 VDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKC  162 (186)
Q Consensus        84 ~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~  162 (186)
                      ..+|.++... ++++|+..+++++++.....      .++..+|.++... +++++|+.++++++.+.+...      .+
T Consensus         4 ~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~------~~~~~~~~~~~~~-~~~~~a~~~~~~~~~~~~~~~------~~   70 (100)
T cd00189           4 LNLGNLYYKLGDYDEALEYYEKALELDPDNA------DAYYNLAAAYYKL-GKYEEALEDYEKALELDPDNA------KA   70 (100)
T ss_pred             HHHHHHHHHHhcHHHHHHHHHHHHhcCCccH------HHHHHHHHHHHHH-HHHHHHHHHHHHHHhCCCcch------hH
Confidence            3445555443 66666666666655432221      3566677777764 777777777777776654332      45


Q ss_pred             HHHHHHHHHhccCHHHHHHHHHh
Q psy5288         163 LIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       163 ~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      +..+|.++...|++++|..++++
T Consensus        71 ~~~~~~~~~~~~~~~~a~~~~~~   93 (100)
T cd00189          71 YYNLGLAYYKLGKYEEALEAYEK   93 (100)
T ss_pred             HHHHHHHHHHHHhHHHHHHHHHH
Confidence            66677777777777777776654

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=98.66  E-value=9.3e-06  Score=63.20  Aligned_cols=159  Identities=13%  Similarity=0.047  Sum_probs=119.4

Q ss_pred             hHHHHHHHHHHhhccCCCCccccccCCCCHHHHHHHHHHH-----------------HHHHHhcCCHHHHHHHHHHHHHH
Q psy5288           7 KARQLVAEAEKKISSSSKGFFSQFTGGNKTDEAIDLYVRA-----------------GNLFKLGKKWNDGGNAFLQAGTL   69 (186)
Q Consensus         7 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~A~~~y~~a-----------------g~~~~~~g~~~~A~~~y~~a~~~   69 (186)
                      .++.+..+|.+.+.            +|+|++|++.|.++                 |.+|...+++++|+..|++.++.
T Consensus        31 ~~~~~Y~~A~~~~~------------~g~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~   98 (243)
T PRK10866         31 PPSEIYATAQQKLQ------------DGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRL   98 (243)
T ss_pred             CHHHHHHHHHHHHH------------CCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh
Confidence            56778888888877            36999999999888                 45678899999999999999998


Q ss_pred             HHHcCChhHHHHHHHHHHHHHhcC----------------C---HHHHHHHHHHHHHHHHHcCCh-----------hHHH
Q psy5288          70 HLKNNNKHDAGLCFVDAANCYKKS----------------N---PAEAIKAIERAVEIHTDMGRF-----------IMVA  119 (186)
Q Consensus        70 ~~~~~~~~~aa~~~~~a~~~y~~~----------------~---~~~A~~~~~~Al~i~~~~~~~-----------~~~a  119 (186)
                      +....   .+..++...|.++...                +   ..+|+..+++-++-+++..-.           ...+
T Consensus        99 ~P~~~---~~~~a~Y~~g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~yP~S~ya~~A~~rl~~l~~~la  175 (243)
T PRK10866         99 NPTHP---NIDYVLYMRGLTNMALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRGYPNSQYTTDATKRLVFLKDRLA  175 (243)
T ss_pred             CcCCC---chHHHHHHHHHhhhhcchhhhhhccCCCccccCHHHHHHHHHHHHHHHHHCcCChhHHHHHHHHHHHHHHHH
Confidence            65432   3344555666553111                2   246778888887776654332           2334


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHH
Q psy5288         120 KHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYE  184 (186)
Q Consensus       120 ~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~  184 (186)
                      ..-..+|..|... |.|..|+.-++..++-++....   ....+..+...|..+|..++|.++..
T Consensus       176 ~~e~~ia~~Y~~~-~~y~AA~~r~~~v~~~Yp~t~~---~~eal~~l~~ay~~lg~~~~a~~~~~  236 (243)
T PRK10866        176 KYELSVAEYYTKR-GAYVAVVNRVEQMLRDYPDTQA---TRDALPLMENAYRQLQLNAQADKVAK  236 (243)
T ss_pred             HHHHHHHHHHHHc-CchHHHHHHHHHHHHHCCCCch---HHHHHHHHHHHHHHcCChHHHHHHHH
Confidence            4557788889985 9999999999999999987653   34678889999999999999988654

>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]

Probab=98.66  E-value=5e-06  Score=66.11  Aligned_cols=135  Identities=10%  Similarity=0.107  Sum_probs=103.5

Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChh
Q psy5288          38 EAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFI  116 (186)
Q Consensus        38 ~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~  116 (186)
                      -|.....+..++|....++++|+++-.+..++-.+ ...-..+..|.+++..+... +.+.|+..+.+|+...++.-.  
T Consensus       139 fa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q-~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kAlqa~~~cvR--  215 (389)
T COG2956         139 FAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQ-TYRVEIAQFYCELAQQALASSDVDRARELLKKALQADKKCVR--  215 (389)
T ss_pred             hhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCc-cchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHhhCcccee--
Confidence            34444445567899999999999887666655222 12335688888999888766 899999999999988777644  


Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         117 MVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       117 ~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                          .-.-+|.++..+ |+|+.|++.++..++-.     +...+.+...|..+|..+|+..+.+..+.+
T Consensus       216 ----Asi~lG~v~~~~-g~y~~AV~~~e~v~eQn-----~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~  274 (389)
T COG2956         216 ----ASIILGRVELAK-GDYQKAVEALERVLEQN-----PEYLSEVLEMLYECYAQLGKPAEGLNFLRR  274 (389)
T ss_pred             ----hhhhhhHHHHhc-cchHHHHHHHHHHHHhC-----hHHHHHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence                344589999996 99999999999998863     335567889999999999999998876643

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.66  E-value=9.2e-06  Score=73.92  Aligned_cols=139  Identities=9%  Similarity=-0.117  Sum_probs=110.7

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHH
Q psy5288          45 RAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHE  123 (186)
Q Consensus        45 ~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~  123 (186)
                      ..+.++...|++++|...+.+++.... .++....+.....+|.++... ++++|...+++++.+....|+....+..+.
T Consensus       457 ~~a~~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~  535 (903)
T PRK04841        457 LRAQVAINDGDPEEAERLAELALAELP-LTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLL  535 (903)
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhcCC-CccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHH
Confidence            346677889999999999999987532 223333445566777777655 999999999999999999999888888999


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHHHhccCCh--HHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         124 NIAEIYEKELEDQEKAIDHYQHAADCYAGEENK--SSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       124 ~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~--~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      .+|.++..+ |++++|..++++++++....+.+  ......+..+|.++...|++++|...+.+
T Consensus       536 ~la~~~~~~-G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~  598 (903)
T PRK04841        536 QQSEILFAQ-GFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARK  598 (903)
T ss_pred             HHHHHHHHC-CCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence            999999995 99999999999999998765421  22234466789999999999999988764

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=98.65  E-value=1.3e-06  Score=78.32  Aligned_cols=142  Identities=7%  Similarity=-0.119  Sum_probs=95.8

Q ss_pred             CCCCHHHHHHHHHHHHH------------------HHHhcCCHHHHHHHHHHHHHHHH--------HcCChh-HHHHHHH
Q psy5288          32 GGNKTDEAIDLYVRAGN------------------LFKLGKKWNDGGNAFLQAGTLHL--------KNNNKH-DAGLCFV   84 (186)
Q Consensus        32 ~~~~~~~A~~~y~~ag~------------------~~~~~g~~~~A~~~y~~a~~~~~--------~~~~~~-~aa~~~~   84 (186)
                      ..+++++|+..|.++..                  ++...|++++|+..+.++.....        ....|. .....+.
T Consensus       284 ~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~  363 (765)
T PRK10049        284 KLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQS  363 (765)
T ss_pred             hcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHH
Confidence            34566777666665521                  33455677777776666665421        011122 1233444


Q ss_pred             HHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHH
Q psy5288          85 DAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCL  163 (186)
Q Consensus        85 ~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~  163 (186)
                      ..+.++... ++++|+..+++++...+..      ...+..+|.++... |++++|+..+++++.+.++.      ...+
T Consensus       364 ~~a~~l~~~g~~~eA~~~l~~al~~~P~n------~~l~~~lA~l~~~~-g~~~~A~~~l~~al~l~Pd~------~~l~  430 (765)
T PRK10049        364 LLSQVAKYSNDLPQAEMRARELAYNAPGN------QGLRIDYASVLQAR-GWPRAAENELKKAEVLEPRN------INLE  430 (765)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCC------HHHHHHHHHHHHhc-CCHHHHHHHHHHHHhhCCCC------hHHH
Confidence            556666655 8888888888887665443      34788899999885 99999999999999987754      2567


Q ss_pred             HHHHHHHHhccCHHHHHHHHHhC
Q psy5288         164 IKIANYSALTDHLDKAIKLYEQL  186 (186)
Q Consensus       164 ~~la~~y~~~g~~~~A~~~~~~~  186 (186)
                      ...|.++..+|++++|...++++
T Consensus       431 ~~~a~~al~~~~~~~A~~~~~~l  453 (765)
T PRK10049        431 VEQAWTALDLQEWRQMDVLTDDV  453 (765)
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHH
Confidence            78888899999999999888653

>KOG1125|consensus

Probab=98.65  E-value=2.4e-07  Score=78.06  Aligned_cols=123  Identities=15%  Similarity=0.180  Sum_probs=97.2

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHH
Q psy5288          47 GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENI  125 (186)
Q Consensus        47 g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~l  125 (186)
                      |.+|...|+|++|++||+.|+..     +|. -...+.++|-+..-. +..+|+..|++|+++.+.-      ..+..+|
T Consensus       437 GVLy~ls~efdraiDcf~~AL~v-----~Pn-d~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~y------VR~RyNl  504 (579)
T KOG1125|consen  437 GVLYNLSGEFDRAVDCFEAALQV-----KPN-DYLLWNRLGATLANGNRSEEAISAYNRALQLQPGY------VRVRYNL  504 (579)
T ss_pred             HHHHhcchHHHHHHHHHHHHHhc-----CCc-hHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCe------eeeehhh
Confidence            67899999999999999999997     444 356788999887665 8899999999999986544      2367899


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHHHhccCCh----HHHHHHHHHHHHHHHhccCHHHHHHH
Q psy5288         126 AEIYEKELEDQEKAIDHYQHAADCYAGEENK----SSANKCLIKIANYSALTDHLDKAIKL  182 (186)
Q Consensus       126 g~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~----~~~~~~~~~la~~y~~~g~~~~A~~~  182 (186)
                      |..+.. +|.|.+|+.+|-.|+.+.++...+    .....+|..|=.++...++.|-+.++
T Consensus       505 gIS~mN-lG~ykEA~~hlL~AL~mq~ks~~~~~~~~~se~iw~tLR~als~~~~~D~l~~a  564 (579)
T KOG1125|consen  505 GISCMN-LGAYKEAVKHLLEALSMQRKSRNHNKAPMASENIWQTLRLALSAMNRSDLLQEA  564 (579)
T ss_pred             hhhhhh-hhhHHHHHHHHHHHHHhhhcccccccCCcchHHHHHHHHHHHHHcCCchHHHHh
Confidence            999999 699999999999999998873222    12235776666777777777755544

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.65  E-value=8.7e-07  Score=60.29  Aligned_cols=106  Identities=20%  Similarity=0.129  Sum_probs=73.3

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHH
Q psy5288          41 DLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVA  119 (186)
Q Consensus        41 ~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a  119 (186)
                      +.+...|..+...|++++|++.|.++...   ..+.......+..+|.++... ++++|+.+|++++..+.   +.....
T Consensus         3 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p---~~~~~~   76 (119)
T TIGR02795         3 EAYYDAALLVLKAGDYADAIQAFQAFLKK---YPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYP---KSPKAP   76 (119)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHH---CCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCC---CCCccc
Confidence            45677788888888888888888777653   212122355666777777766 78888888887776543   222345


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhcc
Q psy5288         120 KHHENIAEIYEKELEDQEKAIDHYQHAADCYAGE  153 (186)
Q Consensus       120 ~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~  153 (186)
                      .++..+|.++.. +|++++|+.+|++++..+++.
T Consensus        77 ~~~~~~~~~~~~-~~~~~~A~~~~~~~~~~~p~~  109 (119)
T TIGR02795        77 DALLKLGMSLQE-LGDKEKAKATLQQVIKRYPGS  109 (119)
T ss_pred             HHHHHHHHHHHH-hCChHHHHHHHHHHHHHCcCC
Confidence            567788888887 488888888888888877653

Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.65  E-value=1.2e-06  Score=59.63  Aligned_cols=68  Identities=19%  Similarity=0.202  Sum_probs=46.9

Q ss_pred             HHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhcc
Q psy5288          82 CFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGE  153 (186)
Q Consensus        82 ~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~  153 (186)
                      .+...|..+... ++++|+..|++++.....   .......+..+|.++... |++++|+.+|++++..++..
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~-~~~~~A~~~~~~~~~~~p~~   72 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPK---STYAPNAHYWLGEAYYAQ-GKYADAAKAFLAVVKKYPKS   72 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC---ccccHHHHHHHHHHHHhh-ccHHHHHHHHHHHHHHCCCC
Confidence            345666666655 788888888887765432   222345677788888874 88888888888888877653

Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.65  E-value=9.2e-07  Score=62.00  Aligned_cols=91  Identities=19%  Similarity=0.134  Sum_probs=64.1

Q ss_pred             HHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHH
Q psy5288          81 LCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSA  159 (186)
Q Consensus        81 ~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~  159 (186)
                      ......|.++... ++++|++.+++++.+....      ...+..+|.++... |++++|+.+|++++.+.+...     
T Consensus        18 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~~------~~~~~~la~~~~~~-~~~~~A~~~~~~~~~~~p~~~-----   85 (135)
T TIGR02552        18 EQIYALAYNLYQQGRYDEALKLFQLLAAYDPYN------SRYWLGLAACCQML-KEYEEAIDAYALAAALDPDDP-----   85 (135)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHhCCCc------HHHHHHHHHHHHHH-HHHHHHHHHHHHHHhcCCCCh-----
Confidence            4455777777665 8888999988887764332      34778889998884 899999999999888865532     


Q ss_pred             HHHHHHHHHHH-HhccCHHHHHHHHHh
Q psy5288         160 NKCLIKIANYS-ALTDHLDKAIKLYEQ  185 (186)
Q Consensus       160 ~~~~~~la~~y-~~~g~~~~A~~~~~~  185 (186)
                       ..+.++|.+| .. |++++|+..|++
T Consensus        86 -~~~~~la~~~~~~-g~~~~A~~~~~~  110 (135)
T TIGR02552        86 -RPYFHAAECLLAL-GEPESALKALDL  110 (135)
T ss_pred             -HHHHHHHHHHHHc-CCHHHHHHHHHH
Confidence             3444444443 33 678888887765

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>KOG1129|consensus

Probab=98.65  E-value=2.4e-07  Score=73.79  Aligned_cols=128  Identities=17%  Similarity=0.108  Sum_probs=91.0

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHHHHH--------------cCChhHHH--------------HHHHHHHHHHhcC-CHHH
Q psy5288          47 GNLFKLGKKWNDGGNAFLQAGTLHLK--------------NNNKHDAG--------------LCFVDAANCYKKS-NPAE   97 (186)
Q Consensus        47 g~~~~~~g~~~~A~~~y~~a~~~~~~--------------~~~~~~aa--------------~~~~~a~~~y~~~-~~~~   97 (186)
                      +.++..++++++|+++|..+++....              -++|+-+.              ..|.++|-|+.-. ++|-
T Consensus       297 ARi~eam~~~~~a~~lYk~vlk~~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~speLf~NigLCC~yaqQ~D~  376 (478)
T KOG1129|consen  297 ARIHEAMEQQEDALQLYKLVLKLHPINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQSPELFCNIGLCCLYAQQIDL  376 (478)
T ss_pred             HHHHHHHHhHHHHHHHHHHHHhcCCccceeeeeeeeccccCCChHHHHHHHHHHHHhcCCChHHHhhHHHHHHhhcchhh
Confidence            55677777777777777766665321              12333333              4455667776654 7888


Q ss_pred             HHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHH
Q psy5288          98 AIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLD  177 (186)
Q Consensus        98 A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~  177 (186)
                      ++.+|++|+....+   +..++.+|.+||.+... .|++..|-.+|.-|+.-..+.      +..++|||.+-.+.|+.+
T Consensus       377 ~L~sf~RAlstat~---~~~aaDvWYNlg~vaV~-iGD~nlA~rcfrlaL~~d~~h------~ealnNLavL~~r~G~i~  446 (478)
T KOG1129|consen  377 VLPSFQRALSTATQ---PGQAADVWYNLGFVAVT-IGDFNLAKRCFRLALTSDAQH------GEALNNLAVLAARSGDIL  446 (478)
T ss_pred             hHHHHHHHHhhccC---cchhhhhhhccceeEEe-ccchHHHHHHHHHHhccCcch------HHHHHhHHHHHhhcCchH
Confidence            88888888766543   45678889999999888 599999999988887753322      367889999889999999


Q ss_pred             HHHHHHH
Q psy5288         178 KAIKLYE  184 (186)
Q Consensus       178 ~A~~~~~  184 (186)
                      +|..+++
T Consensus       447 ~Arsll~  453 (478)
T KOG1129|consen  447 GARSLLN  453 (478)
T ss_pred             HHHHHHH
Confidence            9988775

>KOG2002|consensus

Probab=98.64  E-value=3.2e-06  Score=75.12  Aligned_cols=153  Identities=16%  Similarity=0.223  Sum_probs=120.3

Q ss_pred             CCCCHHHHHHHHHHH---------------HHHHHhcCCHHHHHHHHHHHHHHHHH-------cCCh-------------
Q psy5288          32 GGNKTDEAIDLYVRA---------------GNLFKLGKKWNDGGNAFLQAGTLHLK-------NNNK-------------   76 (186)
Q Consensus        32 ~~~~~~~A~~~y~~a---------------g~~~~~~g~~~~A~~~y~~a~~~~~~-------~~~~-------------   76 (186)
                      ..|++++|-.+|.++               |.+|-..|++..|..||++.++.+..       +|..             
T Consensus       319 a~Gd~ekA~~yY~~s~k~~~d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k~~p~~~etm~iLG~Lya~~~~~~~~~d~  398 (1018)
T KOG2002|consen  319 AQGDFEKAFKYYMESLKADNDNFVLPLVGLGQMYIKRGDLEESKFCFEKVLKQLPNNYETMKILGCLYAHSAKKQEKRDK  398 (1018)
T ss_pred             hhccHHHHHHHHHHHHccCCCCccccccchhHHHHHhchHHHHHHHHHHHHHhCcchHHHHHHHHhHHHhhhhhhHHHHH
Confidence            348999999999988               67888999999999999988876542       1111             


Q ss_pred             ------------hHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHH
Q psy5288          77 ------------HDAGLCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQ  144 (186)
Q Consensus        77 ------------~~aa~~~~~a~~~y~~~~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~  144 (186)
                                  ..-+.+|..++.+|...++-.++.+|.+|++++...+.. --..+++++|..+.. +|++++|..++.
T Consensus       399 a~~~l~K~~~~~~~d~~a~l~laql~e~~d~~~sL~~~~~A~d~L~~~~~~-ip~E~LNNvaslhf~-~g~~~~A~~~f~  476 (1018)
T KOG2002|consen  399 ASNVLGKVLEQTPVDSEAWLELAQLLEQTDPWASLDAYGNALDILESKGKQ-IPPEVLNNVASLHFR-LGNIEKALEHFK  476 (1018)
T ss_pred             HHHHHHHHHhcccccHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHHcCCC-CCHHHHHhHHHHHHH-hcChHHHHHHHH
Confidence                        011246677788888888878899999999999988876 667799999999998 699999999999


Q ss_pred             HHHHHHhccCCh----HHHHHHHHHHHHHHHhccCHHHHHHHHHhC
Q psy5288         145 HAADCYAGEENK----SSANKCLIKIANYSALTDHLDKAIKLYEQL  186 (186)
Q Consensus       145 kA~~l~~~~~~~----~~~~~~~~~la~~y~~~g~~~~A~~~~~~~  186 (186)
                      +|+.......++    ......-.|+|.++..+++++.|-+.|..|
T Consensus       477 ~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~I  522 (1018)
T KOG2002|consen  477 SALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSI  522 (1018)
T ss_pred             HHhhhhhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHH
Confidence            999985422111    112245689999999999999999998754

>KOG0547|consensus

Probab=98.64  E-value=2.1e-07  Score=77.22  Aligned_cols=98  Identities=18%  Similarity=0.192  Sum_probs=71.6

Q ss_pred             HHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcC-ChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHH
Q psy5288          81 LCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMG-RFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSS  158 (186)
Q Consensus        81 ~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~-~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~  158 (186)
                      .+|.--+++.... ++++|++.|.+|+++-.... -...++ -++.-|.+....-++.++|+.++.+|+++.++.+    
T Consensus       463 Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~~~~~~v~~~-plV~Ka~l~~qwk~d~~~a~~Ll~KA~e~Dpkce----  537 (606)
T KOG0547|consen  463 EVYNLFAEILTDQQQFDKAVKQYDKAIELEPREHLIIVNAA-PLVHKALLVLQWKEDINQAENLLRKAIELDPKCE----  537 (606)
T ss_pred             hHHHHHHHHHhhHHhHHHHHHHHHHHHhhccccccccccch-hhhhhhHhhhchhhhHHHHHHHHHHHHccCchHH----
Confidence            3333334554444 79999999999999876643 223332 3344444433334899999999999999977653    


Q ss_pred             HHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         159 ANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       159 ~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                        ..+..||.+-+..|+.++||++|++
T Consensus       538 --~A~~tlaq~~lQ~~~i~eAielFEk  562 (606)
T KOG0547|consen  538 --QAYETLAQFELQRGKIDEAIELFEK  562 (606)
T ss_pred             --HHHHHHHHHHHHHhhHHHHHHHHHH
Confidence              6789999999999999999999986

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=98.64  E-value=2.1e-07  Score=76.31  Aligned_cols=98  Identities=19%  Similarity=0.198  Sum_probs=81.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHH
Q psy5288          43 YVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKH  121 (186)
Q Consensus        43 y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~  121 (186)
                      +..-|+.....|++++|+++|.+++.+     ++.. ..++.+.|.+|... ++++|+..+++|+.+....      +.+
T Consensus         5 l~~~a~~a~~~~~~~~Ai~~~~~Al~~-----~P~~-~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~~------~~a   72 (356)
T PLN03088          5 LEDKAKEAFVDDDFALAVDLYTQAIDL-----DPNN-AELYADRAQANIKLGNFTEAVADANKAIELDPSL------AKA   72 (356)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHh-----CCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCC------HHH
Confidence            334456666789999999999999997     4444 45677889998877 9999999999999986543      447


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHhcc
Q psy5288         122 HENIAEIYEKELEDQEKAIDHYQHAADCYAGE  153 (186)
Q Consensus       122 ~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~  153 (186)
                      +..+|.+|.. +|++++|+.+|++++.+.+..
T Consensus        73 ~~~lg~~~~~-lg~~~eA~~~~~~al~l~P~~  103 (356)
T PLN03088         73 YLRKGTACMK-LEEYQTAKAALEKGASLAPGD  103 (356)
T ss_pred             HHHHHHHHHH-hCCHHHHHHHHHHHHHhCCCC
Confidence            8999999999 599999999999999997754

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=98.64  E-value=7.2e-07  Score=73.17  Aligned_cols=88  Identities=15%  Similarity=0.157  Sum_probs=52.9

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHH
Q psy5288          85 DAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLI  164 (186)
Q Consensus        85 ~a~~~y~~~~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~  164 (186)
                      ++...+...++++|+.+|.+|+.+....      +.++.++|.+|.. +|++++|+..+++|+.+.+..      ..++.
T Consensus         8 ~a~~a~~~~~~~~Ai~~~~~Al~~~P~~------~~a~~~~a~~~~~-~g~~~eAl~~~~~Al~l~P~~------~~a~~   74 (356)
T PLN03088          8 KAKEAFVDDDFALAVDLYTQAIDLDPNN------AELYADRAQANIK-LGNFTEAVADANKAIELDPSL------AKAYL   74 (356)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCC------HHHHHHHHHHHHH-cCCHHHHHHHHHHHHHhCcCC------HHHHH
Confidence            3334444456666666666666554332      3356666666666 366777776666666665432      24566


Q ss_pred             HHHHHHHhccCHHHHHHHHHh
Q psy5288         165 KIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       165 ~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ++|.+|..+|+|++|+..|++
T Consensus        75 ~lg~~~~~lg~~~eA~~~~~~   95 (356)
T PLN03088         75 RKGTACMKLEEYQTAKAALEK   95 (356)
T ss_pred             HHHHHHHHhCCHHHHHHHHHH
Confidence            666666666777766666654

>KOG1125|consensus

Probab=98.61  E-value=3e-07  Score=77.45  Aligned_cols=86  Identities=15%  Similarity=0.142  Sum_probs=71.2

Q ss_pred             HHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHH
Q psy5288          87 ANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIK  165 (186)
Q Consensus        87 ~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~  165 (186)
                      |.+|... ++++|+.||+.|+.+-+....      .+++||..+.. ..+.++||..|.+|+++.+.-      .+++.|
T Consensus       437 GVLy~ls~efdraiDcf~~AL~v~Pnd~~------lWNRLGAtLAN-~~~s~EAIsAY~rALqLqP~y------VR~RyN  503 (579)
T KOG1125|consen  437 GVLYNLSGEFDRAVDCFEAALQVKPNDYL------LWNRLGATLAN-GNRSEEAISAYNRALQLQPGY------VRVRYN  503 (579)
T ss_pred             HHHHhcchHHHHHHHHHHHHHhcCCchHH------HHHHhhHHhcC-CcccHHHHHHHHHHHhcCCCe------eeeehh
Confidence            4444433 789999999999887766644      89999999998 589999999999999996642      367899


Q ss_pred             HHHHHHhccCHHHHHHHHHh
Q psy5288         166 IANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       166 la~~y~~~g~~~~A~~~~~~  185 (186)
                      ||..+..+|.|++|+++|-.
T Consensus       504 lgIS~mNlG~ykEA~~hlL~  523 (579)
T KOG1125|consen  504 LGISCMNLGAYKEAVKHLLE  523 (579)
T ss_pred             hhhhhhhhhhHHHHHHHHHH
Confidence            99999999999999999854

>KOG2076|consensus

Probab=98.57  E-value=9.6e-07  Score=77.68  Aligned_cols=127  Identities=17%  Similarity=0.125  Sum_probs=99.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHH
Q psy5288          43 YVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKH  121 (186)
Q Consensus        43 y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~  121 (186)
                      ...++.+..+.+...+++..+..--..     .+......|..+++.|... ++.+|+.++-....-     ...+-+.+
T Consensus       382 rl~icL~~L~~~e~~e~ll~~l~~~n~-----~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~-----~~~~~~~v  451 (895)
T KOG2076|consen  382 RLMICLVHLKERELLEALLHFLVEDNV-----WVSDDVDLYLDLADALTNIGKYKEALRLLSPITNR-----EGYQNAFV  451 (895)
T ss_pred             hHhhhhhcccccchHHHHHHHHHHhcC-----ChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcC-----ccccchhh
Confidence            666666777777777766654322221     3677788999999999887 899999998765432     22233779


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHhC
Q psy5288         122 HENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQL  186 (186)
Q Consensus       122 ~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~~  186 (186)
                      +.++|.||.. +|.+++|+++|++++.+.+..      .++.+.|+.+|.++|++++|.+.++++
T Consensus       452 w~~~a~c~~~-l~e~e~A~e~y~kvl~~~p~~------~D~Ri~Lasl~~~~g~~EkalEtL~~~  509 (895)
T KOG2076|consen  452 WYKLARCYME-LGEYEEAIEFYEKVLILAPDN------LDARITLASLYQQLGNHEKALETLEQI  509 (895)
T ss_pred             hHHHHHHHHH-HhhHHHHHHHHHHHHhcCCCc------hhhhhhHHHHHHhcCCHHHHHHHHhcc
Confidence            9999999999 699999999999999997765      268899999999999999999998763

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.56  E-value=3.1e-06  Score=61.01  Aligned_cols=71  Identities=14%  Similarity=0.081  Sum_probs=34.0

Q ss_pred             HHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCCh-HHHHHHHHH
Q psy5288          88 NCYKKSNPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENK-SSANKCLIK  165 (186)
Q Consensus        88 ~~y~~~~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~-~~~~~~~~~  165 (186)
                      ..|...++++|...|+-...+-...      +.++.+||.++..+ |++++||..|.+|+.+.++...+ ...+.|+..
T Consensus        44 ~ly~~G~l~~A~~~f~~L~~~Dp~~------~~y~~gLG~~~Q~~-g~~~~AI~aY~~A~~L~~ddp~~~~~ag~c~L~  115 (157)
T PRK15363         44 QLMEVKEFAGAARLFQLLTIYDAWS------FDYWFRLGECCQAQ-KHWGEAIYAYGRAAQIKIDAPQAPWAAAECYLA  115 (157)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCccc------HHHHHHHHHHHHHH-hhHHHHHHHHHHHHhcCCCCchHHHHHHHHHHH
Confidence            3333445555555555444443332      22555555555553 55555555555555555443322 233344444

>KOG1129|consensus

Probab=98.55  E-value=1.4e-07  Score=75.10  Aligned_cols=135  Identities=10%  Similarity=0.059  Sum_probs=102.4

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--------------HHHcCChhHHHHHHHHHHHHH---------------
Q psy5288          40 IDLYVRAGNLFKLGKKWNDGGNAFLQAGTL--------------HLKNNNKHDAGLCFVDAANCY---------------   90 (186)
Q Consensus        40 ~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~--------------~~~~~~~~~aa~~~~~a~~~y---------------   90 (186)
                      .+.|.-...+|.+.+++..|+..|...++.              ++.+++.+.+...|....+..               
T Consensus       256 ~dTfllLskvY~ridQP~~AL~~~~~gld~fP~~VT~l~g~ARi~eam~~~~~a~~lYk~vlk~~~~nvEaiAcia~~yf  335 (478)
T KOG1129|consen  256 PDTFLLLSKVYQRIDQPERALLVIGEGLDSFPFDVTYLLGQARIHEAMEQQEDALQLYKLVLKLHPINVEAIACIAVGYF  335 (478)
T ss_pred             hhHHHHHHHHHHHhccHHHHHHHHhhhhhcCCchhhhhhhhHHHHHHHHhHHHHHHHHHHHHhcCCccceeeeeeeeccc
Confidence            456777888899999999999888765553              444555555555554443221               


Q ss_pred             hcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHH
Q psy5288          91 KKSNPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYS  170 (186)
Q Consensus        91 ~~~~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y  170 (186)
                      ...+++-|+++|++.+.+-...+.      .+.++|.|... .+++|-++..|++|+....+.+   .+.++|.|||.|.
T Consensus       336 Y~~~PE~AlryYRRiLqmG~~spe------Lf~NigLCC~y-aqQ~D~~L~sf~RAlstat~~~---~aaDvWYNlg~va  405 (478)
T KOG1129|consen  336 YDNNPEMALRYYRRILQMGAQSPE------LFCNIGLCCLY-AQQIDLVLPSFQRALSTATQPG---QAADVWYNLGFVA  405 (478)
T ss_pred             cCCChHHHHHHHHHHHHhcCCChH------HHhhHHHHHHh-hcchhhhHHHHHHHHhhccCcc---hhhhhhhccceeE
Confidence            112578888888888777655543      78999999888 4899999999999999876543   5679999999999


Q ss_pred             HhccCHHHHHHHHH
Q psy5288         171 ALTDHLDKAIKLYE  184 (186)
Q Consensus       171 ~~~g~~~~A~~~~~  184 (186)
                      +..||+.-|..+|.
T Consensus       406 V~iGD~nlA~rcfr  419 (478)
T KOG1129|consen  406 VTIGDFNLAKRCFR  419 (478)
T ss_pred             EeccchHHHHHHHH
Confidence            99999999998885

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=98.54  E-value=1.9e-06  Score=67.75  Aligned_cols=100  Identities=16%  Similarity=0.171  Sum_probs=78.9

Q ss_pred             HHHHHHHHHHHh-cCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHH
Q psy5288          80 GLCFVDAANCYK-KSNPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSS  158 (186)
Q Consensus        80 a~~~~~a~~~y~-~~~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~  158 (186)
                      ...|..+...+. ..++++|+..|++.+..+.+..   .+...+..+|.+|... |++++|+..|++.+..+++..   .
T Consensus       143 ~~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~---~a~~A~y~LG~~y~~~-g~~~~A~~~f~~vv~~yP~s~---~  215 (263)
T PRK10803        143 NTDYNAAIALVQDKSRQDDAIVAFQNFVKKYPDST---YQPNANYWLGQLNYNK-GKKDDAAYYFASVVKNYPKSP---K  215 (263)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCc---chHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHCCCCc---c
Confidence            344544444434 4589999999999988887654   3445788899999995 999999999999999988643   3


Q ss_pred             HHHHHHHHHHHHHhccCHHHHHHHHHhC
Q psy5288         159 ANKCLIKIANYSALTDHLDKAIKLYEQL  186 (186)
Q Consensus       159 ~~~~~~~la~~y~~~g~~~~A~~~~~~~  186 (186)
                      ....+.++|.+|..+|++++|+++|+++
T Consensus       216 ~~dAl~klg~~~~~~g~~~~A~~~~~~v  243 (263)
T PRK10803        216 AADAMFKVGVIMQDKGDTAKAKAVYQQV  243 (263)
T ss_pred             hhHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            3578899999999999999999999764

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=98.53  E-value=1.1e-06  Score=55.87  Aligned_cols=97  Identities=23%  Similarity=0.300  Sum_probs=78.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHH
Q psy5288          42 LYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAK  120 (186)
Q Consensus        42 ~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~  120 (186)
                      .+...|..+...|++++|+..+.+++++.     +.. ...+..+|.++... ++++|+.++++++.+.....      .
T Consensus         2 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-----~~~-~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~------~   69 (100)
T cd00189           2 ALLNLGNLYYKLGDYDEALEYYEKALELD-----PDN-ADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNA------K   69 (100)
T ss_pred             HHHHHHHHHHHHhcHHHHHHHHHHHHhcC-----Ccc-HHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcch------h
Confidence            35567778888999999999999998873     222 25567888888876 89999999999988764443      5


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHh
Q psy5288         121 HHENIAEIYEKELEDQEKAIDHYQHAADCYA  151 (186)
Q Consensus       121 ~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~  151 (186)
                      ++..+|.++... |++++|..++.+++.+.+
T Consensus        70 ~~~~~~~~~~~~-~~~~~a~~~~~~~~~~~~   99 (100)
T cd00189          70 AYYNLGLAYYKL-GKYEEALEAYEKALELDP   99 (100)
T ss_pred             HHHHHHHHHHHH-HhHHHHHHHHHHHHccCC
Confidence            788999999995 999999999999987653

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=98.52  E-value=2.2e-07  Score=57.68  Aligned_cols=64  Identities=25%  Similarity=0.338  Sum_probs=42.4

Q ss_pred             HHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHH
Q psy5288          80 GLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELE-DQEKAIDHYQHAADCY  150 (186)
Q Consensus        80 a~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg-~~~~Ai~~y~kA~~l~  150 (186)
                      +..|.+.|.++... ++++|+.+|.+++++....      +.++.++|.+|..+ | ++++|+..+++|+.+.
T Consensus         3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~------~~~~~~~g~~~~~~-~~~~~~A~~~~~~al~l~   68 (69)
T PF13414_consen    3 AEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNN------AEAYYNLGLAYMKL-GKDYEEAIEDFEKALKLD   68 (69)
T ss_dssp             HHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTH------HHHHHHHHHHHHHT-TTHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCC------HHHHHHHHHHHHHh-CccHHHHHHHHHHHHHcC
Confidence            34556666666655 6777777777777664222      33677777777774 7 5777777777777764

...

>KOG0543|consensus

Probab=98.49  E-value=3e-06  Score=69.05  Aligned_cols=109  Identities=19%  Similarity=0.219  Sum_probs=86.9

Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcC--Chh-------HHHHHHHHHHHHHhcC-CHHHHHHHHHHHHH
Q psy5288          38 EAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNN--NKH-------DAGLCFVDAANCYKKS-NPAEAIKAIERAVE  107 (186)
Q Consensus        38 ~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~--~~~-------~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~  107 (186)
                      ++++....-|+.|...|+|..|..-|.++.+....-.  +.+       --..++.|++-||.++ ++..|+.++.++|+
T Consensus       206 ~~A~~~ke~Gn~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe  285 (397)
T KOG0543|consen  206 EAADRKKERGNVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLE  285 (397)
T ss_pred             HHHHHHHHhhhHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHh
Confidence            3444455558888889999999999999888865321  111       1246788999999998 89999999999988


Q ss_pred             HHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhcc
Q psy5288         108 IHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGE  153 (186)
Q Consensus       108 i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~  153 (186)
                      +-..+-.      .+++-|.++.. +|+|+.|+..|++|+.+.+.+
T Consensus       286 ~~~~N~K------ALyRrG~A~l~-~~e~~~A~~df~ka~k~~P~N  324 (397)
T KOG0543|consen  286 LDPNNVK------ALYRRGQALLA-LGEYDLARDDFQKALKLEPSN  324 (397)
T ss_pred             cCCCchh------HHHHHHHHHHh-hccHHHHHHHHHHHHHhCCCc
Confidence            7665533      78999999999 599999999999999998876

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=98.48  E-value=1.6e-06  Score=56.09  Aligned_cols=82  Identities=20%  Similarity=0.270  Sum_probs=61.0

Q ss_pred             cCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHH
Q psy5288          53 GKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEK  131 (186)
Q Consensus        53 ~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~  131 (186)
                      .|++++|+..|+++.+....  ++  ....+..+|.||... ++++|+..+++ ..+....      ..+...+|.++..
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~--~~--~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~~~------~~~~~l~a~~~~~   70 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPT--NP--NSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDPSN------PDIHYLLARCLLK   70 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCG--TH--HHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHHCH------HHHHHHHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCC--Ch--hHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCCCC------HHHHHHHHHHHHH
Confidence            57899999999999998533  22  344566799999877 89999999988 3333222      3456677999999


Q ss_pred             hcCCHHHHHHHHHHH
Q psy5288         132 ELEDQEKAIDHYQHA  146 (186)
Q Consensus       132 ~lg~~~~Ai~~y~kA  146 (186)
                       +|++++|+.+|++|
T Consensus        71 -l~~y~eAi~~l~~~   84 (84)
T PF12895_consen   71 -LGKYEEAIKALEKA   84 (84)
T ss_dssp             -TT-HHHHHHHHHHH
T ss_pred             -hCCHHHHHHHHhcC
Confidence             69999999999986

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=98.47  E-value=5.1e-06  Score=65.36  Aligned_cols=109  Identities=17%  Similarity=0.023  Sum_probs=89.2

Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhH
Q psy5288          39 AIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIM  117 (186)
Q Consensus        39 A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~  117 (186)
                      .-..|..+-..+...|+|++|+..|.+.++.+-.   ...+..++..+|.+|... ++++|+..|++.+..+....   .
T Consensus       142 e~~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~---s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~---~  215 (263)
T PRK10803        142 ANTDYNAAIALVQDKSRQDDAIVAFQNFVKKYPD---STYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSP---K  215 (263)
T ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcC---CcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCc---c
Confidence            4566888877767779999999999999998632   223456777999999876 99999999999988887554   4


Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccC
Q psy5288         118 VAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEE  154 (186)
Q Consensus       118 ~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~  154 (186)
                      ....+.++|.++.. +|++++|+..|++.+..+++..
T Consensus       216 ~~dAl~klg~~~~~-~g~~~~A~~~~~~vi~~yP~s~  251 (263)
T PRK10803        216 AADAMFKVGVIMQD-KGDTAKAKAVYQQVIKKYPGTD  251 (263)
T ss_pred             hhHHHHHHHHHHHH-cCCHHHHHHHHHHHHHHCcCCH
Confidence            56679999999998 5999999999999999998653

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.45  E-value=1.9e-05  Score=56.39  Aligned_cols=99  Identities=16%  Similarity=0.103  Sum_probs=76.5

Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChh
Q psy5288          38 EAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFI  116 (186)
Q Consensus        38 ~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~  116 (186)
                      -+.......+.++...|++++|...|..++.-.   .++.....+..+++.++... ++++|+..++.       ..+..
T Consensus        46 ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~---~d~~l~~~a~l~LA~~~~~~~~~d~Al~~L~~-------~~~~~  115 (145)
T PF09976_consen   46 YAALAALQLAKAAYEQGDYDEAKAALEKALANA---PDPELKPLARLRLARILLQQGQYDEALATLQQ-------IPDEA  115 (145)
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC---CCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHh-------ccCcc
Confidence            344445556778889999999999999988842   34555556677889998876 99999998855       22333


Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q psy5288         117 MVAKHHENIAEIYEKELEDQEKAIDHYQHAA  147 (186)
Q Consensus       117 ~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~  147 (186)
                      ..+......|.+|..+ |++++|+..|++|+
T Consensus       116 ~~~~~~~~~Gdi~~~~-g~~~~A~~~y~~Al  145 (145)
T PF09976_consen  116 FKALAAELLGDIYLAQ-GDYDEARAAYQKAL  145 (145)
T ss_pred             hHHHHHHHHHHHHHHC-CCHHHHHHHHHHhC
Confidence            4566788899999996 99999999999985

>PRK14574 hmsH outer membrane protein; Provisional

Probab=98.45  E-value=4.5e-06  Score=75.05  Aligned_cols=126  Identities=12%  Similarity=0.009  Sum_probs=80.3

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHH
Q psy5288          41 DLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVA  119 (186)
Q Consensus        41 ~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a  119 (186)
                      ..|.++ .+..+.|++..|++.|.++++.     +|......+ .+..++... +.++|+.++++++  ......    .
T Consensus        36 ~~y~~a-ii~~r~Gd~~~Al~~L~qaL~~-----~P~~~~av~-dll~l~~~~G~~~~A~~~~eka~--~p~n~~----~  102 (822)
T PRK14574         36 TQYDSL-IIRARAGDTAPVLDYLQEESKA-----GPLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQ--SSMNIS----S  102 (822)
T ss_pred             HHHHHH-HHHHhCCCHHHHHHHHHHHHhh-----CccchhhHH-HHHHHHHHcCCcHHHHHHHHHhc--cCCCCC----H
Confidence            344443 4555678888888888888876     455432333 555555444 7778888888776  111222    2


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHhC
Q psy5288         120 KHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQL  186 (186)
Q Consensus       120 ~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~~  186 (186)
                      ..+..+|.+|..+ |++++|++.|+++++..+++.      .++..++.+|...++.++|++.++++
T Consensus       103 ~~llalA~ly~~~-gdyd~Aiely~kaL~~dP~n~------~~l~gLa~~y~~~~q~~eAl~~l~~l  162 (822)
T PRK14574        103 RGLASAARAYRNE-KRWDQALALWQSSLKKDPTNP------DLISGMIMTQADAGRGGVVLKQATEL  162 (822)
T ss_pred             HHHHHHHHHHHHc-CCHHHHHHHHHHHHhhCCCCH------HHHHHHHHHHhhcCCHHHHHHHHHHh
Confidence            2334446677774 888888888888887766542      44456677777788888888777653

>KOG0547|consensus

Probab=98.43  E-value=6.2e-06  Score=68.74  Aligned_cols=124  Identities=13%  Similarity=0.197  Sum_probs=91.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHH
Q psy5288          43 YVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKH  121 (186)
Q Consensus        43 y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~  121 (186)
                      |.+.+.+|....+..+-...|.+|.++     +|...-.+|++ |+++.-+ ++++|+.-|++|..+....      +..
T Consensus       363 yI~~a~~y~d~~~~~~~~~~F~~A~~l-----dp~n~dvYyHR-gQm~flL~q~e~A~aDF~Kai~L~pe~------~~~  430 (606)
T KOG0547|consen  363 YIKRAAAYADENQSEKMWKDFNKAEDL-----DPENPDVYYHR-GQMRFLLQQYEEAIADFQKAISLDPEN------AYA  430 (606)
T ss_pred             HHHHHHHHhhhhccHHHHHHHHHHHhc-----CCCCCchhHhH-HHHHHHHHHHHHHHHHHHHHhhcChhh------hHH
Confidence            444455666677777777777777777     55555555544 4444433 7888888888888876555      335


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         122 HENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       122 ~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      +..++-+...+ ++.+++...|+.+..-|++.      ..++.-.|+++...++|++|++.|+.
T Consensus       431 ~iQl~~a~Yr~-~k~~~~m~~Fee~kkkFP~~------~Evy~~fAeiLtDqqqFd~A~k~YD~  487 (606)
T KOG0547|consen  431 YIQLCCALYRQ-HKIAESMKTFEEAKKKFPNC------PEVYNLFAEILTDQQQFDKAVKQYDK  487 (606)
T ss_pred             HHHHHHHHHHH-HHHHHHHHHHHHHHHhCCCC------chHHHHHHHHHhhHHhHHHHHHHHHH
Confidence            56666666664 88999999999999988875      37888899999999999999999875

>KOG2076|consensus

Probab=98.40  E-value=9e-06  Score=71.75  Aligned_cols=135  Identities=16%  Similarity=0.228  Sum_probs=103.8

Q ss_pred             CCCCHHHHH-HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHH
Q psy5288          32 GGNKTDEAI-DLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIH  109 (186)
Q Consensus        32 ~~~~~~~A~-~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~  109 (186)
                      ++.....++ .++-+|-..|- .|++++|.+.+..+++.     +| .....|.-+|.||+.. +..+++.++-.|.-+.
T Consensus       131 ~~~~l~~~l~~ll~eAN~lfa-rg~~eeA~~i~~EvIkq-----dp-~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~  203 (895)
T KOG2076|consen  131 GKSKLAPELRQLLGEANNLFA-RGDLEEAEEILMEVIKQ-----DP-RNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLN  203 (895)
T ss_pred             cccccCHHHHHHHHHHHHHHH-hCCHHHHHHHHHHHHHh-----Cc-cchhhHHHHHHHHHHcccHHHHHHHHHHHHhcC
Confidence            455666644 44555554554 49999999999888886     33 3455677999999987 9999999988776554


Q ss_pred             HHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHhC
Q psy5288         110 TDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQL  186 (186)
Q Consensus       110 ~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~~  186 (186)
                      +..-      ..|..++....+ +|++++|+-+|.+|+...+.+      -....+-+.+|.+.|++.+|++.|.++
T Consensus       204 p~d~------e~W~~ladls~~-~~~i~qA~~cy~rAI~~~p~n------~~~~~ers~L~~~~G~~~~Am~~f~~l  267 (895)
T KOG2076|consen  204 PKDY------ELWKRLADLSEQ-LGNINQARYCYSRAIQANPSN------WELIYERSSLYQKTGDLKRAMETFLQL  267 (895)
T ss_pred             CCCh------HHHHHHHHHHHh-cccHHHHHHHHHHHHhcCCcc------hHHHHHHHHHHHHhChHHHHHHHHHHH
Confidence            4432      378889999998 599999999999999986654      256677889999999999999999764

>PLN02789 farnesyltranstransferase

Probab=98.38  E-value=1.4e-05  Score=64.70  Aligned_cols=132  Identities=11%  Similarity=0.037  Sum_probs=91.8

Q ss_pred             CCCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC--CHHHHHHHHHHHHHHH
Q psy5288          32 GGNKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS--NPAEAIKAIERAVEIH  109 (186)
Q Consensus        32 ~~~~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~--~~~~A~~~~~~Al~i~  109 (186)
                      -+++|.++.++|..+   +...+.+++|+..+.+++.+     +|... .++..-+.++..+  ++++++.++.+++...
T Consensus        32 y~~~~~~a~~~~ra~---l~~~e~serAL~lt~~aI~l-----nP~~y-taW~~R~~iL~~L~~~l~eeL~~~~~~i~~n  102 (320)
T PLN02789         32 YTPEFREAMDYFRAV---YASDERSPRALDLTADVIRL-----NPGNY-TVWHFRRLCLEALDADLEEELDFAEDVAEDN  102 (320)
T ss_pred             eCHHHHHHHHHHHHH---HHcCCCCHHHHHHHHHHHHH-----CchhH-HHHHHHHHHHHHcchhHHHHHHHHHHHHHHC
Confidence            457888888888775   56678888999999888887     34433 3444555566555  4678888888887665


Q ss_pred             HHcCChhHHHHHHHHHHHHHHHhcCCH--HHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         110 TDMGRFIMVAKHHENIAEIYEKELEDQ--EKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       110 ~~~~~~~~~a~~~~~lg~~y~~~lg~~--~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      .+.-.      ++..-+.++.. +|..  ++++.++++++++.+++      ..+|.+.+-++..+|+|++|++++++
T Consensus       103 pknyq------aW~~R~~~l~~-l~~~~~~~el~~~~kal~~dpkN------y~AW~~R~w~l~~l~~~~eeL~~~~~  167 (320)
T PLN02789        103 PKNYQ------IWHHRRWLAEK-LGPDAANKELEFTRKILSLDAKN------YHAWSHRQWVLRTLGGWEDELEYCHQ  167 (320)
T ss_pred             CcchH------HhHHHHHHHHH-cCchhhHHHHHHHHHHHHhCccc------HHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence            44422      56666766666 4653  66777888888776654      36777778888888888888887765

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=98.36  E-value=2.5e-05  Score=54.20  Aligned_cols=93  Identities=14%  Similarity=0.075  Sum_probs=50.1

Q ss_pred             HHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHH
Q psy5288          84 VDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKC  162 (186)
Q Consensus        84 ~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~  162 (186)
                      .+.+.++... ++++|+.+|++|+..  .+ +.......+..+|..+.. +|++++|+..+++++.-++.....   ...
T Consensus         5 ~~~A~a~d~~G~~~~Ai~~Y~~Al~~--gL-~~~~~~~a~i~lastlr~-LG~~deA~~~L~~~~~~~p~~~~~---~~l   77 (120)
T PF12688_consen    5 YELAWAHDSLGREEEAIPLYRRALAA--GL-SGADRRRALIQLASTLRN-LGRYDEALALLEEALEEFPDDELN---AAL   77 (120)
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHc--CC-CchHHHHHHHHHHHHHHH-cCCHHHHHHHHHHHHHHCCCcccc---HHH
Confidence            3455555544 666666666666552  11 112333456666666666 466666666666666655442211   122


Q ss_pred             HHHHHHHHHhccCHHHHHHHH
Q psy5288         163 LIKIANYSALTDHLDKAIKLY  183 (186)
Q Consensus       163 ~~~la~~y~~~g~~~~A~~~~  183 (186)
                      ...++.++...|++++|+..+
T Consensus        78 ~~f~Al~L~~~gr~~eAl~~~   98 (120)
T PF12688_consen   78 RVFLALALYNLGRPKEALEWL   98 (120)
T ss_pred             HHHHHHHHHHCCCHHHHHHHH
Confidence            233555666666666666654

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=98.34  E-value=1.4e-06  Score=53.44  Aligned_cols=55  Identities=16%  Similarity=0.249  Sum_probs=48.3

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         124 NIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       124 ~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      .+|..+... |++++|+..|++++...+..      ..++..+|.++..+|++++|+.+|++
T Consensus         2 ~~a~~~~~~-g~~~~A~~~~~~~l~~~P~~------~~a~~~lg~~~~~~g~~~~A~~~~~~   56 (65)
T PF13432_consen    2 ALARALYQQ-GDYDEAIAAFEQALKQDPDN------PEAWYLLGRILYQQGRYDEALAYYER   56 (65)
T ss_dssp             HHHHHHHHC-THHHHHHHHHHHHHCCSTTH------HHHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred             hHHHHHHHc-CCHHHHHHHHHHHHHHCCCC------HHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            578888885 99999999999999987653      47999999999999999999999986

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=98.33  E-value=3.5e-05  Score=62.54  Aligned_cols=124  Identities=8%  Similarity=-0.092  Sum_probs=85.4

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhc-CCHHHHHHHHHHHHHHHHHcCChhHHHHHHHH
Q psy5288          46 AGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKK-SNPAEAIKAIERAVEIHTDMGRFIMVAKHHEN  124 (186)
Q Consensus        46 ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~-~~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~  124 (186)
                      .+.+....|++++|...+.++++.     +|........  +..+.. .++..+.....+++..  ...........+..
T Consensus        49 ~a~~~~~~g~~~~A~~~~~~~l~~-----~P~~~~a~~~--~~~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~~~~~  119 (355)
T cd05804          49 EALSAWIAGDLPKALALLEQLLDD-----YPRDLLALKL--HLGAFGLGDFSGMRDHVARVLPL--WAPENPDYWYLLGM  119 (355)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHH-----CCCcHHHHHH--hHHHHHhcccccCchhHHHHHhc--cCcCCCCcHHHHHH
Confidence            355677889999999999999886     3433321111  222211 1222222333333332  33445555667788


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         125 IAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       125 lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      +|.++..+ |++++|+..+++++.+.++.      ...+..+|.+|...|++++|+.++++
T Consensus       120 ~a~~~~~~-G~~~~A~~~~~~al~~~p~~------~~~~~~la~i~~~~g~~~eA~~~l~~  173 (355)
T cd05804         120 LAFGLEEA-GQYDRAEEAARRALELNPDD------AWAVHAVAHVLEMQGRFKEGIAFMES  173 (355)
T ss_pred             HHHHHHHc-CCHHHHHHHHHHHHhhCCCC------cHHHHHHHHHHHHcCCHHHHHHHHHh
Confidence            99999995 99999999999999997654      25778899999999999999999876

A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been speculated that StaR could be a flavoprotein hydroxylating a tyrosine sidechain. Some family members have been annotated as proteins containing tetratricopeptide (TPR) repeats, which may at least indicate mostly alpha-helical secondary structure.

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.30  E-value=1.7e-05  Score=70.20  Aligned_cols=131  Identities=10%  Similarity=0.019  Sum_probs=107.2

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHH
Q psy5288          40 IDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMV  118 (186)
Q Consensus        40 ~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~  118 (186)
                      -+...++-.+...-+....+....-++....+.   ...-...+..+|.+-... .+++|...++.++++..+.      
T Consensus        49 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd~------  119 (694)
T PRK15179         49 RELLQQARQVLERHAAVHKPAAALPELLDYVRR---YPHTELFQVLVARALEAAHRSDEGLAVWRGIHQRFPDS------  119 (694)
T ss_pred             HHHHHHHHHHHHHhhhhcchHhhHHHHHHHHHh---ccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCc------
Confidence            456677777777777777777777666666543   344477788999998877 9999999999999988766      


Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHhC
Q psy5288         119 AKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQL  186 (186)
Q Consensus       119 a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~~  186 (186)
                      .....+++.++..+ +++++|...+++++...+++      ...+..+|.++..+|+|++|+++|+++
T Consensus       120 ~~a~~~~a~~L~~~-~~~eeA~~~~~~~l~~~p~~------~~~~~~~a~~l~~~g~~~~A~~~y~~~  180 (694)
T PRK15179        120 SEAFILMLRGVKRQ-QGIEAGRAEIELYFSGGSSS------AREILLEAKSWDEIGQSEQADACFERL  180 (694)
T ss_pred             HHHHHHHHHHHHHh-ccHHHHHHHHHHHhhcCCCC------HHHHHHHHHHHHHhcchHHHHHHHHHH
Confidence            34788899999985 99999999999999987754      367889999999999999999999874

>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi

Probab=98.30  E-value=3.9e-05  Score=63.59  Aligned_cols=116  Identities=14%  Similarity=0.142  Sum_probs=90.4

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHH
Q psy5288          48 NLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIA  126 (186)
Q Consensus        48 ~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg  126 (186)
                      ..+...++++.|++.+++..+-     +|+-    ..-+++++... +..+|++.+.+++...+..      +..+...+
T Consensus       177 ~~l~~t~~~~~ai~lle~L~~~-----~pev----~~~LA~v~l~~~~E~~AI~ll~~aL~~~p~d------~~LL~~Qa  241 (395)
T PF09295_consen  177 KYLSLTQRYDEAIELLEKLRER-----DPEV----AVLLARVYLLMNEEVEAIRLLNEALKENPQD------SELLNLQA  241 (395)
T ss_pred             HHHhhcccHHHHHHHHHHHHhc-----CCcH----HHHHHHHHHhcCcHHHHHHHHHHHHHhCCCC------HHHHHHHH
Confidence            4566678888888888776654     3432    22467777665 6789999999998433222      66777888


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         127 EIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       127 ~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ..+... ++++.|+...++|..+.+..      -.+|..|+.+|+.+|+|++|+-.++.
T Consensus       242 ~fLl~k-~~~~lAL~iAk~av~lsP~~------f~~W~~La~~Yi~~~d~e~ALlaLNs  293 (395)
T PF09295_consen  242 EFLLSK-KKYELALEIAKKAVELSPSE------FETWYQLAECYIQLGDFENALLALNS  293 (395)
T ss_pred             HHHHhc-CCHHHHHHHHHHHHHhCchh------HHHHHHHHHHHHhcCCHHHHHHHHhc
Confidence            888886 99999999999999997754      47999999999999999999987763

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function

Probab=98.28  E-value=1.9e-05  Score=60.28  Aligned_cols=92  Identities=16%  Similarity=0.141  Sum_probs=75.5

Q ss_pred             CHHHHHHHHHHHHHHHHHcC-ChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhcc----CC---hHHHHHHHHH
Q psy5288          94 NPAEAIKAIERAVEIHTDMG-RFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGE----EN---KSSANKCLIK  165 (186)
Q Consensus        94 ~~~~A~~~~~~Al~i~~~~~-~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~----~~---~~~~~~~~~~  165 (186)
                      .+++|++.|.-|+-.....+ ++...|.++.++|.+|... |+-+....++++|++.|.+.    ..   ......++.-
T Consensus        92 t~~~ai~~YkLAll~~~~~~~~~s~~A~l~LrlAWlyR~~-~~~~~E~~fl~~Al~~y~~a~~~e~~~~~~~~~~~l~YL  170 (214)
T PF09986_consen   92 TLEEAIESYKLALLCAQIKKEKPSKKAGLCLRLAWLYRDL-GDEENEKRFLRKALEFYEEAYENEDFPIEGMDEATLLYL  170 (214)
T ss_pred             CHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcc-CCHHHHHHHHHHHHHHHHHHHHhCcCCCCCchHHHHHHH
Confidence            67899999999998887554 7789999999999999995 99888888888888887752    11   2233457788


Q ss_pred             HHHHHHhccCHHHHHHHHHhC
Q psy5288         166 IANYSALTDHLDKAIKLYEQL  186 (186)
Q Consensus       166 la~~y~~~g~~~~A~~~~~~~  186 (186)
                      +|++..++|++++|+..|.+|
T Consensus       171 igeL~rrlg~~~eA~~~fs~v  191 (214)
T PF09986_consen  171 IGELNRRLGNYDEAKRWFSRV  191 (214)
T ss_pred             HHHHHHHhCCHHHHHHHHHHH
Confidence            999999999999999999875

>PRK14574 hmsH outer membrane protein; Provisional

Probab=98.26  E-value=1.7e-05  Score=71.50  Aligned_cols=115  Identities=9%  Similarity=0.094  Sum_probs=55.3

Q ss_pred             HHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHH
Q psy5288          49 LFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAE  127 (186)
Q Consensus        49 ~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~  127 (186)
                      +|...|++++|++.|.++++.     +|... ..+.-++.+|... ++++|++.++++.......       ..+..++.
T Consensus       111 ly~~~gdyd~Aiely~kaL~~-----dP~n~-~~l~gLa~~y~~~~q~~eAl~~l~~l~~~dp~~-------~~~l~lay  177 (822)
T PRK14574        111 AYRNEKRWDQALALWQSSLKK-----DPTNP-DLISGMIMTQADAGRGGVVLKQATELAERDPTV-------QNYMTLSY  177 (822)
T ss_pred             HHHHcCCHHHHHHHHHHHHhh-----CCCCH-HHHHHHHHHHhhcCCHHHHHHHHHHhcccCcch-------HHHHHHHH
Confidence            455555555555555555554     33332 2222334444444 5555555555554443321       11122344


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHH
Q psy5288         128 IYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLY  183 (186)
Q Consensus       128 ~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~  183 (186)
                      ++... +++.+|++.|+++++..+.+.      .++..+..++...|-.+.|.+..
T Consensus       178 L~~~~-~~~~~AL~~~ekll~~~P~n~------e~~~~~~~~l~~~~~~~~a~~l~  226 (822)
T PRK14574        178 LNRAT-DRNYDALQASSEAVRLAPTSE------EVLKNHLEILQRNRIVEPALRLA  226 (822)
T ss_pred             HHHhc-chHHHHHHHHHHHHHhCCCCH------HHHHHHHHHHHHcCCcHHHHHHH
Confidence            44332 455446666666666554331      34455555555555555555544

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=98.25  E-value=0.00013  Score=55.10  Aligned_cols=139  Identities=17%  Similarity=0.121  Sum_probs=96.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHH
Q psy5288          42 LYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAK  120 (186)
Q Consensus        42 ~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~  120 (186)
                      .+...|..+...|++.+|+..|.+....+..   ...+..+...+|.+|... ++++|+..+++-++.++....   +..
T Consensus         7 ~lY~~a~~~~~~g~y~~Ai~~f~~l~~~~P~---s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~---~~~   80 (203)
T PF13525_consen    7 ALYQKALEALQQGDYEEAIKLFEKLIDRYPN---SPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPK---ADY   80 (203)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHHH-TT---STTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TT---HHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHCCC---ChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcc---hhh
Confidence            3444456666789999999999999887633   334556667888888776 999999999998888777654   455


Q ss_pred             HHHHHHHHHHHh----------cCCHHHHHHHHHHHHHHHhccCChHHHH-----------HHHHHHHHHHHhccCHHHH
Q psy5288         121 HHENIAEIYEKE----------LEDQEKAIDHYQHAADCYAGEENKSSAN-----------KCLIKIANYSALTDHLDKA  179 (186)
Q Consensus       121 ~~~~lg~~y~~~----------lg~~~~Ai~~y~kA~~l~~~~~~~~~~~-----------~~~~~la~~y~~~g~~~~A  179 (186)
                      ++..+|.++..+          .+...+|+..|++.+.-++++.....+.           .--..+|..|.+.|.|.-|
T Consensus        81 A~Y~~g~~~~~~~~~~~~~~~D~~~~~~A~~~~~~li~~yP~S~y~~~A~~~l~~l~~~la~~e~~ia~~Y~~~~~y~aA  160 (203)
T PF13525_consen   81 ALYMLGLSYYKQIPGILRSDRDQTSTRKAIEEFEELIKRYPNSEYAEEAKKRLAELRNRLAEHELYIARFYYKRGKYKAA  160 (203)
T ss_dssp             HHHHHHHHHHHHHHHHH-TT---HHHHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHHHHHHHHHHHHHHCTT-HHHH
T ss_pred             HHHHHHHHHHHhCccchhcccChHHHHHHHHHHHHHHHHCcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHH
Confidence            667777765432          1345689999999999999764332221           2335678889999999999


Q ss_pred             HHHHHhC
Q psy5288         180 IKLYEQL  186 (186)
Q Consensus       180 ~~~~~~~  186 (186)
                      +..|+.|
T Consensus       161 ~~r~~~v  167 (203)
T PF13525_consen  161 IIRFQYV  167 (203)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9988753

>KOG4234|consensus

Probab=98.25  E-value=1.8e-05  Score=59.20  Aligned_cols=132  Identities=23%  Similarity=0.297  Sum_probs=103.5

Q ss_pred             HHhHHHHHHHHHHhhccCCCCccccccCCCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHH
Q psy5288           5 EQKARQLVAEAEKKISSSSKGFFSQFTGGNKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFV   84 (186)
Q Consensus         5 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~   84 (186)
                      +-+-+.||.+.++.+.   ..      .+.+--.-++-...-|+-+...|+|++|..-|..|+.+...... ...+.+|.
T Consensus        69 El~eEeLmae~E~i~~---de------ek~k~~~kad~lK~EGN~~F~ngdyeeA~skY~~Ale~cp~~~~-e~rsIly~  138 (271)
T KOG4234|consen   69 ELKEEELMAEIEKIFS---DE------EKDKAIEKADSLKKEGNELFKNGDYEEANSKYQEALESCPSTST-EERSILYS  138 (271)
T ss_pred             hhhHHHHHHHHHHhcC---cH------HHHHHHHHHHHHHHHHHHhhhcccHHHHHHHHHHHHHhCccccH-HHHHHHHh
Confidence            3456788989998888   21      11122233455666689899999999999999999999876543 45678888


Q ss_pred             HHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhcc
Q psy5288          85 DAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGE  153 (186)
Q Consensus        85 ~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~  153 (186)
                      +-|.+..++ .+..|+.-+-+|++|......      .+..-+.+|+.. ..|+.|++-|.+.+++.+..
T Consensus       139 Nraaa~iKl~k~e~aI~dcsKaiel~pty~k------Al~RRAeayek~-ek~eealeDyKki~E~dPs~  201 (271)
T KOG4234|consen  139 NRAAALIKLRKWESAIEDCSKAIELNPTYEK------ALERRAEAYEKM-EKYEEALEDYKKILESDPSR  201 (271)
T ss_pred             hhHHHHHHhhhHHHHHHHHHhhHhcCchhHH------HHHHHHHHHHhh-hhHHHHHHHHHHHHHhCcch
Confidence            888888888 789999999999998766544      566789999995 99999999999999987753

>KOG3060|consensus

Probab=98.24  E-value=5.5e-05  Score=58.41  Aligned_cols=121  Identities=18%  Similarity=0.123  Sum_probs=72.6

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHH
Q psy5288          47 GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVAKHHENIA  126 (186)
Q Consensus        47 g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg  126 (186)
                      |..+...|++++|+++|...++=     +|...+..-.+++-+-...+.-+|++....=++.+...      ...+..++
T Consensus        93 am~lEa~~~~~~A~e~y~~lL~d-----dpt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~F~~D------~EAW~eLa  161 (289)
T KOG3060|consen   93 AMLLEATGNYKEAIEYYESLLED-----DPTDTVIRKRKLAILKAQGKNLEAIKELNEYLDKFMND------QEAWHELA  161 (289)
T ss_pred             HHHHHHhhchhhHHHHHHHHhcc-----CcchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCc------HHHHHHHH
Confidence            33455666677777766665542     45555555545544433344446666555555544333      33677788


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhcc---CHHHHHHHHHh
Q psy5288         127 EIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTD---HLDKAIKLYEQ  185 (186)
Q Consensus       127 ~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g---~~~~A~~~~~~  185 (186)
                      .+|.+. |++++|+-||++.+-+.|-+      ..++..+|+++.-.|   ++.-|.++|.+
T Consensus       162 eiY~~~-~~f~kA~fClEE~ll~~P~n------~l~f~rlae~~Yt~gg~eN~~~arkyy~~  216 (289)
T KOG3060|consen  162 EIYLSE-GDFEKAAFCLEELLLIQPFN------PLYFQRLAEVLYTQGGAENLELARKYYER  216 (289)
T ss_pred             HHHHhH-hHHHHHHHHHHHHHHcCCCc------HHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            888874 88888888888877765432      256677777765443   55556666654

>KOG0548|consensus

Probab=98.23  E-value=4.3e-05  Score=64.28  Aligned_cols=131  Identities=19%  Similarity=0.165  Sum_probs=92.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH------cCChhHH--------------HHHHHHHHHHHh-cCCHHHHHH
Q psy5288          42 LYVRAGNLFKLGKKWNDGGNAFLQAGTLHLK------NNNKHDA--------------GLCFVDAANCYK-KSNPAEAIK  100 (186)
Q Consensus        42 ~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~------~~~~~~a--------------a~~~~~a~~~y~-~~~~~~A~~  100 (186)
                      ++-..|+.|...++++.++.+|++++.-+++      +...+.+              +.-...-|..+. ..+|..|+.
T Consensus       300 ~~~r~g~a~~k~~~~~~ai~~~~kaLte~Rt~~~ls~lk~~Ek~~k~~e~~a~~~pe~A~e~r~kGne~Fk~gdy~~Av~  379 (539)
T KOG0548|consen  300 ALARLGNAYTKREDYEGAIKYYQKALTEHRTPDLLSKLKEAEKALKEAERKAYINPEKAEEEREKGNEAFKKGDYPEAVK  379 (539)
T ss_pred             HHHHhhhhhhhHHhHHHHHHHHHHHhhhhcCHHHHHHHHHHHHHHHHHHHHHhhChhHHHHHHHHHHHHHhccCHHHHHH
Confidence            3444566777777888888888877766553      1111111              111122244443 348999999


Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHH
Q psy5288         101 AIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAI  180 (186)
Q Consensus       101 ~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~  180 (186)
                      +|-+|+...      +.-+..|.|-|.+|.. ||++..|+.-.++++++.+     .+ ...|..-|.++..+.+|++|+
T Consensus       380 ~YteAIkr~------P~Da~lYsNRAac~~k-L~~~~~aL~Da~~~ieL~p-----~~-~kgy~RKg~al~~mk~ydkAl  446 (539)
T KOG0548|consen  380 HYTEAIKRD------PEDARLYSNRAACYLK-LGEYPEALKDAKKCIELDP-----NF-IKAYLRKGAALRAMKEYDKAL  446 (539)
T ss_pred             HHHHHHhcC------CchhHHHHHHHHHHHH-HhhHHHHHHHHHHHHhcCc-----hH-HHHHHHHHHHHHHHHHHHHHH
Confidence            999977655      3336689999999999 7999999999999999843     33 367788899999999999999


Q ss_pred             HHHHh
Q psy5288         181 KLYEQ  185 (186)
Q Consensus       181 ~~~~~  185 (186)
                      +.|++
T Consensus       447 eay~e  451 (539)
T KOG0548|consen  447 EAYQE  451 (539)
T ss_pred             HHHHH
Confidence            99975

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=98.21  E-value=0.00024  Score=59.14  Aligned_cols=171  Identities=10%  Similarity=0.043  Sum_probs=104.7

Q ss_pred             hHHhHHHHHHHHHHhhccCCCCcc------ccc-cCCCCHHHHHHHHHHH--------------HHHHHhcCCHHHHHHH
Q psy5288           4 NEQKARQLVAEAEKKISSSSKGFF------SQF-TGGNKTDEAIDLYVRA--------------GNLFKLGKKWNDGGNA   62 (186)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~~~~~~~------~~~-~~~~~~~~A~~~y~~a--------------g~~~~~~g~~~~A~~~   62 (186)
                      +++.+++++.+|.+...   +..+      .++ +..++++.|...+.++              +.+|...|++++|.+.
T Consensus       133 ~~~~A~~~l~~A~~~~~---~~~~~~~l~~a~l~l~~g~~~~Al~~l~~~~~~~P~~~~al~ll~~~~~~~gdw~~a~~~  209 (398)
T PRK10747        133 DEARANQHLERAAELAD---NDQLPVEITRVRIQLARNENHAARHGVDKLLEVAPRHPEVLRLAEQAYIRTGAWSSLLDI  209 (398)
T ss_pred             CHHHHHHHHHHHHhcCC---cchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHhHHHHHHH
Confidence            45677777777766554   2211      001 1457888888887776              4567778888888866


Q ss_pred             HHHHHHHHHH----------------------cCChhHHHH--------------HHHHHHHHHhcC-CHHHHHHHHHHH
Q psy5288          63 FLQAGTLHLK----------------------NNNKHDAGL--------------CFVDAANCYKKS-NPAEAIKAIERA  105 (186)
Q Consensus        63 y~~a~~~~~~----------------------~~~~~~aa~--------------~~~~a~~~y~~~-~~~~A~~~~~~A  105 (186)
                      +.+..+....                      ..+......              .....+..+... +.++|....+++
T Consensus       210 l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~~lp~~~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~  289 (398)
T PRK10747        210 LPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWKNQSRKTRHQVALQVAMAEHLIECDDHDTAQQIILDG  289 (398)
T ss_pred             HHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhCCHHHhCCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            6555432100                      000000001              111223333333 566666666666


Q ss_pred             HHH---------HHHc--CCh--------------hHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHH
Q psy5288         106 VEI---------HTDM--GRF--------------IMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSAN  160 (186)
Q Consensus       106 l~i---------~~~~--~~~--------------~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~  160 (186)
                      ++.         +...  +++              +.-+..+..+|.++... +++++|..+|++++.+.++.       
T Consensus       290 l~~~~~~~l~~l~~~l~~~~~~~al~~~e~~lk~~P~~~~l~l~lgrl~~~~-~~~~~A~~~le~al~~~P~~-------  361 (398)
T PRK10747        290 LKRQYDERLVLLIPRLKTNNPEQLEKVLRQQIKQHGDTPLLWSTLGQLLMKH-GEWQEASLAFRAALKQRPDA-------  361 (398)
T ss_pred             HhcCCCHHHHHHHhhccCCChHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHC-CCHHHHHHHHHHHHhcCCCH-------
Confidence            552         1111  221              12234678889999995 99999999999999985542       


Q ss_pred             HHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         161 KCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       161 ~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ..+..++.++.++|+.++|.++|++
T Consensus       362 ~~~~~La~~~~~~g~~~~A~~~~~~  386 (398)
T PRK10747        362 YDYAWLADALDRLHKPEEAAAMRRD  386 (398)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            4567899999999999999999975

>TIGR00540 hemY_coli hemY protein

Probab=98.20  E-value=5.6e-05  Score=63.14  Aligned_cols=129  Identities=12%  Similarity=0.074  Sum_probs=91.4

Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHH---HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCh
Q psy5288          39 AIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGL---CFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRF  115 (186)
Q Consensus        39 A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~---~~~~a~~~y~~~~~~~A~~~~~~Al~i~~~~~~~  115 (186)
                      ....+...+..+...|++++|.+...++++..     |+....   .+...+.+ ...+.+.++..++++++...+.-  
T Consensus       262 ~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~-----pd~~~~~~~~l~~~~~l-~~~~~~~~~~~~e~~lk~~p~~~--  333 (409)
T TIGR00540       262 NIALKIALAEHLIDCDDHDSAQEIIFDGLKKL-----GDDRAISLPLCLPIPRL-KPEDNEKLEKLIEKQAKNVDDKP--  333 (409)
T ss_pred             CHHHHHHHHHHHHHCCChHHHHHHHHHHHhhC-----CCcccchhHHHHHhhhc-CCCChHHHHHHHHHHHHhCCCCh--
Confidence            45566666778999999999999999988863     333322   22111111 11267788888888775443332  


Q ss_pred             hHHHHHHHHHHHHHHHhcCCHHHHHHHHHH--HHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         116 IMVAKHHENIAEIYEKELEDQEKAIDHYQH--AADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       116 ~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~k--A~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      .  ..++..+|.++..+ |++++|.++|++  ++...++.       ..+..+|.++..+|+.++|.+++++
T Consensus       334 ~--~~ll~sLg~l~~~~-~~~~~A~~~le~a~a~~~~p~~-------~~~~~La~ll~~~g~~~~A~~~~~~  395 (409)
T TIGR00540       334 K--CCINRALGQLLMKH-GEFIEAADAFKNVAACKEQLDA-------NDLAMAADAFDQAGDKAEAAAMRQD  395 (409)
T ss_pred             h--HHHHHHHHHHHHHc-ccHHHHHHHHHHhHHhhcCCCH-------HHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            1  35788899999985 999999999995  55554321       3456999999999999999999976

This is an uncharacterized protein encoded next to a heme-biosynthetic enzyme in two gamma division proteobacteria (E. coli and H. influenzae). It is known in no other species. The gene symbol hemY is unfortunate in that an unrelated protein, protoporphyrinogen oxidase, is designated as HemG in E. coli but as HemY in Bacillus subtilis.

>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A

Probab=98.18  E-value=6.4e-06  Score=50.78  Aligned_cols=47  Identities=21%  Similarity=0.258  Sum_probs=41.8

Q ss_pred             CCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHhC
Q psy5288         134 EDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQL  186 (186)
Q Consensus       134 g~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~~  186 (186)
                      |++++|+..|++++...+++      ..++..+|.+|.+.|++++|...++++
T Consensus         5 ~~~~~A~~~~~~~l~~~p~~------~~~~~~la~~~~~~g~~~~A~~~l~~~   51 (68)
T PF14559_consen    5 GDYDEAIELLEKALQRNPDN------PEARLLLAQCYLKQGQYDEAEELLERL   51 (68)
T ss_dssp             THHHHHHHHHHHHHHHTTTS------HHHHHHHHHHHHHTT-HHHHHHHHHCC
T ss_pred             cCHHHHHHHHHHHHHHCCCC------HHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            89999999999999998864      368889999999999999999999875

...

>KOG0548|consensus

Probab=98.16  E-value=0.00013  Score=61.52  Aligned_cols=100  Identities=17%  Similarity=0.199  Sum_probs=81.8

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHH
Q psy5288          40 IDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMV  118 (186)
Q Consensus        40 ~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~  118 (186)
                      ++-....|+.+...|+|..|+..|.+|+.-     +|. -+..|.|-+-||.++ .+..|+..++.++++.      +..
T Consensus       358 A~e~r~kGne~Fk~gdy~~Av~~YteAIkr-----~P~-Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~------p~~  425 (539)
T KOG0548|consen  358 AEEEREKGNEAFKKGDYPEAVKHYTEAIKR-----DPE-DARLYSNRAACYLKLGEYPEALKDAKKCIELD------PNF  425 (539)
T ss_pred             HHHHHHHHHHHHhccCHHHHHHHHHHHHhc-----CCc-hhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC------chH
Confidence            444444499999999999999999998875     344 456788999999998 9999999999998882      233


Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhc
Q psy5288         119 AKHHENIAEIYEKELEDQEKAIDHYQHAADCYAG  152 (186)
Q Consensus       119 a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~  152 (186)
                      ...|..-|.++..+ .+|++|++.|++++++.++
T Consensus       426 ~kgy~RKg~al~~m-k~ydkAleay~eale~dp~  458 (539)
T KOG0548|consen  426 IKAYLRKGAALRAM-KEYDKALEAYQEALELDPS  458 (539)
T ss_pred             HHHHHHHHHHHHHH-HHHHHHHHHHHHHHhcCch
Confidence            45677789999984 9999999999999998654

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.15  E-value=5.6e-05  Score=58.39  Aligned_cols=118  Identities=15%  Similarity=0.079  Sum_probs=79.1

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHH
Q psy5288          46 AGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHEN  124 (186)
Q Consensus        46 ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~  124 (186)
                      -|...-..|++..|+..+.++..+     +|.. ...+.-+|-+|... +++.|...|.+|+++......      +..|
T Consensus       106 ~gk~~~~~g~~~~A~~~~rkA~~l-----~p~d-~~~~~~lgaaldq~Gr~~~Ar~ay~qAl~L~~~~p~------~~nN  173 (257)
T COG5010         106 QGKNQIRNGNFGEAVSVLRKAARL-----APTD-WEAWNLLGAALDQLGRFDEARRAYRQALELAPNEPS------IANN  173 (257)
T ss_pred             HHHHHHHhcchHHHHHHHHHHhcc-----CCCC-hhhhhHHHHHHHHccChhHHHHHHHHHHHhccCCch------hhhh
Confidence            344555677777777777777776     2332 24455667777666 777777777777777765544      6777


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHH
Q psy5288         125 IAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKL  182 (186)
Q Consensus       125 lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~  182 (186)
                      +|..|.=+ |+++.|..++.++...-..+      ..+..|++.+....|+++.|.++
T Consensus       174 lgms~~L~-gd~~~A~~lll~a~l~~~ad------~~v~~NLAl~~~~~g~~~~A~~i  224 (257)
T COG5010         174 LGMSLLLR-GDLEDAETLLLPAYLSPAAD------SRVRQNLALVVGLQGDFREAEDI  224 (257)
T ss_pred             HHHHHHHc-CCHHHHHHHHHHHHhCCCCc------hHHHHHHHHHHhhcCChHHHHhh
Confidence            77777765 77777777777776643322      25667777777777777777654

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.15  E-value=5.3e-05  Score=68.32  Aligned_cols=130  Identities=10%  Similarity=0.054  Sum_probs=91.8

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHc------
Q psy5288          40 IDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDM------  112 (186)
Q Consensus        40 ~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~------  112 (186)
                      .+.+.++...+...+++++|++....+++.     .|......|.... +|... +++++.-.  +++++....      
T Consensus        31 ~~a~~~Li~~~~~~~~~deai~i~~~~l~~-----~P~~i~~yy~~G~-l~~q~~~~~~~~lv--~~l~~~~~~~~~~~v  102 (906)
T PRK14720         31 FKELDDLIDAYKSENLTDEAKDICEEHLKE-----HKKSISALYISGI-LSLSRRPLNDSNLL--NLIDSFSQNLKWAIV  102 (906)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHh-----CCcceehHHHHHH-HHHhhcchhhhhhh--hhhhhcccccchhHH
Confidence            344556667888899999999988877765     3444444443333 54433 44444333  444433333      


Q ss_pred             -------CChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         113 -------GRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       113 -------~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                             +++..--..+..+|.||.. +|+.++|+..|++++++.+++      ..+++++|..|... +.++|++++.+
T Consensus       103 e~~~~~i~~~~~~k~Al~~LA~~Ydk-~g~~~ka~~~yer~L~~D~~n------~~aLNn~AY~~ae~-dL~KA~~m~~K  174 (906)
T PRK14720        103 EHICDKILLYGENKLALRTLAEAYAK-LNENKKLKGVWERLVKADRDN------PEIVKKLATSYEEE-DKEKAITYLKK  174 (906)
T ss_pred             HHHHHHHHhhhhhhHHHHHHHHHHHH-cCChHHHHHHHHHHHhcCccc------HHHHHHHHHHHHHh-hHHHHHHHHHH
Confidence                   3333334578899999999 599999999999999997543      47999999999999 99999999876

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=98.14  E-value=0.0003  Score=54.78  Aligned_cols=141  Identities=14%  Similarity=0.134  Sum_probs=101.9

Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChh
Q psy5288          38 EAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFI  116 (186)
Q Consensus        38 ~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~  116 (186)
                      .+...|..+- .+...|++++|++.|++....+..   ...+......+|.+|.+. ++++|+..+++.++.++...+  
T Consensus        31 ~~~~~Y~~A~-~~~~~g~y~~Ai~~f~~l~~~yP~---s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~--  104 (243)
T PRK10866         31 PPSEIYATAQ-QKLQDGNWKQAITQLEALDNRYPF---GPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPN--  104 (243)
T ss_pred             CHHHHHHHHH-HHHHCCCHHHHHHHHHHHHHhCCC---ChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCc--
Confidence            4455666554 445589999999999999887532   234445566889998877 999999999999988887765  


Q ss_pred             HHHHHHHHHHHHHHHhcC---------------C---HHHHHHHHHHHHHHHhccCChHHHH-----------HHHHHHH
Q psy5288         117 MVAKHHENIAEIYEKELE---------------D---QEKAIDHYQHAADCYAGEENKSSAN-----------KCLIKIA  167 (186)
Q Consensus       117 ~~a~~~~~lg~~y~~~lg---------------~---~~~Ai~~y~kA~~l~~~~~~~~~~~-----------~~~~~la  167 (186)
                       +..++..+|.++.. ++               +   ..+|+..+++.++.||+..-...+.           ..-..+|
T Consensus       105 -~~~a~Y~~g~~~~~-~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~yP~S~ya~~A~~rl~~l~~~la~~e~~ia  182 (243)
T PRK10866        105 -IDYVLYMRGLTNMA-LDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRGYPNSQYTTDATKRLVFLKDRLAKYELSVA  182 (243)
T ss_pred             -hHHHHHHHHHhhhh-cchhhhhhccCCCccccCHHHHHHHHHHHHHHHHHCcCChhHHHHHHHHHHHHHHHHHHHHHHH
Confidence             45667778876533 12               1   3578899999999999753222221           2334678


Q ss_pred             HHHHhccCHHHHHHHHHhC
Q psy5288         168 NYSALTDHLDKAIKLYEQL  186 (186)
Q Consensus       168 ~~y~~~g~~~~A~~~~~~~  186 (186)
                      ..|.+.|+|.-|+.-|+.|
T Consensus       183 ~~Y~~~~~y~AA~~r~~~v  201 (243)
T PRK10866        183 EYYTKRGAYVAVVNRVEQM  201 (243)
T ss_pred             HHHHHcCchHHHHHHHHHH
Confidence            8899999999999888653

>KOG3616|consensus

Probab=98.13  E-value=0.00015  Score=63.65  Aligned_cols=104  Identities=18%  Similarity=0.253  Sum_probs=71.0

Q ss_pred             HHHHHHHHHHHhcC-CHHHHHHHHHHH------HHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHH-------
Q psy5288          80 GLCFVDAANCYKKS-NPAEAIKAIERA------VEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQH-------  145 (186)
Q Consensus        80 a~~~~~a~~~y~~~-~~~~A~~~~~~A------l~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~k-------  145 (186)
                      +..|.++|.+|.+. ++++|++||++.      +++.+ ..-+...-..-..-|..++.. |+++-||.+|-+       
T Consensus       661 ~elydkagdlfeki~d~dkale~fkkgdaf~kaielar-fafp~evv~lee~wg~hl~~~-~q~daainhfiea~~~~ka  738 (1636)
T KOG3616|consen  661 GELYDKAGDLFEKIHDFDKALECFKKGDAFGKAIELAR-FAFPEEVVKLEEAWGDHLEQI-GQLDAAINHFIEANCLIKA  738 (1636)
T ss_pred             hHHHHhhhhHHHHhhCHHHHHHHHHcccHHHHHHHHHH-hhCcHHHhhHHHHHhHHHHHH-HhHHHHHHHHHHhhhHHHH
Confidence            36677889999888 999999998754      33322 223444444555567777774 899999888744       


Q ss_pred             ------------HHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         146 ------------AADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       146 ------------A~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                                  |+.+..+..++.....+|-.++.-|...|+|+.|.++|.+
T Consensus       739 ieaai~akew~kai~ildniqdqk~~s~yy~~iadhyan~~dfe~ae~lf~e  790 (1636)
T KOG3616|consen  739 IEAAIGAKEWKKAISILDNIQDQKTASGYYGEIADHYANKGDFEIAEELFTE  790 (1636)
T ss_pred             HHHHhhhhhhhhhHhHHHHhhhhccccccchHHHHHhccchhHHHHHHHHHh
Confidence                        3334333333334445778888889999999999988864

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=98.12  E-value=0.00014  Score=62.53  Aligned_cols=133  Identities=12%  Similarity=0.032  Sum_probs=91.1

Q ss_pred             CHHHHHHHHHHHHHHHH--hcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC---C------HHHHHHHHH
Q psy5288          35 KTDEAIDLYVRAGNLFK--LGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS---N------PAEAIKAIE  103 (186)
Q Consensus        35 ~~~~A~~~y~~ag~~~~--~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~---~------~~~A~~~~~  103 (186)
                      .-.+|.++|.++-..+.  ..+++..|+.+|++|+++     +|..+ ..+..++.+|...   .      ...+.+..+
T Consensus       335 ~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~l-----dP~~a-~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~  408 (517)
T PRK10153        335 HQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKS-----EPDFT-YAQAEKALADIVRHSQQPLDEKQLAALSTELD  408 (517)
T ss_pred             CCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHh-----CCCcH-HHHHHHHHHHHHHHhcCCccHHHHHHHHHHHH
Confidence            44689999999854432  133488999999999998     66653 2333444444321   1      223334444


Q ss_pred             HHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHH
Q psy5288         104 RAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLY  183 (186)
Q Consensus       104 ~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~  183 (186)
                      +++.+-....+    +.++.-+|.++..+ |++++|...+++|+.+.+.       ...|..+|.++...|++++|++.|
T Consensus       409 ~a~al~~~~~~----~~~~~ala~~~~~~-g~~~~A~~~l~rAl~L~ps-------~~a~~~lG~~~~~~G~~~eA~~~~  476 (517)
T PRK10153        409 NIVALPELNVL----PRIYEILAVQALVK-GKTDEAYQAINKAIDLEMS-------WLNYVLLGKVYELKGDNRLAADAY  476 (517)
T ss_pred             HhhhcccCcCC----hHHHHHHHHHHHhc-CCHHHHHHHHHHHHHcCCC-------HHHHHHHHHHHHHcCCHHHHHHHH
Confidence            43333212222    35677788888886 9999999999999998641       258899999999999999999999


Q ss_pred             Hh
Q psy5288         184 EQ  185 (186)
Q Consensus       184 ~~  185 (186)
                      ++
T Consensus       477 ~~  478 (517)
T PRK10153        477 ST  478 (517)
T ss_pred             HH
Confidence            76

>KOG0543|consensus

Probab=98.08  E-value=3.8e-05  Score=62.73  Aligned_cols=97  Identities=22%  Similarity=0.177  Sum_probs=73.4

Q ss_pred             HHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCCh---------hHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhc
Q psy5288          83 FVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRF---------IMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAG  152 (186)
Q Consensus        83 ~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~---------~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~  152 (186)
                      ..+=|..|.+. ++..|+..|++|+..+.-....         ..--.++.|++.+|.. +++|..|+.+.++++++-++
T Consensus       211 ~ke~Gn~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lK-l~~~~~Ai~~c~kvLe~~~~  289 (397)
T KOG0543|consen  211 KKERGNVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLK-LKEYKEAIESCNKVLELDPN  289 (397)
T ss_pred             HHHhhhHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHh-hhhHHHHHHHHHHHHhcCCC
Confidence            33444444444 7777888888877776522111         1222388999999999 69999999999999998665


Q ss_pred             cCChHHHHHHHHHHHHHHHhccCHHHHHHHHHhC
Q psy5288         153 EENKSSANKCLIKIANYSALTDHLDKAIKLYEQL  186 (186)
Q Consensus       153 ~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~~  186 (186)
                      +      ...+.+-|.++..+|+|+.|+..|+++
T Consensus       290 N------~KALyRrG~A~l~~~e~~~A~~df~ka  317 (397)
T KOG0543|consen  290 N------VKALYRRGQALLALGEYDLARDDFQKA  317 (397)
T ss_pred             c------hhHHHHHHHHHHhhccHHHHHHHHHHH
Confidence            4      378899999999999999999999864

>KOG3616|consensus

Probab=98.07  E-value=5.2e-05  Score=66.40  Aligned_cols=142  Identities=22%  Similarity=0.230  Sum_probs=77.6

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHH------HHHHHHH-------------------HcCChhHHHHHHHHHHHHHhcCCH
Q psy5288          41 DLYVRAGNLFKLGKKWNDGGNAFL------QAGTLHL-------------------KNNNKHDAGLCFVDAANCYKKSNP   95 (186)
Q Consensus        41 ~~y~~ag~~~~~~g~~~~A~~~y~------~a~~~~~-------------------~~~~~~~aa~~~~~a~~~y~~~~~   95 (186)
                      ++|.++|.+|.+..++++|++||.      ++.++.+                   ..|..+.+.++|.++-.+-...+.
T Consensus       662 elydkagdlfeki~d~dkale~fkkgdaf~kaielarfafp~evv~lee~wg~hl~~~~q~daainhfiea~~~~kaiea  741 (1636)
T KOG3616|consen  662 ELYDKAGDLFEKIHDFDKALECFKKGDAFGKAIELARFAFPEEVVKLEEAWGDHLEQIGQLDAAINHFIEANCLIKAIEA  741 (1636)
T ss_pred             HHHHhhhhHHHHhhCHHHHHHHHHcccHHHHHHHHHHhhCcHHHhhHHHHHhHHHHHHHhHHHHHHHHHHhhhHHHHHHH
Confidence            568888889999999999999985      3444433                   112222222222221111110011


Q ss_pred             HHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHH------HHHHHHhccCC-------------h
Q psy5288          96 AEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQ------HAADCYAGEEN-------------K  156 (186)
Q Consensus        96 ~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~------kA~~l~~~~~~-------------~  156 (186)
                      .--.+-+.+|+.|.....+...+..+|-.++..|.+ .|+++.|-++|.      .|+++|.+.+.             |
T Consensus       742 ai~akew~kai~ildniqdqk~~s~yy~~iadhyan-~~dfe~ae~lf~e~~~~~dai~my~k~~kw~da~kla~e~~~~  820 (1636)
T KOG3616|consen  742 AIGAKEWKKAISILDNIQDQKTASGYYGEIADHYAN-KGDFEIAEELFTEADLFKDAIDMYGKAGKWEDAFKLAEECHGP  820 (1636)
T ss_pred             HhhhhhhhhhHhHHHHhhhhccccccchHHHHHhcc-chhHHHHHHHHHhcchhHHHHHHHhccccHHHHHHHHHHhcCc
Confidence            111234567777776666666666777888888887 488887777653      34444444332             1


Q ss_pred             HHHHHHHHHHHHHHHhccCHHHHHHHH
Q psy5288         157 SSANKCLIKIANYSALTDHLDKAIKLY  183 (186)
Q Consensus       157 ~~~~~~~~~la~~y~~~g~~~~A~~~~  183 (186)
                      ......|+.-++-+.+.|+|.+|..+|
T Consensus       821 e~t~~~yiakaedldehgkf~eaeqly  847 (1636)
T KOG3616|consen  821 EATISLYIAKAEDLDEHGKFAEAEQLY  847 (1636)
T ss_pred             hhHHHHHHHhHHhHHhhcchhhhhhee
Confidence            122234444555555566665555443

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.07  E-value=8.7e-05  Score=57.37  Aligned_cols=79  Identities=16%  Similarity=0.165  Sum_probs=71.4

Q ss_pred             CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhc
Q psy5288          94 NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALT  173 (186)
Q Consensus        94 ~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~  173 (186)
                      ++..|+..++++..+....+.      .+..+|.+|.. +|+.+.|-..|.+|+++++...      .+..|+|..|.-.
T Consensus       115 ~~~~A~~~~rkA~~l~p~d~~------~~~~lgaaldq-~Gr~~~Ar~ay~qAl~L~~~~p------~~~nNlgms~~L~  181 (257)
T COG5010         115 NFGEAVSVLRKAARLAPTDWE------AWNLLGAALDQ-LGRFDEARRAYRQALELAPNEP------SIANNLGMSLLLR  181 (257)
T ss_pred             chHHHHHHHHHHhccCCCChh------hhhHHHHHHHH-ccChhHHHHHHHHHHHhccCCc------hhhhhHHHHHHHc
Confidence            899999999999998887765      78889999998 6999999999999999988753      6889999999999


Q ss_pred             cCHHHHHHHHHh
Q psy5288         174 DHLDKAIKLYEQ  185 (186)
Q Consensus       174 g~~~~A~~~~~~  185 (186)
                      ||+..|..++.+
T Consensus       182 gd~~~A~~lll~  193 (257)
T COG5010         182 GDLEDAETLLLP  193 (257)
T ss_pred             CCHHHHHHHHHH
Confidence            999999998764

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=98.06  E-value=0.00018  Score=59.97  Aligned_cols=133  Identities=11%  Similarity=0.045  Sum_probs=95.2

Q ss_pred             CCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHH-HhcCCHHHHHHHHHHHHHHHHHc
Q psy5288          34 NKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANC-YKKSNPAEAIKAIERAVEIHTDM  112 (186)
Q Consensus        34 ~~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~-y~~~~~~~A~~~~~~Al~i~~~~  112 (186)
                      .+..++-..+.+ |.+....|++++|..+..++.+.      .+.....+.-++.. ....+++.|.++++++.+..++.
T Consensus        79 rr~~~~~~~~~~-gl~a~~eGd~~~A~k~l~~~~~~------~~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~~~~~  151 (398)
T PRK10747         79 RKRRRARKQTEQ-ALLKLAEGDYQQVEKLMTRNADH------AEQPVVNYLLAAEAAQQRGDEARANQHLERAAELADND  151 (398)
T ss_pred             HHHHHHHHHHHH-HHHHHhCCCHHHHHHHHHHHHhc------ccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCcc
Confidence            344555555544 45555679999998666654442      22345556667777 45559999999999997544333


Q ss_pred             CChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         113 GRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       113 ~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      .-   .  .....+.++..+ |++++|+..+++..+..+++      ..++.-++.+|...|++++|++++.+
T Consensus       152 ~~---~--~~l~~a~l~l~~-g~~~~Al~~l~~~~~~~P~~------~~al~ll~~~~~~~gdw~~a~~~l~~  212 (398)
T PRK10747        152 QL---P--VEITRVRIQLAR-NENHAARHGVDKLLEVAPRH------PEVLRLAEQAYIRTGAWSSLLDILPS  212 (398)
T ss_pred             hH---H--HHHHHHHHHHHC-CCHHHHHHHHHHHHhcCCCC------HHHHHHHHHHHHHHHhHHHHHHHHHH
Confidence            21   1  223348888886 99999999999999987754      26778889999999999999988765

>PF12862 Apc5: Anaphase-promoting complex subunit 5

Probab=98.04  E-value=0.00022  Score=47.18  Aligned_cols=83  Identities=18%  Similarity=0.187  Sum_probs=67.5

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHHHHHcCChh---HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHH
Q psy5288          87 ANCYKKSNPAEAIKAIERAVEIHTDMGRFI---MVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCL  163 (186)
Q Consensus        87 ~~~y~~~~~~~A~~~~~~Al~i~~~~~~~~---~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~  163 (186)
                      .......++..|++.+.+..+.....++..   .....+.++|.++.. +|++++|+..+++|+.+.++.++......++
T Consensus         6 ~~~~~~~dy~~A~d~L~~~fD~~~~~~~~~~~~~~~~all~lA~~~~~-~G~~~~A~~~l~eAi~~Are~~D~~~l~~al   84 (94)
T PF12862_consen    6 LNALRSGDYSEALDALHRYFDYAKQSNNSSSNSGLAYALLNLAELHRR-FGHYEEALQALEEAIRLARENGDRRCLAYAL   84 (94)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHHHHHH-hCCHHHHHHHHHHHHHHHHHHCCHHHHHHHH
Confidence            334445589999999999999988887655   666778999999998 5999999999999999999998887776666


Q ss_pred             HHHHHHH
Q psy5288         164 IKIANYS  170 (186)
Q Consensus       164 ~~la~~y  170 (186)
                      .-+..+.
T Consensus        85 ~~~~~l~   91 (94)
T PF12862_consen   85 SWLANLL   91 (94)
T ss_pred             HHHHHHh
Confidence            6655543

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=98.00  E-value=7.1e-06  Score=50.22  Aligned_cols=60  Identities=18%  Similarity=0.174  Sum_probs=45.8

Q ss_pred             HHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhc
Q psy5288          86 AANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAG  152 (186)
Q Consensus        86 a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~  152 (186)
                      .|..+... ++++|+.+|+++++..      +.-..++..+|.++..+ |++++|+.+|++++++.++
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~------P~~~~a~~~lg~~~~~~-g~~~~A~~~~~~a~~~~P~   63 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQD------PDNPEAWYLLGRILYQQ-GRYDEALAYYERALELDPD   63 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCS------TTHHHHHHHHHHHHHHT-T-HHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC------CCCHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHCcC
Confidence            44555544 8888999888887655      33566888999999985 9999999999999988664

>PRK15331 chaperone protein SicA; Provisional

Probab=97.98  E-value=7e-05  Score=54.39  Aligned_cols=57  Identities=18%  Similarity=0.155  Sum_probs=29.1

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHH
Q psy5288         121 HHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYE  184 (186)
Q Consensus       121 ~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~  184 (186)
                      ++..||.+++. +++|++|+..|--|..+-.++.      ....+.|.+|..+|+..+|+.+|+
T Consensus        73 Y~~GLaa~~Q~-~k~y~~Ai~~Y~~A~~l~~~dp------~p~f~agqC~l~l~~~~~A~~~f~  129 (165)
T PRK15331         73 YTMGLAAVCQL-KKQFQKACDLYAVAFTLLKNDY------RPVFFTGQCQLLMRKAAKARQCFE  129 (165)
T ss_pred             HHHHHHHHHHH-HHHHHHHHHHHHHHHHcccCCC------CccchHHHHHHHhCCHHHHHHHHH
Confidence            45555555555 2555555555555555443221      223445555555555555555554

>KOG4162|consensus

Probab=97.96  E-value=0.00028  Score=61.74  Aligned_cols=131  Identities=14%  Similarity=0.082  Sum_probs=109.2

Q ss_pred             CHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcC
Q psy5288          35 KTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMG  113 (186)
Q Consensus        35 ~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~  113 (186)
                      -|......+..++..|...+..++|..|..++..+.      ...+..|...|.++... ...+|.++|.-|+.+.+..=
T Consensus       645 ~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~~------~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~ldP~hv  718 (799)
T KOG4162|consen  645 LWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKID------PLSASVYYLRGLLLEVKGQLEEAKEAFLVALALDPDHV  718 (799)
T ss_pred             hHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhcc------hhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHhcCCCCc
Confidence            466778888889999999999999999999999984      33455666888888765 88999999999987765542


Q ss_pred             ChhHHHHHHHHHHHHHHHhcCCHHHHHH--HHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHH
Q psy5288         114 RFIMVAKHHENIAEIYEKELEDQEKAID--HYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYE  184 (186)
Q Consensus       114 ~~~~~a~~~~~lg~~y~~~lg~~~~Ai~--~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~  184 (186)
                            .+..-+|.++.. +|+.--|..  .+..|+++-+.+      ...|..+|.|+.++|+.++|.++|.
T Consensus       719 ------~s~~Ala~~lle-~G~~~la~~~~~L~dalr~dp~n------~eaW~~LG~v~k~~Gd~~~Aaecf~  778 (799)
T KOG4162|consen  719 ------PSMTALAELLLE-LGSPRLAEKRSLLSDALRLDPLN------HEAWYYLGEVFKKLGDSKQAAECFQ  778 (799)
T ss_pred             ------HHHHHHHHHHHH-hCCcchHHHHHHHHHHHhhCCCC------HHHHHHHHHHHHHccchHHHHHHHH
Confidence                  266779999998 598888888  999999987654      3789999999999999999999996

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=97.94  E-value=6.4e-05  Score=62.62  Aligned_cols=65  Identities=14%  Similarity=0.100  Sum_probs=55.1

Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         117 MVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       117 ~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      .-+..+.++|.+|.. +|+|++|+.+|++|+++.++..   .....|.|+|.+|..+|++++|++++++
T Consensus        73 ~~a~a~~NLG~AL~~-lGryeEAIa~f~rALeL~Pd~a---eA~~A~yNLAcaya~LGr~dEAla~Lrr  137 (453)
T PLN03098         73 KTAEDAVNLGLSLFS-KGRVKDALAQFETALELNPNPD---EAQAAYYNKACCHAYREEGKKAADCLRT  137 (453)
T ss_pred             CCHHHHHHHHHHHHH-cCCHHHHHHHHHHHHhhCCCch---HHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            345678999999999 4999999999999999976532   2225689999999999999999999976

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.93  E-value=3e-05  Score=48.38  Aligned_cols=54  Identities=19%  Similarity=0.258  Sum_probs=47.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHhC
Q psy5288         126 AEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQL  186 (186)
Q Consensus       126 g~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~~  186 (186)
                      ..+|..+ +++++|+.++++++.+.+..      ...+...|.+|..+|++++|++.|+++
T Consensus         2 ~~~~~~~-~~~~~A~~~~~~~l~~~p~~------~~~~~~~a~~~~~~g~~~~A~~~l~~~   55 (73)
T PF13371_consen    2 KQIYLQQ-EDYEEALEVLERALELDPDD------PELWLQRARCLFQLGRYEEALEDLERA   55 (73)
T ss_pred             HHHHHhC-CCHHHHHHHHHHHHHhCccc------chhhHHHHHHHHHhccHHHHHHHHHHH
Confidence            5677875 99999999999999997763      368889999999999999999999863

>KOG3617|consensus

Probab=97.93  E-value=0.00018  Score=63.74  Aligned_cols=147  Identities=20%  Similarity=0.291  Sum_probs=86.1

Q ss_pred             cccccc-CCCCHHHHHHHHHHHHHHHH------hcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHH
Q psy5288          26 FFSQFT-GGNKTDEAIDLYVRAGNLFK------LGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAE   97 (186)
Q Consensus        26 ~~~~~~-~~~~~~~A~~~y~~ag~~~~------~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~   97 (186)
                      ||-+++ ..|+.+.|+.+|..|-+-|.      .+|+.++|...       ....|+.   +.+| -++..|... ++.+
T Consensus       917 WWgqYlES~GemdaAl~~Y~~A~D~fs~VrI~C~qGk~~kAa~i-------A~esgd~---AAcY-hlaR~YEn~g~v~~  985 (1416)
T KOG3617|consen  917 WWGQYLESVGEMDAALSFYSSAKDYFSMVRIKCIQGKTDKAARI-------AEESGDK---AACY-HLARMYENDGDVVK  985 (1416)
T ss_pred             HHHHHHhcccchHHHHHHHHHhhhhhhheeeEeeccCchHHHHH-------HHhcccH---HHHH-HHHHHhhhhHHHHH
Confidence            443333 33555555555555544332      24444444332       2222222   4455 567777765 7788


Q ss_pred             HHHHH------HHHHHHHHHcCChhHHHHHH--------HHHHHHHHHhcCCHHHHHHHHHHHHHHHhc-----------
Q psy5288          98 AIKAI------ERAVEIHTDMGRFIMVAKHH--------ENIAEIYEKELEDQEKAIDHYQHAADCYAG-----------  152 (186)
Q Consensus        98 A~~~~------~~Al~i~~~~~~~~~~a~~~--------~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~-----------  152 (186)
                      |+.+|      ..|+++.++++-.+..++..        ...+..|++..|+.+.|+.+|.+|..+.+.           
T Consensus       986 Av~FfTrAqafsnAIRlcKEnd~~d~L~nlal~s~~~d~v~aArYyEe~g~~~~~AVmLYHkAGm~~kALelAF~tqQf~ 1065 (1416)
T KOG3617|consen  986 AVKFFTRAQAFSNAIRLCKENDMKDRLANLALMSGGSDLVSAARYYEELGGYAHKAVMLYHKAGMIGKALELAFRTQQFS 1065 (1416)
T ss_pred             HHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhhcCchhHHHHHHHHHHcchhhhHHHHHHHhhcchHHHHHHHHhhcccH
Confidence            88766      45566777777666655543        456677777433888999888766554331           


Q ss_pred             -------cCChHHHHHHHHHHHHHHHhccCHHHHHHHH
Q psy5288         153 -------EENKSSANKCLIKIANYSALTDHLDKAIKLY  183 (186)
Q Consensus       153 -------~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~  183 (186)
                             +-++..-+..+...+..+....+|++|.+.+
T Consensus      1066 aL~lIa~DLd~~sDp~ll~RcadFF~~~~qyekAV~lL 1103 (1416)
T KOG3617|consen 1066 ALDLIAKDLDAGSDPKLLRRCADFFENNQQYEKAVNLL 1103 (1416)
T ss_pred             HHHHHHHhcCCCCCHHHHHHHHHHHHhHHHHHHHHHHH
Confidence                   1111112356677788888888999988765

>PLN02789 farnesyltranstransferase

Probab=97.92  E-value=0.001  Score=53.85  Aligned_cols=132  Identities=7%  Similarity=-0.002  Sum_probs=94.5

Q ss_pred             CCCHHHHHHHHHHH--------------HHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-C--
Q psy5288          33 GNKTDEAIDLYVRA--------------GNLFKLGK-KWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-N--   94 (186)
Q Consensus        33 ~~~~~~A~~~y~~a--------------g~~~~~~g-~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~--   94 (186)
                      .+.+++|+..+.++              +.++..+| +++++++++.+++...     +.. ..++..-+.++... +  
T Consensus        50 ~e~serAL~lt~~aI~lnP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~n-----pkn-yqaW~~R~~~l~~l~~~~  123 (320)
T PLN02789         50 DERSPRALDLTADVIRLNPGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDN-----PKN-YQIWHHRRWLAEKLGPDA  123 (320)
T ss_pred             CCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHC-----Ccc-hHHhHHHHHHHHHcCchh
Confidence            35778888888887              34566677 5789999999988873     322 22354555555544 2  


Q ss_pred             HHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhc-
Q psy5288          95 PAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALT-  173 (186)
Q Consensus        95 ~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~-  173 (186)
                      .++++.++.+++++..++-.      ++...|.++.. +|+++++++++.+++++.+.+.      .+|.+.+.++..+ 
T Consensus       124 ~~~el~~~~kal~~dpkNy~------AW~~R~w~l~~-l~~~~eeL~~~~~~I~~d~~N~------sAW~~R~~vl~~~~  190 (320)
T PLN02789        124 ANKELEFTRKILSLDAKNYH------AWSHRQWVLRT-LGGWEDELEYCHQLLEEDVRNN------SAWNQRYFVITRSP  190 (320)
T ss_pred             hHHHHHHHHHHHHhCcccHH------HHHHHHHHHHH-hhhHHHHHHHHHHHHHHCCCch------hHHHHHHHHHHhcc
Confidence            36789999999877765533      78889999998 6999999999999999866542      5777777777655 


Q ss_pred             --cCH----HHHHHHH
Q psy5288         174 --DHL----DKAIKLY  183 (186)
Q Consensus       174 --g~~----~~A~~~~  183 (186)
                        |.+    ++++++.
T Consensus       191 ~l~~~~~~~e~el~y~  206 (320)
T PLN02789        191 LLGGLEAMRDSELKYT  206 (320)
T ss_pred             ccccccccHHHHHHHH
Confidence              333    3556554

>PLN03218 maturation of RBCL 1; Provisional

Probab=97.88  E-value=0.00062  Score=63.17  Aligned_cols=138  Identities=11%  Similarity=0.149  Sum_probs=69.4

Q ss_pred             CCCCHHHHHHHHHHH---------------HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CH
Q psy5288          32 GGNKTDEAIDLYVRA---------------GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NP   95 (186)
Q Consensus        32 ~~~~~~~A~~~y~~a---------------g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~   95 (186)
                      +.|++++|.+.|..+               ...|...|++++|.+.|.+....-   -.|+  ...|..+...|-+. ++
T Consensus       591 k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~G---v~PD--~~TynsLI~a~~k~G~~  665 (1060)
T PLN03218        591 NAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKG---VKPD--EVFFSALVDVAGHAGDL  665 (1060)
T ss_pred             HCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC---CCCC--HHHHHHHHHHHHhCCCH
Confidence            456666666666555               234556666777666666554320   0111  22344444444443 56


Q ss_pred             HHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccC
Q psy5288          96 AEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDH  175 (186)
Q Consensus        96 ~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~  175 (186)
                      ++|.+.+++..+.    |-.. -..++..+...|... |++++|+..|++....    +..+. ..+|..+...|.+.|+
T Consensus       666 eeA~~l~~eM~k~----G~~p-d~~tynsLI~ay~k~-G~~eeA~~lf~eM~~~----g~~Pd-vvtyN~LI~gy~k~G~  734 (1060)
T PLN03218        666 DKAFEILQDARKQ----GIKL-GTVSYSSLMGACSNA-KNWKKALELYEDIKSI----KLRPT-VSTMNALITALCEGNQ  734 (1060)
T ss_pred             HHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHHhC-CCHHHHHHHHHHHHHc----CCCCC-HHHHHHHHHHHHHCCC
Confidence            6666665554321    1111 122455555566653 6666666666654332    11111 1355566666666666


Q ss_pred             HHHHHHHHHh
Q psy5288         176 LDKAIKLYEQ  185 (186)
Q Consensus       176 ~~~A~~~~~~  185 (186)
                      +++|+++|++
T Consensus       735 ~eeAlelf~e  744 (1060)
T PLN03218        735 LPKALEVLSE  744 (1060)
T ss_pred             HHHHHHHHHH
Confidence            6666666553

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.87  E-value=0.00059  Score=47.29  Aligned_cols=99  Identities=14%  Similarity=0.034  Sum_probs=75.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHH
Q psy5288          43 YVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKH  121 (186)
Q Consensus        43 y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~  121 (186)
                      ..+.+.++...|+.++|+.+|.+++..  .+ +......++..+|.++..+ ++++|+..+++++.-+.....   ....
T Consensus         4 ~~~~A~a~d~~G~~~~Ai~~Y~~Al~~--gL-~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~---~~~l   77 (120)
T PF12688_consen    4 LYELAWAHDSLGREEEAIPLYRRALAA--GL-SGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDEL---NAAL   77 (120)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHc--CC-CchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccc---cHHH
Confidence            456678899999999999999999884  12 2233456788999999987 999999999998764433221   2234


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHH
Q psy5288         122 HENIAEIYEKELEDQEKAIDHYQHAAD  148 (186)
Q Consensus       122 ~~~lg~~y~~~lg~~~~Ai~~y~kA~~  148 (186)
                      ...++.++.. +|++++|+.++..++.
T Consensus        78 ~~f~Al~L~~-~gr~~eAl~~~l~~la  103 (120)
T PF12688_consen   78 RVFLALALYN-LGRPKEALEWLLEALA  103 (120)
T ss_pred             HHHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence            4557788888 5999999999988775

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=97.86  E-value=4.2e-05  Score=41.30  Aligned_cols=33  Identities=33%  Similarity=0.481  Sum_probs=27.3

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccC
Q psy5288         121 HHENIAEIYEKELEDQEKAIDHYQHAADCYAGEE  154 (186)
Q Consensus       121 ~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~  154 (186)
                      ++.+||.+|..+ |++++|+++|++++.+..+..
T Consensus         1 al~~Lg~~~~~~-g~~~~Ai~~y~~aL~l~~~~~   33 (36)
T PF13176_consen    1 ALNNLGRIYRQQ-GDYEKAIEYYEQALALARDPE   33 (36)
T ss_dssp             HHHHHHHHHHHC-T-HHHHHHHHHHHHHHHHHCT
T ss_pred             CHHHHHHHHHHc-CCHHHHHHHHHHHHHhccccc
Confidence            467899999995 999999999999998866543

>KOG3060|consensus

Probab=97.86  E-value=0.00044  Score=53.56  Aligned_cols=109  Identities=17%  Similarity=0.111  Sum_probs=85.3

Q ss_pred             CCCCHHHHHHHHHHHHH--------------HHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHH
Q psy5288          32 GGNKTDEAIDLYVRAGN--------------LFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPA   96 (186)
Q Consensus        32 ~~~~~~~A~~~y~~ag~--------------~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~   96 (186)
                      ..+.|++|+++|+....              +.+.+|+..+|++-...-++.+      ..-..++.+++++|... ++.
T Consensus        98 a~~~~~~A~e~y~~lL~ddpt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~F------~~D~EAW~eLaeiY~~~~~f~  171 (289)
T KOG3060|consen   98 ATGNYKEAIEYYESLLEDDPTDTVIRKRKLAILKAQGKNLEAIKELNEYLDKF------MNDQEAWHELAEIYLSEGDFE  171 (289)
T ss_pred             HhhchhhHHHHHHHHhccCcchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHHh------cCcHHHHHHHHHHHHhHhHHH
Confidence            55899999999999843              5667899999988888777765      33346788999999887 999


Q ss_pred             HHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHh--cCCHHHHHHHHHHHHHHHhc
Q psy5288          97 EAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKE--LEDQEKAIDHYQHAADCYAG  152 (186)
Q Consensus        97 ~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~--lg~~~~Ai~~y~kA~~l~~~  152 (186)
                      +|.-||++.+-+-+-+      .-++..+|.++..+  ..+++.|..+|.+|+++.++
T Consensus       172 kA~fClEE~ll~~P~n------~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~~~  223 (289)
T KOG3060|consen  172 KAAFCLEELLLIQPFN------PLYFQRLAEVLYTQGGAENLELARKYYERALKLNPK  223 (289)
T ss_pred             HHHHHHHHHHHcCCCc------HHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhChH
Confidence            9999999987665443      23667777776653  24688999999999999873

>KOG1128|consensus

Probab=97.85  E-value=0.00012  Score=63.76  Aligned_cols=80  Identities=14%  Similarity=0.152  Sum_probs=62.5

Q ss_pred             CCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHh
Q psy5288          93 SNPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSAL  172 (186)
Q Consensus        93 ~~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~  172 (186)
                      .++.++.++++.++++....      ..+++..|-+..+ +++++.|.++|..++.+-+..      ...|+|++..|.+
T Consensus       499 ~~fs~~~~hle~sl~~nplq------~~~wf~~G~~ALq-lek~q~av~aF~rcvtL~Pd~------~eaWnNls~ayi~  565 (777)
T KOG1128|consen  499 KDFSEADKHLERSLEINPLQ------LGTWFGLGCAALQ-LEKEQAAVKAFHRCVTLEPDN------AEAWNNLSTAYIR  565 (777)
T ss_pred             hhHHHHHHHHHHHhhcCccc------hhHHHhccHHHHH-HhhhHHHHHHHHHHhhcCCCc------hhhhhhhhHHHHH
Confidence            37888999999988886544      3378888888887 688999999998888886654      3678888888888


Q ss_pred             ccCHHHHHHHHHh
Q psy5288         173 TDHLDKAIKLYEQ  185 (186)
Q Consensus       173 ~g~~~~A~~~~~~  185 (186)
                      .|+-.+|-..+.+
T Consensus       566 ~~~k~ra~~~l~E  578 (777)
T KOG1128|consen  566 LKKKKRAFRKLKE  578 (777)
T ss_pred             HhhhHHHHHHHHH
Confidence            8888887776654

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=97.79  E-value=0.00024  Score=55.39  Aligned_cols=98  Identities=18%  Similarity=0.169  Sum_probs=74.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHH
Q psy5288          82 CFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANK  161 (186)
Q Consensus        82 ~~~~a~~~y~~~~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~  161 (186)
                      .|..+-..|...++..|...|+.=++-|...-   -+++.++=||+++..+ |+|+.|...|..+..=+++..   .+.+
T Consensus       144 ~Y~~A~~~~ksgdy~~A~~~F~~fi~~YP~s~---~~~nA~yWLGe~~y~q-g~y~~Aa~~f~~~~k~~P~s~---KApd  216 (262)
T COG1729         144 LYNAALDLYKSGDYAEAEQAFQAFIKKYPNST---YTPNAYYWLGESLYAQ-GDYEDAAYIFARVVKDYPKSP---KAPD  216 (262)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCc---ccchhHHHHHHHHHhc-ccchHHHHHHHHHHHhCCCCC---CChH
Confidence            57667777777788888888877655554432   3455677789998886 999999999988888777643   3457


Q ss_pred             HHHHHHHHHHhccCHHHHHHHHHhC
Q psy5288         162 CLIKIANYSALTDHLDKAIKLYEQL  186 (186)
Q Consensus       162 ~~~~la~~y~~~g~~~~A~~~~~~~  186 (186)
                      .+.+||.+..++|+.++|..+|++|
T Consensus       217 allKlg~~~~~l~~~d~A~atl~qv  241 (262)
T COG1729         217 ALLKLGVSLGRLGNTDEACATLQQV  241 (262)
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            8889999999999999999888764

>KOG1127|consensus

Probab=97.76  E-value=0.00035  Score=62.90  Aligned_cols=119  Identities=13%  Similarity=0.148  Sum_probs=85.6

Q ss_pred             CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHH--------------HHHcCChhHHH
Q psy5288          55 KWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEI--------------HTDMGRFIMVA  119 (186)
Q Consensus        55 ~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i--------------~~~~~~~~~~a  119 (186)
                      +...|...+.+++.+.      ..-+..|.-+|.+|+.. +...|..||++|-++              +....+.+.+-
T Consensus       473 ~~~~al~ali~alrld------~~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLDatdaeaaaa~adtyae~~~we~a~  546 (1238)
T KOG1127|consen  473 NSALALHALIRALRLD------VSLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELDATDAEAAAASADTYAEESTWEEAF  546 (1238)
T ss_pred             hHHHHHHHHHHHHhcc------cchhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCchhhhhHHHHHHHhhccccHHHHH
Confidence            4566666666666652      23356677788888877 777888888888776              23333333333


Q ss_pred             HHH----------------HHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHH
Q psy5288         120 KHH----------------ENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLY  183 (186)
Q Consensus       120 ~~~----------------~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~  183 (186)
                      .++                ...|..|.+- ++..+|+..++.|+...+++      ..+|..+|+.|...|+|.-|+++|
T Consensus       547 ~I~l~~~qka~a~~~k~nW~~rG~yyLea-~n~h~aV~~fQsALR~dPkD------~n~W~gLGeAY~~sGry~~AlKvF  619 (1238)
T KOG1127|consen  547 EICLRAAQKAPAFACKENWVQRGPYYLEA-HNLHGAVCEFQSALRTDPKD------YNLWLGLGEAYPESGRYSHALKVF  619 (1238)
T ss_pred             HHHHHHhhhchHHHHHhhhhhccccccCc-cchhhHHHHHHHHhcCCchh------HHHHHHHHHHHHhcCceehHHHhh
Confidence            333                2344455553 88999999999999997764      479999999999999999999999


Q ss_pred             HhC
Q psy5288         184 EQL  186 (186)
Q Consensus       184 ~~~  186 (186)
                      +++
T Consensus       620 ~kA  622 (1238)
T KOG1127|consen  620 TKA  622 (1238)
T ss_pred             hhh
Confidence            764

>TIGR00540 hemY_coli hemY protein

Probab=97.76  E-value=0.00066  Score=56.71  Aligned_cols=132  Identities=11%  Similarity=0.050  Sum_probs=94.6

Q ss_pred             CHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcC
Q psy5288          35 KTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMG  113 (186)
Q Consensus        35 ~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~  113 (186)
                      +..++-....+ |.+-...|+++.|.+...++.+.     .+ .....+.-++.+.... +++.|..+++++.+.....+
T Consensus        80 ~~~k~~~~~~~-glla~~~g~~~~A~~~l~~~~~~-----~~-~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~  152 (409)
T TIGR00540        80 KRRKAQKQTEE-ALLKLAEGDYAKAEKLIAKNADH-----AA-EPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDN  152 (409)
T ss_pred             HHHHHHHHHHH-HHHHHhCCCHHHHHHHHHHHhhc-----CC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCc
Confidence            44455555444 44555689999999988777664     22 2244555677777665 99999999999875543332


Q ss_pred             ChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         114 RFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       114 ~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      -   .  +....+.++... |++++|...+++..+..+++      ..++.-++.+|...|++++|.+.+.+
T Consensus       153 l---~--~~~~~a~l~l~~-~~~~~Al~~l~~l~~~~P~~------~~~l~ll~~~~~~~~d~~~a~~~l~~  212 (409)
T TIGR00540       153 I---L--VEIARTRILLAQ-NELHAARHGVDKLLEMAPRH------KEVLKLAEEAYIRSGAWQALDDIIDN  212 (409)
T ss_pred             h---H--HHHHHHHHHHHC-CCHHHHHHHHHHHHHhCCCC------HHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            1   1  233348888885 99999999999999987654      25778889999999999999988765

This is an uncharacterized protein encoded next to a heme-biosynthetic enzyme in two gamma division proteobacteria (E. coli and H. influenzae). It is known in no other species. The gene symbol hemY is unfortunate in that an unrelated protein, protoporphyrinogen oxidase, is designated as HemG in E. coli but as HemY in Bacillus subtilis.

>PLN03218 maturation of RBCL 1; Provisional

Probab=97.75  E-value=0.0016  Score=60.45  Aligned_cols=59  Identities=19%  Similarity=0.243  Sum_probs=42.8

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         121 HHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       121 ~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ++..+...|... |++++|.+.+++..+.    +.... ..++..+...|.+.|++++|.++|++
T Consensus       651 TynsLI~a~~k~-G~~eeA~~l~~eM~k~----G~~pd-~~tynsLI~ay~k~G~~eeA~~lf~e  709 (1060)
T PLN03218        651 FFSALVDVAGHA-GDLDKAFEILQDARKQ----GIKLG-TVSYSSLMGACSNAKNWKKALELYED  709 (1060)
T ss_pred             HHHHHHHHHHhC-CCHHHHHHHHHHHHHc----CCCCC-HHHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            555666667774 8888888888887653    21112 25788888899999999999998875

>KOG4555|consensus

Probab=97.74  E-value=0.0038  Score=43.88  Aligned_cols=125  Identities=16%  Similarity=0.126  Sum_probs=95.0

Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChh
Q psy5288          38 EAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFI  116 (186)
Q Consensus        38 ~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~  116 (186)
                      ++...++.-|......|+.+.|++.|.+++.+.     | .-+++|.+=++.++-. ++++|+.-+.+|+++.-..  ..
T Consensus        41 e~S~~LEl~~valaE~g~Ld~AlE~F~qal~l~-----P-~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~--tr  112 (175)
T KOG4555|consen   41 KASRELELKAIALAEAGDLDGALELFGQALCLA-----P-ERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQ--TR  112 (175)
T ss_pred             HHHHHHHHHHHHHHhccchHHHHHHHHHHHHhc-----c-cchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCcc--ch
Confidence            444456666788889999999999999999984     2 3356788888888866 8999999999999887544  44


Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhc-------cCChHHHHHHHHHHHHHHHh
Q psy5288         117 MVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAG-------EENKSSANKCLIKIANYSAL  172 (186)
Q Consensus       117 ~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~-------~~~~~~~~~~~~~la~~y~~  172 (186)
                      .+-..++.=|.+|.-+ |+-+.|..-|+.|.++=.+       .-+| .+.-|...++.++.+
T Consensus       113 tacqa~vQRg~lyRl~-g~dd~AR~DFe~AA~LGS~FAr~QLV~lNP-YAAlCN~MLa~~f~q  173 (175)
T KOG4555|consen  113 TACQAFVQRGLLYRLL-GNDDAARADFEAAAQLGSKFAREQLVELNP-YAALCNQMLADAFDQ  173 (175)
T ss_pred             HHHHHHHHHHHHHHHh-CchHHHHHhHHHHHHhCCHHHHHHHHhcCh-HHHHHHHHHHHHHHh
Confidence            5566788899999994 9999999999999987221       0122 233566777766654

>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional

Probab=97.73  E-value=0.00055  Score=60.99  Aligned_cols=139  Identities=9%  Similarity=-0.062  Sum_probs=83.6

Q ss_pred             CCCCHHHHHHHHHHH-----------HHHHHhcCCHHHHHHHHHHHHHH---------------HHHcCChhHHHHHHH-
Q psy5288          32 GGNKTDEAIDLYVRA-----------GNLFKLGKKWNDGGNAFLQAGTL---------------HLKNNNKHDAGLCFV-   84 (186)
Q Consensus        32 ~~~~~~~A~~~y~~a-----------g~~~~~~g~~~~A~~~y~~a~~~---------------~~~~~~~~~aa~~~~-   84 (186)
                      +.|++++|...|.+.           ...|...|+.++|++.|.+..+.               +-+.|..+.+-..+. 
T Consensus       372 k~G~~~~A~~vf~~m~~~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~  451 (697)
T PLN03081        372 KWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQS  451 (697)
T ss_pred             HCCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHH
Confidence            456777777776543           66677788888888887776542               111222222222222 


Q ss_pred             ---------------HHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q psy5288          85 ---------------DAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAAD  148 (186)
Q Consensus        85 ---------------~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~  148 (186)
                                     -+..+|-+. ++++|.+.++       +.+..+. ..++..+...+... |+.+.|...+++.++
T Consensus       452 m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~-------~~~~~p~-~~~~~~Ll~a~~~~-g~~~~a~~~~~~l~~  522 (697)
T PLN03081        452 MSENHRIKPRAMHYACMIELLGREGLLDEAYAMIR-------RAPFKPT-VNMWAALLTACRIH-KNLELGRLAAEKLYG  522 (697)
T ss_pred             HHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHH-------HCCCCCC-HHHHHHHHHHHHHc-CCcHHHHHHHHHHhC
Confidence                           222222222 3444444333       2222111 23466666677775 899999988888877


Q ss_pred             HHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         149 CYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       149 l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      +.+..      ..+|..+.++|.+.|++++|.+++++
T Consensus       523 ~~p~~------~~~y~~L~~~y~~~G~~~~A~~v~~~  553 (697)
T PLN03081        523 MGPEK------LNNYVVLLNLYNSSGRQAEAAKVVET  553 (697)
T ss_pred             CCCCC------CcchHHHHHHHHhCCCHHHHHHHHHH
Confidence            65432      24678889999999999999999875

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=97.73  E-value=9.4e-05  Score=39.10  Aligned_cols=33  Identities=27%  Similarity=0.320  Sum_probs=28.6

Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhc
Q psy5288         119 AKHHENIAEIYEKELEDQEKAIDHYQHAADCYAG  152 (186)
Q Consensus       119 a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~  152 (186)
                      |.++.++|.+|..+ |++++|+.+|++|+++.++
T Consensus         1 a~~~~~~g~~~~~~-~~~~~A~~~~~~al~~~p~   33 (34)
T PF00515_consen    1 AEAYYNLGNAYFQL-GDYEEALEYYQRALELDPD   33 (34)
T ss_dssp             HHHHHHHHHHHHHT-T-HHHHHHHHHHHHHHSTT
T ss_pred             CHHHHHHHHHHHHh-CCchHHHHHHHHHHHHCcC
Confidence            46789999999995 9999999999999998664

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....

>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function

Probab=97.73  E-value=0.0011  Score=50.53  Aligned_cols=98  Identities=10%  Similarity=0.043  Sum_probs=74.3

Q ss_pred             hcCCHHHHHHHHHHHHHHHHHcC-ChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHc-------CChhHHHHHH
Q psy5288          52 LGKKWNDGGNAFLQAGTLHLKNN-NKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDM-------GRFIMVAKHH  122 (186)
Q Consensus        52 ~~g~~~~A~~~y~~a~~~~~~~~-~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~-------~~~~~~a~~~  122 (186)
                      ....+++|++.|.-|+-+++..+ ++...|..+.+++=+|+.. +.+....++++|++.+.+.       ........+.
T Consensus        89 ~~Rt~~~ai~~YkLAll~~~~~~~~~s~~A~l~LrlAWlyR~~~~~~~E~~fl~~Al~~y~~a~~~e~~~~~~~~~~~l~  168 (214)
T PF09986_consen   89 GERTLEEAIESYKLALLCAQIKKEKPSKKAGLCLRLAWLYRDLGDEENEKRFLRKALEFYEEAYENEDFPIEGMDEATLL  168 (214)
T ss_pred             CCCCHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhccCCHHHHHHHHHHHHHHHHHHHHhCcCCCCCchHHHHH
Confidence            44568888888888888887555 5556788888999999877 6666666666776665432       2233556788


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHH
Q psy5288         123 ENIAEIYEKELEDQEKAIDHYQHAADCY  150 (186)
Q Consensus       123 ~~lg~~y~~~lg~~~~Ai~~y~kA~~l~  150 (186)
                      .-+|.++.. +|++++|+.+|.+.+.--
T Consensus       169 YLigeL~rr-lg~~~eA~~~fs~vi~~~  195 (214)
T PF09986_consen  169 YLIGELNRR-LGNYDEAKRWFSRVIGSK  195 (214)
T ss_pred             HHHHHHHHH-hCCHHHHHHHHHHHHcCC
Confidence            899999998 799999999999998853

>KOG0550|consensus

Probab=97.71  E-value=0.0002  Score=58.83  Aligned_cols=126  Identities=20%  Similarity=0.175  Sum_probs=79.6

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHH---------HHH-HHHhcCCHHHHHHHHHHHHHHHHHcCChhH
Q psy5288          48 NLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFV---------DAA-NCYKKSNPAEAIKAIERAVEIHTDMGRFIM  117 (186)
Q Consensus        48 ~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~---------~a~-~~y~~~~~~~A~~~~~~Al~i~~~~~~~~~  117 (186)
                      .++...++.+.|+..|++++.+-...-   .+...+.         +-| ..|...++..|.++|..|+.|.+.+  ..-
T Consensus       211 ~~~yy~~~~~ka~~hf~qal~ldpdh~---~sk~~~~~~k~le~~k~~gN~~fk~G~y~~A~E~Yteal~idP~n--~~~  285 (486)
T KOG0550|consen  211 LCLYYNDNADKAINHFQQALRLDPDHQ---KSKSASMMPKKLEVKKERGNDAFKNGNYRKAYECYTEALNIDPSN--KKT  285 (486)
T ss_pred             cccccccchHHHHHHHhhhhccChhhh---hHHhHhhhHHHHHHHHhhhhhHhhccchhHHHHHHHHhhcCCccc--cch
Confidence            345566777788888877777622110   1111111         111 2222336777888888887776664  334


Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         118 VAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       118 ~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      .+.+|.+.|.+... ||+..+||.-.+.|+.|.+.      ....+..-|+++..++++++|.+.|++
T Consensus       286 naklY~nra~v~~r-Lgrl~eaisdc~~Al~iD~s------yikall~ra~c~l~le~~e~AV~d~~~  346 (486)
T KOG0550|consen  286 NAKLYGNRALVNIR-LGRLREAISDCNEALKIDSS------YIKALLRRANCHLALEKWEEAVEDYEK  346 (486)
T ss_pred             hHHHHHHhHhhhcc-cCCchhhhhhhhhhhhcCHH------HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            46677777888777 68888888888888877432      235667778888888888888877765

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=97.70  E-value=0.00011  Score=38.62  Aligned_cols=33  Identities=18%  Similarity=0.254  Sum_probs=28.6

Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhc
Q psy5288         119 AKHHENIAEIYEKELEDQEKAIDHYQHAADCYAG  152 (186)
Q Consensus       119 a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~  152 (186)
                      |.++..+|.+|..+ |++++|+.+|++++.+.++
T Consensus         1 a~~~~~lg~~~~~~-~~~~~A~~~~~~al~l~p~   33 (34)
T PF07719_consen    1 AEAWYYLGQAYYQL-GNYEEAIEYFEKALELDPN   33 (34)
T ss_dssp             HHHHHHHHHHHHHT-T-HHHHHHHHHHHHHHSTT
T ss_pred             CHHHHHHHHHHHHh-CCHHHHHHHHHHHHHHCcC
Confidence            46788999999995 9999999999999999764

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=97.70  E-value=0.0012  Score=59.96  Aligned_cols=115  Identities=11%  Similarity=0.131  Sum_probs=79.4

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHH
Q psy5288          45 RAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVAKHHEN  124 (186)
Q Consensus        45 ~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~  124 (186)
                      ..|.+|..+|++++|...|++++++     ++ .-+.++.+.|..|...+.++|++++.+|+..+.+...+..+-.++.+
T Consensus       121 ~LA~~Ydk~g~~~ka~~~yer~L~~-----D~-~n~~aLNn~AY~~ae~dL~KA~~m~~KAV~~~i~~kq~~~~~e~W~k  194 (906)
T PRK14720        121 TLAEAYAKLNENKKLKGVWERLVKA-----DR-DNPEIVKKLATSYEEEDKEKAITYLKKAIYRFIKKKQYVGIEEIWSK  194 (906)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHhc-----Cc-ccHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhhhcchHHHHHHHH
Confidence            3466777888888888888888887     33 33456778888887668888888888888877655555544443322


Q ss_pred             ----------------------HH------------HHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHH
Q psy5288         125 ----------------------IA------------EIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYS  170 (186)
Q Consensus       125 ----------------------lg------------~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y  170 (186)
                                            +|            ..|.. ..++++++..++.++++.+++.      .....|+.+|
T Consensus       195 ~~~~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~-~~~~~~~i~iLK~iL~~~~~n~------~a~~~l~~~y  267 (906)
T PRK14720        195 LVHYNSDDFDFFLRIERKVLGHREFTRLVGLLEDLYEPYKA-LEDWDEVIYILKKILEHDNKNN------KAREELIRFY  267 (906)
T ss_pred             HHhcCcccchHHHHHHHHHHhhhccchhHHHHHHHHHHHhh-hhhhhHHHHHHHHHHhcCCcch------hhHHHHHHHH
Confidence                                  22            44555 3678888888888888766542      4567788887


Q ss_pred             Hh
Q psy5288         171 AL  172 (186)
Q Consensus       171 ~~  172 (186)
                      ..
T Consensus       268 ~~  269 (906)
T PRK14720        268 KE  269 (906)
T ss_pred             HH
Confidence            63

>KOG2376|consensus

Probab=97.69  E-value=0.0059  Score=52.43  Aligned_cols=67  Identities=18%  Similarity=0.140  Sum_probs=52.6

Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhcc---------CChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         118 VAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGE---------ENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       118 ~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~---------~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      .-..++|.+-++... |+|++|++.+++|+++.++.         +.......+...++-|+-..|+..+|...|..
T Consensus       174 syel~yN~Ac~~i~~-gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~iy~~  249 (652)
T KOG2376|consen  174 SYELLYNTACILIEN-GKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSIYVD  249 (652)
T ss_pred             hHHHHHHHHHHHHhc-ccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHHHHH
Confidence            344567788888885 99999999999998887641         12234446888999999999999999998864

>KOG1156|consensus

Probab=97.67  E-value=0.00073  Score=58.28  Aligned_cols=118  Identities=14%  Similarity=0.094  Sum_probs=93.0

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHH
Q psy5288          48 NLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIA  126 (186)
Q Consensus        48 ~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg  126 (186)
                      .....+|+-++|.++...++..      -.....||+-.|-+++.. +|++|+.||+.|+.+-+++-.      ++..++
T Consensus        49 L~L~~lg~~~ea~~~vr~glr~------d~~S~vCwHv~gl~~R~dK~Y~eaiKcy~nAl~~~~dN~q------ilrDls  116 (700)
T KOG1156|consen   49 LTLNCLGKKEEAYELVRLGLRN------DLKSHVCWHVLGLLQRSDKKYDEAIKCYRNALKIEKDNLQ------ILRDLS  116 (700)
T ss_pred             chhhcccchHHHHHHHHHHhcc------CcccchhHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcHH------HHHHHH
Confidence            3455677888888877666662      233457888889998877 999999999999988776643      788888


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHH
Q psy5288         127 EIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYE  184 (186)
Q Consensus       127 ~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~  184 (186)
                      .+-.+ +++++-....-.+-+++.+..      ...|+.++..+...|+|..|.+..+
T Consensus       117 lLQ~Q-mRd~~~~~~tr~~LLql~~~~------ra~w~~~Avs~~L~g~y~~A~~il~  167 (700)
T KOG1156|consen  117 LLQIQ-MRDYEGYLETRNQLLQLRPSQ------RASWIGFAVAQHLLGEYKMALEILE  167 (700)
T ss_pred             HHHHH-HHhhhhHHHHHHHHHHhhhhh------HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            88777 599999999988888886543      3688899999999999999998765

>KOG0550|consensus

Probab=97.66  E-value=0.00057  Score=56.26  Aligned_cols=112  Identities=21%  Similarity=0.205  Sum_probs=88.6

Q ss_pred             CCCCHHHHHHHHHHH--------------------------HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHH
Q psy5288          32 GGNKTDEAIDLYVRA--------------------------GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVD   85 (186)
Q Consensus        32 ~~~~~~~A~~~y~~a--------------------------g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~   85 (186)
                      -.++.+.++..|+++                          |+-..+.|++..|.++|..++.+-..  +...-+.+|.+
T Consensus       215 y~~~~~ka~~hf~qal~ldpdh~~sk~~~~~~k~le~~k~~gN~~fk~G~y~~A~E~Yteal~idP~--n~~~naklY~n  292 (486)
T KOG0550|consen  215 YNDNADKAINHFQQALRLDPDHQKSKSASMMPKKLEVKKERGNDAFKNGNYRKAYECYTEALNIDPS--NKKTNAKLYGN  292 (486)
T ss_pred             cccchHHHHHHHhhhhccChhhhhHHhHhhhHHHHHHHHhhhhhHhhccchhHHHHHHHHhhcCCcc--ccchhHHHHHH
Confidence            346777778877777                          45566789999999999999999433  22344677888


Q ss_pred             HHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhc
Q psy5288          86 AANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAG  152 (186)
Q Consensus        86 a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~  152 (186)
                      -+.+...+ +..+|+.-+..|+.|...-      ...+..-|.++.. |+++++|++.|++|+..-..
T Consensus       293 ra~v~~rLgrl~eaisdc~~Al~iD~sy------ikall~ra~c~l~-le~~e~AV~d~~~a~q~~~s  353 (486)
T KOG0550|consen  293 RALVNIRLGRLREAISDCNEALKIDSSY------IKALLRRANCHLA-LEKWEEAVEDYEKAMQLEKD  353 (486)
T ss_pred             hHhhhcccCCchhhhhhhhhhhhcCHHH------HHHHHHHHHHHHH-HHHHHHHHHHHHHHHhhccc
Confidence            88888877 8999999999998876433      3467788999998 79999999999999997544

>KOG4555|consensus

Probab=97.66  E-value=0.0019  Score=45.36  Aligned_cols=83  Identities=18%  Similarity=0.204  Sum_probs=71.4

Q ss_pred             CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhc
Q psy5288          94 NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALT  173 (186)
Q Consensus        94 ~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~  173 (186)
                      +.+.|++.|.+|+.+..+.      +..|++=+..+.-+ |+.++|+.-+++|+++....  ....-..+..-|.+|..+
T Consensus        58 ~Ld~AlE~F~qal~l~P~r------aSayNNRAQa~RLq-~~~e~ALdDLn~AleLag~~--trtacqa~vQRg~lyRl~  128 (175)
T KOG4555|consen   58 DLDGALELFGQALCLAPER------ASAYNNRAQALRLQ-GDDEEALDDLNKALELAGDQ--TRTACQAFVQRGLLYRLL  128 (175)
T ss_pred             chHHHHHHHHHHHHhcccc------hHhhccHHHHHHHc-CChHHHHHHHHHHHHhcCcc--chHHHHHHHHHHHHHHHh
Confidence            7899999999999998766      44899999999986 99999999999999996443  345557889999999999


Q ss_pred             cCHHHHHHHHHh
Q psy5288         174 DHLDKAIKLYEQ  185 (186)
Q Consensus       174 g~~~~A~~~~~~  185 (186)
                      |+-+.|..-|+.
T Consensus       129 g~dd~AR~DFe~  140 (175)
T KOG4555|consen  129 GNDDAARADFEA  140 (175)
T ss_pred             CchHHHHHhHHH
Confidence            999999988864

>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional

Probab=97.61  E-value=0.001  Score=59.30  Aligned_cols=142  Identities=7%  Similarity=0.082  Sum_probs=76.6

Q ss_pred             CCCCHHHHHHHHHH-----------HHHHHHhcCCHHHHHHHHHHHHHHHHHcC-ChhHHHHHHHHHHHHHhcC-CHHHH
Q psy5288          32 GGNKTDEAIDLYVR-----------AGNLFKLGKKWNDGGNAFLQAGTLHLKNN-NKHDAGLCFVDAANCYKKS-NPAEA   98 (186)
Q Consensus        32 ~~~~~~~A~~~y~~-----------ag~~~~~~g~~~~A~~~y~~a~~~~~~~~-~~~~aa~~~~~a~~~y~~~-~~~~A   98 (186)
                      +.|++++|...|..           ....|...|++++|.+.|.+..+.    | .|+.  ..|..+...|-+. ++++|
T Consensus       271 k~g~~~~A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~----g~~pd~--~t~~~ll~a~~~~g~~~~a  344 (697)
T PLN03081        271 KCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDS----GVSIDQ--FTFSIMIRIFSRLALLEHA  344 (697)
T ss_pred             HCCCHHHHHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHc----CCCCCH--HHHHHHHHHHHhccchHHH
Confidence            45677777777654           355677788888888887766432    1 1111  2333444444333 44444


Q ss_pred             HHHHHHHHH---------------HHHHcCChhHHH-----------HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhc
Q psy5288          99 IKAIERAVE---------------IHTDMGRFIMVA-----------KHHENIAEIYEKELEDQEKAIDHYQHAADCYAG  152 (186)
Q Consensus        99 ~~~~~~Al~---------------i~~~~~~~~~~a-----------~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~  152 (186)
                      .+.+....+               ++.+.|+.+.+-           .+|+.+...|-.. |+.++|++.|++....   
T Consensus       345 ~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~~d~~t~n~lI~~y~~~-G~~~~A~~lf~~M~~~---  420 (697)
T PLN03081        345 KQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNH-GRGTKAVEMFERMIAE---  420 (697)
T ss_pred             HHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHc-CCHHHHHHHHHHHHHh---
Confidence            444333222               122222222222           2455666666664 7777777777775542   


Q ss_pred             cCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         153 EENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       153 ~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                       +..+. ..++..+...+...|+.++|.++|+.
T Consensus       421 -g~~Pd-~~T~~~ll~a~~~~g~~~~a~~~f~~  451 (697)
T PLN03081        421 -GVAPN-HVTFLAVLSACRYSGLSEQGWEIFQS  451 (697)
T ss_pred             -CCCCC-HHHHHHHHHHHhcCCcHHHHHHHHHH
Confidence             11111 24566667777777777777777764

>KOG4234|consensus

Probab=97.61  E-value=0.0004  Score=52.20  Aligned_cols=89  Identities=20%  Similarity=0.185  Sum_probs=75.3

Q ss_pred             HhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHH
Q psy5288          90 YKKSNPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANY  169 (186)
Q Consensus        90 y~~~~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~  169 (186)
                      |...++.+|..-|..|+++...... .....+|.+-|.+... |+.++.||.-..+|+++.+..      ...+.+-|.+
T Consensus       106 F~ngdyeeA~skY~~Ale~cp~~~~-e~rsIly~Nraaa~iK-l~k~e~aI~dcsKaiel~pty------~kAl~RRAea  177 (271)
T KOG4234|consen  106 FKNGDYEEANSKYQEALESCPSTST-EERSILYSNRAAALIK-LRKWESAIEDCSKAIELNPTY------EKALERRAEA  177 (271)
T ss_pred             hhcccHHHHHHHHHHHHHhCccccH-HHHHHHHhhhHHHHHH-hhhHHHHHHHHHhhHhcCchh------HHHHHHHHHH
Confidence            3444899999999999999877654 5667788899999998 699999999999999997643      3677788999


Q ss_pred             HHhccCHHHHHHHHHhC
Q psy5288         170 SALTDHLDKAIKLYEQL  186 (186)
Q Consensus       170 y~~~g~~~~A~~~~~~~  186 (186)
                      |.+..+|++|++-|.+|
T Consensus       178 yek~ek~eealeDyKki  194 (271)
T KOG4234|consen  178 YEKMEKYEEALEDYKKI  194 (271)
T ss_pred             HHhhhhHHHHHHHHHHH
Confidence            99999999999998764

>KOG1174|consensus

Probab=97.60  E-value=0.0051  Score=50.99  Aligned_cols=135  Identities=16%  Similarity=0.137  Sum_probs=90.4

Q ss_pred             cCCCCHHHHHHHHHHH--------------HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CH
Q psy5288          31 TGGNKTDEAIDLYVRA--------------GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NP   95 (186)
Q Consensus        31 ~~~~~~~~A~~~y~~a--------------g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~   95 (186)
                      |-+.++..|+.+-.++              |++...+|++++|+-.|..|..+..      .-..+|.-+..+|... .+
T Consensus       311 ~~~K~~~rAL~~~eK~I~~~~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~Lap------~rL~~Y~GL~hsYLA~~~~  384 (564)
T KOG1174|consen  311 YDEKKFERALNFVEKCIDSEPRNHEALILKGRLLIALERHTQAVIAFRTAQMLAP------YRLEIYRGLFHSYLAQKRF  384 (564)
T ss_pred             hhhhhHHHHHHHHHHHhccCcccchHHHhccHHHHhccchHHHHHHHHHHHhcch------hhHHHHHHHHHHHHhhchH
Confidence            3445667776666655              6677888888888888877766531      1123333333333322 22


Q ss_pred             ------------------------------------HHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHH
Q psy5288          96 ------------------------------------AEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKA  139 (186)
Q Consensus        96 ------------------------------------~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~A  139 (186)
                                                          ++|..++++++.+.+.      -...-+.++.+..-. |.+..+
T Consensus       385 kEA~~~An~~~~~~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~~P~------Y~~AV~~~AEL~~~E-g~~~D~  457 (564)
T KOG1174|consen  385 KEANALANWTIRLFQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKINPI------YTPAVNLIAELCQVE-GPTKDI  457 (564)
T ss_pred             HHHHHHHHHHHHHhhcchhhhhhhcceeeccCchhHHHHHHHHHhhhccCCc------cHHHHHHHHHHHHhh-CccchH
Confidence                                                3455555555443211      112336678888876 999999


Q ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         140 IDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       140 i~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      |..+++++..+++.       .....||.++.....+++|+++|..
T Consensus       458 i~LLe~~L~~~~D~-------~LH~~Lgd~~~A~Ne~Q~am~~y~~  496 (564)
T KOG1174|consen  458 IKLLEKHLIIFPDV-------NLHNHLGDIMRAQNEPQKAMEYYYK  496 (564)
T ss_pred             HHHHHHHHhhcccc-------HHHHHHHHHHHHhhhHHHHHHHHHH
Confidence            99999999998864       4668999999999999999999864

>PLN03077 Protein ECB2; Provisional

Probab=97.59  E-value=0.0072  Score=55.15  Aligned_cols=57  Identities=7%  Similarity=0.135  Sum_probs=38.7

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHhC
Q psy5288         125 IAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQL  186 (186)
Q Consensus       125 lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~~  186 (186)
                      +-..+... |.+++|..+|++..+-+.-..   . ..+|..+...|.+.|++++|.+.++++
T Consensus       595 ll~a~~~~-g~v~ea~~~f~~M~~~~gi~P---~-~~~y~~lv~~l~r~G~~~eA~~~~~~m  651 (857)
T PLN03077        595 LLCACSRS-GMVTQGLEYFHSMEEKYSITP---N-LKHYACVVDLLGRAGKLTEAYNFINKM  651 (857)
T ss_pred             HHHHHhhc-ChHHHHHHHHHHHHHHhCCCC---c-hHHHHHHHHHHHhCCCHHHHHHHHHHC
Confidence            33445553 788888888877764432211   1 257788888899999999999888763

>KOG1128|consensus

Probab=97.57  E-value=0.00029  Score=61.42  Aligned_cols=132  Identities=17%  Similarity=0.210  Sum_probs=101.4

Q ss_pred             HHHHHHHHHHHHH--------HHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHH
Q psy5288          36 TDEAIDLYVRAGN--------LFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAV  106 (186)
Q Consensus        36 ~~~A~~~y~~ag~--------~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al  106 (186)
                      |++|.++.+....        ...+.++|+++..+++.++++.     + .....|...|-+..++ +++.|+.+|...+
T Consensus       473 yEkawElsn~~sarA~r~~~~~~~~~~~fs~~~~hle~sl~~n-----p-lq~~~wf~~G~~ALqlek~q~av~aF~rcv  546 (777)
T KOG1128|consen  473 YEKAWELSNYISARAQRSLALLILSNKDFSEADKHLERSLEIN-----P-LQLGTWFGLGCAALQLEKEQAAVKAFHRCV  546 (777)
T ss_pred             HHHHHHHhhhhhHHHHHhhccccccchhHHHHHHHHHHHhhcC-----c-cchhHHHhccHHHHHHhhhHHHHHHHHHHh
Confidence            4566666554421        1334678999999999998883     3 3345566889898887 8899999999988


Q ss_pred             HHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHhC
Q psy5288         107 EIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQL  186 (186)
Q Consensus       107 ~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~~  186 (186)
                      .+-....      ..++|++..|.. +++-.+|...+++|+....+.      -.+|.|--.+.++.|.+++|++.+.++
T Consensus       547 tL~Pd~~------eaWnNls~ayi~-~~~k~ra~~~l~EAlKcn~~~------w~iWENymlvsvdvge~eda~~A~~rl  613 (777)
T KOG1128|consen  547 TLEPDNA------EAWNNLSTAYIR-LKKKKRAFRKLKEALKCNYQH------WQIWENYMLVSVDVGEFEDAIKAYHRL  613 (777)
T ss_pred             hcCCCch------hhhhhhhHHHHH-HhhhHHHHHHHHHHhhcCCCC------CeeeechhhhhhhcccHHHHHHHHHHH
Confidence            7765553      489999999999 499999999999999975221      257778888999999999999998763

>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A

Probab=97.57  E-value=0.00027  Score=37.20  Aligned_cols=32  Identities=31%  Similarity=0.506  Sum_probs=28.7

Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHh
Q psy5288         119 AKHHENIAEIYEKELEDQEKAIDHYQHAADCYA  151 (186)
Q Consensus       119 a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~  151 (186)
                      +.++..+|.+|.. +|++++|+.+|++++++.+
T Consensus         1 a~~~~~lg~~y~~-~~~~~~A~~~~~~a~~~~~   32 (34)
T PF13181_consen    1 AEAYYNLGKIYEQ-LGDYEEALEYFEKALELNP   32 (34)
T ss_dssp             -HHHHHHHHHHHH-TTSHHHHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHH-cCCHHHHHHHHHHHHhhCC
Confidence            4578999999999 5999999999999999876

...

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.56  E-value=0.002  Score=50.96  Aligned_cols=128  Identities=16%  Similarity=0.136  Sum_probs=93.0

Q ss_pred             hHHhHHHHHHHHHHhhccCCCCccccccCCCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHH
Q psy5288           4 NEQKARQLVAEAEKKISSSSKGFFSQFTGGNKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCF   83 (186)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~   83 (186)
                      ++++.++++...+..+.   .          +.+ =++-+.-.|.+|...|+++.|...|.+|.++.     ++.. ..+
T Consensus       134 ~~~~~~~l~a~Le~~L~---~----------nP~-d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~-----g~n~-~~~  193 (287)
T COG4235         134 AEQEMEALIARLETHLQ---Q----------NPG-DAEGWDLLGRAYMALGRASDALLAYRNALRLA-----GDNP-EIL  193 (287)
T ss_pred             CcccHHHHHHHHHHHHH---h----------CCC-CchhHHHHHHHHHHhcchhHHHHHHHHHHHhC-----CCCH-HHH
Confidence            55778888888888888   1          111 23445667889999999999999999999983     2222 233


Q ss_pred             HHHHHHHhcC----CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHH
Q psy5288          84 VDAANCYKKS----NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSS  158 (186)
Q Consensus        84 ~~a~~~y~~~----~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~  158 (186)
                      .-+++++...    ...++...+++++.+-..+      .....-||..+..+ |+|.+|+..++.-++..+.+..+..
T Consensus       194 ~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~~------iral~lLA~~afe~-g~~~~A~~~Wq~lL~~lp~~~~rr~  265 (287)
T COG4235         194 LGLAEALYYQAGQQMTAKARALLRQALALDPAN------IRALSLLAFAAFEQ-GDYAEAAAAWQMLLDLLPADDPRRS  265 (287)
T ss_pred             HHHHHHHHHhcCCcccHHHHHHHHHHHhcCCcc------HHHHHHHHHHHHHc-ccHHHHHHHHHHHHhcCCCCCchHH
Confidence            3445444332    5678999999998765444      23566688888886 9999999999999999887654433

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=97.55  E-value=0.00074  Score=56.44  Aligned_cols=67  Identities=16%  Similarity=0.109  Sum_probs=52.5

Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHH--HHHHHHHHHHHhcC-CHHHHHHHHHHHHHH
Q psy5288          37 DEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDA--GLCFVDAANCYKKS-NPAEAIKAIERAVEI  108 (186)
Q Consensus        37 ~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~a--a~~~~~a~~~y~~~-~~~~A~~~~~~Al~i  108 (186)
                      ..-...+.+.|.++...|++++|+.+|.+++++     +|...  ..+|.++|-+|..+ ++++|+.++++|+++
T Consensus        72 P~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL-----~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         72 VKTAEDAVNLGLSLFSKGRVKDALAQFETALEL-----NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh-----CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            345777888888888888888888888888887     66654  25677888888777 888888888888876

>PF12862 Apc5: Anaphase-promoting complex subunit 5

Probab=97.55  E-value=0.0029  Score=41.81  Aligned_cols=79  Identities=15%  Similarity=0.195  Sum_probs=63.4

Q ss_pred             hcCCHHHHHHHHHHHHHHHHHcCChh---HHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHH
Q psy5288          52 LGKKWNDGGNAFLQAGTLHLKNNNKH---DAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAE  127 (186)
Q Consensus        52 ~~g~~~~A~~~y~~a~~~~~~~~~~~---~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~  127 (186)
                      +.|++..|.+.+.+..+.....+...   ....+..+++.++... ++++|+..+++|+++.++.+|....+.++.-+..
T Consensus        10 ~~~dy~~A~d~L~~~fD~~~~~~~~~~~~~~~~all~lA~~~~~~G~~~~A~~~l~eAi~~Are~~D~~~l~~al~~~~~   89 (94)
T PF12862_consen   10 RSGDYSEALDALHRYFDYAKQSNNSSSNSGLAYALLNLAELHRRFGHYEEALQALEEAIRLARENGDRRCLAYALSWLAN   89 (94)
T ss_pred             HcCCHHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHH
Confidence            46788888888888888877655544   4455566788887776 9999999999999999999999988888887777


Q ss_pred             HHH
Q psy5288         128 IYE  130 (186)
Q Consensus       128 ~y~  130 (186)
                      +..
T Consensus        90 l~~   92 (94)
T PF12862_consen   90 LLK   92 (94)
T ss_pred             Hhh
Confidence            643

>PF11817 Foie-gras_1: Foie gras liver health family 1; InterPro: IPR021773 Mutating the gene foie gras in zebrafish has been shown to affect development; the mutants develop large, lipid-filled hepatocytes in the liver, resembling those in individuals with fatty liver disease []

Probab=97.54  E-value=0.0022  Score=50.00  Aligned_cols=87  Identities=22%  Similarity=0.225  Sum_probs=80.8

Q ss_pred             HHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccC
Q psy5288          96 AEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDH  175 (186)
Q Consensus        96 ~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~  175 (186)
                      ...++.+.+|.+.++..+.......+...+|.-|.. +|++++|+.+|+.+...+++++.......++..+..++..+|+
T Consensus       155 ~~iI~lL~~A~~~f~~~~~~R~~~~l~~~~A~ey~~-~g~~~~A~~~l~~~~~~yr~egW~~l~~~~l~~l~~Ca~~~~~  233 (247)
T PF11817_consen  155 KLIIELLEKAYEQFKKYGQNRMASYLSLEMAEEYFR-LGDYDKALKLLEPAASSYRREGWWSLLTEVLWRLLECAKRLGD  233 (247)
T ss_pred             HHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHhCC
Confidence            567899999999999999999999999999999999 5999999999999999999999888888999999999999999


Q ss_pred             HHHHHHHH
Q psy5288         176 LDKAIKLY  183 (186)
Q Consensus       176 ~~~A~~~~  183 (186)
                      .+..+.+.
T Consensus       234 ~~~~l~~~  241 (247)
T PF11817_consen  234 VEDYLTTS  241 (247)
T ss_pred             HHHHHHHH
Confidence            99888764

Foie-gras protein is long and has several well-defined domains though none of them has a known function. We have annotated this one as the first []. THe C terminus of this region contains TPR repeats.

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=97.53  E-value=0.01  Score=42.81  Aligned_cols=120  Identities=16%  Similarity=0.196  Sum_probs=63.1

Q ss_pred             HHHhcCCHHHHHHHHHHHHHHHHHcCCh--hHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHH
Q psy5288          49 LFKLGKKWNDGGNAFLQAGTLHLKNNNK--HDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENI  125 (186)
Q Consensus        49 ~~~~~g~~~~A~~~y~~a~~~~~~~~~~--~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~l  125 (186)
                      ++...|+++.|..+|.++..+     ++  ......+...+..+... +++.|+..+.+++.+....     ....+..+
T Consensus       139 ~~~~~~~~~~a~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~-----~~~~~~~~  208 (291)
T COG0457         139 ALYELGDYEEALELYEKALEL-----DPELNELAEALLALGALLEALGRYEEALELLEKALKLNPDD-----DAEALLNL  208 (291)
T ss_pred             HHHHcCCHHHHHHHHHHHHhc-----CCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhCccc-----chHHHHHh
Confidence            455566666666666665331     11  12222222223323222 5666666666666655543     23355666


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         126 AEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       126 g~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      +..+... +++++|+..+.+++...+.      ....+..++..+...++++++...+.+
T Consensus       209 ~~~~~~~-~~~~~a~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~  261 (291)
T COG0457         209 GLLYLKL-GKYEEALEYYEKALELDPD------NAEALYNLALLLLELGRYEEALEALEK  261 (291)
T ss_pred             hHHHHHc-ccHHHHHHHHHHHHhhCcc------cHHHHhhHHHHHHHcCCHHHHHHHHHH
Confidence            6666663 6677777777777766554      123445555555555556666655543

>PF04190 DUF410: Protein of unknown function (DUF410) ; InterPro: IPR007317 This is a family of conserved eukaryotic proteins with undetermined function

Probab=97.48  E-value=0.032  Score=43.87  Aligned_cols=150  Identities=18%  Similarity=0.120  Sum_probs=102.8

Q ss_pred             CCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC--CHHHHHHHHHHHHHHHH
Q psy5288          33 GNKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS--NPAEAIKAIERAVEIHT  110 (186)
Q Consensus        33 ~~~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~--~~~~A~~~~~~Al~i~~  110 (186)
                      +.+|++|+++....+..+...|++.-|.+.-.-.++++.+.+.+.... ...++++++...  .-.+-..+..+|+.-.+
T Consensus         3 ~kky~eAidLL~~Ga~~ll~~~Q~~sg~DL~~lliev~~~~~~~~~~~-~~~rl~~l~~~~~~~~p~r~~fi~~ai~WS~   81 (260)
T PF04190_consen    3 QKKYDEAIDLLYSGALILLKHGQYGSGADLALLLIEVYEKSEDPVDEE-SIARLIELISLFPPEEPERKKFIKAAIKWSK   81 (260)
T ss_dssp             TT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT---SHH-HHHHHHHHHHHS-TT-TTHHHHHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHHhCCCCcchHHHHHHHHHHHHc
Confidence            469999999999999999999999999999999999999876555443 235777777765  22245567777777775


Q ss_pred             HcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHH-----------HHHHHhccCChHHHHHHHHHHHHHHHhccCHHHH
Q psy5288         111 DMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQH-----------AADCYAGEENKSSANKCLIKIANYSALTDHLDKA  179 (186)
Q Consensus       111 ~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~k-----------A~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A  179 (186)
                      ..+.+.+-...+..+|..|.+. +++.+|..+|-.           .+......+.+....-...+...-|..+++..-|
T Consensus        82 ~~~~~~Gdp~LH~~~a~~~~~e-~~~~~A~~Hfl~~~~~~~~~~~~ll~~~~~~~~~~e~dlfi~RaVL~yL~l~n~~~A  160 (260)
T PF04190_consen   82 FGSYKFGDPELHHLLAEKLWKE-GNYYEAERHFLLGTDPSAFAYVMLLEEWSTKGYPSEADLFIARAVLQYLCLGNLRDA  160 (260)
T ss_dssp             TSS-TT--HHHHHHHHHHHHHT-T-HHHHHHHHHTS-HHHHHHHHHHHHHHHHHTSS--HHHHHHHHHHHHHHTTBHHHH
T ss_pred             cCCCCCCCHHHHHHHHHHHHhh-ccHHHHHHHHHhcCChhHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHHhcCHHHH
Confidence            5566678888999999999997 999999999721           1111222344444444555666668888999988


Q ss_pred             HHHHH
Q psy5288         180 IKLYE  184 (186)
Q Consensus       180 ~~~~~  184 (186)
                      ...++
T Consensus       161 ~~~~~  165 (260)
T PF04190_consen  161 NELFD  165 (260)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            88764

; PDB: 3LKU_E 2WPV_G.

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=97.48  E-value=0.00013  Score=38.90  Aligned_cols=34  Identities=18%  Similarity=0.240  Sum_probs=29.7

Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHH
Q psy5288         142 HYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIK  181 (186)
Q Consensus       142 ~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~  181 (186)
                      +|++|+++.+++      ...|.++|.+|...|++++|++
T Consensus         1 ~y~kAie~~P~n------~~a~~nla~~~~~~g~~~~A~~   34 (34)
T PF13431_consen    1 CYKKAIELNPNN------AEAYNNLANLYLNQGDYEEAIA   34 (34)
T ss_pred             ChHHHHHHCCCC------HHHHHHHHHHHHHCcCHHhhcC
Confidence            488999998865      4799999999999999999974

>KOG4340|consensus

Probab=97.46  E-value=0.0019  Score=51.47  Aligned_cols=127  Identities=18%  Similarity=0.191  Sum_probs=76.0

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcCCHHHHHHHHH----------HHHHH----HHHc
Q psy5288          47 GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKSNPAEAIKAIE----------RAVEI----HTDM  112 (186)
Q Consensus        47 g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~~~~~A~~~~~----------~Al~i----~~~~  112 (186)
                      |-+|....+|..|++||.+...++.+.     +---+.-+-.+|....+..|++...          +++.+    .-..
T Consensus        51 gyCYY~~Q~f~~AA~CYeQL~ql~P~~-----~qYrlY~AQSLY~A~i~ADALrV~~~~~D~~~L~~~~lqLqaAIkYse  125 (459)
T KOG4340|consen   51 GYCYYRLQEFALAAECYEQLGQLHPEL-----EQYRLYQAQSLYKACIYADALRVAFLLLDNPALHSRVLQLQAAIKYSE  125 (459)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhChHH-----HHHHHHHHHHHHHhcccHHHHHHHHHhcCCHHHHHHHHHHHHHHhccc
Confidence            557888888999999999888875332     2111112222232222222222211          11111    0011


Q ss_pred             CCh------------hHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHH
Q psy5288         113 GRF------------IMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAI  180 (186)
Q Consensus       113 ~~~------------~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~  180 (186)
                      ++.            ...|....+.|-+..+. |+|+.|++-|+.|++.   .|-.   .-.-.+++.+..+.|+|..|+
T Consensus       126 ~Dl~g~rsLveQlp~en~Ad~~in~gCllyke-gqyEaAvqkFqaAlqv---sGyq---pllAYniALaHy~~~qyasAL  198 (459)
T KOG4340|consen  126 GDLPGSRSLVEQLPSENEADGQINLGCLLYKE-GQYEAAVQKFQAALQV---SGYQ---PLLAYNLALAHYSSRQYASAL  198 (459)
T ss_pred             ccCcchHHHHHhccCCCccchhccchheeecc-ccHHHHHHHHHHHHhh---cCCC---chhHHHHHHHHHhhhhHHHHH
Confidence            111            13345667777776765 9999999999999997   3322   134478899999999999999


Q ss_pred             HHHHh
Q psy5288         181 KLYEQ  185 (186)
Q Consensus       181 ~~~~~  185 (186)
                      ++-.+
T Consensus       199 k~iSE  203 (459)
T KOG4340|consen  199 KHISE  203 (459)
T ss_pred             HHHHH
Confidence            88654

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=97.43  E-value=0.026  Score=41.75  Aligned_cols=121  Identities=15%  Similarity=0.051  Sum_probs=82.7

Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHH
Q psy5288          61 NAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKA  139 (186)
Q Consensus        61 ~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~A  139 (186)
                      +-.+.-++-++...-.......+..+|..|.+. +.++|+++|.++.+.   .-.+......+.++-++... .+++..+
T Consensus        17 ~~Le~elk~~~~n~~kesir~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~---~~~~~~~id~~l~~irv~i~-~~d~~~v   92 (177)
T PF10602_consen   17 EKLEAELKDAKSNLGKESIRMALEDLADHYCKIGDLEEALKAYSRARDY---CTSPGHKIDMCLNVIRVAIF-FGDWSHV   92 (177)
T ss_pred             HHHHHHHHHHHhccchHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhh---cCCHHHHHHHHHHHHHHHHH-hCCHHHH
Confidence            333444444444444556667777888888776 888999998886554   33444555666666666666 4889999


Q ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         140 IDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       140 i~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ..+..+|-.+....++....+..-.--|..+...++|.+|.+.|-.
T Consensus        93 ~~~i~ka~~~~~~~~d~~~~nrlk~~~gL~~l~~r~f~~AA~~fl~  138 (177)
T PF10602_consen   93 EKYIEKAESLIEKGGDWERRNRLKVYEGLANLAQRDFKEAAELFLD  138 (177)
T ss_pred             HHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHhchHHHHHHHHHc
Confidence            9999999888887665544444445556666778899999888754

This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=97.41  E-value=0.00065  Score=36.52  Aligned_cols=32  Identities=13%  Similarity=0.174  Sum_probs=22.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcC
Q psy5288          43 YVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNN   74 (186)
Q Consensus        43 y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~   74 (186)
                      |..+|.+|...|++++|+++|++++.+....+
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~aL~l~~~~~   33 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQALALARDPE   33 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhccccc
Confidence            56677888888888888888888777665443

>KOG4642|consensus

Probab=97.41  E-value=0.0024  Score=49.21  Aligned_cols=108  Identities=17%  Similarity=0.219  Sum_probs=86.9

Q ss_pred             CCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHH
Q psy5288          33 GNKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTD  111 (186)
Q Consensus        33 ~~~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~  111 (186)
                      +|..+...+....-|+.+....+|..|+.||.+++-+     +|.. +.+|.+=+.||.+. +++....-.++|+++...
T Consensus         3 ~~~~s~~a~qlkE~gnk~f~~k~y~~ai~~y~raI~~-----nP~~-~~Y~tnralchlk~~~~~~v~~dcrralql~~N   76 (284)
T KOG4642|consen    3 SPEMSESAEQLKEQGNKCFIPKRYDDAIDCYSRAICI-----NPTV-ASYYTNRALCHLKLKHWEPVEEDCRRALQLDPN   76 (284)
T ss_pred             CcccchHHHHHHhccccccchhhhchHHHHHHHHHhc-----CCCc-chhhhhHHHHHHHhhhhhhhhhhHHHHHhcChH
Confidence            3455666777777788888888899999999999987     4443 56788889999888 788888888899888655


Q ss_pred             cCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhcc
Q psy5288         112 MGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGE  153 (186)
Q Consensus       112 ~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~  153 (186)
                      +      ...+..+|...... ..|+.||..+++|..+.+..
T Consensus        77 ~------vk~h~flg~~~l~s-~~~~eaI~~Lqra~sl~r~~  111 (284)
T KOG4642|consen   77 L------VKAHYFLGQWLLQS-KGYDEAIKVLQRAYSLLREQ  111 (284)
T ss_pred             H------HHHHHHHHHHHHhh-ccccHHHHHHHHHHHHHhcC
Confidence            4      34677788888875 89999999999999998864

>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production

Probab=97.41  E-value=0.013  Score=41.46  Aligned_cols=58  Identities=21%  Similarity=0.208  Sum_probs=35.0

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         121 HHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       121 ~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      +...++..+... |++++|+..+++++.+.+-+      ...+..+-.+|...|++..|++.|++
T Consensus        64 ~~~~l~~~~~~~-~~~~~a~~~~~~~l~~dP~~------E~~~~~lm~~~~~~g~~~~A~~~Y~~  121 (146)
T PF03704_consen   64 ALERLAEALLEA-GDYEEALRLLQRALALDPYD------EEAYRLLMRALAAQGRRAEALRVYER  121 (146)
T ss_dssp             HHHHHHHHHHHT-T-HHHHHHHHHHHHHHSTT-------HHHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHhc-cCHHHHHHHHHHHHhcCCCC------HHHHHHHHHHHHHCcCHHHHHHHHHH
Confidence            444556666663 77777777777777765532      24556666677777777777777654

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.40  E-value=0.0007  Score=42.07  Aligned_cols=58  Identities=21%  Similarity=0.257  Sum_probs=46.5

Q ss_pred             HHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhc
Q psy5288          88 NCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAG  152 (186)
Q Consensus        88 ~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~  152 (186)
                      .+|... ++++|++++++++.+.+..      ...+...|.++... |++++|+..++++++..++
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~p~~------~~~~~~~a~~~~~~-g~~~~A~~~l~~~l~~~p~   61 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELDPDD------PELWLQRARCLFQL-GRYEEALEDLERALELSPD   61 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCccc------chhhHHHHHHHHHh-ccHHHHHHHHHHHHHHCCC
Confidence            455554 8889999999988886664      34778899999984 9999999999999988764

>KOG3617|consensus

Probab=97.35  E-value=0.0094  Score=53.34  Aligned_cols=88  Identities=16%  Similarity=0.230  Sum_probs=59.8

Q ss_pred             CCHHHHHHHHHHH----HHHHHHcCChhHHHH----------HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhc------
Q psy5288          93 SNPAEAIKAIERA----VEIHTDMGRFIMVAK----------HHENIAEIYEKELEDQEKAIDHYQHAADCYAG------  152 (186)
Q Consensus        93 ~~~~~A~~~~~~A----l~i~~~~~~~~~~a~----------~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~------  152 (186)
                      .+...|+++|+++    -++.+.+.+.+.+-.          .+.=-|..+++. |+.|-|+.+|..|-++|.-      
T Consensus       872 ~Di~~AleyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~-GemdaAl~~Y~~A~D~fs~VrI~C~  950 (1416)
T KOG3617|consen  872 RDIEAALEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESV-GEMDAALSFYSSAKDYFSMVRIKCI  950 (1416)
T ss_pred             ccHHHHHHHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcc-cchHHHHHHHHHhhhhhhheeeEee
Confidence            3677788888764    344444432222222          233347777885 9999999999888777652      


Q ss_pred             -------------cCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         153 -------------EENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       153 -------------~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                                   .++.    ....+||.-|...|++.+|+..|.|
T Consensus       951 qGk~~kAa~iA~esgd~----AAcYhlaR~YEn~g~v~~Av~FfTr  992 (1416)
T KOG3617|consen  951 QGKTDKAARIAEESGDK----AACYHLARMYENDGDVVKAVKFFTR  992 (1416)
T ss_pred             ccCchHHHHHHHhcccH----HHHHHHHHHhhhhHHHHHHHHHHHH
Confidence                         2221    2345899999999999999999976

>PF12968 DUF3856: Domain of Unknown Function (DUF3856); InterPro: IPR024552 This domain of unknown function is found in a small group of tetratricopeptide-like proteins, which includes the uncharacterised protein Q8KAL8 from SWISSPROT

Probab=97.34  E-value=0.017  Score=39.89  Aligned_cols=104  Identities=12%  Similarity=0.140  Sum_probs=71.3

Q ss_pred             HHHHHHHHHHHhc---CCHHHHHHHHHHHHHHHHHcCC-----h-hHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHH
Q psy5288          80 GLCFVDAANCYKK---SNPAEAIKAIERAVEIHTDMGR-----F-IMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCY  150 (186)
Q Consensus        80 a~~~~~a~~~y~~---~~~~~A~~~~~~Al~i~~~~~~-----~-~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~  150 (186)
                      +.+|.-+++--++   .-+++|..-|++|.++....-.     + .--+.|+--|+..+.. ||+|++++..-++|+.+|
T Consensus         7 a~aY~aLs~ae~ql~~g~~~eAa~s~r~AM~~srtiP~eEaFDh~GFDA~chA~Ls~A~~~-Lgry~e~L~sA~~aL~YF   85 (144)
T PF12968_consen    7 AMAYMALSDAERQLQDGAYEEAAASCRKAMEVSRTIPAEEAFDHDGFDAFCHAGLSGALAG-LGRYDECLQSADRALRYF   85 (144)
T ss_dssp             HHHHHHHHHHHHHHHHT-HHHHHHHHHHHHHHHTTS-TTS---HHHHHHHHHHHHHHHHHH-TT-HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhccCChHhhcccccHHHHHHHHHHHHHHh-hccHHHHHHHHHHHHHHH
Confidence            4444444433333   3688999999999999876632     2 2346688889999998 799999999999999988


Q ss_pred             hccCC------hHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         151 AGEEN------KSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       151 ~~~~~------~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ...+.      ..|+. +..+-|..+..+|+.++|++.|+.
T Consensus        86 NRRGEL~qdeGklWIa-aVfsra~Al~~~Gr~~eA~~~fr~  125 (144)
T PF12968_consen   86 NRRGELHQDEGKLWIA-AVFSRAVALEGLGRKEEALKEFRM  125 (144)
T ss_dssp             HHH--TTSTHHHHHHH-HHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred             hhccccccccchhHHH-HHHHHHHHHHhcCChHHHHHHHHH
Confidence            75331      12332 335667888999999999999974

The structure of Q8KAL8 is known and belongs to the SCOP all alpha class, TPR-like superfamily, CT2138-like family.; PDB: 2HR2_D.

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=97.34  E-value=0.0056  Score=51.40  Aligned_cols=112  Identities=13%  Similarity=0.050  Sum_probs=75.2

Q ss_pred             cCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHH
Q psy5288          53 GKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEK  131 (186)
Q Consensus        53 ~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~  131 (186)
                      .|++++|...+...+.-     .| +-.....-+++++.+. +..+|.+.+++++.+.....      -...++|+.|..
T Consensus       319 ~~~~d~A~~~l~~L~~~-----~P-~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~P~~~------~l~~~~a~all~  386 (484)
T COG4783         319 AGQYDEALKLLQPLIAA-----QP-DNPYYLELAGDILLEANKAKEAIERLKKALALDPNSP------LLQLNLAQALLK  386 (484)
T ss_pred             hcccchHHHHHHHHHHh-----CC-CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCcc------HHHHHHHHHHHh
Confidence            34555555554442221     12 2223444567888776 88999999999988776553      267789999998


Q ss_pred             hcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHH
Q psy5288         132 ELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLY  183 (186)
Q Consensus       132 ~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~  183 (186)
                       +|++.+||..++..+.-.++.      ...|.-||..|..+|+-.+|...+
T Consensus       387 -~g~~~eai~~L~~~~~~~p~d------p~~w~~LAqay~~~g~~~~a~~A~  431 (484)
T COG4783         387 -GGKPQEAIRILNRYLFNDPED------PNGWDLLAQAYAELGNRAEALLAR  431 (484)
T ss_pred             -cCChHHHHHHHHHHhhcCCCC------chHHHHHHHHHHHhCchHHHHHHH
Confidence             599999999888877654443      257777777777777766666543

>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala

Probab=97.34  E-value=0.0074  Score=52.00  Aligned_cols=128  Identities=12%  Similarity=0.043  Sum_probs=93.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHH
Q psy5288          42 LYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAK  120 (186)
Q Consensus        42 ~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~  120 (186)
                      .+.-++..|...|++++|+++.++|++.      .......|.--|.+|... ++.+|.++.+.|..+-.....      
T Consensus       196 ~~~~lAqhyd~~g~~~~Al~~Id~aI~h------tPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~~DRy------  263 (517)
T PF12569_consen  196 TLYFLAQHYDYLGDYEKALEYIDKAIEH------TPTLVELYMTKARILKHAGDLKEAAEAMDEARELDLADRY------  263 (517)
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHhc------CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCChhhHH------
Confidence            4455678999999999999999999996      344567888889999877 999999999998877554432      


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccC-Ch----H--HHHHHHHHHHHHHHhccCHHHHHHHHHhC
Q psy5288         121 HHENIAEIYEKELEDQEKAIDHYQHAADCYAGEE-NK----S--SANKCLIKIANYSALTDHLDKAIKLYEQL  186 (186)
Q Consensus       121 ~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~-~~----~--~~~~~~~~la~~y~~~g~~~~A~~~~~~~  186 (186)
                      +-.+.+..+.. -|+.++|....    .+|.+.+ ++    .  +........|.+|.+.|++..|++.|..|
T Consensus       264 iNsK~aKy~LR-a~~~e~A~~~~----~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v  331 (517)
T PF12569_consen  264 INSKCAKYLLR-AGRIEEAEKTA----SLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRFHAV  331 (517)
T ss_pred             HHHHHHHHHHH-CCCHHHHHHHH----HhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            23344555555 48899887654    3344332 11    1  11234488899999999999999998754

N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].

>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi

Probab=97.32  E-value=0.0057  Score=50.91  Aligned_cols=100  Identities=21%  Similarity=0.155  Sum_probs=78.3

Q ss_pred             CCCCHHHHHHHHHHH-----------HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHH
Q psy5288          32 GGNKTDEAIDLYVRA-----------GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAI   99 (186)
Q Consensus        32 ~~~~~~~A~~~y~~a-----------g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~   99 (186)
                      ..++++.|++.+++.           +.++...++-.+|++..++++..     .|.. +..+..-+..+... +++.|+
T Consensus       181 ~t~~~~~ai~lle~L~~~~pev~~~LA~v~l~~~~E~~AI~ll~~aL~~-----~p~d-~~LL~~Qa~fLl~k~~~~lAL  254 (395)
T PF09295_consen  181 LTQRYDEAIELLEKLRERDPEVAVLLARVYLLMNEEVEAIRLLNEALKE-----NPQD-SELLNLQAEFLLSKKKYELAL  254 (395)
T ss_pred             hcccHHHHHHHHHHHHhcCCcHHHHHHHHHHhcCcHHHHHHHHHHHHHh-----CCCC-HHHHHHHHHHHHhcCCHHHHH
Confidence            346899999999987           45677788889999998888853     2333 55555556666555 899999


Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHH
Q psy5288         100 KAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQ  144 (186)
Q Consensus       100 ~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~  144 (186)
                      .+.++|.++....-      .++..|+.+|.. +|+++.|+..++
T Consensus       255 ~iAk~av~lsP~~f------~~W~~La~~Yi~-~~d~e~ALlaLN  292 (395)
T PF09295_consen  255 EIAKKAVELSPSEF------ETWYQLAECYIQ-LGDFENALLALN  292 (395)
T ss_pred             HHHHHHHHhCchhH------HHHHHHHHHHHh-cCCHHHHHHHHh
Confidence            99999998876663      488899999999 599999997765

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>KOG1174|consensus

Probab=97.30  E-value=0.0055  Score=50.77  Aligned_cols=81  Identities=11%  Similarity=0.076  Sum_probs=63.3

Q ss_pred             HHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHH
Q psy5288          89 CYKKSNPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIAN  168 (186)
Q Consensus        89 ~y~~~~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~  168 (186)
                      +|...++..|+.+-++++++....      -..+...|.++.. +++.++|+-.|..|..+.+-.      -.+|..|-.
T Consensus       310 l~~~K~~~rAL~~~eK~I~~~~r~------~~alilKG~lL~~-~~R~~~A~IaFR~Aq~Lap~r------L~~Y~GL~h  376 (564)
T KOG1174|consen  310 LYDEKKFERALNFVEKCIDSEPRN------HEALILKGRLLIA-LERHTQAVIAFRTAQMLAPYR------LEIYRGLFH  376 (564)
T ss_pred             hhhhhhHHHHHHHHHHHhccCccc------chHHHhccHHHHh-ccchHHHHHHHHHHHhcchhh------HHHHHHHHH
Confidence            344447888888888887664333      2256778999998 599999999999999986532      478999999


Q ss_pred             HHHhccCHHHHHHH
Q psy5288         169 YSALTDHLDKAIKL  182 (186)
Q Consensus       169 ~y~~~g~~~~A~~~  182 (186)
                      +|...|++.+|.-.
T Consensus       377 sYLA~~~~kEA~~~  390 (564)
T KOG1174|consen  377 SYLAQKRFKEANAL  390 (564)
T ss_pred             HHHhhchHHHHHHH
Confidence            99999999998754

>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A

Probab=97.28  E-value=0.00047  Score=42.21  Aligned_cols=53  Identities=19%  Similarity=0.223  Sum_probs=43.4

Q ss_pred             CCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhc
Q psy5288          93 SNPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAG  152 (186)
Q Consensus        93 ~~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~  152 (186)
                      .++++|++.|++++...+..      ..+...+|.+|... |++++|...+++++...++
T Consensus         5 ~~~~~A~~~~~~~l~~~p~~------~~~~~~la~~~~~~-g~~~~A~~~l~~~~~~~~~   57 (68)
T PF14559_consen    5 GDYDEAIELLEKALQRNPDN------PEARLLLAQCYLKQ-GQYDEAEELLERLLKQDPD   57 (68)
T ss_dssp             THHHHHHHHHHHHHHHTTTS------HHHHHHHHHHHHHT-T-HHHHHHHHHCCHGGGTT
T ss_pred             cCHHHHHHHHHHHHHHCCCC------HHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHCcC
Confidence            47889999999998877664      33777899999995 9999999999999998765

...

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=97.26  E-value=0.059  Score=42.00  Aligned_cols=157  Identities=16%  Similarity=0.134  Sum_probs=110.3

Q ss_pred             hHHHHHHHHHHhhccCCCCccccccCCCCHHHHHHHHHHH-----------------HHHHHhcCCHHHHHHHHHHHHHH
Q psy5288           7 KARQLVAEAEKKISSSSKGFFSQFTGGNKTDEAIDLYVRA-----------------GNLFKLGKKWNDGGNAFLQAGTL   69 (186)
Q Consensus         7 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~A~~~y~~a-----------------g~~~~~~g~~~~A~~~y~~a~~~   69 (186)
                      .+..|+.++.+.|.            +|+|++|++.|+.+                 +-.+.+.++++.|+....+=+.+
T Consensus        33 p~~~LY~~g~~~L~------------~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~l  100 (254)
T COG4105          33 PASELYNEGLTELQ------------KGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRL  100 (254)
T ss_pred             CHHHHHHHHHHHHh------------cCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHh
Confidence            57889999999998            36999999999998                 33577889999999888777776


Q ss_pred             HHHcCChhHHHHHHHHHHHHHhcC------CH---HHHHHHHHHHHHHHHHcCC-----------hhHHHHHHHHHHHHH
Q psy5288          70 HLKNNNKHDAGLCFVDAANCYKKS------NP---AEAIKAIERAVEIHTDMGR-----------FIMVAKHHENIAEIY  129 (186)
Q Consensus        70 ~~~~~~~~~aa~~~~~a~~~y~~~------~~---~~A~~~~~~Al~i~~~~~~-----------~~~~a~~~~~lg~~y  129 (186)
                      +-.   ...+.-++.-.|.++...      +.   .+|+..++.-+.-++...-           ....|..-..+|+.|
T Consensus       101 yP~---~~n~dY~~YlkgLs~~~~i~~~~rDq~~~~~A~~~f~~~i~ryPnS~Ya~dA~~~i~~~~d~LA~~Em~IaryY  177 (254)
T COG4105         101 YPT---HPNADYAYYLKGLSYFFQIDDVTRDQSAARAAFAAFKELVQRYPNSRYAPDAKARIVKLNDALAGHEMAIARYY  177 (254)
T ss_pred             CCC---CCChhHHHHHHHHHHhccCCccccCHHHHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            533   333344444555555432      33   3444555544443332211           124455567889999


Q ss_pred             HHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHH
Q psy5288         130 EKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKL  182 (186)
Q Consensus       130 ~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~  182 (186)
                      ... |.+--|+..+++.++-+++...   ....+..+.+.|..+|-.++|-++
T Consensus       178 ~kr-~~~~AA~nR~~~v~e~y~~t~~---~~eaL~~l~eaY~~lgl~~~a~~~  226 (254)
T COG4105         178 LKR-GAYVAAINRFEEVLENYPDTSA---VREALARLEEAYYALGLTDEAKKT  226 (254)
T ss_pred             HHh-cChHHHHHHHHHHHhccccccc---hHHHHHHHHHHHHHhCChHHHHHH
Confidence            997 9999999999999998887543   345677888999999988888654

>PRK15331 chaperone protein SicA; Provisional

Probab=97.24  E-value=0.0096  Score=43.36  Aligned_cols=99  Identities=9%  Similarity=-0.027  Sum_probs=74.5

Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCCh
Q psy5288          37 DEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRF  115 (186)
Q Consensus        37 ~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~  115 (186)
                      ++-.+..-..+--+...|++++|...|.-..-.     ++.. ...+.-+|-|+... ++++|+.+|--|..+....-. 
T Consensus        34 ~~~le~iY~~Ay~~y~~Gk~~eA~~~F~~L~~~-----d~~n-~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~dp~-  106 (165)
T PRK15331         34 QDMMDGLYAHAYEFYNQGRLDEAETFFRFLCIY-----DFYN-PDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKNDYR-  106 (165)
T ss_pred             HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-----CcCc-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCCCC-
Confidence            445555555555566789999999888655443     3333 34567888898876 999999999998887754433 


Q ss_pred             hHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q psy5288         116 IMVAKHHENIAEIYEKELEDQEKAIDHYQHAAD  148 (186)
Q Consensus       116 ~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~  148 (186)
                           -.+.+|.||.. +|+.+.|..+|+.+++
T Consensus       107 -----p~f~agqC~l~-l~~~~~A~~~f~~a~~  133 (165)
T PRK15331        107 -----PVFFTGQCQLL-MRKAAKARQCFELVNE  133 (165)
T ss_pred             -----ccchHHHHHHH-hCCHHHHHHHHHHHHh
Confidence                 36779999998 6999999999999998

>PLN03077 Protein ECB2; Provisional

Probab=97.21  E-value=0.016  Score=52.98  Aligned_cols=51  Identities=14%  Similarity=0.037  Sum_probs=35.7

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         128 IYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       128 ~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      .+... ++.+.+....++.+++-+++      ...+..++++|...|++++|.++.+.
T Consensus       666 ac~~~-~~~e~~e~~a~~l~~l~p~~------~~~y~ll~n~ya~~g~~~~a~~vr~~  716 (857)
T PLN03077        666 ACRIH-RHVELGELAAQHIFELDPNS------VGYYILLCNLYADAGKWDEVARVRKT  716 (857)
T ss_pred             HHHHc-CChHHHHHHHHHHHhhCCCC------cchHHHHHHHHHHCCChHHHHHHHHH
Confidence            33443 66666666666666654432      25778889999999999999998764

>KOG3785|consensus

Probab=97.21  E-value=0.013  Score=47.83  Aligned_cols=154  Identities=17%  Similarity=0.138  Sum_probs=88.4

Q ss_pred             HHHHHHhhccCCCCccccccCCCCHHHHHHHHHHH---------------HHHHHhcCCHHHHHHHHHHHHHHHHHcCCh
Q psy5288          12 VAEAEKKISSSSKGFFSQFTGGNKTDEAIDLYVRA---------------GNLFKLGKKWNDGGNAFLQAGTLHLKNNNK   76 (186)
Q Consensus        12 ~~~a~~~~~~~~~~~~~~~~~~~~~~~A~~~y~~a---------------g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~   76 (186)
                      .++|+|+=+  -..|+|    +.+|+-|+.+++..               +-++..+|+|++|+..|.-+.+    -.++
T Consensus        20 ~kkarK~P~--Ledfls----~rDytGAislLefk~~~~~EEE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~----~~~~   89 (557)
T KOG3785|consen   20 IKKARKMPE--LEDFLS----NRDYTGAISLLEFKLNLDREEEDSLQLWIAHCYFHLGDYEEALNVYTFLMN----KDDA   89 (557)
T ss_pred             chhhhcCch--HHHHHh----cccchhHHHHHHHhhccchhhhHHHHHHHHHHHHhhccHHHHHHHHHHHhc----cCCC
Confidence            566666544  134433    46888888887765               4467788899988888865544    1122


Q ss_pred             hHHHHHHHHHHHHHhcC-CHHHHHHHHHHHH----------HHHHHcCChhHHHHHHHHHHHHHHHhc---------CCH
Q psy5288          77 HDAGLCFVDAANCYKKS-NPAEAIKAIERAV----------EIHTDMGRFIMVAKHHENIAEIYEKEL---------EDQ  136 (186)
Q Consensus        77 ~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al----------~i~~~~~~~~~~a~~~~~lg~~y~~~l---------g~~  136 (186)
                      .  +....+++-|+--+ .+.+|...-.+|.          .+..++|+.......+.+++...+++|         -.|
T Consensus        90 ~--~el~vnLAcc~FyLg~Y~eA~~~~~ka~k~pL~~RLlfhlahklndEk~~~~fh~~LqD~~EdqLSLAsvhYmR~HY  167 (557)
T KOG3785|consen   90 P--AELGVNLACCKFYLGQYIEAKSIAEKAPKTPLCIRLLFHLAHKLNDEKRILTFHSSLQDTLEDQLSLASVHYMRMHY  167 (557)
T ss_pred             C--cccchhHHHHHHHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHhCcHHHHHHHHHHHhhhHHHHHhHHHHHHHHHHH
Confidence            2  22333444444333 4444444333332          123456777777667766666655431         234


Q ss_pred             HHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHH
Q psy5288         137 EKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLY  183 (186)
Q Consensus       137 ~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~  183 (186)
                      ++||+.|.+.+.-     ++... .....+|.+|.++.-|+-+-++.
T Consensus       168 QeAIdvYkrvL~d-----n~ey~-alNVy~ALCyyKlDYydvsqevl  208 (557)
T KOG3785|consen  168 QEAIDVYKRVLQD-----NPEYI-ALNVYMALCYYKLDYYDVSQEVL  208 (557)
T ss_pred             HHHHHHHHHHHhc-----Chhhh-hhHHHHHHHHHhcchhhhHHHHH
Confidence            5555555444432     22222 35577899999999888777654

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=97.20  E-value=0.0046  Score=51.86  Aligned_cols=98  Identities=13%  Similarity=0.148  Sum_probs=75.3

Q ss_pred             ChhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccC
Q psy5288          75 NKHDAGLCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEE  154 (186)
Q Consensus        75 ~~~~aa~~~~~a~~~y~~~~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~  154 (186)
                      ++.+.+.-|-.+...|....+++|...++.-+.-.+  +|    .....-.+.++... +++++|++.+++++.+.+.. 
T Consensus       302 ~~~~~aa~YG~A~~~~~~~~~d~A~~~l~~L~~~~P--~N----~~~~~~~~~i~~~~-nk~~~A~e~~~kal~l~P~~-  373 (484)
T COG4783         302 KRGGLAAQYGRALQTYLAGQYDEALKLLQPLIAAQP--DN----PYYLELAGDILLEA-NKAKEAIERLKKALALDPNS-  373 (484)
T ss_pred             CccchHHHHHHHHHHHHhcccchHHHHHHHHHHhCC--CC----HHHHHHHHHHHHHc-CChHHHHHHHHHHHhcCCCc-
Confidence            345556667677777777788888888776322222  34    33667789999995 99999999999999998764 


Q ss_pred             ChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         155 NKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       155 ~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                           .....++|++|.+.|++++|+..+++
T Consensus       374 -----~~l~~~~a~all~~g~~~eai~~L~~  399 (484)
T COG4783         374 -----PLLQLNLAQALLKGGKPQEAIRILNR  399 (484)
T ss_pred             -----cHHHHHHHHHHHhcCChHHHHHHHHH
Confidence                 25778999999999999999998865

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.19  E-value=0.0088  Score=51.61  Aligned_cols=127  Identities=18%  Similarity=0.121  Sum_probs=80.6

Q ss_pred             HhHHHHHHHHHHhhccCCCCccccccCCCCHHHHHHHHHHHHHH--------------HHhcCC--------HHHHHHHH
Q psy5288           6 QKARQLVAEAEKKISSSSKGFFSQFTGGNKTDEAIDLYVRAGNL--------------FKLGKK--------WNDGGNAF   63 (186)
Q Consensus         6 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~A~~~y~~ag~~--------------~~~~g~--------~~~A~~~y   63 (186)
                      .+|=+++-+|...+.   .+      ..++...|+++|+++...              |.....        ...+.+..
T Consensus       337 ~~Ay~~~lrg~~~~~---~~------~~~~~~~A~~lle~Ai~ldP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~  407 (517)
T PRK10153        337 GAALTLFYQAHHYLN---SG------DAKSLNKASDLLEEILKSEPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTEL  407 (517)
T ss_pred             HHHHHHHHHHHHHHh---cC------CHHHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHH
Confidence            356677777777776   11      345788999999999431              211111        11112211


Q ss_pred             HHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHH
Q psy5288          64 LQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDH  142 (186)
Q Consensus        64 ~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~  142 (186)
                      .++..+   ..++.. ...|.-+|.+.... ++++|...+++|+.+..   +    +..+..+|.++... |++++|++.
T Consensus       408 ~~a~al---~~~~~~-~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~p---s----~~a~~~lG~~~~~~-G~~~eA~~~  475 (517)
T PRK10153        408 DNIVAL---PELNVL-PRIYEILAVQALVKGKTDEAYQAINKAIDLEM---S----WLNYVLLGKVYELK-GDNRLAADA  475 (517)
T ss_pred             HHhhhc---ccCcCC-hHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC---C----HHHHHHHHHHHHHc-CCHHHHHHH
Confidence            221111   012222 24454455555433 99999999999998873   1    45889999999995 999999999


Q ss_pred             HHHHHHHHhcc
Q psy5288         143 YQHAADCYAGE  153 (186)
Q Consensus       143 y~kA~~l~~~~  153 (186)
                      |++|+.+.+..
T Consensus       476 ~~~A~~L~P~~  486 (517)
T PRK10153        476 YSTAFNLRPGE  486 (517)
T ss_pred             HHHHHhcCCCC
Confidence            99999997654

>KOG0624|consensus

Probab=97.18  E-value=0.033  Score=45.34  Aligned_cols=136  Identities=13%  Similarity=0.058  Sum_probs=77.6

Q ss_pred             CCCHHHHHHHHHHH--------------HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhc-CCHHH
Q psy5288          33 GNKTDEAIDLYVRA--------------GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKK-SNPAE   97 (186)
Q Consensus        33 ~~~~~~A~~~y~~a--------------g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~-~~~~~   97 (186)
                      ++++.+|++.|-.|              +.+|..+|+-.-|+.-+.+.+++     .|+..+.-..+ |.+..+ .++++
T Consensus        51 ~~Q~sDALt~yHaAve~dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlel-----KpDF~~ARiQR-g~vllK~Gele~  124 (504)
T KOG0624|consen   51 RGQLSDALTHYHAAVEGDPNNYQAIFRRATVYLAMGKSKAALQDLSRVLEL-----KPDFMAARIQR-GVVLLKQGELEQ  124 (504)
T ss_pred             hhhHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhcCCccchhhHHHHHhc-----CccHHHHHHHh-chhhhhcccHHH
Confidence            35666666666555              23455555555555555555555     44444444433 333333 37788


Q ss_pred             HHHHHHHHHHHHHHcCChhHHHHHHHHHH------------HHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHH
Q psy5288          98 AIKAIERAVEIHTDMGRFIMVAKHHENIA------------EIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIK  165 (186)
Q Consensus        98 A~~~~~~Al~i~~~~~~~~~~a~~~~~lg------------~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~  165 (186)
                      |..-|.+.+.-...+|..   -....+++            .-+... |+...||++..+.+++.+      |....+..
T Consensus       125 A~~DF~~vl~~~~s~~~~---~eaqskl~~~~e~~~l~~ql~s~~~~-GD~~~ai~~i~~llEi~~------Wda~l~~~  194 (504)
T KOG0624|consen  125 AEADFDQVLQHEPSNGLV---LEAQSKLALIQEHWVLVQQLKSASGS-GDCQNAIEMITHLLEIQP------WDASLRQA  194 (504)
T ss_pred             HHHHHHHHHhcCCCcchh---HHHHHHHHhHHHHHHHHHHHHHHhcC-CchhhHHHHHHHHHhcCc------chhHHHHH
Confidence            888887766543332221   11122222            222333 788888888888887743      44566677


Q ss_pred             HHHHHHhccCHHHHHHHHH
Q psy5288         166 IANYSALTDHLDKAIKLYE  184 (186)
Q Consensus       166 la~~y~~~g~~~~A~~~~~  184 (186)
                      -+.+|+..|+..+||.-+.
T Consensus       195 Rakc~i~~~e~k~AI~Dlk  213 (504)
T KOG0624|consen  195 RAKCYIAEGEPKKAIHDLK  213 (504)
T ss_pred             HHHHHHhcCcHHHHHHHHH
Confidence            7888888888888876543

>KOG1127|consensus

Probab=97.17  E-value=0.0017  Score=58.75  Aligned_cols=126  Identities=13%  Similarity=0.101  Sum_probs=87.9

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHHHH--------------HcCChhHHHHHHHHH----------------HHHHhcC-CH
Q psy5288          47 GNLFKLGKKWNDGGNAFLQAGTLHL--------------KNNNKHDAGLCFVDA----------------ANCYKKS-NP   95 (186)
Q Consensus        47 g~~~~~~g~~~~A~~~y~~a~~~~~--------------~~~~~~~aa~~~~~a----------------~~~y~~~-~~   95 (186)
                      |.+|+..-+...|..||.+|-++--              ...+++.+.....+.                |..|.+. +.
T Consensus       499 G~iYrd~~Dm~RA~kCf~KAFeLDatdaeaaaa~adtyae~~~we~a~~I~l~~~qka~a~~~k~nW~~rG~yyLea~n~  578 (1238)
T KOG1127|consen  499 GQIYRDSDDMKRAKKCFDKAFELDATDAEAAAASADTYAEESTWEEAFEICLRAAQKAPAFACKENWVQRGPYYLEAHNL  578 (1238)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhcCCchhhhhHHHHHHHhhccccHHHHHHHHHHHhhhchHHHHHhhhhhccccccCccch
Confidence            6677777778888888888777622              122222222221111                2223322 67


Q ss_pred             HHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccC
Q psy5288          96 AEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDH  175 (186)
Q Consensus        96 ~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~  175 (186)
                      ..|+..++.|+++.+..=+      ++..+|.+|... |.|..|+..|.+|..+-+..      .-.....+.+....|+
T Consensus       579 h~aV~~fQsALR~dPkD~n------~W~gLGeAY~~s-Gry~~AlKvF~kAs~LrP~s------~y~~fk~A~~ecd~Gk  645 (1238)
T KOG1127|consen  579 HGAVCEFQSALRTDPKDYN------LWLGLGEAYPES-GRYSHALKVFTKASLLRPLS------KYGRFKEAVMECDNGK  645 (1238)
T ss_pred             hhHHHHHHHHhcCCchhHH------HHHHHHHHHHhc-CceehHHHhhhhhHhcCcHh------HHHHHHHHHHHHHhhh
Confidence            7899999999887766533      889999999997 99999999999999985542      1344567778888999


Q ss_pred             HHHHHHHHHh
Q psy5288         176 LDKAIKLYEQ  185 (186)
Q Consensus       176 ~~~A~~~~~~  185 (186)
                      |.+|+..+..
T Consensus       646 Ykeald~l~~  655 (1238)
T KOG1127|consen  646 YKEALDALGL  655 (1238)
T ss_pred             HHHHHHHHHH
Confidence            9999988765

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=97.16  E-value=0.0013  Score=36.96  Aligned_cols=42  Identities=12%  Similarity=0.114  Sum_probs=34.2

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHH
Q psy5288         120 KHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIAN  168 (186)
Q Consensus       120 ~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~  168 (186)
                      ..+..+|.+|... |++++|+..|++++...+++      ...+..+|.
T Consensus         2 ~~~~~la~~~~~~-G~~~~A~~~~~~~l~~~P~~------~~a~~~La~   43 (44)
T PF13428_consen    2 AAWLALARAYRRL-GQPDEAERLLRRALALDPDD------PEAWRALAQ   43 (44)
T ss_pred             HHHHHHHHHHHHc-CCHHHHHHHHHHHHHHCcCC------HHHHHHhhh
Confidence            3578899999994 99999999999999998865      256666554

>KOG0495|consensus

Probab=97.12  E-value=0.012  Score=51.33  Aligned_cols=133  Identities=16%  Similarity=0.164  Sum_probs=84.3

Q ss_pred             CCCHHHHHHHHHHHHH--------------HHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHH
Q psy5288          33 GNKTDEAIDLYVRAGN--------------LFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAE   97 (186)
Q Consensus        33 ~~~~~~A~~~y~~ag~--------------~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~   97 (186)
                      .|+...|.....++-.              +-.....++.|..++.++-.+       .+....|.+.+.+-.-+ +.++
T Consensus       597 agdv~~ar~il~~af~~~pnseeiwlaavKle~en~e~eraR~llakar~~-------sgTeRv~mKs~~~er~ld~~ee  669 (913)
T KOG0495|consen  597 AGDVPAARVILDQAFEANPNSEEIWLAAVKLEFENDELERARDLLAKARSI-------SGTERVWMKSANLERYLDNVEE  669 (913)
T ss_pred             cCCcHHHHHHHHHHHHhCCCcHHHHHHHHHHhhccccHHHHHHHHHHHhcc-------CCcchhhHHHhHHHHHhhhHHH
Confidence            3566666666555411              122233455555544444432       22223333444333333 6688


Q ss_pred             HHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHH
Q psy5288          98 AIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLD  177 (186)
Q Consensus        98 A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~  177 (186)
                      |++.++.+++.|...-.      .+..+|.+++++ ++.+.|.+.|..-+..++..      ...|+.++.+-.+.|+..
T Consensus       670 A~rllEe~lk~fp~f~K------l~lmlGQi~e~~-~~ie~aR~aY~~G~k~cP~~------ipLWllLakleEk~~~~~  736 (913)
T KOG0495|consen  670 ALRLLEEALKSFPDFHK------LWLMLGQIEEQM-ENIEMAREAYLQGTKKCPNS------IPLWLLLAKLEEKDGQLV  736 (913)
T ss_pred             HHHHHHHHHHhCCchHH------HHHHHhHHHHHH-HHHHHHHHHHHhccccCCCC------chHHHHHHHHHHHhcchh
Confidence            88888888877765543      677889998886 88999999888888877753      256777777777888888


Q ss_pred             HHHHHHHh
Q psy5288         178 KAIKLYEQ  185 (186)
Q Consensus       178 ~A~~~~~~  185 (186)
                      +|...+++
T Consensus       737 rAR~ildr  744 (913)
T KOG0495|consen  737 RARSILDR  744 (913)
T ss_pred             hHHHHHHH
Confidence            88877765

>KOG0495|consensus

Probab=97.10  E-value=0.021  Score=49.96  Aligned_cols=57  Identities=12%  Similarity=0.125  Sum_probs=43.6

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHH
Q psy5288         121 HHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYE  184 (186)
Q Consensus       121 ~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~  184 (186)
                      ++..+|.++... .++++|.++|++|+.+.+..|      ++|..+-..+...|.=++-.++|.
T Consensus       819 Vllaia~lfw~e-~k~~kar~Wf~Ravk~d~d~G------D~wa~fykfel~hG~eed~kev~~  875 (913)
T KOG0495|consen  819 VLLAIAKLFWSE-KKIEKAREWFERAVKKDPDNG------DAWAWFYKFELRHGTEEDQKEVLK  875 (913)
T ss_pred             hHHHHHHHHHHH-HHHHHHHHHHHHHHccCCccc------hHHHHHHHHHHHhCCHHHHHHHHH
Confidence            567888888887 899999999999999988876      456555567777775555555554

>PF11817 Foie-gras_1: Foie gras liver health family 1; InterPro: IPR021773 Mutating the gene foie gras in zebrafish has been shown to affect development; the mutants develop large, lipid-filled hepatocytes in the liver, resembling those in individuals with fatty liver disease []

Probab=97.08  E-value=0.028  Score=43.82  Aligned_cols=92  Identities=15%  Similarity=0.060  Sum_probs=81.5

Q ss_pred             CCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHh
Q psy5288          54 KKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKE  132 (186)
Q Consensus        54 g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~  132 (186)
                      ..-...++++.+|...+++.+...-......++|.-|... ++++|+.+|+.+...+...|+......++..+-.|+.. 
T Consensus       152 ~hs~~iI~lL~~A~~~f~~~~~~R~~~~l~~~~A~ey~~~g~~~~A~~~l~~~~~~yr~egW~~l~~~~l~~l~~Ca~~-  230 (247)
T PF11817_consen  152 DHSKLIIELLEKAYEQFKKYGQNRMASYLSLEMAEEYFRLGDYDKALKLLEPAASSYRREGWWSLLTEVLWRLLECAKR-  230 (247)
T ss_pred             chHHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHH-
Confidence            3456779999999999999998888888888999988876 99999999999999999999999999999999999998 


Q ss_pred             cCCHHHHHHHHHHH
Q psy5288         133 LEDQEKAIDHYQHA  146 (186)
Q Consensus       133 lg~~~~Ai~~y~kA  146 (186)
                      +|+.+..+.+--+.
T Consensus       231 ~~~~~~~l~~~leL  244 (247)
T PF11817_consen  231 LGDVEDYLTTSLEL  244 (247)
T ss_pred             hCCHHHHHHHHHHH
Confidence            69999888765443

Foie-gras protein is long and has several well-defined domains though none of them has a known function. We have annotated this one as the first []. THe C terminus of this region contains TPR repeats.

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=97.08  E-value=0.04  Score=40.81  Aligned_cols=111  Identities=8%  Similarity=-0.022  Sum_probs=88.5

Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCCh
Q psy5288          37 DEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRF  115 (186)
Q Consensus        37 ~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~  115 (186)
                      ++....+...|+.|...|+.+.|+++|.++.+-   .-.+......+..+..+.... ++.....+..+|-.+....|+.
T Consensus        33 esir~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~---~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~  109 (177)
T PF10602_consen   33 ESIRMALEDLADHYCKIGDLEEALKAYSRARDY---CTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDW  109 (177)
T ss_pred             HHHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhh---cCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchH
Confidence            566678999999999999999999999986664   334555566666777666655 8999999999999999998888


Q ss_pred             hHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHh
Q psy5288         116 IMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYA  151 (186)
Q Consensus       116 ~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~  151 (186)
                      ......-.--|..+... ++|..|...|-.+..-+.
T Consensus       110 ~~~nrlk~~~gL~~l~~-r~f~~AA~~fl~~~~t~~  144 (177)
T PF10602_consen  110 ERRNRLKVYEGLANLAQ-RDFKEAAELFLDSLSTFT  144 (177)
T ss_pred             HHHHHHHHHHHHHHHHh-chHHHHHHHHHccCcCCC
Confidence            77776666667777775 899999999988876664

This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=97.06  E-value=0.013  Score=45.94  Aligned_cols=107  Identities=16%  Similarity=0.166  Sum_probs=85.7

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHH
Q psy5288          40 IDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMV  118 (186)
Q Consensus        40 ~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~  118 (186)
                      -..|+.|-..++ .|+|..|.+.|..-++-|-   +-.-+..++.=+|+++... +++.|...|.....   ...+...+
T Consensus       142 ~~~Y~~A~~~~k-sgdy~~A~~~F~~fi~~YP---~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k---~~P~s~KA  214 (262)
T COG1729         142 TKLYNAALDLYK-SGDYAEAEQAFQAFIKKYP---NSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVK---DYPKSPKA  214 (262)
T ss_pred             hHHHHHHHHHHH-cCCHHHHHHHHHHHHHcCC---CCcccchhHHHHHHHHHhcccchHHHHHHHHHHH---hCCCCCCC
Confidence            447888777766 4669999999987777542   2223467777899998876 99999999987655   56666778


Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccC
Q psy5288         119 AKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEE  154 (186)
Q Consensus       119 a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~  154 (186)
                      ...+++||.+... +|+-++|...|++.+.-|+...
T Consensus       215 pdallKlg~~~~~-l~~~d~A~atl~qv~k~YP~t~  249 (262)
T COG1729         215 PDALLKLGVSLGR-LGNTDEACATLQQVIKRYPGTD  249 (262)
T ss_pred             hHHHHHHHHHHHH-hcCHHHHHHHHHHHHHHCCCCH
Confidence            8899999999999 6999999999999999999764

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=97.03  E-value=0.0021  Score=35.10  Aligned_cols=34  Identities=21%  Similarity=0.263  Sum_probs=28.0

Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhcc
Q psy5288         119 AKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGE  153 (186)
Q Consensus       119 a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~  153 (186)
                      +.++.++|.+|..+ |++++|..++++++.+.++.
T Consensus         2 a~~~~~la~~~~~~-g~~~~A~~~~~~al~~~~~~   35 (42)
T PF13374_consen    2 ASALNNLANAYRAQ-GRYEEALELLEEALEIRERL   35 (42)
T ss_dssp             HHHHHHHHHHHHHC-T-HHHHHHHHHHHHHHH---
T ss_pred             HHHHHHHHHHHHhh-hhcchhhHHHHHHHHHHHHH
Confidence            56889999999995 99999999999999998764

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=97.03  E-value=0.038  Score=39.82  Aligned_cols=88  Identities=17%  Similarity=0.280  Sum_probs=63.7

Q ss_pred             HHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHH
Q psy5288          89 CYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIA  167 (186)
Q Consensus        89 ~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la  167 (186)
                      ++... +++.|+.++.+++.+...   ...........+..+.. .++++.|+..+.+++...+..     ....+..++
T Consensus       139 ~~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~-~~~~~~a~~~~~~~~~~~~~~-----~~~~~~~~~  209 (291)
T COG0457         139 ALYELGDYEEALELYEKALELDPE---LNELAEALLALGALLEA-LGRYEEALELLEKALKLNPDD-----DAEALLNLG  209 (291)
T ss_pred             HHHHcCCHHHHHHHHHHHHhcCCC---ccchHHHHHHhhhHHHH-hcCHHHHHHHHHHHHhhCccc-----chHHHHHhh
Confidence            44444 889999999998442211   12334455555555666 489999999999999987753     236778889


Q ss_pred             HHHHhccCHHHHHHHHHh
Q psy5288         168 NYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       168 ~~y~~~g~~~~A~~~~~~  185 (186)
                      .++...+++++|+..+.+
T Consensus       210 ~~~~~~~~~~~a~~~~~~  227 (291)
T COG0457         210 LLYLKLGKYEEALEYYEK  227 (291)
T ss_pred             HHHHHcccHHHHHHHHHH
Confidence            999999999999988764

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=97.00  E-value=0.018  Score=40.99  Aligned_cols=89  Identities=20%  Similarity=0.122  Sum_probs=52.5

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHH
Q psy5288          80 GLCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSA  159 (186)
Q Consensus        80 a~~~~~a~~~y~~~~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~  159 (186)
                      ...|.++-..+...++++|++.|+....=+.-..   -+.+....||.+|... ++++.|+..+++=+++++...+   +
T Consensus        11 ~~ly~~a~~~l~~~~Y~~A~~~le~L~~ryP~g~---ya~qAqL~l~yayy~~-~~y~~A~a~~~rFirLhP~hp~---v   83 (142)
T PF13512_consen   11 QELYQEAQEALQKGNYEEAIKQLEALDTRYPFGE---YAEQAQLDLAYAYYKQ-GDYEEAIAAYDRFIRLHPTHPN---V   83 (142)
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCCc---ccHHHHHHHHHHHHHc-cCHHHHHHHHHHHHHhCCCCCC---c
Confidence            3445455555555577777776665433332222   2334566777777775 7788888777777777765432   2


Q ss_pred             HHHHHHHHHHHHhccC
Q psy5288         160 NKCLIKIANYSALTDH  175 (186)
Q Consensus       160 ~~~~~~la~~y~~~g~  175 (186)
                      ..++...|.++..+..
T Consensus        84 dYa~Y~~gL~~~~~~~   99 (142)
T PF13512_consen   84 DYAYYMRGLSYYEQDE   99 (142)
T ss_pred             cHHHHHHHHHHHHHhh
Confidence            3455666666665554

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.99  E-value=0.042  Score=46.89  Aligned_cols=108  Identities=16%  Similarity=0.093  Sum_probs=81.2

Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCCh
Q psy5288          37 DEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRF  115 (186)
Q Consensus        37 ~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~  115 (186)
                      +++.-+....|.++...|+.++|+++|+++.......  +.-...++.+++-++... ++++|.+++.+..+   .+.  
T Consensus       264 P~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~--~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~---~s~--  336 (468)
T PF10300_consen  264 PNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEW--KQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLK---ESK--  336 (468)
T ss_pred             CCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhH--HhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHh---ccc--
Confidence            3344456667889999999999999999988654333  233457788999998876 99999999876543   222  


Q ss_pred             hHHHHHHHHHHHHHHHhcCCH-------HHHHHHHHHHHHHHhc
Q psy5288         116 IMVAKHHENIAEIYEKELEDQ-------EKAIDHYQHAADCYAG  152 (186)
Q Consensus       116 ~~~a~~~~~lg~~y~~~lg~~-------~~Ai~~y~kA~~l~~~  152 (186)
                      +.-+.+..-.|.++.. +|+.       ++|.+++.++-.+..+
T Consensus       337 WSka~Y~Y~~a~c~~~-l~~~~~~~~~~~~a~~l~~~vp~l~~k  379 (468)
T PF10300_consen  337 WSKAFYAYLAAACLLM-LGREEEAKEHKKEAEELFRKVPKLKQK  379 (468)
T ss_pred             cHHHHHHHHHHHHHHh-hccchhhhhhHHHHHHHHHHHHHHHhh
Confidence            3456677778888887 5888       8888888888888765

In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.92  E-value=0.031  Score=47.68  Aligned_cols=102  Identities=18%  Similarity=0.095  Sum_probs=75.7

Q ss_pred             hhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccC
Q psy5288          76 KHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEE  154 (186)
Q Consensus        76 ~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~  154 (186)
                      |.++ ..+...|.++... ++++|++.+++++..-.+  ...-..-++.++|.++..+ .+|++|..++.+..+.   +.
T Consensus       264 P~s~-lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~--~~Ql~~l~~~El~w~~~~~-~~w~~A~~~f~~L~~~---s~  336 (468)
T PF10300_consen  264 PNSA-LFLFFEGRLERLKGNLEEAIESFERAIESQSE--WKQLHHLCYFELAWCHMFQ-HDWEEAAEYFLRLLKE---SK  336 (468)
T ss_pred             CCcH-HHHHHHHHHHHHhcCHHHHHHHHHHhccchhh--HHhHHHHHHHHHHHHHHHH-chHHHHHHHHHHHHhc---cc
Confidence            4444 4444677777655 999999999998843333  3334456899999999995 9999999999998874   22


Q ss_pred             ChHHHHHHHHHHHHHHHhccCH-------HHHHHHHHhC
Q psy5288         155 NKSSANKCLIKIANYSALTDHL-------DKAIKLYEQL  186 (186)
Q Consensus       155 ~~~~~~~~~~~la~~y~~~g~~-------~~A~~~~~~~  186 (186)
                      .  ..+-+..-.|-++..+|+.       ++|.++|.++
T Consensus       337 W--Ska~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~v  373 (468)
T PF10300_consen  337 W--SKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKV  373 (468)
T ss_pred             c--HHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHH
Confidence            2  2234667778889999988       9999998764

In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=96.88  E-value=0.0038  Score=32.68  Aligned_cols=29  Identities=17%  Similarity=0.244  Sum_probs=22.1

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q psy5288          41 DLYVRAGNLFKLGKKWNDGGNAFLQAGTL   69 (186)
Q Consensus        41 ~~y~~ag~~~~~~g~~~~A~~~y~~a~~~   69 (186)
                      +.|...|.+|..+|++++|+++|.+++++
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~   30 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALEL   30 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHH
Confidence            45677788888888888888888888877

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=96.85  E-value=0.011  Score=46.83  Aligned_cols=94  Identities=14%  Similarity=0.049  Sum_probs=74.8

Q ss_pred             HHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHh--cCCHHHHHHHHHHHHHHHhccCCh
Q psy5288          80 GLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKE--LEDQEKAIDHYQHAADCYAGEENK  156 (186)
Q Consensus        80 a~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~--lg~~~~Ai~~y~kA~~l~~~~~~~  156 (186)
                      +.-+.-+|.+|... +++.|...|.+|.++..++-+      ++.-+|.++..+  ...-.++...+.+|+.+.+.+   
T Consensus       156 ~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~n~~------~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~~---  226 (287)
T COG4235         156 AEGWDLLGRAYMALGRASDALLAYRNALRLAGDNPE------ILLGLAEALYYQAGQQMTAKARALLRQALALDPAN---  226 (287)
T ss_pred             chhHHHHHHHHHHhcchhHHHHHHHHHHHhCCCCHH------HHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCcc---
Confidence            35566889999987 999999999999988766643      566677776543  134678889999999986543   


Q ss_pred             HHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         157 SSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       157 ~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                         .....-||..+...|+|.+|+..++.
T Consensus       227 ---iral~lLA~~afe~g~~~~A~~~Wq~  252 (287)
T COG4235         227 ---IRALSLLAFAAFEQGDYAEAAAAWQM  252 (287)
T ss_pred             ---HHHHHHHHHHHHHcccHHHHHHHHHH
Confidence               36778899999999999999998875

>KOG1156|consensus

Probab=96.85  E-value=0.0052  Score=53.23  Aligned_cols=125  Identities=11%  Similarity=0.109  Sum_probs=85.5

Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChh
Q psy5288          38 EAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFI  116 (186)
Q Consensus        38 ~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~  116 (186)
                      +-..+|.++...|. .++|.+.+......++      .....+..+.-.|-..-.+ +.++|..+.+.++...  .++  
T Consensus         6 KE~~lF~~~lk~yE-~kQYkkgLK~~~~iL~------k~~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d--~~S--   74 (700)
T KOG1156|consen    6 KENALFRRALKCYE-TKQYKKGLKLIKQILK------KFPEHGESLAMKGLTLNCLGKKEEAYELVRLGLRND--LKS--   74 (700)
T ss_pred             HHHHHHHHHHHHHH-HHHHHhHHHHHHHHHH------hCCccchhHHhccchhhcccchHHHHHHHHHHhccC--ccc--
Confidence            44556666666664 3456666555555554      1222233333334443333 7789999998887722  222  


Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHH
Q psy5288         117 MVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKL  182 (186)
Q Consensus       117 ~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~  182 (186)
                        ..||.-+|.++.+. .+|++||.+|..|+.+-+++      .++|..++.+-...++|+-..+.
T Consensus        75 --~vCwHv~gl~~R~d-K~Y~eaiKcy~nAl~~~~dN------~qilrDlslLQ~QmRd~~~~~~t  131 (700)
T KOG1156|consen   75 --HVCWHVLGLLQRSD-KKYDEAIKCYRNALKIEKDN------LQILRDLSLLQIQMRDYEGYLET  131 (700)
T ss_pred             --chhHHHHHHHHhhh-hhHHHHHHHHHHHHhcCCCc------HHHHHHHHHHHHHHHhhhhHHHH
Confidence              34999999999996 99999999999999986654      37899999999999999876654

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=96.85  E-value=0.2  Score=44.20  Aligned_cols=145  Identities=17%  Similarity=0.093  Sum_probs=64.0

Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChh
Q psy5288          37 DEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRFI  116 (186)
Q Consensus        37 ~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~~~~~A~~~~~~Al~i~~~~~~~~  116 (186)
                      .+|...+.-+...+....+++.|-.+..|+..+.++.+-.+.--.+..-++.+|.+.++..|+...++.++.+...+...
T Consensus        57 ~ea~~~l~la~iL~~eT~n~~~Ae~~L~k~~~l~~~~~~~d~k~~~~~ll~~i~~~~~~~~a~~~l~~~I~~~~~~~~~~  136 (608)
T PF10345_consen   57 QEARVRLRLASILLEETENLDLAETYLEKAILLCERHRLTDLKFRCQFLLARIYFKTNPKAALKNLDKAIEDSETYGHSA  136 (608)
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHhccCchh
Confidence            44444444444444455555555555555555544422222233333344555555444445555555555554433211


Q ss_pred             HHHHHHHHHH--HHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHH
Q psy5288         117 MVAKHHENIA--EIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYE  184 (186)
Q Consensus       117 ~~a~~~~~lg--~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~  184 (186)
                        .....++-  ..+... +++..|++.++....+....+++.....+..--+.+....+..+.+++..+
T Consensus       137 --w~~~frll~~~l~~~~-~d~~~Al~~L~~~~~~a~~~~d~~~~v~~~l~~~~l~l~~~~~~d~~~~l~  203 (608)
T PF10345_consen  137 --WYYAFRLLKIQLALQH-KDYNAALENLQSIAQLANQRGDPAVFVLASLSEALLHLRRGSPDDVLELLQ  203 (608)
T ss_pred             --HHHHHHHHHHHHHHhc-ccHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHhcCCCchhHHHHHH
Confidence              11111111  111111 355555555555555544444444444444444444444455555544443

It is associated with the cohesin complex and is required in G1 for cohesin binding to chromosomes, but is dispensable in G2 when cohesion has been established. It is often referred to as Ssl3 in Schizosaccharomyces pombe (Fission yeast), and Scc4 in Saccharomyces cerevisiae (Baker's yeast). It complexes with Mis4 [].

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=96.84  E-value=0.28  Score=43.32  Aligned_cols=127  Identities=11%  Similarity=0.030  Sum_probs=96.6

Q ss_pred             HHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcC
Q psy5288          56 WNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELE  134 (186)
Q Consensus        56 ~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg  134 (186)
                      ...|+.|++-+.+ -.++....++...+.-+.-++... +++.|..++.|+..+....+-.+..-.+..-++.+|... +
T Consensus        37 I~~ai~CL~~~~~-~~~l~p~~ea~~~l~la~iL~~eT~n~~~Ae~~L~k~~~l~~~~~~~d~k~~~~~ll~~i~~~~-~  114 (608)
T PF10345_consen   37 IATAIKCLEAVLK-QFKLSPRQEARVRLRLASILLEETENLDLAETYLEKAILLCERHRLTDLKFRCQFLLARIYFKT-N  114 (608)
T ss_pred             HHHHHHHHHHHhc-cCCCCHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHHhc-C
Confidence            4567888877776 556667888888888888888776 899999999999999988666666677777789999984 4


Q ss_pred             CHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         135 DQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       135 ~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                       ...|.....++++.++..+...+.-.+..--...+...+|+..|++.++.
T Consensus       115 -~~~a~~~l~~~I~~~~~~~~~~w~~~frll~~~l~~~~~d~~~Al~~L~~  164 (608)
T PF10345_consen  115 -PKAALKNLDKAIEDSETYGHSAWYYAFRLLKIQLALQHKDYNAALENLQS  164 (608)
T ss_pred             -HHHHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHhcccHHHHHHHHHH
Confidence             44499999999999998666655555554444444444999999888865

It is associated with the cohesin complex and is required in G1 for cohesin binding to chromosomes, but is dispensable in G2 when cohesion has been established. It is often referred to as Ssl3 in Schizosaccharomyces pombe (Fission yeast), and Scc4 in Saccharomyces cerevisiae (Baker's yeast). It complexes with Mis4 [].

>KOG2300|consensus

Probab=96.82  E-value=0.16  Score=43.12  Aligned_cols=134  Identities=12%  Similarity=0.046  Sum_probs=100.4

Q ss_pred             HHHHHHHhcC--CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC--CHHHHHHHHHHHHHHHHHcCCh-hHHH
Q psy5288          45 RAGNLFKLGK--KWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS--NPAEAIKAIERAVEIHTDMGRF-IMVA  119 (186)
Q Consensus        45 ~ag~~~~~~g--~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~--~~~~A~~~~~~Al~i~~~~~~~-~~~a  119 (186)
                      -.++.|+..|  +...++.|.+.....-   -...-.+.+...+|.+...-  +.+.|..++++|..+....+++ +.--
T Consensus        12 GlAe~~rt~~PPkIkk~IkClqA~~~~~---is~~veart~LqLg~lL~~yT~N~elAksHLekA~~i~~~ip~fydvKf   88 (629)
T KOG2300|consen   12 GLAEHFRTSGPPKIKKCIKCLQAIFQFQ---ISFLVEARTHLQLGALLLRYTKNVELAKSHLEKAWLISKSIPSFYDVKF   88 (629)
T ss_pred             HHHHHHhhcCChhHHHHHHHHHHHhccC---ChHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHcccccHHhhhh
Confidence            3355666666  5666666654443321   11223455566777776543  8999999999999999999887 6667


Q ss_pred             HHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHH
Q psy5288         120 KHHENIAEIYEKELE-DQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYE  184 (186)
Q Consensus       120 ~~~~~lg~~y~~~lg-~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~  184 (186)
                      +....++.+|... . ..+.+...+.+|+++.+.  .|.|.-..+..|+++..-..|+.-|++.+.
T Consensus        89 ~a~SlLa~lh~~~-~~s~~~~KalLrkaielsq~--~p~wsckllfQLaql~~idkD~~sA~elLa  151 (629)
T KOG2300|consen   89 QAASLLAHLHHQL-AQSFPPAKALLRKAIELSQS--VPYWSCKLLFQLAQLHIIDKDFPSALELLA  151 (629)
T ss_pred             HHHHHHHHHHHHh-cCCCchHHHHHHHHHHHhcC--CchhhHHHHHHHHHHHhhhccchhHHHHHh
Confidence            7788899998873 5 789999999999999754  567777888999999999999999998753

>KOG0551|consensus

Probab=96.80  E-value=0.014  Score=47.14  Aligned_cols=110  Identities=15%  Similarity=0.145  Sum_probs=87.3

Q ss_pred             CCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHc
Q psy5288          34 NKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDM  112 (186)
Q Consensus        34 ~~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~  112 (186)
                      |..++-++.|..-|+-|..-++|..|.++|.+.+.  ++.+++.--+.+|.|=+-+-..+ ++..|++-+.+|+.+-...
T Consensus        75 ~ep~E~Aen~KeeGN~~fK~Kryk~A~~~Yt~Glk--~kc~D~dlnavLY~NRAAa~~~l~NyRs~l~Dcs~al~~~P~h  152 (390)
T KOG0551|consen   75 GEPHEQAENYKEEGNEYFKEKRYKDAVESYTEGLK--KKCADPDLNAVLYTNRAAAQLYLGNYRSALNDCSAALKLKPTH  152 (390)
T ss_pred             CChHHHHHHHHHHhHHHHHhhhHHHHHHHHHHHHh--hcCCCccHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHhcCcch
Confidence            56778888899999999999999999999999876  45778888888888755554444 8889999888888776554


Q ss_pred             CChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhc
Q psy5288         113 GRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAG  152 (186)
Q Consensus       113 ~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~  152 (186)
                            ..++..-+.++.. |..++.|+.|.+..+.+..+
T Consensus       153 ------~Ka~~R~Akc~~e-Le~~~~a~nw~ee~~~~d~e  185 (390)
T KOG0551|consen  153 ------LKAYIRGAKCLLE-LERFAEAVNWCEEGLQIDDE  185 (390)
T ss_pred             ------hhhhhhhhHHHHH-HHHHHHHHHHHhhhhhhhHH
Confidence                  3366677778777 68889999998888777654

>KOG0624|consensus

Probab=96.78  E-value=0.094  Score=42.83  Aligned_cols=141  Identities=13%  Similarity=0.104  Sum_probs=94.0

Q ss_pred             CCCCHHHHHHHHHHHHH-----------------------------HHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHH
Q psy5288          32 GGNKTDEAIDLYVRAGN-----------------------------LFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLC   82 (186)
Q Consensus        32 ~~~~~~~A~~~y~~ag~-----------------------------~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~   82 (186)
                      ..|.+++|..-|.+..+                             -+...|++..++++..+.+++     .+ ..+..
T Consensus       118 K~Gele~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi-----~~-Wda~l  191 (504)
T KOG0624|consen  118 KQGELEQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEI-----QP-WDASL  191 (504)
T ss_pred             hcccHHHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhc-----Cc-chhHH
Confidence            45788888888877732                             233466777777777777776     23 33445


Q ss_pred             HHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHH
Q psy5288          83 FVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANK  161 (186)
Q Consensus        83 ~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~  161 (186)
                      +.-=++||... ++..|+.-.+++..+..++-.      .+.+++.++.. +|+.+.++.-..+.+.+.++-..-..--.
T Consensus       192 ~~~Rakc~i~~~e~k~AI~Dlk~askLs~DnTe------~~ykis~L~Y~-vgd~~~sL~~iRECLKldpdHK~Cf~~YK  264 (504)
T KOG0624|consen  192 RQARAKCYIAEGEPKKAIHDLKQASKLSQDNTE------GHYKISQLLYT-VGDAENSLKEIRECLKLDPDHKLCFPFYK  264 (504)
T ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHhccccchH------HHHHHHHHHHh-hhhHHHHHHHHHHHHccCcchhhHHHHHH
Confidence            55567888876 899999999999888766643      78888999888 69999999888888888664321000000


Q ss_pred             HHH------HHHHHHHhccCHHHHHHHHHh
Q psy5288         162 CLI------KIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       162 ~~~------~la~~y~~~g~~~~A~~~~~~  185 (186)
                      -+.      .-+.-.+..++|.++++..++
T Consensus       265 klkKv~K~les~e~~ie~~~~t~cle~ge~  294 (504)
T KOG0624|consen  265 KLKKVVKSLESAEQAIEEKHWTECLEAGEK  294 (504)
T ss_pred             HHHHHHHHHHHHHHHHhhhhHHHHHHHHHH
Confidence            111      112234566777777776654

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=96.73  E-value=0.0058  Score=31.78  Aligned_cols=29  Identities=14%  Similarity=0.166  Sum_probs=22.7

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q psy5288          41 DLYVRAGNLFKLGKKWNDGGNAFLQAGTL   69 (186)
Q Consensus        41 ~~y~~ag~~~~~~g~~~~A~~~y~~a~~~   69 (186)
                      +.+...|.+|...|++++|+++|.+++++
T Consensus         2 ~~~~~lg~~~~~~~~~~~A~~~~~~al~l   30 (34)
T PF07719_consen    2 EAWYYLGQAYYQLGNYEEAIEYFEKALEL   30 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            46677788888888888888888888877

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....

>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=96.68  E-value=0.048  Score=43.61  Aligned_cols=79  Identities=16%  Similarity=0.116  Sum_probs=53.5

Q ss_pred             CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhc
Q psy5288          94 NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALT  173 (186)
Q Consensus        94 ~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~  173 (186)
                      .+.+|...|+...+      .++.....++.++.++.. +|+|++|...+++|+...++.      ..++.|++.+..-+
T Consensus       182 ~~~~A~y~f~El~~------~~~~t~~~lng~A~~~l~-~~~~~eAe~~L~~al~~~~~~------~d~LaNliv~~~~~  248 (290)
T PF04733_consen  182 KYQDAFYIFEELSD------KFGSTPKLLNGLAVCHLQ-LGHYEEAEELLEEALEKDPND------PDTLANLIVCSLHL  248 (290)
T ss_dssp             CCCHHHHHHHHHHC------CS--SHHHHHHHHHHHHH-CT-HHHHHHHHHHHCCC-CCH------HHHHHHHHHHHHHT
T ss_pred             hHHHHHHHHHHHHh------ccCCCHHHHHHHHHHHHH-hCCHHHHHHHHHHHHHhccCC------HHHHHHHHHHHHHh
Confidence            46677777766322      223345668889999998 599999999999998654332      46889999999989


Q ss_pred             cCH-HHHHHHHHh
Q psy5288         174 DHL-DKAIKLYEQ  185 (186)
Q Consensus       174 g~~-~~A~~~~~~  185 (186)
                      |+. +.+-+++++
T Consensus       249 gk~~~~~~~~l~q  261 (290)
T PF04733_consen  249 GKPTEAAERYLSQ  261 (290)
T ss_dssp             T-TCHHHHHHHHH
T ss_pred             CCChhHHHHHHHH
Confidence            887 445555544

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the epsilon subunit of the coatomer complex, which is involved in the regulation of intracellular protein trafficking between the endoplasmic reticulum and the Golgi complex []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006890 retrograde vesicle-mediated transport, Golgi to ER, 0030126 COPI vesicle coat; PDB: 3MV2_B 3MV3_F 3MKR_A.

>KOG4162|consensus

Probab=96.67  E-value=0.057  Score=47.85  Aligned_cols=131  Identities=16%  Similarity=0.087  Sum_probs=94.4

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC------------CHHHHHHHHHHHHHH
Q psy5288          41 DLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS------------NPAEAIKAIERAVEI  108 (186)
Q Consensus        41 ~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~------------~~~~A~~~~~~Al~i  108 (186)
                      .+..-+-....+.+..++++++-.++++.+... ..+-...+|.-.|.+|-..            ...++++.+++|+++
T Consensus       395 ~~Lmasklc~e~l~~~eegldYA~kai~~~~~~-~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~  473 (799)
T KOG4162|consen  395 VLLMASKLCIERLKLVEEGLDYAQKAISLLGGQ-RSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQF  473 (799)
T ss_pred             HHHHHHHHHHhchhhhhhHHHHHHHHHHHhhhh-hhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhc
Confidence            334444456778889999999999999976322 2233344555566666432            135677777777665


Q ss_pred             HHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHH
Q psy5288         109 HTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYE  184 (186)
Q Consensus       109 ~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~  184 (186)
                      -..+-      .+.+.++.-|..+ ++.+.|..+..+++.+.+...     ..+|.-+|.++...+++..|+.+.+
T Consensus       474 d~~dp------~~if~lalq~A~~-R~l~sAl~~~~eaL~l~~~~~-----~~~whLLALvlSa~kr~~~Al~vvd  537 (799)
T KOG4162|consen  474 DPTDP------LVIFYLALQYAEQ-RQLTSALDYAREALALNRGDS-----AKAWHLLALVLSAQKRLKEALDVVD  537 (799)
T ss_pred             CCCCc------hHHHHHHHHHHHH-HhHHHHHHHHHHHHHhcCCcc-----HHHHHHHHHHHhhhhhhHHHHHHHH
Confidence            44332      3677788888886 999999999999999866543     4799999999999999999998754

>KOG4648|consensus

Probab=96.65  E-value=0.013  Score=47.59  Aligned_cols=94  Identities=17%  Similarity=0.159  Sum_probs=63.4

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHH
Q psy5288          46 AGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHEN  124 (186)
Q Consensus        46 ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~  124 (186)
                      -|+-|..+|+|++|++||.+++.++     |.... .+.+=+..|.++ .+..|-.-+..|+.+...-      ...|..
T Consensus       103 ~GN~yFKQgKy~EAIDCYs~~ia~~-----P~NpV-~~~NRA~AYlk~K~FA~AE~DC~~AiaLd~~Y------~KAYSR  170 (536)
T KOG4648|consen  103 RGNTYFKQGKYEEAIDCYSTAIAVY-----PHNPV-YHINRALAYLKQKSFAQAEEDCEAAIALDKLY------VKAYSR  170 (536)
T ss_pred             hhhhhhhccchhHHHHHhhhhhccC-----CCCcc-chhhHHHHHHHHHHHHHHHHhHHHHHHhhHHH------HHHHHH
Confidence            3788999999999999999999984     43333 333444555555 6667766666666553221      123444


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHHHhc
Q psy5288         125 IAEIYEKELEDQEKAIDHYQHAADCYAG  152 (186)
Q Consensus       125 lg~~y~~~lg~~~~Ai~~y~kA~~l~~~  152 (186)
                      -|..-.. ||+..+|-+-++.++++-++
T Consensus       171 R~~AR~~-Lg~~~EAKkD~E~vL~LEP~  197 (536)
T KOG4648|consen  171 RMQARES-LGNNMEAKKDCETVLALEPK  197 (536)
T ss_pred             HHHHHHH-HhhHHHHHHhHHHHHhhCcc
Confidence            4555555 68888888888888888654

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.46  E-value=0.15  Score=38.21  Aligned_cols=90  Identities=13%  Similarity=0.074  Sum_probs=64.2

Q ss_pred             HHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHH
Q psy5288          85 DAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCL  163 (186)
Q Consensus        85 ~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~  163 (186)
                      .++..+.+. ++++|...+++++..-.   |...-+.+-.+||.+...+ |.+|+|+..+.       ....+.+.+...
T Consensus        94 ~lAk~~ve~~~~d~A~aqL~~~l~~t~---De~lk~l~~lRLArvq~q~-~k~D~AL~~L~-------t~~~~~w~~~~~  162 (207)
T COG2976          94 ELAKAEVEANNLDKAEAQLKQALAQTK---DENLKALAALRLARVQLQQ-KKADAALKTLD-------TIKEESWAAIVA  162 (207)
T ss_pred             HHHHHHHhhccHHHHHHHHHHHHccch---hHHHHHHHHHHHHHHHHHh-hhHHHHHHHHh-------ccccccHHHHHH
Confidence            444444433 88999998888765443   3344555678889998885 88888776544       333445666677


Q ss_pred             HHHHHHHHhccCHHHHHHHHHh
Q psy5288         164 IKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       164 ~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      .-.|.++...|+-++|+..|++
T Consensus       163 elrGDill~kg~k~~Ar~ay~k  184 (207)
T COG2976         163 ELRGDILLAKGDKQEARAAYEK  184 (207)
T ss_pred             HHhhhHHHHcCchHHHHHHHHH
Confidence            8889999999999999998875

>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins

Probab=96.42  E-value=0.037  Score=40.95  Aligned_cols=53  Identities=25%  Similarity=0.262  Sum_probs=29.8

Q ss_pred             HHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHh---cCC-------HHHHHHHHHHHHHHHhcc
Q psy5288          95 PAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKE---LED-------QEKAIDHYQHAADCYAGE  153 (186)
Q Consensus        95 ~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~---lg~-------~~~Ai~~y~kA~~l~~~~  153 (186)
                      +++|+.-|++|+.|.+..-+      .+..+|++|.++   ..+       +++|..+|++|.+.-+.+
T Consensus        51 iedAisK~eeAL~I~P~~hd------Alw~lGnA~ts~A~l~~d~~~A~~~F~kA~~~FqkAv~~~P~n  113 (186)
T PF06552_consen   51 IEDAISKFEEALKINPNKHD------ALWCLGNAYTSLAFLTPDTAEAEEYFEKATEYFQKAVDEDPNN  113 (186)
T ss_dssp             HHHHHHHHHHHHHH-TT-HH------HHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHH-TT-
T ss_pred             HHHHHHHHHHHHhcCCchHH------HHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHhcCCCc
Confidence            56788888888888765533      566666666552   122       556666666666655543

Most mitochondrial proteins are encoded by the nuclear genome, and are synthesised in the cytosol. TOM20 is a general import receptor that binds to mitochondrial pre-sequences in the early step of protein import into the mitochondria [].; GO: 0045040 protein import into mitochondrial outer membrane, 0005742 mitochondrial outer membrane translocase complex; PDB: 1ZU2_A.

>PF12968 DUF3856: Domain of Unknown Function (DUF3856); InterPro: IPR024552 This domain of unknown function is found in a small group of tetratricopeptide-like proteins, which includes the uncharacterised protein Q8KAL8 from SWISSPROT

Probab=96.38  E-value=0.19  Score=34.85  Aligned_cols=98  Identities=13%  Similarity=0.189  Sum_probs=64.7

Q ss_pred             hcCCHHHHHHHHHHHHHHHHHcCChh------HHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcC-------ChhH
Q psy5288          52 LGKKWNDGGNAFLQAGTLHLKNNNKH------DAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMG-------RFIM  117 (186)
Q Consensus        52 ~~g~~~~A~~~y~~a~~~~~~~~~~~------~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~-------~~~~  117 (186)
                      .-|-|++|+.-+.++.++.+++...+      .-+.++--++..+-.+ ++++++....+|+..+..-|       +.+-
T Consensus        21 ~~g~~~eAa~s~r~AM~~srtiP~eEaFDh~GFDA~chA~Ls~A~~~Lgry~e~L~sA~~aL~YFNRRGEL~qdeGklWI  100 (144)
T PF12968_consen   21 QDGAYEEAAASCRKAMEVSRTIPAEEAFDHDGFDAFCHAGLSGALAGLGRYDECLQSADRALRYFNRRGELHQDEGKLWI  100 (144)
T ss_dssp             HHT-HHHHHHHHHHHHHHHTTS-TTS---HHHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHH--TTSTHHHHHH
T ss_pred             HhhhHHHHHHHHHHHHHHhccCChHhhcccccHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHhhccccccccchhHH
Confidence            35668888888888888888754221      2356666666666666 78777777777777665444       3332


Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhc
Q psy5288         118 VAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAG  152 (186)
Q Consensus       118 ~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~  152 (186)
                      +  +-.+-|..+.. +|..++|+..|..+.+...+
T Consensus       101 a--aVfsra~Al~~-~Gr~~eA~~~fr~agEMiaE  132 (144)
T PF12968_consen  101 A--AVFSRAVALEG-LGRKEEALKEFRMAGEMIAE  132 (144)
T ss_dssp             H--HHHHHHHHHHH-TT-HHHHHHHHHHHHHHHHH
T ss_pred             H--HHHHHHHHHHh-cCChHHHHHHHHHHHHHHHH
Confidence            2  22445666777 69999999999999998654

The structure of Q8KAL8 is known and belongs to the SCOP all alpha class, TPR-like superfamily, CT2138-like family.; PDB: 2HR2_D.

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=96.38  E-value=0.008  Score=30.94  Aligned_cols=31  Identities=29%  Similarity=0.405  Sum_probs=27.9

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhc
Q psy5288         121 HHENIAEIYEKELEDQEKAIDHYQHAADCYAG  152 (186)
Q Consensus       121 ~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~  152 (186)
                      ++..+|.+|.. +|++++|+..|++.++-+|+
T Consensus         2 a~~~~a~~~~~-~g~~~~A~~~~~~~~~~~P~   32 (33)
T PF13174_consen    2 ALYRLARCYYK-LGDYDEAIEYFQRLIKRYPD   32 (33)
T ss_dssp             HHHHHHHHHHH-HCHHHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHH-ccCHHHHHHHHHHHHHHCcC
Confidence            57889999999 49999999999999998875

>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed

Probab=96.35  E-value=0.15  Score=38.50  Aligned_cols=60  Identities=22%  Similarity=0.226  Sum_probs=50.2

Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHH
Q psy5288         117 MVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAI  180 (186)
Q Consensus       117 ~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~  180 (186)
                      .-+.....||..|.+  .+.++|+.+|.++++++....+.  -..++..|+.+|.++|++++|-
T Consensus       139 ~t~elq~aLAtyY~k--rD~~Kt~~ll~~~L~l~~~~~~~--n~eil~sLas~~~~~~~~e~AY  198 (203)
T PF11207_consen  139 ETAELQYALATYYTK--RDPEKTIQLLLRALELSNPDDNF--NPEILKSLASIYQKLKNYEQAY  198 (203)
T ss_pred             CCHHHHHHHHHHHHc--cCHHHHHHHHHHHHHhcCCCCCC--CHHHHHHHHHHHHHhcchhhhh
Confidence            446788889999997  59999999999999998865322  2478899999999999999884

>KOG1070|consensus

Probab=96.34  E-value=0.067  Score=50.47  Aligned_cols=136  Identities=10%  Similarity=0.116  Sum_probs=80.8

Q ss_pred             CCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHc
Q psy5288          34 NKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDM  112 (186)
Q Consensus        34 ~~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~  112 (186)
                      .+|-++.+.|..+..+|...+++++|.++++..++=+      .+.-..|...+...... +-+.|...+++|+......
T Consensus      1524 cqycd~~~V~~~L~~iy~k~ek~~~A~ell~~m~KKF------~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~ 1597 (1710)
T KOG1070|consen 1524 CQYCDAYTVHLKLLGIYEKSEKNDEADELLRLMLKKF------GQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQ 1597 (1710)
T ss_pred             HHhcchHHHHHHHHHHHHHhhcchhHHHHHHHHHHHh------cchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchh
Confidence            3444444444444555555555555555555444422      12334444444444444 3456777888888887663


Q ss_pred             CChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHhC
Q psy5288         113 GRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQL  186 (186)
Q Consensus       113 ~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~~  186 (186)
                      .-    -......+.+--. .|+.+++...|+--+.-+++..      +.|.-....=++.|+.+.+..+|+|+
T Consensus      1598 eH----v~~IskfAqLEFk-~GDaeRGRtlfEgll~ayPKRt------DlW~VYid~eik~~~~~~vR~lfeRv 1660 (1710)
T KOG1070|consen 1598 EH----VEFISKFAQLEFK-YGDAERGRTLFEGLLSAYPKRT------DLWSVYIDMEIKHGDIKYVRDLFERV 1660 (1710)
T ss_pred             hh----HHHHHHHHHHHhh-cCCchhhHHHHHHHHhhCccch------hHHHHHHHHHHccCCHHHHHHHHHHH
Confidence            22    2244555666555 4888888888888888887643      45544444556778888888888774

>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala

Probab=96.31  E-value=0.13  Score=44.50  Aligned_cols=91  Identities=18%  Similarity=0.162  Sum_probs=72.9

Q ss_pred             HHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHH
Q psy5288          81 LCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSA  159 (186)
Q Consensus        81 ~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~  159 (186)
                      -++.-++..|... ++++|+++..+|++.-+.      ....+...|.||... |++++|.++.+.|-.+...+.     
T Consensus       195 w~~~~lAqhyd~~g~~~~Al~~Id~aI~htPt------~~ely~~KarilKh~-G~~~~Aa~~~~~Ar~LD~~DR-----  262 (517)
T PF12569_consen  195 WTLYFLAQHYDYLGDYEKALEYIDKAIEHTPT------LVELYMTKARILKHA-GDLKEAAEAMDEARELDLADR-----  262 (517)
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCC------cHHHHHHHHHHHHHC-CCHHHHHHHHHHHHhCChhhH-----
Confidence            3455678888766 899999999999877544      355899999999995 999999999999999855432     


Q ss_pred             HHHHHHHHHHHHhccCHHHHHHHHH
Q psy5288         160 NKCLIKIANYSALTDHLDKAIKLYE  184 (186)
Q Consensus       160 ~~~~~~la~~y~~~g~~~~A~~~~~  184 (186)
                       .+..+.+.-+.+.|+.++|.+.+.
T Consensus       263 -yiNsK~aKy~LRa~~~e~A~~~~~  286 (517)
T PF12569_consen  263 -YINSKCAKYLLRAGRIEEAEKTAS  286 (517)
T ss_pred             -HHHHHHHHHHHHCCCHHHHHHHHH
Confidence             345677778889999999998764

N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=96.31  E-value=0.015  Score=31.54  Aligned_cols=34  Identities=6%  Similarity=0.084  Sum_probs=25.4

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHc
Q psy5288          40 IDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKN   73 (186)
Q Consensus        40 ~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~   73 (186)
                      +.++...|.+|..+|++++|..++.+++.+.+++
T Consensus         2 a~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~   35 (42)
T PF13374_consen    2 ASALNNLANAYRAQGRYEEALELLEEALEIRERL   35 (42)
T ss_dssp             HHHHHHHHHHHHHCT-HHHHHHHHHHHHHHH---
T ss_pred             HHHHHHHHHHHHhhhhcchhhHHHHHHHHHHHHH
Confidence            4567788888888899999999999888888764

>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A

Probab=96.29  E-value=0.016  Score=30.17  Aligned_cols=30  Identities=17%  Similarity=0.318  Sum_probs=20.9

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHH
Q psy5288          41 DLYVRAGNLFKLGKKWNDGGNAFLQAGTLH   70 (186)
Q Consensus        41 ~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~   70 (186)
                      +.|...|.+|..+|++++|..+|.+++++.
T Consensus         2 ~~~~~lg~~y~~~~~~~~A~~~~~~a~~~~   31 (34)
T PF13181_consen    2 EAYYNLGKIYEQLGDYEEALEYFEKALELN   31 (34)
T ss_dssp             HHHHHHHHHHHHTTSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            456666777777777777777777777664

...

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=96.28  E-value=0.002  Score=34.19  Aligned_cols=34  Identities=29%  Similarity=0.508  Sum_probs=27.7

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHH
Q psy5288         101 AIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAID  141 (186)
Q Consensus       101 ~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~  141 (186)
                      +|++|+++.+..      +..+.++|.+|... |++++|++
T Consensus         1 ~y~kAie~~P~n------~~a~~nla~~~~~~-g~~~~A~~   34 (34)
T PF13431_consen    1 CYKKAIELNPNN------AEAYNNLANLYLNQ-GDYEEAIA   34 (34)
T ss_pred             ChHHHHHHCCCC------HHHHHHHHHHHHHC-cCHHhhcC
Confidence            477888887666      34899999999995 99999973

>PRK11906 transcriptional regulator; Provisional

Probab=96.27  E-value=0.084  Score=44.52  Aligned_cols=130  Identities=10%  Similarity=0.027  Sum_probs=90.8

Q ss_pred             HHHH--HHHHHHHHHHHh--cCCHHHHHHHHHHHH---HHHHHcCChhHHHHHHHHHHHHHhcC----------CHHHHH
Q psy5288          37 DEAI--DLYVRAGNLFKL--GKKWNDGGNAFLQAG---TLHLKNNNKHDAGLCFVDAANCYKKS----------NPAEAI   99 (186)
Q Consensus        37 ~~A~--~~y~~ag~~~~~--~g~~~~A~~~y~~a~---~~~~~~~~~~~aa~~~~~a~~~y~~~----------~~~~A~   99 (186)
                      ++|.  ++|.++-..+..  ......|..+|.+|.   .+     +|.. +.+|.-++.|+...          +..+|+
T Consensus       251 ~~a~~~d~ylrg~~~~~~~t~~~~~~Al~lf~ra~~~~~l-----dp~~-a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~  324 (458)
T PRK11906        251 KNHYLSDEMLAGKKELYDFTPESIYRAMTIFDRLQNKSDI-----QTLK-TECYCLLAECHMSLALHGKSELELAAQKAL  324 (458)
T ss_pred             ccchhhHHHHHHHHHhhccCHHHHHHHHHHHHHHhhcccC-----Cccc-HHHHHHHHHHHHHHHHhcCCCchHHHHHHH
Confidence            4566  667766544321  123566777788877   43     4433 33455566565432          345777


Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHH
Q psy5288         100 KAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKA  179 (186)
Q Consensus       100 ~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A  179 (186)
                      +..++|+++-...      +.++..+|.+.... ++++.|+.+|++|..+.++.      ...+.-.|.+..-.|+.++|
T Consensus       325 ~~A~rAveld~~D------a~a~~~~g~~~~~~-~~~~~a~~~f~rA~~L~Pn~------A~~~~~~~~~~~~~G~~~~a  391 (458)
T PRK11906        325 ELLDYVSDITTVD------GKILAIMGLITGLS-GQAKVSHILFEQAKIHSTDI------ASLYYYRALVHFHNEKIEEA  391 (458)
T ss_pred             HHHHHHHhcCCCC------HHHHHHHHHHHHhh-cchhhHHHHHHHHhhcCCcc------HHHHHHHHHHHHHcCCHHHH
Confidence            8888887765544      45788899988874 89999999999999997754      46777788888889999999


Q ss_pred             HHHHHh
Q psy5288         180 IKLYEQ  185 (186)
Q Consensus       180 ~~~~~~  185 (186)
                      ++..++
T Consensus       392 ~~~i~~  397 (458)
T PRK11906        392 RICIDK  397 (458)
T ss_pred             HHHHHH
Confidence            998876

>KOG2376|consensus

Probab=96.26  E-value=0.11  Score=45.02  Aligned_cols=116  Identities=11%  Similarity=0.122  Sum_probs=66.3

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHH
Q psy5288          48 NLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAE  127 (186)
Q Consensus        48 ~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~  127 (186)
                      +.+-..|+|++|...-.+.+.+.     |......+.+..-+-....|++|+       .+.+..+-........+.-+-
T Consensus        20 n~~~~~~e~e~a~k~~~Kil~~~-----pdd~~a~~cKvValIq~~ky~~AL-------k~ikk~~~~~~~~~~~fEKAY   87 (652)
T KOG2376|consen   20 NRHGKNGEYEEAVKTANKILSIV-----PDDEDAIRCKVVALIQLDKYEDAL-------KLIKKNGALLVINSFFFEKAY   87 (652)
T ss_pred             HHhccchHHHHHHHHHHHHHhcC-----CCcHhhHhhhHhhhhhhhHHHHHH-------HHHHhcchhhhcchhhHHHHH
Confidence            45666778888888877777763     333333333322221111444444       333333322222223366677


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         128 IYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       128 ~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      |... +++.|+|+..++    ......     .....--|.++.++|+|++|.++|+.
T Consensus        88 c~Yr-lnk~Dealk~~~----~~~~~~-----~~ll~L~AQvlYrl~~ydealdiY~~  135 (652)
T KOG2376|consen   88 CEYR-LNKLDEALKTLK----GLDRLD-----DKLLELRAQVLYRLERYDEALDIYQH  135 (652)
T ss_pred             HHHH-cccHHHHHHHHh----cccccc-----hHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            7666 588888888887    122111     13445557788888889998888875

>COG0790 FOG: TPR repeat, SEL1 subfamily [General function prediction only]

Probab=96.26  E-value=0.42  Score=37.74  Aligned_cols=104  Identities=21%  Similarity=0.269  Sum_probs=71.9

Q ss_pred             CCCHHHHHHHHHHHH------------HHHHh----cCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC---
Q psy5288          33 GNKTDEAIDLYVRAG------------NLFKL----GKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS---   93 (186)
Q Consensus        33 ~~~~~~A~~~y~~ag------------~~~~~----~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~---   93 (186)
                      ..++.+|+++|..++            .+|..    ..++.+|...|.+|++.    |++.. ......++.+|...   
T Consensus        90 ~~~~~~A~~~~~~~a~~g~~~a~~~lg~~~~~G~gv~~d~~~A~~~~~~Aa~~----g~~~a-~~~~~~l~~~~~~g~~~  164 (292)
T COG0790          90 SRDKTKAADWYRCAAADGLAEALFNLGLMYANGRGVPLDLVKALKYYEKAAKL----GNVEA-ALAMYRLGLAYLSGLQA  164 (292)
T ss_pred             cccHHHHHHHHHHHhhcccHHHHHhHHHHHhcCCCcccCHHHHHHHHHHHHHc----CChhH-HHHHHHHHHHHHcChhh
Confidence            457888888888773            34443    33888999999888885    34433 33445777777653   


Q ss_pred             -----CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhc---CCHHHHHHHHHHHHHH
Q psy5288          94 -----NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKEL---EDQEKAIDHYQHAADC  149 (186)
Q Consensus        94 -----~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~l---g~~~~Ai~~y~kA~~l  149 (186)
                           +...|+..|.+|....        .......+|.+|..-+   .++.+|+.+|.+|.+.
T Consensus       165 ~~~~~~~~~A~~~~~~aa~~~--------~~~a~~~lg~~y~~G~Gv~~d~~~A~~wy~~Aa~~  220 (292)
T COG0790         165 LAVAYDDKKALYLYRKAAELG--------NPDAQLLLGRMYEKGLGVPRDLKKAFRWYKKAAEQ  220 (292)
T ss_pred             hcccHHHHhHHHHHHHHHHhc--------CHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHC
Confidence                 2347888888876555        3447788898887521   3789999999999885

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=96.15  E-value=0.31  Score=41.59  Aligned_cols=121  Identities=14%  Similarity=0.110  Sum_probs=83.1

Q ss_pred             hcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHc-C---------Ch-----
Q psy5288          52 LGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDM-G---------RF-----  115 (186)
Q Consensus        52 ~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~-~---------~~-----  115 (186)
                      +..++..-+..-.+|+++.      ...+.+|.-+++  ... -..+|.++|+||++..+.. +         ..     
T Consensus       180 RERnp~aRIkaA~eALei~------pdCAdAYILLAE--EeA~Ti~Eae~l~rqAvkAgE~~lg~s~~~~~~g~~~e~~~  251 (539)
T PF04184_consen  180 RERNPQARIKAAKEALEIN------PDCADAYILLAE--EEASTIVEAEELLRQAVKAGEASLGKSQFLQHHGHFWEAWH  251 (539)
T ss_pred             hcCCHHHHHHHHHHHHHhh------hhhhHHHhhccc--ccccCHHHHHHHHHHHHHHHHHhhchhhhhhcccchhhhhh
Confidence            4567888888888888883      333444532221  011 3578888888888764322 1         11     


Q ss_pred             ----hHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         116 ----IMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       116 ----~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                          .....+-..+|.+... +|+.++||+.+...+..++..++    ..+..+|.+++..++.|.++-.++.+
T Consensus       252 ~Rdt~~~~y~KrRLAmCark-lGr~~EAIk~~rdLlke~p~~~~----l~IrenLie~LLelq~Yad~q~lL~k  320 (539)
T PF04184_consen  252 RRDTNVLVYAKRRLAMCARK-LGRLREAIKMFRDLLKEFPNLDN----LNIRENLIEALLELQAYADVQALLAK  320 (539)
T ss_pred             ccccchhhhhHHHHHHHHHH-hCChHHHHHHHHHHHhhCCccch----hhHHHHHHHHHHhcCCHHHHHHHHHH
Confidence                1112344779999998 69999999999999988764332    25788999999999999999887754

The molecular function of this protein is uncertain.

>PF04190 DUF410: Protein of unknown function (DUF410) ; InterPro: IPR007317 This is a family of conserved eukaryotic proteins with undetermined function

Probab=96.07  E-value=0.41  Score=37.67  Aligned_cols=111  Identities=13%  Similarity=0.069  Sum_probs=67.5

Q ss_pred             hcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHH
Q psy5288          52 LGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEK  131 (186)
Q Consensus        52 ~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~  131 (186)
                      .+++|++|++.....+.++-+.+....++..-.-+.++|.+.......+...+                    +..++..
T Consensus         2 ~~kky~eAidLL~~Ga~~ll~~~Q~~sg~DL~~lliev~~~~~~~~~~~~~~r--------------------l~~l~~~   61 (260)
T PF04190_consen    2 KQKKYDEAIDLLYSGALILLKHGQYGSGADLALLLIEVYEKSEDPVDEESIAR--------------------LIELISL   61 (260)
T ss_dssp             HTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT---SHHHHHH--------------------HHHHHHH
T ss_pred             ccccHHHHHHHHHHHHHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHH--------------------HHHHHHh
Confidence            46789999999999999988888877777666666677766421111112223                    3333333


Q ss_pred             hcCCH-HHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHH
Q psy5288         132 ELEDQ-EKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLY  183 (186)
Q Consensus       132 ~lg~~-~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~  183 (186)
                       ++.- +.-..+..+|+.+....+.+..-......+|..|.+.|++.+|..+|
T Consensus        62 -~~~~~p~r~~fi~~ai~WS~~~~~~~Gdp~LH~~~a~~~~~e~~~~~A~~Hf  113 (260)
T PF04190_consen   62 -FPPEEPERKKFIKAAIKWSKFGSYKFGDPELHHLLAEKLWKEGNYYEAERHF  113 (260)
T ss_dssp             -S-TT-TTHHHHHHHHHHHHHTSS-TT--HHHHHHHHHHHHHTT-HHHHHHHH
T ss_pred             -CCCCcchHHHHHHHHHHHHccCCCCCCCHHHHHHHHHHHHhhccHHHHHHHH
Confidence             1211 12345556666666334444555678899999999999999999887

; PDB: 3LKU_E 2WPV_G.

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=96.07  E-value=0.0058  Score=31.49  Aligned_cols=25  Identities=24%  Similarity=0.405  Sum_probs=22.6

Q ss_pred             HHHHHHHHHHhccCHHHHHHHHHhC
Q psy5288         162 CLIKIANYSALTDHLDKAIKLYEQL  186 (186)
Q Consensus       162 ~~~~la~~y~~~g~~~~A~~~~~~~  186 (186)
                      ++.++|.+|.+.|++++|+++|+++
T Consensus         2 a~~~~a~~~~~~g~~~~A~~~~~~~   26 (33)
T PF13174_consen    2 ALYRLARCYYKLGDYDEAIEYFQRL   26 (33)
T ss_dssp             HHHHHHHHHHHHCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHH
Confidence            5789999999999999999999864

>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=95.94  E-value=0.036  Score=44.31  Aligned_cols=118  Identities=15%  Similarity=0.136  Sum_probs=73.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHH
Q psy5288          43 YVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKH  121 (186)
Q Consensus        43 y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~  121 (186)
                      ..-++.++...|++++|++++.+.       ++.    .+..-...+|... +++.|.+.+++.-    +.++-.    +
T Consensus       105 ~~~~A~i~~~~~~~~~AL~~l~~~-------~~l----E~~al~Vqi~L~~~R~dlA~k~l~~~~----~~~eD~----~  165 (290)
T PF04733_consen  105 QLLAATILFHEGDYEEALKLLHKG-------GSL----ELLALAVQILLKMNRPDLAEKELKNMQ----QIDEDS----I  165 (290)
T ss_dssp             HHHHHHHHCCCCHHHHHHCCCTTT-------TCH----HHHHHHHHHHHHTT-HHHHHHHHHHHH----CCSCCH----H
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHcc-------Ccc----cHHHHHHHHHHHcCCHHHHHHHHHHHH----hcCCcH----H
Confidence            344456677778888777766442       222    3333456677776 8898988776643    222221    3


Q ss_pred             HHHHHHHHHH--h-cCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         122 HENIAEIYEK--E-LEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       122 ~~~lg~~y~~--~-lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      +..++..+..  . .+++.+|.-.|++..+-++..      ...++.+|.+...+|+|++|.+.+++
T Consensus       166 l~qLa~awv~l~~g~e~~~~A~y~f~El~~~~~~t------~~~lng~A~~~l~~~~~~eAe~~L~~  226 (290)
T PF04733_consen  166 LTQLAEAWVNLATGGEKYQDAFYIFEELSDKFGST------PKLLNGLAVCHLQLGHYEEAEELLEE  226 (290)
T ss_dssp             HHHHHHHHHHHHHTTTCCCHHHHHHHHHHCCS--S------HHHHHHHHHHHHHCT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCchhHHHHHHHHHHHHhccCCC------HHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            4444443332  1 146999999999976654321      36778899999999999999998864

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the epsilon subunit of the coatomer complex, which is involved in the regulation of intracellular protein trafficking between the endoplasmic reticulum and the Golgi complex []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006890 retrograde vesicle-mediated transport, Golgi to ER, 0030126 COPI vesicle coat; PDB: 3MV2_B 3MV3_F 3MKR_A.

>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]

Probab=95.90  E-value=0.03  Score=45.99  Aligned_cols=91  Identities=19%  Similarity=0.195  Sum_probs=70.7

Q ss_pred             hHHhHHHHHHHHHHhhccCCCCccccccCCCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHH
Q psy5288           4 NEQKARQLVAEAEKKISSSSKGFFSQFTGGNKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCF   83 (186)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~   83 (186)
                      ++.++.++++.+++-++   ..        |+   --..+.-.|..+.+.+.+.+|-++++.|++.       ...+..+
T Consensus       306 ~~~d~~~l~k~~e~~l~---~h--------~~---~p~L~~tLG~L~~k~~~w~kA~~~leaAl~~-------~~s~~~~  364 (400)
T COG3071         306 RPGDPEPLIKAAEKWLK---QH--------PE---DPLLLSTLGRLALKNKLWGKASEALEAALKL-------RPSASDY  364 (400)
T ss_pred             CCCCchHHHHHHHHHHH---hC--------CC---ChhHHHHHHHHHHHhhHHHHHHHHHHHHHhc-------CCChhhH
Confidence            35677888888888888   11        12   1178888899999999999999999987775       3345667


Q ss_pred             HHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCCh
Q psy5288          84 VDAANCYKKS-NPAEAIKAIERAVEIHTDMGRF  115 (186)
Q Consensus        84 ~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~  115 (186)
                      ..+|..|.+. ++.+|-.+++.++.+....+.+
T Consensus       365 ~~la~~~~~~g~~~~A~~~r~e~L~~~~~~~~~  397 (400)
T COG3071         365 AELADALDQLGEPEEAEQVRREALLLTRQPNLP  397 (400)
T ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHHhcCCCCc
Confidence            7899999887 9999999999999766655443

>KOG1839|consensus

Probab=95.84  E-value=0.12  Score=48.31  Aligned_cols=146  Identities=13%  Similarity=0.059  Sum_probs=110.9

Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHc-C-ChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHc-
Q psy5288          37 DEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKN-N-NKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDM-  112 (186)
Q Consensus        37 ~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~-~-~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~-  112 (186)
                      .+...+|...+.++...|++++|+..-.++.-+..+. | +.......|.+++...... ....|+..+.+++.+.... 
T Consensus       970 ~~~~~~~~~La~l~~~~~d~~~Ai~~~~ka~ii~eR~~g~ds~~t~~~y~nlal~~f~~~~~~~al~~~~ra~~l~~Ls~ 1049 (1236)
T KOG1839|consen  970 PEVASKYRSLAKLSNRLGDNQEAIAQQRKACIISERVLGKDSPNTKLAYGNLALYEFAVKNLSGALKSLNRALKLKLLSS 1049 (1236)
T ss_pred             hhHHHHHHHHHHHHhhhcchHHHHHhcccceeeechhccCCCHHHHHHhhHHHHHHHhccCccchhhhHHHHHHhhcccc
Confidence            4555666677778888999999998888888877652 2 4555666777777555554 6678888888888775332 


Q ss_pred             C-ChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccC--ChHHHHHHHHHHHHHHHhccCHHHHHHHH
Q psy5288         113 G-RFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEE--NKSSANKCLIKIANYSALTDHLDKAIKLY  183 (186)
Q Consensus       113 ~-~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~--~~~~~~~~~~~la~~y~~~g~~~~A~~~~  183 (186)
                      | +++..+.+..+++.++.. +++++.|+.+.+.|..+..+..  .+..-+.++..+++++...+++..|....
T Consensus      1050 ge~hP~~a~~~~nle~l~~~-v~e~d~al~~le~A~a~~~~v~g~~~l~~~~~~~~~a~l~~s~~dfr~al~~e 1122 (1236)
T KOG1839|consen 1050 GEDHPPTALSFINLELLLLG-VEEADTALRYLESALAKNKKVLGPKELETALSYHALARLFESMKDFRNALEHE 1122 (1236)
T ss_pred             CCCCCchhhhhhHHHHHHhh-HHHHHHHHHHHHHHHHHHhhhcCccchhhhhHHHHHHHHHhhhHHHHHHHHHH
Confidence            2 578889999999999999 5999999999999999766532  23334468888999999999998887764

>KOG2047|consensus

Probab=95.80  E-value=0.55  Score=41.39  Aligned_cols=86  Identities=20%  Similarity=0.229  Sum_probs=60.0

Q ss_pred             HHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH-HhccCChHHHHHHHHHHHHHHHhcc
Q psy5288          96 AEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADC-YAGEENKSSANKCLIKIANYSALTD  174 (186)
Q Consensus        96 ~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l-~~~~~~~~~~~~~~~~la~~y~~~g  174 (186)
                      .+-+..|..|+.-..-..-+......+...|..|+.. |+.+.|...|++|... |+..+   ....+|.+.|+.=.+..
T Consensus       364 ~~~i~tyteAv~~vdP~ka~Gs~~~Lw~~faklYe~~-~~l~~aRvifeka~~V~y~~v~---dLa~vw~~waemElrh~  439 (835)
T KOG2047|consen  364 AEQINTYTEAVKTVDPKKAVGSPGTLWVEFAKLYENN-GDLDDARVIFEKATKVPYKTVE---DLAEVWCAWAEMELRHE  439 (835)
T ss_pred             HHHHHHHHHHHHccCcccCCCChhhHHHHHHHHHHhc-CcHHHHHHHHHHhhcCCccchH---HHHHHHHHHHHHHHhhh
Confidence            3445555555443211111233456788999999996 9999999999999987 33322   23578899998888899


Q ss_pred             CHHHHHHHHHh
Q psy5288         175 HLDKAIKLYEQ  185 (186)
Q Consensus       175 ~~~~A~~~~~~  185 (186)
                      +++.|+++.++
T Consensus       440 ~~~~Al~lm~~  450 (835)
T KOG2047|consen  440 NFEAALKLMRR  450 (835)
T ss_pred             hHHHHHHHHHh
Confidence            99999988765

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=95.76  E-value=0.13  Score=40.82  Aligned_cols=127  Identities=16%  Similarity=0.176  Sum_probs=82.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhc-C-CHHHHHHHHHHHHHHHHHcCChhHHHH
Q psy5288          43 YVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKK-S-NPAEAIKAIERAVEIHTDMGRFIMVAK  120 (186)
Q Consensus        43 y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~-~-~~~~A~~~~~~Al~i~~~~~~~~~~a~  120 (186)
                      |.+..+..++.+..+.|...|.+|.+      .....-..|...|.+-.. . +...|...|+.+++.+....+      
T Consensus         4 ~i~~m~~~~r~~g~~~aR~vF~~a~~------~~~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~f~~~~~------   71 (280)
T PF05843_consen    4 WIQYMRFMRRTEGIEAARKVFKRARK------DKRCTYHVYVAYALMEYYCNKDPKRARKIFERGLKKFPSDPD------   71 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHC------CCCS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHHHTT-HH------
T ss_pred             HHHHHHHHHHhCChHHHHHHHHHHHc------CCCCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCCCCHH------
Confidence            44455566666678888888888862      233334557677777333 3 777799999999988766544      


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         121 HHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       121 ~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ++..-...+.. +++.+.|...|++++.......   .....|......=.+.|+.+...++.+|
T Consensus        72 ~~~~Y~~~l~~-~~d~~~aR~lfer~i~~l~~~~---~~~~iw~~~i~fE~~~Gdl~~v~~v~~R  132 (280)
T PF05843_consen   72 FWLEYLDFLIK-LNDINNARALFERAISSLPKEK---QSKKIWKKFIEFESKYGDLESVRKVEKR  132 (280)
T ss_dssp             HHHHHHHHHHH-TT-HHHHHHHHHHHCCTSSCHH---HCHHHHHHHHHHHHHHS-HHHHHHHHHH
T ss_pred             HHHHHHHHHHH-hCcHHHHHHHHHHHHHhcCchh---HHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            33334445555 5899999999999998744321   1235777777777778888888777654

The Drosophila melanogaster suppressor of forked [Su(f)] protein shares homology with the Saccharomyces cerevisiae RNA14 protein and the 77 kDa subunit of Homo sapiens cleavage stimulation factor, which are proteins involved in mRNA 3' end formation. This suggests a role for Su(f) in mRNA 3' end formation in Drosophila. The su(f) gene produces three transcripts; two of them are polyadenylated at the end of the transcription unit, and one is a truncated transcript, polyadenylated in intron 4. It is thought that su(f) plays a role in the regulation of poly(A) site utilisation and the GU-rich sequence is important for this regulation to occur [].; GO: 0006397 mRNA processing, 0005634 nucleus; PDB: 2L9B_B 2OND_B 2OOE_A 4E85_B 4EBA_C 4E6H_A 2UY1_B.

>KOG0545|consensus

Probab=95.72  E-value=0.17  Score=39.55  Aligned_cols=109  Identities=11%  Similarity=0.067  Sum_probs=81.3

Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHc------CChhH------HHHHHHHHHHHHhcC-CHHHHHHHHH
Q psy5288          37 DEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKN------NNKHD------AGLCFVDAANCYKKS-NPAEAIKAIE  103 (186)
Q Consensus        37 ~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~------~~~~~------aa~~~~~a~~~y~~~-~~~~A~~~~~  103 (186)
                      -.|.....+-|+-+...|+|.+|..+|..|+-+.+.+      |+++.      ....+.|..+|+... ++-+++++..
T Consensus       175 mkav~~l~q~GN~lfk~~~ykEA~~~YreAi~~l~~L~lkEkP~e~eW~eLdk~~tpLllNy~QC~L~~~e~yevleh~s  254 (329)
T KOG0545|consen  175 MKAVPVLHQEGNRLFKLGRYKEASSKYREAIICLRNLQLKEKPGEPEWLELDKMITPLLLNYCQCLLKKEEYYEVLEHCS  254 (329)
T ss_pred             hhhhHHHHHhhhhhhhhccHHHHHHHHHHHHHHHHHHHhccCCCChHHHHHHHhhhHHHHhHHHHHhhHHHHHHHHHHHH
Confidence            4788889999999999999999999999999988753      33332      245667778888765 7777777765


Q ss_pred             HHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhc
Q psy5288         104 RAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAG  152 (186)
Q Consensus       104 ~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~  152 (186)
                      ..+..+..+      -..++.=|..... .=+.++|-.-+.+++++.+.
T Consensus       255 eiL~~~~~n------vKA~frRakAhaa-~Wn~~eA~~D~~~vL~ldps  296 (329)
T KOG0545|consen  255 EILRHHPGN------VKAYFRRAKAHAA-VWNEAEAKADLQKVLELDPS  296 (329)
T ss_pred             HHHhcCCch------HHHHHHHHHHHHh-hcCHHHHHHHHHHHHhcChh
Confidence            554433322      3367777777776 36889999999999998654

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=95.71  E-value=0.099  Score=37.24  Aligned_cols=63  Identities=17%  Similarity=0.171  Sum_probs=50.0

Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         119 AKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       119 a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      +..+..-|.-.... |+|++|++.|+....-++-..   ....+-..|+.+|.+.|+|++|+..+++
T Consensus        10 ~~~ly~~a~~~l~~-~~Y~~A~~~le~L~~ryP~g~---ya~qAqL~l~yayy~~~~y~~A~a~~~r   72 (142)
T PF13512_consen   10 PQELYQEAQEALQK-GNYEEAIKQLEALDTRYPFGE---YAEQAQLDLAYAYYKQGDYEEAIAAYDR   72 (142)
T ss_pred             HHHHHHHHHHHHHh-CCHHHHHHHHHHHHhcCCCCc---ccHHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            33455556666665 999999999999988887543   2346779999999999999999999875

>smart00028 TPR Tetratricopeptide repeats

Probab=95.71  E-value=0.017  Score=28.38  Aligned_cols=31  Identities=23%  Similarity=0.326  Sum_probs=26.8

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHh
Q psy5288         120 KHHENIAEIYEKELEDQEKAIDHYQHAADCYA  151 (186)
Q Consensus       120 ~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~  151 (186)
                      .++..+|.++... +++++|+.+|++++.+.+
T Consensus         2 ~~~~~~a~~~~~~-~~~~~a~~~~~~~~~~~~   32 (34)
T smart00028        2 EALYNLGNAYLKL-GDYDEALEYYEKALELDP   32 (34)
T ss_pred             hHHHHHHHHHHHH-hhHHHHHHHHHHHHccCC
Confidence            3678899999995 999999999999998754

Repeats present in 4 or more copies in proteins. Contain a minimum of 34 amino acids each and self-associate via a "knobs and holes" mechanism.

>KOG2610|consensus

Probab=95.69  E-value=0.14  Score=41.68  Aligned_cols=143  Identities=15%  Similarity=0.083  Sum_probs=93.8

Q ss_pred             ccCCCCHHHHHHHHHHHHH--------------HHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHH--HHHHHhcC
Q psy5288          30 FTGGNKTDEAIDLYVRAGN--------------LFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVD--AANCYKKS   93 (186)
Q Consensus        30 ~~~~~~~~~A~~~y~~ag~--------------~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~--a~~~y~~~   93 (186)
                      ++++|++.+|+..+.++..              .+...|+...-...+.+.+.-.    ++...-..|.+  .+-...+.
T Consensus       113 ~~~~g~~h~a~~~wdklL~d~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~w----n~dlp~~sYv~GmyaFgL~E~  188 (491)
T KOG2610|consen  113 LWGRGKHHEAAIEWDKLLDDYPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKW----NADLPCYSYVHGMYAFGLEEC  188 (491)
T ss_pred             hhccccccHHHHHHHHHHHhCchhhhhhhhhhhHHHhccchhhhhhHHHHhcccc----CCCCcHHHHHHHHHHhhHHHh
Confidence            4577888888888888754              3555666666666555554422    11111111211  12222333


Q ss_pred             -CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHh
Q psy5288          94 -NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSAL  172 (186)
Q Consensus        94 -~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~  172 (186)
                       -+++|-+..++|++|.+..-+      ....++-+++-. |+..++.++-++.-+..+....  .+..-|.+.|..++.
T Consensus       189 g~y~dAEk~A~ralqiN~~D~W------a~Ha~aHVlem~-~r~Keg~eFM~~ted~Wr~s~m--lasHNyWH~Al~~iE  259 (491)
T KOG2610|consen  189 GIYDDAEKQADRALQINRFDCW------ASHAKAHVLEMN-GRHKEGKEFMYKTEDDWRQSWM--LASHNYWHTALFHIE  259 (491)
T ss_pred             ccchhHHHHHHhhccCCCcchH------HHHHHHHHHHhc-chhhhHHHHHHhcccchhhhhH--HHhhhhHHHHHhhhc
Confidence             578999999999988765544      334467777876 8999999988877776663322  233567788999999


Q ss_pred             ccCHHHHHHHHHh
Q psy5288         173 TDHLDKAIKLYEQ  185 (186)
Q Consensus       173 ~g~~~~A~~~~~~  185 (186)
                      .+.|++|+++|++
T Consensus       260 ~aeye~aleIyD~  272 (491)
T KOG2610|consen  260 GAEYEKALEIYDR  272 (491)
T ss_pred             ccchhHHHHHHHH
Confidence            9999999999975

>KOG3785|consensus

Probab=95.68  E-value=0.17  Score=41.62  Aligned_cols=126  Identities=14%  Similarity=0.092  Sum_probs=78.3

Q ss_pred             HHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHH
Q psy5288          49 LFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAE  127 (186)
Q Consensus        49 ~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~  127 (186)
                      -|....+|..|+...+-...+    + .++....-.=+|.||..+ ++++|+..|.-+.+    ..+.+  +...++++-
T Consensus        31 dfls~rDytGAislLefk~~~----~-~EEE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~----~~~~~--~el~vnLAc   99 (557)
T KOG3785|consen   31 DFLSNRDYTGAISLLEFKLNL----D-REEEDSLQLWIAHCYFHLGDYEEALNVYTFLMN----KDDAP--AELGVNLAC   99 (557)
T ss_pred             HHHhcccchhHHHHHHHhhcc----c-hhhhHHHHHHHHHHHHhhccHHHHHHHHHHHhc----cCCCC--cccchhHHH
Confidence            355677899998877655533    3 333334444578888877 99999998876543    22222  447788898


Q ss_pred             HHHHhcCCHHHHHHHHHHHHH----------HHhccCChHHHHH----------HHHHHHHHHHhccCHHHHHHHHHhC
Q psy5288         128 IYEKELEDQEKAIDHYQHAAD----------CYAGEENKSSANK----------CLIKIANYSALTDHLDKAIKLYEQL  186 (186)
Q Consensus       128 ~y~~~lg~~~~Ai~~y~kA~~----------l~~~~~~~~~~~~----------~~~~la~~y~~~g~~~~A~~~~~~~  186 (186)
                      ++-. ||.|.+|-..-.+|-+          +..+.++......          --..||.+..-.-.|++||++|.+|
T Consensus       100 c~Fy-Lg~Y~eA~~~~~ka~k~pL~~RLlfhlahklndEk~~~~fh~~LqD~~EdqLSLAsvhYmR~HYQeAIdvYkrv  177 (557)
T KOG3785|consen  100 CKFY-LGQYIEAKSIAEKAPKTPLCIRLLFHLAHKLNDEKRILTFHSSLQDTLEDQLSLASVHYMRMHYQEAIDVYKRV  177 (557)
T ss_pred             HHHH-HHHHHHHHHHHhhCCCChHHHHHHHHHHHHhCcHHHHHHHHHHHhhhHHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence            8888 6999998776544321          1111111111111          2244555556667899999999875

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=95.64  E-value=0.45  Score=35.77  Aligned_cols=119  Identities=16%  Similarity=0.102  Sum_probs=78.9

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHH
Q psy5288          47 GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENI  125 (186)
Q Consensus        47 g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~l  125 (186)
                      ++..-..|++.+|...|.+++.=     -.-.-...+..+++.-... ++..|..-+++..+....-..    +....-+
T Consensus        96 a~al~elGr~~EA~~hy~qalsG-----~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~----pd~~Ll~  166 (251)
T COG4700          96 ANALAELGRYHEAVPHYQQALSG-----IFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRS----PDGHLLF  166 (251)
T ss_pred             HHHHHHhhhhhhhHHHHHHHhcc-----ccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCC----CCchHHH
Confidence            66777889999999999888762     2222223333444443333 777777776665555433333    3356678


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHH
Q psy5288         126 AEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKL  182 (186)
Q Consensus       126 g~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~  182 (186)
                      |+.|..+ |.+.+|-..|+.++..++.-       .....-++.+.++|+.++|-.-
T Consensus       167 aR~laa~-g~~a~Aesafe~a~~~ypg~-------~ar~~Y~e~La~qgr~~ea~aq  215 (251)
T COG4700         167 ARTLAAQ-GKYADAESAFEVAISYYPGP-------QARIYYAEMLAKQGRLREANAQ  215 (251)
T ss_pred             HHHHHhc-CCchhHHHHHHHHHHhCCCH-------HHHHHHHHHHHHhcchhHHHHH
Confidence            9999994 99999999999999998753       2223346777888877766543

>KOG0551|consensus

Probab=95.63  E-value=0.2  Score=40.66  Aligned_cols=110  Identities=15%  Similarity=0.107  Sum_probs=88.7

Q ss_pred             HHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHH
Q psy5288          66 AGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQ  144 (186)
Q Consensus        66 a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~  144 (186)
                      +++..-.-|.++..+..|.+=|.-|.+. ++..|+.+|-+.+  -++.++++.-+.+|.|=+.+... ||+|-+||.-..
T Consensus        67 slK~da~E~ep~E~Aen~KeeGN~~fK~Kryk~A~~~Yt~Gl--k~kc~D~dlnavLY~NRAAa~~~-l~NyRs~l~Dcs  143 (390)
T KOG0551|consen   67 SLKADAEEGEPHEQAENYKEEGNEYFKEKRYKDAVESYTEGL--KKKCADPDLNAVLYTNRAAAQLY-LGNYRSALNDCS  143 (390)
T ss_pred             HhhhccccCChHHHHHHHHHHhHHHHHhhhHHHHHHHHHHHH--hhcCCCccHHHHHHhhHHHHHHH-HHHHHHHHHHHH
Confidence            3444334578889999999999888776 9999999998875  45677888888899999998887 799999999999


Q ss_pred             HHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHH
Q psy5288         145 HAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYE  184 (186)
Q Consensus       145 kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~  184 (186)
                      +|+.+-+..      ..++++=|.++..+.++..|..-.+
T Consensus       144 ~al~~~P~h------~Ka~~R~Akc~~eLe~~~~a~nw~e  177 (390)
T KOG0551|consen  144 AALKLKPTH------LKAYIRGAKCLLELERFAEAVNWCE  177 (390)
T ss_pred             HHHhcCcch------hhhhhhhhHHHHHHHHHHHHHHHHh
Confidence            999986543      3677788888888888887776554

>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]

Probab=95.57  E-value=0.52  Score=38.97  Aligned_cols=117  Identities=11%  Similarity=0.067  Sum_probs=77.9

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHH
Q psy5288          47 GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVAKHHENIA  126 (186)
Q Consensus        47 g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg  126 (186)
                      +.-+-..|++++|-+....+++   +..|+.     +.....+..-.++..-++..++.+.-+.+.      +..+..||
T Consensus       270 a~~li~l~~~~~A~~~i~~~Lk---~~~D~~-----L~~~~~~l~~~d~~~l~k~~e~~l~~h~~~------p~L~~tLG  335 (400)
T COG3071         270 AERLIRLGDHDEAQEIIEDALK---RQWDPR-----LCRLIPRLRPGDPEPLIKAAEKWLKQHPED------PLLLSTLG  335 (400)
T ss_pred             HHHHHHcCChHHHHHHHHHHHH---hccChh-----HHHHHhhcCCCCchHHHHHHHHHHHhCCCC------hhHHHHHH
Confidence            3345567888888776555554   333443     212222222225555555555554333222      25788999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         127 EIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       127 ~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      .++..+ +.+.+|-.+++.|+..-+.       ...+..+|.++.++|+..+|-+.+++
T Consensus       336 ~L~~k~-~~w~kA~~~leaAl~~~~s-------~~~~~~la~~~~~~g~~~~A~~~r~e  386 (400)
T COG3071         336 RLALKN-KLWGKASEALEAALKLRPS-------ASDYAELADALDQLGEPEEAEQVRRE  386 (400)
T ss_pred             HHHHHh-hHHHHHHHHHHHHHhcCCC-------hhhHHHHHHHHHHcCChHHHHHHHHH
Confidence            999997 9999999999999886443       35778899999999999999988764

>KOG2041|consensus

Probab=95.50  E-value=1  Score=40.31  Aligned_cols=135  Identities=13%  Similarity=0.095  Sum_probs=72.0

Q ss_pred             HHHhcCCHHHHHHHHHHHHHHHH-----HcC----ChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHH---------H
Q psy5288          49 LFKLGKKWNDGGNAFLQAGTLHL-----KNN----NKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEI---------H  109 (186)
Q Consensus        49 ~~~~~g~~~~A~~~y~~a~~~~~-----~~~----~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i---------~  109 (186)
                      .|....+-+-|++.+.+.++.++     +.|    +-.+.-.++.++|..+... .+.+|.++|.+.-..         .
T Consensus       756 ~yld~drrDLAielr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~~~~e~~~ecly~l  835 (1189)
T KOG2041|consen  756 LYLDADRRDLAIELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYCGDTENQIECLYRL  835 (1189)
T ss_pred             hhhccchhhhhHHHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccchHhHHHHHHHH
Confidence            33344455555665555555433     111    2234456788888888766 788888888654332         1


Q ss_pred             HHcCChhHHHH-------HHHHHHHHHHHhcCCHHHHHHHH-------------------HHHHHHHhccCChHHHHHHH
Q psy5288         110 TDMGRFIMVAK-------HHENIAEIYEKELEDQEKAIDHY-------------------QHAADCYAGEENKSSANKCL  163 (186)
Q Consensus       110 ~~~~~~~~~a~-------~~~~lg~~y~~~lg~~~~Ai~~y-------------------~kA~~l~~~~~~~~~~~~~~  163 (186)
                      ..-+..+..+.       .+-.+|.++.+. |.-++|+++|                   .+|+++.++-..+.. ....
T Consensus       836 e~f~~LE~la~~Lpe~s~llp~~a~mf~sv-GMC~qAV~a~Lr~s~pkaAv~tCv~LnQW~~avelaq~~~l~qv-~tli  913 (1189)
T KOG2041|consen  836 ELFGELEVLARTLPEDSELLPVMADMFTSV-GMCDQAVEAYLRRSLPKAAVHTCVELNQWGEAVELAQRFQLPQV-QTLI  913 (1189)
T ss_pred             HhhhhHHHHHHhcCcccchHHHHHHHHHhh-chHHHHHHHHHhccCcHHHHHHHHHHHHHHHHHHHHHhccchhH-HHHH
Confidence            11122222222       345667777774 7777777776                   344554443332222 1222


Q ss_pred             HHHHHHHHhccCHHHHHHHHHh
Q psy5288         164 IKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       164 ~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      -+-+.-+...++.-+||+.+.+
T Consensus       914 ak~aaqll~~~~~~eaIe~~Rk  935 (1189)
T KOG2041|consen  914 AKQAAQLLADANHMEAIEKDRK  935 (1189)
T ss_pred             HHHHHHHHhhcchHHHHHHhhh
Confidence            3334445566777777776643

>COG0790 FOG: TPR repeat, SEL1 subfamily [General function prediction only]

Probab=95.49  E-value=0.42  Score=37.76  Aligned_cols=131  Identities=18%  Similarity=0.244  Sum_probs=87.5

Q ss_pred             CCCCHHHHHHHHHHHHH------------HHH----hcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC--
Q psy5288          32 GGNKTDEAIDLYVRAGN------------LFK----LGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS--   93 (186)
Q Consensus        32 ~~~~~~~A~~~y~~ag~------------~~~----~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~--   93 (186)
                      ..+++..+...|..+..            +|.    ...+..+|++.|..+++.        +......++|.+|...  
T Consensus        53 ~~~~~~~a~~~~~~a~~~~~~~a~~~l~~~y~~g~gv~~~~~~A~~~~~~~a~~--------g~~~a~~~lg~~~~~G~g  124 (292)
T COG0790          53 YPPDYAKALKSYEKAAELGDAAALALLGQMYGAGKGVSRDKTKAADWYRCAAAD--------GLAEALFNLGLMYANGRG  124 (292)
T ss_pred             ccccHHHHHHHHHHhhhcCChHHHHHHHHHHHhccCccccHHHHHHHHHHHhhc--------ccHHHHHhHHHHHhcCCC
Confidence            45788999999888863            122    123466666666644331        2234455789999773  


Q ss_pred             ---CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcC--------CHHHHHHHHHHHHHHHhccCChHHHHHH
Q psy5288          94 ---NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELE--------DQEKAIDHYQHAADCYAGEENKSSANKC  162 (186)
Q Consensus        94 ---~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg--------~~~~Ai~~y~kA~~l~~~~~~~~~~~~~  162 (186)
                         ++.+|..+|++|.+.    |+... +.....+|.+|..  |        +...|+.+|.+|....    +    ...
T Consensus       125 v~~d~~~A~~~~~~Aa~~----g~~~a-~~~~~~l~~~~~~--g~~~~~~~~~~~~A~~~~~~aa~~~----~----~~a  189 (292)
T COG0790         125 VPLDLVKALKYYEKAAKL----GNVEA-ALAMYRLGLAYLS--GLQALAVAYDDKKALYLYRKAAELG----N----PDA  189 (292)
T ss_pred             cccCHHHHHHHHHHHHHc----CChhH-HHHHHHHHHHHHc--ChhhhcccHHHHhHHHHHHHHHHhc----C----HHH
Confidence               789999999999754    33222 4567888888886  3        2236777777777753    1    256


Q ss_pred             HHHHHHHHHh----ccCHHHHHHHHHh
Q psy5288         163 LIKIANYSAL----TDHLDKAIKLYEQ  185 (186)
Q Consensus       163 ~~~la~~y~~----~g~~~~A~~~~~~  185 (186)
                      ..++|.+|..    ..|+.+|...|.+
T Consensus       190 ~~~lg~~y~~G~Gv~~d~~~A~~wy~~  216 (292)
T COG0790         190 QLLLGRMYEKGLGVPRDLKKAFRWYKK  216 (292)
T ss_pred             HHHHHHHHHcCCCCCcCHHHHHHHHHH
Confidence            6788888865    3489999998875

>PF10516 SHNi-TPR: SHNi-TPR; InterPro: IPR019544 The tetratrico peptide repeat region (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=95.48  E-value=0.034  Score=30.29  Aligned_cols=33  Identities=27%  Similarity=0.354  Sum_probs=29.0

Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhc
Q psy5288         119 AKHHENIAEIYEKELEDQEKAIDHYQHAADCYAG  152 (186)
Q Consensus       119 a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~  152 (186)
                      |.++..||.+-... ++|++|+.-|+++++|..+
T Consensus         1 Adv~~~Lgeisle~-e~f~qA~~D~~~aL~i~~~   33 (38)
T PF10516_consen    1 ADVYDLLGEISLEN-ENFEQAIEDYEKALEIQEE   33 (38)
T ss_pred             CcHHHHHHHHHHHh-ccHHHHHHHHHHHHHHHHH
Confidence            35788999998885 9999999999999999764

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. This entry represents SHNi-TPR (Sim3-Hif1-NASP interrupted TPR), a sequence that is an interrupted form of TPR repeat [].

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=95.47  E-value=0.023  Score=31.71  Aligned_cols=26  Identities=15%  Similarity=0.144  Sum_probs=23.3

Q ss_pred             HHHHHHHHHHHhccCHHHHHHHHHhC
Q psy5288         161 KCLIKIANYSALTDHLDKAIKLYEQL  186 (186)
Q Consensus       161 ~~~~~la~~y~~~g~~~~A~~~~~~~  186 (186)
                      ..+..+|.+|..+|++++|++.|+++
T Consensus         2 ~~~~~la~~~~~~G~~~~A~~~~~~~   27 (44)
T PF13428_consen    2 AAWLALARAYRRLGQPDEAERLLRRA   27 (44)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            46789999999999999999999874

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.31  E-value=0.88  Score=34.23  Aligned_cols=100  Identities=15%  Similarity=0.184  Sum_probs=67.8

Q ss_pred             hhHHHHHHHHHHHHHhcCCH--HHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhcc
Q psy5288          76 KHDAGLCFVDAANCYKKSNP--AEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGE  153 (186)
Q Consensus        76 ~~~aa~~~~~a~~~y~~~~~--~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~  153 (186)
                      ...++..|.++.+.-....+  ..+++      .+...++..--+.-....++..+.+. +++++|...++.++..-.+.
T Consensus        50 ~~~AS~~Y~~~i~~~~ak~~~~~~~~e------kf~~~n~~t~Ya~laaL~lAk~~ve~-~~~d~A~aqL~~~l~~t~De  122 (207)
T COG2976          50 AQEASAQYQNAIKAVQAKKPKSIAAAE------KFVQANGKTIYAVLAALELAKAEVEA-NNLDKAEAQLKQALAQTKDE  122 (207)
T ss_pred             HHHHHHHHHHHHHHHhcCCchhHHHHH------HHHhhccccHHHHHHHHHHHHHHHhh-ccHHHHHHHHHHHHccchhH
Confidence            34556666666666544322  22222      23334444444555667788888886 99999999999999864332


Q ss_pred             CChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         154 ENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       154 ~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                         ....-.-.+||.|...+|.+++|++.++.
T Consensus       123 ---~lk~l~~lRLArvq~q~~k~D~AL~~L~t  151 (207)
T COG2976         123 ---NLKALAALRLARVQLQQKKADAALKTLDT  151 (207)
T ss_pred             ---HHHHHHHHHHHHHHHHhhhHHHHHHHHhc
Confidence               23345668999999999999999998864

>PF10516 SHNi-TPR: SHNi-TPR; InterPro: IPR019544 The tetratrico peptide repeat region (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=95.21  E-value=0.06  Score=29.31  Aligned_cols=33  Identities=12%  Similarity=0.165  Sum_probs=26.8

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHc
Q psy5288          41 DLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKN   73 (186)
Q Consensus        41 ~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~   73 (186)
                      ++|...|.+....++|++|++=|.+++++.+++
T Consensus         2 dv~~~Lgeisle~e~f~qA~~D~~~aL~i~~~l   34 (38)
T PF10516_consen    2 DVYDLLGEISLENENFEQAIEDYEKALEIQEEL   34 (38)
T ss_pred             cHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHh
Confidence            567788888888888888888888888887664

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. This entry represents SHNi-TPR (Sim3-Hif1-NASP interrupted TPR), a sequence that is an interrupted form of TPR repeat [].

>KOG2047|consensus

Probab=95.13  E-value=1.4  Score=38.95  Aligned_cols=137  Identities=20%  Similarity=0.216  Sum_probs=97.3

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHH------c
Q psy5288          40 IDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTD------M  112 (186)
Q Consensus        40 ~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~------~  112 (186)
                      -+++...+.+|...|+.+.|...|+++..+--+  .-+.-+..|.+.|.+=... +++.|++..++|.-+=+.      .
T Consensus       387 ~~Lw~~faklYe~~~~l~~aRvifeka~~V~y~--~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd  464 (835)
T KOG2047|consen  387 GTLWVEFAKLYENNGDLDDARVIFEKATKVPYK--TVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYD  464 (835)
T ss_pred             hhHHHHHHHHHHhcCcHHHHHHHHHHhhcCCcc--chHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhc
Confidence            355666688999999999999999999987211  2234467777777665544 888999999888754211      1


Q ss_pred             CChhHHH------HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         113 GRFIMVA------KHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       113 ~~~~~~a------~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      |..+.++      .++...+.+.++ +|-++.....|++.+++--..      .++..|.|..+..-.-++++.+.|++
T Consensus       465 ~~~pvQ~rlhrSlkiWs~y~DleEs-~gtfestk~vYdriidLriaT------Pqii~NyAmfLEeh~yfeesFk~YEr  536 (835)
T KOG2047|consen  465 NSEPVQARLHRSLKIWSMYADLEES-LGTFESTKAVYDRIIDLRIAT------PQIIINYAMFLEEHKYFEESFKAYER  536 (835)
T ss_pred             CCCcHHHHHHHhHHHHHHHHHHHHH-hccHHHHHHHHHHHHHHhcCC------HHHHHHHHHHHHhhHHHHHHHHHHHc
Confidence            2223333      345566666666 688888888888888873322      35668888999888899999998886

>PF08626 TRAPPC9-Trs120: Transport protein Trs120 or TRAPPC9, TRAPP II complex subunit; InterPro: IPR013935 The trafficking protein particle complex TRAPP is a multi-protein complex needed in the early stages of the secretory pathway

Probab=95.10  E-value=1.3  Score=42.39  Aligned_cols=142  Identities=11%  Similarity=0.064  Sum_probs=97.4

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC--------------------------
Q psy5288          40 IDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS--------------------------   93 (186)
Q Consensus        40 ~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~--------------------------   93 (186)
                      .......|+.|...|++.+|+..|..|+.+.++.+|+-..|.++.-++-+..-.                          
T Consensus       242 gR~~k~~gd~~LlaG~~~dAl~~y~~a~~~~k~~~D~lW~a~alEg~~~~~~l~~~~~~~~qip~i~~~~~~~~~~~~~~  321 (1185)
T PF08626_consen  242 GRLQKVLGDLYLLAGRWPDALKEYTEAIEILKSSNDYLWLASALEGIAVCLLLLSWLGMDFQIPQICSPLCPISSSTSSS  321 (1185)
T ss_pred             hhhhhhhhhHHHHcCCHHHHHHHHHHHHHHHhhcCcHhhhHHHHHHHHHHHHHHhccCCCccccchhcccCCCCCccCcc
Confidence            344555688899999999999999999999999999888887777664332110                          


Q ss_pred             --------------------------------------CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcC-
Q psy5288          94 --------------------------------------NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELE-  134 (186)
Q Consensus        94 --------------------------------------~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg-  134 (186)
                                                            .+++++.+|.++.....+.--.---..+..+++++.... . 
T Consensus       322 s~~~~~~~~~~sP~~s~~~~~~~~~~~~~~~l~~~i~~~~~~~l~~Y~~~~~~~~~~~p~lv~~E~~lr~~~~l~~~-~~  400 (1185)
T PF08626_consen  322 SPRNSSSSSTQSPRNSVSSSSSSNIDVNLVNLPNLIPDLYEKALSLYSRSTNDTSEYVPQLVYSEACLRFARFLVAQ-HL  400 (1185)
T ss_pred             CcccCCccCCCCCCccccCCCccccchhhccCHhhhhHHHHHHHHHHHHhhccccccCcchHHHHHHHHHHHHHHHh-hc
Confidence                                                  124555555555433222211223445677788887764 5 


Q ss_pred             -------------------CHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHH
Q psy5288         135 -------------------DQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKL  182 (186)
Q Consensus       135 -------------------~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~  182 (186)
                                         .-.++.++..+++.+.-..=........+..+|.+|..+|-..|+.=+
T Consensus       401 ~~~l~~iV~~~~~~~~~~~~~~eI~~~l~~~~~~~l~~l~~~dqi~i~~~lA~vy~~lG~~RK~AFv  467 (1185)
T PF08626_consen  401 SDNLDHIVKRPLTPTPNISSRSEIAEFLFKAFPLQLKDLSVEDQIRIYSGLASVYGSLGFHRKKAFV  467 (1185)
T ss_pred             ccchhhhhccccccccCCCCHHHHHHHHHHhhhhhhhhCCHHHHHHHHHHHHHHHHhcchhHHHHHH
Confidence                               678888999999987554334455568999999999999977766433

To date, two kinds of TRAPP complexes have been studied, TRAPPI and TRAPP II. These complexes differ in subunit composition []. TRAPP I binds vesicles derived from the endoplasmic reticulum bringing them closer to the acceptor membrane. Trs120 is a subunit specific to the TRAPP II complex [] along with Trs65p and Trs130p(TRAPPC10). It is suggested that Trs120p is required for the stability of the Trs130p subunit, suggesting that these two proteins might interact in some way []. It is likely that there is a complex function for TRAPP II in multiple pathways [].

>KOG2796|consensus

Probab=95.02  E-value=0.47  Score=37.56  Aligned_cols=122  Identities=10%  Similarity=-0.053  Sum_probs=79.2

Q ss_pred             hcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHH
Q psy5288          52 LGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYE  130 (186)
Q Consensus        52 ~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~  130 (186)
                      ..|.|.=..+.+.+..+     .+++........+|.+-+.. +..-|-.+++..-+....+++....-.+..+.+.+|.
T Consensus       189 G~kEy~iS~d~~~~vi~-----~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a~i~l  263 (366)
T KOG2796|consen  189 GMKEYVLSVDAYHSVIK-----YYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSAFLHL  263 (366)
T ss_pred             cchhhhhhHHHHHHHHH-----hCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhhhhee
Confidence            34445545555544444     13344444555666665554 6666777777666666666666666667778888888


Q ss_pred             HhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         131 KELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       131 ~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      -+ .++-.|...|.+.+...+.+      ....++.|.+...+|+...|++..+.
T Consensus       264 g~-nn~a~a~r~~~~i~~~D~~~------~~a~NnKALcllYlg~l~DAiK~~e~  311 (366)
T KOG2796|consen  264 GQ-NNFAEAHRFFTEILRMDPRN------AVANNNKALCLLYLGKLKDALKQLEA  311 (366)
T ss_pred             cc-cchHHHHHHHhhccccCCCc------hhhhchHHHHHHHHHHHHHHHHHHHH
Confidence            75 88888888888777653322      24557778888888888888887764

>KOG3024|consensus

Probab=95.01  E-value=1.4  Score=35.00  Aligned_cols=62  Identities=15%  Similarity=0.057  Sum_probs=53.6

Q ss_pred             CCCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC
Q psy5288          32 GGNKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS   93 (186)
Q Consensus        32 ~~~~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~   93 (186)
                      ..|++-+|-..|..+...|.+.+.++.|++.....+.++-+.+....++....-..+++.+.
T Consensus        18 ~~~d~Yeahqm~RTl~fR~~~~K~~~~aieL~~~ga~~ffk~~Q~~saaDl~~~~le~~eka   79 (312)
T KOG3024|consen   18 ELGDYYEAHQMYRTLVFRYTRQKAHEDAIELLYDGALCFFKLKQRGSAADLLVLVLEVLEKA   79 (312)
T ss_pred             ccccHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHhccCCCchhHHHHHHHHHHHH
Confidence            34799999999999999999999999999999999999888888888887777777777663

>KOG2471|consensus

Probab=95.01  E-value=0.089  Score=44.75  Aligned_cols=84  Identities=10%  Similarity=0.058  Sum_probs=64.5

Q ss_pred             HHHHHHHHHHhcC-CHHHHHHHHHHHHH-HHHHc--C-C--------hhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q psy5288          81 LCFVDAANCYKKS-NPAEAIKAIERAVE-IHTDM--G-R--------FIMVAKHHENIAEIYEKELEDQEKAIDHYQHAA  147 (186)
Q Consensus        81 ~~~~~a~~~y~~~-~~~~A~~~~~~Al~-i~~~~--~-~--------~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~  147 (186)
                      ..+.++|-++... .+.-+..+|++|++ ...++  | .        ....-.++.+.|..|.. +|++-.|.++|.+|+
T Consensus       284 if~NNlGcIh~~~~~y~~~~~~F~kAL~N~c~qL~~g~~~~~~~tls~nks~eilYNcG~~~Lh-~grPl~AfqCf~~av  362 (696)
T KOG2471|consen  284 IFNNNLGCIHYQLGCYQASSVLFLKALRNSCSQLRNGLKPAKTFTLSQNKSMEILYNCGLLYLH-SGRPLLAFQCFQKAV  362 (696)
T ss_pred             eeecCcceEeeehhhHHHHHHHHHHHHHHHHHHHhccCCCCcceehhcccchhhHHhhhHHHHh-cCCcHHHHHHHHHHH
Confidence            3446788887776 77888899999996 33332  2 0        11233478999999999 699999999999999


Q ss_pred             HHHhccCChHHHHHHHHHHHHHHH
Q psy5288         148 DCYAGEENKSSANKCLIKIANYSA  171 (186)
Q Consensus       148 ~l~~~~~~~~~~~~~~~~la~~y~  171 (186)
                      ..|..+.      ..|.++|++.+
T Consensus       363 ~vfh~nP------rlWLRlAEcCi  380 (696)
T KOG2471|consen  363 HVFHRNP------RLWLRLAECCI  380 (696)
T ss_pred             HHHhcCc------HHHHHHHHHHH
Confidence            9998753      78999999875

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=94.94  E-value=0.68  Score=36.69  Aligned_cols=87  Identities=16%  Similarity=0.071  Sum_probs=63.6

Q ss_pred             CCHHHHHHHHHHHHHHHHHc--CChhHHHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHhc---cC-----ChHHHHH
Q psy5288          93 SNPAEAIKAIERAVEIHTDM--GRFIMVAKHHENIAEIYEKELE-DQEKAIDHYQHAADCYAG---EE-----NKSSANK  161 (186)
Q Consensus        93 ~~~~~A~~~~~~Al~i~~~~--~~~~~~a~~~~~lg~~y~~~lg-~~~~Ai~~y~kA~~l~~~---~~-----~~~~~~~  161 (186)
                      .+.+.|..++.|+-.+....  ......+..+.++|.-..+. + +++.|+.++++|.++...   ..     -......
T Consensus         7 ~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn~G~~l~~~-~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~elr~~   85 (278)
T PF08631_consen    7 GDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYNIGKSLLSK-KDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSELRLS   85 (278)
T ss_pred             CCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHHHHHHHHHc-CCChHHHHHHHHHHHHHHHhhhhccccCCcHHHHHHH
Confidence            36777888888877766411  23456778899999998886 8 999999999999999743   11     1123346


Q ss_pred             HHHHHHHHHHhccCHHHHH
Q psy5288         162 CLIKIANYSALTDHLDKAI  180 (186)
Q Consensus       162 ~~~~la~~y~~~g~~~~A~  180 (186)
                      ++.-++.+|...+.++-..
T Consensus        86 iL~~La~~~l~~~~~~~~~  104 (278)
T PF08631_consen   86 ILRLLANAYLEWDTYESVE  104 (278)
T ss_pred             HHHHHHHHHHcCCChHHHH
Confidence            8899999999887665433

It is also involved in sporulation [].

>KOG4814|consensus

Probab=94.88  E-value=0.33  Score=42.64  Aligned_cols=96  Identities=18%  Similarity=0.182  Sum_probs=68.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHH
Q psy5288          81 LCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSAN  160 (186)
Q Consensus        81 ~~~~~a~~~y~~~~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~  160 (186)
                      ..|..+...|+..+|..++++|..++..+.....-..-+.....++-||.. |.+.|.|.+++++|-+.-+.+-      
T Consensus       356 iLWn~A~~~F~~~~Y~~s~~~y~~Sl~~i~~D~~~~~FaK~qR~l~~CYL~-L~QLD~A~E~~~EAE~~d~~~~------  428 (872)
T KOG4814|consen  356 LLWNTAKKLFKMEKYVVSIRFYKLSLKDIISDNYSDRFAKIQRALQVCYLK-LEQLDNAVEVYQEAEEVDRQSP------  428 (872)
T ss_pred             HHHHhhHHHHHHHHHHHHHHHHHHHHHhccchhhhhHHHHHHHHHHHHHhh-HHHHHHHHHHHHHHHhhccccH------
Confidence            345556677777789999999999999887665555568999999999999 6999999999999988754321      


Q ss_pred             HHHHHHHHHHHhccCHHHHHHHH
Q psy5288         161 KCLIKIANYSALTDHLDKAIKLY  183 (186)
Q Consensus       161 ~~~~~la~~y~~~g~~~~A~~~~  183 (186)
                      -+-..+-.+..-.|+-.+|+.+.
T Consensus       429 l~q~~~~~~~~~E~~Se~AL~~~  451 (872)
T KOG4814|consen  429 LCQLLMLQSFLAEDKSEEALTCL  451 (872)
T ss_pred             HHHHHHHHHHHHhcchHHHHHHH
Confidence            12222233444556666666554

>KOG4642|consensus

Probab=94.85  E-value=0.073  Score=41.22  Aligned_cols=88  Identities=20%  Similarity=0.149  Sum_probs=71.1

Q ss_pred             HHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHH
Q psy5288          85 DAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCL  163 (186)
Q Consensus        85 ~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~  163 (186)
                      +=|+.|... .++.|+.+|-+|+.+....      +.++.+=+.+|.+ +.+++.+..-..+|+++.++.      ....
T Consensus        15 E~gnk~f~~k~y~~ai~~y~raI~~nP~~------~~Y~tnralchlk-~~~~~~v~~dcrralql~~N~------vk~h   81 (284)
T KOG4642|consen   15 EQGNKCFIPKRYDDAIDCYSRAICINPTV------ASYYTNRALCHLK-LKHWEPVEEDCRRALQLDPNL------VKAH   81 (284)
T ss_pred             hccccccchhhhchHHHHHHHHHhcCCCc------chhhhhHHHHHHH-hhhhhhhhhhHHHHHhcChHH------HHHH
Confidence            334444433 7899999999998876554      4588889999998 599999999999999996643      3566


Q ss_pred             HHHHHHHHhccCHHHHHHHHHh
Q psy5288         164 IKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       164 ~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ..+|........|++||.++.+
T Consensus        82 ~flg~~~l~s~~~~eaI~~Lqr  103 (284)
T KOG4642|consen   82 YFLGQWLLQSKGYDEAIKVLQR  103 (284)
T ss_pred             HHHHHHHHhhccccHHHHHHHH
Confidence            7889999999999999999875

>KOG1070|consensus

Probab=94.74  E-value=3.2  Score=39.95  Aligned_cols=114  Identities=17%  Similarity=0.138  Sum_probs=81.1

Q ss_pred             CCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHh
Q psy5288          54 KKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKE  132 (186)
Q Consensus        54 g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~  132 (186)
                      |.-+.-.+.|++|.+.       ..+-..|..+..+|.+. .+++|.+.++.-++=+.      +.-.+|...|..+..+
T Consensus      1511 G~eesl~kVFeRAcqy-------cd~~~V~~~L~~iy~k~ek~~~A~ell~~m~KKF~------q~~~vW~~y~~fLl~~ 1577 (1710)
T KOG1070|consen 1511 GTEESLKKVFERACQY-------CDAYTVHLKLLGIYEKSEKNDEADELLRLMLKKFG------QTRKVWIMYADFLLRQ 1577 (1710)
T ss_pred             CcHHHHHHHHHHHHHh-------cchHHHHHHHHHHHHHhhcchhHHHHHHHHHHHhc------chhhHHHHHHHHHhcc
Confidence            3334444555555554       44567777888888876 78888888876544333      3344778888888876


Q ss_pred             cCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         133 LEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       133 lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                       .+.+.|-..+++|+...++..+    .......|.+-.+.||-+++...|+-
T Consensus      1578 -ne~~aa~~lL~rAL~~lPk~eH----v~~IskfAqLEFk~GDaeRGRtlfEg 1625 (1710)
T KOG1070|consen 1578 -NEAEAARELLKRALKSLPKQEH----VEFISKFAQLEFKYGDAERGRTLFEG 1625 (1710)
T ss_pred             -cHHHHHHHHHHHHHhhcchhhh----HHHHHHHHHHHhhcCCchhhHHHHHH
Confidence             7778888999999999887332    25667788888899999998888763

>KOG2300|consensus

Probab=94.53  E-value=2.7  Score=36.04  Aligned_cols=107  Identities=12%  Similarity=-0.025  Sum_probs=83.6

Q ss_pred             CCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCh-hHHHHHHHHHHHHHhcC--CHHHHHHHHHHHHHHHH
Q psy5288          34 NKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNK-HDAGLCFVDAANCYKKS--NPAEAIKAIERAVEIHT  110 (186)
Q Consensus        34 ~~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~-~~aa~~~~~a~~~y~~~--~~~~A~~~~~~Al~i~~  110 (186)
                      +.--+|.+.+.-...+|....+.+.|....++|..+.+.+++. +..-.++.-++.+|...  .++.|...+++|+++..
T Consensus        41 s~~veart~LqLg~lL~~yT~N~elAksHLekA~~i~~~ip~fydvKf~a~SlLa~lh~~~~~s~~~~KalLrkaielsq  120 (629)
T KOG2300|consen   41 SFLVEARTHLQLGALLLRYTKNVELAKSHLEKAWLISKSIPSFYDVKFQAASLLAHLHHQLAQSFPPAKALLRKAIELSQ  120 (629)
T ss_pred             hHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHcccccHHhhhhHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhc
Confidence            3446788888777888999999999999999999999999877 44456666778888654  56788888999998876


Q ss_pred             HcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHH
Q psy5288         111 DMGRFIMVAKHHENIAEIYEKELEDQEKAIDHY  143 (186)
Q Consensus       111 ~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y  143 (186)
                      ..-  .---.....++.++.-+ .+++.|++.+
T Consensus       121 ~~p--~wsckllfQLaql~~id-kD~~sA~elL  150 (629)
T KOG2300|consen  121 SVP--YWSCKLLFQLAQLHIID-KDFPSALELL  150 (629)
T ss_pred             CCc--hhhHHHHHHHHHHHhhh-ccchhHHHHH
Confidence            543  22234667888888886 8999999884

>KOG1550|consensus

Probab=94.51  E-value=1.3  Score=38.82  Aligned_cols=130  Identities=18%  Similarity=0.230  Sum_probs=81.6

Q ss_pred             HHHHHHHHHHHHH------------HHH-----hcCCHHHHHHHHHHHHHHHHH---cCChhHHHHHHHHHHHHHhcC--
Q psy5288          36 TDEAIDLYVRAGN------------LFK-----LGKKWNDGGNAFLQAGTLHLK---NNNKHDAGLCFVDAANCYKKS--   93 (186)
Q Consensus        36 ~~~A~~~y~~ag~------------~~~-----~~g~~~~A~~~y~~a~~~~~~---~~~~~~aa~~~~~a~~~y~~~--   93 (186)
                      ..++..+|..+..            +|.     ..+|.+.|+++|..+++-+++   .+.    ..+...+|.+|...  
T Consensus       228 ~~~a~~~~~~~a~~g~~~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~~----~~a~~~lg~~Y~~g~~  303 (552)
T KOG1550|consen  228 LSEAFKYYREAAKLGHSEAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKGL----PPAQYGLGRLYLQGLG  303 (552)
T ss_pred             hhHHHHHHHHHHhhcchHHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhcC----CccccHHHHHHhcCCC
Confidence            4677777777732            222     346899999999999884221   221    23455788888764  


Q ss_pred             ----CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhc--CCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHH
Q psy5288          94 ----NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKEL--EDQEKAIDHYQHAADCYAGEENKSSANKCLIKIA  167 (186)
Q Consensus        94 ----~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~l--g~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la  167 (186)
                          +...|+.+|.+|.+    +|++    .+...+|.+|..-.  .++.+|.++|..|...    ++    .....+++
T Consensus       304 ~~~~d~~~A~~~~~~aA~----~g~~----~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~----G~----~~A~~~la  367 (552)
T KOG1550|consen  304 VEKIDYEKALKLYTKAAE----LGNP----DAQYLLGVLYETGTKERDYRRAFEYYSLAAKA----GH----ILAIYRLA  367 (552)
T ss_pred             CccccHHHHHHHHHHHHh----cCCc----hHHHHHHHHHHcCCccccHHHHHHHHHHHHHc----CC----hHHHHHHH
Confidence                45678888877753    3443    25677888887631  2466888888877763    22    24556666


Q ss_pred             HHHHh----ccCHHHHHHHHHh
Q psy5288         168 NYSAL----TDHLDKAIKLYEQ  185 (186)
Q Consensus       168 ~~y~~----~g~~~~A~~~~~~  185 (186)
                      .+|..    .-+...|..+|.+
T Consensus       368 ~~y~~G~gv~r~~~~A~~~~k~  389 (552)
T KOG1550|consen  368 LCYELGLGVERNLELAFAYYKK  389 (552)
T ss_pred             HHHHhCCCcCCCHHHHHHHHHH
Confidence            66653    2366777766654

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=94.50  E-value=2.1  Score=34.48  Aligned_cols=128  Identities=15%  Similarity=0.139  Sum_probs=77.0

Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-HHH-----
Q psy5288          37 DEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKSNPAEAIKAIERAVE-IHT-----  110 (186)
Q Consensus        37 ~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~~~~~A~~~~~~Al~-i~~-----  110 (186)
                      ++-..++.+.+.+.+..|+++-|..+..++.......+.. .....+..+=..+...+..+|+..++..+. ...     
T Consensus       143 ~~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~-~~~v~~e~akllw~~g~~~~Ai~~L~~~~~~~~~~~~~~  221 (352)
T PF02259_consen  143 EELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESL-LPRVFLEYAKLLWAQGEQEEAIQKLRELLKCRLSKNIDS  221 (352)
T ss_pred             hHHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCC-CcchHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcccc
Confidence            4555566666666666777776666655555432111110 111222222233334466788887777776 221     


Q ss_pred             ----------------------HcCChhHHHHHHHHHHHHHHHhc------CCHHHHHHHHHHHHHHHhccCChHHHHHH
Q psy5288         111 ----------------------DMGRFIMVAKHHENIAEIYEKEL------EDQEKAIDHYQHAADCYAGEENKSSANKC  162 (186)
Q Consensus       111 ----------------------~~~~~~~~a~~~~~lg~~y~~~l------g~~~~Ai~~y~kA~~l~~~~~~~~~~~~~  162 (186)
                                            ...+....+.++..+|..... +      +..+.++..|.+|..+.+...      ..
T Consensus       222 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~l~~a~w~~~-~~~~~~~~~~~~~~~~~~~a~~~~~~~~------k~  294 (352)
T PF02259_consen  222 ISNAELKSGLLESLEVISSTNLDKESKELKAKAFLLLAKWLDE-LYSKLSSESSDEILKYYKEATKLDPSWE------KA  294 (352)
T ss_pred             ccHHHHhhccccccccccccchhhhhHHHHHHHHHHHHHHHHh-hccccccccHHHHHHHHHHHHHhChhHH------HH
Confidence                                  112346778888888888776 6      889999999999999866432      46


Q ss_pred             HHHHHHHHHh
Q psy5288         163 LIKIANYSAL  172 (186)
Q Consensus       163 ~~~la~~y~~  172 (186)
                      +..+|..+..
T Consensus       295 ~~~~a~~~~~  304 (352)
T PF02259_consen  295 WHSWALFNDK  304 (352)
T ss_pred             HHHHHHHHHH
Confidence            6666666644

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=94.46  E-value=0.73  Score=36.59  Aligned_cols=80  Identities=13%  Similarity=0.109  Sum_probs=57.8

Q ss_pred             CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhc
Q psy5288          94 NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALT  173 (186)
Q Consensus        94 ~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~  173 (186)
                      ..+.|...|.+|+    +.+  ...-.+|...|.+.....++.+.|...|+.++..+...      ...|..-...++..
T Consensus        16 g~~~aR~vF~~a~----~~~--~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~f~~~------~~~~~~Y~~~l~~~   83 (280)
T PF05843_consen   16 GIEAARKVFKRAR----KDK--RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKKFPSD------PDFWLEYLDFLIKL   83 (280)
T ss_dssp             HHHHHHHHHHHHH----CCC--CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHHHTT-------HHHHHHHHHHHHHT
T ss_pred             ChHHHHHHHHHHH----cCC--CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCCCC------HHHHHHHHHHHHHh
Confidence            4577888888885    222  22234688888885552367777999999999999875      35666777888999


Q ss_pred             cCHHHHHHHHHh
Q psy5288         174 DHLDKAIKLYEQ  185 (186)
Q Consensus       174 g~~~~A~~~~~~  185 (186)
                      ++.++|..+|++
T Consensus        84 ~d~~~aR~lfer   95 (280)
T PF05843_consen   84 NDINNARALFER   95 (280)
T ss_dssp             T-HHHHHHHHHH
T ss_pred             CcHHHHHHHHHH
Confidence            999999999987

The Drosophila melanogaster suppressor of forked [Su(f)] protein shares homology with the Saccharomyces cerevisiae RNA14 protein and the 77 kDa subunit of Homo sapiens cleavage stimulation factor, which are proteins involved in mRNA 3' end formation. This suggests a role for Su(f) in mRNA 3' end formation in Drosophila. The su(f) gene produces three transcripts; two of them are polyadenylated at the end of the transcription unit, and one is a truncated transcript, polyadenylated in intron 4. It is thought that su(f) plays a role in the regulation of poly(A) site utilisation and the GU-rich sequence is important for this regulation to occur [].; GO: 0006397 mRNA processing, 0005634 nucleus; PDB: 2L9B_B 2OND_B 2OOE_A 4E85_B 4EBA_C 4E6H_A 2UY1_B.

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=94.43  E-value=0.7  Score=38.28  Aligned_cols=120  Identities=13%  Similarity=0.098  Sum_probs=68.6

Q ss_pred             cCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC----------CHHHHHHHHHHHHHHHHHcCChhHHHHHH
Q psy5288          53 GKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS----------NPAEAIKAIERAVEIHTDMGRFIMVAKHH  122 (186)
Q Consensus        53 ~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~----------~~~~A~~~~~~Al~i~~~~~~~~~~a~~~  122 (186)
                      .|+.++|++....++.-     +.......|.-+|.+|+..          ..++|+.+|+++-++-...  +.+     
T Consensus       195 ~gdre~Al~il~~~l~~-----~~~~~~d~~gL~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~~~~~--Y~G-----  262 (374)
T PF13281_consen  195 PGDREKALQILLPVLES-----DENPDPDTLGLLGRIYKDLFLESNFTDRESLDKAIEWYRKGFEIEPDY--YSG-----  262 (374)
T ss_pred             CCCHHHHHHHHHHHHhc-----cCCCChHHHHHHHHHHHHHHHHcCccchHHHHHHHHHHHHHHcCCccc--cch-----
Confidence            78888888877665432     2334456777888888764          3578999999987776222  222     


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHH----HHHhccCChHHHHH--HHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         123 ENIAEIYEKELEDQEKAIDHYQHAA----DCYAGEENKSSANK--CLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       123 ~~lg~~y~~~lg~~~~Ai~~y~kA~----~l~~~~~~~~~~~~--~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      .|++.++.-. |.-.....-..+..    .+..+.+.......  .+-.++++.+..||+++|++.+++
T Consensus       263 IN~AtLL~~~-g~~~~~~~el~~i~~~l~~llg~kg~~~~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~  330 (374)
T PF13281_consen  263 INAATLLMLA-GHDFETSEELRKIGVKLSSLLGRKGSLEKMQDYWDVATLLEASVLAGDYEKAIQAAEK  330 (374)
T ss_pred             HHHHHHHHHc-CCcccchHHHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            3444444432 44333322222222    11111111111112  224566778889999999998876

>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production

Probab=94.35  E-value=1.2  Score=31.24  Aligned_cols=102  Identities=17%  Similarity=0.159  Sum_probs=63.4

Q ss_pred             hHHhHHHHHHHHHHhhccCCCCccccccCCCCHHHHH---------HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcC
Q psy5288           4 NEQKARQLVAEAEKKISSSSKGFFSQFTGGNKTDEAI---------DLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNN   74 (186)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~A~---------~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~   74 (186)
                      .++.+.+.+.+|-...+   ..|+..+ ....|-...         +.....+..+...|++++|+....+++.+     
T Consensus        21 ~~~~~~~~~~~al~ly~---G~~l~~~-~~~~W~~~~r~~l~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~l~~-----   91 (146)
T PF03704_consen   21 DPEEAIELLEEALALYR---GDFLPDL-DDEEWVEPERERLRELYLDALERLAEALLEAGDYEEALRLLQRALAL-----   91 (146)
T ss_dssp             -HHHHHHHHHHHHTT-----SSTTGGG-TTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-----
T ss_pred             CHHHHHHHHHHHHHHhC---CCCCCCC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHhc-----
Confidence            45667777777777777   5665432 112443332         33344456677899999999999999998     


Q ss_pred             ChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHH-HcCCh
Q psy5288          75 NKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHT-DMGRF  115 (186)
Q Consensus        75 ~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~-~~~~~  115 (186)
                      +|..... +..+..+|... ++..|++.|++....+. ++|-.
T Consensus        92 dP~~E~~-~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~  133 (146)
T PF03704_consen   92 DPYDEEA-YRLLMRALAAQGRRAEALRVYERYRRRLREELGIE  133 (146)
T ss_dssp             STT-HHH-HHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS--
T ss_pred             CCCCHHH-HHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcC
Confidence            5665543 44566666655 89999999999888776 44643

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>KOG4340|consensus

Probab=94.22  E-value=0.76  Score=37.05  Aligned_cols=86  Identities=13%  Similarity=0.076  Sum_probs=56.5

Q ss_pred             cCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH----Hhcc--------------
Q psy5288          92 KSNPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADC----YAGE--------------  153 (186)
Q Consensus        92 ~~~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l----~~~~--------------  153 (186)
                      ..+++.|++-|+.|+++.   |-.+.   .-.+++.++.+. ++|++|+.+..+.++-    .++.              
T Consensus       157 egqyEaAvqkFqaAlqvs---Gyqpl---lAYniALaHy~~-~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsv  229 (459)
T KOG4340|consen  157 EGQYEAAVQKFQAALQVS---GYQPL---LAYNLALAHYSS-RQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSV  229 (459)
T ss_pred             cccHHHHHHHHHHHHhhc---CCCch---hHHHHHHHHHhh-hhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcc
Confidence            347889999999887664   32222   456788888886 9999999987665543    2221              


Q ss_pred             CCh-----HHHHHHHHHHHHHHHhccCHHHHHHHHH
Q psy5288         154 ENK-----SSANKCLIKIANYSALTDHLDKAIKLYE  184 (186)
Q Consensus       154 ~~~-----~~~~~~~~~la~~y~~~g~~~~A~~~~~  184 (186)
                      +++     +.....++-.+-++.+.|+++-|.+.+.
T Consensus       230 gNt~~lh~Sal~eAfNLKaAIeyq~~n~eAA~eaLt  265 (459)
T KOG4340|consen  230 GNTLVLHQSALVEAFNLKAAIEYQLRNYEAAQEALT  265 (459)
T ss_pred             cchHHHHHHHHHHHhhhhhhhhhhcccHHHHHHHhh
Confidence            111     1222345555667788999999888764

>KOG1550|consensus

Probab=94.20  E-value=1.5  Score=38.41  Aligned_cols=110  Identities=19%  Similarity=0.253  Sum_probs=75.0

Q ss_pred             HHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC------CHHHHHHHHHHHHHH---HHHcCChhHHHHHHHHHH
Q psy5288          56 WNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS------NPAEAIKAIERAVEI---HTDMGRFIMVAKHHENIA  126 (186)
Q Consensus        56 ~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~------~~~~A~~~~~~Al~i---~~~~~~~~~~a~~~~~lg  126 (186)
                      ...|.++|..+.+.    |    -......+|.||...      +++.|+.+++.+++-   ....+.    ......+|
T Consensus       228 ~~~a~~~~~~~a~~----g----~~~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~~----~~a~~~lg  295 (552)
T KOG1550|consen  228 LSEAFKYYREAAKL----G----HSEAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKGL----PPAQYGLG  295 (552)
T ss_pred             hhHHHHHHHHHHhh----c----chHHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhcC----CccccHHH
Confidence            45677777666664    1    234444778888654      899999999999883   222232    22567799


Q ss_pred             HHHHHhc---C-CHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhcc---CHHHHHHHHHh
Q psy5288         127 EIYEKEL---E-DQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTD---HLDKAIKLYEQ  185 (186)
Q Consensus       127 ~~y~~~l---g-~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g---~~~~A~~~~~~  185 (186)
                      .+|....   . +++.|..+|.+|.+.    +++    .+...+|.+|...-   |+.+|.++|..
T Consensus       296 ~~Y~~g~~~~~~d~~~A~~~~~~aA~~----g~~----~a~~~lg~~~~~g~~~~d~~~A~~yy~~  353 (552)
T KOG1550|consen  296 RLYLQGLGVEKIDYEKALKLYTKAAEL----GNP----DAQYLLGVLYETGTKERDYRRAFEYYSL  353 (552)
T ss_pred             HHHhcCCCCccccHHHHHHHHHHHHhc----CCc----hHHHHHHHHHHcCCccccHHHHHHHHHH
Confidence            9998720   2 678899999999885    222    45567788876544   78899999875

>COG5091 SGT1 Suppressor of G2 allele of skp1 and related proteins [General function prediction only]

Probab=94.14  E-value=0.43  Score=37.67  Aligned_cols=94  Identities=11%  Similarity=0.091  Sum_probs=75.6

Q ss_pred             HHHHHHHHHHHHhcC----CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccC
Q psy5288          79 AGLCFVDAANCYKKS----NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEE  154 (186)
Q Consensus        79 aa~~~~~a~~~y~~~----~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~  154 (186)
                      -+.++.++..+|..-    .+..|.++..+|+.....-|+...++-|-..-+..|.. +.+|+.|.-||.+|..++.+..
T Consensus        35 ~a~~lEk~~~~Fs~~~s~~~~~n~~e~~d~ALm~Ae~r~D~~~IG~~~~~~~v~~~~-ik~Ye~a~~~F~~A~~~~~~d~  113 (368)
T COG5091          35 KAACLEKLYFGFSDWHSDATMENAKELLDKALMTAEGRGDRSKIGLVNFRYFVHFFN-IKDYELAQSYFKKAKNLYVDDT  113 (368)
T ss_pred             hhhhHHHHHhhhhhhhcccChhhHHHHHHHHHHhhhccCCcceeeeehhhhHHHhhh-HHHHHHHHHHHHHHHHHhhccc
Confidence            356666766666553    57899999999999999999999999998889999888 6999999999999999999988


Q ss_pred             ChHHHHHHHHHHHHHHHhc
Q psy5288         155 NKSSANKCLIKIANYSALT  173 (186)
Q Consensus       155 ~~~~~~~~~~~la~~y~~~  173 (186)
                      .+.|..+.-..|-.+..++
T Consensus       114 L~~We~rLet~L~~~~kkQ  132 (368)
T COG5091         114 LPLWEDRLETKLNKKNKKQ  132 (368)
T ss_pred             chHHHHHHHHHHhHhhHhh
Confidence            8877765444444444433

>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins

Probab=94.12  E-value=0.21  Score=37.05  Aligned_cols=46  Identities=17%  Similarity=0.253  Sum_probs=30.5

Q ss_pred             CCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhcc-----------CHHHHHHHHHh
Q psy5288         134 EDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTD-----------HLDKAIKLYEQ  185 (186)
Q Consensus       134 g~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g-----------~~~~A~~~~~~  185 (186)
                      ..+++||.-|++|+.|.++.      -..+.++|++|..++           .|++|.++|++
T Consensus        49 ~miedAisK~eeAL~I~P~~------hdAlw~lGnA~ts~A~l~~d~~~A~~~F~kA~~~Fqk  105 (186)
T PF06552_consen   49 KMIEDAISKFEEALKINPNK------HDALWCLGNAYTSLAFLTPDTAEAEEYFEKATEYFQK  105 (186)
T ss_dssp             HHHHHHHHHHHHHHHH-TT-------HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcCCch------HHHHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHH
Confidence            34788888889999987753      267788888886443           25556666553

Most mitochondrial proteins are encoded by the nuclear genome, and are synthesised in the cytosol. TOM20 is a general import receptor that binds to mitochondrial pre-sequences in the early step of protein import into the mitochondria [].; GO: 0045040 protein import into mitochondrial outer membrane, 0005742 mitochondrial outer membrane translocase complex; PDB: 1ZU2_A.

>KOG3081|consensus

Probab=94.06  E-value=1.4  Score=34.88  Aligned_cols=71  Identities=14%  Similarity=0.011  Sum_probs=45.0

Q ss_pred             HHHHHHHHHcCC-hhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHH
Q psy5288         103 ERAVEIHTDMGR-FIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAI  180 (186)
Q Consensus       103 ~~Al~i~~~~~~-~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~  180 (186)
                      +.|.-|+.++.+ +......+...+.+... +|+|++|...++.|+.-..+.      ..++.|+-.+-.-+|.-.++.
T Consensus       190 qdAfyifeE~s~k~~~T~~llnG~Av~~l~-~~~~eeAe~lL~eaL~kd~~d------petL~Nliv~a~~~Gkd~~~~  261 (299)
T KOG3081|consen  190 QDAFYIFEELSEKTPPTPLLLNGQAVCHLQ-LGRYEEAESLLEEALDKDAKD------PETLANLIVLALHLGKDAEVT  261 (299)
T ss_pred             hhHHHHHHHHhcccCCChHHHccHHHHHHH-hcCHHHHHHHHHHHHhccCCC------HHHHHHHHHHHHHhCCChHHH
Confidence            344445555533 55555667777777777 488888888888888764433      366677666666666655444

>KOG2581|consensus

Probab=93.90  E-value=2.6  Score=35.35  Aligned_cols=110  Identities=13%  Similarity=0.021  Sum_probs=70.3

Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcC-ChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChh
Q psy5288          39 AIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNN-NKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFI  116 (186)
Q Consensus        39 A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~-~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~  116 (186)
                      ++.+|.-...+|...|+...-.-++..-+... .++ +..+.+....-+-.+|... .+++|-..-.++.  +.+.....
T Consensus       168 ~ak~~fy~~l~~E~~~~l~~~rs~l~~~lrtA-tLrhd~e~qavLiN~LLr~yL~n~lydqa~~lvsK~~--~pe~~snn  244 (493)
T KOG2581|consen  168 AAKLYFYLYLSYELEGRLADIRSFLHALLRTA-TLRHDEEGQAVLINLLLRNYLHNKLYDQADKLVSKSV--YPEAASNN  244 (493)
T ss_pred             HHHHHHHHHHHHHhhcchHHHHHHHHHHHHHh-hhcCcchhHHHHHHHHHHHHhhhHHHHHHHHHhhccc--CccccccH
Confidence            33444444556666776555434433333332 333 5666666665566666654 5566655554432  23333334


Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhc
Q psy5288         117 MVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAG  152 (186)
Q Consensus       117 ~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~  152 (186)
                      ..|.++.-+|.|-.-+ ++|..|.+++-+|+...+.
T Consensus       245 e~ARY~yY~GrIkaiq-ldYssA~~~~~qa~rkapq  279 (493)
T KOG2581|consen  245 EWARYLYYLGRIKAIQ-LDYSSALEYFLQALRKAPQ  279 (493)
T ss_pred             HHHHHHHHHhhHHHhh-cchhHHHHHHHHHHHhCcc
Confidence            7888999999999887 8999999999999999885

>PF07721 TPR_4: Tetratricopeptide repeat; InterPro: IPR011717 This entry includes tetratricopeptide-like repeats not detected by the IPR001440 from INTERPRO, IPR013105 from INTERPRO and IPR011716 from INTERPRO models

Probab=93.90  E-value=0.15  Score=25.01  Aligned_cols=25  Identities=16%  Similarity=0.197  Sum_probs=21.7

Q ss_pred             HHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         161 KCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       161 ~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      .+...+|.++...|++++|...+++
T Consensus         2 ~a~~~la~~~~~~G~~~eA~~~l~~   26 (26)
T PF07721_consen    2 RARLALARALLAQGDPDEAERLLRR   26 (26)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHhC
Confidence            3567899999999999999998864

The tetratricopeptide repeat (TPR) motif is a protein-protein interaction module found in multiple copies in a number of functionally different proteins that facilitates specific interactions with a partner protein(s) [].; GO: 0042802 identical protein binding

>smart00028 TPR Tetratricopeptide repeats

Probab=93.83  E-value=0.09  Score=25.57  Aligned_cols=25  Identities=24%  Similarity=0.400  Sum_probs=22.3

Q ss_pred             HHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         161 KCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       161 ~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      .++.++|.++...|++++|+..|++
T Consensus         2 ~~~~~~a~~~~~~~~~~~a~~~~~~   26 (34)
T smart00028        2 EALYNLGNAYLKLGDYDEALEYYEK   26 (34)
T ss_pred             hHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            4678999999999999999999875

Repeats present in 4 or more copies in proteins. Contain a minimum of 34 amino acids each and self-associate via a "knobs and holes" mechanism.

>KOG4507|consensus

Probab=93.73  E-value=0.084  Score=45.84  Aligned_cols=95  Identities=15%  Similarity=0.118  Sum_probs=73.8

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHH
Q psy5288          47 GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENI  125 (186)
Q Consensus        47 g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~l  125 (186)
                      |.-.+..|+...|+.|...|...     .|.+.-...-+++.+..+. -...|-.++.+++.|.-..      .-.+..+
T Consensus       614 glywr~~gn~~~a~~cl~~a~~~-----~p~~~~v~~v~la~~~~~~~~~~da~~~l~q~l~~~~se------pl~~~~~  682 (886)
T KOG4507|consen  614 GLYWRAVGNSTFAIACLQRALNL-----APLQQDVPLVNLANLLIHYGLHLDATKLLLQALAINSSE------PLTFLSL  682 (886)
T ss_pred             cceeeecCCcHHHHHHHHHHhcc-----ChhhhcccHHHHHHHHHHhhhhccHHHHHHHHHhhcccC------chHHHhc
Confidence            33455689999999999998876     5666666667788777665 6678888999998887221      2367788


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHHHhcc
Q psy5288         126 AEIYEKELEDQEKAIDHYQHAADCYAGE  153 (186)
Q Consensus       126 g~~y~~~lg~~~~Ai~~y~kA~~l~~~~  153 (186)
                      |++|.- |.+.+.|++.+.+|+++.++.
T Consensus       683 g~~~l~-l~~i~~a~~~~~~a~~~~~~~  709 (886)
T KOG4507|consen  683 GNAYLA-LKNISGALEAFRQALKLTTKC  709 (886)
T ss_pred             chhHHH-HhhhHHHHHHHHHHHhcCCCC
Confidence            999998 799999999999999987653

>KOG1538|consensus

Probab=93.36  E-value=2.2  Score=37.93  Aligned_cols=135  Identities=7%  Similarity=-0.013  Sum_probs=67.4

Q ss_pred             HHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC------C-HHH-----------HHHHHHHHHHHHHH
Q psy5288          50 FKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS------N-PAE-----------AIKAIERAVEIHTD  111 (186)
Q Consensus        50 ~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~------~-~~~-----------A~~~~~~Al~i~~~  111 (186)
                      |...|..++--..-.|=++..+..+.|.-++..+..+|+.-...      . .+-           -.+-.+.....++.
T Consensus       680 ~~~~g~~~eKKmL~RKRA~WAr~~kePkaAAEmLiSaGe~~KAi~i~~d~gW~d~lidI~rkld~~ere~l~~~a~ylk~  759 (1081)
T KOG1538|consen  680 FLGSGDPKEKKMLIRKRADWARNIKEPKAAAEMLISAGEHVKAIEICGDHGWVDMLIDIARKLDKAEREPLLLCATYLKK  759 (1081)
T ss_pred             HhhcCChHHHHHHHHHHHHHhhhcCCcHHHHHHhhcccchhhhhhhhhcccHHHHHHHHHhhcchhhhhHHHHHHHHHhh
Confidence            33444444444445555666666777777777777666443321      1 111           12334444445566


Q ss_pred             cCChhHHHHHHHHHHHHH------HHhcCCHHHHHHHHHHHHHHHhccCCh----HHHHHHHHHHHHHHHhccCHHHHHH
Q psy5288         112 MGRFIMVAKHHENIAEIY------EKELEDQEKAIDHYQHAADCYAGEENK----SSANKCLIKIANYSALTDHLDKAIK  181 (186)
Q Consensus       112 ~~~~~~~a~~~~~lg~~y------~~~lg~~~~Ai~~y~kA~~l~~~~~~~----~~~~~~~~~la~~y~~~g~~~~A~~  181 (186)
                      ...+..++.++.++|..-      .+ .+++++|...-++-=++.+..-.+    .....-+...-..|.+.|+-.+|..
T Consensus       760 l~~~gLAaeIF~k~gD~ksiVqlHve-~~~W~eAFalAe~hPe~~~dVy~pyaqwLAE~DrFeEAqkAfhkAGr~~EA~~  838 (1081)
T KOG1538|consen  760 LDSPGLAAEIFLKMGDLKSLVQLHVE-TQRWDEAFALAEKHPEFKDDVYMPYAQWLAENDRFEEAQKAFHKAGRQREAVQ  838 (1081)
T ss_pred             ccccchHHHHHHHhccHHHHhhheee-cccchHhHhhhhhCccccccccchHHHHhhhhhhHHHHHHHHHHhcchHHHHH
Confidence            667777777777766552      23 366777666544443332221111    0111122233334555555555555


Q ss_pred             HHHh
Q psy5288         182 LYEQ  185 (186)
Q Consensus       182 ~~~~  185 (186)
                      ++++
T Consensus       839 vLeQ  842 (1081)
T KOG1538|consen  839 VLEQ  842 (1081)
T ss_pred             HHHH
Confidence            5544

>cd02681 MIT_calpain7_1 MIT: domain contained within Microtubule Interacting and Trafficking molecules

Probab=93.28  E-value=1.2  Score=28.18  Aligned_cols=33  Identities=21%  Similarity=0.163  Sum_probs=24.9

Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhc
Q psy5288         119 AKHHENIAEIYEKELEDQEKAIDHYQHAADCYAG  152 (186)
Q Consensus       119 a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~  152 (186)
                      |.-+...|.-.-+. |+|++|+.+|++|++++..
T Consensus         6 Ai~~a~~Ave~D~~-g~y~eA~~~Y~~aie~l~~   38 (76)
T cd02681           6 AVQFARLAVQRDQE-GRYSEAVFYYKEAAQLLIY   38 (76)
T ss_pred             HHHHHHHHHHHHHc-cCHHHHHHHHHHHHHHHHH
Confidence            34444555555665 9999999999999999765

This sub-family of MIT domains is found in the nuclear thiol protease PalBH. The molecular function of the MIT domain is unclear.

>KOG4648|consensus

Probab=93.25  E-value=0.85  Score=37.46  Aligned_cols=92  Identities=23%  Similarity=0.250  Sum_probs=50.2

Q ss_pred             HHHHHHHHHHhhccCCCCccccccCCCCHHHHHHHHHHH--------------HHHHHhcCCHHHHHHHHHHHHHHHHHc
Q psy5288           8 ARQLVAEAEKKISSSSKGFFSQFTGGNKTDEAIDLYVRA--------------GNLFKLGKKWNDGGNAFLQAGTLHLKN   73 (186)
Q Consensus         8 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~A~~~y~~a--------------g~~~~~~g~~~~A~~~y~~a~~~~~~~   73 (186)
                      ++.|+.++-. ++..+-.||+    -|+|++|++||.++              +..|.++.+|..|-.-...|+.+.+. 
T Consensus        90 ~~~LL~~~SE-iKE~GN~yFK----QgKy~EAIDCYs~~ia~~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd~~-  163 (536)
T KOG4648|consen   90 AQQLLKKASE-IKERGNTYFK----QGKYEEAIDCYSTAIAVYPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALDKL-  163 (536)
T ss_pred             HHHHHHhhHH-HHHhhhhhhh----ccchhHHHHHhhhhhccCCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhhHH-
Confidence            3445555433 2213345444    48999999999998              34566777777666655555554221 


Q ss_pred             CChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHH
Q psy5288          74 NNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHT  110 (186)
Q Consensus        74 ~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~  110 (186)
                           =..+|.+=+..-..+ ...+|.+-|+.++++-.
T Consensus       164 -----Y~KAYSRR~~AR~~Lg~~~EAKkD~E~vL~LEP  196 (536)
T KOG4648|consen  164 -----YVKAYSRRMQARESLGNNMEAKKDCETVLALEP  196 (536)
T ss_pred             -----HHHHHHHHHHHHHHHhhHHHHHHhHHHHHhhCc
Confidence                 122233322222222 45666666666666543

>KOG4507|consensus

Probab=93.17  E-value=0.15  Score=44.35  Aligned_cols=88  Identities=16%  Similarity=0.151  Sum_probs=69.3

Q ss_pred             HHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHH
Q psy5288          86 AANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLI  164 (186)
Q Consensus        86 a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~  164 (186)
                      +|..++.. ++..|+.|++.|+..-....+     ..+++|+.+.... |....|-.++.+++.+.-..      .-.+.
T Consensus       613 aglywr~~gn~~~a~~cl~~a~~~~p~~~~-----v~~v~la~~~~~~-~~~~da~~~l~q~l~~~~se------pl~~~  680 (886)
T KOG4507|consen  613 AGLYWRAVGNSTFAIACLQRALNLAPLQQD-----VPLVNLANLLIHY-GLHLDATKLLLQALAINSSE------PLTFL  680 (886)
T ss_pred             ccceeeecCCcHHHHHHHHHHhccChhhhc-----ccHHHHHHHHHHh-hhhccHHHHHHHHHhhcccC------chHHH
Confidence            34444444 889999999999876655544     3578899998885 88999999999999996322      25667


Q ss_pred             HHHHHHHhccCHHHHHHHHHh
Q psy5288         165 KIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       165 ~la~~y~~~g~~~~A~~~~~~  185 (186)
                      .+|+.|..+.+.++|++.|.+
T Consensus       681 ~~g~~~l~l~~i~~a~~~~~~  701 (886)
T KOG4507|consen  681 SLGNAYLALKNISGALEAFRQ  701 (886)
T ss_pred             hcchhHHHHhhhHHHHHHHHH
Confidence            889999999999999999865

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=92.82  E-value=3.2  Score=31.31  Aligned_cols=91  Identities=15%  Similarity=0.099  Sum_probs=68.5

Q ss_pred             HHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHH
Q psy5288          85 DAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCL  163 (186)
Q Consensus        85 ~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~  163 (186)
                      .++....++ ++.+|..+|++|+.     |-+..-+..+..+++..-. ++++..|...+++..+..+.-..+    ...
T Consensus        94 rLa~al~elGr~~EA~~hy~qals-----G~fA~d~a~lLglA~Aqfa-~~~~A~a~~tLe~l~e~~pa~r~p----d~~  163 (251)
T COG4700          94 RLANALAELGRYHEAVPHYQQALS-----GIFAHDAAMLLGLAQAQFA-IQEFAAAQQTLEDLMEYNPAFRSP----DGH  163 (251)
T ss_pred             HHHHHHHHhhhhhhhHHHHHHHhc-----cccCCCHHHHHHHHHHHHh-hccHHHHHHHHHHHhhcCCccCCC----Cch
Confidence            445544444 88999999999864     4444445677788888777 699999999999999986543332    556


Q ss_pred             HHHHHHHHhccCHHHHHHHHHh
Q psy5288         164 IKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       164 ~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      .-+|.+|..+|++.+|...|+.
T Consensus       164 Ll~aR~laa~g~~a~Aesafe~  185 (251)
T COG4700         164 LLFARTLAAQGKYADAESAFEV  185 (251)
T ss_pred             HHHHHHHHhcCCchhHHHHHHH
Confidence            7789999999999998887763

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=92.76  E-value=4  Score=32.26  Aligned_cols=128  Identities=15%  Similarity=0.095  Sum_probs=77.5

Q ss_pred             hcCCHHHHHHHHHHHHHHHHHcCChh---HHHHHHHHHHHHHh-cC-CHHHHHHHHHHHHHHHHH---cC----C-hhHH
Q psy5288          52 LGKKWNDGGNAFLQAGTLHLKNNNKH---DAGLCFVDAANCYK-KS-NPAEAIKAIERAVEIHTD---MG----R-FIMV  118 (186)
Q Consensus        52 ~~g~~~~A~~~y~~a~~~~~~~~~~~---~aa~~~~~a~~~y~-~~-~~~~A~~~~~~Al~i~~~---~~----~-~~~~  118 (186)
                      ..|+++-|..++.|+-.+.. ..+|.   .-+..+.++|.... +. ++++|+.++++|.++...   .+    + ....
T Consensus         5 ~~~~~~~A~~~~~K~~~~~~-~~~~~~~~~La~~~yn~G~~l~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~elr   83 (278)
T PF08631_consen    5 KQGDLDLAEHMYSKAKDLLN-SLDPDMAEELARVCYNIGKSLLSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSELR   83 (278)
T ss_pred             hhCCHHHHHHHHHHhhhHHh-cCCcHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHHHH
Confidence            56788888888888877765 22333   33566667776554 45 899999999999999744   21    1 1466


Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhcc-CChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         119 AKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGE-ENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       119 a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~-~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ..++..++.+|.+. +.++.... -.+++++..+. ++++..  .+..+ .+..+.++.+.+.+.+.+
T Consensus        84 ~~iL~~La~~~l~~-~~~~~~~k-a~~~l~~l~~e~~~~~~~--~~L~l-~il~~~~~~~~~~~~L~~  146 (278)
T PF08631_consen   84 LSILRLLANAYLEW-DTYESVEK-ALNALRLLESEYGNKPEV--FLLKL-EILLKSFDEEEYEEILMR  146 (278)
T ss_pred             HHHHHHHHHHHHcC-CChHHHHH-HHHHHHHHHHhCCCCcHH--HHHHH-HHHhccCChhHHHHHHHH
Confidence            77889999999884 76654333 33344443322 232221  21222 233336666666665543

It is also involved in sporulation [].

>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed

Probab=92.74  E-value=0.59  Score=35.29  Aligned_cols=61  Identities=25%  Similarity=0.329  Sum_probs=50.6

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHH
Q psy5288          79 AGLCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDH  142 (186)
Q Consensus        79 aa~~~~~a~~~y~~~~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~  142 (186)
                      .+.....+|..|.+.++++++..+-++++++....++.  ..++..|+.+|..+ ++++.|.-|
T Consensus       140 t~elq~aLAtyY~krD~~Kt~~ll~~~L~l~~~~~~~n--~eil~sLas~~~~~-~~~e~AYiw  200 (203)
T PF11207_consen  140 TAELQYALATYYTKRDPEKTIQLLLRALELSNPDDNFN--PEILKSLASIYQKL-KNYEQAYIW  200 (203)
T ss_pred             CHHHHHHHHHHHHccCHHHHHHHHHHHHHhcCCCCCCC--HHHHHHHHHHHHHh-cchhhhhhh
Confidence            35566678899998999999999999999998775544  45899999999995 999998644

>KOG2796|consensus

Probab=92.74  E-value=2.6  Score=33.47  Aligned_cols=115  Identities=14%  Similarity=0.076  Sum_probs=85.7

Q ss_pred             CCCCHHHHHHHHHHH---------------HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CH
Q psy5288          32 GGNKTDEAIDLYVRA---------------GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NP   95 (186)
Q Consensus        32 ~~~~~~~A~~~y~~a---------------g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~   95 (186)
                      |-+.|.=+.+.|.+.               |.+-+..||.+.|-.+|++.-+...+++.-....-...+.+.+|.-. ++
T Consensus       189 G~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a~i~lg~nn~  268 (366)
T KOG2796|consen  189 GMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSAFLHLGQNNF  268 (366)
T ss_pred             cchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhhhheecccch
Confidence            456666666666555               55666788888888888877777777777777777777778888766 88


Q ss_pred             HHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhcc
Q psy5288          96 AEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGE  153 (186)
Q Consensus        96 ~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~  153 (186)
                      .+|...|.+.+.....      -+.+-++.|.|... +|+...|++..+.+++..+..
T Consensus       269 a~a~r~~~~i~~~D~~------~~~a~NnKALcllY-lg~l~DAiK~~e~~~~~~P~~  319 (366)
T KOG2796|consen  269 AEAHRFFTEILRMDPR------NAVANNNKALCLLY-LGKLKDALKQLEAMVQQDPRH  319 (366)
T ss_pred             HHHHHHHhhccccCCC------chhhhchHHHHHHH-HHHHHHHHHHHHHHhccCCcc
Confidence            9999988776543221      24466778888888 699999999999999987753

>PF10579 Rapsyn_N: Rapsyn N-terminal myristoylation and linker region; InterPro: IPR019568 Neuromuscular junction formation relies upon the clustering of acetylcholine receptors and other proteins in the muscle membrane

Probab=92.70  E-value=1.7  Score=27.72  Aligned_cols=65  Identities=11%  Similarity=0.041  Sum_probs=48.9

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCC
Q psy5288          87 ANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEEN  155 (186)
Q Consensus        87 ~~~y~~~~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~  155 (186)
                      ..+|...+.++|+..++++++-...   .++.-.++--+..+|.+. |+|.+.+.+-.+=+++.++.++
T Consensus        14 lkLY~~~~~~~Al~~W~~aL~k~~~---~~~rf~~lG~l~qA~~e~-Gkyr~~L~fA~~Q~~~A~eled   78 (80)
T PF10579_consen   14 LKLYHQNETQQALQKWRKALEKITD---REDRFRVLGYLIQAHMEW-GKYREMLAFALQQLEIAEELED   78 (80)
T ss_pred             HHHhccchHHHHHHHHHHHHhhcCC---hHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHccC
Confidence            4566555778999999998876654   334556677788888986 9999999998888888766544

Rapsyn is a peripheral membrane protein that is selectively concentrated at the neuromuscular junction and is essential for the formation of synaptic acetylcholine receptor aggregates. Acetylcholine receptors fail to aggregate beneath nerve terminals in mice where rapsyn has been knocked out. The N-terminal six amino acids of rapsyn are its myristoylation site, and myristoylation is necessary for the targeting of the protein to the membrane []. ; GO: 0008270 zinc ion binding, 0033130 acetylcholine receptor binding, 0007268 synaptic transmission, 0005856 cytoskeleton, 0030054 cell junction, 0045211 postsynaptic membrane

>KOG1308|consensus

Probab=92.56  E-value=0.11  Score=42.29  Aligned_cols=119  Identities=16%  Similarity=0.158  Sum_probs=81.4

Q ss_pred             HHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHH
Q psy5288          50 FKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEI  128 (186)
Q Consensus        50 ~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~  128 (186)
                      +...|.+++|++.|.+++.+      ....+..|.+=+.+|.++ .+..|++-|..|++|..+.-.      -+---|..
T Consensus       124 Aln~G~~~~ai~~~t~ai~l------np~~a~l~~kr~sv~lkl~kp~~airD~d~A~ein~Dsa~------~ykfrg~A  191 (377)
T KOG1308|consen  124 ALNDGEFDTAIELFTSAIEL------NPPLAILYAKRASVFLKLKKPNAAIRDCDFAIEINPDSAK------GYKFRGYA  191 (377)
T ss_pred             HhcCcchhhhhccccccccc------CCchhhhcccccceeeeccCCchhhhhhhhhhccCccccc------ccchhhHH
Confidence            55678899999999999887      345566777778888887 889999999999988766532      22223444


Q ss_pred             HHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHH
Q psy5288         129 YEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIK  181 (186)
Q Consensus       129 y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~  181 (186)
                      ... ||++++|...+..|..+--......+...+.-+...+-.-.+.++++.+
T Consensus       192 ~rl-lg~~e~aa~dl~~a~kld~dE~~~a~lKeV~p~a~ki~e~~~k~er~~~  243 (377)
T KOG1308|consen  192 ERL-LGNWEEAAHDLALACKLDYDEANSATLKEVFPNAGKIEEHRRKYERARE  243 (377)
T ss_pred             HHH-hhchHHHHHHHHHHHhccccHHHHHHHHHhccchhhhhhchhHHHHHHH
Confidence            455 6999999999999988844433334444454555544444455555543

>KOG1497|consensus

Probab=92.46  E-value=2.8  Score=34.08  Aligned_cols=104  Identities=15%  Similarity=0.099  Sum_probs=66.2

Q ss_pred             HHHHHHHHHHHhcC-CHHHHHHHHHHHHHHH--HHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCCh
Q psy5288          80 GLCFVDAANCYKKS-NPAEAIKAIERAVEIH--TDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENK  156 (186)
Q Consensus        80 a~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~--~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~  156 (186)
                      +.+-..++.+|.+. ++..|...+. +++..  ....+...-...+.++|.+|.+. ++..+|-.+-.++-=+.....++
T Consensus       103 ~~irl~LAsiYE~Eq~~~~aaq~L~-~I~~~tg~~~~d~~~kl~l~iriarlyLe~-~d~veae~~inRaSil~a~~~Ne  180 (399)
T KOG1497|consen  103 ASIRLHLASIYEKEQNWRDAAQVLV-GIPLDTGQKAYDVEQKLLLCIRIARLYLED-DDKVEAEAYINRASILQAESSNE  180 (399)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHh-ccCcccchhhhhhHHHHHHHHHHHHHHHhc-CcHHHHHHHHHHHHHhhhcccCH
Confidence            34444556666554 5555444332 11111  12223445556778999999995 99999999998887776655555


Q ss_pred             HHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         157 SSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       157 ~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ......-.--|.++-..++|-+|...|.+
T Consensus       181 ~Lqie~kvc~ARvlD~krkFlEAAqrYye  209 (399)
T KOG1497|consen  181 QLQIEYKVCYARVLDYKRKFLEAAQRYYE  209 (399)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444445557777888899888887755

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=92.46  E-value=4.3  Score=31.82  Aligned_cols=142  Identities=14%  Similarity=0.100  Sum_probs=92.5

Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChh
Q psy5288          38 EAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFI  116 (186)
Q Consensus        38 ~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~  116 (186)
                      .+.++|.++... ...|++++|++.|++...-  ..+.+.. -.+...++..+.+. ++++|+....+=+.++....+  
T Consensus        33 p~~~LY~~g~~~-L~~gn~~~A~~~fe~l~~~--~p~s~~~-~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n--  106 (254)
T COG4105          33 PASELYNEGLTE-LQKGNYEEAIKYFEALDSR--HPFSPYS-EQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPN--  106 (254)
T ss_pred             CHHHHHHHHHHH-HhcCCHHHHHHHHHHHHHc--CCCCccc-HHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCC--
Confidence            466777776544 4579999999999887743  2333333 33444566666554 999999998876666655544  


Q ss_pred             HHHHHHHHHHHHHHHhc-------CCHHHHHHHHHHHHHHHhccCChHH-----------HHHHHHHHHHHHHhccCHHH
Q psy5288         117 MVAKHHENIAEIYEKEL-------EDQEKAIDHYQHAADCYAGEENKSS-----------ANKCLIKIANYSALTDHLDK  178 (186)
Q Consensus       117 ~~a~~~~~lg~~y~~~l-------g~~~~Ai~~y~kA~~l~~~~~~~~~-----------~~~~~~~la~~y~~~g~~~~  178 (186)
                       +.-++.-.|.++...+       .-...|+..+++.+.-|+++.-...           .+..-..+|..|.+.|.+.-
T Consensus       107 -~dY~~YlkgLs~~~~i~~~~rDq~~~~~A~~~f~~~i~ryPnS~Ya~dA~~~i~~~~d~LA~~Em~IaryY~kr~~~~A  185 (254)
T COG4105         107 -ADYAYYLKGLSYFFQIDDVTRDQSAARAAFAAFKELVQRYPNSRYAPDAKARIVKLNDALAGHEMAIARYYLKRGAYVA  185 (254)
T ss_pred             -hhHHHHHHHHHHhccCCccccCHHHHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcChHH
Confidence             5555666666654321       2245667777777777876421111           11233567889999999999


Q ss_pred             HHHHHHhC
Q psy5288         179 AIKLYEQL  186 (186)
Q Consensus       179 A~~~~~~~  186 (186)
                      |+..+++|
T Consensus       186 A~nR~~~v  193 (254)
T COG4105         186 AINRFEEV  193 (254)
T ss_pred             HHHHHHHH
Confidence            99988764

>KOG1497|consensus

Probab=92.45  E-value=3.6  Score=33.46  Aligned_cols=108  Identities=14%  Similarity=0.227  Sum_probs=74.1

Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHH--HHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcC
Q psy5288          37 DEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLH--LKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMG  113 (186)
Q Consensus        37 ~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~--~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~  113 (186)
                      +.++-+-.+.+.+|..-+++..|++...-. ...  ++..+.+.....+.++++.|.+. +..+|..+..++.-+.....
T Consensus       100 Eqv~~irl~LAsiYE~Eq~~~~aaq~L~~I-~~~tg~~~~d~~~kl~l~iriarlyLe~~d~veae~~inRaSil~a~~~  178 (399)
T KOG1497|consen  100 EQVASIRLHLASIYEKEQNWRDAAQVLVGI-PLDTGQKAYDVEQKLLLCIRIARLYLEDDDKVEAEAYINRASILQAESS  178 (399)
T ss_pred             HHHHHHHHHHHHHHHHhhhHHHHHHHHhcc-CcccchhhhhhHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhhccc
Confidence            456666777788898888888887765321 111  12224445567788999999988 68899888888877766666


Q ss_pred             ChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q psy5288         114 RFIMVAKHHENIAEIYEKELEDQEKAIDHYQHA  146 (186)
Q Consensus       114 ~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA  146 (186)
                      +....-.+-.--|++.-.. +++=+|...|.+.
T Consensus       179 Ne~Lqie~kvc~ARvlD~k-rkFlEAAqrYyel  210 (399)
T KOG1497|consen  179 NEQLQIEYKVCYARVLDYK-RKFLEAAQRYYEL  210 (399)
T ss_pred             CHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHH
Confidence            7666666666667776664 6776666666543

>KOG4521|consensus

Probab=92.34  E-value=6.8  Score=37.12  Aligned_cols=139  Identities=14%  Similarity=0.091  Sum_probs=79.7

Q ss_pred             ccccCCCCHHHHHHHHHHH---------------HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHH--
Q psy5288          28 SQFTGGNKTDEAIDLYVRA---------------GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCY--   90 (186)
Q Consensus        28 ~~~~~~~~~~~A~~~y~~a---------------g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y--   90 (186)
                      -++|+...|.-..++.+-.               |..|...|...+|++||.+|++-       .+...++.++..-.  
T Consensus       893 e~lfg~cqy~~lqdy~~llh~wc~vlk~v~rfmlg~~yl~tge~~kAl~cF~~a~Sg-------~ge~~aL~~lv~~~~p  965 (1480)
T KOG4521|consen  893 ERLFGQCQYKVLQDYLNLLHSWCRVLKPVIRFMLGIAYLGTGEPVKALNCFQSALSG-------FGEGNALRKLVYFLLP  965 (1480)
T ss_pred             hhhhcchhHHHHHHHHHHhhhhhhhhHHHHHHhhheeeecCCchHHHHHHHHHHhhc-------cccHHHHHHHHHHhcC
Confidence            5567777777776665443               45577889999999999998874       22233444443321  


Q ss_pred             -----hcC----CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCC--HHHH------------HHHHHHHH
Q psy5288          91 -----KKS----NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELED--QEKA------------IDHYQHAA  147 (186)
Q Consensus        91 -----~~~----~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~--~~~A------------i~~y~kA~  147 (186)
                           ...    ....|+++|.++++++...|-.+.+-+.-...-   +. +++  ...|            ..++.+|+
T Consensus       966 ~~~sv~dG~t~s~e~t~lhYYlkv~rlle~hn~~E~vcQlA~~AI---e~-l~dd~ps~a~~~t~vFnhhldlgh~~qAy 1041 (1480)
T KOG4521|consen  966 KRFSVADGKTPSEELTALHYYLKVVRLLEEHNHAEEVCQLAVKAI---EN-LPDDNPSVALISTTVFNHHLDLGHWFQAY 1041 (1480)
T ss_pred             CCCchhcCCCCCchHHHHHHHHHHHHHHHHhccHHHHHHHHHHHH---Hh-CCCcchhHHHHHHHHHHhhhchhhHHHHH
Confidence                 111    235678888888888877776555433221111   11 111  1111            12234455


Q ss_pred             HHHhccCChHHHHHHHHHHHHHHHhccCHH
Q psy5288         148 DCYAGEENKSSANKCLIKIANYSALTDHLD  177 (186)
Q Consensus       148 ~l~~~~~~~~~~~~~~~~la~~y~~~g~~~  177 (186)
                      ...-++.+......|+..+-.++..-|+.+
T Consensus      1042 ~ai~~npdserrrdcLRqlvivLfecg~l~ 1071 (1480)
T KOG4521|consen 1042 KAILRNPDSERRRDCLRQLVIVLFECGELE 1071 (1480)
T ss_pred             HHHHcCCcHHHHHHHHHHHHHHHHhccchH
Confidence            554444444455578888888877776654

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=92.01  E-value=0.53  Score=36.25  Aligned_cols=64  Identities=13%  Similarity=0.107  Sum_probs=43.9

Q ss_pred             hhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         115 FIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       115 ~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      .+..|..+.+=|.+|-+ +|-..-|.--|.+++.|.++.      +.+++-+|.-+...|+|+-|.+.|+.
T Consensus        61 ~eeRA~l~fERGvlYDS-lGL~~LAR~DftQaLai~P~m------~~vfNyLG~Yl~~a~~fdaa~eaFds  124 (297)
T COG4785          61 DEERAQLLFERGVLYDS-LGLRALARNDFSQALAIRPDM------PEVFNYLGIYLTQAGNFDAAYEAFDS  124 (297)
T ss_pred             hHHHHHHHHHhcchhhh-hhHHHHHhhhhhhhhhcCCCc------HHHHHHHHHHHHhcccchHHHHHhhh
Confidence            34556666677777777 577777777777777776653      35667777777777777777777754

>PRK11906 transcriptional regulator; Provisional

Probab=91.91  E-value=5.3  Score=34.00  Aligned_cols=89  Identities=16%  Similarity=0.031  Sum_probs=59.2

Q ss_pred             HHHHHHHHh-cCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHH
Q psy5288          83 FVDAANCYK-KSNPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANK  161 (186)
Q Consensus        83 ~~~a~~~y~-~~~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~  161 (186)
                      +.-+|.+.- ..+++.|...+++|..+....      |..+.-.|.+.--. |+.++|+++.++|+++.+..    ....
T Consensus       341 ~~~~g~~~~~~~~~~~a~~~f~rA~~L~Pn~------A~~~~~~~~~~~~~-G~~~~a~~~i~~alrLsP~~----~~~~  409 (458)
T PRK11906        341 LAIMGLITGLSGQAKVSHILFEQAKIHSTDI------ASLYYYRALVHFHN-EKIEEARICIDKSLQLEPRR----RKAV  409 (458)
T ss_pred             HHHHHHHHHhhcchhhHHHHHHHHhhcCCcc------HHHHHHHHHHHHHc-CCHHHHHHHHHHHhccCchh----hHHH
Confidence            335555443 337899999999998876554      45677778877764 99999999999999986532    1223


Q ss_pred             HHHHHHHHHHhccCHHHHHHHH
Q psy5288         162 CLIKIANYSALTDHLDKAIKLY  183 (186)
Q Consensus       162 ~~~~la~~y~~~g~~~~A~~~~  183 (186)
                      +...+-..|.- ...++|+..|
T Consensus       410 ~~~~~~~~~~~-~~~~~~~~~~  430 (458)
T PRK11906        410 VIKECVDMYVP-NPLKNNIKLY  430 (458)
T ss_pred             HHHHHHHHHcC-CchhhhHHHH
Confidence            33333334443 3466676665

>cd02682 MIT_AAA_Arch MIT: domain contained within Microtubule Interacting and Trafficking molecules

Probab=91.90  E-value=2  Score=27.15  Aligned_cols=33  Identities=9%  Similarity=-0.061  Sum_probs=23.6

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Q psy5288          40 IDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLK   72 (186)
Q Consensus        40 ~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~   72 (186)
                      +..|-.-+.-+...|++.+|+.||.++++++.+
T Consensus         6 A~~~a~~AVe~D~~gr~~eAi~~Y~~aIe~L~q   38 (75)
T cd02682           6 ARKYAINAVKAEKEGNAEDAITNYKKAIEVLSQ   38 (75)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Confidence            334444556677888888888888888887665

This sub-family of MIT domains is found in mostly archaebacterial AAA-ATPases. The molecular function of the MIT domain is unclear.

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=91.89  E-value=10  Score=34.87  Aligned_cols=129  Identities=9%  Similarity=-0.006  Sum_probs=87.2

Q ss_pred             hcCCHHHHHHHHHHHHHHHHH-----cCChhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHH
Q psy5288          52 LGKKWNDGGNAFLQAGTLHLK-----NNNKHDAGLCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVAKHHENIA  126 (186)
Q Consensus        52 ~~g~~~~A~~~y~~a~~~~~~-----~~~~~~aa~~~~~a~~~y~~~~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg  126 (186)
                      ...++.+|-.+..++..-.+.     .++.......+.....+ ...+++.|....+.++......-. ..-..++..+|
T Consensus       427 s~~r~~ea~~li~~l~~~l~~~~~~~~~~l~ae~~aL~a~val-~~~~~e~a~~lar~al~~L~~~~~-~~r~~~~sv~~  504 (894)
T COG2909         427 SQHRLAEAETLIARLEHFLKAPMHSRQGDLLAEFQALRAQVAL-NRGDPEEAEDLARLALVQLPEAAY-RSRIVALSVLG  504 (894)
T ss_pred             HccChHHHHHHHHHHHHHhCcCcccchhhHHHHHHHHHHHHHH-hcCCHHHHHHHHHHHHHhcccccc-hhhhhhhhhhh
Confidence            455677777776666655443     22222223333221111 223789999999999887766543 33455778889


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhcc--CHHHHHHHH
Q psy5288         127 EIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTD--HLDKAIKLY  183 (186)
Q Consensus       127 ~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g--~~~~A~~~~  183 (186)
                      .+..-+ |++++|..+-.++..+.+.-+.+.....+....+.++...|  .+.+....|
T Consensus       505 ~a~~~~-G~~~~Al~~~~~a~~~a~~~~~~~l~~~~~~~~s~il~~qGq~~~a~~~~~~  562 (894)
T COG2909         505 EAAHIR-GELTQALALMQQAEQMARQHDVYHLALWSLLQQSEILEAQGQVARAEQEKAF  562 (894)
T ss_pred             HHHHHh-chHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            998885 99999999999999998887777777777788899999999  344444444

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=91.57  E-value=11  Score=34.65  Aligned_cols=166  Identities=15%  Similarity=0.082  Sum_probs=92.5

Q ss_pred             hHHhHHHHHHHHHHhhccCCCCccccccCCCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHH
Q psy5288           4 NEQKARQLVAEAEKKISSSSKGFFSQFTGGNKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCF   83 (186)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~   83 (186)
                      +++++.++...|...+.   ..         .|-.-+-++...|.+..-.|++++|.-+-..+.++.++.+.+..+.-..
T Consensus       473 ~~e~a~~lar~al~~L~---~~---------~~~~r~~~~sv~~~a~~~~G~~~~Al~~~~~a~~~a~~~~~~~l~~~~~  540 (894)
T COG2909         473 DPEEAEDLARLALVQLP---EA---------AYRSRIVALSVLGEAAHIRGELTQALALMQQAEQMARQHDVYHLALWSL  540 (894)
T ss_pred             CHHHHHHHHHHHHHhcc---cc---------cchhhhhhhhhhhHHHHHhchHHHHHHHHHHHHHHHHHcccHHHHHHHH
Confidence            34556666666666555   11         2223355677778889999999999999999999988888777666555


Q ss_pred             HHHHHHHhcC---CHHHHHHHHHHHHHHHH-HcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccC-ChHH
Q psy5288          84 VDAANCYKKS---NPAEAIKAIERAVEIHT-DMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEE-NKSS  158 (186)
Q Consensus        84 ~~a~~~y~~~---~~~~A~~~~~~Al~i~~-~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~-~~~~  158 (186)
                      ..-+.+....   .+.+....+...-.... +.....-.  ....+...+.. + +++.+-.-.-+.+++-.... .+..
T Consensus       541 ~~~s~il~~qGq~~~a~~~~~~~~~~~q~l~q~~~~~f~--~~~r~~ll~~~-~-r~~~~~~ear~~~~~~~~~~~~~~~  616 (894)
T COG2909         541 LQQSEILEAQGQVARAEQEKAFNLIREQHLEQKPRHEFL--VRIRAQLLRAW-L-RLDLAEAEARLGIEVGSVYTPQPLL  616 (894)
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHHHHHHHHhhhcccchhH--HHHHHHHHHHH-H-HHhhhhHHhhhcchhhhhcccchhH
Confidence            4445554433   23333333332222211 11111111  22222222222 1 25555555555555433222 2222


Q ss_pred             HHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         159 ANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       159 ~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ..-.+..++.++...|++++|.....+
T Consensus       617 ~~~~~~~LA~l~~~~Gdl~~A~~~l~~  643 (894)
T COG2909         617 SRLALSMLAELEFLRGDLDKALAQLDE  643 (894)
T ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHH
Confidence            112224999999999999999887654

>COG5159 RPN6 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]

Probab=91.50  E-value=6.3  Score=31.75  Aligned_cols=100  Identities=14%  Similarity=0.083  Sum_probs=51.1

Q ss_pred             HHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHH
Q psy5288          83 FVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANK  161 (186)
Q Consensus        83 ~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~  161 (186)
                      ..+++++|... ++..-.+...++-+...+...+. .+.+...+-..+...-.+++.-|...+..+++..+.......-.
T Consensus        48 vlel~~lyv~~g~~~~l~~~i~~sre~m~~ftk~k-~~KiirtLiekf~~~~dsl~dqi~v~~~~iewA~rEkr~fLr~~  126 (421)
T COG5159          48 VLELFKLYVSKGDYCSLGDTITSSREAMEDFTKPK-ITKIIRTLIEKFPYSSDSLEDQIKVLTALIEWADREKRKFLRLE  126 (421)
T ss_pred             HHHHHHHHHhcCCcchHHHHHHhhHHHHHHhcchh-HHHHHHHHHHhcCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44667777554 44433333333333333333222 22222222222222125677778888888877665433222222


Q ss_pred             HHHHHHHHHHhccCHHHHHHHH
Q psy5288         162 CLIKIANYSALTDHLDKAIKLY  183 (186)
Q Consensus       162 ~~~~la~~y~~~g~~~~A~~~~  183 (186)
                      .-.++..++.+.|.|.+|+...
T Consensus       127 Le~Kli~l~y~~~~YsdalalI  148 (421)
T COG5159         127 LECKLIYLLYKTGKYSDALALI  148 (421)
T ss_pred             HHHHHHHHHHhcccHHHHHHHH
Confidence            3356677777888888887654

>PF04212 MIT: MIT (microtubule interacting and transport) domain; InterPro: IPR007330 The MIT domain is found in vacuolar sorting proteins, spastin (probable ATPase involved in the assembly or function of nuclear protein complexes), and a sorting nexin, which may play a role in intracellular trafficking

Probab=91.45  E-value=0.81  Score=28.08  Aligned_cols=32  Identities=16%  Similarity=0.150  Sum_probs=24.4

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhc
Q psy5288         120 KHHENIAEIYEKELEDQEKAIDHYQHAADCYAG  152 (186)
Q Consensus       120 ~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~  152 (186)
                      ..+.+.|.-..+. |++++|+.+|.+|++++..
T Consensus         6 ~~~~~~Av~~D~~-g~~~~A~~~Y~~ai~~l~~   37 (69)
T PF04212_consen    6 IELIKKAVEADEA-GNYEEALELYKEAIEYLMQ   37 (69)
T ss_dssp             HHHHHHHHHHHHT-TSHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHC-CCHHHHHHHHHHHHHHHHH
Confidence            3445556666665 9999999999999998764

; PDB: 2DL1_A 2JQK_A 1WR0_A 2CPT_A 2JQH_A 2V6Y_A 2JQ9_A 2K3W_A 1YXR_A 3EAB_E ....

>KOG4814|consensus

Probab=90.97  E-value=7.8  Score=34.54  Aligned_cols=102  Identities=15%  Similarity=0.111  Sum_probs=68.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHH
Q psy5288          43 YVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKH  121 (186)
Q Consensus        43 y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~  121 (186)
                      ++.|...| +..+|..+++.|..++.-+.+-.....-+.....+.-||..+ +.|.|+++++.|-+.-+..-      -+
T Consensus       358 Wn~A~~~F-~~~~Y~~s~~~y~~Sl~~i~~D~~~~~FaK~qR~l~~CYL~L~QLD~A~E~~~EAE~~d~~~~------l~  430 (872)
T KOG4814|consen  358 WNTAKKLF-KMEKYVVSIRFYKLSLKDIISDNYSDRFAKIQRALQVCYLKLEQLDNAVEVYQEAEEVDRQSP------LC  430 (872)
T ss_pred             HHhhHHHH-HHHHHHHHHHHHHHHHHhccchhhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHhhccccH------HH
Confidence            33344444 466799999999999987655333333378888899999998 89999999999976653331      12


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHhc
Q psy5288         122 HENIAEIYEKELEDQEKAIDHYQHAADCYAG  152 (186)
Q Consensus       122 ~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~  152 (186)
                      ...+-.+.... |+-++|+.+.......+.+
T Consensus       431 q~~~~~~~~~E-~~Se~AL~~~~~~~s~~~~  460 (872)
T KOG4814|consen  431 QLLMLQSFLAE-DKSEEALTCLQKIKSSEDE  460 (872)
T ss_pred             HHHHHHHHHHh-cchHHHHHHHHHHHhhhcc
Confidence            22222233333 6788888887776666543

>KOG2114|consensus

Probab=90.92  E-value=6.2  Score=36.00  Aligned_cols=36  Identities=6%  Similarity=0.206  Sum_probs=26.1

Q ss_pred             CHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHH
Q psy5288          35 KTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLH   70 (186)
Q Consensus        35 ~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~   70 (186)
                      +-+.-.++..+.|.-....|++++|.+.|.+++...
T Consensus       363 d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~l  398 (933)
T KOG2114|consen  363 DEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGFL  398 (933)
T ss_pred             CHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHcccC
Confidence            445566667777777778888888888887776653

>KOG1464|consensus

Probab=90.77  E-value=2.8  Score=33.45  Aligned_cols=144  Identities=11%  Similarity=0.057  Sum_probs=80.0

Q ss_pred             CCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHc
Q psy5288          34 NKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDM  112 (186)
Q Consensus        34 ~~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~  112 (186)
                      ++++---.+|+.-|..   ..++++|+..|.+.+++--.-|.+.  -.++....+++..+ ++++-++.|.+.+...+..
T Consensus        24 pdVDlENQYYnsK~l~---e~~p~~Al~sF~kVlelEgEKgeWG--FKALKQmiKI~f~l~~~~eMm~~Y~qlLTYIkSA   98 (440)
T KOG1464|consen   24 PDVDLENQYYNSKGLK---EDEPKEALSSFQKVLELEGEKGEWG--FKALKQMIKINFRLGNYKEMMERYKQLLTYIKSA   98 (440)
T ss_pred             CCcchHhhhhcccccc---ccCHHHHHHHHHHHHhcccccchhH--HHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHH
Confidence            3444444444443322   3467777777777777642222222  23455566666655 7888888888877765432


Q ss_pred             --CChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         113 --GRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       113 --~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                        .+++.-  +.+.+-..-... .+.+--.++|+.-++..+...+...--.+..+||.+|...|+|.+--+.+.+
T Consensus        99 VTrNySEK--sIN~IlDyiStS-~~m~LLQ~FYeTTL~ALkdAKNeRLWFKTNtKLgkl~fd~~e~~kl~KIlkq  170 (440)
T KOG1464|consen   99 VTRNYSEK--SINSILDYISTS-KNMDLLQEFYETTLDALKDAKNERLWFKTNTKLGKLYFDRGEYTKLQKILKQ  170 (440)
T ss_pred             HhccccHH--HHHHHHHHHhhh-hhhHHHHHHHHHHHHHHHhhhcceeeeeccchHhhhheeHHHHHHHHHHHHH
Confidence              222211  222222222222 4566666777777777665433222124667888888888888776666543

>cd02680 MIT_calpain7_2 MIT: domain contained within Microtubule Interacting and Trafficking molecules

Probab=90.76  E-value=2.3  Score=26.83  Aligned_cols=34  Identities=21%  Similarity=0.292  Sum_probs=24.3

Q ss_pred             cCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHH
Q psy5288         133 LEDQEKAIDHYQHAADCYAGEENKSSANKCLIKI  166 (186)
Q Consensus       133 lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~l  166 (186)
                      -|+|++|+.+|.+|++++-...++........++
T Consensus        19 ~gny~eA~~lY~~ale~~~~ekn~~~k~~i~~K~   52 (75)
T cd02680          19 KGNAEEAIELYTEAVELCINTSNETMDQALQTKL   52 (75)
T ss_pred             hhhHHHHHHHHHHHHHHHHHhcChhhHHHHHHHH
Confidence            4999999999999999987654443333333343

This sub-family of MIT domains is found in the nuclear thiol protease PalBH. The molecular function of the MIT domain is unclear.

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=90.72  E-value=0.33  Score=27.31  Aligned_cols=23  Identities=22%  Similarity=0.276  Sum_probs=20.4

Q ss_pred             HHHHHHHHhccCHHHHHHHHHhC
Q psy5288         164 IKIANYSALTDHLDKAIKLYEQL  186 (186)
Q Consensus       164 ~~la~~y~~~g~~~~A~~~~~~~  186 (186)
                      .++|..|+..|+++.|.+.+++|
T Consensus         3 LdLA~ayie~Gd~e~Ar~lL~ev   25 (44)
T TIGR03504         3 LDLARAYIEMGDLEGARELLEEV   25 (44)
T ss_pred             hHHHHHHHHcCChHHHHHHHHHH
Confidence            57899999999999999998764

This protein is found at the extreme C-terminus of FimV from Pseudomonas aeruginosa, and of TspA of Neisseria meningitidis. Disruption of the former blocks twitching motility from type IV pili; Semmler, et al. suggest a role in peptidoglycan layer remodelling required by type IV fimbrial systems.

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=90.69  E-value=10  Score=32.72  Aligned_cols=119  Identities=17%  Similarity=0.145  Sum_probs=68.6

Q ss_pred             HHHHHHHHHHHHHHhcC-----CHHHHHHHHHHHHHHHHH-cCChh---------H---------HHHHHHHHHHHHhcC
Q psy5288          38 EAIDLYVRAGNLFKLGK-----KWNDGGNAFLQAGTLHLK-NNNKH---------D---------AGLCFVDAANCYKKS   93 (186)
Q Consensus        38 ~A~~~y~~ag~~~~~~g-----~~~~A~~~y~~a~~~~~~-~~~~~---------~---------aa~~~~~a~~~y~~~   93 (186)
                      +|++.....+..|-.+.     -..+|.++|.++.+.-+. +|...         +         -..+-.+++.|..++
T Consensus       193 eALei~pdCAdAYILLAEEeA~Ti~Eae~l~rqAvkAgE~~lg~s~~~~~~g~~~e~~~~Rdt~~~~y~KrRLAmCarkl  272 (539)
T PF04184_consen  193 EALEINPDCADAYILLAEEEASTIVEAEELLRQAVKAGEASLGKSQFLQHHGHFWEAWHRRDTNVLVYAKRRLAMCARKL  272 (539)
T ss_pred             HHHHhhhhhhHHHhhcccccccCHHHHHHHHHHHHHHHHHhhchhhhhhcccchhhhhhccccchhhhhHHHHHHHHHHh
Confidence            44444444444443322     367778888877776553 11100         0         011122456666665


Q ss_pred             -CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHH
Q psy5288          94 -NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIK  165 (186)
Q Consensus        94 -~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~  165 (186)
                       +.++|++.++.-++.+...+    .-.+..+|-.++.. ++.|.++...+.+    |.+...+..+.-||..
T Consensus       273 Gr~~EAIk~~rdLlke~p~~~----~l~IrenLie~LLe-lq~Yad~q~lL~k----YdDi~lpkSAti~YTa  336 (539)
T PF04184_consen  273 GRLREAIKMFRDLLKEFPNLD----NLNIRENLIEALLE-LQAYADVQALLAK----YDDISLPKSATICYTA  336 (539)
T ss_pred             CChHHHHHHHHHHHhhCCccc----hhhHHHHHHHHHHh-cCCHHHHHHHHHH----hccccCCchHHHHHHH
Confidence             88999999987665554222    24478888888888 4888888777666    3444344445555544

The molecular function of this protein is uncertain.

>KOG1915|consensus

Probab=90.55  E-value=6.2  Score=33.97  Aligned_cols=85  Identities=15%  Similarity=0.079  Sum_probs=46.4

Q ss_pred             hcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHH
Q psy5288          52 LGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYE  130 (186)
Q Consensus        52 ~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~  130 (186)
                      .++++..|...|++|++.     + ..-...+.+-+.+=++. ....|...+.+|+.+.+..+.      .+.+--.+-+
T Consensus        85 sq~e~~RARSv~ERALdv-----d-~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVdq------lWyKY~ymEE  152 (677)
T KOG1915|consen   85 SQKEIQRARSVFERALDV-----D-YRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVDQ------LWYKYIYMEE  152 (677)
T ss_pred             hHHHHHHHHHHHHHHHhc-----c-cccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHHH------HHHHHHHHHH
Confidence            344556666666666664     2 22344555666665555 567888888888887654433      2333333333


Q ss_pred             HhcCCHHHHHHHHHHHHHH
Q psy5288         131 KELEDQEKAIDHYQHAADC  149 (186)
Q Consensus       131 ~~lg~~~~Ai~~y~kA~~l  149 (186)
                      . ||+..-|.+.|++=+++
T Consensus       153 ~-LgNi~gaRqiferW~~w  170 (677)
T KOG1915|consen  153 M-LGNIAGARQIFERWMEW  170 (677)
T ss_pred             H-hcccHHHHHHHHHHHcC
Confidence            3 45555555555444443

>PF10373 EST1_DNA_bind: Est1 DNA/RNA binding domain; InterPro: IPR018834 Est1 is a protein which recruits or activates telomerase at the site of polymerisation [, ]

Probab=90.53  E-value=0.63  Score=36.33  Aligned_cols=62  Identities=11%  Similarity=0.070  Sum_probs=46.8

Q ss_pred             HHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHh
Q psy5288          98 AIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSAL  172 (186)
Q Consensus        98 A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~  172 (186)
                      |.++|.+|..+.+..|+      .++.+|.++... |+.=.|+-+|-+++-.  ....    .....||..++.+
T Consensus         1 A~~~Y~~A~~l~P~~G~------p~nQLAvl~~~~-~~~l~avy~y~Rsl~~--~~Pf----~~A~~NL~~lf~~   62 (278)
T PF10373_consen    1 AERYYRKAIRLLPSNGN------PYNQLAVLASYQ-GDDLDAVYYYIRSLAV--RIPF----PSARENLQKLFEK   62 (278)
T ss_dssp             HHHHHHHHHHH-TTBSH------HHHHHHHHHHHT-T-HHHHHHHHHHHHSS--SB------HHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHhCCCCCC------cccchhhhhccc-cchHHHHHHHHHHHhc--CCCc----HHHHHHHHHHHHH
Confidence            68999999999999998      688899999996 9999999999999953  2211    2345666666665

This is the DNA/RNA binding domain of EST1 []. ; PDB: 1YA0_B.

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=90.46  E-value=0.52  Score=36.29  Aligned_cols=95  Identities=9%  Similarity=0.051  Sum_probs=64.1

Q ss_pred             hhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccC
Q psy5288          76 KHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEE  154 (186)
Q Consensus        76 ~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~  154 (186)
                      ++.-+..+.+=|..|..+ -..-|..-|.+++.|.+++      +.+++-+|..+... |+++-|.+.|...+++.+..+
T Consensus        61 ~eeRA~l~fERGvlYDSlGL~~LAR~DftQaLai~P~m------~~vfNyLG~Yl~~a-~~fdaa~eaFds~~ELDp~y~  133 (297)
T COG4785          61 DEERAQLLFERGVLYDSLGLRALARNDFSQALAIRPDM------PEVFNYLGIYLTQA-GNFDAAYEAFDSVLELDPTYN  133 (297)
T ss_pred             hHHHHHHHHHhcchhhhhhHHHHHhhhhhhhhhcCCCc------HHHHHHHHHHHHhc-ccchHHHHHhhhHhccCCcch
Confidence            344455666777777776 4456666677777766554      55788888888875 899999999888888865432


Q ss_pred             ChHHHHHHHHHHHHHHHhccCHHHHHHHH
Q psy5288         155 NKSSANKCLIKIANYSALTDHLDKAIKLY  183 (186)
Q Consensus       155 ~~~~~~~~~~~la~~y~~~g~~~~A~~~~  183 (186)
                            -...|-|..+.--|+|+-|.+-|
T Consensus       134 ------Ya~lNRgi~~YY~gR~~LAq~d~  156 (297)
T COG4785         134 ------YAHLNRGIALYYGGRYKLAQDDL  156 (297)
T ss_pred             ------HHHhccceeeeecCchHhhHHHH
Confidence                  34455565555666666665544

>PF10952 DUF2753: Protein of unknown function (DUF2753); InterPro: IPR020206 This entry represents a group of uncharacterised proteins

Probab=90.42  E-value=2.1  Score=29.80  Aligned_cols=62  Identities=23%  Similarity=0.222  Sum_probs=46.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccC--ChH-------HHHHHHHHHHHHHHhccCHHHHHHHHH
Q psy5288         122 HENIAEIYEKELEDQEKAIDHYQHAADCYAGEE--NKS-------SANKCLIKIANYSALTDHLDKAIKLYE  184 (186)
Q Consensus       122 ~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~--~~~-------~~~~~~~~la~~y~~~g~~~~A~~~~~  184 (186)
                      +..+|....+. +++-.+|-+|++|+.+.++..  +..       .......|||..++..|+-+=.++|++
T Consensus         4 htllAd~a~~~-~~~l~si~hYQqAls~se~~~~~~~~el~dll~i~VisCHNLA~FWR~~gd~~yELkYLq   74 (140)
T PF10952_consen    4 HTLLADQAFKE-ADPLRSILHYQQALSLSEEIDESNEIELEDLLTISVISCHNLADFWRSQGDSDYELKYLQ   74 (140)
T ss_pred             HHHHHHHHhhc-ccHHHHHHHHHHHHHHHHHhcccccccHHHHHHHHHHHHhhHHHHHHHcCChHHHHHHHH
Confidence            45567777775 999999999999999987642  111       111245799999999999999888875

>PF12739 TRAPPC-Trs85: ER-Golgi trafficking TRAPP I complex 85 kDa subunit; InterPro: IPR024420 This entry represents Trs85, a subunit of the TRAPP III complex []

Probab=90.37  E-value=9.9  Score=32.01  Aligned_cols=144  Identities=13%  Similarity=0.025  Sum_probs=74.0

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC--C------HHHHHHHHHHHHHHHHHc
Q psy5288          41 DLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS--N------PAEAIKAIERAVEIHTDM  112 (186)
Q Consensus        41 ~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~--~------~~~A~~~~~~Al~i~~~~  112 (186)
                      -...++|+.....|+|+-|...|..+.+=+..-+.+...+.++.-++.+....  .      .++...+++.|+..|...
T Consensus       209 ~q~R~LAD~aFml~Dy~~A~s~Y~~~k~Df~~Dkaw~~~A~~~Em~alsl~~~~~~~~~k~~~~~~~~~le~A~~~Y~~~  288 (414)
T PF12739_consen  209 AQMRRLADLAFMLRDYELAYSTYRLLKKDFKNDKAWKYLAGAQEMAALSLLMQGQSISAKIRKDEIEPYLENAYYTYLKS  288 (414)
T ss_pred             HHHHHHHHHHHHHccHHHHHHHHHHHHHHHhhchhHHHHHhHHHHHHHHHHhcCCCCccccccccHHHHHHHHHHHHHhh
Confidence            34566788888899999999999877776644333444444554444443322  1      123344444555544441


Q ss_pred             -----CChhHHHHHHHHHHHHHHHhcCCHHHHHH---------------------HHHHHHHHH--hccCCh-------H
Q psy5288         113 -----GRFIMVAKHHENIAEIYEKELEDQEKAID---------------------HYQHAADCY--AGEENK-------S  157 (186)
Q Consensus       113 -----~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~---------------------~y~kA~~l~--~~~~~~-------~  157 (186)
                           ....-+..+..-.+.++... +.+.+|..                     .++++...+  ...+.+       +
T Consensus       289 ~~~~~~~~~~a~R~~ll~~ell~~~-~~~~~a~~~~~~~~~~~l~~~l~~~~~alllE~~a~~~~~~~~~~~~~~~~r~R  367 (414)
T PF12739_consen  289 ALPRCSLPYYALRCALLLAELLKSR-GGYWEAADQLIRWTSEILESDLRPFGSALLLEQAAYCYASLRSNRPSPGLTRFR  367 (414)
T ss_pred             hccccccccchHHHHHHHHHHHHhc-CccHHHHHHHHHHHHHHHhhhhhhHhhHHHHHHHHHhhcccccCCCCccchhhH
Confidence                 12223334444444444442 44444333                     344444444  221111       1


Q ss_pred             HHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         158 SANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       158 ~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      -.+--++--|.-|.+.|+...|+.+|.+
T Consensus       368 K~af~~vLAg~~~~~~~~~~~a~rcy~~  395 (414)
T PF12739_consen  368 KYAFHMVLAGHRYSKAGQKKHALRCYKQ  395 (414)
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            1112334445666777777777777764

Trs85 is a multimeric guanine nucleotide-exchange factor for Ypt1, required for membrane expansion during autophagy and the CVT pathway. It directs Ypt1 to the phagophore assembly site [, , , ].

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=90.29  E-value=11  Score=32.24  Aligned_cols=58  Identities=16%  Similarity=0.122  Sum_probs=33.3

Q ss_pred             HHHHHHHHHHhcC-CHHHHHHHHHHHHHH------HHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHH
Q psy5288          81 LCFVDAANCYKKS-NPAEAIKAIERAVEI------HTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHY  143 (186)
Q Consensus        81 ~~~~~a~~~y~~~-~~~~A~~~~~~Al~i------~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y  143 (186)
                      ..|..+|+..... +++-|.+||+++-+.      +.-.|+.    .-+.+|+.+-..+ |++.-|..++
T Consensus       348 ~~W~~Lg~~AL~~g~~~lAe~c~~k~~d~~~L~lLy~~~g~~----~~L~kl~~~a~~~-~~~n~af~~~  412 (443)
T PF04053_consen  348 EKWKQLGDEALRQGNIELAEECYQKAKDFSGLLLLYSSTGDR----EKLSKLAKIAEER-GDINIAFQAA  412 (443)
T ss_dssp             HHHHHHHHHHHHTTBHHHHHHHHHHCT-HHHHHHHHHHCT-H----HHHHHHHHHHHHT-T-HHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHhhcCccccHHHHHHhCCH----HHHHHHHHHHHHc-cCHHHHHHHH
Confidence            4777888887765 888888888776543      2333442    2344555555554 5555555443

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.

>cd02680 MIT_calpain7_2 MIT: domain contained within Microtubule Interacting and Trafficking molecules

Probab=90.28  E-value=3.2  Score=26.19  Aligned_cols=36  Identities=14%  Similarity=-0.033  Sum_probs=21.9

Q ss_pred             HHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Q psy5288          36 TDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLK   72 (186)
Q Consensus        36 ~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~   72 (186)
                      .++|+.+..+| .--...|++++|+++|..+++.+..
T Consensus         3 l~kai~Lv~~A-~~eD~~gny~eA~~lY~~ale~~~~   38 (75)
T cd02680           3 LERAHFLVTQA-FDEDEKGNAEEAIELYTEAVELCIN   38 (75)
T ss_pred             HHHHHHHHHHH-HHhhHhhhHHHHHHHHHHHHHHHHH
Confidence            34555555555 3344566777777777777776654

This sub-family of MIT domains is found in the nuclear thiol protease PalBH. The molecular function of the MIT domain is unclear.

>PF12854 PPR_1: PPR repeat

Probab=90.25  E-value=0.72  Score=24.11  Aligned_cols=26  Identities=12%  Similarity=0.280  Sum_probs=23.3

Q ss_pred             HHHHHHHHHHHhccCHHHHHHHHHhC
Q psy5288         161 KCLIKIANYSALTDHLDKAIKLYEQL  186 (186)
Q Consensus       161 ~~~~~la~~y~~~g~~~~A~~~~~~~  186 (186)
                      .+|.-|-..|.+.|+.++|.++|++.
T Consensus         8 ~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    8 VTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             hHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            57888899999999999999999864

>cd02682 MIT_AAA_Arch MIT: domain contained within Microtubule Interacting and Trafficking molecules

Probab=90.02  E-value=1.3  Score=27.89  Aligned_cols=33  Identities=30%  Similarity=0.322  Sum_probs=23.8

Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhc
Q psy5288         119 AKHHENIAEIYEKELEDQEKAIDHYQHAADCYAG  152 (186)
Q Consensus       119 a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~  152 (186)
                      |..+...|.-+... |++++||.+|++|++++.+
T Consensus         6 A~~~a~~AVe~D~~-gr~~eAi~~Y~~aIe~L~q   38 (75)
T cd02682           6 ARKYAINAVKAEKE-GNAEDAITNYKKAIEVLSQ   38 (75)
T ss_pred             HHHHHHHHHHHHhc-CCHHHHHHHHHHHHHHHHH
Confidence            34444555556665 8999999999998888765

This sub-family of MIT domains is found in mostly archaebacterial AAA-ATPases. The molecular function of the MIT domain is unclear.

>cd02683 MIT_1 MIT: domain contained within Microtubule Interacting and Trafficking molecules

Probab=89.80  E-value=3.6  Score=26.03  Aligned_cols=31  Identities=19%  Similarity=0.130  Sum_probs=22.9

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhc
Q psy5288         121 HHENIAEIYEKELEDQEKAIDHYQHAADCYAG  152 (186)
Q Consensus       121 ~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~  152 (186)
                      -+..-|.-.... |+|++|+.+|.+|++.+..
T Consensus         8 ~l~~~Ave~D~~-g~y~eAl~~Y~~aie~l~~   38 (77)
T cd02683           8 EVLKRAVELDQE-GRFQEALVCYQEGIDLLMQ   38 (77)
T ss_pred             HHHHHHHHHHHh-ccHHHHHHHHHHHHHHHHH
Confidence            344445555554 9999999999999998765

This sub-family of MIT domains is found in proteins with unknown function, co-occuring with an as yet undescribed domain. The molecular function of the MIT domain is unclear.

>PF04212 MIT: MIT (microtubule interacting and transport) domain; InterPro: IPR007330 The MIT domain is found in vacuolar sorting proteins, spastin (probable ATPase involved in the assembly or function of nuclear protein complexes), and a sorting nexin, which may play a role in intracellular trafficking

Probab=89.80  E-value=1.8  Score=26.50  Aligned_cols=26  Identities=4%  Similarity=-0.004  Sum_probs=18.9

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHHHHH
Q psy5288          47 GNLFKLGKKWNDGGNAFLQAGTLHLK   72 (186)
Q Consensus        47 g~~~~~~g~~~~A~~~y~~a~~~~~~   72 (186)
                      |.-+...|++++|+++|.++++.+..
T Consensus        12 Av~~D~~g~~~~A~~~Y~~ai~~l~~   37 (69)
T PF04212_consen   12 AVEADEAGNYEEALELYKEAIEYLMQ   37 (69)
T ss_dssp             HHHHHHTTSHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHH
Confidence            44566788888888888888877653

; PDB: 2DL1_A 2JQK_A 1WR0_A 2CPT_A 2JQH_A 2V6Y_A 2JQ9_A 2K3W_A 1YXR_A 3EAB_E ....

>cd02683 MIT_1 MIT: domain contained within Microtubule Interacting and Trafficking molecules

Probab=89.64  E-value=1.6  Score=27.66  Aligned_cols=35  Identities=11%  Similarity=0.115  Sum_probs=23.3

Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Q psy5288          37 DEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLK   72 (186)
Q Consensus        37 ~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~   72 (186)
                      ..|+++..+| .-....|++++|+.+|.++++.+..
T Consensus         4 ~~a~~l~~~A-ve~D~~g~y~eAl~~Y~~aie~l~~   38 (77)
T cd02683           4 LAAKEVLKRA-VELDQEGRFQEALVCYQEGIDLLMQ   38 (77)
T ss_pred             HHHHHHHHHH-HHHHHhccHHHHHHHHHHHHHHHHH
Confidence            4455555444 5566777888888888888777654

This sub-family of MIT domains is found in proteins with unknown function, co-occuring with an as yet undescribed domain. The molecular function of the MIT domain is unclear.

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=89.63  E-value=9.4  Score=30.63  Aligned_cols=86  Identities=10%  Similarity=0.071  Sum_probs=63.1

Q ss_pred             HHHHHHHHHHHHHHHc----CChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHh
Q psy5288          97 EAIKAIERAVEIHTDM----GRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSAL  172 (186)
Q Consensus        97 ~A~~~~~~Al~i~~~~----~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~  172 (186)
                      ..+..++..+.+-...    ..+...+.++...+.+.... |+++.|...+.++..+....+..  ...+...-+.++..
T Consensus       120 ~~~~~~~~il~~R~~~l~~~~~~~~~~~~~l~~a~~aRk~-g~~~~A~~~l~~~~~~~~~~~~~--~~~v~~e~akllw~  196 (352)
T PF02259_consen  120 DDFSVWEPILSLRRLVLSLILLPEELAETWLKFAKLARKA-GNFQLALSALNRLFQLNPSSESL--LPRVFLEYAKLLWA  196 (352)
T ss_pred             cchHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHC-CCcHHHHHHHHHHhccCCcccCC--CcchHHHHHHHHHH
Confidence            3445555555544333    33778888999999999996 99999999999999876433211  23566777889999


Q ss_pred             ccCHHHHHHHHHh
Q psy5288         173 TDHLDKAIKLYEQ  185 (186)
Q Consensus       173 ~g~~~~A~~~~~~  185 (186)
                      .|+..+|+..++.
T Consensus       197 ~g~~~~Ai~~L~~  209 (352)
T PF02259_consen  197 QGEQEEAIQKLRE  209 (352)
T ss_pred             cCCHHHHHHHHHH
Confidence            9999999988754

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PRK13184 pknD serine/threonine-protein kinase; Reviewed

Probab=89.17  E-value=1.6  Score=40.51  Aligned_cols=100  Identities=9%  Similarity=0.022  Sum_probs=67.1

Q ss_pred             HHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHH
Q psy5288          49 LFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAE  127 (186)
Q Consensus        49 ~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~  127 (186)
                      .|..-+.|++|+..|.+....+-.  . .+--.+..++|-..... .-..--+-+.+|+.-+..+-+..++.--|...|.
T Consensus       484 ~~~~~~~~~~~~~~~~~~~~~~~~--~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  560 (932)
T PRK13184        484 AFLAEKLYDQALIFYRRIRESFPG--R-KEGYEAQFRLGITLLEKASEQGDPRDFTQALSEFSYLHGGVGAPLEYLGKAL  560 (932)
T ss_pred             HHHhhHHHHHHHHHHHHHhhcCCC--c-ccchHHHHHhhHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCCchHHHhHHH
Confidence            344445566666666666665421  1 12234455666665443 1111116677788888778777888888888999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHHHhc
Q psy5288         128 IYEKELEDQEKAIDHYQHAADCYAG  152 (186)
Q Consensus       128 ~y~~~lg~~~~Ai~~y~kA~~l~~~  152 (186)
                      +|+. +|+|++-|.+|.-|+.-|+.
T Consensus       561 ~~~~-~~~~~~~~~~~~~~~~~~~~  584 (932)
T PRK13184        561 VYQR-LGEYNEEIKSLLLALKRYSQ  584 (932)
T ss_pred             HHHH-hhhHHHHHHHHHHHHHhcCC
Confidence            9999 59999999999999998876

>KOG2471|consensus

Probab=88.99  E-value=1.8  Score=37.22  Aligned_cols=78  Identities=18%  Similarity=0.145  Sum_probs=55.8

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHH-HHHHcCC---h--------hHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHH
Q psy5288          45 RAGNLFKLGKKWNDGGNAFLQAGT-LHLKNNN---K--------HDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTD  111 (186)
Q Consensus        45 ~ag~~~~~~g~~~~A~~~y~~a~~-~~~~~~~---~--------~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~  111 (186)
                      +.|-++..+|.|.-++.+|.+|+. ...++.+   +        ...-..+.+.|..|... +|-.|.+||.+++.++..
T Consensus       288 NlGcIh~~~~~y~~~~~~F~kAL~N~c~qL~~g~~~~~~~tls~nks~eilYNcG~~~Lh~grPl~AfqCf~~av~vfh~  367 (696)
T KOG2471|consen  288 NLGCIHYQLGCYQASSVLFLKALRNSCSQLRNGLKPAKTFTLSQNKSMEILYNCGLLYLHSGRPLLAFQCFQKAVHVFHR  367 (696)
T ss_pred             CcceEeeehhhHHHHHHHHHHHHHHHHHHHhccCCCCcceehhcccchhhHHhhhHHHHhcCCcHHHHHHHHHHHHHHhc
Confidence            345567788899999999999995 4443221   1        11224555888888877 999999999999999987


Q ss_pred             cCChhHHHHHHHHHHHH
Q psy5288         112 MGRFIMVAKHHENIAEI  128 (186)
Q Consensus       112 ~~~~~~~a~~~~~lg~~  128 (186)
                      +-.      .|.+++.+
T Consensus       368 nPr------lWLRlAEc  378 (696)
T KOG2471|consen  368 NPR------LWLRLAEC  378 (696)
T ss_pred             CcH------HHHHHHHH
Confidence            754      45555555

>cd02681 MIT_calpain7_1 MIT: domain contained within Microtubule Interacting and Trafficking molecules

Probab=88.50  E-value=4.5  Score=25.54  Aligned_cols=30  Identities=10%  Similarity=0.134  Sum_probs=21.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Q psy5288          43 YVRAGNLFKLGKKWNDGGNAFLQAGTLHLK   72 (186)
Q Consensus        43 y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~   72 (186)
                      |.+-+.-....|+|++|+.+|..+++.+..
T Consensus         9 ~a~~Ave~D~~g~y~eA~~~Y~~aie~l~~   38 (76)
T cd02681           9 FARLAVQRDQEGRYSEAVFYYKEAAQLLIY   38 (76)
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHHHHH
Confidence            344445567788888888888888887654

This sub-family of MIT domains is found in the nuclear thiol protease PalBH. The molecular function of the MIT domain is unclear.

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=88.28  E-value=0.65  Score=22.96  Aligned_cols=25  Identities=4%  Similarity=0.259  Sum_probs=21.4

Q ss_pred             HHHHHHHHHHhccCHHHHHHHHHhC
Q psy5288         162 CLIKIANYSALTDHLDKAIKLYEQL  186 (186)
Q Consensus       162 ~~~~la~~y~~~g~~~~A~~~~~~~  186 (186)
                      +|..+-..|.+.|++++|.+.|+++
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M   26 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEM   26 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHH
Confidence            4677788999999999999999863

Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.

>COG5159 RPN6 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]

Probab=88.12  E-value=12  Score=30.14  Aligned_cols=131  Identities=8%  Similarity=-0.005  Sum_probs=68.5

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC--CHHHHHHHHHHHHHHHHHcCChhHHHHHHHH
Q psy5288          47 GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS--NPAEAIKAIERAVEIHTDMGRFIMVAKHHEN  124 (186)
Q Consensus        47 g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~--~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~  124 (186)
                      +.+|-..|++..-.+.-..+-+.....-.+.. +.....+.+.+...  .++.-+..+...++-....+..-..-..-.+
T Consensus        52 ~~lyv~~g~~~~l~~~i~~sre~m~~ftk~k~-~KiirtLiekf~~~~dsl~dqi~v~~~~iewA~rEkr~fLr~~Le~K  130 (421)
T COG5159          52 FKLYVSKGDYCSLGDTITSSREAMEDFTKPKI-TKIIRTLIEKFPYSSDSLEDQIKVLTALIEWADREKRKFLRLELECK  130 (421)
T ss_pred             HHHHHhcCCcchHHHHHHhhHHHHHHhcchhH-HHHHHHHHHhcCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44555666665555555444444433222211 11222222222222  4566677777766666555443333334455


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHH
Q psy5288         125 IAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKA  179 (186)
Q Consensus       125 lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A  179 (186)
                      +..++.+. |+|.+|+....-.+.-+.+-++......++.-=..+|....+..++
T Consensus       131 li~l~y~~-~~YsdalalIn~ll~ElKk~DDK~~Li~vhllESKvyh~irnv~Ks  184 (421)
T COG5159         131 LIYLLYKT-GKYSDALALINPLLHELKKYDDKINLITVHLLESKVYHEIRNVSKS  184 (421)
T ss_pred             HHHHHHhc-ccHHHHHHHHHHHHHHHHhhcCccceeehhhhhHHHHHHHHhhhhh
Confidence            66677774 9999999988777666665444433334444444555555554444

>cd02684 MIT_2 MIT: domain contained within Microtubule Interacting and Trafficking molecules

Probab=87.47  E-value=2.7  Score=26.40  Aligned_cols=36  Identities=17%  Similarity=0.031  Sum_probs=23.5

Q ss_pred             HHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Q psy5288          36 TDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLK   72 (186)
Q Consensus        36 ~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~   72 (186)
                      .++|+++..+| .-....|++++|+.+|..+++.+..
T Consensus         3 l~~Ai~lv~~A-v~~D~~g~y~eA~~lY~~ale~~~~   38 (75)
T cd02684           3 LEKAIALVVQA-VKKDQRGDAAAALSLYCSALQYFVP   38 (75)
T ss_pred             HHHHHHHHHHH-HHHHHhccHHHHHHHHHHHHHHHHH
Confidence            35566666555 4456677777777777777776543

This sub-family of MIT domains is found in proteins with an n-terminal serine/threonine kinase domain. The molecular function of the MIT domain is unclear.

>KOG1839|consensus

Probab=87.07  E-value=5.2  Score=38.06  Aligned_cols=141  Identities=13%  Similarity=0.047  Sum_probs=103.2

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHH-cC-ChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHc--CChhH
Q psy5288          43 YVRAGNLFKLGKKWNDGGNAFLQAGTLHLK-NN-NKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDM--GRFIM  117 (186)
Q Consensus        43 y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~-~~-~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~--~~~~~  117 (186)
                      +.+.|......|.+.++.+ .-+++.++.. .| .....+.+|..++.++-.. +.++|+.+-++|.-|....  -+...
T Consensus       935 ~~e~gq~~~~e~~~~~~~~-~~~slnl~~~v~~~~h~~~~~~~~~La~l~~~~~d~~~Ai~~~~ka~ii~eR~~g~ds~~ 1013 (1236)
T KOG1839|consen  935 SPEQGQEALLEDGFSEAYE-LPESLNLLNNVMGVLHPEVASKYRSLAKLSNRLGDNQEAIAQQRKACIISERVLGKDSPN 1013 (1236)
T ss_pred             hhhhhhhhhcccchhhhhh-hhhhhhHHHHhhhhcchhHHHHHHHHHHHHhhhcchHHHHHhcccceeeechhccCCCHH
Confidence            4444555556777777777 6666666542 22 2334567787888887766 8999999999999887544  36777


Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhc--cCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         118 VAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAG--EENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       118 ~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~--~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ....+.+++...... ++...|...+.+|..+.--  ...++....+..+++.++...++++.|+.+.+.
T Consensus      1014 t~~~y~nlal~~f~~-~~~~~al~~~~ra~~l~~Ls~ge~hP~~a~~~~nle~l~~~v~e~d~al~~le~ 1082 (1236)
T KOG1839|consen 1014 TKLAYGNLALYEFAV-KNLSGALKSLNRALKLKLLSSGEDHPPTALSFINLELLLLGVEEADTALRYLES 1082 (1236)
T ss_pred             HHHHhhHHHHHHHhc-cCccchhhhHHHHHHhhccccCCCCCchhhhhhHHHHHHhhHHHHHHHHHHHHH
Confidence            788888899777774 8899999999999887442  123334446778999999999999999998764

>cd02678 MIT_VPS4 MIT: domain contained within Microtubule Interacting and Trafficking molecules

Probab=86.85  E-value=3.1  Score=26.04  Aligned_cols=35  Identities=14%  Similarity=0.140  Sum_probs=24.9

Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Q psy5288          37 DEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLK   72 (186)
Q Consensus        37 ~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~   72 (186)
                      +.|+.+..+| .-....|++++|+.+|.++++.+..
T Consensus         4 ~~A~~l~~~A-v~~D~~g~y~eA~~~Y~~aie~l~~   38 (75)
T cd02678           4 QKAIELVKKA-IEEDNAGNYEEALRLYQHALEYFMH   38 (75)
T ss_pred             HHHHHHHHHH-HHHHHcCCHHHHHHHHHHHHHHHHH
Confidence            4555555555 5567788888888888888887654

This sub-family of MIT domains is found in intracellular protein transport proteins of the AAA-ATPase family. The molecular function of the MIT domain is unclear.

>cd02679 MIT_spastin MIT: domain contained within Microtubule Interacting and Trafficking molecules

Probab=86.70  E-value=2.2  Score=27.18  Aligned_cols=34  Identities=21%  Similarity=0.155  Sum_probs=27.2

Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhc
Q psy5288         118 VAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAG  152 (186)
Q Consensus       118 ~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~  152 (186)
                      .|..+.+.|..+... |+.++|+.+|++++....+
T Consensus         7 ~A~~~I~kaL~~dE~-g~~e~Al~~Y~~gi~~l~e   40 (79)
T cd02679           7 QAFEEISKALRADEW-GDKEQALAHYRKGLRELEE   40 (79)
T ss_pred             HHHHHHHHHhhhhhc-CCHHHHHHHHHHHHHHHHH
Confidence            445566677777775 9999999999999998775

This MIT domain sub-family is found in the AAA protein spastin, a probable ATPase involved in the assembly or function of nuclear protein complexes; spastins might also be involved in microtubule dynamics. The molecular function of the MIT domain is unclear.

>PF14853 Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repeat; PDB: 1IYG_A 1PC2_A 1NZN_A 3UUX_C 1Y8M_A 2PQR_A 2PQN_A 3O48_A

Probab=86.65  E-value=2.3  Score=24.85  Aligned_cols=32  Identities=19%  Similarity=-0.050  Sum_probs=25.9

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhcc
Q psy5288         121 HHENIAEIYEKELEDQEKAIDHYQHAADCYAGE  153 (186)
Q Consensus       121 ~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~  153 (186)
                      ++.-+|..+.. +|+|++|..+.+.++++-|.+
T Consensus         3 ~lY~lAig~yk-l~~Y~~A~~~~~~lL~~eP~N   34 (53)
T PF14853_consen    3 CLYYLAIGHYK-LGEYEKARRYCDALLEIEPDN   34 (53)
T ss_dssp             HHHHHHHHHHH-TT-HHHHHHHHHHHHHHTTS-
T ss_pred             hHHHHHHHHHH-hhhHHHHHHHHHHHHhhCCCc
Confidence            56678888888 699999999999999997654

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=86.51  E-value=1  Score=22.65  Aligned_cols=24  Identities=8%  Similarity=0.261  Sum_probs=20.2

Q ss_pred             HHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         162 CLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       162 ~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      +|..+-..|.+.|++++|.++|.+
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~   25 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKE   25 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHH
Confidence            456677789999999999999976

This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.

>KOG4014|consensus

Probab=86.48  E-value=4.2  Score=30.58  Aligned_cols=90  Identities=17%  Similarity=0.108  Sum_probs=62.1

Q ss_pred             hcCCHHHHH-HHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC------CHHHHHHHHHHHHHHHHHcCChhHHHHHHHH
Q psy5288          52 LGKKWNDGG-NAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS------NPAEAIKAIERAVEIHTDMGRFIMVAKHHEN  124 (186)
Q Consensus        52 ~~g~~~~A~-~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~------~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~  124 (186)
                      .+|+|-+++ ..|++|..++++.-+..+-.....+.|..+...      ++..|+++++.+.+    .+.    ...+..
T Consensus        39 lLgdYlEgi~knF~~A~kv~K~nCden~y~kSCyKyG~y~~~GKgG~~~~l~~a~r~~~~aC~----~n~----~~aC~~  110 (248)
T KOG4014|consen   39 LLGDYLEGIQKNFQAAVKVFKKNCDENSYPKSCYKYGMYMLAGKGGDDASLSKAIRPMKIACD----ANI----PQACRY  110 (248)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhcccccCCcHHHHHhhhhhhcccCCCccCHHHHHHHHHHHhc----cCC----HHHHhh
Confidence            455555555 467888888888766666555555777766543      78999999998876    333    346777


Q ss_pred             HHHHHHHh----cC--CHHHHHHHHHHHHHH
Q psy5288         125 IAEIYEKE----LE--DQEKAIDHYQHAADC  149 (186)
Q Consensus       125 lg~~y~~~----lg--~~~~Ai~~y~kA~~l  149 (186)
                      +|.++.+-    -+  +.++|..++.+|-++
T Consensus       111 ~gLl~~~g~~~r~~dpd~~Ka~~y~traCdl  141 (248)
T KOG4014|consen  111 LGLLHWNGEKDRKADPDSEKAERYMTRACDL  141 (248)
T ss_pred             hhhhhccCcCCccCCCCcHHHHHHHHHhccC
Confidence            88887641    02  367888888888876

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=86.10  E-value=3.8  Score=32.67  Aligned_cols=61  Identities=18%  Similarity=0.247  Sum_probs=51.4

Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHhC
Q psy5288         119 AKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQL  186 (186)
Q Consensus       119 a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~~  186 (186)
                      ..++..++..+... |+++.+++.+++-+.+.+-+.      ..|..+-..|...|+...|+..|+++
T Consensus       153 ~~~l~~lae~~~~~-~~~~~~~~~l~~Li~~dp~~E------~~~~~lm~~y~~~g~~~~ai~~y~~l  213 (280)
T COG3629         153 IKALTKLAEALIAC-GRADAVIEHLERLIELDPYDE------PAYLRLMEAYLVNGRQSAAIRAYRQL  213 (280)
T ss_pred             HHHHHHHHHHHHhc-ccHHHHHHHHHHHHhcCccch------HHHHHHHHHHHHcCCchHHHHHHHHH
Confidence            34778889999986 999999999999999866543      57778889999999999999999763

>KOG0545|consensus

Probab=86.04  E-value=15  Score=28.99  Aligned_cols=100  Identities=17%  Similarity=0.119  Sum_probs=70.0

Q ss_pred             HHHHHHHHHH-HHhcCCHHHHHHHHHHHHHHHHHc------CCh------hHHHHHHHHHHHHHHHhcCCHHHHHHHHHH
Q psy5288          79 AGLCFVDAAN-CYKKSNPAEAIKAIERAVEIHTDM------GRF------IMVAKHHENIAEIYEKELEDQEKAIDHYQH  145 (186)
Q Consensus        79 aa~~~~~a~~-~y~~~~~~~A~~~~~~Al~i~~~~------~~~------~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~k  145 (186)
                      +...+..-|. +|...++.+|..+|+.|+-+...+      |++      ......+.|.+.|+... |+|-+++++...
T Consensus       177 av~~l~q~GN~lfk~~~ykEA~~~YreAi~~l~~L~lkEkP~e~eW~eLdk~~tpLllNy~QC~L~~-~e~yevleh~se  255 (329)
T KOG0545|consen  177 AVPVLHQEGNRLFKLGRYKEASSKYREAIICLRNLQLKEKPGEPEWLELDKMITPLLLNYCQCLLKK-EEYYEVLEHCSE  255 (329)
T ss_pred             hhHHHHHhhhhhhhhccHHHHHHHHHHHHHHHHHHHhccCCCChHHHHHHHhhhHHHHhHHHHHhhH-HHHHHHHHHHHH
Confidence            4444555454 344448899999999998877544      222      12334678889998884 999999999998


Q ss_pred             HHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         146 AADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       146 A~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      .+...+.+      ...|..-|.....--+-.+|..-|.+
T Consensus       256 iL~~~~~n------vKA~frRakAhaa~Wn~~eA~~D~~~  289 (329)
T KOG0545|consen  256 ILRHHPGN------VKAYFRRAKAHAAVWNEAEAKADLQK  289 (329)
T ss_pred             HHhcCCch------HHHHHHHHHHHHhhcCHHHHHHHHHH
Confidence            88877654      36777777777777777777665543

>KOG0686|consensus

Probab=85.96  E-value=20  Score=30.25  Aligned_cols=112  Identities=16%  Similarity=0.123  Sum_probs=71.0

Q ss_pred             HHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHH
Q psy5288          67 GTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQH  145 (186)
Q Consensus        67 ~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~k  145 (186)
                      ++-++...-.+..-..+..+|.-|... +.+.|+++|-++-+..+..+.   ....+.++=.+-.. +|+|.....+-.+
T Consensus       137 Lk~yK~n~iKEsiRra~~Dl~dhy~~cG~l~~Alr~YsR~RdYCTs~kh---vInm~ln~i~VSI~-~~nw~hv~sy~~~  212 (466)
T KOG0686|consen  137 LKSYKDNLIKESIRRALEDLGDHYLDCGQLDNALRCYSRARDYCTSAKH---VINMCLNLILVSIY-MGNWGHVLSYISK  212 (466)
T ss_pred             HHHhhcchhhHHHHHHHHHHHHHHHHhccHHHHHhhhhhhhhhhcchHH---HHHHHHHHHHHHHh-hcchhhhhhHHHH
Confidence            333444334445566777888888876 999999999998777765543   45556666666565 4888877777777


Q ss_pred             HHHHH---hccC-ChHHHHHHHHHHHHHHHhccCHHHHHHHHH
Q psy5288         146 AADCY---AGEE-NKSSANKCLIKIANYSALTDHLDKAIKLYE  184 (186)
Q Consensus       146 A~~l~---~~~~-~~~~~~~~~~~la~~y~~~g~~~~A~~~~~  184 (186)
                      |...-   .+.. .-.....|+-.++++  .+++|..|.++|-
T Consensus       213 A~st~~~~~~~~q~v~~kl~C~agLa~L--~lkkyk~aa~~fL  253 (466)
T KOG0686|consen  213 AESTPDANENLAQEVPAKLKCAAGLANL--LLKKYKSAAKYFL  253 (466)
T ss_pred             HHhCchhhhhHHHhcCcchHHHHHHHHH--HHHHHHHHHHHHH
Confidence            76642   1100 001123466555554  4559999999884

>KOG3824|consensus

Probab=85.95  E-value=1.2  Score=36.12  Aligned_cols=68  Identities=18%  Similarity=0.175  Sum_probs=42.1

Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhc
Q psy5288          78 DAGLCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAG  152 (186)
Q Consensus        78 ~aa~~~~~a~~~y~~~~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~  152 (186)
                      ++..++..++.+++..+.++|...|+.|+.+....-      +++.+.|...+.. .+.-+|=.+|-+|+.+.+.
T Consensus       115 EA~~Al~~A~~~~~~Gk~ekA~~lfeHAlalaP~~p------~~L~e~G~f~E~~-~~iv~ADq~Y~~ALtisP~  182 (472)
T KOG3824|consen  115 EAILALKAAGRSRKDGKLEKAMTLFEHALALAPTNP------QILIEMGQFREMH-NEIVEADQCYVKALTISPG  182 (472)
T ss_pred             HHHHHHHHHHHHHhccchHHHHHHHHHHHhcCCCCH------HHHHHHhHHHHhh-hhhHhhhhhhheeeeeCCC
Confidence            344555556666666666677777777766654442      2566667666664 6666666777777666543

>KOG3081|consensus

Probab=85.92  E-value=16  Score=29.09  Aligned_cols=123  Identities=15%  Similarity=0.068  Sum_probs=77.0

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHH
Q psy5288          41 DLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVA  119 (186)
Q Consensus        41 ~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a  119 (186)
                      .....++.+|..-|++++|.....+...+       +..+    --..|+.+. +.+-|....++..++..+. -.-+.|
T Consensus       109 i~~l~aa~i~~~~~~~deAl~~~~~~~~l-------E~~A----l~VqI~lk~~r~d~A~~~lk~mq~ided~-tLtQLA  176 (299)
T KOG3081|consen  109 IDLLLAAIIYMHDGDFDEALKALHLGENL-------EAAA----LNVQILLKMHRFDLAEKELKKMQQIDEDA-TLTQLA  176 (299)
T ss_pred             HHHHHhhHHhhcCCChHHHHHHHhccchH-------HHHH----HHHHHHHHHHHHHHHHHHHHHHHccchHH-HHHHHH
Confidence            44556678899999999998776553222       1111    112344444 5666766666665554333 112234


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         120 KHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       120 ~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ..|++++.-    .+++.+|.-.|++--+-+...      ...+...+.+...+|+|++|...++.
T Consensus       177 ~awv~la~g----gek~qdAfyifeE~s~k~~~T------~~llnG~Av~~l~~~~~eeAe~lL~e  232 (299)
T KOG3081|consen  177 QAWVKLATG----GEKIQDAFYIFEELSEKTPPT------PLLLNGQAVCHLQLGRYEEAESLLEE  232 (299)
T ss_pred             HHHHHHhcc----chhhhhHHHHHHHHhcccCCC------hHHHccHHHHHHHhcCHHHHHHHHHH
Confidence            444444332    366899999999887754432      25778888999999999999887754

>KOG1915|consensus

Probab=85.57  E-value=12  Score=32.41  Aligned_cols=130  Identities=15%  Similarity=0.140  Sum_probs=70.6

Q ss_pred             hcCCHHHHHHHHHHHHHHHHH------------------cCChhHHHHHHHHH-HHH-----HhcC-CHHHHHHHHHHHH
Q psy5288          52 LGKKWNDGGNAFLQAGTLHLK------------------NNNKHDAGLCFVDA-ANC-----YKKS-NPAEAIKAIERAV  106 (186)
Q Consensus        52 ~~g~~~~A~~~y~~a~~~~~~------------------~~~~~~aa~~~~~a-~~~-----y~~~-~~~~A~~~~~~Al  106 (186)
                      ...+.+.+.+.|+.++++-..                  ..+...+-..+.++ |.|     |..- +.+-.+.-+.++-
T Consensus       378 e~ed~ertr~vyq~~l~lIPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~cPK~KlFk~YIelElqL~efDRcR  457 (677)
T KOG1915|consen  378 EAEDVERTRQVYQACLDLIPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIGKCPKDKLFKGYIELELQLREFDRCR  457 (677)
T ss_pred             HhhhHHHHHHHHHHHHhhcCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhccCCchhHHHHHHHHHHHHhhHHHHH
Confidence            356788888999888886321                  12233333333332 211     1111 3344444455554


Q ss_pred             HHHHHc-CChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         107 EIHTDM-GRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       107 ~i~~~~-~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      .+|..- ...+..-..+.+.|.+-.. ||+.|.|...|+-|+.- +..+.|..   .|..--..=+..|.+++|..+|++
T Consensus       458 kLYEkfle~~Pe~c~~W~kyaElE~~-LgdtdRaRaifelAi~q-p~ldmpel---lwkaYIdFEi~~~E~ekaR~LYer  532 (677)
T KOG1915|consen  458 KLYEKFLEFSPENCYAWSKYAELETS-LGDTDRARAIFELAISQ-PALDMPEL---LWKAYIDFEIEEGEFEKARALYER  532 (677)
T ss_pred             HHHHHHHhcChHhhHHHHHHHHHHHH-hhhHHHHHHHHHHHhcC-cccccHHH---HHHHhhhhhhhcchHHHHHHHHHH
Confidence            554322 3334445567777777666 68888888888777663 22333322   222222344567888888887776


Q ss_pred             C
Q psy5288         186 L  186 (186)
Q Consensus       186 ~  186 (186)
                      +
T Consensus       533 l  533 (677)
T KOG1915|consen  533 L  533 (677)
T ss_pred             H
Confidence            3

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=85.39  E-value=6.4  Score=33.55  Aligned_cols=40  Identities=8%  Similarity=0.092  Sum_probs=32.5

Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHhC
Q psy5288         143 YQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQL  186 (186)
Q Consensus       143 y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~~  186 (186)
                      ++.|+++....++    ...|..||......|+++-|.++|++.
T Consensus       334 L~~A~~~a~~~~~----~~~W~~Lg~~AL~~g~~~lAe~c~~k~  373 (443)
T PF04053_consen  334 LDIALEIAKELDD----PEKWKQLGDEALRQGNIELAEECYQKA  373 (443)
T ss_dssp             HHHHHHHCCCCST----HHHHHHHHHHHHHTTBHHHHHHHHHHC
T ss_pred             HHHHHHHHHhcCc----HHHHHHHHHHHHHcCCHHHHHHHHHhh
Confidence            5666777666554    369999999999999999999999864

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.

>PF14853 Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repeat; PDB: 1IYG_A 1PC2_A 1NZN_A 3UUX_C 1Y8M_A 2PQR_A 2PQN_A 3O48_A

Probab=85.38  E-value=1.4  Score=25.77  Aligned_cols=25  Identities=20%  Similarity=0.227  Sum_probs=20.9

Q ss_pred             HHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         161 KCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       161 ~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      .|+..+|..+.++|+|++|..+.+.
T Consensus         2 d~lY~lAig~ykl~~Y~~A~~~~~~   26 (53)
T PF14853_consen    2 DCLYYLAIGHYKLGEYEKARRYCDA   26 (53)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred             hhHHHHHHHHHHhhhHHHHHHHHHH
Confidence            5778889999999999999998765

>KOG1920|consensus

Probab=85.05  E-value=21  Score=34.07  Aligned_cols=17  Identities=29%  Similarity=0.368  Sum_probs=11.1

Q ss_pred             cCCHHHHHHHHHHHHHH
Q psy5288         133 LEDQEKAIDHYQHAADC  149 (186)
Q Consensus       133 lg~~~~Ai~~y~kA~~l  149 (186)
                      ++++++|+..|-+|..+
T Consensus      1026 ~sd~~~av~ll~ka~~~ 1042 (1265)
T KOG1920|consen 1026 LSDPEEAVALLCKAKEW 1042 (1265)
T ss_pred             hcCHHHHHHHHhhHhHH
Confidence            57788888776555443

>PF10579 Rapsyn_N: Rapsyn N-terminal myristoylation and linker region; InterPro: IPR019568 Neuromuscular junction formation relies upon the clustering of acetylcholine receptors and other proteins in the muscle membrane

Probab=85.00  E-value=7.8  Score=24.72  Aligned_cols=47  Identities=9%  Similarity=0.131  Sum_probs=38.2

Q ss_pred             CCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHH
Q psy5288         134 EDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLY  183 (186)
Q Consensus       134 g~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~  183 (186)
                      .+.++|+..+.+++....+..   ..-.++.-+..+|..-|+|.+++++-
T Consensus        20 ~~~~~Al~~W~~aL~k~~~~~---~rf~~lG~l~qA~~e~Gkyr~~L~fA   66 (80)
T PF10579_consen   20 NETQQALQKWRKALEKITDRE---DRFRVLGYLIQAHMEWGKYREMLAFA   66 (80)
T ss_pred             chHHHHHHHHHHHHhhcCChH---HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            789999999999999866532   33457777888999999999998864

Rapsyn is a peripheral membrane protein that is selectively concentrated at the neuromuscular junction and is essential for the formation of synaptic acetylcholine receptor aggregates. Acetylcholine receptors fail to aggregate beneath nerve terminals in mice where rapsyn has been knocked out. The N-terminal six amino acids of rapsyn are its myristoylation site, and myristoylation is necessary for the targeting of the protein to the membrane []. ; GO: 0008270 zinc ion binding, 0033130 acetylcholine receptor binding, 0007268 synaptic transmission, 0005856 cytoskeleton, 0030054 cell junction, 0045211 postsynaptic membrane

>KOG1914|consensus

Probab=84.93  E-value=26  Score=30.73  Aligned_cols=61  Identities=13%  Similarity=0.172  Sum_probs=39.2

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHhC
Q psy5288         120 KHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQL  186 (186)
Q Consensus       120 ~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~~  186 (186)
                      .+++..|.+-....++..-|...|+--+..+.+..      .+-......+..+++=..|..+|+++
T Consensus       401 hVfVa~A~mEy~cskD~~~AfrIFeLGLkkf~d~p------~yv~~YldfL~~lNdd~N~R~LFEr~  461 (656)
T KOG1914|consen  401 HVFVAAALMEYYCSKDKETAFRIFELGLKKFGDSP------EYVLKYLDFLSHLNDDNNARALFERV  461 (656)
T ss_pred             hhhHHHHHHHHHhcCChhHHHHHHHHHHHhcCCCh------HHHHHHHHHHHHhCcchhHHHHHHHH
Confidence            34555554432224888888888988888877643      22233345666778888888887764

>smart00745 MIT Microtubule Interacting and Trafficking molecule domain

Probab=84.81  E-value=5.1  Score=24.95  Aligned_cols=37  Identities=14%  Similarity=0.074  Sum_probs=25.4

Q ss_pred             CHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Q psy5288          35 KTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLK   72 (186)
Q Consensus        35 ~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~   72 (186)
                      .+++|.++..++ ......|++++|+.+|.++++.+..
T Consensus         4 ~~~~A~~li~~A-v~~d~~g~~~eAl~~Y~~a~e~l~~   40 (77)
T smart00745        4 YLSKAKELISKA-LKADEAGDYEEALELYKKAIEYLLE   40 (77)
T ss_pred             HHHHHHHHHHHH-HHHHHcCCHHHHHHHHHHHHHHHHH
Confidence            345566644443 5667788888888888888887654

>PF15015 NYD-SP12_N: Spermatogenesis-associated, N-terminal

Probab=84.39  E-value=9.2  Score=32.43  Aligned_cols=96  Identities=14%  Similarity=0.215  Sum_probs=65.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHc---CC---------hhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q psy5288          81 LCFVDAANCYKKSNPAEAIKAIERAVEIHTDM---GR---------FIMVAKHHENIAEIYEKELEDQEKAIDHYQHAAD  148 (186)
Q Consensus        81 ~~~~~a~~~y~~~~~~~A~~~~~~Al~i~~~~---~~---------~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~  148 (186)
                      .++..+..+|+...|..|+--|+-|+++..+-   ++         ...+..+..+|..||.. +++.+-|+.+-.+++.
T Consensus       178 vAL~das~~yrqk~ya~Aa~rF~taLelcskg~a~~k~~~~~~~di~~vaSfIetklv~CYL~-~rkpdlALnh~hrsI~  256 (569)
T PF15015_consen  178 VALKDASSCYRQKKYAVAAGRFRTALELCSKGAALSKPFKASAEDISSVASFIETKLVTCYLR-MRKPDLALNHSHRSIN  256 (569)
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHHHHHHhhhhhccCCCCCChhhHHHHHHHHHHHHHHhhhh-cCCCchHHHHHhhhhh
Confidence            34667777887777777777777777775432   22         12344467899999998 5999999999999988


Q ss_pred             HHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHH
Q psy5288         149 CYAGEENKSSANKCLIKIANYSALTDHLDKAIKLY  183 (186)
Q Consensus       149 l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~  183 (186)
                      +.+..-      .-...-|-|...+.+|.+|...+
T Consensus       257 lnP~~f------rnHLrqAavfR~LeRy~eAarSa  285 (569)
T PF15015_consen  257 LNPSYF------RNHLRQAAVFRRLERYSEAARSA  285 (569)
T ss_pred             cCcchh------hHHHHHHHHHHHHHHHHHHHHHH
Confidence            865421      12233456777778888876543

>cd02656 MIT MIT: domain contained within Microtubule Interacting and Trafficking molecules

Probab=84.03  E-value=4  Score=25.39  Aligned_cols=30  Identities=20%  Similarity=0.224  Sum_probs=22.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHhc
Q psy5288         122 HENIAEIYEKELEDQEKAIDHYQHAADCYAG  152 (186)
Q Consensus       122 ~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~  152 (186)
                      +...|.-.... |++++|+.+|.+|++.+-.
T Consensus         9 l~~~Av~~D~~-g~~~~Al~~Y~~a~e~l~~   38 (75)
T cd02656           9 LIKQAVKEDED-GNYEEALELYKEALDYLLQ   38 (75)
T ss_pred             HHHHHHHHHHc-CCHHHHHHHHHHHHHHHHH
Confidence            34445555554 9999999999999998765

The MIT domain is found in sorting nexins, the nuclear thiol protease PalBH, the AAA protein spastin and archaebacterial proteins with similar domain architecture, vacuolar sorting proteins and others. The molecular function of the MIT domain is unclear.

>KOG2053|consensus

Probab=83.72  E-value=11  Score=34.56  Aligned_cols=100  Identities=20%  Similarity=0.228  Sum_probs=54.4

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHH
Q psy5288          63 FLQAGTLHLKNNNKHDAGLCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDH  142 (186)
Q Consensus        63 y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~  142 (186)
                      +.+..++.++.++...+ .++ ++-...+..+.++|..+++ ++......   +  -..+.-+-.+|.+ ++++++|..+
T Consensus        29 l~~~~kllkk~Pn~~~a-~vL-kaLsl~r~gk~~ea~~~Le-~~~~~~~~---D--~~tLq~l~~~y~d-~~~~d~~~~~   99 (932)
T KOG2053|consen   29 LAKLGKLLKKHPNALYA-KVL-KALSLFRLGKGDEALKLLE-ALYGLKGT---D--DLTLQFLQNVYRD-LGKLDEAVHL   99 (932)
T ss_pred             HHHHHHHHHHCCCcHHH-HHH-HHHHHHHhcCchhHHHHHh-hhccCCCC---c--hHHHHHHHHHHHH-HhhhhHHHHH
Confidence            33455555554433222 222 3333334447777775443 33332222   1  1256677888888 4889999999


Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHH
Q psy5288         143 YQHAADCYAGEENKSSANKCLIKIANYSALTDHLDK  178 (186)
Q Consensus       143 y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~  178 (186)
                      |+++...+++.       .-+..+=..|++-++|.+
T Consensus       100 Ye~~~~~~P~e-------ell~~lFmayvR~~~yk~  128 (932)
T KOG2053|consen  100 YERANQKYPSE-------ELLYHLFMAYVREKSYKK  128 (932)
T ss_pred             HHHHHhhCCcH-------HHHHHHHHHHHHHHHHHH
Confidence            99988887762       222333345555555543

>cd02677 MIT_SNX15 MIT: domain contained within Microtubule Interacting and Trafficking molecules

Probab=83.66  E-value=4.3  Score=25.55  Aligned_cols=30  Identities=27%  Similarity=0.258  Sum_probs=21.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHhc
Q psy5288         122 HENIAEIYEKELEDQEKAIDHYQHAADCYAG  152 (186)
Q Consensus       122 ~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~  152 (186)
                      +...|.-.... |+|++|..+|.++++++..
T Consensus         9 l~~~Ave~d~~-~~y~eA~~~Y~~~i~~~~~   38 (75)
T cd02677           9 LIRLALEKEEE-GDYEAAFEFYRAGVDLLLK   38 (75)
T ss_pred             HHHHHHHHHHH-hhHHHHHHHHHHHHHHHHH
Confidence            33334444443 8999999999999999764

This MIT domain sub-family is found in sorting nexin 15 and related proteins. The molecular function of the MIT domain is unclear.

>KOG1463|consensus

Probab=83.03  E-value=22  Score=29.37  Aligned_cols=113  Identities=12%  Similarity=0.053  Sum_probs=73.3

Q ss_pred             HHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHc-CChhHHHHHHHHHH
Q psy5288          49 LFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDM-GRFIMVAKHHENIA  126 (186)
Q Consensus        49 ~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~-~~~~~~a~~~~~lg  126 (186)
                      +|...++|.+|+..-...+.=.+++++...-...+..=.+.|-.+ +..+|...+--|-...... =.|..+|..-..-|
T Consensus       137 Ly~d~~~YteAlaL~~~L~rElKKlDDK~lLvev~llESK~y~~l~Nl~KakasLTsART~AnaiYcpPqlQa~lDLqSG  216 (411)
T KOG1463|consen  137 LYNDTKRYTEALALINDLLRELKKLDDKILLVEVHLLESKAYHALRNLPKAKASLTSARTTANAIYCPPQLQATLDLQSG  216 (411)
T ss_pred             HHHhhHHHHHHHHHHHHHHHHHHhcccccceeeehhhhhHHHHHHhcchhHHHHHHHHHHhhcccccCHHHHHHHHHhcc
Confidence            566777888888877777777777777665444444444455444 4455555444333222222 24556677777788


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHH
Q psy5288         127 EIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKC  162 (186)
Q Consensus       127 ~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~  162 (186)
                      .++-.. .+|.-|..||-+|.+-|...+.+..+-..
T Consensus       217 Ilha~e-kDykTafSYFyEAfEgf~s~~~~v~A~~s  251 (411)
T KOG1463|consen  217 ILHAAE-KDYKTAFSYFYEAFEGFDSLDDDVKALTS  251 (411)
T ss_pred             ceeecc-cccchHHHHHHHHHccccccCCcHHHHHH
Confidence            888876 89999999999999988877665444333

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=82.85  E-value=30  Score=29.76  Aligned_cols=62  Identities=8%  Similarity=0.037  Sum_probs=47.1

Q ss_pred             hHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHhC
Q psy5288         116 IMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQL  186 (186)
Q Consensus       116 ~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~~  186 (186)
                      .+.|+++...--+|. + |+|.+++-+-.=...+.|.       ..++.-+|.++....+|++|.+++..+
T Consensus       460 ~eian~LaDAEyLys-q-gey~kc~~ys~WL~~iaPS-------~~~~RLlGl~l~e~k~Y~eA~~~l~~L  521 (549)
T PF07079_consen  460 EEIANFLADAEYLYS-Q-GEYHKCYLYSSWLTKIAPS-------PQAYRLLGLCLMENKRYQEAWEYLQKL  521 (549)
T ss_pred             HHHHHHHHHHHHHHh-c-ccHHHHHHHHHHHHHhCCc-------HHHHHHHHHHHHHHhhHHHHHHHHHhC
Confidence            346666666555555 4 9999998876666666552       368889999999999999999999764

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>KOG0376|consensus

Probab=82.46  E-value=1.6  Score=37.14  Aligned_cols=94  Identities=16%  Similarity=0.088  Sum_probs=59.8

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHH
Q psy5288          47 GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENI  125 (186)
Q Consensus        47 g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~l  125 (186)
                      ++.+..-+.|+.|+..|.||+++     ++..+. .+.+=+..+.+. ++..|+.-+.+|+++-...      ..+|+.-
T Consensus        11 an~~l~~~~fd~avdlysKaI~l-----dpnca~-~~anRa~a~lK~e~~~~Al~Da~kaie~dP~~------~K~Y~rr   78 (476)
T KOG0376|consen   11 ANEALKDKVFDVAVDLYSKAIEL-----DPNCAI-YFANRALAHLKVESFGGALHDALKAIELDPTY------IKAYVRR   78 (476)
T ss_pred             HhhhcccchHHHHHHHHHHHHhc-----CCccee-eechhhhhheeechhhhHHHHHHhhhhcCchh------hheeeec
Confidence            34444556788888888888887     443333 333333455555 6777777777777665333      3466666


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHHHhcc
Q psy5288         126 AEIYEKELEDQEKAIDHYQHAADCYAGE  153 (186)
Q Consensus       126 g~~y~~~lg~~~~Ai~~y~kA~~l~~~~  153 (186)
                      |..... ++++-+|..-|++...+.++.
T Consensus        79 g~a~m~-l~~~~~A~~~l~~~~~l~Pnd  105 (476)
T KOG0376|consen   79 GTAVMA-LGEFKKALLDLEKVKKLAPND  105 (476)
T ss_pred             cHHHHh-HHHHHHHHHHHHHhhhcCcCc
Confidence            666666 577888888887777776653

>KOG2053|consensus

Probab=82.09  E-value=4.5  Score=37.03  Aligned_cols=75  Identities=15%  Similarity=0.090  Sum_probs=49.2

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHH
Q psy5288         102 IERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIK  181 (186)
Q Consensus       102 ~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~  181 (186)
                      +.+.-.+.++.++.   .-...--|.++.. +|.+++|..+++--...... +     -.++.-+-.||..+|++++|..
T Consensus        29 l~~~~kllkk~Pn~---~~a~vLkaLsl~r-~gk~~ea~~~Le~~~~~~~~-D-----~~tLq~l~~~y~d~~~~d~~~~   98 (932)
T KOG2053|consen   29 LAKLGKLLKKHPNA---LYAKVLKALSLFR-LGKGDEALKLLEALYGLKGT-D-----DLTLQFLQNVYRDLGKLDEAVH   98 (932)
T ss_pred             HHHHHHHHHHCCCc---HHHHHHHHHHHHH-hcCchhHHHHHhhhccCCCC-c-----hHHHHHHHHHHHHHhhhhHHHH
Confidence            33333444555443   2233345666666 59999999666554444333 2     2577777889999999999999


Q ss_pred             HHHhC
Q psy5288         182 LYEQL  186 (186)
Q Consensus       182 ~~~~~  186 (186)
                      +|+++
T Consensus        99 ~Ye~~  103 (932)
T KOG2053|consen   99 LYERA  103 (932)
T ss_pred             HHHHH
Confidence            99874

>PF07720 TPR_3: Tetratricopeptide repeat; InterPro: IPR011716 This entry includes tetratricopeptide-like repeats found in the LcrH/SycD-like chaperones []

Probab=82.06  E-value=4.1  Score=21.68  Aligned_cols=24  Identities=21%  Similarity=0.296  Sum_probs=18.8

Q ss_pred             HHHHHHHHHHHhccCHHHHHHHHH
Q psy5288         161 KCLIKIANYSALTDHLDKAIKLYE  184 (186)
Q Consensus       161 ~~~~~la~~y~~~g~~~~A~~~~~  184 (186)
                      +.+..+|-++-..|+|++|+++|+
T Consensus         2 e~~y~~a~~~y~~~ky~~A~~~~~   25 (36)
T PF07720_consen    2 EYLYGLAYNFYQKGKYDEAIHFFQ   25 (36)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHH
T ss_pred             cHHHHHHHHHHHHhhHHHHHHHHH
Confidence            355677889999999999999943

; PDB: 3KS2_O 3GZ2_A 3GZ1_A 3GYZ_A 4AM9_A 2VGX_A 2VGY_A.

>smart00745 MIT Microtubule Interacting and Trafficking molecule domain

Probab=81.76  E-value=10  Score=23.56  Aligned_cols=30  Identities=20%  Similarity=0.203  Sum_probs=22.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHhc
Q psy5288         122 HENIAEIYEKELEDQEKAIDHYQHAADCYAG  152 (186)
Q Consensus       122 ~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~  152 (186)
                      +..-|.-+... |++++|+.+|.+|++.+..
T Consensus        11 li~~Av~~d~~-g~~~eAl~~Y~~a~e~l~~   40 (77)
T smart00745       11 LISKALKADEA-GDYEEALELYKKAIEYLLE   40 (77)
T ss_pred             HHHHHHHHHHc-CCHHHHHHHHHHHHHHHHH
Confidence            44445555664 9999999999999998765

>PF04781 DUF627: Protein of unknown function (DUF627); InterPro: IPR006866 This domain represents the N-terminal region of several plant proteins of unknown function

Probab=81.74  E-value=14  Score=25.18  Aligned_cols=90  Identities=16%  Similarity=0.121  Sum_probs=48.6

Q ss_pred             HHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-----CHH-------HHHHHHHHHHHHHHHcCChhH
Q psy5288          50 FKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-----NPA-------EAIKAIERAVEIHTDMGRFIM  117 (186)
Q Consensus        50 ~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-----~~~-------~A~~~~~~Al~i~~~~~~~~~  117 (186)
                      +...|++.+|++.-+..+.....-   ......+..=|.++.++     +++       -++++|.++..+....     
T Consensus         6 ~~~rGnhiKAL~iied~i~~h~~~---~~~~~lh~~QG~if~~lA~~ten~d~k~~yLl~sve~~s~a~~Lsp~~-----   77 (111)
T PF04781_consen    6 YFARGNHIKALEIIEDLISRHGED---ESSWLLHRLQGTIFYKLAKKTENPDVKFRYLLGSVECFSRAVELSPDS-----   77 (111)
T ss_pred             HHHccCHHHHHHHHHHHHHHccCC---CchHHHHHHHhHHHHHHHHhccCchHHHHHHHHhHHHHHHHhccChhH-----
Confidence            445677777777666665553322   21123333445555432     333       4555555555544333     


Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q psy5288         118 VAKHHENIAEIYEKELEDQEKAIDHYQHAADC  149 (186)
Q Consensus       118 ~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l  149 (186)
                       |..+..+|.-+..- .-|+++..--++++.+
T Consensus        78 -A~~L~~la~~l~s~-~~Ykk~v~kak~~Lsv  107 (111)
T PF04781_consen   78 -AHSLFELASQLGSV-KYYKKAVKKAKRGLSV  107 (111)
T ss_pred             -HHHHHHHHHHhhhH-HHHHHHHHHHHHHhcc
Confidence             77777777776653 4566666666666554

>KOG0686|consensus

Probab=81.60  E-value=18  Score=30.56  Aligned_cols=78  Identities=10%  Similarity=0.147  Sum_probs=58.4

Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHH
Q psy5288         100 KAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKA  179 (186)
Q Consensus       100 ~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A  179 (186)
                      +-++.=++-++.+.-.+.+-..+..+|.-|... |+.+.|+.+|-++-+++...++   ....+.|+-.|-+..|+|..-
T Consensus       131 e~L~~eLk~yK~n~iKEsiRra~~Dl~dhy~~c-G~l~~Alr~YsR~RdYCTs~kh---vInm~ln~i~VSI~~~nw~hv  206 (466)
T KOG0686|consen  131 EKLDNELKSYKDNLIKESIRRALEDLGDHYLDC-GQLDNALRCYSRARDYCTSAKH---VINMCLNLILVSIYMGNWGHV  206 (466)
T ss_pred             HHHHHHHHHhhcchhhHHHHHHHHHHHHHHHHh-ccHHHHHhhhhhhhhhhcchHH---HHHHHHHHHHHHHhhcchhhh
Confidence            344444555666666677788999999999996 9999999999999998876542   345667777888888887654


Q ss_pred             HH
Q psy5288         180 IK  181 (186)
Q Consensus       180 ~~  181 (186)
                      ..
T Consensus       207 ~s  208 (466)
T KOG0686|consen  207 LS  208 (466)
T ss_pred             hh
Confidence            43

>cd02678 MIT_VPS4 MIT: domain contained within Microtubule Interacting and Trafficking molecules

Probab=81.56  E-value=10  Score=23.59  Aligned_cols=29  Identities=24%  Similarity=0.275  Sum_probs=21.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHhc
Q psy5288         123 ENIAEIYEKELEDQEKAIDHYQHAADCYAG  152 (186)
Q Consensus       123 ~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~  152 (186)
                      ..-|.-... .|+|++|+.+|.+|++.+-.
T Consensus        10 ~~~Av~~D~-~g~y~eA~~~Y~~aie~l~~   38 (75)
T cd02678          10 VKKAIEEDN-AGNYEEALRLYQHALEYFMH   38 (75)
T ss_pred             HHHHHHHHH-cCCHHHHHHHHHHHHHHHHH
Confidence            333444445 49999999999999999764

This sub-family of MIT domains is found in intracellular protein transport proteins of the AAA-ATPase family. The molecular function of the MIT domain is unclear.

>KOG1464|consensus

Probab=81.46  E-value=23  Score=28.44  Aligned_cols=92  Identities=17%  Similarity=0.223  Sum_probs=64.2

Q ss_pred             HHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHH
Q psy5288          81 LCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSA  159 (186)
Q Consensus        81 ~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~  159 (186)
                      ..|.--.++|... +...-...|++|+-+-.....+.-.+.+..--|.++... |++++|-.-|=+|..-+.+.|+|..-
T Consensus       192 EiYAlEIQmYT~qKnNKkLK~lYeqalhiKSAIPHPlImGvIRECGGKMHlre-g~fe~AhTDFFEAFKNYDEsGspRRt  270 (440)
T KOG1464|consen  192 EIYALEIQMYTEQKNNKKLKALYEQALHIKSAIPHPLIMGVIRECGGKMHLRE-GEFEKAHTDFFEAFKNYDESGSPRRT  270 (440)
T ss_pred             hhHhhHhhhhhhhcccHHHHHHHHHHHHhhccCCchHHHhHHHHcCCcccccc-chHHHHHhHHHHHHhcccccCCcchh
Confidence            3333334566555 334445578899888777776666666777777888876 99999999999999988888877553


Q ss_pred             HHHH--HHHHHHHHhcc
Q psy5288         160 NKCL--IKIANYSALTD  174 (186)
Q Consensus       160 ~~~~--~~la~~y~~~g  174 (186)
                       .|+  .-||+.+.+.|
T Consensus       271 -tCLKYLVLANMLmkS~  286 (440)
T KOG1464|consen  271 -TCLKYLVLANMLMKSG  286 (440)
T ss_pred             -HHHHHHHHHHHHHHcC
Confidence             454  55677776654

>PF00244 14-3-3: 14-3-3 protein; InterPro: IPR023410 The 14-3-3 proteins are a large family of approximately 30kDa acidic proteins which exist primarily as homo- and heterodimeric within all eukaryotic cells [, ]

Probab=81.05  E-value=24  Score=27.36  Aligned_cols=77  Identities=22%  Similarity=0.231  Sum_probs=49.8

Q ss_pred             ChhHHHHHHHHHHHHHhcC-----------CHHHHHHHHHHHHHHHHH-cC-ChhHHHHHHHHHHHHHHHhcCCHHHHHH
Q psy5288          75 NKHDAGLCFVDAANCYKKS-----------NPAEAIKAIERAVEIHTD-MG-RFIMVAKHHENIAEIYEKELEDQEKAID  141 (186)
Q Consensus        75 ~~~~aa~~~~~a~~~y~~~-----------~~~~A~~~~~~Al~i~~~-~~-~~~~~a~~~~~lg~~y~~~lg~~~~Ai~  141 (186)
                      +++....++.--|..|+-.           -.++|.++|++|.++... +. ..+..-....+.+..|..-+|+.++|+.
T Consensus       111 ~~eskvfy~KmkgDyyRYlaE~~~~~~~~~~~~~a~~aY~~A~~~a~~~L~~~~p~rLgl~LN~svF~yei~~~~~~A~~  190 (236)
T PF00244_consen  111 SPESKVFYYKMKGDYYRYLAEFDSGDEKKEAAEKALEAYEEALEIAKKELPPTHPLRLGLALNYSVFYYEILNDPEKAIE  190 (236)
T ss_dssp             SHHHHHHHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTSS-HHHHHH
T ss_pred             chhHHHHHHHHhccccccccccccchhhHHHHHHHHHhhhhHHHHHhcccCCCCcHHHHHHHHHHHHHHHHcCChHHHHH
Confidence            4444455554468888653           136899999999999988 43 3344444444455554444699999999


Q ss_pred             HHHHHHHHHh
Q psy5288         142 HYQHAADCYA  151 (186)
Q Consensus       142 ~y~kA~~l~~  151 (186)
                      .-++|.+-..
T Consensus       191 ia~~afd~a~  200 (236)
T PF00244_consen  191 IAKQAFDEAI  200 (236)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            8877776643

There is a high degree of sequence identity and conservation between all the 14-3-3 isotypes, particularly in the regions which form the dimer interface or line the central ligand binding channel of the dimeric molecule. Each 14-3-3 protein sequence can be roughly divided into three sections: a divergent amino terminus, the conserved core region and a divergent carboxyl terminus. The conserved middle core region of the 14-3-3s encodes an amphipathic groove that forms the main functional domain, a cradle for interacting with client proteins. The monomer consists of nine helices organised in an antiparallel manner, forming an L-shaped structure. The interior of the L-structure is composed of four helices: H3 and H5, which contain many charged and polar amino acids, and H7 and H9, which contain hydrophobic amino acids. These four helices form the concave amphipathic groove that interacts with target peptides. 14-3-3 proteins mainly bind proteins containing phosphothreonine or phosphoserine motifs however exceptions to this rule do exist. Extensive investigation of the 14-3-3 binding site of the mammalian serine/threonine kinase Raf-1 has produced a consensus sequence for 14-3-3-binding, RSxpSxP (in the single-letter amino-acid code, where x denotes any amino acid and p indicates that the next residue is phosphorylated). 14-3-3 proteins appear to effect intracellular signalling in one of three ways - by direct regulation of the catalytic activity of the bound protein, by regulating interactions between the bound protein and other molecules in the cell by sequestration or modification or by controlling the subcellular localisation of the bound ligand. Proteins appear to initially bind to a single dominant site and then subsequently to many, much weaker secondary interaction sites. The 14-3-3 dimer is capable of changing the conformation of its bound ligand whilst itself undergoing minimal structural alteration. This entry represents the structural domain found in 14-3-3 proteins.; PDB: 2O8P_A 3AXY_D 2C74_A 2C63_A 4DX0_A 1YWT_A 3P1O_A 3P1N_A 4DAU_A 3U9X_A ....

>cd02656 MIT MIT: domain contained within Microtubule Interacting and Trafficking molecules

Probab=80.66  E-value=7.6  Score=24.07  Aligned_cols=35  Identities=11%  Similarity=0.143  Sum_probs=24.4

Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Q psy5288          37 DEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLK   72 (186)
Q Consensus        37 ~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~   72 (186)
                      +.|+.+ .+.|.-....|++++|+++|..+++.+..
T Consensus         4 ~~a~~l-~~~Av~~D~~g~~~~Al~~Y~~a~e~l~~   38 (75)
T cd02656           4 QQAKEL-IKQAVKEDEDGNYEEALELYKEALDYLLQ   38 (75)
T ss_pred             HHHHHH-HHHHHHHHHcCCHHHHHHHHHHHHHHHHH
Confidence            445553 33446677778888888888888887654

The MIT domain is found in sorting nexins, the nuclear thiol protease PalBH, the AAA protein spastin and archaebacterial proteins with similar domain architecture, vacuolar sorting proteins and others. The molecular function of the MIT domain is unclear.

>cd02684 MIT_2 MIT: domain contained within Microtubule Interacting and Trafficking molecules

Probab=80.37  E-value=6.4  Score=24.71  Aligned_cols=26  Identities=19%  Similarity=0.204  Sum_probs=20.0

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHHHhc
Q psy5288         126 AEIYEKELEDQEKAIDHYQHAADCYAG  152 (186)
Q Consensus       126 g~~y~~~lg~~~~Ai~~y~kA~~l~~~  152 (186)
                      |.-.-. .|+|++|+.+|.++++.+..
T Consensus        13 Av~~D~-~g~y~eA~~lY~~ale~~~~   38 (75)
T cd02684          13 AVKKDQ-RGDAAAALSLYCSALQYFVP   38 (75)
T ss_pred             HHHHHH-hccHHHHHHHHHHHHHHHHH
Confidence            333344 49999999999999998764

This sub-family of MIT domains is found in proteins with an n-terminal serine/threonine kinase domain. The molecular function of the MIT domain is unclear.

>PRK10941 hypothetical protein; Provisional

Probab=80.34  E-value=14  Score=29.29  Aligned_cols=67  Identities=10%  Similarity=0.016  Sum_probs=54.6

Q ss_pred             HcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHH
Q psy5288         111 DMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYE  184 (186)
Q Consensus       111 ~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~  184 (186)
                      ...+..-....+.++=.+|... ++++.|+.+-+..+.+.++..      .-+..-|.+|.++|.+..|+.-++
T Consensus       173 ~a~~~~il~Rml~nLK~~~~~~-~~~~~AL~~~e~ll~l~P~dp------~e~RDRGll~~qL~c~~~A~~DL~  239 (269)
T PRK10941        173 EADNIEVIRKLLDTLKAALMEE-KQMELALRASEALLQFDPEDP------YEIRDRGLIYAQLDCEHVALSDLS  239 (269)
T ss_pred             CCCHHHHHHHHHHHHHHHHHHc-CcHHHHHHHHHHHHHhCCCCH------HHHHHHHHHHHHcCCcHHHHHHHH
Confidence            3355567778889999999996 999999999999999987642      334667999999999999987554

>cd02677 MIT_SNX15 MIT: domain contained within Microtubule Interacting and Trafficking molecules

Probab=80.14  E-value=7  Score=24.55  Aligned_cols=35  Identities=17%  Similarity=0.059  Sum_probs=21.3

Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Q psy5288          37 DEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLK   72 (186)
Q Consensus        37 ~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~   72 (186)
                      .+|++...+| .-....|++++|.++|..+++.+..
T Consensus         4 ~~A~~l~~~A-ve~d~~~~y~eA~~~Y~~~i~~~~~   38 (75)
T cd02677           4 EQAAELIRLA-LEKEEEGDYEAAFEFYRAGVDLLLK   38 (75)
T ss_pred             HHHHHHHHHH-HHHHHHhhHHHHHHHHHHHHHHHHH
Confidence            4455555554 3344557777777777777776654

This MIT domain sub-family is found in sorting nexin 15 and related proteins. The molecular function of the MIT domain is unclear.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	186
1qqe_A	292	Crystal Structure Of The Vesicular Transport Protei		1e-19

>pdb|1QQE|A Chain A, Crystal Structure Of The Vesicular Transport Protein Sec17 Length = 292

Iteration: 1
 Score = 92.4 bits (228), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 55/153 (35%), Positives = 88/153 (57%), Gaps = 1/153 (0%)
Query: 35  KTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS- 93
           K +EA DL V+A  +++L K+ N  G++FL+A     K  N+ +AG  +V+A  C+K   
Sbjct: 32  KFEEAADLCVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGG 91
Query: 94  NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGE 153
           N   A+ ++E A++I T  G+F   A     + EI E +L D  KAID Y+ A + YA +
Sbjct: 92  NSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQD 151
Query: 154 ENKSSANKCLIKIANYSALTDHLDKAIKLYEQL 186
           ++ + +NKC IK A+  AL     +A  +Y +L
Sbjct: 152 QSVALSNKCFIKCADLKALDGQYIEASDIYSKL 184

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	186
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	4e-44
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	6e-37
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	2e-08
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	8e-07
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	3e-05
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	7e-05
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	4e-04
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	1e-07
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	2e-06
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	7e-05
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	3e-07
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	2e-05
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	1e-06
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	2e-06
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	1e-04
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	2e-06
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	3e-05
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	4e-05
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	1e-04

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1 Length = 292

 Score =  147 bits (371), Expect = 4e-44
 Identities = 64/182 (35%), Positives = 101/182 (55%), Gaps = 4/182 (2%)

Query: 7   KARQLVAEAEKKISSSSKGFFSQFTGGN--KTDEAIDLYVRAGNLFKLGKKWNDGGNAFL 64
              +L+  AEKK   SS GF   F+G +  K +EA DL V+A  +++L K+ N  G++FL
Sbjct: 3   DPVELLKRAEKKGVPSS-GFMKLFSGSDSYKFEEAADLCVQAATIYRLRKELNLAGDSFL 61

Query: 65  QAGTLHLKNNNKHDAGLCFVDAANCYKKSN-PAEAIKAIERAVEIHTDMGRFIMVAKHHE 123
           +A     K  N+ +AG  +V+A  C+K       A+ ++E A++I T  G+F   A    
Sbjct: 62  KAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKF 121

Query: 124 NIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLY 183
            + EI E +L D  KAID Y+ A + YA +++ + +NKC IK A+  AL     +A  +Y
Sbjct: 122 ELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIY 181

Query: 184 EQ 185
            +
Sbjct: 182 SK 183

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio} Length = 307

 Score =  128 bits (324), Expect = 6e-37
 Identities = 44/185 (23%), Positives = 72/185 (38%), Gaps = 9/185 (4%)

Query: 2   ADNEQKARQLVAEAEKKISSSSKGFFSQFTGGNKTDEAIDLYVRAGNLFKLGKKWNDGGN 61
           A    +A + +A+AEK + +S              D A   Y +A   FK  K+     +
Sbjct: 4   AQKISEAHEHIAKAEKYLKTS------FMKWKPDYDSAASEYAKAAVAFKNAKQLEQAKD 57

Query: 62  AFLQAGTLHLKNNNKHDAGLCFVDAANCYKK-SNPAEAIKAIERAVEIHTDMGRFIMVAK 120
           A+LQ    H  N +   A   F  A    K      EA++ IE+A  ++ + G     A 
Sbjct: 58  AYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAM 117

Query: 121 HHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAI 180
             +   ++ E    D  KA+  YQ AA  +  EE    A + + K +         D+A 
Sbjct: 118 ALDRAGKLMEP--LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAA 175

Query: 181 KLYEQ 185
              ++
Sbjct: 176 ASLQK 180

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster} Length = 411

 Score = 51.9 bits (125), Expect = 2e-08
 Identities = 24/173 (13%), Positives = 53/173 (30%), Gaps = 22/173 (12%)

Query: 31  TGGNKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCY 90
                +   ++L +    L   G     G   F  A  +     +       +    N Y
Sbjct: 40  GSDGGSSMCLELALEGERLCNAGD-CRAGVAFFQAA--IQAGTEDLRTLSAIYSQLGNAY 96

Query: 91  -KKSNPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADC 149
               +  +A++  +  + +   M   +  AK   N+     K +   ++A    +     
Sbjct: 97  FYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGNLGNTL-KVMGRFDEAAICCERHLTL 155

Query: 150 YAGEENKSSANKCLIKIAN-YSALTDH----------------LDKAIKLYEQ 185
                ++ S  + L  + N Y A   H                L +A++ Y++
Sbjct: 156 ARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQE 208

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster} Length = 411

 Score = 46.9 bits (112), Expect = 8e-07
 Identities = 19/125 (15%), Positives = 44/125 (35%), Gaps = 4/125 (3%)

Query: 63  FLQAGTLHLKNNNKHDAGLCFVDAANCYK-KSNPAEAIKAIERAVEIHTDMGRFIMVAKH 121
           + +   L     ++   G    +  N Y    +   AI+  +  + I  + G      + 
Sbjct: 206 YQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRA 265

Query: 122 HENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIAN-YSALTDHLDKAI 180
           + N+   +   L   E A +HY+           +    +    + N Y+ L +  + AI
Sbjct: 266 NSNLGNSH-IFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEF-NTAI 323

Query: 181 KLYEQ 185
           + + +
Sbjct: 324 EYHNR 328

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster} Length = 411

 Score = 42.3 bits (100), Expect = 3e-05
 Identities = 25/155 (16%), Positives = 55/155 (35%), Gaps = 15/155 (9%)

Query: 37  DEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLH-----LKNNNKHDAGLCFVDAANCYK 91
           DEA     R   L +        G+   +   L+          KH          +  K
Sbjct: 143 DEAAICCERHLTLAR------QLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVK 196

Query: 92  KSNPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYA 151
           ++    A++  +  +++  D+G      +   N+   Y   L D + AI+H+Q       
Sbjct: 197 EA-LTRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTY-YLLGDFQAAIEHHQERLRIAR 254

Query: 152 GEENKSSANKCLIKIAN-YSALTDHLDKAIKLYEQ 185
              ++++  +    + N +  L    + A + Y++
Sbjct: 255 EFGDRAAERRANSNLGNSHIFLGQF-EDAAEHYKR 288

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster} Length = 411

 Score = 41.5 bits (98), Expect = 7e-05
 Identities = 11/102 (10%), Positives = 32/102 (31%), Gaps = 5/102 (4%)

Query: 85  DAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQ 144
           +  +     +      + +   +  +       +        E       D    +  +Q
Sbjct: 14  ENVSSLGLGSGGGGTNSHDGNSQQGSGSDGGSSMCLELALEGERLCN-AGDCRAGVAFFQ 72

Query: 145 HAADCYAGEENKSSANKCLIKIAN-YSALTDHLDKAIKLYEQ 185
            A       E+  + +    ++ N Y  L D+ +KA++ ++ 
Sbjct: 73  AAIQAG--TEDLRTLSAIYSQLGNAYFYLGDY-NKAMQYHKH 111

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster} Length = 411

 Score = 39.2 bits (92), Expect = 4e-04
 Identities = 18/121 (14%), Positives = 38/121 (31%), Gaps = 15/121 (12%)

Query: 33  GNKTDEAIDLYVRAGNLFKLGKKWNDGGN------AFLQAGTLHLKNNNKHDAGLCFVDA 86
           G++  E         NL   G      G        + +   L ++   +          
Sbjct: 257 GDRAAERRAN----SNL---GNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSL 309

Query: 87  ANCY-KKSNPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQH 145
            N Y        AI+   R + I  ++G  I  A+   ++   +   +   E+A+ + + 
Sbjct: 310 GNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSA-IGGHERALKYAEQ 368

Query: 146 A 146
            
Sbjct: 369 H 369

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens} Length = 406

 Score = 49.6 bits (119), Expect = 1e-07
 Identities = 27/174 (15%), Positives = 53/174 (30%), Gaps = 25/174 (14%)

Query: 33  GNKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCY-K 91
           G+     ++L +    L K G     G + F  A  + +   +       +    N Y  
Sbjct: 3   GSMEASCLELALEGERLCKSGD-CRAGVSFFEAA--VQVGTEDLKTLSAIYSQLGNAYFY 59

Query: 92  KSNPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHA----- 146
             + A+A++     + +   +G  +  AK   N+     K L + ++AI   Q       
Sbjct: 60  LHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTL-KVLGNFDEAIVCCQRHLDISR 118

Query: 147 ---------------ADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ 185
                           + Y  +                  + D L  A+  YE+
Sbjct: 119 ELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEE 172

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens} Length = 406

 Score = 45.8 bits (109), Expect = 2e-06
 Identities = 23/125 (18%), Positives = 53/125 (42%), Gaps = 4/125 (3%)

Query: 63  FLQAGTLHLKNNNKHDAGLCFVDAANCY-KKSNPAEAIKAIERAVEIHTDMGRFIMVAKH 121
           + +  +L     ++   G  F +  N +    N  +A+ A E+ + I  + G      + 
Sbjct: 170 YEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRA 229

Query: 122 HENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIAN-YSALTDHLDKAI 180
           + N+   Y   L + E A ++Y+         ++++   +    + N Y+ L D+ +KAI
Sbjct: 230 YSNLGNAY-IFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDY-EKAI 287

Query: 181 KLYEQ 185
             + +
Sbjct: 288 DYHLK 292

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens} Length = 406

 Score = 41.1 bits (97), Expect = 7e-05
 Identities = 22/125 (17%), Positives = 49/125 (39%), Gaps = 4/125 (3%)

Query: 63  FLQAGTLHLKNNNKHDAGLCFVDAANCYKK-SNPAEAIKAIERAVEIHTDMGRFIMVAKH 121
             Q   +  +  +K      + +  N Y        A +  ++ + +   +    + A+ 
Sbjct: 210 HEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQS 269

Query: 122 HENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIAN-YSALTDHLDKAI 180
             ++   Y   L+D EKAID++           ++    +    + N Y+AL +H D+A+
Sbjct: 270 CYSLGNTY-TLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNH-DQAM 327

Query: 181 KLYEQ 185
              E+
Sbjct: 328 HFAEK 332

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus} Length = 164

 Score = 46.8 bits (112), Expect = 3e-07
 Identities = 20/98 (20%), Positives = 42/98 (42%), Gaps = 3/98 (3%)

Query: 89  CYKKSNPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAAD 148
            Y   N  +A+ A E+ + I  + G        + N+   Y   L + E A ++Y+    
Sbjct: 19  HYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAY-IFLGEFETASEYYKKTLL 77

Query: 149 CYAGEENKSSANKCLIKIAN-YSALTDHLDKAIKLYEQ 185
                ++++   +    + N Y+ L D+ +KAI  + +
Sbjct: 78  LARQLKDRAVEAQSCYSLGNTYTLLQDY-EKAIDYHLK 114

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus} Length = 164

 Score = 41.8 bits (99), Expect = 2e-05
 Identities = 27/155 (17%), Positives = 61/155 (39%), Gaps = 5/155 (3%)

Query: 33  GNKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYK- 91
           G++  +           + LG  + D   A  Q   +  +  +K    + + +  N Y  
Sbjct: 3   GSRAAQGRAFGNLGNTHYLLGN-FRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIF 61

Query: 92  KSNPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYA 151
                 A +  ++ + +   +    + A+   ++   Y   L+D EKAID++        
Sbjct: 62  LGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTY-TLLQDYEKAIDYHLKHLAIAQ 120

Query: 152 GEENKSSANKCLIKIAN-YSALTDHLDKAIKLYEQ 185
             +++    +    + N Y+AL +H D+A+   E+
Sbjct: 121 ELKDRIGEGRACWSLGNAYTALGNH-DQAMHFAEK 154

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus} Length = 338

 Score = 46.5 bits (111), Expect = 1e-06
 Identities = 26/169 (15%), Positives = 52/169 (30%), Gaps = 25/169 (14%)

Query: 38  EAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYK-KSNPA 96
             ++L +    L K G     G + F  A  + +   +       +    N Y    + A
Sbjct: 4   SCLELALEGERLCKSGD-CRAGVSFFEAA--VQVGTEDLKTLSAIYSQLGNAYFYLHDYA 60

Query: 97  EAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHA---------- 146
           +A++     + +   +G  +  AK   N+     K L + ++AI   Q            
Sbjct: 61  KALEYHHHDLTLARTIGDQLGEAKASGNLGNTL-KVLGNFDEAIVCCQRHLDISRELNDK 119

Query: 147 ----------ADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ 185
                      + Y  +                  + + L  A+ LYE+
Sbjct: 120 VGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEE 168

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus} Length = 338

 Score = 46.1 bits (110), Expect = 2e-06
 Identities = 23/125 (18%), Positives = 53/125 (42%), Gaps = 4/125 (3%)

Query: 63  FLQAGTLHLKNNNKHDAGLCFVDAANCYK-KSNPAEAIKAIERAVEIHTDMGRFIMVAKH 121
           + +  +L     ++   G  F +  N +    N  +A+ A E+ + I  + G      + 
Sbjct: 166 YEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRA 225

Query: 122 HENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIAN-YSALTDHLDKAI 180
           + N+   Y   L + E A ++Y+         ++++   +    + N Y+ L D+ +KAI
Sbjct: 226 YSNLGNAY-IFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDY-EKAI 283

Query: 181 KLYEQ 185
             + +
Sbjct: 284 DYHLK 288

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus} Length = 338

 Score = 40.3 bits (95), Expect = 1e-04
 Identities = 26/172 (15%), Positives = 55/172 (31%), Gaps = 28/172 (16%)

Query: 41  DLYVRAGNLFKLGKKWNDGGN------AFLQAGTLHLKNNNKHDAGLCFVDAANCYK-KS 93
           DL   +    +LG  +    +            TL     ++        +  N  K   
Sbjct: 38  DLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKVLG 97

Query: 94  NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIY-------------------EKELE 134
           N  EAI   +R ++I  ++   +  A+   N+  +Y                   E    
Sbjct: 98  NFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRN 157

Query: 135 DQEKAIDHYQHAADCYAGEENKSSANKCLIKIAN-YSALTDHLDKAIKLYEQ 185
             + A+D Y+          ++++  +    + N +  L +    A+  +EQ
Sbjct: 158 ALQAAVDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNF-RDAVIAHEQ 208

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1} Length = 203

 Score = 45.0 bits (107), Expect = 2e-06
 Identities = 14/125 (11%), Positives = 35/125 (28%), Gaps = 3/125 (2%)

Query: 63  FLQAGTLHLKNNNKHDAGLCFVDAANCYK-KSNPAEAIKAIERAVEIHTDMGRFIMVAKH 121
            L          +   A          Y       EA  + +   +     G      + 
Sbjct: 9   ALAERQAQALLAHPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRA 68

Query: 122 HENIAEIYEKELEDQEKAIDHYQHAADCY-AGEENKSSANKCLIKIANYSALTDHLDKAI 180
              +  +  +   + + A   +    +   +  E+  +A+    ++A  +     L  A 
Sbjct: 69  LHQVGMVE-RMAGNWDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGAR 127

Query: 181 KLYEQ 185
           + YE+
Sbjct: 128 QEYEK 132

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1} Length = 203

 Score = 41.5 bits (98), Expect = 3e-05
 Identities = 8/89 (8%), Positives = 30/89 (33%), Gaps = 1/89 (1%)

Query: 97  EAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENK 156
           EA        +    +      +     +  +Y   ++  ++A   +Q          + 
Sbjct: 4   EAHDYALAERQAQALLAHPATASGARFMLGYVY-AFMDRFDEARASFQALQQQAQKSGDH 62

Query: 157 SSANKCLIKIANYSALTDHLDKAIKLYEQ 185
           ++ ++ L ++     +  + D A + + +
Sbjct: 63  TAEHRALHQVGMVERMAGNWDAARRCFLE 91

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis} Length = 383

 Score = 42.1 bits (99), Expect = 4e-05
 Identities = 18/116 (15%), Positives = 37/116 (31%), Gaps = 3/116 (2%)

Query: 71  LKNNNKHDAGLCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYE 130
            +  N        + A N        +AI   ++A  +     +  ++ +   NI     
Sbjct: 176 HEAYNIRLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKN 235

Query: 131 KELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIAN-YSALTDHLDKAIKLYEQ 185
                 E AI +++ A   +       S  +    I   +  L    DKA + + +
Sbjct: 236 -SQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFLITQIHYKLGKI-DKAHEYHSK 289

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis} Length = 378

 Score = 41.0 bits (96), Expect = 1e-04
 Identities = 24/101 (23%), Positives = 44/101 (43%), Gaps = 4/101 (3%)

Query: 86  AANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQH 145
           A N     +  +A+  +E A+E+  D+     +A    NIA  Y++   D + A++H+Q 
Sbjct: 189 AGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDR-SGDDQMAVEHFQK 247

Query: 146 AADCYAGEENKSSANKCLIKIAN-YSALTDHLDKAIKLYEQ 185
           AA   + E+      K L  ++           KA +  E+
Sbjct: 248 AAK-VSREKVPDLLPKVLFGLSWTLCKAGQT-QKAFQFIEE 286

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	186
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.97
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.95
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.89
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.88
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.84
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	99.84
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.84
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	99.8
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	99.8
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	99.8
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.79
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.78
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.77
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.76
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.76
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.76
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.76
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.76
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.75
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.75
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.7
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	99.7
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	99.68
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.67
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.67
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.66
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.65
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	99.63
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.63
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	99.63
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	99.63
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	99.62
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.62
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.61
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.6
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.6
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.58
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.56
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.55
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.55
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.55
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	99.54
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.54
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.53
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.53
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.53
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.52
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.51
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	99.51
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.51
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.5
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.5
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.5
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.49
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.48
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.47
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.47
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.47
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.45
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.45
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.45
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.45
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	99.44
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.44
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	99.44
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.44
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.43
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.43
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.43
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.42
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	99.42
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.41
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.41
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	99.41
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.41
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.41
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.4
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.4
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.39
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.39
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.39
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.39
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.38
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	99.38
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.37
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.37
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.37
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	99.36
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	99.36
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	99.36
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.35
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.35
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	99.35
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.35
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.34
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.34
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	99.33
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.33
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.32
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.31
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.3
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.3
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	99.3
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.3
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	99.3
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.29
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	99.28
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	99.28
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	99.28
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	99.28
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.28
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	99.28
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	99.27
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.27
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.27
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	99.26
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	99.25
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	99.22
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.21
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	99.21
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.2
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.2
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	99.2
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.19
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	99.19
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	99.18
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.18
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	99.18
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	99.18
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	99.18
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	99.17
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	99.16
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	99.16
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	99.15
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.14
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	99.14
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	99.14
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	99.14
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	99.14
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.14
2l6j_A	111	TPR repeat-containing protein associated with HSP;	99.13
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	99.1
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	99.09
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	99.08
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.08
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	99.08
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	99.07
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.06
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	99.05
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	99.05
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	99.05
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.04
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	99.04
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	99.03
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	99.03
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	99.03
1klx_A	138	Cysteine rich protein B; structural genomics, heli	99.03
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	99.03
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	99.02
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	99.01
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	99.01
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	99.0
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	99.0
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.99
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	98.99
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.96
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.96
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.93
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.91
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	98.91
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.91
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	98.86
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.86
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.83
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	98.83
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.83
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.8
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.79
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.79
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	98.78
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.74
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	98.73
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	98.72
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.72
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	98.71
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.7
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	98.67
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	98.64
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.63
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	98.59
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.56
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	98.51
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	98.5
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	98.5
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	98.31
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.29
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	98.25
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	98.2
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	98.17
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	98.12
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.03
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	97.98
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	97.91
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	97.88
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	97.81
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	97.79
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	97.78
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	97.72
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.66
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.65
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	97.58
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	97.49
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	97.41
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	97.37
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	97.37
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	97.35
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	97.22
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	97.2
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.15
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	97.14
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	97.12
1pc2_A	152	Mitochondria fission protein; unknown function; NM	97.1
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.04
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	96.94
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	96.91
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	96.83
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	96.68
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	96.65
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.64
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	96.63
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.59
1pc2_A	152	Mitochondria fission protein; unknown function; NM	95.92
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	95.8
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	95.7
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	95.3
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	95.17
1ya0_A	497	SMG-7 transcript variant 2; alpha-helical repeat,	95.06
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	94.99
2wm9_A	428	Dedicator of cytokinesis protein 9; polymorphism,	94.4
2yin_A	436	DOCK2, dedicator of cytokinesis protein 2; apoptos	94.35
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	93.05
1ya0_A	497	SMG-7 transcript variant 2; alpha-helical repeat,	92.49
2yin_A	436	DOCK2, dedicator of cytokinesis protein 2; apoptos	92.46
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	91.96
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	91.81
4b4t_S	523	RPN3, 26S proteasome regulatory subunit RPN3; hydr	90.72
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	90.61
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	90.43
3kae_A	242	CDC27, possible protein of nuclear scaffold; tetra	90.05
2w2u_A	83	Hypothetical P60 katanin; hydrolase transport comp	89.64
2v6y_A	83	AAA family ATPase, P60 katanin; MIT, VPS4, archaea	89.04
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	88.78
2crb_A	97	Nuclear receptor binding factor 2; NRBF-2, MIT dom	88.66
2w2u_A	83	Hypothetical P60 katanin; hydrolase transport comp	88.5
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	88.15
2v6y_A	83	AAA family ATPase, P60 katanin; MIT, VPS4, archaea	87.47
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	87.0
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	86.96
2cpt_A	117	SKD1 protein, vacuolar sorting protein 4B; MIT, he	86.83
4b4t_S	523	RPN3, 26S proteasome regulatory subunit RPN3; hydr	86.66
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	86.61
2v6x_A	85	Vacuolar protein sorting-associated protein 4; pro	85.53
1wfd_A	93	Hypothetical protein 1500032H18; MIT domain, struc	85.46
4a5x_A	86	MITD1, MIT domain-containing protein 1; protein tr	84.27
2cpt_A	117	SKD1 protein, vacuolar sorting protein 4B; MIT, he	84.15
4a5x_A	86	MITD1, MIT domain-containing protein 1; protein tr	83.79
1wfd_A	93	Hypothetical protein 1500032H18; MIT domain, struc	83.16
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	82.35
2v6x_A	85	Vacuolar protein sorting-associated protein 4; pro	81.6
2wm9_A	428	Dedicator of cytokinesis protein 9; polymorphism,	81.08
2crb_A	97	Nuclear receptor binding factor 2; NRBF-2, MIT dom	80.01

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.97  E-value=3.6e-30  Score=202.81  Aligned_cols=178  Identities=35%  Similarity=0.582  Sum_probs=165.8

Q ss_pred             HhHHHHHHHHHHhhccCCCCccccccCC--C-CHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHH
Q psy5288           6 QKARQLVAEAEKKISSSSKGFFSQFTGG--N-KTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLC   82 (186)
Q Consensus         6 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~-~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~   82 (186)
                      ++|++++++|+|+++ ++.||| .+|++  + ++++|+++|.++|.+|...|++++|+++|.++++++.+.|++...+.+
T Consensus         2 ~~a~~~~~~a~k~~~-~~~~~~-~~~~~~~~~~~~~A~~~~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~   79 (292)
T 1qqe_A            2 SDPVELLKRAEKKGV-PSSGFM-KLFSGSDSYKFEEAADLCVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNT   79 (292)
T ss_dssp             CCHHHHHHHHHHHSS-CCCTHH-HHHSCCSHHHHHHHHHHHHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CcHHHHHHHHHHHhC-cCCCcc-hhcCCCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHH
Confidence            589999999999999 546888 57764  4 499999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHH
Q psy5288          83 FVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANK  161 (186)
Q Consensus        83 ~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~  161 (186)
                      |.++|.+|... ++++|+.+|++|++++...|++..++.++.++|.+|..++|++++|+.+|++|+++++..+.+.....
T Consensus        80 ~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~  159 (292)
T 1qqe_A           80 YVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNK  159 (292)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHH
Confidence            99999999987 99999999999999999999999999999999999998239999999999999999998877777778


Q ss_pred             HHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         162 CLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       162 ~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ++.++|.+|..+|+|++|+++|++
T Consensus       160 ~~~~lg~~~~~~g~~~~A~~~~~~  183 (292)
T 1qqe_A          160 CFIKCADLKALDGQYIEASDIYSK  183 (292)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHH
Confidence            999999999999999999999986

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=99.95  E-value=1.5e-26  Score=183.35  Aligned_cols=177  Identities=25%  Similarity=0.301  Sum_probs=164.5

Q ss_pred             CCchH-HhHHHHHHHHHHhhccCCCCccccccCCCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHH
Q psy5288           1 MADNE-QKARQLVAEAEKKISSSSKGFFSQFTGGNKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDA   79 (186)
Q Consensus         1 ~~~~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~a   79 (186)
                      |+++- .+|.+++++|++.++   .+||.   .++++++|+++|.++|.+|...|++++|+++|.++++++.+++++..+
T Consensus         2 ~~~~~~~eA~~~~~~a~k~~~---~~~~~---~~~~~~~A~~~~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~   75 (307)
T 2ifu_A            2 IAAQKISEAHEHIAKAEKYLK---TSFMK---WKPDYDSAASEYAKAAVAFKNAKQLEQAKDAYLQEAEAHANNRSLFHA   75 (307)
T ss_dssp             -CHHHHHHHHHHHHHHHHHHC---CCSSS---CSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             CccchHHHHHHHHHHHHHHcc---ccccC---CCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHH
Confidence            55544 899999999999999   56533   268999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHH
Q psy5288          80 GLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSS  158 (186)
Q Consensus        80 a~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~  158 (186)
                      +.+|.++|.+|... ++++|+.+|++|++++...|++...+.++.++|.+|..  |++++|+.+|++|+++++..+++..
T Consensus        76 a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~--g~~~~A~~~~~~Al~~~~~~~~~~~  153 (307)
T 2ifu_A           76 AKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP--LDLSKAVHLYQQAAAVFENEERLRQ  153 (307)
T ss_dssp             HHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT--TCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc--CCHHHHHHHHHHHHHHHHhCCChhH
Confidence            99999999999987 99999999999999999999999999999999999975  9999999999999999998888877


Q ss_pred             HHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         159 ANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       159 ~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ...++.++|.+|..+|+|++|+++|++
T Consensus       154 ~~~~~~~lg~~~~~~g~~~~A~~~~~~  180 (307)
T 2ifu_A          154 AAELIGKASRLLVRQQKFDEAAASLQK  180 (307)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            788999999999999999999999986

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.89  E-value=5.5e-21  Score=150.19  Aligned_cols=170  Identities=15%  Similarity=0.085  Sum_probs=147.8

Q ss_pred             hHHhHHHHHHHHHHhhccCCCCccccccCCCCHHHHHHHHHHH--------------------HHHHHhcCCHHHHHHHH
Q psy5288           4 NEQKARQLVAEAEKKISSSSKGFFSQFTGGNKTDEAIDLYVRA--------------------GNLFKLGKKWNDGGNAF   63 (186)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~A~~~y~~a--------------------g~~~~~~g~~~~A~~~y   63 (186)
                      ..++|.+++.+|...+.           ..|+|++|+++|.++                    |.+|..+|++++|+.+|
T Consensus        32 ~~~~A~~~~~~a~~~~~-----------~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~  100 (292)
T 1qqe_A           32 KFEEAADLCVQAATIYR-----------LRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSL  100 (292)
T ss_dssp             HHHHHHHHHHHHHHHHH-----------HTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHH-----------HcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            36788888888877665           235666666666554                    66788899999999999


Q ss_pred             HHHHHHHHHcCChhHHHHHHHHHHHHHhc--CCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHH
Q psy5288          64 LQAGTLHLKNNNKHDAGLCFVDAANCYKK--SNPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAID  141 (186)
Q Consensus        64 ~~a~~~~~~~~~~~~aa~~~~~a~~~y~~--~~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~  141 (186)
                      .++++++...|++..++.++.++|.+|..  .++++|+.+|++|+++.+..++....+.++.++|.+|..+ |++++|+.
T Consensus       101 ~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~-g~~~~A~~  179 (292)
T 1qqe_A          101 ENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALD-GQYIEASD  179 (292)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHT-TCHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHh-CCHHHHHH
Confidence            99999999999999999999999999987  4999999999999999999999888899999999999995 99999999


Q ss_pred             HHHHHHHHHhccCCh-HHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         142 HYQHAADCYAGEENK-SSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       142 ~y~kA~~l~~~~~~~-~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      +|++++.+.+..... .....++.++|.++..+|++++|+.+|++
T Consensus       180 ~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~  224 (292)
T 1qqe_A          180 IYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQE  224 (292)
T ss_dssp             HHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHG
T ss_pred             HHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            999999998876543 34456889999999999999999999986

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=99.88  E-value=1.3e-20  Score=148.96  Aligned_cols=150  Identities=14%  Similarity=0.124  Sum_probs=134.9

Q ss_pred             CHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCC
Q psy5288          35 KTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGR  114 (186)
Q Consensus        35 ~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~~~~~A~~~~~~Al~i~~~~~~  114 (186)
                      +...++..|.++|.+|..+|++++|+.+|.++++++...|++...+.++.++|.+|...++++|+.+|++|++++...++
T Consensus        71 ~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~g~~~~A~~~~~~Al~~~~~~~~  150 (307)
T 2ifu_A           71 SLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEPLDLSKAVHLYQQAAAVFENEER  150 (307)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             CHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCC
Confidence            33344444555577788889999999999999999999999999999999999999878999999999999999999999


Q ss_pred             hhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         115 FIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       115 ~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ....+.++.++|.+|.. +|++++|+.+|++++.+.++.+.+.....++.++|.++..+|++++|+.+|++
T Consensus       151 ~~~~~~~~~~lg~~~~~-~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~  220 (307)
T 2ifu_A          151 LRQAAELIGKASRLLVR-QQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRE  220 (307)
T ss_dssp             HHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHH-cCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            99999999999999999 59999999999999999998776666667899999999999999999999986

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.84  E-value=1.2e-18  Score=140.81  Aligned_cols=150  Identities=13%  Similarity=0.092  Sum_probs=136.1

Q ss_pred             CHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCC-hhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHc
Q psy5288          35 KTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNN-KHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDM  112 (186)
Q Consensus        35 ~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~-~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~  112 (186)
                      +....+..+...|.+|...|++++|+++|.++++++.+.++ ....+.++..+|.+|... ++++|+.+|++|+++.+..
T Consensus       138 ~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~  217 (383)
T 3ulq_A          138 DRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAE  217 (383)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHc
Confidence            44455566666688999999999999999999999999887 778889999999999987 9999999999999999999


Q ss_pred             CChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         113 GRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       113 ~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ++....+.++.++|.+|..+ |++++|+.+|++|+.+.+..+..+....++.++|.+|..+|++++|+++|++
T Consensus       218 ~~~~~~~~~~~~lg~~y~~~-g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  289 (383)
T 3ulq_A          218 KQPQLMGRTLYNIGLCKNSQ-SQYEDAIPYFKRAIAVFEESNILPSLPQAYFLITQIHYKLGKIDKAHEYHSK  289 (383)
T ss_dssp             TCHHHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHHC-CCHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            99999999999999999995 9999999999999999998777444468999999999999999999999976

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=99.84  E-value=2.8e-18  Score=120.55  Aligned_cols=151  Identities=15%  Similarity=0.115  Sum_probs=141.8

Q ss_pred             CCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHc
Q psy5288          34 NKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDM  112 (186)
Q Consensus        34 ~~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~  112 (186)
                      ++....+..+...|.++...|++++|+.+|.+++++....+++...+..+..+|.+|... ++++|+.++++++++....
T Consensus         3 ~d~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~   82 (164)
T 3ro3_A            3 GSRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQL   82 (164)
T ss_dssp             -CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHT
T ss_pred             CcHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHh
Confidence            577788889999999999999999999999999999999999999999999999999887 9999999999999999999


Q ss_pred             CChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         113 GRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       113 ~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      +++...+.++..+|.++... |++++|+.++++++.+.+..+.+.....++..+|.+|...|++++|++++++
T Consensus        83 ~~~~~~~~~~~~l~~~~~~~-~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  154 (164)
T 3ro3_A           83 KDRAVEAQSCYSLGNTYTLL-QDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEK  154 (164)
T ss_dssp             TCHHHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHHHHH-hhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            99999999999999999995 9999999999999999988888877788999999999999999999999875

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.84  E-value=1.7e-18  Score=140.02  Aligned_cols=167  Identities=20%  Similarity=0.172  Sum_probs=143.9

Q ss_pred             HhHHHHHHHHHHhhccCCCCccccccCCCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCC-hhHHHHHHH
Q psy5288           6 QKARQLVAEAEKKISSSSKGFFSQFTGGNKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNN-KHDAGLCFV   84 (186)
Q Consensus         6 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~-~~~aa~~~~   84 (186)
                      .+|.....+|.+.++           ..++....+..+...|.+|...|++++|+.++.++++++.+.++ ....+.++.
T Consensus       118 ~~A~~~~~~al~~~~-----------~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  186 (378)
T 3q15_A          118 VEAIGYYREAEKELP-----------FVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLF  186 (378)
T ss_dssp             HHHHHHHHHHHTTGG-----------GCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHh-----------hCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHH
Confidence            445555555555544           11344555566666688999999999999999999999998876 567889999


Q ss_pred             HHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHH
Q psy5288          85 DAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCL  163 (186)
Q Consensus        85 ~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~  163 (186)
                      .+|.+|... ++++|+.+|++|+++....++....+.++.++|.+|..+ |++++|+.+|++|+.+++..+++.. ..++
T Consensus       187 ~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~-~~~~~A~~~~~~al~~~~~~~~~~~-~~~~  264 (378)
T 3q15_A          187 VIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRS-GDDQMAVEHFQKAAKVSREKVPDLL-PKVL  264 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH-TCHHHHHHHHHHHHHHHHHHCGGGH-HHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHC-CCHHHHHHHHHHHHHHHHhhCChhH-HHHH
Confidence            999999987 999999999999999999999999999999999999995 9999999999999999988777766 6899


Q ss_pred             HHHHHHHHhccCHHHHHHHHHh
Q psy5288         164 IKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       164 ~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      .++|.+|..+|++++|+++|++
T Consensus       265 ~~la~~~~~~g~~~~A~~~~~~  286 (378)
T 3q15_A          265 FGLSWTLCKAGQTQKAFQFIEE  286 (378)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHH
Confidence            9999999999999999999976

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=99.80  E-value=3.2e-17  Score=120.31  Aligned_cols=147  Identities=9%  Similarity=0.091  Sum_probs=136.3

Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcC-Ch
Q psy5288          38 EAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMG-RF  115 (186)
Q Consensus        38 ~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~-~~  115 (186)
                      .....+...|.++...|++++|..+|.+++.+....+++...+.++.++|.+|... ++++|+.++++++++....+ ++
T Consensus        24 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  103 (203)
T 3gw4_A           24 TASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNWDAARRCFLEERELLASLPEDP  103 (203)
T ss_dssp             THHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCH
T ss_pred             HHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCccH
Confidence            34567788899999999999999999999999999999999999999999999887 99999999999999999998 56


Q ss_pred             hHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         116 IMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       116 ~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ...+.++.++|.++... |++++|+.++++++.+.+..+.+.....++.++|.++...|++++|+++|++
T Consensus       104 ~~~~~~~~~lg~~~~~~-g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  172 (203)
T 3gw4_A          104 LAASANAYEVATVALHF-GDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKNLLEAQQHWLR  172 (203)
T ss_dssp             HHHHHHHHHHHHHHHHH-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHh-CCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcCHHHHHHHHHH
Confidence            68899999999999995 9999999999999999988888877788899999999999999999999875

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=99.80  E-value=7.9e-18  Score=131.86  Aligned_cols=168  Identities=8%  Similarity=-0.025  Sum_probs=138.5

Q ss_pred             HHhHHHHHHHHHHhhccCCCCccccccCCCCHHHHHHHHHHH--------------------HHHHHhcCCHHHHHHHHH
Q psy5288           5 EQKARQLVAEAEKKISSSSKGFFSQFTGGNKTDEAIDLYVRA--------------------GNLFKLGKKWNDGGNAFL   64 (186)
Q Consensus         5 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~A~~~y~~a--------------------g~~~~~~g~~~~A~~~y~   64 (186)
                      +.....+...+...+.            .++|++|.+.|.++                    |.++...|++++|+++|.
T Consensus        72 ~~~~~~l~~~~~~~~~------------~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~  139 (293)
T 2qfc_A           72 IERKKQFKDQVIMLCK------------QKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELK  139 (293)
T ss_dssp             HHHHHHHHHHHHHHHH------------TTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHH------------hhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHH
Confidence            3445555666665555            35777777776543                    556778899999999999


Q ss_pred             HHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhH-HHHHHHHHHHHHHHhcCCHHHHHHH
Q psy5288          65 QAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIM-VAKHHENIAEIYEKELEDQEKAIDH  142 (186)
Q Consensus        65 ~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~-~a~~~~~lg~~y~~~lg~~~~Ai~~  142 (186)
                      +++++.....++...+.++.++|.+|... ++++|+.+|++|+++....++... ...++.++|.+|..+ |+|++|+.+
T Consensus       140 ~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~-~~y~~Al~~  218 (293)
T 2qfc_A          140 KLLNQQLTGIDVYQNLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLD-SRYEESLYQ  218 (293)
T ss_dssp             HHHTTCCCSSCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHT-TCHHHHHHH
T ss_pred             HHHHHHhcCCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHH-hhHHHHHHH
Confidence            99998877777777888999999999987 999999999999999988765443 448999999999995 999999999


Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHH-HHHHHh
Q psy5288         143 YQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKA-IKLYEQ  185 (186)
Q Consensus       143 y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A-~~~~~~  185 (186)
                      |++|+.+.++.+.......++.++|.+|..+|++++| ..+|++
T Consensus       219 ~~kal~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~Ai~~~~~~  262 (293)
T 2qfc_A          219 VNKAIEISCRINSMALIGQLYYQRGECLRKLEYEEAEIEDAYKK  262 (293)
T ss_dssp             HHHHHHHHHHTTBCSSHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHH
Confidence            9999999877666656678999999999999999999 676764

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=99.80  E-value=1.1e-17  Score=131.13  Aligned_cols=144  Identities=8%  Similarity=-0.030  Sum_probs=128.8

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHc-CChhHH
Q psy5288          41 DLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDM-GRFIMV  118 (186)
Q Consensus        41 ~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~-~~~~~~  118 (186)
                      .++...|.++...|++++|+.+|.+++++....+++...+.++.++|.+|... ++++|+.+|++|+++.... ++....
T Consensus       116 ~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  195 (293)
T 3u3w_A          116 QWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFD  195 (293)
T ss_dssp             HHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHH
T ss_pred             HHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHH
Confidence            34444577777888999999999999998777777778888999999999887 9999999999999999888 788899


Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhcc-CHHHHHHHHHh
Q psy5288         119 AKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTD-HLDKAIKLYEQ  185 (186)
Q Consensus       119 a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g-~~~~A~~~~~~  185 (186)
                      +.++.++|.+|..+ |+|++|+.++++|+++.++.+.....+.++.++|.+|..+| ++++|+++|++
T Consensus       196 ~~~~~nlg~~y~~~-~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~~A~~~~~~  262 (293)
T 3u3w_A          196 VKVRYNHAKALYLD-SRYEESLYQVNKAIEISCRINSMALIGQLYYQRGECLRKLEYEEAEIEDAYKK  262 (293)
T ss_dssp             HHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHTTBCTTHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH-hHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHH
Confidence            99999999999995 99999999999999999887777777789999999999999 57999999976

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.79  E-value=9.5e-17  Score=129.71  Aligned_cols=142  Identities=15%  Similarity=0.117  Sum_probs=121.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHH
Q psy5288          43 YVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKH  121 (186)
Q Consensus        43 y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~  121 (186)
                      +...|.+|..+|++++|+++|.+++++..+.+++...+.++.++|.+|... ++++|+.++++|+++....++.+..+.+
T Consensus       187 ~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  266 (383)
T 3ulq_A          187 HSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQA  266 (383)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHH
Confidence            333467788899999999999999999999999999999999999999987 9999999999999999999986677999


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHH-----------------------------------HHHHHHHH
Q psy5288         122 HENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSS-----------------------------------ANKCLIKI  166 (186)
Q Consensus       122 ~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~-----------------------------------~~~~~~~l  166 (186)
                      +.++|.+|... |++++|+.++++|+.+.++.+++..                                   ...++..+
T Consensus       267 ~~~l~~~~~~~-g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~~~~~~~~~~~~~l  345 (383)
T 3ulq_A          267 YFLITQIHYKL-GKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESKMLYADLEDFAIDV  345 (383)
T ss_dssp             HHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHC-CCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCcCHHHHHHHHHHH
Confidence            99999999995 9999999999999998765544333                                   22356677


Q ss_pred             HHHHHhccCHHHHHHHHHh
Q psy5288         167 ANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       167 a~~y~~~g~~~~A~~~~~~  185 (186)
                      |.+|...|++++|+++|++
T Consensus       346 a~~y~~~g~~~~A~~~~~~  364 (383)
T 3ulq_A          346 AKYYHERKNFQKASAYFLK  364 (383)
T ss_dssp             HHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHH
Confidence            7777777777777777764

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.78  E-value=8.9e-17  Score=130.06  Aligned_cols=168  Identities=15%  Similarity=0.193  Sum_probs=150.0

Q ss_pred             HHhHHHHHHHHHHhhccCCCCccccccCCCCHHHHHHHHHHH------------------HHHHHhcCCHHHHHHHHHHH
Q psy5288           5 EQKARQLVAEAEKKISSSSKGFFSQFTGGNKTDEAIDLYVRA------------------GNLFKLGKKWNDGGNAFLQA   66 (186)
Q Consensus         5 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~A~~~y~~a------------------g~~~~~~g~~~~A~~~y~~a   66 (186)
                      +..+..+...|...+.            .|++++|+.+|.++                  |.+|...|++++|+.+|.++
T Consensus        45 ~~~~~~l~~~g~~~~~------------~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~a  112 (411)
T 4a1s_A           45 SSMCLELALEGERLCN------------AGDCRAGVAFFQAAIQAGTEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHD  112 (411)
T ss_dssp             HHHHHHHHHHHHHHHH------------TTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHH------------hCcHHHHHHHHHHHHHhcccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            4666677777766666            25778887777766                  56788999999999999999


Q ss_pred             HHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCC----------
Q psy5288          67 GTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELED----------  135 (186)
Q Consensus        67 ~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~----------  135 (186)
                      +.+....++....+.++..+|.+|... ++++|+.+|++++++....++....+.++..+|.+|... |+          
T Consensus       113 l~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~~~~~~~~  191 (411)
T 4a1s_A          113 LTLAKSMNDRLGEAKSSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAK-GKHLGQRNPGKF  191 (411)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHH-HHHHHHHSTTCC
T ss_pred             HHHHHHccCchHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHc-Ccccccccchhh
Confidence            999999999999999999999999887 999999999999999999999999999999999999995 99          


Q ss_pred             -------HHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         136 -------QEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       136 -------~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                             +++|+.+|++++.+.+..+.+.....++.++|.+|...|++++|+++|++
T Consensus       192 ~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  248 (411)
T 4a1s_A          192 GDDVKEALTRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQE  248 (411)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             hhhhhHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHH
Confidence                   99999999999999988877777778999999999999999999999975

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.77  E-value=2.2e-16  Score=126.75  Aligned_cols=151  Identities=15%  Similarity=0.104  Sum_probs=141.5

Q ss_pred             CCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHc
Q psy5288          34 NKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDM  112 (186)
Q Consensus        34 ~~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~  112 (186)
                      ++.......+...|.+|...|++++|+.+|.+++++....+++...+.++..+|.+|... ++++|+.++++++++....
T Consensus       181 ~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~  260 (406)
T 3sf4_A          181 GDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQL  260 (406)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHT
T ss_pred             cCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhC
Confidence            456777788999999999999999999999999999999999988899999999999887 9999999999999999999


Q ss_pred             CChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         113 GRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       113 ~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ++....+.++..+|.+|... |++++|+.+|++++.+.+..+.+.....++..+|.+|...|++++|+++|++
T Consensus       261 ~~~~~~~~~~~~la~~~~~~-g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  332 (406)
T 3sf4_A          261 KDRAVEAQSCYSLGNTYTLL-QDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAMHFAEK  332 (406)
T ss_dssp             TCHHHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             cCchHHHHHHHHHHHHHHHh-CcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            99999999999999999995 9999999999999999998888888888999999999999999999999976

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.76  E-value=3e-16  Score=122.05  Aligned_cols=145  Identities=17%  Similarity=0.199  Sum_probs=132.8

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHH
Q psy5288          40 IDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMV  118 (186)
Q Consensus        40 ~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~  118 (186)
                      ...+...|.++...|++++|++++.+++.+....+++...+..+..+|.+|... ++++|+.++++++++....++....
T Consensus        43 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  122 (338)
T 3ro2_A           43 SAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGE  122 (338)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHH
Confidence            344445577899999999999999999999999999999999999999999887 9999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhcCC--------------------HHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHH
Q psy5288         119 AKHHENIAEIYEKELED--------------------QEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDK  178 (186)
Q Consensus       119 a~~~~~lg~~y~~~lg~--------------------~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~  178 (186)
                      +.++..+|.+|... |+                    +++|+.++++++.+.+..+.+.....++.++|.+|...|++++
T Consensus       123 ~~~~~~l~~~~~~~-~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  201 (338)
T 3ro2_A          123 ARALYNLGNVYHAK-GKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRD  201 (338)
T ss_dssp             HHHHHHHHHHHHHH-HHTSSSSSCC----CCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHHHHHHHHHHc-CcccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHH
Confidence            99999999999995 99                    9999999999999988877777777899999999999999999


Q ss_pred             HHHHHHh
Q psy5288         179 AIKLYEQ  185 (186)
Q Consensus       179 A~~~~~~  185 (186)
                      |+++|++
T Consensus       202 A~~~~~~  208 (338)
T 3ro2_A          202 AVIAHEQ  208 (338)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9999875

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.76  E-value=5.4e-17  Score=131.16  Aligned_cols=143  Identities=15%  Similarity=0.092  Sum_probs=132.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCC-hhHHH
Q psy5288          42 LYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGR-FIMVA  119 (186)
Q Consensus        42 ~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~-~~~~a  119 (186)
                      ++...|..+...|++++|+.+|.+++++....+++...+.++.++|.+|... ++++|+.++++|++++...++ ....+
T Consensus       103 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~  182 (378)
T 3q15_A          103 SLFFRGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTI  182 (378)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHH
T ss_pred             HHHHHHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHH
Confidence            4455688889999999999999999999999999999999999999999887 999999999999999999887 66899


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         120 KHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       120 ~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      .++.++|.+|... |++++|+++|++|+++.++.+++.....++.++|.+|..+|++++|+++|++
T Consensus       183 ~~~~~lg~~y~~~-~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~  247 (378)
T 3q15_A          183 QSLFVIAGNYDDF-KHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQK  247 (378)
T ss_dssp             HHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh-CCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            9999999999994 9999999999999999998888888888999999999999999999999976

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=99.76  E-value=1.7e-16  Score=121.04  Aligned_cols=173  Identities=18%  Similarity=0.213  Sum_probs=145.9

Q ss_pred             chHHhHHHHHHHHHHhhccCCCCccccccCCCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHc--CChhHHH
Q psy5288           3 DNEQKARQLVAEAEKKISSSSKGFFSQFTGGNKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKN--NNKHDAG   80 (186)
Q Consensus         3 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~--~~~~~aa   80 (186)
                      +++.+|..+..+|-+.+.   ..      ...+...-...+...|.+|...|++++|+.+|.+++++....  ++....+
T Consensus        15 ~~~~~A~~~~~~al~~~~---~~------~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~   85 (283)
T 3edt_B           15 VPRGSAVPLCKQALEDLE---KT------SGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVA   85 (283)
T ss_dssp             SCSSSHHHHHHHHHHHHH---HH------HCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHH
T ss_pred             CCHHHHHHHHHHHHHHHH---Hh------cCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHH
Confidence            345788889999988776   11      112445667788889999999999999999999999998876  6667778


Q ss_pred             HHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHc--CChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhcc--CC
Q psy5288          81 LCFVDAANCYKKS-NPAEAIKAIERAVEIHTDM--GRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGE--EN  155 (186)
Q Consensus        81 ~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~--~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~--~~  155 (186)
                      ..+..+|.+|... ++++|+.+|++++++....  .+.+..+.++.++|.+|... |++++|+.+|++++.++...  ..
T Consensus        86 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~-g~~~~A~~~~~~al~~~~~~~~~~  164 (283)
T 3edt_B           86 ATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQ-GKAEEVEYYYRRALEIYATRLGPD  164 (283)
T ss_dssp             HHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHHSCTT
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHHhcCCC
Confidence            8999999999887 9999999999999998776  33477888999999999995 99999999999999997653  23


Q ss_pred             hHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         156 KSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       156 ~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ......++.++|.+|...|++++|+++|++
T Consensus       165 ~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  194 (283)
T 3edt_B          165 DPNVAKTKNNLASCYLKQGKYQDAETLYKE  194 (283)
T ss_dssp             CHHHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            444567899999999999999999999976

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.76  E-value=3.4e-16  Score=125.62  Aligned_cols=153  Identities=12%  Similarity=0.116  Sum_probs=136.8

Q ss_pred             CCCCHHHHHHHHHHH--------------------HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHh
Q psy5288          32 GGNKTDEAIDLYVRA--------------------GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYK   91 (186)
Q Consensus        32 ~~~~~~~A~~~y~~a--------------------g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~   91 (186)
                      ..|++++|..+|.++                    |.+|...|++++|+.+|.+++++....+++...+..+..+|.+|.
T Consensus        59 ~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~  138 (406)
T 3sf4_A           59 YLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYH  138 (406)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHH
Confidence            456788887777665                    567888999999999999999999999988888999999999998


Q ss_pred             cC-C--------------------HHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHH
Q psy5288          92 KS-N--------------------PAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCY  150 (186)
Q Consensus        92 ~~-~--------------------~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~  150 (186)
                      .. +                    +++|+.++++++.+....++....+.++..+|.+|... |++++|+.+|++++.+.
T Consensus       139 ~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~-g~~~~A~~~~~~al~~~  217 (406)
T 3sf4_A          139 AKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLL-GNFRDAVIAHEQRLLIA  217 (406)
T ss_dssp             HHHHTCC-------CCCCHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH-TBHHHHHHHHHHHHHHH
T ss_pred             HcCCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHc-cCHHHHHHHHHHHHHHH
Confidence            76 7                    99999999999999999999999999999999999995 99999999999999999


Q ss_pred             hccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         151 AGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       151 ~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ++.+.+.....++.++|.+|...|++++|+.+|++
T Consensus       218 ~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  252 (406)
T 3sf4_A          218 KEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKK  252 (406)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHH
Confidence            98877777778999999999999999999999875

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.76  E-value=3.9e-16  Score=121.41  Aligned_cols=151  Identities=15%  Similarity=0.105  Sum_probs=140.2

Q ss_pred             CCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHc
Q psy5288          34 NKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDM  112 (186)
Q Consensus        34 ~~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~  112 (186)
                      ++...-...+...|.++...|++++|..++.+++++....+++...+..+..+|.+|... ++++|+.++++++++....
T Consensus       177 ~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~  256 (338)
T 3ro2_A          177 GDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQL  256 (338)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhh
Confidence            355666778888899999999999999999999999999999988899999999999876 9999999999999999999


Q ss_pred             CChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         113 GRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       113 ~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ++....+.++..+|.+|... |++++|+.++++++.+.+..+.+.....++..+|.+|...|++++|+++|++
T Consensus       257 ~~~~~~~~~~~~la~~~~~~-g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  328 (338)
T 3ro2_A          257 KDRAVEAQSCYSLGNTYTLL-QDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEK  328 (338)
T ss_dssp             TCHHHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             cchhHHHHHHHHHHHHHHHh-cCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHH
Confidence            99999999999999999995 9999999999999999998887877788999999999999999999999976

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.75  E-value=7.2e-16  Score=119.47  Aligned_cols=147  Identities=20%  Similarity=0.234  Sum_probs=127.6

Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHc--CChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHc--
Q psy5288          38 EAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKN--NNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDM--  112 (186)
Q Consensus        38 ~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~--~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~--  112 (186)
                      .....+...|.+|...|++++|..+|.+++.+..+.  ++.......+..+|.+|... ++++|+.++++++++....  
T Consensus        67 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~  146 (311)
T 3nf1_A           67 DVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLG  146 (311)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcC
Confidence            334455555778889999999999999999998876  66677788899999999887 9999999999999999887  


Q ss_pred             CChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhcc--CChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         113 GRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGE--ENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       113 ~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~--~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ++....+.++..+|.++... |++++|+.+|++++.++...  +.......++..+|.+|...|++++|+++|++
T Consensus       147 ~~~~~~~~~~~~la~~~~~~-~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  220 (311)
T 3nf1_A          147 KDHPDVAKQLNNLALLCQNQ-GKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKE  220 (311)
T ss_dssp             TTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             CCChHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            77788899999999999995 99999999999999997764  33455567999999999999999999999976

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.75  E-value=7.6e-16  Score=124.56  Aligned_cols=150  Identities=11%  Similarity=0.069  Sum_probs=139.2

Q ss_pred             CHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcC
Q psy5288          35 KTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMG  113 (186)
Q Consensus        35 ~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~  113 (186)
                      +...-...+...|.++...|++++|+.+|.+++++....++....+..+..+|.+|... ++++|+.++++++++....+
T Consensus       218 ~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~  297 (411)
T 4a1s_A          218 DRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELG  297 (411)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTT
T ss_pred             CHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcC
Confidence            44556667788899999999999999999999999999988888889999999999887 99999999999999999999


Q ss_pred             ChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         114 RFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       114 ~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      +....+.++..+|.+|... |++++|+.+|++++.+.+..+.+.....++..+|.+|...|++++|+++|++
T Consensus       298 ~~~~~~~~~~~la~~~~~~-g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  368 (411)
T 4a1s_A          298 EREVEAQSCYSLGNTYTLL-HEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYAEQ  368 (411)
T ss_dssp             CHHHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHHH
Confidence            9999999999999999995 9999999999999999998887777788999999999999999999999976

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=99.70  E-value=4.3e-15  Score=113.25  Aligned_cols=148  Identities=18%  Similarity=0.114  Sum_probs=124.0

Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCC--hhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHc-
Q psy5288          37 DEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNN--KHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDM-  112 (186)
Q Consensus        37 ~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~--~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~-  112 (186)
                      ......+...|.+|...|++++|+.+|.+++++....+.  .......+.++|.+|... ++++|+.++++++++.... 
T Consensus        82 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~  161 (283)
T 3edt_B           82 PAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRL  161 (283)
T ss_dssp             HHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHS
T ss_pred             hHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhc
Confidence            344455556677889999999999999999999887633  356678888999999887 9999999999999998766 


Q ss_pred             -CChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccC-------------------------------------
Q psy5288         113 -GRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEE-------------------------------------  154 (186)
Q Consensus       113 -~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~-------------------------------------  154 (186)
                       ++.+..+.++..+|.+|..+ |++++|+.+|++++.+.+...                                     
T Consensus       162 ~~~~~~~~~~~~~la~~~~~~-g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  240 (283)
T 3edt_B          162 GPDDPNVAKTKNNLASCYLKQ-GKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSW  240 (283)
T ss_dssp             CTTCHHHHHHHHHHHHHHHHH-TCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC----------
T ss_pred             CCCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHH
Confidence             44677888999999999995 999999999999999865421                                     


Q ss_pred             ------ChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         155 ------NKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       155 ------~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                            .+.....++..+|.+|...|++++|+++|++
T Consensus       241 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  277 (283)
T 3edt_B          241 YKACKVDSPTVNTTLRSLGALYRRQGKLEAAHTLEDC  277 (283)
T ss_dssp             --CCCCCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence                  2345557899999999999999999999986

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.70  E-value=2.4e-15  Score=122.57  Aligned_cols=142  Identities=8%  Similarity=0.031  Sum_probs=129.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHH
Q psy5288          43 YVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKH  121 (186)
Q Consensus        43 y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~  121 (186)
                      +.+.|.+|...|++++|.++|.+++.+..+.++..........++.++... ++++|+.++++++.+....++....+.+
T Consensus        58 l~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  137 (434)
T 4b4t_Q           58 ILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSL  137 (434)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHH
Confidence            445578999999999999999999999999888777778888888888766 8999999999999999999998899999


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         122 HENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       122 ~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      +.++|.+|..+ |+|++|+.++++++......++......++..++.+|..+|+|++|..+|++
T Consensus       138 ~~~la~~~~~~-g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~  200 (434)
T 4b4t_Q          138 SIKLATLHYQK-KQYKDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTA  200 (434)
T ss_dssp             HHHHHHHHHHH-TCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHc-cChHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHH
Confidence            99999999995 9999999999999999988777777788999999999999999999999875

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=99.68  E-value=1.6e-14  Score=105.81  Aligned_cols=155  Identities=14%  Similarity=0.203  Sum_probs=129.1

Q ss_pred             HhHHHHHHHHHHhhccCCCCccccccCCCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcC-ChhHHHHHHH
Q psy5288           6 QKARQLVAEAEKKISSSSKGFFSQFTGGNKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNN-NKHDAGLCFV   84 (186)
Q Consensus         6 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~-~~~~aa~~~~   84 (186)
                      ++|.++..+|-....           ..++.......+...|.++...|++++|..++.+++.+....+ ++...+.++.
T Consensus        43 ~~A~~~~~~al~~~~-----------~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  111 (203)
T 3gw4_A           43 DEARASFQALQQQAQ-----------KSGDHTAEHRALHQVGMVERMAGNWDAARRCFLEERELLASLPEDPLAASANAY  111 (203)
T ss_dssp             HHHHHHHHHHHHHHH-----------TTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH-----------HcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCccHHHHHHHHH
Confidence            445555555555444           1234445555566667889999999999999999999999998 5667888899


Q ss_pred             HHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHH
Q psy5288          85 DAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCL  163 (186)
Q Consensus        85 ~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~  163 (186)
                      ++|.+|... ++++|+.++++++++....++....+.++..+|.++... |++++|+.++++|+++.+..+++.....+.
T Consensus       112 ~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~-g~~~~A~~~~~~al~~~~~~~~~~~~~~~~  190 (203)
T 3gw4_A          112 EVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQE-KNLLEAQQHWLRARDIFAELEDSEAVNELM  190 (203)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHC-cCHHHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            999999876 999999999999999999999999999999999999995 999999999999999999999888888888


Q ss_pred             HHHHHHHHh
Q psy5288         164 IKIANYSAL  172 (186)
Q Consensus       164 ~~la~~y~~  172 (186)
                      ..++.+...
T Consensus       191 ~~~~~~~~~  199 (203)
T 3gw4_A          191 TRLNGLEHH  199 (203)
T ss_dssp             HHHHTTCC-
T ss_pred             hcccchhhc
Confidence            887766433

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.67  E-value=7.6e-15  Score=113.66  Aligned_cols=151  Identities=14%  Similarity=0.091  Sum_probs=134.1

Q ss_pred             CCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcC--ChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHH
Q psy5288          34 NKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNN--NKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHT  110 (186)
Q Consensus        34 ~~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~--~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~  110 (186)
                      ++....+..+...|.++...|++++|+.+|.+++++....+  +....+.++..+|.+|... ++++|+.++++++++..
T Consensus        21 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~  100 (311)
T 3nf1_A           21 YEIPARLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIRE  100 (311)
T ss_dssp             TTSCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             CcchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence            45567788899999999999999999999999999988876  5566778888999999887 99999999999999998


Q ss_pred             Hc--CChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhcc--CChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         111 DM--GRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGE--ENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       111 ~~--~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~--~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ..  ++....+.++..+|.+|... |++++|+.+|++++.+....  +.+.....++.++|.+|...|++++|+++|++
T Consensus       101 ~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~  178 (311)
T 3nf1_A          101 KTLGKDHPAVAATLNNLAVLYGKR-GKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQR  178 (311)
T ss_dssp             HHHCTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             HHhCCCChHHHHHHHHHHHHHHHc-CcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            87  77788899999999999995 99999999999999998664  44455668999999999999999999999976

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.67  E-value=8.3e-15  Score=106.35  Aligned_cols=88  Identities=19%  Similarity=0.245  Sum_probs=66.2

Q ss_pred             HHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHH
Q psy5288          85 DAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCL  163 (186)
Q Consensus        85 ~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~  163 (186)
                      ..|.++... +++.|+..+.+++.+....      ...+..+|.+|... |++++|+.+|++++.+.+..      ..++
T Consensus        78 ~~~~~~~~~~~~~~a~~~~~~a~~~~~~~------~~~~~~lg~~~~~~-g~~~~A~~~~~~~l~~~p~~------~~~~  144 (184)
T 3vtx_A           78 ILGSANFMIDEKQAAIDALQRAIALNTVY------ADAYYKLGLVYDSM-GEHDKAIEAYEKTISIKPGF------IRAY  144 (184)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTTC------HHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCccc------hHHHHHHHHHHHHh-CCchhHHHHHHHHHHhcchh------hhHH
Confidence            344444433 5555555555555443322      33678899999995 99999999999999996653      3689


Q ss_pred             HHHHHHHHhccCHHHHHHHHHh
Q psy5288         164 IKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       164 ~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      .++|.+|..+|++++|+++|++
T Consensus       145 ~~lg~~~~~~g~~~~A~~~~~~  166 (184)
T 3vtx_A          145 QSIGLAYEGKGLRDEAVKYFKK  166 (184)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHH
Confidence            9999999999999999999986

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.66  E-value=4.9e-14  Score=106.23  Aligned_cols=162  Identities=16%  Similarity=0.086  Sum_probs=128.5

Q ss_pred             HHhHHHHHHHHHHhhccCCCCccccccCCCCHHHHHHHHHHH-------------HHHHHhcCCHHHHHHHHHHHHHHHH
Q psy5288           5 EQKARQLVAEAEKKISSSSKGFFSQFTGGNKTDEAIDLYVRA-------------GNLFKLGKKWNDGGNAFLQAGTLHL   71 (186)
Q Consensus         5 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~A~~~y~~a-------------g~~~~~~g~~~~A~~~y~~a~~~~~   71 (186)
                      +..++.+...|.-.+.            .+++++|+++|.++             |.++...|++++|+++|.+++++..
T Consensus         2 ~~~a~~~~~~g~~~~~------------~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~   69 (258)
T 3uq3_A            2 GSMADKEKAEGNKFYK------------ARQFDEAIEHYNKAWELHKDITYLNNRAAAEYEKGEYETAISTLNDAVEQGR   69 (258)
T ss_dssp             HHHHHHHHHHHHHHHH------------TTCHHHHHHHHHHHHHHSCCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHH------------hccHHHHHHHHHHHHHhhccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCc
Confidence            4667777777777777            35899999888876             6678999999999999999999987


Q ss_pred             HcC-ChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHH------H--------------cCChhHHHHHHHHHHHHH
Q psy5288          72 KNN-NKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHT------D--------------MGRFIMVAKHHENIAEIY  129 (186)
Q Consensus        72 ~~~-~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~------~--------------~~~~~~~a~~~~~lg~~y  129 (186)
                      ..+ +.......+..+|.+|... ++++|+.+|++++.+..      .              ....+..+.++..+|.++
T Consensus        70 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  149 (258)
T 3uq3_A           70 EMRADYKVISKSFARIGNAYHKLGDLKKTIEYYQKSLTEHRTADILTKLRNAEKELKKAEAEAYVNPEKAEEARLEGKEY  149 (258)
T ss_dssp             HTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHH
T ss_pred             ccccchHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhcCchhHHHHHHhHHHHHHHHHHHHHHcCcchHHHHHHHHHHH
Confidence            654 4445578888999999887 99999999999998421      1              113345566788889998


Q ss_pred             HHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         130 EKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       130 ~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ... |++++|+.+|++++.+.+..      ..++.++|.+|...|++++|+.+|++
T Consensus       150 ~~~-~~~~~A~~~~~~a~~~~~~~------~~~~~~l~~~~~~~~~~~~A~~~~~~  198 (258)
T 3uq3_A          150 FTK-SDWPNAVKAYTEMIKRAPED------ARGYSNRAAALAKLMSFPEAIADCNK  198 (258)
T ss_dssp             HHT-TCHHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHh-cCHHHHHHHHHHHHhcCccc------HHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            884 99999999999998886543      36778888888888888888888865

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*

Probab=99.65  E-value=3.4e-15  Score=130.93  Aligned_cols=152  Identities=18%  Similarity=0.208  Sum_probs=119.8

Q ss_pred             chHHhHHHHHHHHHHhhccCCCCccccccCCCCHHHHHHHHHHH--------------HHHHHhcCCHHHHHHHHHHHHH
Q psy5288           3 DNEQKARQLVAEAEKKISSSSKGFFSQFTGGNKTDEAIDLYVRA--------------GNLFKLGKKWNDGGNAFLQAGT   68 (186)
Q Consensus         3 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~A~~~y~~a--------------g~~~~~~g~~~~A~~~y~~a~~   68 (186)
                      +.|..++.+.--|.-...            .|++++|+.+|.++              |.+|..+|++++|+.+|.++++
T Consensus         4 s~P~~a~al~nLG~~~~~------------~G~~~eAi~~~~kAl~l~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~   71 (723)
T 4gyw_A            4 SCPTHADSLNNLANIKRE------------QGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIR   71 (723)
T ss_dssp             --CHHHHHHHHHHHHHHH------------TTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CCCCcHHHHHHHHHHHHH------------cCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            345555656555554444            35888888888887              6678899999999999999998


Q ss_pred             HHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q psy5288          69 LHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAA  147 (186)
Q Consensus        69 ~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~  147 (186)
                      +     +|.. +.+|.++|.+|... ++++|+++|++|+++....      +..+.++|.+|..+ |++++|+.+|++|+
T Consensus        72 l-----~P~~-~~a~~nLg~~l~~~g~~~~A~~~~~kAl~l~P~~------~~a~~~Lg~~~~~~-g~~~eAi~~~~~Al  138 (723)
T 4gyw_A           72 I-----SPTF-ADAYSNMGNTLKEMQDVQGALQCYTRAIQINPAF------ADAHSNLASIHKDS-GNIPEAIASYRTAL  138 (723)
T ss_dssp             H-----CTTC-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHHT-TCHHHHHHHHHHHH
T ss_pred             h-----CCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCC------HHHHHHHHHHHHHc-CCHHHHHHHHHHHH
Confidence            8     4443 45677899999877 8999999999998875433      45789999999984 99999999999999


Q ss_pred             HHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         148 DCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       148 ~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ++.++.      ...+.++|.+|..+|++++|++.|++
T Consensus       139 ~l~P~~------~~a~~~L~~~l~~~g~~~~A~~~~~k  170 (723)
T 4gyw_A          139 KLKPDF------PDAYCNLAHCLQIVCDWTDYDERMKK  170 (723)
T ss_dssp             HHCSCC------HHHHHHHHHHHHHTTCCTTHHHHHHH
T ss_pred             HhCCCC------hHHHhhhhhHHHhcccHHHHHHHHHH
Confidence            986653      36888999999999999999988875

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=99.63  E-value=9.4e-15  Score=114.28  Aligned_cols=146  Identities=10%  Similarity=-0.002  Sum_probs=120.3

Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhH
Q psy5288          39 AIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIM  117 (186)
Q Consensus        39 A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~  117 (186)
                      -...+...+..+...|++++|++++.++++..............+..+|.+|... ++++|+.++++|+++.....+...
T Consensus        74 ~~~~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~  153 (293)
T 2qfc_A           74 RKKQFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQ  153 (293)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTH
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHH
Confidence            3445556677888999999999999999887544333334455566788888876 999999999999998887778888


Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCCh-HHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         118 VAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENK-SSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       118 ~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~-~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      .+.++.++|.+|... |++++|+.+|++|+++++..... .....++.++|.+|..+|+|++|+++|++
T Consensus       154 ~~~~~~~lg~~y~~~-~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~k  221 (293)
T 2qfc_A          154 NLYIENAIANIYAEN-GYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNK  221 (293)
T ss_dssp             HHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHH
Confidence            899999999999995 99999999999999988765433 33337999999999999999999999986

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.63  E-value=1.1e-14  Score=109.37  Aligned_cols=135  Identities=12%  Similarity=0.095  Sum_probs=91.1

Q ss_pred             CCCCHHHHHHHHHHH--------------HHHHHhc-----------CCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHH
Q psy5288          32 GGNKTDEAIDLYVRA--------------GNLFKLG-----------KKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDA   86 (186)
Q Consensus        32 ~~~~~~~A~~~y~~a--------------g~~~~~~-----------g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a   86 (186)
                      ..|++++|+..|.++              |.++...           |++++|+.+|.+++++     +|... ..+..+
T Consensus        51 ~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~-----~P~~~-~~~~~l  124 (217)
T 2pl2_A           51 KLGLVNPALENGKTLVARTPRYLGGYMVLSEAYVALYRQAEDRERGKGYLEQALSVLKDAERV-----NPRYA-PLHLQR  124 (217)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHH-----CTTCH-HHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHh-----CcccH-HHHHHH
Confidence            346777777777766              4566667           7888888888888777     34433 455677


Q ss_pred             HHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHH
Q psy5288          87 ANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIK  165 (186)
Q Consensus        87 ~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~  165 (186)
                      |.+|... ++++|+.+|++++++.   ++    +.++.++|.+|... |++++|+..|++++.+.+..      ..++.+
T Consensus       125 g~~~~~~g~~~~A~~~~~~al~~~---~~----~~~~~~la~~~~~~-g~~~~A~~~~~~al~~~P~~------~~~~~~  190 (217)
T 2pl2_A          125 GLVYALLGERDKAEASLKQALALE---DT----PEIRSALAELYLSM-GRLDEALAQYAKALEQAPKD------LDLRVR  190 (217)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC---CC----HHHHHHHHHHHHHH-TCHHHHHHHHHHHHHHSTTC------HHHHHH
T ss_pred             HHHHHHcCChHHHHHHHHHHHhcc---cc----hHHHHHHHHHHHHc-CCHHHHHHHHHHHHHhCCCC------hHHHHH
Confidence            8888766 8888888888888876   33    44678889998884 99999999999998886643      367788


Q ss_pred             HHHHHHhccCHHHHHHHHHhC
Q psy5288         166 IANYSALTDHLDKAIKLYEQL  186 (186)
Q Consensus       166 la~~y~~~g~~~~A~~~~~~~  186 (186)
                      +|.++...|++++|++.|+++
T Consensus       191 la~~~~~~g~~~~A~~~~~~~  211 (217)
T 2pl2_A          191 YASALLLKGKAEEAARAAALE  211 (217)
T ss_dssp             HHHHHTC--------------
T ss_pred             HHHHHHHccCHHHHHHHHHHH
Confidence            899999999999999888764

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=99.63  E-value=1.8e-14  Score=112.61  Aligned_cols=122  Identities=15%  Similarity=0.118  Sum_probs=108.8

Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHc-CChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCC
Q psy5288          37 DEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKN-NNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGR  114 (186)
Q Consensus        37 ~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~-~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~  114 (186)
                      ...+.++...|.+|...|++++|+.+|.+++++.... ++....+.++.++|.+|... ++++|+.++++|+++....++
T Consensus       152 ~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~  231 (293)
T 3u3w_A          152 YQNLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINS  231 (293)
T ss_dssp             THHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTB
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCc
Confidence            3445566666889999999999999999999999987 67778888999999999987 999999999999999999999


Q ss_pred             hhHHHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHhccCChHHH
Q psy5288         115 FIMVAKHHENIAEIYEKELE-DQEKAIDHYQHAADCYAGEENKSSA  159 (186)
Q Consensus       115 ~~~~a~~~~~lg~~y~~~lg-~~~~Ai~~y~kA~~l~~~~~~~~~~  159 (186)
                      ....+.++.++|.+|.. +| .+++|+.+|++|+.+++..+++...
T Consensus       232 ~~~~~~~~~~lg~~~~~-~g~~~~~A~~~~~~Al~i~~~~~~~~~~  276 (293)
T 3u3w_A          232 MALIGQLYYQRGECLRK-LEYEEAEIEDAYKKASFFFDILEMHAYK  276 (293)
T ss_dssp             CTTHHHHHHHHHHHHHH-TTCCHHHHHHHHHHHHHHHHHTTCTGGG
T ss_pred             HHHHHHHHHHHHHHHHH-hCCcHHHHHHHHHHHHHHHHHhCCHHHH
Confidence            99999999999999999 49 5799999999999999987766544

>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans}

Probab=99.63  E-value=6.3e-14  Score=96.89  Aligned_cols=111  Identities=17%  Similarity=0.237  Sum_probs=98.5

Q ss_pred             CHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHc-
Q psy5288          35 KTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDM-  112 (186)
Q Consensus        35 ~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~-  112 (186)
                      ...+++..+.+.|+.+...|++++|+++|.+++++     +|.. +.+|.++|.+|... ++++|+.+|++++++.+.. 
T Consensus         3 ~~~d~A~a~~~lG~~~~~~~~~~~A~~~y~~Al~~-----~p~~-~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~   76 (127)
T 4gcn_A            3 AMTDAAIAEKDLGNAAYKQKDFEKAHVHYDKAIEL-----DPSN-ITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETR   76 (127)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----CTTC-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT
T ss_pred             ccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-----CCCC-HHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccc
Confidence            45678888999999999999999999999999998     4544 45678999999987 9999999999999999877 


Q ss_pred             CChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhc
Q psy5288         113 GRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAG  152 (186)
Q Consensus       113 ~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~  152 (186)
                      ..+...+.++.++|.++... |++++|+++|++|+.+.++
T Consensus        77 ~~~~~~a~~~~~lg~~~~~~-~~~~~A~~~~~kal~~~~~  115 (127)
T 4gcn_A           77 ADYKLIAKAMSRAGNAFQKQ-NDLSLAVQWFHRSLSEFRD  115 (127)
T ss_dssp             CCHHHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHSCC
T ss_pred             hhhHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHhhCcC
Confidence            46778899999999999994 9999999999999997653

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=99.62  E-value=1.4e-13  Score=96.16  Aligned_cols=119  Identities=10%  Similarity=0.101  Sum_probs=106.0

Q ss_pred             CHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcC
Q psy5288          35 KTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMG  113 (186)
Q Consensus        35 ~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~  113 (186)
                      +.......+...|.++...|++++|..+|.+++++....+++...+..+..+|.+|... ++++|+.++++++++....+
T Consensus        44 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~  123 (164)
T 3ro3_A           44 DKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELK  123 (164)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT
T ss_pred             CchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHcc
Confidence            33444445555578899999999999999999999999999998899999999999887 99999999999999999999


Q ss_pred             ChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccC
Q psy5288         114 RFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEE  154 (186)
Q Consensus       114 ~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~  154 (186)
                      +....+.++..+|.+|... |++++|+.++++++.+.++.+
T Consensus       124 ~~~~~~~~~~~la~~~~~~-g~~~~A~~~~~~a~~~~~~~~  163 (164)
T 3ro3_A          124 DRIGEGRACWSLGNAYTAL-GNHDQAMHFAEKHLEISREVG  163 (164)
T ss_dssp             CHHHHHHHHHHHHHHHHHH-TCHHHHHHHHHHHHHHHTTC-
T ss_pred             chHhHHHHHHHHHHHHHHc-cCHHHHHHHHHHHHHHHHHhC
Confidence            9999999999999999995 999999999999999987653

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.62  E-value=3e-13  Score=108.39  Aligned_cols=144  Identities=12%  Similarity=0.042  Sum_probs=127.7

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCCh--h
Q psy5288          40 IDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRF--I  116 (186)
Q Consensus        40 ~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~--~  116 (186)
                      ...+...|.++...|++++|...+.+++.+....+++...+.++..+|.++... ++++|+.++++++.+....+..  .
T Consensus        53 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~  132 (373)
T 1hz4_A           53 IVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLP  132 (373)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTST
T ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCc
Confidence            344555677888999999999999999999999999988888899999999876 9999999999999999988776  6


Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         117 MVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       117 ~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ..+.++..+|.++... |++++|..++++++.+.+..+.+. ...++..+|.++...|++++|+.++++
T Consensus       133 ~~~~~~~~la~~~~~~-g~~~~A~~~~~~al~~~~~~~~~~-~~~~~~~la~~~~~~g~~~~A~~~l~~  199 (373)
T 1hz4_A          133 MHEFLVRIRAQLLWAW-ARLDEAEASARSGIEVLSSYQPQQ-QLQCLAMLIQCSLARGDLDNARSQLNR  199 (373)
T ss_dssp             HHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHTTTSCGGG-GHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHh-cCHHHHHHHHHHHHHHhhccCcHH-HHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            7888999999999995 999999999999999988766544 347889999999999999999999875

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.61  E-value=6e-14  Score=107.51  Aligned_cols=163  Identities=18%  Similarity=0.231  Sum_probs=128.4

Q ss_pred             HHhHHHHHHHHHHhhccCCCCccccccCCCCHHHHHHHHHHH-----------------HHHHHhcCCHHHHHHHHHHHH
Q psy5288           5 EQKARQLVAEAEKKISSSSKGFFSQFTGGNKTDEAIDLYVRA-----------------GNLFKLGKKWNDGGNAFLQAG   67 (186)
Q Consensus         5 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~A~~~y~~a-----------------g~~~~~~g~~~~A~~~y~~a~   67 (186)
                      +..++.++..|...+.            .|+|++|++.|.++                 |.+|...|++++|+..|.+++
T Consensus        12 ~~~~~~~~~~a~~~~~------------~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l   79 (261)
T 3qky_A           12 HSSPQEAFERAMEFYN------------QGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFI   79 (261)
T ss_dssp             CSSHHHHHHHHHHHHH------------TTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHH------------hCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHH
Confidence            3556777777777776            35788887777766                 678999999999999999999


Q ss_pred             HHHHHcCChhHHHHHHHHHHHHHhc--------C-CHHHHHHHHHHHHHHHHHcCChhHHH-----------HHHHHHHH
Q psy5288          68 TLHLKNNNKHDAGLCFVDAANCYKK--------S-NPAEAIKAIERAVEIHTDMGRFIMVA-----------KHHENIAE  127 (186)
Q Consensus        68 ~~~~~~~~~~~aa~~~~~a~~~y~~--------~-~~~~A~~~~~~Al~i~~~~~~~~~~a-----------~~~~~lg~  127 (186)
                      +++...   .....++..+|.+|..        . ++++|+..|+++++.++.......+.           ..+..+|.
T Consensus        80 ~~~p~~---~~~~~a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~~~~~~~~~~~~~~~la~  156 (261)
T 3qky_A           80 QIYQID---PRVPQAEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRYPNHELVDDATQKIRELRAKLARKQYEAAR  156 (261)
T ss_dssp             HHCTTC---TTHHHHHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCC---chhHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHCcCchhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            985221   2345678899999987        6 89999999999999887665433221           22388999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhc----------cCHHHHHHHHHhC
Q psy5288         128 IYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALT----------DHLDKAIKLYEQL  186 (186)
Q Consensus       128 ~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~----------g~~~~A~~~~~~~  186 (186)
                      +|... |++++|+..|++++..+++..   .....+..+|.+|..+          |++++|+.+|+++
T Consensus       157 ~~~~~-g~~~~A~~~~~~~l~~~p~~~---~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~  221 (261)
T 3qky_A          157 LYERR-ELYEAAAVTYEAVFDAYPDTP---WADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERL  221 (261)
T ss_dssp             HHHHT-TCHHHHHHHHHHHHHHCTTST---THHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHH
T ss_pred             HHHHc-cCHHHHHHHHHHHHHHCCCCc---hHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHH
Confidence            99995 999999999999999987643   2346889999999977          9999999999763

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*

Probab=99.60  E-value=3e-14  Score=124.92  Aligned_cols=130  Identities=14%  Similarity=0.149  Sum_probs=113.8

Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCCh
Q psy5288          37 DEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRF  115 (186)
Q Consensus        37 ~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~  115 (186)
                      .+-.+.|...|.++..+|++++|+.+|.+++++     +|.. +.++.++|.+|... ++++|+.+|++|+++....   
T Consensus         6 P~~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l-----~P~~-~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~P~~---   76 (723)
T 4gyw_A            6 PTHADSLNNLANIKREQGNIEEAVRLYRKALEV-----FPEF-AAAHSNLASVLQQQGKLQEALMHYKEAIRISPTF---   76 (723)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----CSCC-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC---
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-----CCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCC---
Confidence            344667889999999999999999999999998     4444 45677999999987 9999999999999885443   


Q ss_pred             hHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         116 IMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       116 ~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                         +.++.++|.+|..+ |++++|+++|++|+++.++.      ...+.++|.+|..+|++++|++.|++
T Consensus        77 ---~~a~~nLg~~l~~~-g~~~~A~~~~~kAl~l~P~~------~~a~~~Lg~~~~~~g~~~eAi~~~~~  136 (723)
T 4gyw_A           77 ---ADAYSNMGNTLKEM-QDVQGALQCYTRAIQINPAF------ADAHSNLASIHKDSGNIPEAIASYRT  136 (723)
T ss_dssp             ---HHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             ---HHHHHHHHHHHHHc-CCHHHHHHHHHHHHHhCCCC------HHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence               56899999999995 99999999999999996653      37899999999999999999999986

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.60  E-value=4.2e-14  Score=106.20  Aligned_cols=133  Identities=15%  Similarity=0.090  Sum_probs=112.2

Q ss_pred             CCCHHHHHHHHHHH--------------HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhc------
Q psy5288          33 GNKTDEAIDLYVRA--------------GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKK------   92 (186)
Q Consensus        33 ~~~~~~A~~~y~~a--------------g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~------   92 (186)
                      .|++++|+..|.++              |.++...|++++|+.+|.+++++     +|... ..+..+|.+|..      
T Consensus        18 ~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~-----~P~~~-~a~~~lg~~~~~~~~~~~   91 (217)
T 2pl2_A           18 LGRYDAALTLFERALKENPQDPEALYWLARTQLKLGLVNPALENGKTLVAR-----TPRYL-GGYMVLSEAYVALYRQAE   91 (217)
T ss_dssp             TTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----CTTCH-HHHHHHHHHHHHHHHTCS
T ss_pred             cCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-----CCCcH-HHHHHHHHHHHHhhhhhh
Confidence            46888888888877              67899999999999999999998     45543 456688888764      


Q ss_pred             ------CCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHH
Q psy5288          93 ------SNPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKI  166 (186)
Q Consensus        93 ------~~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~l  166 (186)
                            .++++|+.+|++++++.+..      +.++..+|.+|... |++++|+.+|++|+.+. .  +    ..++.++
T Consensus        92 ~~~~~~g~~~~A~~~~~~al~~~P~~------~~~~~~lg~~~~~~-g~~~~A~~~~~~al~~~-~--~----~~~~~~l  157 (217)
T 2pl2_A           92 DRERGKGYLEQALSVLKDAERVNPRY------APLHLQRGLVYALL-GERDKAEASLKQALALE-D--T----PEIRSAL  157 (217)
T ss_dssp             SHHHHHHHHHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHC-C--C----HHHHHHH
T ss_pred             hhcccccCHHHHHHHHHHHHHhCccc------HHHHHHHHHHHHHc-CChHHHHHHHHHHHhcc-c--c----hHHHHHH
Confidence                  47899999999999885433      45789999999995 99999999999999986 2  2    3688999


Q ss_pred             HHHHHhccCHHHHHHHHHh
Q psy5288         167 ANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       167 a~~y~~~g~~~~A~~~~~~  185 (186)
                      |.+|...|++++|+..|++
T Consensus       158 a~~~~~~g~~~~A~~~~~~  176 (217)
T 2pl2_A          158 AELYLSMGRLDEALAQYAK  176 (217)
T ss_dssp             HHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHH
Confidence            9999999999999999986

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=99.58  E-value=7.3e-14  Score=104.74  Aligned_cols=146  Identities=16%  Similarity=0.170  Sum_probs=115.6

Q ss_pred             HHHHHHHHHHhhccCCCCccccccCCCCHHHHHHHHHHH---------------HHHHHhcCCHHHHHHHHHHHHHHHHH
Q psy5288           8 ARQLVAEAEKKISSSSKGFFSQFTGGNKTDEAIDLYVRA---------------GNLFKLGKKWNDGGNAFLQAGTLHLK   72 (186)
Q Consensus         8 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~A~~~y~~a---------------g~~~~~~g~~~~A~~~y~~a~~~~~~   72 (186)
                      ++.+...|...+.            .++|++|+++|.++               |.++...|++++|+.+|.+++++   
T Consensus         7 ~~~~~~~g~~~~~------------~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~---   71 (228)
T 4i17_A            7 PNQLKNEGNDALN------------AKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKK---   71 (228)
T ss_dssp             HHHHHHHHHHHHH------------TTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---
T ss_pred             HHHHHHHHHHHHH------------ccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHh---
Confidence            4566666666665            35888888887776               56788999999999999999986   


Q ss_pred             cCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCC-hhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHH
Q psy5288          73 NNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGR-FIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCY  150 (186)
Q Consensus        73 ~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~-~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~  150 (186)
                        +|. ....+..+|.+|... ++++|+.+|++++++.+.... ....+.++..+|.++... |++++|+.+|++++.+.
T Consensus        72 --~p~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~~~-~~~~~A~~~~~~al~~~  147 (228)
T 4i17_A           72 --NYN-LANAYIGKSAAYRDMKNNQEYIATLTEGIKAVPGNATIEKLYAIYYLKEGQKFQQA-GNIEKAEENYKHATDVT  147 (228)
T ss_dssp             --TCS-HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHTTSS
T ss_pred             --Ccc-hHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHhHHHHHh-ccHHHHHHHHHHHHhcC
Confidence              343 456677999999887 999999999999998765432 245567899999999995 99999999999999984


Q ss_pred             hccCChHHHHHHHHHHHHHHHhccCH
Q psy5288         151 AGEENKSSANKCLIKIANYSALTDHL  176 (186)
Q Consensus       151 ~~~~~~~~~~~~~~~la~~y~~~g~~  176 (186)
                      +.    .....++.++|.+|...|+.
T Consensus       148 p~----~~~~~~~~~l~~~~~~~~~~  169 (228)
T 4i17_A          148 SK----KWKTDALYSLGVLFYNNGAD  169 (228)
T ss_dssp             CH----HHHHHHHHHHHHHHHHHHHH
T ss_pred             CC----cccHHHHHHHHHHHHHHHHH
Confidence            43    00246888999999888888

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A

Probab=99.56  E-value=1.2e-13  Score=98.82  Aligned_cols=154  Identities=11%  Similarity=0.071  Sum_probs=117.5

Q ss_pred             CCchHHhHHHHHHHHHHhhccCCCCccccccCCCCHHHHHHHH--------------HHHHHHHHhcCCHHHHHHHHHHH
Q psy5288           1 MADNEQKARQLVAEAEKKISSSSKGFFSQFTGGNKTDEAIDLY--------------VRAGNLFKLGKKWNDGGNAFLQA   66 (186)
Q Consensus         1 ~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~A~~~y--------------~~ag~~~~~~g~~~~A~~~y~~a   66 (186)
                      |.++...+.-+...|.-...            .+++++|+.+|              ...|.++...|++++|+.++.++
T Consensus         1 ~~~~~~~~~~~~~~~~~~~~------------~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~   68 (186)
T 3as5_A            1 MGNDDIRQVYYRDKGISHAK------------AGRYSQAVMLLEQVYDADAFDVDVALHLGIAYVKTGAVDRGTELLERS   68 (186)
T ss_dssp             ---CCHHHHHHHHHHHHHHH------------HTCHHHHHHHHTTTCCTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             CCccchhhHHHHHHHHHHHH------------hcCHHHHHHHHHHHHHhCccChHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            44555555555555555444            13555555544              44588899999999999999999


Q ss_pred             HHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHH
Q psy5288          67 GTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQH  145 (186)
Q Consensus        67 ~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~k  145 (186)
                      +++     .+.. ...+..+|.+|... ++++|+.++++++.+....      ..++..+|.++... |++++|+.++++
T Consensus        69 ~~~-----~~~~-~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~------~~~~~~~a~~~~~~-~~~~~A~~~~~~  135 (186)
T 3as5_A           69 LAD-----APDN-VKVATVLGLTYVQVQKYDLAVPLLIKVAEANPIN------FNVRFRLGVALDNL-GRFDEAIDSFKI  135 (186)
T ss_dssp             HHH-----CTTC-HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHHT-TCHHHHHHHHHH
T ss_pred             Hhc-----CCCC-HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCcHh------HHHHHHHHHHHHHc-CcHHHHHHHHHH
Confidence            987     2322 45677888888766 9999999999999874432      45788999999995 999999999999


Q ss_pred             HHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         146 AADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       146 A~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ++.+.+..      ..++..+|.++...|++++|+++|++
T Consensus       136 ~~~~~~~~------~~~~~~la~~~~~~~~~~~A~~~~~~  169 (186)
T 3as5_A          136 ALGLRPNE------GKVHRAIAFSYEQMGRHEEALPHFKK  169 (186)
T ss_dssp             HHHHCTTC------HHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHhcCccc------hHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            99986543      36889999999999999999999975

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=99.55  E-value=7.7e-14  Score=104.63  Aligned_cols=132  Identities=13%  Similarity=0.137  Sum_probs=110.1

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCh-hHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHH
Q psy5288          41 DLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNK-HDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMV  118 (186)
Q Consensus        41 ~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~-~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~  118 (186)
                      +.+...|.++...|++++|+++|.+++++.     + ... ..+..+|.+|... ++++|+.+|++++++...      -
T Consensus         8 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-----~~~~~-~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~------~   75 (228)
T 4i17_A            8 NQLKNEGNDALNAKNYAVAFEKYSEYLKLT-----NNQDS-VTAYNCGVCADNIKKYKEAADYFDIAIKKNYN------L   75 (228)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-----TTCCH-HHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCS------H
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHhcc-----CCCCc-HHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcc------h
Confidence            678888999999999999999999999983     3 333 4455699999887 999999999999865433      4


Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccC-ChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         119 AKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEE-NKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       119 a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~-~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ..++..+|.+|..+ |++++|+.+|++++.+.++.. .......++.++|.++...|++++|++.|++
T Consensus        76 ~~~~~~l~~~~~~~-~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~  142 (228)
T 4i17_A           76 ANAYIGKSAAYRDM-KNNQEYIATLTEGIKAVPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKH  142 (228)
T ss_dssp             HHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-ccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHH
Confidence            56899999999995 999999999999999987642 1122336799999999999999999999986

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.55  E-value=5.8e-13  Score=100.30  Aligned_cols=140  Identities=19%  Similarity=0.212  Sum_probs=118.9

Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcC-Ch
Q psy5288          38 EAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMG-RF  115 (186)
Q Consensus        38 ~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~-~~  115 (186)
                      ..++.+...|.++...|++++|+.+|.+++++.   .+    ..++..+|.+|... ++++|+.++++++++....+ +.
T Consensus         3 ~~a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~---~~----~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~   75 (258)
T 3uq3_A            3 SMADKEKAEGNKFYKARQFDEAIEHYNKAWELH---KD----ITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADY   75 (258)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS---CC----THHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCH
T ss_pred             hHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhh---cc----HHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccch
Confidence            346778889999999999999999999999985   22    46788999999877 99999999999999998874 66


Q ss_pred             hHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccC--------------------ChHHHHHHHHHHHHHHHhccC
Q psy5288         116 IMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEE--------------------NKSSANKCLIKIANYSALTDH  175 (186)
Q Consensus       116 ~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~--------------------~~~~~~~~~~~la~~y~~~g~  175 (186)
                      ...+.++..+|.+|... |++++|+.+|++++.+.+...                    ..+....++..+|.++...|+
T Consensus        76 ~~~~~~~~~l~~~~~~~-~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  154 (258)
T 3uq3_A           76 KVISKSFARIGNAYHKL-GDLKKTIEYYQKSLTEHRTADILTKLRNAEKELKKAEAEAYVNPEKAEEARLEGKEYFTKSD  154 (258)
T ss_dssp             HHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHc-ccHHHHHHHHHHHHhcCchhHHHHHHhHHHHHHHHHHHHHHcCcchHHHHHHHHHHHHHhcC
Confidence            67788999999999994 999999999999999643211                    223345788999999999999


Q ss_pred             HHHHHHHHHh
Q psy5288         176 LDKAIKLYEQ  185 (186)
Q Consensus       176 ~~~A~~~~~~  185 (186)
                      +++|+++|++
T Consensus       155 ~~~A~~~~~~  164 (258)
T 3uq3_A          155 WPNAVKAYTE  164 (258)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999999976

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.55  E-value=1.6e-13  Score=109.49  Aligned_cols=140  Identities=12%  Similarity=0.134  Sum_probs=95.3

Q ss_pred             CCCHHHHHHHHHHH--------------HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHH
Q psy5288          33 GNKTDEAIDLYVRA--------------GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAE   97 (186)
Q Consensus        33 ~~~~~~A~~~y~~a--------------g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~   97 (186)
                      .|++++|+.+|.++              |.++...|++++|+.+|.+++++.     |.. ...+..+|.+|... ++++
T Consensus        78 ~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-----p~~-~~~~~~l~~~~~~~g~~~~  151 (365)
T 4eqf_A           78 EGDLPVTILFMEAAILQDPGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-----PNN-LKALMALAVSYTNTSHQQD  151 (365)
T ss_dssp             HTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-----TTC-HHHHHHHHHHHHHTTCHHH
T ss_pred             CCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-----CCC-HHHHHHHHHHHHccccHHH
Confidence            35777777777766              556777888888888888887762     222 33455666666554 6666


Q ss_pred             HHHHHHHHHHHHHHcCChh--------------------------------------H--HHHHHHHHHHHHHHhcCCHH
Q psy5288          98 AIKAIERAVEIHTDMGRFI--------------------------------------M--VAKHHENIAEIYEKELEDQE  137 (186)
Q Consensus        98 A~~~~~~Al~i~~~~~~~~--------------------------------------~--~a~~~~~lg~~y~~~lg~~~  137 (186)
                      |+.+|++++++........                                      .  -+.++..+|.+|... |+++
T Consensus       152 A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~~~-g~~~  230 (365)
T 4eqf_A          152 ACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVLFHLS-GEFN  230 (365)
T ss_dssp             HHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHHHHHH-TCHH
T ss_pred             HHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHHHHHC-CCHH
Confidence            6666666655533321110                                      0  245778888888884 8899


Q ss_pred             HHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         138 KAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       138 ~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      +|+.+|++++.+.+..      ..++.++|.+|...|++++|+++|++
T Consensus       231 ~A~~~~~~al~~~p~~------~~~~~~l~~~~~~~g~~~~A~~~~~~  272 (365)
T 4eqf_A          231 RAIDAFNAALTVRPED------YSLWNRLGATLANGDRSEEAVEAYTR  272 (365)
T ss_dssp             HHHHHHHHHHHHCTTC------HHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCC------HHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            9999888888886543      35778888888888888888888875

>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans}

Probab=99.54  E-value=2.5e-13  Score=93.84  Aligned_cols=102  Identities=16%  Similarity=0.191  Sum_probs=88.8

Q ss_pred             hHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccC-
Q psy5288          77 HDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEE-  154 (186)
Q Consensus        77 ~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~-  154 (186)
                      ...+.++.++|.+|... ++++|+.+|++|+++.+..      +.++.++|.+|.. +|++++|+..|++|+++.++.. 
T Consensus         5 ~d~A~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~p~~------~~~~~nlg~~~~~-~~~~~~A~~~~~~al~~~~~~~~   77 (127)
T 4gcn_A            5 TDAAIAEKDLGNAAYKQKDFEKAHVHYDKAIELDPSN------ITFYNNKAAVYFE-EKKFAECVQFCEKAVEVGRETRA   77 (127)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCC------HHHHHhHHHHHHH-hhhHHHHHHHHHHHHHhCcccch
Confidence            45678888999999877 9999999999999985443      5689999999999 5999999999999999988753 


Q ss_pred             ChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         155 NKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       155 ~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      .+...+.++.++|.+|..+|++++|+++|++
T Consensus        78 ~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~k  108 (127)
T 4gcn_A           78 DYKLIAKAMSRAGNAFQKQNDLSLAVQWFHR  108 (127)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            4455667999999999999999999999976

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.54  E-value=9.4e-13  Score=99.12  Aligned_cols=146  Identities=11%  Similarity=0.004  Sum_probs=112.5

Q ss_pred             CCHHHHHHHHHHH-----------------HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhc----
Q psy5288          34 NKTDEAIDLYVRA-----------------GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKK----   92 (186)
Q Consensus        34 ~~~~~A~~~y~~a-----------------g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~----   92 (186)
                      |+|++|++.|.++                 |.+|...|++++|+..|.++++.+...   ..+..++..+|.+|..    
T Consensus        18 g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~---~~~~~a~~~~g~~~~~~~~~   94 (225)
T 2yhc_A           18 GNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTH---PNIDYVMYMRGLTNMALDDS   94 (225)
T ss_dssp             TCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC---TTHHHHHHHHHHHHHHHHC-
T ss_pred             CCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCC---CcHHHHHHHHHHHHHhhhhh
Confidence            4777777776665                 667889999999999999999885321   2233456677777653    


Q ss_pred             --------------C-CHHHHHHHHHHHHHHHHHcCChhHH-----------HHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q psy5288          93 --------------S-NPAEAIKAIERAVEIHTDMGRFIMV-----------AKHHENIAEIYEKELEDQEKAIDHYQHA  146 (186)
Q Consensus        93 --------------~-~~~~A~~~~~~Al~i~~~~~~~~~~-----------a~~~~~lg~~y~~~lg~~~~Ai~~y~kA  146 (186)
                                    . ++++|+..|+++++.++.......+           +.....+|.+|..+ |++++|+..|+++
T Consensus        95 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~P~~~~a~~a~~~l~~~~~~~~~~~~~~a~~~~~~-~~~~~A~~~~~~~  173 (225)
T 2yhc_A           95 ALQGFFGVDRSDRDPQQARAAFSDFSKLVRGYPNSQYTTDATKRLVFLKDRLAKYEYSVAEYYTER-GAWVAVVNRVEGM  173 (225)
T ss_dssp             -------------CCHHHHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-TCHHHHHHHHHHH
T ss_pred             hhhhhhccchhhcCcHHHHHHHHHHHHHHHHCcCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHc-CcHHHHHHHHHHH
Confidence                          2 6899999999999887766543321           22336789999995 9999999999999


Q ss_pred             HHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHhC
Q psy5288         147 ADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQL  186 (186)
Q Consensus       147 ~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~~  186 (186)
                      ++.+++..   .....+..+|.+|.++|++++|++.++++
T Consensus       174 l~~~p~~~---~~~~a~~~l~~~~~~~g~~~~A~~~~~~l  210 (225)
T 2yhc_A          174 LRDYPDTQ---ATRDALPLMENAYRQMQMNAQAEKVAKII  210 (225)
T ss_dssp             HHHSTTSH---HHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHCcCCC---ccHHHHHHHHHHHHHcCCcHHHHHHHHHH
Confidence            99988642   33478899999999999999999999763

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.53  E-value=3.2e-13  Score=105.26  Aligned_cols=126  Identities=14%  Similarity=0.091  Sum_probs=97.2

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCCh---hHHHHHHH
Q psy5288          48 NLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRF---IMVAKHHE  123 (186)
Q Consensus        48 ~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~---~~~a~~~~  123 (186)
                      .++...|++++|..+|.+++++     +|.. ...+..+|.+|... ++++|+.++++++++....++.   +..+.++.
T Consensus       167 ~~~~~~~~~~~A~~~~~~al~~-----~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~  240 (330)
T 3hym_B          167 LEYGLTNNSKLAERFFSQALSI-----APED-PFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLN  240 (330)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTT-----CTTC-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHHh-----CCCC-hHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHH
Confidence            3455555555555555555544     1222 34566778888776 9999999999999998776654   33466899


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHhC
Q psy5288         124 NIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQL  186 (186)
Q Consensus       124 ~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~~  186 (186)
                      .+|.+|... |++++|+.+|++++.+.+..      ..++.++|.+|...|++++|+++|+++
T Consensus       241 ~la~~~~~~-g~~~~A~~~~~~a~~~~~~~------~~~~~~la~~~~~~g~~~~A~~~~~~a  296 (330)
T 3hym_B          241 NLGHVCRKL-KKYAEALDYHRQALVLIPQN------ASTYSAIGYIHSLMGNFENAVDYFHTA  296 (330)
T ss_dssp             HHHHHHHHT-TCHHHHHHHHHHHHHHSTTC------SHHHHHHHHHHHHHTCHHHHHHHHHTT
T ss_pred             HHHHHHHHh-cCHHHHHHHHHHHHhhCccc------hHHHHHHHHHHHHhccHHHHHHHHHHH
Confidence            999999995 99999999999999987653      268899999999999999999999874

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=99.53  E-value=6.9e-15  Score=104.59  Aligned_cols=125  Identities=14%  Similarity=0.123  Sum_probs=88.7

Q ss_pred             CCCCHHHHHHHHHHH--------------HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHH
Q psy5288          32 GGNKTDEAIDLYVRA--------------GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPA   96 (186)
Q Consensus        32 ~~~~~~~A~~~y~~a--------------g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~   96 (186)
                      .++++++|+..|.++              |.+|...|++++|+++|.+++++     +|.. ..++..+|.+|... +++
T Consensus         9 ~~~~~e~ai~~~~~a~~~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~-----~p~~-~~a~~~lg~~~~~~~~~~   82 (150)
T 4ga2_A            9 SKADVERYIASVQGSTPSPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINV-----QERD-PKAHRFLGLLYELEENTD   82 (150)
T ss_dssp             CHHHHHHHHHHHHHHSCSHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHH-----CTTC-HHHHHHHHHHHHHTTCHH
T ss_pred             HcChHHHHHHHHHHhcccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-----CCCC-HHHHHHHHHHHHHcCchH
Confidence            346777888777776              66788888888888888888877     3443 34566788888776 788


Q ss_pred             HHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHH-HHHHHHHHhccCChHHHHHHHHHHHHHHHhccC
Q psy5288          97 EAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDH-YQHAADCYAGEENKSSANKCLIKIANYSALTDH  175 (186)
Q Consensus        97 ~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~-y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~  175 (186)
                      +|+.+|++++++.+..      ..++.++|.+|... |++++|+.. +++|+.+.++.      ..++...+.++...|+
T Consensus        83 ~A~~~~~~al~~~p~~------~~~~~~la~~~~~~-~~~~~aa~~~~~~al~l~P~~------~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A           83 KAVECYRRSVELNPTQ------KDLVLKIAELLCKN-DVTDGRAKYWVERAAKLFPGS------PAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             HHHHHHHHHHHHCTTC------HHHHHHHHHHHHHH-CSSSSHHHHHHHHHHHHSTTC------HHHHHHHHHHHHTCCC
T ss_pred             HHHHHHHHHHHhCCCC------HHHHHHHHHHHHHc-CChHHHHHHHHHHHHHhCcCC------HHHHHHHHHHHHHhCc
Confidence            8888888887775433      34677888888874 888776665 47888876653      2566667777777664

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.53  E-value=2.5e-12  Score=94.80  Aligned_cols=153  Identities=13%  Similarity=0.065  Sum_probs=106.2

Q ss_pred             hHHhHHHHHHHHHHhhccCCCCccccccCCCCHHHHHHHHHHH--------------HHHHHhcCCHHHHHHHHHHHHHH
Q psy5288           4 NEQKARQLVAEAEKKISSSSKGFFSQFTGGNKTDEAIDLYVRA--------------GNLFKLGKKWNDGGNAFLQAGTL   69 (186)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~A~~~y~~a--------------g~~~~~~g~~~~A~~~y~~a~~~   69 (186)
                      +|..+.-+...|.-.+.            .|++++|+.+|.++              |.++...|++++|+++|.+++.+
T Consensus         4 ~~~~~~~~~~~~~~~~~------------~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~   71 (225)
T 2vq2_A            4 ANQVSNIKTQLAMEYMR------------GQDYRQATASIEDALKSDPKNELAWLVRAEIYQYLKVNDKAQESFRQALSI   71 (225)
T ss_dssp             CCHHHHHHHHHHHHHHH------------TTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CcccHHHHHHHHHHHHH------------HhhHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCChHHHHHHHHHHHHh
Confidence            44455555555555444            24777777776665              55677888888888888888876


Q ss_pred             HHHcCChhHHHHHHHHHHHHHhc--CCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q psy5288          70 HLKNNNKHDAGLCFVDAANCYKK--SNPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAA  147 (186)
Q Consensus        70 ~~~~~~~~~aa~~~~~a~~~y~~--~~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~  147 (186)
                      .     +.. ...+..+|.+|..  .++++|+.+++++++    .+..+....++..+|.++... |++++|+.+|++++
T Consensus        72 ~-----~~~-~~~~~~l~~~~~~~~~~~~~A~~~~~~~~~----~~~~~~~~~~~~~l~~~~~~~-~~~~~A~~~~~~~~  140 (225)
T 2vq2_A           72 K-----PDS-AEINNNYGWFLCGRLNRPAESMAYFDKALA----DPTYPTPYIANLNKGICSAKQ-GQFGLAEAYLKRSL  140 (225)
T ss_dssp             C-----TTC-HHHHHHHHHHHHTTTCCHHHHHHHHHHHHT----STTCSCHHHHHHHHHHHHHHT-TCHHHHHHHHHHHH
T ss_pred             C-----CCC-hHHHHHHHHHHHHhcCcHHHHHHHHHHHHc----CcCCcchHHHHHHHHHHHHHc-CCHHHHHHHHHHHH
Confidence            2     222 3455677777754  478888888888876    333334456778888888884 88888888888888


Q ss_pred             HHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         148 DCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       148 ~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ...+..      ..++..+|.+|...|++++|+++|++
T Consensus       141 ~~~~~~------~~~~~~la~~~~~~~~~~~A~~~~~~  172 (225)
T 2vq2_A          141 AAQPQF------PPAFKELARTKMLAGQLGDADYYFKK  172 (225)
T ss_dssp             HHSTTC------HHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HhCCCC------chHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            875542      35677888888888888888888765

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=99.52  E-value=1.7e-12  Score=97.99  Aligned_cols=135  Identities=10%  Similarity=0.084  Sum_probs=87.5

Q ss_pred             CCHHHHHHHHHHH--------------HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHH
Q psy5288          34 NKTDEAIDLYVRA--------------GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEA   98 (186)
Q Consensus        34 ~~~~~A~~~y~~a--------------g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A   98 (186)
                      +++++|+++|.++              |.++...|++++|+++|.+++++.     +.. ...+..+|.+|... ++++|
T Consensus        51 ~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-----~~~-~~~~~~la~~~~~~g~~~~A  124 (252)
T 2ho1_A           51 GNTEQAKVPLRKALEIDPSSADAHAALAVVFQTEMEPKLADEEYRKALASD-----SRN-ARVLNNYGGFLYEQKRYEEA  124 (252)
T ss_dssp             TCTGGGHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-----TTC-HHHHHHHHHHHHHTTCHHHH
T ss_pred             CChHHHHHHHHHHHhcCCChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-----cCc-HHHHHHHHHHHHHHhHHHHH
Confidence            4566666666555              456677777777777777777662     222 34555667776655 77777


Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHH
Q psy5288          99 IKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDK  178 (186)
Q Consensus        99 ~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~  178 (186)
                      +.++++++.    .+..+.....+..+|.++... |++++|+.+|++++.+.+..      ..++..+|.+|...|++++
T Consensus       125 ~~~~~~~~~----~~~~~~~~~~~~~la~~~~~~-g~~~~A~~~~~~~~~~~~~~------~~~~~~la~~~~~~g~~~~  193 (252)
T 2ho1_A          125 YQRLLEASQ----DTLYPERSRVFENLGLVSLQM-KKPAQAKEYFEKSLRLNRNQ------PSVALEMADLLYKEREYVP  193 (252)
T ss_dssp             HHHHHHHTT----CTTCTTHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCSCC------HHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHh----CccCcccHHHHHHHHHHHHHc-CCHHHHHHHHHHHHhcCccc------HHHHHHHHHHHHHcCCHHH
Confidence            777777765    223334455677777777774 77777777777777765432      2466677777777777777


Q ss_pred             HHHHHHh
Q psy5288         179 AIKLYEQ  185 (186)
Q Consensus       179 A~~~~~~  185 (186)
                      |+.+|++
T Consensus       194 A~~~~~~  200 (252)
T 2ho1_A          194 ARQYYDL  200 (252)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            7777654

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.51  E-value=2.1e-13  Score=113.94  Aligned_cols=137  Identities=15%  Similarity=0.159  Sum_probs=116.1

Q ss_pred             CCCCH-HHHHHHHHHH--------------HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC---
Q psy5288          32 GGNKT-DEAIDLYVRA--------------GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS---   93 (186)
Q Consensus        32 ~~~~~-~~A~~~y~~a--------------g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~---   93 (186)
                      ..+++ ++|+++|.++              |.+|...|++++|+++|.+++++     +|.  ...+..+|.+|...   
T Consensus       114 ~~g~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~-----~p~--~~~~~~lg~~~~~~~~~  186 (474)
T 4abn_A          114 VTPDYSPEAEVLLSKAVKLEPELVEAWNQLGEVYWKKGDVTSAHTCFSGALTH-----CKN--KVSLQNLSMVLRQLQTD  186 (474)
T ss_dssp             SSSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT-----CCC--HHHHHHHHHHHTTCCCS
T ss_pred             hccccHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh-----CCC--HHHHHHHHHHHHHhccC
Confidence            45799 9999999888              66899999999999999999987     455  47888999999763   


Q ss_pred             -------CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhc--------CCHHHHHHHHHHHHHHHhccCChHH
Q psy5288          94 -------NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKEL--------EDQEKAIDHYQHAADCYAGEENKSS  158 (186)
Q Consensus        94 -------~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~l--------g~~~~Ai~~y~kA~~l~~~~~~~~~  158 (186)
                             ++++|+.+|++++++....      +..+..+|.+|.. +        |++++|+.+|++|+.+.+..   ..
T Consensus       187 ~~~~~~g~~~~A~~~~~~al~~~p~~------~~~~~~lg~~~~~-~~~~~~~~~g~~~~A~~~~~~al~~~p~~---~~  256 (474)
T 4abn_A          187 SGDEHSRHVMDSVRQAKLAVQMDVLD------GRSWYILGNAYLS-LYFNTGQNPKISQQALSAYAQAEKVDRKA---SS  256 (474)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHH-HHHHTTCCHHHHHHHHHHHHHHHHHCGGG---GG
T ss_pred             ChhhhhhhHHHHHHHHHHHHHhCCCC------HHHHHHHHHHHHH-HHHhhccccchHHHHHHHHHHHHHhCCCc---cc
Confidence                   6899999999999886543      4588999999987 7        89999999999999996620   01


Q ss_pred             HHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         159 ANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       159 ~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ....+.++|.+|...|++++|++.|++
T Consensus       257 ~~~~~~~lg~~~~~~g~~~~A~~~~~~  283 (474)
T 4abn_A          257 NPDLHLNRATLHKYEESYGEALEGFSQ  283 (474)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            247899999999999999999999976

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=99.51  E-value=1.7e-12  Score=109.12  Aligned_cols=138  Identities=6%  Similarity=-0.155  Sum_probs=120.7

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHHHHH-cCC-hhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHc--CChhHHHHH
Q psy5288          47 GNLFKLGKKWNDGGNAFLQAGTLHLK-NNN-KHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDM--GRFIMVAKH  121 (186)
Q Consensus        47 g~~~~~~g~~~~A~~~y~~a~~~~~~-~~~-~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~--~~~~~~a~~  121 (186)
                      ...++.+|+|++|...|++++++..+ +|. ....+..+.++|.+|... ++++|+.+++++++++...  .+++..+..
T Consensus       316 a~~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~  395 (490)
T 3n71_A          316 IDKARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMA  395 (490)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHH
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHH
Confidence            34577899999999999999999886 553 346788999999999987 9999999999999999765  478999999


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHhcc--CChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         122 HENIAEIYEKELEDQEKAIDHYQHAADCYAGE--ENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       122 ~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~--~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      +.+||.+|..+ |++++|+.+|++|+++....  .+++.......+++.++..++.|++|...|.+
T Consensus       396 l~nLa~~~~~~-G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~  460 (490)
T 3n71_A          396 VMRAGLTNWHA-GHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHK  460 (490)
T ss_dssp             HHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHC-CCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999996 99999999999999998873  34455567889999999999999999998865

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.51  E-value=6e-13  Score=106.08  Aligned_cols=141  Identities=12%  Similarity=0.077  Sum_probs=109.6

Q ss_pred             CCCCHHHHHHHHHHH--------------HHHHHhcCCHHHHHHHHHHHHHHHHH------------------------c
Q psy5288          32 GGNKTDEAIDLYVRA--------------GNLFKLGKKWNDGGNAFLQAGTLHLK------------------------N   73 (186)
Q Consensus        32 ~~~~~~~A~~~y~~a--------------g~~~~~~g~~~~A~~~y~~a~~~~~~------------------------~   73 (186)
                      ..|++++|+.+|.++              |.+|...|++++|+.+|.+++++...                        .
T Consensus       111 ~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~  190 (365)
T 4eqf_A          111 ENENEQAAIVALQRCLELQPNNLKALMALAVSYTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDS  190 (365)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCHHHHCC-------------------CC
T ss_pred             HCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhh
Confidence            446788888887776              55677788888888888887765332                        1


Q ss_pred             CChhH----------------HHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCH
Q psy5288          74 NNKHD----------------AGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQ  136 (186)
Q Consensus        74 ~~~~~----------------aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~  136 (186)
                      |+...                ....+..+|.+|... ++++|+.+|++++++....      +.++..+|.+|... |++
T Consensus       191 g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~------~~~~~~l~~~~~~~-g~~  263 (365)
T 4eqf_A          191 SVLEGVKELYLEAAHQNGDMIDPDLQTGLGVLFHLSGEFNRAIDAFNAALTVRPED------YSLWNRLGATLANG-DRS  263 (365)
T ss_dssp             HHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHHT-TCH
T ss_pred             hhHHHHHHHHHHHHHhCcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC------HHHHHHHHHHHHHc-CCH
Confidence            11111                234566778888765 8999999999998875433      45889999999995 999


Q ss_pred             HHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         137 EKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       137 ~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ++|+.+|++++.+.+..      ..++.++|.+|..+|++++|+++|++
T Consensus       264 ~~A~~~~~~al~~~p~~------~~~~~~l~~~~~~~g~~~~A~~~~~~  306 (365)
T 4eqf_A          264 EEAVEAYTRALEIQPGF------IRSRYNLGISCINLGAYREAVSNFLT  306 (365)
T ss_dssp             HHHHHHHHHHHHHCTTC------HHHHHHHHHHHHHHTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCCc------hHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            99999999999996653      47889999999999999999999986

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.50  E-value=5.8e-13  Score=91.99  Aligned_cols=114  Identities=13%  Similarity=0.157  Sum_probs=94.3

Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChh
Q psy5288          38 EAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFI  116 (186)
Q Consensus        38 ~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~  116 (186)
                      +-++.+...|+.|...|++++|+++|.+++++     +|.. ...+.++|.+|... ++++|+.+|++++++....    
T Consensus        11 ~~a~~~~~~G~~~~~~g~~~~A~~~~~~al~~-----~p~~-~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~----   80 (126)
T 4gco_A           11 ELAQEEKNKGNEYFKKGDYPTAMRHYNEAVKR-----DPEN-AILYSNRAACLTKLMEFQRALDDCDTCIRLDSKF----   80 (126)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----CTTC-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC----
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-----CCCC-HHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhh----
Confidence            44566778899999999999999999999998     4544 45677999999887 9999999999999875433    


Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHH
Q psy5288         117 MVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYS  170 (186)
Q Consensus       117 ~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y  170 (186)
                        ..++.++|.+|.. +|++++|+.+|++++++.+++      ..++.+|+.++
T Consensus        81 --~~a~~~lg~~~~~-~~~~~~A~~~~~~al~l~P~~------~~a~~~l~~~l  125 (126)
T 4gco_A           81 --IKGYIRKAACLVA-MREWSKAQRAYEDALQVDPSN------EEAREGVRNCL  125 (126)
T ss_dssp             --HHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHCTTC------HHHHHHHHHHC
T ss_pred             --hHHHHHHHHHHHH-CCCHHHHHHHHHHHHHHCcCC------HHHHHHHHHhc
Confidence              4579999999999 599999999999999997754      25666676653

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.50  E-value=1.1e-11  Score=99.20  Aligned_cols=179  Identities=9%  Similarity=-0.017  Sum_probs=133.5

Q ss_pred             hHHhHHHHHHHHHHhhccCCCCc-----c----ccccCCCCHHHHHHHHHHH--------------------HHHHHhcC
Q psy5288           4 NEQKARQLVAEAEKKISSSSKGF-----F----SQFTGGNKTDEAIDLYVRA--------------------GNLFKLGK   54 (186)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~~~~~~-----~----~~~~~~~~~~~A~~~y~~a--------------------g~~~~~~g   54 (186)
                      +.++|.++..+|-.... ....+     .    ..++..|++++|...+.++                    |.++...|
T Consensus        29 ~~~~A~~~~~~al~~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~G  107 (373)
T 1hz4_A           29 NPDEAERLAKLALEELP-PGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFAQG  107 (373)
T ss_dssp             CHHHHHHHHHHHHHTCC-TTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT
T ss_pred             CHHHHHHHHHHHHHcCC-CCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHCC
Confidence            45667777777766554 11110     0    0011347888888777765                    55678899


Q ss_pred             CHHHHHHHHHHHHHHHHHcCCh--hHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHH
Q psy5288          55 KWNDGGNAFLQAGTLHLKNNNK--HDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEK  131 (186)
Q Consensus        55 ~~~~A~~~y~~a~~~~~~~~~~--~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~  131 (186)
                      ++++|..+|.+++.+....+.+  ...+..+..+|.+|... ++++|..++++++++....++.. ...++..+|.++..
T Consensus       108 ~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~-~~~~~~~la~~~~~  186 (373)
T 1hz4_A          108 FLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQ-QLQCLAMLIQCSLA  186 (373)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGG-GHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHH-HHHHHHHHHHHHHH
Confidence            9999999999999999988776  55677788899998776 99999999999999998887665 55788999999999


Q ss_pred             hcCCHHHHHHHHHHHHHHHhccCCh-HHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         132 ELEDQEKAIDHYQHAADCYAGEENK-SSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       132 ~lg~~~~Ai~~y~kA~~l~~~~~~~-~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      . |++++|+.++++++.+.+..+.+ ..........+.++...|++++|...+++
T Consensus       187 ~-g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~  240 (373)
T 1hz4_A          187 R-GDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRH  240 (373)
T ss_dssp             H-TCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             c-CCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHh
Confidence            5 99999999999999997765443 22212222345567788888888888765

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.50  E-value=4.7e-13  Score=102.14  Aligned_cols=136  Identities=15%  Similarity=0.094  Sum_probs=102.0

Q ss_pred             CCCHHHHHHHHHHH--------------HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHH
Q psy5288          33 GNKTDEAIDLYVRA--------------GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAE   97 (186)
Q Consensus        33 ~~~~~~A~~~y~~a--------------g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~   97 (186)
                      .+++++|+..|.++              |.+|...|++++|+++|.++++.   .+++...+.++..+|.+|... ++++
T Consensus        16 ~~~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~---~~~~~~~~~~~~~lg~~~~~~~~~~~   92 (272)
T 3u4t_A           16 NNNYAEAIEVFNKLEAKKYNSPYIYNRRAVCYYELAKYDLAQKDIETYFSK---VNATKAKSADFEYYGKILMKKGQDSL   92 (272)
T ss_dssp             TTCHHHHHHHHHHHHHTTCCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTT---SCTTTCCHHHHHHHHHHHHHTTCHHH
T ss_pred             hcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc---cCchhHHHHHHHHHHHHHHHcccHHH
Confidence            35788888887777              56788889999999999888872   244555566788888888876 8899


Q ss_pred             HHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHH-HHHHhccCH
Q psy5288          98 AIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIA-NYSALTDHL  176 (186)
Q Consensus        98 A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la-~~y~~~g~~  176 (186)
                      |+.+|++++++.....      .++..+|.+|... |++++|+.+|++++.+.+..      ..++.++| .+|. .+++
T Consensus        93 A~~~~~~a~~~~~~~~------~~~~~l~~~~~~~-~~~~~A~~~~~~al~~~~~~------~~~~~~l~~~~~~-~~~~  158 (272)
T 3u4t_A           93 AIQQYQAAVDRDTTRL------DMYGQIGSYFYNK-GNFPLAIQYMEKQIRPTTTD------PKVFYELGQAYYY-NKEY  158 (272)
T ss_dssp             HHHHHHHHHHHSTTCT------HHHHHHHHHHHHT-TCHHHHHHHHGGGCCSSCCC------HHHHHHHHHHHHH-TTCH
T ss_pred             HHHHHHHHHhcCcccH------HHHHHHHHHHHHc-cCHHHHHHHHHHHhhcCCCc------HHHHHHHHHHHHH-HHHH
Confidence            9999999888755432      3778888888884 88888888888888874332      35777888 4444 4588


Q ss_pred             HHHHHHHHh
Q psy5288         177 DKAIKLYEQ  185 (186)
Q Consensus       177 ~~A~~~~~~  185 (186)
                      ++|+++|++
T Consensus       159 ~~A~~~~~~  167 (272)
T 3u4t_A          159 VKADSSFVK  167 (272)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            888888765

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=99.49  E-value=2.5e-12  Score=100.07  Aligned_cols=142  Identities=18%  Similarity=0.216  Sum_probs=116.6

Q ss_pred             cCCCCHHHHHHHHHHH--------------HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CH
Q psy5288          31 TGGNKTDEAIDLYVRA--------------GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NP   95 (186)
Q Consensus        31 ~~~~~~~~A~~~y~~a--------------g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~   95 (186)
                      +..+++++|+.+|.++              |.++...|++++|+.++.+++++.     +.. ...+..+|.+|... ++
T Consensus       149 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-----~~~-~~~~~~l~~~~~~~~~~  222 (327)
T 3cv0_A          149 AAPNEYRECRTLLHAALEMNPNDAQLHASLGVLYNLSNNYDSAAANLRRAVELR-----PDD-AQLWNKLGATLANGNRP  222 (327)
T ss_dssp             TSHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-----TTC-HHHHHHHHHHHHHTTCH
T ss_pred             HHcccHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-----CCc-HHHHHHHHHHHHHcCCH
Confidence            3557889998888776              667889999999999999999872     332 45677899999877 99


Q ss_pred             HHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHH------HHHHHHHHHHH
Q psy5288          96 AEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSS------ANKCLIKIANY  169 (186)
Q Consensus        96 ~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~------~~~~~~~la~~  169 (186)
                      ++|+.++++++++....      ..++..+|.+|... |++++|+.+|++++.+.+....+..      ...++..+|.+
T Consensus       223 ~~A~~~~~~a~~~~~~~------~~~~~~l~~~~~~~-g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~  295 (327)
T 3cv0_A          223 QEALDAYNRALDINPGY------VRVMYNMAVSYSNM-SQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRML  295 (327)
T ss_dssp             HHHHHHHHHHHHHCTTC------HHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCCC------HHHHHHHHHHHHHh-ccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHH
Confidence            99999999998875432      44788999999995 9999999999999999887433222      35789999999


Q ss_pred             HHhccCHHHHHHHHHh
Q psy5288         170 SALTDHLDKAIKLYEQ  185 (186)
Q Consensus       170 y~~~g~~~~A~~~~~~  185 (186)
                      |...|++++|..++++
T Consensus       296 ~~~~g~~~~A~~~~~~  311 (327)
T 3cv0_A          296 LNVMNRPDLVELTYAQ  311 (327)
T ss_dssp             HHHTTCHHHHHHHTTC
T ss_pred             HHhcCCHHHHHHHHHH
Confidence            9999999999999875

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.48  E-value=8.8e-13  Score=104.70  Aligned_cols=141  Identities=11%  Similarity=0.125  Sum_probs=98.4

Q ss_pred             CCCCHHHHHHHHHHH--------------HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHH
Q psy5288          32 GGNKTDEAIDLYVRA--------------GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPA   96 (186)
Q Consensus        32 ~~~~~~~A~~~y~~a--------------g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~   96 (186)
                      ..|++++|+.+|.++              |.++...|++++|+.+|.+++++.     |.. ...+..+|.+|... +++
T Consensus        76 ~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-----~~~-~~~~~~l~~~~~~~g~~~  149 (368)
T 1fch_A           76 QEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLELK-----PDN-QTALMALAVSFTNESLQR  149 (368)
T ss_dssp             HTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-----TTC-HHHHHHHHHHHHHTTCHH
T ss_pred             HCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcC-----CCC-HHHHHHHHHHHHHcCCHH
Confidence            346888888888777              667888999999999999888773     221 33455666666554 666


Q ss_pred             HHHHHHHHHHHHHHHcCChh-------------------------------------------H--HHHHHHHHHHHHHH
Q psy5288          97 EAIKAIERAVEIHTDMGRFI-------------------------------------------M--VAKHHENIAEIYEK  131 (186)
Q Consensus        97 ~A~~~~~~Al~i~~~~~~~~-------------------------------------------~--~a~~~~~lg~~y~~  131 (186)
                      +|+.++++++.+........                                           .  .+.++..+|.+|..
T Consensus       150 ~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~  229 (368)
T 1fch_A          150 QACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNL  229 (368)
T ss_dssp             HHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCcCcHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHH
Confidence            66666665554332211100                                           0  25677888999888


Q ss_pred             hcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         132 ELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       132 ~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      . |++++|+.+|++++.+.+..      ..++.++|.+|...|++++|+++|++
T Consensus       230 ~-g~~~~A~~~~~~al~~~~~~------~~~~~~l~~~~~~~g~~~~A~~~~~~  276 (368)
T 1fch_A          230 S-GEYDKAVDCFTAALSVRPND------YLLWNKLGATLANGNQSEEAVAAYRR  276 (368)
T ss_dssp             T-TCHHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             c-CCHHHHHHHHHHHHHhCcCC------HHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            4 99999999999998885543      35778888888888888888888865

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=99.47  E-value=4.6e-13  Score=95.06  Aligned_cols=122  Identities=18%  Similarity=0.195  Sum_probs=99.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHH
Q psy5288          45 RAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHE  123 (186)
Q Consensus        45 ~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~  123 (186)
                      .+|.+++..|++++|+..+.+++..      .......+..+|.+|... ++++|+++|++++++....      +.++.
T Consensus         2 ~LG~~~~~~~~~e~ai~~~~~a~~~------~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p~~------~~a~~   69 (150)
T 4ga2_A            2 PLGSMRRSKADVERYIASVQGSTPS------PRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQERD------PKAHR   69 (150)
T ss_dssp             -----CCCHHHHHHHHHHHHHHSCS------HHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC------HHHHH
T ss_pred             HhHHHHHHcChHHHHHHHHHHhccc------CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCC------HHHHH
Confidence            3678888999999999999988875      334445566899999887 9999999999999986544      45899


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHH-Hh
Q psy5288         124 NIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLY-EQ  185 (186)
Q Consensus       124 ~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~-~~  185 (186)
                      .+|.+|... |++++|+.+|++++++.++.      ..++.++|.+|...|++++|++.| ++
T Consensus        70 ~lg~~~~~~-~~~~~A~~~~~~al~~~p~~------~~~~~~la~~~~~~~~~~~aa~~~~~~  125 (150)
T 4ga2_A           70 FLGLLYELE-ENTDKAVECYRRSVELNPTQ------KDLVLKIAELLCKNDVTDGRAKYWVER  125 (150)
T ss_dssp             HHHHHHHHT-TCHHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHHHCSSSSHHHHHHHH
T ss_pred             HHHHHHHHc-CchHHHHHHHHHHHHhCCCC------HHHHHHHHHHHHHcCChHHHHHHHHHH
Confidence            999999995 99999999999999997654      368999999999999999888764 64

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=99.47  E-value=5.7e-13  Score=98.46  Aligned_cols=132  Identities=24%  Similarity=0.217  Sum_probs=108.7

Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCCh
Q psy5288          37 DEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRF  115 (186)
Q Consensus        37 ~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~  115 (186)
                      .+++..| ..|..+...|++++|+.+|.+++       ++  ....+.++|.+|... ++++|+.+|++++.+....   
T Consensus         4 ~~~~~~~-~~g~~~~~~~~~~~A~~~~~~a~-------~~--~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~---   70 (213)
T 1hh8_A            4 VEAISLW-NEGVLAADKKDWKGALDAFSAVQ-------DP--HSRICFNIGCMYTILKNMTEAEKAFTRSINRDKHL---   70 (213)
T ss_dssp             HHHHHHH-HHHHHHHHTTCHHHHHHHHHTSS-------SC--CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC---
T ss_pred             HHHHHHH-HHHHHHHHhCCHHHHHHHHHHHc-------CC--ChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccc---
Confidence            3444444 56788889999999999999884       12  245788999999877 9999999999999885332   


Q ss_pred             hHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccC----------ChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         116 IMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEE----------NKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       116 ~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~----------~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                         ..++.++|.+|... |++++|+.+|++++.+.+...          .......++.++|.+|...|++++|+++|++
T Consensus        71 ---~~~~~~lg~~~~~~-~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  146 (213)
T 1hh8_A           71 ---AVAYFQRGMLYYQT-EKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLAL  146 (213)
T ss_dssp             ---HHHHHHHHHHHHHT-TCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             ---hHHHHHHHHHHHHc-ccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHH
Confidence               46889999999994 999999999999999887654          3334457899999999999999999999976

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.47  E-value=5.2e-13  Score=101.89  Aligned_cols=124  Identities=14%  Similarity=0.055  Sum_probs=88.4

Q ss_pred             HHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHH-HHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHH
Q psy5288          49 LFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAA-NCYKKSNPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAE  127 (186)
Q Consensus        49 ~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~-~~y~~~~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~  127 (186)
                      +|...|++++|+.+|.+++++     +|.. ...+..+| .+|...++++|+.+|++++++....      ...+..+|.
T Consensus       117 ~~~~~~~~~~A~~~~~~al~~-----~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p~~------~~~~~~~~~  184 (272)
T 3u4t_A          117 YFYNKGNFPLAIQYMEKQIRP-----TTTD-PKVFYELGQAYYYNKEYVKADSSFVKVLELKPNI------YIGYLWRAR  184 (272)
T ss_dssp             HHHHTTCHHHHHHHHGGGCCS-----SCCC-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTC------HHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHhhc-----CCCc-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCccc------hHHHHHHHH
Confidence            344444444444444444443     1111 24455667 7777778888888888888775443      457788999


Q ss_pred             HHHHhcCC---HHHHHHHHHHHHHHHhccCC--hHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         128 IYEKELED---QEKAIDHYQHAADCYAGEEN--KSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       128 ~y~~~lg~---~~~Ai~~y~kA~~l~~~~~~--~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ++... |+   +++|+..|++++++......  ......++..+|.+|...|++++|+++|++
T Consensus       185 ~~~~~-~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  246 (272)
T 3u4t_A          185 ANAAQ-DPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKADAAWKN  246 (272)
T ss_dssp             HHHHH-STTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHc-CcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            99984 88   99999999999999865443  233447889999999999999999999986

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.45  E-value=3.1e-12  Score=101.53  Aligned_cols=141  Identities=9%  Similarity=0.044  Sum_probs=108.4

Q ss_pred             CCCCHHHHHHHHHHH--------------HHHHHhcCCHHHHHHHHHHHHHHHHHc------------------------
Q psy5288          32 GGNKTDEAIDLYVRA--------------GNLFKLGKKWNDGGNAFLQAGTLHLKN------------------------   73 (186)
Q Consensus        32 ~~~~~~~A~~~y~~a--------------g~~~~~~g~~~~A~~~y~~a~~~~~~~------------------------   73 (186)
                      ..|++++|+++|.++              |.++...|++++|+.+|.+++.+....                        
T Consensus       110 ~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  189 (368)
T 1fch_A          110 ENEQELLAISALRRCLELKPDNQTALMALAVSFTNESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILG  189 (368)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTGGGCC---------------CTTH
T ss_pred             HCcCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHhhhhcccHHHHHHH
Confidence            446778887777766              456777788888888877766542211                        


Q ss_pred             -----C---------------ChhH-HHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHH
Q psy5288          74 -----N---------------NKHD-AGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEK  131 (186)
Q Consensus        74 -----~---------------~~~~-aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~  131 (186)
                           |               +|.. ....+..+|.+|... ++++|+.+|++++.+....      +.++..+|.++..
T Consensus       190 ~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~------~~~~~~l~~~~~~  263 (368)
T 1fch_A          190 SLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPND------YLLWNKLGATLAN  263 (368)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHH
T ss_pred             HHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCC------HHHHHHHHHHHHH
Confidence                 1               1110 245666788888876 9999999999999874332      4588999999999


Q ss_pred             hcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         132 ELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       132 ~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      . |++++|+.+|++++.+.+..      ..++.++|.+|...|++++|+++|++
T Consensus       264 ~-g~~~~A~~~~~~al~~~~~~------~~~~~~l~~~~~~~g~~~~A~~~~~~  310 (368)
T 1fch_A          264 G-NQSEEAVAAYRRALELQPGY------IRSRYNLGISCINLGAHREAVEHFLE  310 (368)
T ss_dssp             T-TCHHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             c-CCHHHHHHHHHHHHHhCCCc------HHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            5 99999999999999986543      36889999999999999999999976

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.45  E-value=2.4e-12  Score=100.26  Aligned_cols=141  Identities=15%  Similarity=0.121  Sum_probs=113.5

Q ss_pred             CCC-CHHHHHHHHHHH--------------HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CH
Q psy5288          32 GGN-KTDEAIDLYVRA--------------GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NP   95 (186)
Q Consensus        32 ~~~-~~~~A~~~y~~a--------------g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~   95 (186)
                      ..+ ++++|+.+|.++              |.++...|++++|+.+|.+++++.     +.. ...+..+|.+|... ++
T Consensus       102 ~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-----~~~-~~~~~~l~~~~~~~~~~  175 (330)
T 3hym_B          102 MVGHKNEHARRYLSKATTLEKTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLM-----KGC-HLPMLYIGLEYGLTNNS  175 (330)
T ss_dssp             HSCSCHHHHHHHHHHHHTTCTTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT-----TTC-SHHHHHHHHHHHHTTCH
T ss_pred             HhhhhHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhc-----ccc-HHHHHHHHHHHHHHhhH
Confidence            446 888888888877              667888999999999999998874     222 23355688888877 99


Q ss_pred             HHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCCh---HHHHHHHHHHHHHHHh
Q psy5288          96 AEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENK---SSANKCLIKIANYSAL  172 (186)
Q Consensus        96 ~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~---~~~~~~~~~la~~y~~  172 (186)
                      ++|+.++++++++....      ..++..+|.++... |++++|+.+|++++.+.+..+..   .....++.++|.+|..
T Consensus       176 ~~A~~~~~~al~~~~~~------~~~~~~l~~~~~~~-~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~  248 (330)
T 3hym_B          176 KLAERFFSQALSIAPED------PFVMHEVGVVAFQN-GEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRK  248 (330)
T ss_dssp             HHHHHHHHHHHTTCTTC------HHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCC------hHHHHHHHHHHHHc-ccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHH
Confidence            99999999998765432      46789999999995 99999999999999998764332   1223688999999999


Q ss_pred             ccCHHHHHHHHHh
Q psy5288         173 TDHLDKAIKLYEQ  185 (186)
Q Consensus       173 ~g~~~~A~~~~~~  185 (186)
                      .|++++|+++|++
T Consensus       249 ~g~~~~A~~~~~~  261 (330)
T 3hym_B          249 LKKYAEALDYHRQ  261 (330)
T ss_dssp             TTCHHHHHHHHHH
T ss_pred             hcCHHHHHHHHHH
Confidence            9999999999976

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.45  E-value=2.9e-12  Score=95.87  Aligned_cols=133  Identities=17%  Similarity=0.300  Sum_probs=86.3

Q ss_pred             CCHHHHHHHHHHH--------------HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHH
Q psy5288          34 NKTDEAIDLYVRA--------------GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEA   98 (186)
Q Consensus        34 ~~~~~A~~~y~~a--------------g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A   98 (186)
                      +++++|+.+|.++              |.++...|++++|+.+|.+++++.     +.. ...+..+|.+|... ++++|
T Consensus        71 ~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-----~~~-~~~~~~~a~~~~~~~~~~~A  144 (243)
T 2q7f_A           71 NELERALAFYDKALELDSSAATAYYGAGNVYVVKEMYKEAKDMFEKALRAG-----MEN-GDLFYMLGTVLVKLEQPKLA  144 (243)
T ss_dssp             TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-----CCS-HHHHHHHHHHHHHTSCHHHH
T ss_pred             CCHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-----CCC-HHHHHHHHHHHHHhccHHHH
Confidence            5666666665555              445666667777777776666652     111 23455666666655 77777


Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHH
Q psy5288          99 IKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDK  178 (186)
Q Consensus        99 ~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~  178 (186)
                      +.++++++++....      ..++..+|.++... |++++|+.+|++++...+..      ..++..+|.+|...|++++
T Consensus       145 ~~~~~~~~~~~~~~------~~~~~~l~~~~~~~-~~~~~A~~~~~~~~~~~~~~------~~~~~~la~~~~~~~~~~~  211 (243)
T 2q7f_A          145 LPYLQRAVELNEND------TEARFQFGMCLANE-GMLDEALSQFAAVTEQDPGH------ADAFYNAGVTYAYKENREK  211 (243)
T ss_dssp             HHHHHHHHHHCTTC------HHHHHHHHHHHHHH-TCCHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHHTTCTTH
T ss_pred             HHHHHHHHHhCCcc------HHHHHHHHHHHHHc-CCHHHHHHHHHHHHHhCccc------HHHHHHHHHHHHHccCHHH
Confidence            77777776654322      33667777777774 77778887777777765432      2567777888888888888


Q ss_pred             HHHHHHh
Q psy5288         179 AIKLYEQ  185 (186)
Q Consensus       179 A~~~~~~  185 (186)
                      |+++|++
T Consensus       212 A~~~~~~  218 (243)
T 2q7f_A          212 ALEMLDK  218 (243)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            8877765

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.45  E-value=1e-11  Score=101.14  Aligned_cols=158  Identities=14%  Similarity=0.128  Sum_probs=94.0

Q ss_pred             chHHhHHHHHHHHHHhhccCCCCccccccCCCCHHHHHHHHHHH--------------HHHHHhcCCHHHHHHHHHHHHH
Q psy5288           3 DNEQKARQLVAEAEKKISSSSKGFFSQFTGGNKTDEAIDLYVRA--------------GNLFKLGKKWNDGGNAFLQAGT   68 (186)
Q Consensus         3 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~A~~~y~~a--------------g~~~~~~g~~~~A~~~y~~a~~   68 (186)
                      .+|..+..+...|...+.            .|++++|+.+|.++              |.++...|++++|+.+|.++++
T Consensus        21 ~~p~~~~~~~~~~~~~~~------------~g~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~   88 (450)
T 2y4t_A           21 QSMADVEKHLELGKKLLA------------AGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIQ   88 (450)
T ss_dssp             --CHHHHHHHHHHHHHHH------------TTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHHH------------CCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            345566666666665555            24777777777665              4456677777777777777766


Q ss_pred             HHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHH-----------------------------HHcCChhH-
Q psy5288          69 LHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIH-----------------------------TDMGRFIM-  117 (186)
Q Consensus        69 ~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~-----------------------------~~~~~~~~-  117 (186)
                      +.     |.. ...+..+|.+|... ++++|+.+|++++++.                             ...|++.. 
T Consensus        89 ~~-----p~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A  162 (450)
T 2y4t_A           89 LK-----MDF-TAARLQRGHLLLKQGKLDEAEDDFKKVLKSNPSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAA  162 (450)
T ss_dssp             HC-----TTC-HHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHH
T ss_pred             cC-----CCc-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHH
Confidence            52     221 23344455555444 5555555555443321                             11111111 


Q ss_pred             -------------HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHH
Q psy5288         118 -------------VAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYE  184 (186)
Q Consensus       118 -------------~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~  184 (186)
                                   -..++..+|.+|... |++++|+.+|++++.+.+..      ..++..+|.+|...|++++|+++|+
T Consensus       163 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~~~~~------~~~~~~l~~~~~~~g~~~~A~~~~~  235 (450)
T 2y4t_A          163 IAFLDKILEVCVWDAELRELRAECFIKE-GEPRKAISDLKAASKLKNDN------TEAFYKISTLYYQLGDHELSLSEVR  235 (450)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHT-TCGGGGHHHHHHHHHHHCSC------HHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCChHHHHHHHHHHHHC-CCHHHHHHHHHHHHHhCCCC------HHHHHHHHHHHHHcCCHHHHHHHHH
Confidence                         123556677777774 77777777777777775543      3577788888888888888888876


Q ss_pred             h
Q psy5288         185 Q  185 (186)
Q Consensus       185 ~  185 (186)
                      +
T Consensus       236 ~  236 (450)
T 2y4t_A          236 E  236 (450)
T ss_dssp             H
T ss_pred             H
Confidence            5

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.44  E-value=1e-11  Score=101.02  Aligned_cols=151  Identities=7%  Similarity=0.010  Sum_probs=133.4

Q ss_pred             CCHHHHHHHHHHH--------------------HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC
Q psy5288          34 NKTDEAIDLYVRA--------------------GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS   93 (186)
Q Consensus        34 ~~~~~A~~~y~~a--------------------g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~   93 (186)
                      |+|++|.++|.++                    |.++...|++++|+.++.+++.+....++....+..+.++|.+|...
T Consensus        69 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~  148 (434)
T 4b4t_Q           69 GAKDKLREFIPHSTEYMMQFAKSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQK  148 (434)
T ss_dssp             TCHHHHHHHHHHTHHHHHTSCHHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHc
Confidence            5778888777766                    34455678999999999999999999988888889999999999877


Q ss_pred             -CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCCh-HHHHHHHHHHHHHHH
Q psy5288          94 -NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENK-SSANKCLIKIANYSA  171 (186)
Q Consensus        94 -~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~-~~~~~~~~~la~~y~  171 (186)
                       ++++|+.++++++......++....+.++..+|.+|.. +|++++|..+|++++.+......+ .....++..+|.++.
T Consensus       149 g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~  227 (434)
T 4b4t_Q          149 KQYKDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHK-LRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHC  227 (434)
T ss_dssp             TCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTT
T ss_pred             cChHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHH-hCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHH
Confidence             99999999999999999999999999999999999999 599999999999999998876544 555678899999999


Q ss_pred             hccCHHHHHHHHHh
Q psy5288         172 LTDHLDKAIKLYEQ  185 (186)
Q Consensus       172 ~~g~~~~A~~~~~~  185 (186)
                      ..|+|++|..+|.+
T Consensus       228 ~~~~y~~A~~~~~~  241 (434)
T 4b4t_Q          228 EDKDYKTAFSYFFE  241 (434)
T ss_dssp             SSSCHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHH
Confidence            99999999998854

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.44  E-value=7.4e-13  Score=99.11  Aligned_cols=135  Identities=17%  Similarity=0.174  Sum_probs=106.9

Q ss_pred             CCCCHHHHHHHHHHH--------------HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHH
Q psy5288          32 GGNKTDEAIDLYVRA--------------GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPA   96 (186)
Q Consensus        32 ~~~~~~~A~~~y~~a--------------g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~   96 (186)
                      ..+++++|+.+|.++              |.++...|++++|+.+|.+++++.     +. ....+..+|.+|... +++
T Consensus        35 ~~~~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-----~~-~~~~~~~la~~~~~~~~~~  108 (243)
T 2q7f_A           35 EFGDYEKAAEAFTKAIEENKEDAIPYINFANLLSSVNELERALAFYDKALELD-----SS-AATAYYGAGNVYVVKEMYK  108 (243)
T ss_dssp             -------CCTTHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-----TT-CHHHHHHHHHHHHHTTCHH
T ss_pred             HhhCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-----Cc-chHHHHHHHHHHHHhccHH
Confidence            345666666666655              778999999999999999999873     32 246677889999876 999


Q ss_pred             HHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCH
Q psy5288          97 EAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHL  176 (186)
Q Consensus        97 ~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~  176 (186)
                      +|+.++++++++....      ..++..+|.++... |++++|+.+|++++.+.+..      ..++..+|.+|...|++
T Consensus       109 ~A~~~~~~~~~~~~~~------~~~~~~~a~~~~~~-~~~~~A~~~~~~~~~~~~~~------~~~~~~l~~~~~~~~~~  175 (243)
T 2q7f_A          109 EAKDMFEKALRAGMEN------GDLFYMLGTVLVKL-EQPKLALPYLQRAVELNEND------TEARFQFGMCLANEGML  175 (243)
T ss_dssp             HHHHHHHHHHHHTCCS------HHHHHHHHHHHHHT-SCHHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHhCCCC------HHHHHHHHHHHHHh-ccHHHHHHHHHHHHHhCCcc------HHHHHHHHHHHHHcCCH
Confidence            9999999998875432      34788999999995 99999999999999986643      36889999999999999


Q ss_pred             HHHHHHHHh
Q psy5288         177 DKAIKLYEQ  185 (186)
Q Consensus       177 ~~A~~~~~~  185 (186)
                      ++|+++|++
T Consensus       176 ~~A~~~~~~  184 (243)
T 2q7f_A          176 DEALSQFAA  184 (243)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999999975

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A

Probab=99.44  E-value=1.7e-12  Score=103.97  Aligned_cols=134  Identities=16%  Similarity=0.135  Sum_probs=110.5

Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCC---------hhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHH
Q psy5288          38 EAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNN---------KHDAGLCFVDAANCYKKS-NPAEAIKAIERAVE  107 (186)
Q Consensus        38 ~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~---------~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~  107 (186)
                      .....+...|.++...|++++|+.+|.+++.+......         ....+.++.++|.+|... ++++|+.+|+++++
T Consensus       145 ~~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~  224 (336)
T 1p5q_A          145 EQSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALE  224 (336)
T ss_dssp             HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            34567788899999999999999999999998543321         011267888999999987 99999999999999


Q ss_pred             HHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHH-HHHH
Q psy5288         108 IHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAI-KLYE  184 (186)
Q Consensus       108 i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~-~~~~  184 (186)
                      +....      ..++.++|.+|.. +|++++|+.+|++|+.+.+..      ..++.+++.++..+|++++|. ..|.
T Consensus       225 ~~p~~------~~a~~~lg~~~~~-~g~~~~A~~~~~~al~l~P~~------~~a~~~l~~~~~~~~~~~~a~~~~~~  289 (336)
T 1p5q_A          225 LDSNN------EKGLSRRGEAHLA-VNDFELARADFQKVLQLYPNN------KAAKTQLAVCQQRIRRQLAREKKLYA  289 (336)
T ss_dssp             HCTTC------HHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHCSSC------HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hCCCc------HHHHHHHHHHHHH-CCCHHHHHHHHHHHHHHCCCC------HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            86443      4589999999999 599999999999999997654      368899999999999999994 3443

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1

Probab=99.44  E-value=1.3e-11  Score=94.88  Aligned_cols=128  Identities=18%  Similarity=0.314  Sum_probs=86.3

Q ss_pred             CCCHHHHHHHHHHH------------HHHHHh----cCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhc----
Q psy5288          33 GNKTDEAIDLYVRA------------GNLFKL----GKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKK----   92 (186)
Q Consensus        33 ~~~~~~A~~~y~~a------------g~~~~~----~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~----   92 (186)
                      .+++++|+.+|.++            |.+|..    .+++++|+.+|.++++.    +    ...++..+|.+|..    
T Consensus        55 ~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~----~----~~~a~~~lg~~~~~~~~~  126 (273)
T 1ouv_A           55 EKNLKKAASFYAKACDLNYSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDL----K----YAEGCASLGGIYHDGKVV  126 (273)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT----T----CHHHHHHHHHHHHHCSSS
T ss_pred             CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhCCCCcccCHHHHHHHHHHHHHc----C----CccHHHHHHHHHHcCCCc
Confidence            45667776666665            445666    66777777777666653    2    23456677777765    


Q ss_pred             C-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHH----hcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHH
Q psy5288          93 S-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEK----ELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIA  167 (186)
Q Consensus        93 ~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~----~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la  167 (186)
                      . ++++|+.+|++|+++    ++    ...+.++|.+|..    . +++++|+.+|++|++.    +.    ...+.++|
T Consensus       127 ~~~~~~A~~~~~~a~~~----~~----~~a~~~lg~~~~~~~~~~-~~~~~A~~~~~~a~~~----~~----~~a~~~lg  189 (273)
T 1ouv_A          127 TRDFKKAVEYFTKACDL----ND----GDGCTILGSLYDAGRGTP-KDLKKALASYDKACDL----KD----SPGCFNAG  189 (273)
T ss_dssp             CCCHHHHHHHHHHHHHT----TC----HHHHHHHHHHHHHTSSSC-CCHHHHHHHHHHHHHT----TC----HHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHhc----Cc----HHHHHHHHHHHHcCCCCC-CCHHHHHHHHHHHHHC----CC----HHHHHHHH
Confidence            3 777777777777653    22    3466777888776    5 7888888888887765    11    25667788


Q ss_pred             HHHHh----ccCHHHHHHHHHh
Q psy5288         168 NYSAL----TDHLDKAIKLYEQ  185 (186)
Q Consensus       168 ~~y~~----~g~~~~A~~~~~~  185 (186)
                      .+|..    .+++++|+++|++
T Consensus       190 ~~~~~g~~~~~~~~~A~~~~~~  211 (273)
T 1ouv_A          190 NMYHHGEGATKNFKEALARYSK  211 (273)
T ss_dssp             HHHHHTCSSCCCHHHHHHHHHH
T ss_pred             HHHHcCCCCCccHHHHHHHHHH
Confidence            88888    8888888888765

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.43  E-value=4.2e-12  Score=94.58  Aligned_cols=93  Identities=16%  Similarity=0.110  Sum_probs=51.8

Q ss_pred             HHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCC---------
Q psy5288          86 AANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEEN---------  155 (186)
Q Consensus        86 a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~---------  155 (186)
                      +|.+|... ++++|+.+|++++++.+..      ..++..+|.+|... |++++|+.+|++++.+.+....         
T Consensus        60 lg~~~~~~g~~~~A~~~~~~al~~~p~~------~~~~~~lg~~~~~~-g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~  132 (208)
T 3urz_A           60 LALAYKKNRNYDKAYLFYKELLQKAPNN------VDCLEACAEMQVCR-GQEKDALRMYEKILQLEADNLAANIFLGNYY  132 (208)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHHH-TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHCCCC------HHHHHHHHHHHHHc-CCHHHHHHHHHHHHHcCCCCHHHHHHHHHHH
Confidence            55555544 5555555555555554322      23455555555553 5555555555555555443210         


Q ss_pred             --------------------hHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         156 --------------------KSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       156 --------------------~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                                          +......+.++|.++..+|+|++|+.+|++
T Consensus       133 ~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~  182 (208)
T 3urz_A          133 YLTAEQEKKKLETDYKKLSSPTKMQYARYRDGLSKLFTTRYEKARNSLQK  182 (208)
T ss_dssp             HHHHHHHHHHHHHHHC---CCCHHHHHHHHHHHHHHHHHTHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHccCHHHHHHHHHH
Confidence                                000112345567777778899999999986

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.43  E-value=5.8e-12  Score=96.37  Aligned_cols=140  Identities=21%  Similarity=0.126  Sum_probs=111.7

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHH
Q psy5288          40 IDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMV  118 (186)
Q Consensus        40 ~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~  118 (186)
                      .+.+...|..+...|++++|+..|.++++..   .+......++..+|.+|... ++++|+..|++++++++....   .
T Consensus        15 ~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~---p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~---~   88 (261)
T 3qky_A           15 PQEAFERAMEFYNQGKYDRAIEYFKAVFTYG---RTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPR---V   88 (261)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHGGGC---SCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTT---H
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC---CCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCch---h
Confidence            3456677888899999999999999998863   12223467788999999877 999999999999998765533   4


Q ss_pred             HHHHHHHHHHHHH--------hcCCHHHHHHHHHHHHHHHhccCChHHHH-----------HHHHHHHHHHHhccCHHHH
Q psy5288         119 AKHHENIAEIYEK--------ELEDQEKAIDHYQHAADCYAGEENKSSAN-----------KCLIKIANYSALTDHLDKA  179 (186)
Q Consensus       119 a~~~~~lg~~y~~--------~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~-----------~~~~~la~~y~~~g~~~~A  179 (186)
                      ...+..+|.++..        . |++++|+..|++++..+++........           ..+..+|.+|...|+|++|
T Consensus        89 ~~a~~~lg~~~~~~~~~~~~~~-~~~~~A~~~~~~~l~~~p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  167 (261)
T 3qky_A           89 PQAEYERAMCYYKLSPPYELDQ-TDTRKAIEAFQLFIDRYPNHELVDDATQKIRELRAKLARKQYEAARLYERRELYEAA  167 (261)
T ss_dssp             HHHHHHHHHHHHHHCCCTTSCC-HHHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHhcccccccc-hhHHHHHHHHHHHHHHCcCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHH
Confidence            5679999999987        7 999999999999999988754322111           1127899999999999999


Q ss_pred             HHHHHhC
Q psy5288         180 IKLYEQL  186 (186)
Q Consensus       180 ~~~~~~~  186 (186)
                      +..|+++
T Consensus       168 ~~~~~~~  174 (261)
T 3qky_A          168 AVTYEAV  174 (261)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9999763

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.43  E-value=6.5e-12  Score=98.64  Aligned_cols=154  Identities=11%  Similarity=0.011  Sum_probs=114.0

Q ss_pred             hHHHHHHHHHHhhccCCCCccccccCCCCHHHHHHHHHHH--------------HHHHHhcCCHHHHHHHHHHHHHHHHH
Q psy5288           7 KARQLVAEAEKKISSSSKGFFSQFTGGNKTDEAIDLYVRA--------------GNLFKLGKKWNDGGNAFLQAGTLHLK   72 (186)
Q Consensus         7 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~A~~~y~~a--------------g~~~~~~g~~~~A~~~y~~a~~~~~~   72 (186)
                      +++.++..|...+.            .|++++|+.+|.++              |.++...|++++|+.+|.+++++   
T Consensus         2 ~~~~~~~~~~~~~~------------~g~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~---   66 (359)
T 3ieg_A            2 DVEKHLELGKKLLA------------AGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIAL---   66 (359)
T ss_dssp             HHHHHHHHHHHHHH------------TTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---
T ss_pred             cHHHHHHHHHHHHH------------cCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHh---
Confidence            34556666666655            35888888888877              66788999999999999999988   


Q ss_pred             cCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHH---HcCChhH------HHHHHHHHHHHHHHhcCCHHHHHHH
Q psy5288          73 NNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHT---DMGRFIM------VAKHHENIAEIYEKELEDQEKAIDH  142 (186)
Q Consensus        73 ~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~---~~~~~~~------~a~~~~~lg~~y~~~lg~~~~Ai~~  142 (186)
                        +|... ..+..+|.+|... ++++|+.+|++++++..   .......      ....+..+|.++... |++++|+.+
T Consensus        67 --~~~~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-~~~~~A~~~  142 (359)
T 3ieg_A           67 --KMDFT-AARLQRGHLLLKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQLVKADEMQRLRSQALDAFDG-ADYTAAITF  142 (359)
T ss_dssp             --CTTCH-HHHHHHHHHHHHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT-TCHHHHHHH
T ss_pred             --CCCcc-hHHHHHHHHHHHcCChHHHHHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHc-cCHHHHHHH
Confidence              34333 6677899999876 99999999999987644   2211000      011223447888884 999999999


Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         143 YQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       143 y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      |++++.+.+..      ..++..+|.+|...|++++|++.|++
T Consensus       143 ~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~A~~~~~~  179 (359)
T 3ieg_A          143 LDKILEVCVWD------AELRELRAECFIKEGEPRKAISDLKA  179 (359)
T ss_dssp             HHHHHHHCTTC------HHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHhCCCc------hHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            99999886643      35778888888888888888888765

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=99.42  E-value=1.2e-11  Score=93.41  Aligned_cols=137  Identities=16%  Similarity=0.172  Sum_probs=113.9

Q ss_pred             CCCCHHHHHHHHHHH--------------HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHH
Q psy5288          32 GGNKTDEAIDLYVRA--------------GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPA   96 (186)
Q Consensus        32 ~~~~~~~A~~~y~~a--------------g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~   96 (186)
                      ..+++++|.++|.++              |.++...|++++|.++|.+++.    .+........+..+|.+|... +++
T Consensus        83 ~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~----~~~~~~~~~~~~~la~~~~~~g~~~  158 (252)
T 2ho1_A           83 TEMEPKLADEEYRKALASDSRNARVLNNYGGFLYEQKRYEEAYQRLLEASQ----DTLYPERSRVFENLGLVSLQMKKPA  158 (252)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTT----CTTCTTHHHHHHHHHHHHHHTTCHH
T ss_pred             HcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHHhHHHHHHHHHHHHHh----CccCcccHHHHHHHHHHHHHcCCHH
Confidence            458999999998887              5678899999999999999887    223344566777899999877 999


Q ss_pred             HHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCH
Q psy5288          97 EAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHL  176 (186)
Q Consensus        97 ~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~  176 (186)
                      +|+.++++++++....      ..++..+|.++... |++++|+.++++++...+..      ..++..++.++...|++
T Consensus       159 ~A~~~~~~~~~~~~~~------~~~~~~la~~~~~~-g~~~~A~~~~~~~~~~~~~~------~~~~~~~~~~~~~~g~~  225 (252)
T 2ho1_A          159 QAKEYFEKSLRLNRNQ------PSVALEMADLLYKE-REYVPARQYYDLFAQGGGQN------ARSLLLGIRLAKVFEDR  225 (252)
T ss_dssp             HHHHHHHHHHHHCSCC------HHHHHHHHHHHHHT-TCHHHHHHHHHHHHTTSCCC------HHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHhcCccc------HHHHHHHHHHHHHc-CCHHHHHHHHHHHHHhCcCc------HHHHHHHHHHHHHccCH
Confidence            9999999998875322      45788999999995 99999999999999875532      35778999999999999


Q ss_pred             HHHHHHHHh
Q psy5288         177 DKAIKLYEQ  185 (186)
Q Consensus       177 ~~A~~~~~~  185 (186)
                      ++|.+++++
T Consensus       226 ~~A~~~~~~  234 (252)
T 2ho1_A          226 DTAASYGLQ  234 (252)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999999875

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=99.42  E-value=1.2e-12  Score=93.60  Aligned_cols=103  Identities=11%  Similarity=-0.008  Sum_probs=78.4

Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCCh
Q psy5288          37 DEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRF  115 (186)
Q Consensus        37 ~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~  115 (186)
                      .+-.+.+...|.++...|++++|+.+|.+++.+     +|.. ..++..+|.+|... ++++|+.+|++|+.+.+...  
T Consensus        33 p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~-----~P~~-~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~~~--  104 (151)
T 3gyz_A           33 DDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCIY-----DFYN-VDYIMGLAAIYQIKEQFQQAADLYAVAFALGKNDY--  104 (151)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----CTTC-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSSCC--
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-----CCCC-HHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCCCc--
Confidence            344455666778888888888888888888887     4444 34566888888776 88888888888888776543  


Q ss_pred             hHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhc
Q psy5288         116 IMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAG  152 (186)
Q Consensus       116 ~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~  152 (186)
                          ..+.++|.+|.. +|++++|+.+|++|+.+.++
T Consensus       105 ----~~~~~lg~~~~~-lg~~~eA~~~~~~al~l~~~  136 (151)
T 3gyz_A          105 ----TPVFHTGQCQLR-LKAPLKAKECFELVIQHSND  136 (151)
T ss_dssp             ----HHHHHHHHHHHH-TTCHHHHHHHHHHHHHHCCC
T ss_pred             ----HHHHHHHHHHHH-cCCHHHHHHHHHHHHHhCCC
Confidence                367888888888 48888888888888888654

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.41  E-value=3.4e-11  Score=94.48  Aligned_cols=142  Identities=15%  Similarity=0.122  Sum_probs=109.2

Q ss_pred             CCCCHHHHHHHHHHH--------------HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHH---------HHHHHH
Q psy5288          32 GGNKTDEAIDLYVRA--------------GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLC---------FVDAAN   88 (186)
Q Consensus        32 ~~~~~~~A~~~y~~a--------------g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~---------~~~a~~   88 (186)
                      ..|++++|+..|.++              |.++...|++++|..+|.+++++...   .......         ....|.
T Consensus       166 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~---~~~~~~~~~~~~~~~~~~~~a~  242 (359)
T 3ieg_A          166 KEGEPRKAISDLKAASKLKSDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQD---HKRCFAHYKQVKKLNKLIESAE  242 (359)
T ss_dssp             HTTCHHHHHHHHHHHHTTCSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT---CHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcc---chHHHHHHHHHHHHHHHHHHHH
Confidence            457888888877776              66788888899999988888876321   1111111         224466


Q ss_pred             HHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHH
Q psy5288          89 CYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIA  167 (186)
Q Consensus        89 ~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la  167 (186)
                      ++... ++++|+.++++++++...  +.......+..+|.++... |++++|+.+|++++.+.+..      ..++..+|
T Consensus       243 ~~~~~~~~~~A~~~~~~~~~~~~~--~~~~~~~~~~~la~~~~~~-~~~~~A~~~~~~~~~~~~~~------~~~~~~~~  313 (359)
T 3ieg_A          243 ELIRDGRYTDATSKYESVMKTEPS--VAEYTVRSKERICHCFSKD-EKPVEAIRICSEVLQMEPDN------VNALKDRA  313 (359)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCCS--SHHHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTTC------HHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHhcCCC--chHHHHHHHHHHHHHHHHc-cCHHHHHHHHHHHHHhCccc------HHHHHHHH
Confidence            67665 899999999999887643  4455556788999999995 99999999999999985543      36889999


Q ss_pred             HHHHhccCHHHHHHHHHh
Q psy5288         168 NYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       168 ~~y~~~g~~~~A~~~~~~  185 (186)
                      .+|...|++++|+++|++
T Consensus       314 ~~~~~~g~~~~A~~~~~~  331 (359)
T 3ieg_A          314 EAYLIEEMYDEAIQDYEA  331 (359)
T ss_dssp             HHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHH
Confidence            999999999999999976

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.41  E-value=3.3e-12  Score=102.66  Aligned_cols=58  Identities=21%  Similarity=0.307  Sum_probs=33.3

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         121 HHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       121 ~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ++..+|.++... |++++|+.+|++++.+.+..      ..++.++|.++...|++++|++.|++
T Consensus       273 ~~~~l~~~~~~~-g~~~~A~~~~~~al~~~p~~------~~~~~~l~~~~~~~g~~~~A~~~~~~  330 (388)
T 1w3b_A          273 AYCNLANALKEK-GSVAEAEDCYNTALRLCPTH------ADSLNNLANIKREQGNIEEAVRLYRK  330 (388)
T ss_dssp             HHHHHHHHHHHH-SCHHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHc-CCHHHHHHHHHHHHhhCccc------HHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            455556665553 66666666666666554322      24555666666666666666666654

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=99.41  E-value=8.4e-12  Score=88.10  Aligned_cols=134  Identities=14%  Similarity=0.114  Sum_probs=109.2

Q ss_pred             CHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcC
Q psy5288          35 KTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMG  113 (186)
Q Consensus        35 ~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~  113 (186)
                      ...+....+...|..+...|++++|+.+|.+++.+.     +.. ...+..+|.+|... ++++|+.++++++.+.... 
T Consensus         8 ~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-----~~~-~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~-   80 (166)
T 1a17_A            8 GALKRAEELKTQANDYFKAKDYENAIKFYSQAIELN-----PSN-AIYYGNRSLAYLRTECYGYALGDATRAIELDKKY-   80 (166)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-----TTC-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC-
T ss_pred             hHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-----CCC-hHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccc-
Confidence            345667788888999999999999999999999973     332 56677899999877 9999999999999885432 


Q ss_pred             ChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         114 RFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       114 ~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                           ..++..+|.++... |++++|+.+|++++.+.+...    .......++..+...|++++|++.+++
T Consensus        81 -----~~~~~~~a~~~~~~-~~~~~A~~~~~~a~~~~p~~~----~~~~~~~~~~~~~~~~~~~~A~~~~~~  142 (166)
T 1a17_A           81 -----IKGYYRRAASNMAL-GKFRAALRDYETVVKVKPHDK----DAKMKYQECNKIVKQKAFERAIAGDEH  142 (166)
T ss_dssp             -----HHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHSTTCH----HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             -----HHHHHHHHHHHHHh-ccHHHHHHHHHHHHHhCCCCH----HHHHHHHHHHHHHHHHHHHHHHHcccc
Confidence                 45789999999994 999999999999999876532    123345666668899999999999875

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.41  E-value=4.8e-12  Score=101.71  Aligned_cols=58  Identities=19%  Similarity=0.308  Sum_probs=39.0

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         121 HHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       121 ~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ++..+|.++... |++++|+.+|++++++.+..      ..++.++|.+|...|++++|++.|++
T Consensus       307 ~~~~l~~~~~~~-g~~~~A~~~~~~al~~~p~~------~~~~~~l~~~~~~~g~~~~A~~~~~~  364 (388)
T 1w3b_A          307 SLNNLANIKREQ-GNIEEAVRLYRKALEVFPEF------AAAHSNLASVLQQQGKLQEALMHYKE  364 (388)
T ss_dssp             HHHHHHHHHHTT-TCHHHHHHHHHHHTTSCTTC------HHHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHc-CCHHHHHHHHHHHHhcCCCc------HHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            556677777763 77777777777777664432      24666777777777777777777764

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.41  E-value=1.3e-11  Score=104.08  Aligned_cols=140  Identities=16%  Similarity=0.069  Sum_probs=106.1

Q ss_pred             CCCHHHHHHHHHHH--------------HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHH
Q psy5288          33 GNKTDEAIDLYVRA--------------GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAE   97 (186)
Q Consensus        33 ~~~~~~A~~~y~~a--------------g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~   97 (186)
                      .|++++|++.|.++              |.+|...|++++|.++|.++.++.     +.. ...+..+|.+|... ++++
T Consensus       420 ~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-----~~~-~~~~~~l~~~~~~~g~~~~  493 (597)
T 2xpi_A          420 EGEHDQAISAYTTAARLFQGTHLPYLFLGMQHMQLGNILLANEYLQSSYALF-----QYD-PLLLNELGVVAFNKSDMQT  493 (597)
T ss_dssp             HTCHHHHHHHHHHHHHTTTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-----CCC-HHHHHHHHHHHHHTTCHHH
T ss_pred             cCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-----CCC-hHHHHHHHHHHHHhCCHHH
Confidence            35555555555544              344555666666666666665541     221 24466778888766 9999


Q ss_pred             HHHHHHHHHHHHHHcCC-hhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCH
Q psy5288          98 AIKAIERAVEIHTDMGR-FIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHL  176 (186)
Q Consensus        98 A~~~~~~Al~i~~~~~~-~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~  176 (186)
                      |+++|++++++....+. +...+.++..+|.+|... |++++|+..|++++++.+..      ..++..+|.+|...|++
T Consensus       494 A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~~p~~------~~~~~~l~~~~~~~g~~  566 (597)
T 2xpi_A          494 AINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKL-KMYDAAIDALNQGLLLSTND------ANVHTAIALVYLHKKIP  566 (597)
T ss_dssp             HHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHSSCC------HHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHh-cCHHHHHHHHHHHHHhCCCC------hHHHHHHHHHHHHhCCH
Confidence            99999999999988654 443478999999999995 99999999999999986543      37889999999999999


Q ss_pred             HHHHHHHHh
Q psy5288         177 DKAIKLYEQ  185 (186)
Q Consensus       177 ~~A~~~~~~  185 (186)
                      ++|+++|++
T Consensus       567 ~~A~~~~~~  575 (597)
T 2xpi_A          567 GLAITHLHE  575 (597)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999999986

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=99.40  E-value=1.5e-11  Score=95.58  Aligned_cols=155  Identities=14%  Similarity=0.090  Sum_probs=95.6

Q ss_pred             HhHHHHHHHHHHhhccCCCCccccccCCCCHHHHHHHHHHH--------------HHHHHhcCCHHHHHHHHHHHHHHHH
Q psy5288           6 QKARQLVAEAEKKISSSSKGFFSQFTGGNKTDEAIDLYVRA--------------GNLFKLGKKWNDGGNAFLQAGTLHL   71 (186)
Q Consensus         6 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~A~~~y~~a--------------g~~~~~~g~~~~A~~~y~~a~~~~~   71 (186)
                      ..++.++..|...+.            .+++++|+.+|.++              |.++...|++++|+.+|.+++++. 
T Consensus        19 ~~~~~~~~~a~~~~~------------~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-   85 (327)
T 3cv0_A           19 MYHENPMEEGLSMLK------------LANLAEAALAFEAVCQAAPEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-   85 (327)
T ss_dssp             GGSSCHHHHHHHHHH------------TTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-
T ss_pred             hhhHHHHHHHHHHHH------------hccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-
Confidence            344555566655555            35788888877776              567888899999999998888762 


Q ss_pred             HcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHc-----------------------------CChhH----
Q psy5288          72 KNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDM-----------------------------GRFIM----  117 (186)
Q Consensus        72 ~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~-----------------------------~~~~~----  117 (186)
                          |.. ...+..+|.+|... ++++|+.++++++++....                             |++..    
T Consensus        86 ----~~~-~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  160 (327)
T 3cv0_A           86 ----PKD-IAVHAALAVSHTNEHNANAALASLRAWLLSQPQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTL  160 (327)
T ss_dssp             ----TTC-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTTTC--------------------CCTTSHHHHHHHHHH
T ss_pred             ----cCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHH
Confidence                221 23344555555544 5555555555554431111                             11111    


Q ss_pred             ----------HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         118 ----------VAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       118 ----------~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                                ...++..+|.+|... |++++|+.++++++.+.+..      ..++..+|.+|...|++++|+++|++
T Consensus       161 ~~~~~~~~~~~~~~~~~la~~~~~~-~~~~~A~~~~~~~~~~~~~~------~~~~~~l~~~~~~~~~~~~A~~~~~~  231 (327)
T 3cv0_A          161 LHAALEMNPNDAQLHASLGVLYNLS-NNYDSAAANLRRAVELRPDD------AQLWNKLGATLANGNRPQEALDAYNR  231 (327)
T ss_dssp             HHHHHHHSTTCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHhhCCCCHHHHHHHHHHHHHh-ccHHHHHHHHHHHHHhCCCc------HHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence                      134566777777774 77777777777777765432      24666777777777777777777654

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.40  E-value=2.5e-11  Score=92.37  Aligned_cols=26  Identities=19%  Similarity=0.287  Sum_probs=22.2

Q ss_pred             HHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         160 NKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       160 ~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ..++..+|.+|...|++++|+++|++
T Consensus       215 ~~~~~~la~~~~~~g~~~~A~~~~~~  240 (275)
T 1xnf_A          215 SETNFYLGKYYLSLGDLDSATALFKL  240 (275)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            36778899999999999999998875

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.39  E-value=3.4e-12  Score=88.05  Aligned_cols=97  Identities=22%  Similarity=0.155  Sum_probs=82.9

Q ss_pred             ChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhcc
Q psy5288          75 NKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGE  153 (186)
Q Consensus        75 ~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~  153 (186)
                      +|. .+..+.+.|..|... ++++|+.+|++|+++.+..      +.++.++|.+|.. +|++++|+..|++|+.+.+..
T Consensus         9 nP~-~a~~~~~~G~~~~~~g~~~~A~~~~~~al~~~p~~------~~~~~~~~~~~~~-~~~~~~A~~~~~~al~~~p~~   80 (126)
T 4gco_A            9 NPE-LAQEEKNKGNEYFKKGDYPTAMRHYNEAVKRDPEN------AILYSNRAACLTK-LMEFQRALDDCDTCIRLDSKF   80 (126)
T ss_dssp             CHH-HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHCTTC
T ss_pred             CHH-HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCC------HHHHHHHhhHHHh-hccHHHHHHHHHHHHHhhhhh
Confidence            343 355677899988876 9999999999999886443      5589999999999 599999999999999986653


Q ss_pred             CChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         154 ENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       154 ~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                            ..++.++|.+|..+|++++|++.|++
T Consensus        81 ------~~a~~~lg~~~~~~~~~~~A~~~~~~  106 (126)
T 4gco_A           81 ------IKGYIRKAACLVAMREWSKAQRAYED  106 (126)
T ss_dssp             ------HHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             ------hHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence                  36899999999999999999999986

>2h6f_A Protein farnesyltransferase/geranylgeranyltransferase type I alpha subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.118.6.1 PDB: 1jcq_A* 1ld7_A* 1mzc_A* 1s63_A* 1sa4_A* 1tn6_A* 1ld8_A* 2h6g_A* 2h6h_A* 2h6i_A* 2iej_A* 3e37_A* 2f0y_A* 3ksl_A* 2zir_A* 2zis_A* 1o5m_A* 3ksq_A* 1o1t_A* 1o1s_A* ...

Probab=99.39  E-value=2.4e-12  Score=105.13  Aligned_cols=127  Identities=12%  Similarity=0.017  Sum_probs=81.5

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-C-HHHHHHHHHHHHHHHHHcCChhH
Q psy5288          40 IDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-N-PAEAIKAIERAVEIHTDMGRFIM  117 (186)
Q Consensus        40 ~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~-~~~A~~~~~~Al~i~~~~~~~~~  117 (186)
                      .+.|...|.++...|++++|+.+|.+++.+     +|.. ..+|...|.++... + +++|+.+|++++.+....     
T Consensus        97 ~~a~~~lg~~~~~~g~~~~Al~~~~~al~l-----~P~~-~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~~-----  165 (382)
T 2h6f_A           97 RDVYDYFRAVLQRDERSERAFKLTRDAIEL-----NAAN-YTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKN-----  165 (382)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHH-----CTTC-HHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTC-----
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHHh-----CccC-HHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCCC-----
Confidence            455666677777777777777777777776     3433 33455666666655 4 777777777777665433     


Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         118 VAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       118 ~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                       ..++.++|.++.. +|++++|+.+|++|+.+.+++      ..+|.++|.++..+|++++|+++|++
T Consensus       166 -~~a~~~~g~~~~~-~g~~~eAl~~~~kal~ldP~~------~~a~~~lg~~~~~~g~~~eAl~~~~~  225 (382)
T 2h6f_A          166 -YQVWHHRRVLVEW-LRDPSQELEFIADILNQDAKN------YHAWQHRQWVIQEFKLWDNELQYVDQ  225 (382)
T ss_dssp             -HHHHHHHHHHHHH-HTCCTTHHHHHHHHHHHCTTC------HHHHHHHHHHHHHHTCCTTHHHHHHH
T ss_pred             -HHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhCccC------HHHHHHHHHHHHHcCChHHHHHHHHH
Confidence             3366666777666 377777777777777665543      25666666666666666666666654

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.39  E-value=6.3e-12  Score=103.29  Aligned_cols=140  Identities=11%  Similarity=-0.009  Sum_probs=107.6

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCC---hhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCCh
Q psy5288          40 IDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNN---KHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRF  115 (186)
Q Consensus        40 ~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~---~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~  115 (186)
                      ++.|+..|.++..+|++++|+++|.+|+++.+....   ....+..|.++|.+|... ++++|+.+|++++++.+.....
T Consensus        51 a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~~  130 (472)
T 4g1t_A           51 ATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSSP  130 (472)
T ss_dssp             CHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCS
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcccc
Confidence            456888899999999999999999999999886432   224567888999999887 9999999999999999887543


Q ss_pred             --hHHHHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHH---HhccCHHHHHHHHHh
Q psy5288         116 --IMVAKHHENIAEIYEKE-LEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYS---ALTDHLDKAIKLYEQ  185 (186)
Q Consensus       116 --~~~a~~~~~lg~~y~~~-lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y---~~~g~~~~A~~~~~~  185 (186)
                        ...+.++.++|..+... .++|++|+.+|++|+++.++.      ..++..++.++   ...+++++|++.|++
T Consensus       131 ~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p~~------~~~~~~~~~~~~~l~~~~~~~~al~~~~~  200 (472)
T 4g1t_A          131 YRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPKN------PEFTSGLAIASYRLDNWPPSQNAIDPLRQ  200 (472)
T ss_dssp             SCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSTTC------HHHHHHHHHHHHHHHHSCCCCCTHHHHHH
T ss_pred             cchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCCCC------HHHHHHHHHHHHHhcCchHHHHHHHHHHH
Confidence              34567788888877652 147999999999999997653      23445555554   345666667766654

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=99.39  E-value=9.8e-12  Score=83.94  Aligned_cols=126  Identities=21%  Similarity=0.330  Sum_probs=103.7

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHH
Q psy5288          41 DLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVA  119 (186)
Q Consensus        41 ~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a  119 (186)
                      +.+...|..+...|++++|...|.++++..     +.. ...+..++.++... ++++|+.++++++.+....      .
T Consensus         2 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-----~~~-~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~------~   69 (136)
T 2fo7_A            2 EAWYNLGNAYYKQGDYDEAIEYYQKALELD-----PRS-AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRS------A   69 (136)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-----TTC-HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTC------H
T ss_pred             cHHHHHHHHHHHcCcHHHHHHHHHHHHHcC-----Ccc-hhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCCCc------h
Confidence            346677889999999999999999998862     222 44566788888765 9999999999998764322      4


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         120 KHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       120 ~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      .++..+|.++... |++++|+.++++++...+..      ..++..+|.+|...|++++|+.+|++
T Consensus        70 ~~~~~l~~~~~~~-~~~~~A~~~~~~~~~~~~~~------~~~~~~la~~~~~~~~~~~A~~~~~~  128 (136)
T 2fo7_A           70 EAWYNLGNAYYKQ-GDYDEAIEYYQKALELDPRS------AEAWYNLGNAYYKQGDYDEAIEYYQK  128 (136)
T ss_dssp             HHHHHHHHHHHTT-TCHHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh-cCHHHHHHHHHHHHHhCCCC------hHHHHHHHHHHHHHccHHHHHHHHHH
Confidence            5788899999995 99999999999999986543      36788999999999999999999875

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=99.38  E-value=1.2e-11  Score=102.76  Aligned_cols=141  Identities=16%  Similarity=0.101  Sum_probs=115.2

Q ss_pred             CCCCHHHHHHHHHHH--------------HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHH
Q psy5288          32 GGNKTDEAIDLYVRA--------------GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPA   96 (186)
Q Consensus        32 ~~~~~~~A~~~y~~a--------------g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~   96 (186)
                      ..+++++|++.|.++              |.++...|++++|..+|.+++++.     |.. ...+..+|.+|... +++
T Consensus       322 ~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-----~~~-~~~~~~l~~~~~~~g~~~  395 (537)
T 3fp2_A          322 ILQDYKNAKEDFQKAQSLNPENVYPYIQLACLLYKQGKFTESEAFFNETKLKF-----PTL-PEVPTFFAEILTDRGDFD  395 (537)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-----TTC-THHHHHHHHHHHHTTCHH
T ss_pred             hcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-----CCC-hHHHHHHHHHHHHhCCHH
Confidence            447888888887776              567778888888888888888772     222 34566788888876 999


Q ss_pred             HHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhc----------CCHHHHHHHHHHHHHHHhccCChHHHHHHHHHH
Q psy5288          97 EAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKEL----------EDQEKAIDHYQHAADCYAGEENKSSANKCLIKI  166 (186)
Q Consensus        97 ~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~l----------g~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~l  166 (186)
                      +|+.+|++++++.............+..+|.++.. .          |++++|+.+|++++.+.+..      ..++..+
T Consensus       396 ~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~-~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~------~~~~~~l  468 (537)
T 3fp2_A          396 TAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILAR-QSSQDPTQLDEEKFNAAIKLLTKACELDPRS------EQAKIGL  468 (537)
T ss_dssp             HHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHH-HHTC----CCHHHHHHHHHHHHHHHHHCTTC------HHHHHHH
T ss_pred             HHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHH-HhhccchhhhHhHHHHHHHHHHHHHHhCCCC------HHHHHHH
Confidence            99999999999998887665555566778888887 6          99999999999999986643      3688999


Q ss_pred             HHHHHhccCHHHHHHHHHh
Q psy5288         167 ANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       167 a~~y~~~g~~~~A~~~~~~  185 (186)
                      |.+|...|++++|+++|++
T Consensus       469 ~~~~~~~g~~~~A~~~~~~  487 (537)
T 3fp2_A          469 AQLKLQMEKIDEAIELFED  487 (537)
T ss_dssp             HHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHH
Confidence            9999999999999999986

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=99.38  E-value=2.2e-11  Score=87.53  Aligned_cols=113  Identities=11%  Similarity=0.098  Sum_probs=90.5

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcC------ChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHc
Q psy5288          40 IDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNN------NKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDM  112 (186)
Q Consensus        40 ~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~------~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~  112 (186)
                      ++.+...|+.+...|+|++|+.+|.+++++.....      ....-+.+|.+.|.++..+ ++++|+.+|.+|++++..-
T Consensus        11 a~~~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~   90 (159)
T 2hr2_A           11 AYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRR   90 (159)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhcc
Confidence            45566778888899999999999999999965411      0112345899999999988 9999999999999995444


Q ss_pred             CC-hhHHHHHH----HHHHHHHHHhcCCHHHHHHHHHHHHHHHhcc
Q psy5288         113 GR-FIMVAKHH----ENIAEIYEKELEDQEKAIDHYQHAADCYAGE  153 (186)
Q Consensus       113 ~~-~~~~a~~~----~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~  153 (186)
                      +. .+.-+..|    .+.|.++.. +|++++|+..|++|+++.++.
T Consensus        91 ~e~~pd~~~A~~~~~~~rG~aL~~-lgr~eEAl~~y~kAlel~p~d  135 (159)
T 2hr2_A           91 GELNQDEGKLWISAVYSRALALDG-LGRGAEAMPEFKKVVEMIEER  135 (159)
T ss_dssp             CCTTSTHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHC
T ss_pred             ccCCCchHHHHHHHHHhHHHHHHH-CCCHHHHHHHHHHHHhcCCCc
Confidence            32 22345567    999999999 699999999999999998874

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=99.37  E-value=9.1e-13  Score=95.45  Aligned_cols=153  Identities=10%  Similarity=0.108  Sum_probs=111.0

Q ss_pred             chHHhHHHHHHHHHHhhccCCCCccccccCCCCHHHHHHHHHHH--------------HHHHHhcCCHHHHHHHHHHHHH
Q psy5288           3 DNEQKARQLVAEAEKKISSSSKGFFSQFTGGNKTDEAIDLYVRA--------------GNLFKLGKKWNDGGNAFLQAGT   68 (186)
Q Consensus         3 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~A~~~y~~a--------------g~~~~~~g~~~~A~~~y~~a~~   68 (186)
                      ||+...+.++..|...+.            .|++++|+..|.++              |.++...|++++|+.+|.+++.
T Consensus         1 ~~~~~~~~~~~~a~~~~~------------~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~   68 (176)
T 2r5s_A            1 SNASPDEQLLKQVSELLQ------------QGEHAQALNVIQTLSDELQSRGDVKLAKADCLLETKQFELAQELLATIPL   68 (176)
T ss_dssp             -----CTTHHHHHHHHHH------------TTCHHHHHHHHHTSCHHHHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCG
T ss_pred             CCCCHHHHHHHHHHHHHH------------cCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhh
Confidence            456666677777777776            35889999888776              6788899999999999998876


Q ss_pred             HHHHcCChhHHHHHHHHHHHHHh-c-CCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q psy5288          69 LHLKNNNKHDAGLCFVDAANCYK-K-SNPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHA  146 (186)
Q Consensus        69 ~~~~~~~~~~aa~~~~~a~~~y~-~-~~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA  146 (186)
                      ..     | .. ..+...+.+.. . ....+|+.++++++++....      ...+..+|.++... |++++|+..|+++
T Consensus        69 ~~-----p-~~-~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~P~~------~~~~~~la~~~~~~-g~~~~A~~~~~~~  134 (176)
T 2r5s_A           69 EY-----Q-DN-SYKSLIAKLELHQQAAESPELKRLEQELAANPDN------FELACELAVQYNQV-GRDEEALELLWNI  134 (176)
T ss_dssp             GG-----C-CH-HHHHHHHHHHHHHHHTSCHHHHHHHHHHHHSTTC------HHHHHHHHHHHHHT-TCHHHHHHHHHHH
T ss_pred             cc-----C-Ch-HHHHHHHHHHHHhhcccchHHHHHHHHHHhCCCC------HHHHHHHHHHHHHc-ccHHHHHHHHHHH
Confidence            52     2 11 11222232221 1 13345799999998875543      45889999999995 9999999999999


Q ss_pred             HHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         147 ADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       147 ~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      +.+.+....    ...+.++|.++..+|++++|+..|++
T Consensus       135 l~~~p~~~~----~~a~~~l~~~~~~~g~~~~A~~~y~~  169 (176)
T 2r5s_A          135 LKVNLGAQD----GEVKKTFMDILSALGQGNAIASKYRR  169 (176)
T ss_dssp             HTTCTTTTT----THHHHHHHHHHHHHCSSCHHHHHHHH
T ss_pred             HHhCcccCh----HHHHHHHHHHHHHhCCCCcHHHHHHH
Confidence            998664321    25788999999999999999999976

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=99.37  E-value=8.3e-12  Score=105.97  Aligned_cols=126  Identities=13%  Similarity=0.021  Sum_probs=108.7

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHH
Q psy5288          41 DLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVA  119 (186)
Q Consensus        41 ~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a  119 (186)
                      ..+...|.++...|++++|+++|.+++++     ++.. ...+..+|.+|... ++++|+.+|++++++....      .
T Consensus        24 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~-----~p~~-~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~------~   91 (568)
T 2vsy_A           24 VAWLMLADAELGMGDTTAGEMAVQRGLAL-----HPGH-PEAVARLGRVRWTQQRHAEAAVLLQQASDAAPEH------P   91 (568)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHTT-----STTC-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC------H
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHh-----CCCC-HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCC------H
Confidence            56777899999999999999999999997     3333 45677999999877 9999999999999885433      5


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhc---cCHHHHHHHHHh
Q psy5288         120 KHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALT---DHLDKAIKLYEQ  185 (186)
Q Consensus       120 ~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~---g~~~~A~~~~~~  185 (186)
                      ..+.++|.+|... |++++|+.+|++++++.+..      ..++.++|.++..+   |++++|++.|++
T Consensus        92 ~~~~~la~~~~~~-g~~~~A~~~~~~al~~~p~~------~~~~~~l~~~~~~~~~~g~~~~A~~~~~~  153 (568)
T 2vsy_A           92 GIALWLGHALEDA-GQAEAAAAAYTRAHQLLPEE------PYITAQLLNWRRRLCDWRALDVLSAQVRA  153 (568)
T ss_dssp             HHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHHTTCCTTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHc-CCHHHHHHHHHHHHHhCCCC------HHHHHHHHHHHHHhhccccHHHHHHHHHH
Confidence            5889999999995 99999999999999996643      36889999999999   999999999875

>2h6f_A Protein farnesyltransferase/geranylgeranyltransferase type I alpha subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.118.6.1 PDB: 1jcq_A* 1ld7_A* 1mzc_A* 1s63_A* 1sa4_A* 1tn6_A* 1ld8_A* 2h6g_A* 2h6h_A* 2h6i_A* 2iej_A* 3e37_A* 2f0y_A* 3ksl_A* 2zir_A* 2zis_A* 1o5m_A* 3ksq_A* 1o1t_A* 1o1s_A* ...

Probab=99.37  E-value=5.4e-12  Score=102.99  Aligned_cols=134  Identities=10%  Similarity=0.022  Sum_probs=111.9

Q ss_pred             CCCHHHHHHHHHHH--------------HHHHHhcCC-HHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHH
Q psy5288          33 GNKTDEAIDLYVRA--------------GNLFKLGKK-WNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPA   96 (186)
Q Consensus        33 ~~~~~~A~~~y~~a--------------g~~~~~~g~-~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~   96 (186)
                      .+++++|+.+|.++              |.++..+|+ +++|+.+|.+++.+     +|.. ..+|...|.++... +++
T Consensus       110 ~g~~~~Al~~~~~al~l~P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l-----~P~~-~~a~~~~g~~~~~~g~~~  183 (382)
T 2h6f_A          110 DERSERAFKLTRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEE-----QPKN-YQVWHHRRVLVEWLRDPS  183 (382)
T ss_dssp             TCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH-----CTTC-HHHHHHHHHHHHHHTCCT
T ss_pred             CCChHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHH-----CCCC-HHHHHHHHHHHHHccCHH
Confidence            36889999998887              667889997 99999999999998     4544 45677899999876 999


Q ss_pred             HHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHh-ccC
Q psy5288          97 EAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSAL-TDH  175 (186)
Q Consensus        97 ~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~-~g~  175 (186)
                      +|+.+|++|+++....      ..++.++|.++.. +|++++|+.+|++++.+.+..      ..+|.++|.+|.. .|.
T Consensus       184 eAl~~~~kal~ldP~~------~~a~~~lg~~~~~-~g~~~eAl~~~~~al~l~P~~------~~a~~~lg~~l~~l~~~  250 (382)
T 2h6f_A          184 QELEFIADILNQDAKN------YHAWQHRQWVIQE-FKLWDNELQYVDQLLKEDVRN------NSVWNQRYFVISNTTGY  250 (382)
T ss_dssp             THHHHHHHHHHHCTTC------HHHHHHHHHHHHH-HTCCTTHHHHHHHHHHHCTTC------HHHHHHHHHHHHHTTCS
T ss_pred             HHHHHHHHHHHhCccC------HHHHHHHHHHHHH-cCChHHHHHHHHHHHHhCCCC------HHHHHHHHHHHHHhcCc
Confidence            9999999999886554      4589999999999 599999999999999997754      3789999999999 555


Q ss_pred             HHHH-----HHHHHh
Q psy5288         176 LDKA-----IKLYEQ  185 (186)
Q Consensus       176 ~~~A-----~~~~~~  185 (186)
                      +++|     +++|++
T Consensus       251 ~~eA~~~~el~~~~~  265 (382)
T 2h6f_A          251 NDRAVLEREVQYTLE  265 (382)
T ss_dssp             CSHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHH
Confidence            5777     466654

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=99.36  E-value=2.6e-11  Score=86.52  Aligned_cols=122  Identities=15%  Similarity=0.047  Sum_probs=85.4

Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCCh
Q psy5288          37 DEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRF  115 (186)
Q Consensus        37 ~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~  115 (186)
                      ++.-........+....+.+.+       ++.+     +|.. ...+..+|.++... ++++|+.+|++++.+.+..   
T Consensus         6 ~~~~~~~~~l~~~~~~~~~l~~-------al~l-----~p~~-~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~P~~---   69 (151)
T 3gyz_A            6 TENESISTAVIDAINSGATLKD-------INAI-----PDDM-MDDIYSYAYDFYNKGRIEEAEVFFRFLCIYDFYN---   69 (151)
T ss_dssp             ---CHHHHHHHHHHHTSCCTGG-------GCCS-----CHHH-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC---
T ss_pred             HHHHHHHHHHHHHHHCCCCHHH-------HhCC-----CHHH-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCC---
Confidence            3444445555555544444443       3333     4444 44556888887766 9999999999999886544   


Q ss_pred             hHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCC-hHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         116 IMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEEN-KSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       116 ~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~-~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                         +.++.++|.+|.. +|++++|+.+|++|+.+.++... ....+.++..       +|++++|++.|++
T Consensus        70 ---~~~~~~lg~~~~~-~g~~~~Ai~~~~~al~l~P~~~~~~~~lg~~~~~-------lg~~~eA~~~~~~  129 (151)
T 3gyz_A           70 ---VDYIMGLAAIYQI-KEQFQQAADLYAVAFALGKNDYTPVFHTGQCQLR-------LKAPLKAKECFEL  129 (151)
T ss_dssp             ---HHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHSSSCCHHHHHHHHHHHH-------TTCHHHHHHHHHH
T ss_pred             ---HHHHHHHHHHHHH-HccHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHH-------cCCHHHHHHHHHH
Confidence               4489999999999 49999999999999999887532 2333445554       6889999999876

>3upv_A Heat shock protein STI1; TPR-fold, adaptor protein for HSP70 and HSP90, C-terminal PA HSP70, peptide binding protein; 1.60A {Saccharomyces cerevisiae}

Probab=99.36  E-value=2.9e-11  Score=82.39  Aligned_cols=121  Identities=17%  Similarity=0.111  Sum_probs=95.9

Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhH
Q psy5288          39 AIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIM  117 (186)
Q Consensus        39 A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~  117 (186)
                      .++.+...|..+...|++++|+.+|.+++++     +|.. ...+.++|.+|... ++++|+.+|++++++....     
T Consensus         3 ~a~~~~~~g~~~~~~~~~~~A~~~~~~al~~-----~p~~-~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~-----   71 (126)
T 3upv_A            3 KAEEARLEGKEYFTKSDWPNAVKAYTEMIKR-----APED-ARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNF-----   71 (126)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----CTTC-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC-----
T ss_pred             hHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh-----CCCC-hHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCc-----
Confidence            3566778889999999999999999999998     3443 46778999999887 9999999999999885433     


Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHh
Q psy5288         118 VAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSAL  172 (186)
Q Consensus       118 ~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~  172 (186)
                       ...+..+|.++.. +|++++|+.+|++++.+.++....+....++..++.+..+
T Consensus        72 -~~~~~~lg~~~~~-~~~~~~A~~~~~~al~~~p~~~~~p~~~~~~~~l~~~~~~  124 (126)
T 3upv_A           72 -VRAYIRKATAQIA-VKEYASALETLDAARTKDAEVNNGSSAREIDQLYYKASQQ  124 (126)
T ss_dssp             -HHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTTHHHHHHHHHHHHHH
T ss_pred             -HHHHHHHHHHHHH-HhCHHHHHHHHHHHHHhCcccCCchhHHHHHHHHHHHHHh
Confidence             4589999999999 5999999999999999985432222223566666666543

>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C, TPR-containing domain, structural genomics; 1.63A {Plasmodium falciparum} SCOP: a.118.8.1

Probab=99.36  E-value=7.9e-12  Score=91.96  Aligned_cols=131  Identities=15%  Similarity=0.100  Sum_probs=106.0

Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhH----------HHHHHHHHHHHHhcC-CHHHHHHHHHHH
Q psy5288          37 DEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHD----------AGLCFVDAANCYKKS-NPAEAIKAIERA  105 (186)
Q Consensus        37 ~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~----------aa~~~~~a~~~y~~~-~~~~A~~~~~~A  105 (186)
                      .+.+..+...|..+...|++++|+.+|.+++.+.....+...          ...++.++|.+|... ++++|+.+++++
T Consensus        35 ~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a  114 (198)
T 2fbn_A           35 VQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKV  114 (198)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            346677888899999999999999999999997544322111          147788999999887 999999999999


Q ss_pred             HHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHH
Q psy5288         106 VEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAI  180 (186)
Q Consensus       106 l~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~  180 (186)
                      +++....      ..++..+|.+|.. +|++++|+.+|++++.+.+..      ..++..++.++..++++.++.
T Consensus       115 l~~~p~~------~~~~~~lg~~~~~-~~~~~~A~~~~~~al~~~p~~------~~~~~~l~~~~~~~~~~~~~~  176 (198)
T 2fbn_A          115 LKIDKNN------VKALYKLGVANMY-FGFLEEAKENLYKAASLNPNN------LDIRNSYELCVNKLKEARKKD  176 (198)
T ss_dssp             HHHSTTC------HHHHHHHHHHHHH-HTCHHHHHHHHHHHHHHSTTC------HHHHHHHHHHHHHHHHHHC--
T ss_pred             HHhCccc------HHHHHHHHHHHHH-cccHHHHHHHHHHHHHHCCCc------HHHHHHHHHHHHHHHHHHHHH
Confidence            9984332      4588999999999 599999999999999997653      367888999999988888776

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A

Probab=99.35  E-value=9.9e-12  Score=88.67  Aligned_cols=131  Identities=13%  Similarity=0.081  Sum_probs=109.6

Q ss_pred             HHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCC
Q psy5288          36 TDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGR  114 (186)
Q Consensus        36 ~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~  114 (186)
                      .+.....+...|..+...|++++|+.+|.++++..     +.. ...+..+|.+|... ++++|+.++++++++...   
T Consensus         4 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-----~~~-~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~---   74 (186)
T 3as5_A            4 DDIRQVYYRDKGISHAKAGRYSQAVMLLEQVYDAD-----AFD-VDVALHLGIAYVKTGAVDRGTELLERSLADAPD---   74 (186)
T ss_dssp             CCHHHHHHHHHHHHHHHHTCHHHHHHHHTTTCCTT-----SCC-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT---
T ss_pred             cchhhHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-----ccC-hHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC---
Confidence            34567788899999999999999999999887652     222 46677889998876 999999999999987432   


Q ss_pred             hhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         115 FIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       115 ~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                         ...++..+|.++... |++++|+.++++++.+.+..      ..++..+|.+|...|++++|+++|++
T Consensus        75 ---~~~~~~~~a~~~~~~-~~~~~A~~~~~~~~~~~~~~------~~~~~~~a~~~~~~~~~~~A~~~~~~  135 (186)
T 3as5_A           75 ---NVKVATVLGLTYVQV-QKYDLAVPLLIKVAEANPIN------FNVRFRLGVALDNLGRFDEAIDSFKI  135 (186)
T ss_dssp             ---CHHHHHHHHHHHHHH-TCHHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             ---CHHHHHHHHHHHHHh-cCHHHHHHHHHHHHhcCcHh------HHHHHHHHHHHHHcCcHHHHHHHHHH
Confidence               245788999999995 99999999999999986543      36789999999999999999999976

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=99.35  E-value=8.1e-12  Score=108.79  Aligned_cols=135  Identities=9%  Similarity=-0.042  Sum_probs=112.9

Q ss_pred             CCCCHHHHHHHHHHH----------------------HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHH
Q psy5288          32 GGNKTDEAIDLYVRA----------------------GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANC   89 (186)
Q Consensus        32 ~~~~~~~A~~~y~~a----------------------g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~   89 (186)
                      ..+++++|++.|.++                      |.++...|++++|+..|.+++++.     +.. ..++..+|.+
T Consensus       403 ~~~~~~~A~~~~~~al~~~~~~~~~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-----p~~-~~a~~~lg~~  476 (681)
T 2pzi_A          403 VLSQPVQTLDSLRAARHGALDADGVDFSESVELPLMEVRALLDLGDVAKATRKLDDLAERV-----GWR-WRLVWYRAVA  476 (681)
T ss_dssp             TTCCHHHHHHHHHHHHTC-------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-----CCC-HHHHHHHHHH
T ss_pred             cccCHHHHHHHHHHhhhhcccccccccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-----cch-HHHHHHHHHH
Confidence            346777777666665                      457888999999999999999983     333 4567789999


Q ss_pred             HhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHH
Q psy5288          90 YKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIAN  168 (186)
Q Consensus        90 y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~  168 (186)
                      |... ++++|+.+|++|+++....      +..+.++|.+|... |++++ +.+|++|+.+.+..      ...+.++|.
T Consensus       477 ~~~~g~~~~A~~~~~~al~l~P~~------~~~~~~lg~~~~~~-g~~~~-~~~~~~al~~~P~~------~~a~~~lg~  542 (681)
T 2pzi_A          477 ELLTGDYDSATKHFTEVLDTFPGE------LAPKLALAATAELA-GNTDE-HKFYQTVWSTNDGV------ISAAFGLAR  542 (681)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHSTTC------SHHHHHHHHHHHHH-TCCCT-TCHHHHHHHHCTTC------HHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCCC------hHHHHHHHHHHHHc-CChHH-HHHHHHHHHhCCch------HHHHHHHHH
Confidence            8876 9999999999999987655      34788999999995 99999 99999999997653      368899999


Q ss_pred             HHHhccCHHHHHHHHHhC
Q psy5288         169 YSALTDHLDKAIKLYEQL  186 (186)
Q Consensus       169 ~y~~~g~~~~A~~~~~~~  186 (186)
                      +|..+|++++|++.|+++
T Consensus       543 ~~~~~g~~~~A~~~~~~a  560 (681)
T 2pzi_A          543 ARSAEGDRVGAVRTLDEV  560 (681)
T ss_dssp             HHHHTTCHHHHHHHHHTS
T ss_pred             HHHHcCCHHHHHHHHHhh
Confidence            999999999999999874

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=99.35  E-value=1.1e-11  Score=88.25  Aligned_cols=126  Identities=10%  Similarity=0.034  Sum_probs=99.2

Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcC---C---------hhHHHHHHHHHHHHHhcC-CHHHHHHHHH
Q psy5288          37 DEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNN---N---------KHDAGLCFVDAANCYKKS-NPAEAIKAIE  103 (186)
Q Consensus        37 ~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~---~---------~~~aa~~~~~a~~~y~~~-~~~~A~~~~~  103 (186)
                      -+.++.+...|+.+...|++++|+.+|.+++.+.....   +         ......+|.++|.+|... ++++|+.+++
T Consensus         8 ~~~a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~   87 (162)
T 3rkv_A            8 LKSVEALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSS   87 (162)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHH
Confidence            45677888899999999999999999999999865432   1         223457788999999887 9999999999


Q ss_pred             HHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhcc
Q psy5288         104 RAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTD  174 (186)
Q Consensus       104 ~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g  174 (186)
                      +++++....      +.++..+|.+|.. +|++++|+.+|++++.+.+.+.     ..+...++.+....+
T Consensus        88 ~al~~~p~~------~~a~~~~g~~~~~-~g~~~~A~~~~~~al~l~p~~~-----~~~~~~l~~~~~~~~  146 (162)
T 3rkv_A           88 EVLKREETN------EKALFRRAKARIA-AWKLDEAEEDLKLLLRNHPAAA-----SVVAREMKIVTERRA  146 (162)
T ss_dssp             HHHHHSTTC------HHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHCGGGH-----HHHHHHHHHHHHHHH
T ss_pred             HHHhcCCcc------hHHHHHHHHHHHH-HhcHHHHHHHHHHHHhcCCCCH-----HHHHHHHHHHHHHHH
Confidence            999984332      4589999999999 5999999999999999976532     134455555554443

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.35  E-value=8.5e-11  Score=86.49  Aligned_cols=165  Identities=11%  Similarity=0.043  Sum_probs=125.6

Q ss_pred             hHHhHHHHHHHHHHhhccCCCCcc---ccccCCCCHHHHHHHHHHH--------------HHHHHhc-CCHHHHHHHHHH
Q psy5288           4 NEQKARQLVAEAEKKISSSSKGFF---SQFTGGNKTDEAIDLYVRA--------------GNLFKLG-KKWNDGGNAFLQ   65 (186)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~~~~~~~---~~~~~~~~~~~A~~~y~~a--------------g~~~~~~-g~~~~A~~~y~~   65 (186)
                      ..++|..++.++-+........++   ..++..+++++|.++|.++              |.++... |++++|+.+|.+
T Consensus        23 ~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~  102 (225)
T 2vq2_A           23 DYRQATASIEDALKSDPKNELAWLVRAEIYQYLKVNDKAQESFRQALSIKPDSAEINNNYGWFLCGRLNRPAESMAYFDK  102 (225)
T ss_dssp             CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCcHHHHHHHHHH
Confidence            346677777777665441101110   1122558999999999887              5578889 999999999999


Q ss_pred             HHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHH
Q psy5288          66 AGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQ  144 (186)
Q Consensus        66 a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~  144 (186)
                      +++    .+........+..+|.+|... ++++|+.++++++++....      ..++..+|.++... |++++|+.+++
T Consensus       103 ~~~----~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~------~~~~~~la~~~~~~-~~~~~A~~~~~  171 (225)
T 2vq2_A          103 ALA----DPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQPQF------PPAFKELARTKMLA-GQLGDADYYFK  171 (225)
T ss_dssp             HHT----STTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTC------HHHHHHHHHHHHHH-TCHHHHHHHHH
T ss_pred             HHc----CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCC------chHHHHHHHHHHHc-CCHHHHHHHHH
Confidence            987    223334456777899999877 9999999999998875432      45788999999995 99999999999


Q ss_pred             HHHHHHh-ccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         145 HAADCYA-GEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       145 kA~~l~~-~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      +++.+.+ ..      ...+..++.++...|++++|..+++.
T Consensus       172 ~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~a~~~~~~  207 (225)
T 2vq2_A          172 KYQSRVEVLQ------ADDLLLGWKIAKALGNAQAAYEYEAQ  207 (225)
T ss_dssp             HHHHHHCSCC------HHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHhCCCCC------HHHHHHHHHHHHhcCcHHHHHHHHHH
Confidence            9999876 33      24567888899999999999998865

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.34  E-value=5.1e-11  Score=97.03  Aligned_cols=142  Identities=15%  Similarity=0.106  Sum_probs=107.9

Q ss_pred             CCCCHHHHHHHHHHH--------------HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHH---------HHHHHH
Q psy5288          32 GGNKTDEAIDLYVRA--------------GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLC---------FVDAAN   88 (186)
Q Consensus        32 ~~~~~~~A~~~y~~a--------------g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~---------~~~a~~   88 (186)
                      ..|++++|+.+|.++              |.+|...|++++|+.+|.+++.+...   .......         +...|.
T Consensus       189 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~---~~~~~~~~~~~~~~~~~~~~~~  265 (450)
T 2y4t_A          189 KEGEPRKAISDLKAASKLKNDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQD---HKRCFAHYKQVKKLNKLIESAE  265 (450)
T ss_dssp             HTTCGGGGHHHHHHHHHHHCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT---CHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC---hHHHHHHHHHHHHHHHHHHHHH
Confidence            457888888887776              55678888999999998888876211   1111111         123367


Q ss_pred             HHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHH
Q psy5288          89 CYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIA  167 (186)
Q Consensus        89 ~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la  167 (186)
                      ++... ++++|+.+|++++++...  ++......+..+|.++.. +|++++|+.++++++.+.+..      ..++..+|
T Consensus       266 ~~~~~g~~~~A~~~~~~~l~~~p~--~~~~~~~~~~~l~~~~~~-~g~~~~A~~~~~~a~~~~p~~------~~~~~~l~  336 (450)
T 2y4t_A          266 ELIRDGRYTDATSKYESVMKTEPS--IAEYTVRSKERICHCFSK-DEKPVEAIRVCSEVLQMEPDN------VNALKDRA  336 (450)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHCCS--SHHHHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHHCTTC------HHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHhcCCc--chHHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHHhCccc------HHHHHHHH
Confidence            77655 899999999999886433  445556789999999998 499999999999999986543      37889999


Q ss_pred             HHHHhccCHHHHHHHHHh
Q psy5288         168 NYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       168 ~~y~~~g~~~~A~~~~~~  185 (186)
                      .+|...|++++|+++|++
T Consensus       337 ~~~~~~~~~~~A~~~~~~  354 (450)
T 2y4t_A          337 EAYLIEEMYDEAIQDYET  354 (450)
T ss_dssp             HHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHH
Confidence            999999999999999976

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1

Probab=99.34  E-value=6.1e-11  Score=90.98  Aligned_cols=128  Identities=16%  Similarity=0.306  Sum_probs=79.1

Q ss_pred             CCCHHHHHHHHHHH------------HHHHHh----cCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhc----
Q psy5288          33 GNKTDEAIDLYVRA------------GNLFKL----GKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKK----   92 (186)
Q Consensus        33 ~~~~~~A~~~y~~a------------g~~~~~----~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~----   92 (186)
                      .+++++|+++|.++            |.+|..    .+++++|+.+|.++++.    ++    ...+.++|.+|..    
T Consensus        91 ~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~----~~----~~a~~~lg~~~~~~~~~  162 (273)
T 1ouv_A           91 SQNTNKALQYYSKACDLKYAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDL----ND----GDGCTILGSLYDAGRGT  162 (273)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT----TC----HHHHHHHHHHHHHTSSS
T ss_pred             ccCHHHHHHHHHHHHHcCCccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhc----Cc----HHHHHHHHHHHHcCCCC
Confidence            46667776666665            445666    66777777777666653    11    2345566666664    


Q ss_pred             C-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHH----hcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHH
Q psy5288          93 S-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEK----ELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIA  167 (186)
Q Consensus        93 ~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~----~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la  167 (186)
                      . ++++|+.+|+++++.    ++    ...+..+|.+|..    . +++++|+.+|+++++.-+        ...+.++|
T Consensus       163 ~~~~~~A~~~~~~a~~~----~~----~~a~~~lg~~~~~g~~~~-~~~~~A~~~~~~a~~~~~--------~~a~~~l~  225 (273)
T 1ouv_A          163 PKDLKKALASYDKACDL----KD----SPGCFNAGNMYHHGEGAT-KNFKEALARYSKACELEN--------GGGCFNLG  225 (273)
T ss_dssp             CCCHHHHHHHHHHHHHT----TC----HHHHHHHHHHHHHTCSSC-CCHHHHHHHHHHHHHTTC--------HHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHC----CC----HHHHHHHHHHHHcCCCCC-ccHHHHHHHHHHHHhCCC--------HHHHHHHH
Confidence            3 667777777766654    22    3456667777666    5 677777777777666411        24556667


Q ss_pred             HHHHh----ccCHHHHHHHHHh
Q psy5288         168 NYSAL----TDHLDKAIKLYEQ  185 (186)
Q Consensus       168 ~~y~~----~g~~~~A~~~~~~  185 (186)
                      .+|..    .+++++|+++|++
T Consensus       226 ~~~~~g~~~~~~~~~A~~~~~~  247 (273)
T 1ouv_A          226 AMQYNGEGVTRNEKQAIENFKK  247 (273)
T ss_dssp             HHHHTTSSSSCCSTTHHHHHHH
T ss_pred             HHHHcCCCcccCHHHHHHHHHH
Confidence            77766    6777777766654

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=99.33  E-value=2.2e-11  Score=87.44  Aligned_cols=106  Identities=17%  Similarity=0.092  Sum_probs=83.6

Q ss_pred             HHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHc------CChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHh
Q psy5288          79 AGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDM------GRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYA  151 (186)
Q Consensus        79 aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~------~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~  151 (186)
                      .+..+.+.|..+... ++++|+.+|++|+++....      ...+.-+.++.++|.++.. +|+|++|+.+|++|+++|.
T Consensus        10 ~a~~~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~-Lgr~~eAl~~~~kAL~l~n   88 (159)
T 2hr2_A           10 GAYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAG-LRSFDEALHSADKALHYFN   88 (159)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHH-CCCHHHHHHHHHHHHHhhh
Confidence            355666778777765 9999999999999999873      1112345599999999999 6999999999999999943


Q ss_pred             ccC-ChHHHHHHH----HHHHHHHHhccCHHHHHHHHHh
Q psy5288         152 GEE-NKSSANKCL----IKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       152 ~~~-~~~~~~~~~----~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ..+ ..+.-...|    .+.|.++..+|++++|++.|++
T Consensus        89 ~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~k  127 (159)
T 2hr2_A           89 RRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKK  127 (159)
T ss_dssp             HHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             ccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHH
Confidence            211 111224677    9999999999999999999986

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.33  E-value=9.6e-12  Score=103.88  Aligned_cols=165  Identities=15%  Similarity=0.096  Sum_probs=126.1

Q ss_pred             HhHHHHHHHHHHhhccCCCCcc---ccccCCCCHHHHHHHHHHH-------------HHHHHhc---------CCHHHHH
Q psy5288           6 QKARQLVAEAEKKISSSSKGFF---SQFTGGNKTDEAIDLYVRA-------------GNLFKLG---------KKWNDGG   60 (186)
Q Consensus         6 ~~~~~~~~~a~~~~~~~~~~~~---~~~~~~~~~~~A~~~y~~a-------------g~~~~~~---------g~~~~A~   60 (186)
                      ++|.+++.+|-+.-..-...|+   ..++..|++++|+.+|.++             |.++...         |++++|+
T Consensus       120 ~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~  199 (474)
T 4abn_A          120 PEAEVLLSKAVKLEPELVEAWNQLGEVYWKKGDVTSAHTCFSGALTHCKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSV  199 (474)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTCCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhccCChhhhhhhHHHHH
Confidence            5677777777554431000110   1122457999999998877             6678888         9999999


Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHHHHHHhc---------CCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHH
Q psy5288          61 NAFLQAGTLHLKNNNKHDAGLCFVDAANCYKK---------SNPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEK  131 (186)
Q Consensus        61 ~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~---------~~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~  131 (186)
                      .+|.+++++     +|.. ...+..+|.+|..         .++++|+.+|++|+++...   ...-+..+.++|.+|..
T Consensus       200 ~~~~~al~~-----~p~~-~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~---~~~~~~~~~~lg~~~~~  270 (474)
T 4abn_A          200 RQAKLAVQM-----DVLD-GRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKVDRK---ASSNPDLHLNRATLHKY  270 (474)
T ss_dssp             HHHHHHHHH-----CTTC-HHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHCGG---GGGCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHh-----CCCC-HHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhCCC---cccCHHHHHHHHHHHHH
Confidence            999999998     3443 3567788888864         4689999999999998541   11346689999999999


Q ss_pred             hcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHhC
Q psy5288         132 ELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQL  186 (186)
Q Consensus       132 ~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~~  186 (186)
                      . |++++|+.+|++|+.+.+..      ..++.+++.++..+|++++|++.+.++
T Consensus       271 ~-g~~~~A~~~~~~al~l~p~~------~~a~~~l~~~~~~lg~~~eAi~~~~~~  318 (474)
T 4abn_A          271 E-ESYGEALEGFSQAAALDPAW------PEPQQREQQLLEFLSRLTSLLESKGKT  318 (474)
T ss_dssp             T-TCHHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHHHHHHHHHHHHTTTC
T ss_pred             c-CCHHHHHHHHHHHHHhCCCC------HHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            5 99999999999999997654      368899999999999999999987653

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.32  E-value=1.8e-11  Score=100.99  Aligned_cols=139  Identities=17%  Similarity=0.166  Sum_probs=106.0

Q ss_pred             CCHHHHHHHHHHH--------------HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHH
Q psy5288          34 NKTDEAIDLYVRA--------------GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEA   98 (186)
Q Consensus        34 ~~~~~A~~~y~~a--------------g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A   98 (186)
                      +++++|+..|.++              |.++...|++++|+.+|.++++..     +.. ...+..+|.+|... ++++|
T Consensus       318 ~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-----~~~-~~~~~~la~~~~~~~~~~~A  391 (514)
T 2gw1_A          318 QNYDQAGKDFDKAKELDPENIFPYIQLACLAYRENKFDDCETLFSEAKRKF-----PEA-PEVPNFFAEILTDKNDFDKA  391 (514)
T ss_dssp             TCTTHHHHHHHHHHHTCSSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-----TTC-SHHHHHHHHHHHHTTCHHHH
T ss_pred             CCHHHHHHHHHHHHHhChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-----ccC-HHHHHHHHHHHHHCCCHHHH
Confidence            4556666555554              445556666666666666666552     111 24556778888776 89999


Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHH---hcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccC
Q psy5288          99 IKAIERAVEIHTDMGRFIMVAKHHENIAEIYEK---ELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDH  175 (186)
Q Consensus        99 ~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~---~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~  175 (186)
                      +.+|++++++..........+..+..+|.++..   . |++++|+.+|++++.+.+..      ..++..+|.+|...|+
T Consensus       392 ~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~~~~A~~~~~~a~~~~~~~------~~~~~~la~~~~~~g~  464 (514)
T 2gw1_A          392 LKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTV-ENFIEATNLLEKASKLDPRS------EQAKIGLAQMKLQQED  464 (514)
T ss_dssp             HHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCT-THHHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhc-CCHHHHHHHHHHHHHhCccc------HHHHHHHHHHHHHhcC
Confidence            999999999988776654445588999999998   7 99999999999999986543      3688999999999999


Q ss_pred             HHHHHHHHHh
Q psy5288         176 LDKAIKLYEQ  185 (186)
Q Consensus       176 ~~~A~~~~~~  185 (186)
                      +++|+++|++
T Consensus       465 ~~~A~~~~~~  474 (514)
T 2gw1_A          465 IDEAITLFEE  474 (514)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999999976

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=99.31  E-value=2.4e-11  Score=101.02  Aligned_cols=119  Identities=12%  Similarity=0.044  Sum_probs=54.4

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHH
Q psy5288          47 GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENI  125 (186)
Q Consensus        47 g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~l  125 (186)
                      |.++...|++++|+.+|.+++++.     +.. ...+..+|.+|... ++++|+.+|++++++.....      .++..+
T Consensus       283 ~~~~~~~~~~~~A~~~~~~~~~~~-----~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~------~~~~~l  350 (537)
T 3fp2_A          283 ALTLADKENSQEFFKFFQKAVDLN-----PEY-PPTYYHRGQMYFILQDYKNAKEDFQKAQSLNPENV------YPYIQL  350 (537)
T ss_dssp             HHHTCCSSCCHHHHHHHHHHHHHC-----TTC-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCS------HHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHhccC-----CCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCH------HHHHHH
Confidence            555555555555555555555441     111 22344445554443 55555555555544432221      234444


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHH
Q psy5288         126 AEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYE  184 (186)
Q Consensus       126 g~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~  184 (186)
                      |.++... |++++|+.+|++++.+.+...      .++..+|.+|...|++++|++.|+
T Consensus       351 a~~~~~~-g~~~~A~~~~~~~~~~~~~~~------~~~~~l~~~~~~~g~~~~A~~~~~  402 (537)
T 3fp2_A          351 ACLLYKQ-GKFTESEAFFNETKLKFPTLP------EVPTFFAEILTDRGDFDTAIKQYD  402 (537)
T ss_dssp             HHHHHHT-TCHHHHHHHHHHHHHHCTTCT------HHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHc-CCHHHHHHHHHHHHHhCCCCh------HHHHHHHHHHHHhCCHHHHHHHHH
Confidence            4444442 455555555555444433221      344444444444444444444443

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=99.30  E-value=1.7e-10  Score=86.12  Aligned_cols=132  Identities=13%  Similarity=0.031  Sum_probs=104.9

Q ss_pred             CCCHHHHHHHHHHH------------HHHHHhcC----CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhc----
Q psy5288          33 GNKTDEAIDLYVRA------------GNLFKLGK----KWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKK----   92 (186)
Q Consensus        33 ~~~~~~A~~~y~~a------------g~~~~~~g----~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~----   92 (186)
                      .+++++|+.+|.++            |.+|.. +    ++++|+++|.++++.    |+    ..++.++|.+|..    
T Consensus        31 ~~~~~~A~~~~~~a~~~g~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~~----g~----~~a~~~Lg~~y~~g~g~  101 (212)
T 3rjv_A           31 SGDYQKAEYWAQKAAAQGDGDALALLAQLKIR-NPQQADYPQARQLAEKAVEA----GS----KSGEIVLARVLVNRQAG  101 (212)
T ss_dssp             HTCHHHHHHHHHHHHHTTCHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHHT----TC----HHHHHHHHHHHTCGGGS
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHC----CC----HHHHHHHHHHHHcCCCC
Confidence            47899999999888            445665 6    899999999999652    33    3567799999986    


Q ss_pred             C-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHH----hcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHH
Q psy5288          93 S-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEK----ELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIA  167 (186)
Q Consensus        93 ~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~----~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la  167 (186)
                      . ++++|+.+|++|++.    ++....+..+.+||.+|..    . +++++|+.+|++|+++ +.  ++    ..+.+||
T Consensus       102 ~~d~~~A~~~~~~A~~~----~~~~~~~~a~~~Lg~~y~~g~g~~-~d~~~A~~~~~~A~~~-~~--~~----~a~~~Lg  169 (212)
T 3rjv_A          102 ATDVAHAITLLQDAARD----SESDAAVDAQMLLGLIYASGVHGP-EDDVKASEYFKGSSSL-SR--TG----YAEYWAG  169 (212)
T ss_dssp             SCCHHHHHHHHHHHTSS----TTSHHHHHHHHHHHHHHHHTSSSS-CCHHHHHHHHHHHHHT-SC--TT----HHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHc----CCCcchHHHHHHHHHHHHcCCCCC-CCHHHHHHHHHHHHHc-CC--CH----HHHHHHH
Confidence            3 899999999999753    4433557789999999998    6 7999999999999987 22  21    4678999


Q ss_pred             HHHHhc-c-----CHHHHHHHHHh
Q psy5288         168 NYSALT-D-----HLDKAIKLYEQ  185 (186)
Q Consensus       168 ~~y~~~-g-----~~~~A~~~~~~  185 (186)
                      .+|... |     ++++|+.+|++
T Consensus       170 ~~y~~g~gg~~~~d~~~A~~~~~~  193 (212)
T 3rjv_A          170 MMFQQGEKGFIEPNKQKALHWLNV  193 (212)
T ss_dssp             HHHHHCBTTTBCCCHHHHHHHHHH
T ss_pred             HHHHcCCCCCCCCCHHHHHHHHHH
Confidence            999864 3     99999999975

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=99.30  E-value=8.1e-11  Score=86.75  Aligned_cols=128  Identities=20%  Similarity=0.205  Sum_probs=102.3

Q ss_pred             hHHHHHHHHHHhhccCCCCccccccCCCCHHHHHHHHHH-----------HHHHHHhcCCHHHHHHHHHHHHHHHHHcCC
Q psy5288           7 KARQLVAEAEKKISSSSKGFFSQFTGGNKTDEAIDLYVR-----------AGNLFKLGKKWNDGGNAFLQAGTLHLKNNN   75 (186)
Q Consensus         7 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~A~~~y~~-----------ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~   75 (186)
                      ++..+...|...+.            .++|++|++.|.+           .|.+|...|++++|+.+|.+++.+.     
T Consensus         5 ~~~~~~~~g~~~~~------------~~~~~~A~~~~~~a~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-----   67 (213)
T 1hh8_A            5 EAISLWNEGVLAAD------------KKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-----   67 (213)
T ss_dssp             HHHHHHHHHHHHHH------------TTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-----
T ss_pred             HHHHHHHHHHHHHH------------hCCHHHHHHHHHHHcCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-----
Confidence            44445555555444            3577777776655           4888999999999999999999983     


Q ss_pred             hhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcC----------ChhHHHHHHHHHHHHHHHhcCCHHHHHHHHH
Q psy5288          76 KHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMG----------RFIMVAKHHENIAEIYEKELEDQEKAIDHYQ  144 (186)
Q Consensus        76 ~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~----------~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~  144 (186)
                      +.. ...+.++|.+|... ++++|+.+|++++++.....          .....+.++.++|.+|... |++++|+.+|+
T Consensus        68 ~~~-~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~A~~~~~  145 (213)
T 1hh8_A           68 KHL-AVAYFQRGMLYYQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKK-EEWKKAEEQLA  145 (213)
T ss_dssp             TTC-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHT-TCHHHHHHHHH
T ss_pred             ccc-hHHHHHHHHHHHHcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHc-cCHHHHHHHHH
Confidence            333 46677999999887 99999999999999876655          4455678999999999995 99999999999


Q ss_pred             HHHHHHhcc
Q psy5288         145 HAADCYAGE  153 (186)
Q Consensus       145 kA~~l~~~~  153 (186)
                      +++.+.+..
T Consensus       146 ~al~~~p~~  154 (213)
T 1hh8_A          146 LATSMKSEP  154 (213)
T ss_dssp             HHHTTCCSG
T ss_pred             HHHHcCccc
Confidence            999997754

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=99.30  E-value=3.3e-11  Score=100.29  Aligned_cols=132  Identities=12%  Similarity=0.141  Sum_probs=108.0

Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCC---------hhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHH
Q psy5288          38 EAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNN---------KHDAGLCFVDAANCYKKS-NPAEAIKAIERAVE  107 (186)
Q Consensus        38 ~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~---------~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~  107 (186)
                      ..+..+...|+.+...|++++|+.+|.+++++......         ......+|.++|.||... ++++|+.+|++|++
T Consensus       266 ~~a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~  345 (457)
T 1kt0_A          266 EQAAIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALG  345 (457)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHh
Confidence            44567788899999999999999999999998654321         112267888999999988 99999999999999


Q ss_pred             HHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHH
Q psy5288         108 IHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKL  182 (186)
Q Consensus       108 i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~  182 (186)
                      +....      ...+.++|.+|.. +|++++|+.+|++|+.+.+...      .++.+++.++..+|++++|...
T Consensus       346 ~~p~~------~~a~~~~g~a~~~-~g~~~~A~~~~~~al~l~P~~~------~a~~~l~~~~~~~~~~~~a~~~  407 (457)
T 1kt0_A          346 LDSAN------EKGLYRRGEAQLL-MNEFESAKGDFEKVLEVNPQNK------AARLQISMCQKKAKEHNERDRR  407 (457)
T ss_dssp             HSTTC------HHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTC----------CHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cCCcc------HHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhCCCCH------HHHHHHHHHHHHHHHHHHHHHH
Confidence            86543      5689999999999 5999999999999999976542      5788999999999999988753

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.30  E-value=3e-11  Score=101.92  Aligned_cols=124  Identities=15%  Similarity=0.113  Sum_probs=86.0

Q ss_pred             HHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHH
Q psy5288          49 LFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAE  127 (186)
Q Consensus        49 ~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~  127 (186)
                      +|...|++++|+++|.++.++.     +. ....+..++.+|... ++++|+++|++++++...  +    ..++..+|.
T Consensus       416 ~~~~~g~~~~A~~~~~~~~~~~-----~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~--~----~~~~~~l~~  483 (597)
T 2xpi_A          416 SFAIEGEHDQAISAYTTAARLF-----QG-THLPYLFLGMQHMQLGNILLANEYLQSSYALFQY--D----PLLLNELGV  483 (597)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHTT-----TT-CSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCC--C----HHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-----cc-chHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC--C----hHHHHHHHH
Confidence            3444455555555555444431     11 123344556666554 778888888877765322  1    346889999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHHHhccC-ChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         128 IYEKELEDQEKAIDHYQHAADCYAGEE-NKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       128 ~y~~~lg~~~~Ai~~y~kA~~l~~~~~-~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      +|... |++++|+.+|++++++.++.+ .+.....++..+|.+|...|++++|+++|++
T Consensus       484 ~~~~~-g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  541 (597)
T 2xpi_A          484 VAFNK-SDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQ  541 (597)
T ss_dssp             HHHHT-TCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHh-CCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence            99995 999999999999999987643 3332247899999999999999999999976

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=99.30  E-value=1.7e-10  Score=77.58  Aligned_cols=123  Identities=15%  Similarity=0.147  Sum_probs=102.5

Q ss_pred             CHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcC
Q psy5288          35 KTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMG  113 (186)
Q Consensus        35 ~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~  113 (186)
                      .-..-...+...|..+...|++++|+.+|.+++.+.     +.. ...+..+|.+|... ++++|+.++++++.+.... 
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-----~~~-~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~-   79 (131)
T 2vyi_A            7 EDSAEAERLKTEGNEQMKVENFEAAVHFYGKAIELN-----PAN-AVYFCNRAAAYSKLGNYAGAVQDCERAICIDPAY-   79 (131)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-----TTC-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC-
T ss_pred             cchhhhHHHHHHHHHHHHccCHHHHHHHHHHHHHcC-----CCC-HHHHHHHHHHHHHhhchHHHHHHHHHHHhcCccC-
Confidence            445667788888999999999999999999999872     332 45677899999876 9999999999999874332 


Q ss_pred             ChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCH
Q psy5288         114 RFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHL  176 (186)
Q Consensus       114 ~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~  176 (186)
                           ..++..+|.++... |++++|+.+|++++.+.+..      ..++..++.++..+|++
T Consensus        80 -----~~~~~~~~~~~~~~-~~~~~A~~~~~~~~~~~p~~------~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           80 -----SKAYGRMGLALSSL-NKHVEAVAYYKKALELDPDN------ETYKSNLKIAELKLREA  130 (131)
T ss_dssp             -----HHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHSTTC------HHHHHHHHHHHHHHTTC
T ss_pred             -----HHHHHHHHHHHHHh-CCHHHHHHHHHHHHhcCccc------hHHHHHHHHHHHHHhcC
Confidence                 45789999999994 99999999999999986643      36788999999998875

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.29  E-value=1.9e-10  Score=86.39  Aligned_cols=140  Identities=11%  Similarity=0.050  Sum_probs=106.7

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHH
Q psy5288          41 DLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVA  119 (186)
Q Consensus        41 ~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a  119 (186)
                      +.+...|..+...|++++|+..|.++++...   +......++..+|.+|... ++++|+..|++++++++....   +.
T Consensus         5 ~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p---~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~---~~   78 (225)
T 2yhc_A            5 NEIYATAQQKLQDGNWRQAITQLEALDNRYP---FGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPN---ID   78 (225)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT---TSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTT---HH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC---CChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCc---HH
Confidence            3455667888899999999999999998732   1223456778899999877 999999999999988776543   34


Q ss_pred             HHHHHHHHHHHHh-----------------cCCHHHHHHHHHHHHHHHhccCChHHH-----------HHHHHHHHHHHH
Q psy5288         120 KHHENIAEIYEKE-----------------LEDQEKAIDHYQHAADCYAGEENKSSA-----------NKCLIKIANYSA  171 (186)
Q Consensus       120 ~~~~~lg~~y~~~-----------------lg~~~~Ai~~y~kA~~l~~~~~~~~~~-----------~~~~~~la~~y~  171 (186)
                      ..+..+|.++...                 .|++++|+..|++++..+++.......           ......+|.+|.
T Consensus        79 ~a~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~P~~~~a~~a~~~l~~~~~~~~~~~~~~a~~~~  158 (225)
T 2yhc_A           79 YVMYMRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGYPNSQYTTDATKRLVFLKDRLAKYEYSVAEYYT  158 (225)
T ss_dssp             HHHHHHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHCcCChhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4567777776541                 378999999999999999876432211           112257899999


Q ss_pred             hccCHHHHHHHHHhC
Q psy5288         172 LTDHLDKAIKLYEQL  186 (186)
Q Consensus       172 ~~g~~~~A~~~~~~~  186 (186)
                      ..|++++|+..|+++
T Consensus       159 ~~~~~~~A~~~~~~~  173 (225)
T 2yhc_A          159 ERGAWVAVVNRVEGM  173 (225)
T ss_dssp             HHTCHHHHHHHHHHH
T ss_pred             HcCcHHHHHHHHHHH
Confidence            999999999999863

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=99.28  E-value=1e-11  Score=87.92  Aligned_cols=104  Identities=13%  Similarity=0.097  Sum_probs=86.7

Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCCh
Q psy5288          37 DEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRF  115 (186)
Q Consensus        37 ~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~  115 (186)
                      .+-...+...|.++...|++++|+.+|.+++.+     +|.. ...+..+|.+|... ++++|+.+|++++.+....   
T Consensus        18 p~~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~-----~p~~-~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~---   88 (148)
T 2vgx_A           18 SDTLEQLYSLAFNQYQSGXYEDAHXVFQALCVL-----DHYD-SRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIXE---   88 (148)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----CTTC-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTC---
T ss_pred             HhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHc-----Cccc-HHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCC---
Confidence            445566777889999999999999999999987     4444 45566899999877 9999999999999886544   


Q ss_pred             hHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhcc
Q psy5288         116 IMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGE  153 (186)
Q Consensus       116 ~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~  153 (186)
                         ...+.++|.+|.. +|++++|+.+|++++.+.+..
T Consensus        89 ---~~~~~~lg~~~~~-~g~~~~A~~~~~~al~~~p~~  122 (148)
T 2vgx_A           89 ---PRFPFHAAECLLQ-XGELAEAESGLFLAQELIANX  122 (148)
T ss_dssp             ---THHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHTTC
T ss_pred             ---chHHHHHHHHHHH-cCCHHHHHHHHHHHHHHCcCC
Confidence               2478899999999 599999999999999998754

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=99.28  E-value=3.9e-11  Score=97.43  Aligned_cols=131  Identities=14%  Similarity=0.134  Sum_probs=108.8

Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcC----------ChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHH
Q psy5288          38 EAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNN----------NKHDAGLCFVDAANCYKKS-NPAEAIKAIERAV  106 (186)
Q Consensus        38 ~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~----------~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al  106 (186)
                      +.+..+...|..+...|++++|+.+|.+++++.....          .......+|.++|.+|... ++++|+.+|++|+
T Consensus       221 ~~a~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al  300 (370)
T 1ihg_A          221 LISEDLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEAL  300 (370)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHH
Confidence            3455677889999999999999999999999765431          2334567888999999887 9999999999999


Q ss_pred             HHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHH
Q psy5288         107 EIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIK  181 (186)
Q Consensus       107 ~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~  181 (186)
                      ++...      -+.++..+|.+|.. +|++++|+.+|++|+.+.+..      ..++..++.++..+++++++.+
T Consensus       301 ~~~p~------~~~a~~~lg~~~~~-~g~~~eA~~~l~~Al~l~P~~------~~~~~~l~~~~~~~~~~~~a~k  362 (370)
T 1ihg_A          301 EIDPS------NTKALYRRAQGWQG-LKEYDQALADLKKAQEIAPED------KAIQAELLKVKQKIKAQKDKEK  362 (370)
T ss_dssp             TTCTT------CHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhCch------hHHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhCCCC------HHHHHHHHHHHHHHHHHHHHHH
Confidence            86532      25689999999999 599999999999999997653      3677889999999999988865

>1elr_A TPR2A-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, protein binding, chaperone; 1.90A {Homo sapiens} SCOP: a.118.8.1 PDB: 3esk_A 3fwv_A

Probab=99.28  E-value=2.5e-10  Score=76.89  Aligned_cols=123  Identities=17%  Similarity=0.147  Sum_probs=99.7

Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHc-CCh
Q psy5288          38 EAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDM-GRF  115 (186)
Q Consensus        38 ~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~-~~~  115 (186)
                      +....+...|.++...|++++|+.+|.+++...     +.. ...+..+|.+|... ++++|+.++++++.+.... ++.
T Consensus         2 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-----~~~-~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~   75 (131)
T 1elr_A            2 KQALKEKELGNDAYKKKDFDTALKHYDKAKELD-----PTN-MTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDY   75 (131)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-----TTC-HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCH
T ss_pred             hHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-----Ccc-HHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhH
Confidence            346678888999999999999999999999873     332 45677899999876 9999999999999999875 555


Q ss_pred             hHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhcc
Q psy5288         116 IMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTD  174 (186)
Q Consensus       116 ~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g  174 (186)
                      .....++..+|.+|.. +|++++|+.+|++++.+.++       ......++.+...++
T Consensus        76 ~~~~~~~~~la~~~~~-~~~~~~A~~~~~~~~~~~~~-------~~~~~~l~~~~~~~~  126 (131)
T 1elr_A           76 RQIAKAYARIGNSYFK-EEKYKDAIHFYNKSLAEHRT-------PDVLKKCQQAEKILK  126 (131)
T ss_dssp             HHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHCCC-------HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHH-hccHHHHHHHHHHHHHhCCC-------HHHHHHHHHHHHHHH
Confidence            6668899999999999 49999999999999997542       245556666655443

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=99.28  E-value=2.1e-10  Score=81.72  Aligned_cols=108  Identities=15%  Similarity=0.179  Sum_probs=92.3

Q ss_pred             CHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcC
Q psy5288          35 KTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMG  113 (186)
Q Consensus        35 ~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~  113 (186)
                      +-..-++.+...|.++...|++++|+++|.+++++.     +.. ...+.++|.+|... ++++|+.+|++++++.... 
T Consensus         6 ~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-----p~~-~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~-   78 (164)
T 3sz7_A            6 APTPESDKLKSEGNAAMARKEYSKAIDLYTQALSIA-----PAN-PIYLSNRAAAYSASGQHEKAAEDAELATVVDPKY-   78 (164)
T ss_dssp             SCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-----TTC-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC-
T ss_pred             hhhhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-----CcC-HHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCC-
Confidence            345667788889999999999999999999999983     433 56778999999887 9999999999999986443 


Q ss_pred             ChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCC
Q psy5288         114 RFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEEN  155 (186)
Q Consensus       114 ~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~  155 (186)
                           ..++..+|.+|.. +|++++|+.+|++++.+.++...
T Consensus        79 -----~~~~~~lg~~~~~-~g~~~~A~~~~~~al~~~p~~~~  114 (164)
T 3sz7_A           79 -----SKAWSRLGLARFD-MADYKGAKEAYEKGIEAEGNGGS  114 (164)
T ss_dssp             -----HHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHSSSCC
T ss_pred             -----HHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhCCCchH
Confidence                 5689999999999 59999999999999999887653

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.28  E-value=1.2e-10  Score=95.72  Aligned_cols=146  Identities=15%  Similarity=0.063  Sum_probs=98.2

Q ss_pred             CCCHHHHHHHHHHH-----------------------HHHHHhcCCHHHHHHHHHHHHHHHHHcCChh--HHHHHHHHHH
Q psy5288          33 GNKTDEAIDLYVRA-----------------------GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKH--DAGLCFVDAA   87 (186)
Q Consensus        33 ~~~~~~A~~~y~~a-----------------------g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~--~aa~~~~~a~   87 (186)
                      .|++++|+++|.++                       |.+|..+|++++|..+|.+++++.+....+.  ..+..+.+.|
T Consensus        64 ~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~~~~~~~~~~~~~~g  143 (472)
T 4g1t_A           64 KGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSSPYRIESPELDCEEG  143 (472)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCSSCCCCHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcccccchhhHHHHHHHH
Confidence            46777777777665                       5578889999999999999999998865443  3356677777


Q ss_pred             HHHhcC---CHHHHHHHHHHHHHHHHHc-----------------CChhHH--------------HHHHHHHHHHH----
Q psy5288          88 NCYKKS---NPAEAIKAIERAVEIHTDM-----------------GRFIMV--------------AKHHENIAEIY----  129 (186)
Q Consensus        88 ~~y~~~---~~~~A~~~~~~Al~i~~~~-----------------~~~~~~--------------a~~~~~lg~~y----  129 (186)
                      .++...   ++++|+.+|++|+++.+..                 ++...+              ..++..+|..+    
T Consensus       144 ~~~~~~~~~~y~~A~~~~~kal~~~p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~p~~~~~~~~l~~~~~~~~  223 (472)
T 4g1t_A          144 WTRLKCGGNQNERAKVCFEKALEKKPKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLNPDNQYLKVLLALKLHKMR  223 (472)
T ss_dssp             HHHHHHCTTHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHCSSCHHHHHHHHHHHHHCC
T ss_pred             HHHHHHccccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcCCcchHHHHHHHHHHHHHH
Confidence            666543   6899999999998864321                 111111              11223333332    


Q ss_pred             HHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         130 EKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       130 ~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      .. .+++++|+.+|++++.+.+..      ..++.++|.+|...|++++|++.|++
T Consensus       224 ~~-~~~~~~a~~~~~~al~~~~~~------~~~~~~lg~~~~~~~~~~~A~~~~~~  272 (472)
T 4g1t_A          224 EE-GEEEGEGEKLVEEALEKAPGV------TDVLRSAAKFYRRKDEPDKAIELLKK  272 (472)
T ss_dssp             -------CHHHHHHHHHHHHCSSC------HHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             hh-hhHHHHHHHHHHHHHHhCccH------HHHHHHHHHHHHHcCchHHHHHHHHH
Confidence            22 256677777777777765432      35788999999999999999999876

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=99.28  E-value=8.3e-11  Score=79.73  Aligned_cols=122  Identities=19%  Similarity=0.169  Sum_probs=100.6

Q ss_pred             CHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcC
Q psy5288          35 KTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMG  113 (186)
Q Consensus        35 ~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~  113 (186)
                      ........+...|.++...|++++|+.+|.+++++     ++.. ...+..+|.+|... ++++|+.++++++++...  
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~-----~~~~-~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~--   82 (133)
T 2lni_A           11 MNPDLALMVKNKGNECFQKGDYPQAMKHYTEAIKR-----NPKD-AKLYSNRAACYTKLLEFQLALKDCEECIQLEPT--   82 (133)
T ss_dssp             SSSCHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTT-----CTTC-HHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTT--
T ss_pred             cCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc-----CCCc-HHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCC--
Confidence            44556777788899999999999999999999986     2332 56678999999877 999999999999987543  


Q ss_pred             ChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccC
Q psy5288         114 RFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDH  175 (186)
Q Consensus       114 ~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~  175 (186)
                          -..++..+|.++... |++++|+.+|++++.+.+..      ..++..++.++...|+
T Consensus        83 ----~~~~~~~la~~~~~~-~~~~~A~~~~~~~~~~~p~~------~~~~~~l~~~~~~~~~  133 (133)
T 2lni_A           83 ----FIKGYTRKAAALEAM-KDYTKAMDVYQKALDLDSSC------KEAADGYQRCMMAQYN  133 (133)
T ss_dssp             ----CHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCGGG------THHHHHHHHHHHHHTC
T ss_pred             ----chHHHHHHHHHHHHH-hhHHHHHHHHHHHHHhCCCc------hHHHHHHHHHHHHhcC
Confidence                245889999999994 99999999999999987654      2577889999988764

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=99.27  E-value=7.2e-11  Score=84.01  Aligned_cols=102  Identities=16%  Similarity=0.031  Sum_probs=86.1

Q ss_pred             hHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCC------------hhHHHHHHHHHHHHHHHhcCCHHHHHHHH
Q psy5288          77 HDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGR------------FIMVAKHHENIAEIYEKELEDQEKAIDHY  143 (186)
Q Consensus        77 ~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~------------~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y  143 (186)
                      ...+..+.+.|..+... ++++|+.+|.+|+.+......            .+..+.++.++|.+|.. +|++++|+.++
T Consensus         8 ~~~a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~-~~~~~~A~~~~   86 (162)
T 3rkv_A            8 LKSVEALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLN-IGDLHEAEETS   86 (162)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHH-HTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHh-cCcHHHHHHHH
Confidence            34577788888888776 999999999999999654321            34456799999999999 59999999999


Q ss_pred             HHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         144 QHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       144 ~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ++|+.+.+..      ..++.++|.+|..+|++++|+..|++
T Consensus        87 ~~al~~~p~~------~~a~~~~g~~~~~~g~~~~A~~~~~~  122 (162)
T 3rkv_A           87 SEVLKREETN------EKALFRRAKARIAAWKLDEAEEDLKL  122 (162)
T ss_dssp             HHHHHHSTTC------HHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHhcCCcc------hHHHHHHHHHHHHHhcHHHHHHHHHH
Confidence            9999996543      37899999999999999999999976

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.27  E-value=2.7e-11  Score=92.17  Aligned_cols=134  Identities=13%  Similarity=-0.005  Sum_probs=106.0

Q ss_pred             CCCCHHHHHHHHHHH------------------HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC
Q psy5288          32 GGNKTDEAIDLYVRA------------------GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS   93 (186)
Q Consensus        32 ~~~~~~~A~~~y~~a------------------g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~   93 (186)
                      ..+++++|+..|.++                  |.++...|++++|+.+|.+++++     +|.. ...+..+|.+|...
T Consensus        17 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~-----~~~~-~~~~~~la~~~~~~   90 (275)
T 1xnf_A           17 PTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAI-----RPDM-PEVFNYLGIYLTQA   90 (275)
T ss_dssp             CCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----CCCC-HHHHHHHHHHHHHT
T ss_pred             ccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHc-----CCCc-HHHHHHHHHHHHHc
Confidence            457888888888766                  56788999999999999999997     3332 45677899999877


Q ss_pred             -CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHh
Q psy5288          94 -NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSAL  172 (186)
Q Consensus        94 -~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~  172 (186)
                       ++++|+.+|++++++....      ..++..+|.+|... |++++|+.+|++++.+.+...      .... ...++..
T Consensus        91 ~~~~~A~~~~~~al~~~~~~------~~~~~~la~~~~~~-g~~~~A~~~~~~a~~~~~~~~------~~~~-~~~~~~~  156 (275)
T 1xnf_A           91 GNFDAAYEAFDSVLELDPTY------NYAHLNRGIALYYG-GRDKLAQDDLLAFYQDDPNDP------FRSL-WLYLAEQ  156 (275)
T ss_dssp             TCHHHHHHHHHHHHHHCTTC------THHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTTCH------HHHH-HHHHHHH
T ss_pred             cCHHHHHHHHHHHHhcCccc------cHHHHHHHHHHHHh-ccHHHHHHHHHHHHHhCCCCh------HHHH-HHHHHHH
Confidence             9999999999999885443      35889999999994 999999999999999866532      1222 2234466


Q ss_pred             ccCHHHHHHHHHh
Q psy5288         173 TDHLDKAIKLYEQ  185 (186)
Q Consensus       173 ~g~~~~A~~~~~~  185 (186)
                      .|++++|+.+|++
T Consensus       157 ~~~~~~A~~~~~~  169 (275)
T 1xnf_A          157 KLDEKQAKEVLKQ  169 (275)
T ss_dssp             HHCHHHHHHHHHH
T ss_pred             hcCHHHHHHHHHH
Confidence            7999999999864

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.27  E-value=3.5e-10  Score=93.24  Aligned_cols=162  Identities=15%  Similarity=0.030  Sum_probs=123.8

Q ss_pred             HHhHHHHHHHHHHhhccCCCCccccccCCCCHHHHHHHHHHH-------------HHHHHhcCCHHHHHHHHHHHHHHHH
Q psy5288           5 EQKARQLVAEAEKKISSSSKGFFSQFTGGNKTDEAIDLYVRA-------------GNLFKLGKKWNDGGNAFLQAGTLHL   71 (186)
Q Consensus         5 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~A~~~y~~a-------------g~~~~~~g~~~~A~~~y~~a~~~~~   71 (186)
                      ...++.+...|...+.            .|+|++|+.+|.++             |.++...|++++|+.+|.+++++  
T Consensus         3 ~~~a~~~~~~g~~~~~------------~g~~~~A~~~~~~al~~~p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--   68 (514)
T 2gw1_A            3 DKYALALKDKGNQFFR------------NKKYDDAIKYYNWALELKEDPVFYSNLSACYVSVGDLKKVVEMSTKALEL--   68 (514)
T ss_dssp             HHHHHHHHHHHHHHHH------------TSCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--
T ss_pred             chhHHHHHHHHHHHHH------------hccHHHHHHHHHHHHhcCccHHHHHhHHHHHHHHhhHHHHHHHHHHHhcc--
Confidence            4667788888888877            35899999998887             56788999999999999999987  


Q ss_pred             HcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCCh-----------------------------------
Q psy5288          72 KNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRF-----------------------------------  115 (186)
Q Consensus        72 ~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~-----------------------------------  115 (186)
                         +|.. ..++..+|.+|... ++++|+.+|++++.+.......                                   
T Consensus        69 ---~p~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~  144 (514)
T 2gw1_A           69 ---KPDY-SKVLLRRASANEGLGKFADAMFDLSVLSLNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELS  144 (514)
T ss_dssp             ---CSCC-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHSSSCCGGGTHHHHHHHHHHHHHHHHTTC---------------
T ss_pred             ---ChHH-HHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcc
Confidence               3443 35677899999877 9999999999987654211000                                   


Q ss_pred             --------------------------------------hHHHHHHHHHHHHHHH---hcCCHHHHHHHHHHHHHHHh---
Q psy5288         116 --------------------------------------IMVAKHHENIAEIYEK---ELEDQEKAIDHYQHAADCYA---  151 (186)
Q Consensus       116 --------------------------------------~~~a~~~~~lg~~y~~---~lg~~~~Ai~~y~kA~~l~~---  151 (186)
                                                            +.-+..+..+|.++..   . |++++|+.+|++++..++   
T Consensus       145 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~A~~~~~~~~~~~~~~~  223 (514)
T 2gw1_A          145 TQPAKERKDKQENLPSVTSMASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSP-ESYDKADESFTKAARLFEEQL  223 (514)
T ss_dssp             ------------CCCCHHHHHHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCT-THHHHHHHHHHHHHHHHHHHT
T ss_pred             CChhhHHHhhccCCchhHHHHHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhh-ccHHHHHHHHHHHHHHhhhhh
Confidence                                                  0115566777777664   4 999999999999999532   


Q ss_pred             --ccCC---hHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         152 --GEEN---KSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       152 --~~~~---~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                        ..+.   ......++..+|.++...|++++|+.+|++
T Consensus       224 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~  262 (514)
T 2gw1_A          224 DKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGAHEDIKK  262 (514)
T ss_dssp             TTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHH
T ss_pred             ccCccccccChHHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence              1111   134457889999999999999999999976

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=99.26  E-value=1.1e-10  Score=83.30  Aligned_cols=98  Identities=16%  Similarity=0.071  Sum_probs=84.8

Q ss_pred             ChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhcc
Q psy5288          75 NKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGE  153 (186)
Q Consensus        75 ~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~  153 (186)
                      .....+..+...|.++... ++++|+.+|++++++....      +.++.++|.+|.. +|++++|+.+|++++.+.+..
T Consensus         6 ~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~------~~~~~~l~~~~~~-~g~~~~A~~~~~~al~~~p~~   78 (164)
T 3sz7_A            6 APTPESDKLKSEGNAAMARKEYSKAIDLYTQALSIAPAN------PIYLSNRAAAYSA-SGQHEKAAEDAELATVVDPKY   78 (164)
T ss_dssp             SCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTC------HHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHCTTC
T ss_pred             hhhhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCcC------HHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhCCCC
Confidence            3445667788899998876 9999999999999886543      5689999999999 599999999999999997653


Q ss_pred             CChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         154 ENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       154 ~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                            ..++.++|.+|..+|++++|+++|++
T Consensus        79 ------~~~~~~lg~~~~~~g~~~~A~~~~~~  104 (164)
T 3sz7_A           79 ------SKAWSRLGLARFDMADYKGAKEAYEK  104 (164)
T ss_dssp             ------HHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             ------HHHHHHHHHHHHHccCHHHHHHHHHH
Confidence                  47889999999999999999999976

>3upv_A Heat shock protein STI1; TPR-fold, adaptor protein for HSP70 and HSP90, C-terminal PA HSP70, peptide binding protein; 1.60A {Saccharomyces cerevisiae}

Probab=99.25  E-value=1.2e-10  Score=79.21  Aligned_cols=93  Identities=16%  Similarity=0.084  Sum_probs=80.7

Q ss_pred             HHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHH
Q psy5288          80 GLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSS  158 (186)
Q Consensus        80 a~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~  158 (186)
                      +..+.+.|.++... ++++|+.+|++++++....      +.++.++|.+|.. +|++++|+.+|++++.+.+..     
T Consensus         4 a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~------~~~~~~~a~~~~~-~~~~~~A~~~~~~al~~~p~~-----   71 (126)
T 3upv_A            4 AEEARLEGKEYFTKSDWPNAVKAYTEMIKRAPED------ARGYSNRAAALAK-LMSFPEAIADCNKAIEKDPNF-----   71 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHCTTC-----
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCC------hHHHHHHHHHHHH-hcCHHHHHHHHHHHHHhCCCc-----
Confidence            55677888888766 9999999999999886443      4689999999999 599999999999999996653     


Q ss_pred             HHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         159 ANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       159 ~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                       ..++.++|.+|..+|++++|++.|++
T Consensus        72 -~~~~~~lg~~~~~~~~~~~A~~~~~~   97 (126)
T 3upv_A           72 -VRAYIRKATAQIAVKEYASALETLDA   97 (126)
T ss_dssp             -HHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             -HHHHHHHHHHHHHHhCHHHHHHHHHH
Confidence             36889999999999999999999976

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=99.22  E-value=7.5e-10  Score=91.73  Aligned_cols=115  Identities=10%  Similarity=-0.063  Sum_probs=96.1

Q ss_pred             HhcCCHHHHHHHHHHHHHHHHH-cCC-hhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHc--CChhHHHHHHHHH
Q psy5288          51 KLGKKWNDGGNAFLQAGTLHLK-NNN-KHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDM--GRFIMVAKHHENI  125 (186)
Q Consensus        51 ~~~g~~~~A~~~y~~a~~~~~~-~~~-~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~--~~~~~~a~~~~~l  125 (186)
                      ...|+|++|...|++++.+..+ +|. ....+..+.++|.+|... ++++|+.+++++++++...  .+++..+..+.+|
T Consensus       309 ~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nL  388 (433)
T 3qww_A          309 KHYKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKL  388 (433)
T ss_dssp             TTTSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHH
Confidence            4568999999999999999886 453 346788999999999987 9999999999999999765  4789999999999


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHHHhcc--CChHHHHHHHHHH
Q psy5288         126 AEIYEKELEDQEKAIDHYQHAADCYAGE--ENKSSANKCLIKI  166 (186)
Q Consensus       126 g~~y~~~lg~~~~Ai~~y~kA~~l~~~~--~~~~~~~~~~~~l  166 (186)
                      |.+|..+ |++++|+.+|++|+++....  .+++.......+|
T Consensus       389 a~~~~~q-g~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~l~~~l  430 (433)
T 3qww_A          389 GRLYMGL-ENKAAGEKALKKAIAIMEVAHGKDHPYISEIKQEI  430 (433)
T ss_dssp             HHHHHHT-TCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHH
T ss_pred             HHHHHhc-cCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHH
Confidence            9999996 99999999999999998863  2333333454444

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.21  E-value=8.1e-11  Score=91.95  Aligned_cols=135  Identities=10%  Similarity=0.040  Sum_probs=86.2

Q ss_pred             CCHHHHHHHHHHH--------------HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHH
Q psy5288          34 NKTDEAIDLYVRA--------------GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEA   98 (186)
Q Consensus        34 ~~~~~A~~~y~~a--------------g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A   98 (186)
                      |++++|+..|.++              |.++...|++++|+..+.++...     +|... .....++..+... +.++|
T Consensus       131 g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~-----~p~~~-~~~~~~~~~l~~~~~~~~a  204 (287)
T 3qou_A          131 SNYTDALPLLXDAWQLSNQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ-----DQDTR-YQGLVAQIELLXQAADTPE  204 (287)
T ss_dssp             TCHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG-----GCSHH-HHHHHHHHHHHHHHTSCHH
T ss_pred             CCHHHHHHHHHHHHHhCCcchhHHHHHHHHHHHCCCHHHHHHHHHhCchh-----hcchH-HHHHHHHHHHHhhcccCcc
Confidence            3555555555554              34455555555555555555443     12111 1222223222222 44556


Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHH
Q psy5288          99 IKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDK  178 (186)
Q Consensus        99 ~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~  178 (186)
                      +..+++++.+....      ...+.++|.+|... |++++|+..|++++...+....    ...+.+++.++..+|+.++
T Consensus       205 ~~~l~~al~~~P~~------~~~~~~la~~l~~~-g~~~~A~~~l~~~l~~~p~~~~----~~a~~~l~~~~~~~g~~~~  273 (287)
T 3qou_A          205 IQQLQQQVAENPED------AALATQLALQLHQV-GRNEEALELLFGHLRXDLTAAD----GQTRXTFQEILAALGTGDA  273 (287)
T ss_dssp             HHHHHHHHHHCTTC------HHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTTGGG----GHHHHHHHHHHHHHCTTCH
T ss_pred             HHHHHHHHhcCCcc------HHHHHHHHHHHHHc-ccHHHHHHHHHHHHhccccccc----chHHHHHHHHHHHcCCCCc
Confidence            66666665554332      34788999999995 9999999999999998765421    3678999999999999999


Q ss_pred             HHHHHHh
Q psy5288         179 AIKLYEQ  185 (186)
Q Consensus       179 A~~~~~~  185 (186)
                      |+..|.+
T Consensus       274 a~~~~r~  280 (287)
T 3qou_A          274 LASXYRR  280 (287)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9998875

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=99.21  E-value=4.7e-10  Score=92.88  Aligned_cols=136  Identities=11%  Similarity=-0.016  Sum_probs=110.6

Q ss_pred             HHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH-cCC-hhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHc
Q psy5288          36 TDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLK-NNN-KHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDM  112 (186)
Q Consensus        36 ~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~-~~~-~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~  112 (186)
                      |..+.+....+ .-+..+|++++|...|++++++..+ +|. ....+..+.+++.+|... ++++|+.++++++.++...
T Consensus       284 ~~~~~~ll~~i-e~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~  362 (429)
T 3qwp_A          284 WKEVQESLKKI-EELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIF  362 (429)
T ss_dssp             HHHHHHHHHHH-HHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHH-HHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHH
Confidence            44444444443 4466789999999999999998765 443 335788899999999876 9999999999999999765


Q ss_pred             --CChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhcc--CChHHHHHHHHHHHHHHHhc
Q psy5288         113 --GRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGE--ENKSSANKCLIKIANYSALT  173 (186)
Q Consensus       113 --~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~--~~~~~~~~~~~~la~~y~~~  173 (186)
                        .+++..+..+.+||.+|..+ |++++|+.+|++|++++...  .+++....++.+|+.+...+
T Consensus       363 lg~~Hp~~a~~l~nLa~~~~~~-g~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~  426 (429)
T 3qwp_A          363 FPGSHPVRGVQVMKVGKLQLHQ-GMFPQAMKNLRLAFDIMRVTHGREHSLIEDLILLLEECDANI  426 (429)
T ss_dssp             SCSSCHHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHH
T ss_pred             cCCCChHHHHHHHHHHHHHHhc-CCHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHH
Confidence              57899999999999999996 99999999999999998873  34455567888998887654

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.20  E-value=4.1e-10  Score=88.22  Aligned_cols=136  Identities=10%  Similarity=-0.003  Sum_probs=101.2

Q ss_pred             CCCCHHHHHHHHHH---------HHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHH-HHHHHHhcC-CHHHHHH
Q psy5288          32 GGNKTDEAIDLYVR---------AGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFV-DAANCYKKS-NPAEAIK  100 (186)
Q Consensus        32 ~~~~~~~A~~~y~~---------ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~-~a~~~y~~~-~~~~A~~  100 (186)
                      ..|++++|+++|.+         .|.++..+|++++|...|.++.++     +|......+. -...++... ++++|+.
T Consensus       113 ~~g~~~~Al~~l~~~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~-----~p~~~~~~l~~a~~~l~~~~~~~~eA~~  187 (291)
T 3mkr_A          113 YDQNPDAALRTLHQGDSLECMAMTVQILLKLDRLDLARKELKKMQDQ-----DEDATLTQLATAWVSLAAGGEKLQDAYY  187 (291)
T ss_dssp             HTTCHHHHHHHHTTCCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----CTTCHHHHHHHHHHHHHHCTTHHHHHHH
T ss_pred             HCCCHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh-----CcCcHHHHHHHHHHHHHhCchHHHHHHH
Confidence            45788888776544         577888899999999999888887     3433211111 112333333 7899999


Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHH-
Q psy5288         101 AIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKA-  179 (186)
Q Consensus       101 ~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A-  179 (186)
                      +|+++++....      -+.++..+|.++.. +|++++|+..|++++.+.+..      ..++.++|.++...|+++++ 
T Consensus       188 ~~~~~l~~~p~------~~~~~~~la~~~~~-~g~~~eA~~~l~~al~~~p~~------~~~l~~l~~~~~~~g~~~eaa  254 (291)
T 3mkr_A          188 IFQEMADKCSP------TLLLLNGQAACHMA-QGRWEAAEGVLQEALDKDSGH------PETLINLVVLSQHLGKPPEVT  254 (291)
T ss_dssp             HHHHHHHHSCC------CHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHHTTCCHHHH
T ss_pred             HHHHHHHhCCC------cHHHHHHHHHHHHH-cCCHHHHHHHHHHHHHhCCCC------HHHHHHHHHHHHHcCCCHHHH
Confidence            99999887432      25588999999999 499999999999999987654      36889999999999999874 


Q ss_pred             HHHHHh
Q psy5288         180 IKLYEQ  185 (186)
Q Consensus       180 ~~~~~~  185 (186)
                      .+++++
T Consensus       255 ~~~~~~  260 (291)
T 3mkr_A          255 NRYLSQ  260 (291)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            567765

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=99.20  E-value=1.2e-09  Score=81.43  Aligned_cols=124  Identities=16%  Similarity=0.103  Sum_probs=101.5

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC----CHHHHHHHHHHHHHHHHHcCChh
Q psy5288          41 DLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS----NPAEAIKAIERAVEIHTDMGRFI  116 (186)
Q Consensus        41 ~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~----~~~~A~~~~~~Al~i~~~~~~~~  116 (186)
                      +.+..+|.+|...+++++|+.+|.++++.    |+    ..++.++|.+|...    ++++|+.+|++|++    .|+  
T Consensus        19 ~a~~~lg~~~~~~~~~~~A~~~~~~a~~~----g~----~~a~~~lg~~y~~~g~~~~~~~A~~~~~~A~~----~g~--   84 (212)
T 3rjv_A           19 RAQYYLADTWVSSGDYQKAEYWAQKAAAQ----GD----GDALALLAQLKIRNPQQADYPQARQLAEKAVE----AGS--   84 (212)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHT----TC----HHHHHHHHHHTTSSTTSCCHHHHHHHHHHHHH----TTC--
T ss_pred             HHHHHHHHHHhcCCCHHHHHHHHHHHHHc----CC----HHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHH----CCC--
Confidence            34666788999999999999999999873    33    35677999999876    89999999999954    344  


Q ss_pred             HHHHHHHHHHHHHHH----hcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHh----ccCHHHHHHHHHh
Q psy5288         117 MVAKHHENIAEIYEK----ELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSAL----TDHLDKAIKLYEQ  185 (186)
Q Consensus       117 ~~a~~~~~lg~~y~~----~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~----~g~~~~A~~~~~~  185 (186)
                        +..+.++|.+|..    . +++++|+.+|++|++.-+.    ......+.+||.+|..    .+++++|+++|++
T Consensus        85 --~~a~~~Lg~~y~~g~g~~-~d~~~A~~~~~~A~~~~~~----~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~  154 (212)
T 3rjv_A           85 --KSGEIVLARVLVNRQAGA-TDVAHAITLLQDAARDSES----DAAVDAQMLLGLIYASGVHGPEDDVKASEYFKG  154 (212)
T ss_dssp             --HHHHHHHHHHHTCGGGSS-CCHHHHHHHHHHHTSSTTS----HHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHH
T ss_pred             --HHHHHHHHHHHHcCCCCc-cCHHHHHHHHHHHHHcCCC----cchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHH
Confidence              4578999999986    5 8999999999999986321    1224688999999999    8899999999986

>1elr_A TPR2A-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, protein binding, chaperone; 1.90A {Homo sapiens} SCOP: a.118.8.1 PDB: 3esk_A 3fwv_A

Probab=99.20  E-value=6e-10  Score=74.95  Aligned_cols=100  Identities=20%  Similarity=0.203  Sum_probs=84.2

Q ss_pred             HHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhcc-CCh
Q psy5288          79 AGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGE-ENK  156 (186)
Q Consensus        79 aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~-~~~  156 (186)
                      .+..+..+|.++... ++++|+.+|++++.+....      ..++..+|.+|... |++++|+.+|++++.+.+.. ...
T Consensus         3 ~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~------~~~~~~la~~~~~~-~~~~~A~~~~~~~~~~~~~~~~~~   75 (131)
T 1elr_A            3 QALKEKELGNDAYKKKDFDTALKHYDKAKELDPTN------MTYITNQAAVYFEK-GDYNKCRELCEKAIEVGRENREDY   75 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHHH-TCHHHHHHHHHHHHHHHHHSTTCH
T ss_pred             HHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCcc------HHHHHHHHHHHHHh-ccHHHHHHHHHHHHhhccccchhH
Confidence            356677888888776 9999999999999875332      46889999999995 99999999999999998864 344


Q ss_pred             HHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         157 SSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       157 ~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      .....++.++|.+|...|++++|+++|++
T Consensus        76 ~~~~~~~~~la~~~~~~~~~~~A~~~~~~  104 (131)
T 1elr_A           76 RQIAKAYARIGNSYFKEEKYKDAIHFYNK  104 (131)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhccHHHHHHHHHH
Confidence            44467899999999999999999999976

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.19  E-value=3.5e-10  Score=81.59  Aligned_cols=92  Identities=16%  Similarity=0.178  Sum_probs=67.9

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHH
Q psy5288          48 NLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIA  126 (186)
Q Consensus        48 ~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg  126 (186)
                      .++...++++.|.+.+.++..+     +|.. ...+..+|.+|... ++++|+++|++++++.+..      +.++.++|
T Consensus        81 ~~~~~~~~~~~a~~~~~~a~~~-----~~~~-~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~------~~~~~~lg  148 (184)
T 3vtx_A           81 SANFMIDEKQAAIDALQRAIAL-----NTVY-ADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGF------IRAYQSIG  148 (184)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH-----CTTC-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC------HHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHh-----Cccc-hHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchh------hhHHHHHH
Confidence            3444555555555555555554     2222 24455778888877 9999999999999885433      45899999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHHHhc
Q psy5288         127 EIYEKELEDQEKAIDHYQHAADCYAG  152 (186)
Q Consensus       127 ~~y~~~lg~~~~Ai~~y~kA~~l~~~  152 (186)
                      .+|..+ |++++|+.+|++|+++.++
T Consensus       149 ~~~~~~-g~~~~A~~~~~~al~~~p~  173 (184)
T 3vtx_A          149 LAYEGK-GLRDEAVKYFKKALEKEEK  173 (184)
T ss_dssp             HHHHHT-TCHHHHHHHHHHHHHTTHH
T ss_pred             HHHHHC-CCHHHHHHHHHHHHhCCcc
Confidence            999995 9999999999999998664

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=99.19  E-value=2.1e-10  Score=80.04  Aligned_cols=107  Identities=16%  Similarity=0.199  Sum_probs=89.3

Q ss_pred             CCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHc
Q psy5288          34 NKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDM  112 (186)
Q Consensus        34 ~~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~  112 (186)
                      ..-....+.+...|..+...|++++|+.+|.+++.+     +|.. ...+..+|.+|... ++++|+.+|++++.+....
T Consensus        12 ~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~-----~p~~-~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~   85 (142)
T 2xcb_A           12 GLSEDTLEQLYALGFNQYQAGKWDDAQKIFQALCML-----DHYD-ARYFLGLGACRQSLGLYEQALQSYSYGALMDINE   85 (142)
T ss_dssp             TCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----CTTC-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC
T ss_pred             cCCHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHh-----CCcc-HHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCC
Confidence            444567788899999999999999999999999987     4444 45566899999877 9999999999999886544


Q ss_pred             CChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhcc
Q psy5288         113 GRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGE  153 (186)
Q Consensus       113 ~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~  153 (186)
                            ...+..+|.+|.. +|++++|+.+|++++.+.+..
T Consensus        86 ------~~~~~~lg~~~~~-~g~~~~A~~~~~~al~~~p~~  119 (142)
T 2xcb_A           86 ------PRFPFHAAECHLQ-LGDLDGAESGFYSARALAAAQ  119 (142)
T ss_dssp             ------THHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHTC
T ss_pred             ------cHHHHHHHHHHHH-cCCHHHHHHHHHHHHHhCCCC
Confidence                  2368899999999 599999999999999998854

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=99.18  E-value=1.2e-10  Score=83.83  Aligned_cols=110  Identities=14%  Similarity=0.191  Sum_probs=60.8

Q ss_pred             cCCCCHHHHHHHHHHH--------------HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHH-HhcC-C
Q psy5288          31 TGGNKTDEAIDLYVRA--------------GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANC-YKKS-N   94 (186)
Q Consensus        31 ~~~~~~~~A~~~y~~a--------------g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~-y~~~-~   94 (186)
                      +..+++++|++.|.++              |.+|...|++++|+.+|.+++.+.     |.. ...+..+|.+ |... +
T Consensus        21 ~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-----p~~-~~~~~~la~~l~~~~~~   94 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRANPQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-----GEN-AELYAALATVLYYQASQ   94 (177)
T ss_dssp             C-----CCCCHHHHHHHHHCCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-----CSC-HHHHHHHHHHHHHHTTT
T ss_pred             hhccCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-----CCC-HHHHHHHHHHHHHhcCC
Confidence            3446666666666555              455666666666666666666653     111 3345566666 5433 5


Q ss_pred             H--HHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhcc
Q psy5288          95 P--AEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGE  153 (186)
Q Consensus        95 ~--~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~  153 (186)
                      +  ++|+.++++++.+....      ..++..+|.+|... |++++|+.+|++++.+.+..
T Consensus        95 ~~~~~A~~~~~~al~~~p~~------~~~~~~la~~~~~~-g~~~~A~~~~~~al~~~p~~  148 (177)
T 2e2e_A           95 HMTAQTRAMIDKALALDSNE------ITALMLLASDAFMQ-ANYAQAIELWQKVMDLNSPR  148 (177)
T ss_dssp             CCCHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHHT-TCHHHHHHHHHHHHHTCCTT
T ss_pred             cchHHHHHHHHHHHHhCCCc------HHHHHHHHHHHHHc-ccHHHHHHHHHHHHhhCCCC
Confidence            4  66666666666553221      23566666666663 66666666666666665543

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.18  E-value=6e-10  Score=87.45  Aligned_cols=83  Identities=7%  Similarity=0.086  Sum_probs=48.2

Q ss_pred             CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhc
Q psy5288          94 NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALT  173 (186)
Q Consensus        94 ~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~  173 (186)
                      ++++|+.+|++++++....      ..++..+|.++... |++++|+..|++|+....-  .+......|..++.++...
T Consensus       184 ~~~~A~~~~~~al~~~p~~------~~~~~~~~~~~~~~-g~~~~A~~~~~~al~~~~l--~p~~~~~l~~~~~~~~~~~  254 (308)
T 2ond_A          184 DKSVAFKIFELGLKKYGDI------PEYVLAYIDYLSHL-NEDNNTRVLFERVLTSGSL--PPEKSGEIWARFLAFESNI  254 (308)
T ss_dssp             CHHHHHHHHHHHHHHHTTC------HHHHHHHHHHHHTT-CCHHHHHHHHHHHHHSSSS--CGGGCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCCc------HHHHHHHHHHHHHC-CCHHHHHHHHHHHHhccCC--CHHHHHHHHHHHHHHHHHc
Confidence            5566666666666554322      34566666666663 7777777777777664210  0111135666667777777


Q ss_pred             cCHHHHHHHHHh
Q psy5288         174 DHLDKAIKLYEQ  185 (186)
Q Consensus       174 g~~~~A~~~~~~  185 (186)
                      |++++|..++++
T Consensus       255 g~~~~a~~~~~~  266 (308)
T 2ond_A          255 GDLASILKVEKR  266 (308)
T ss_dssp             SCHHHHHHHHHH
T ss_pred             CCHHHHHHHHHH
Confidence            777777766654

>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C, TPR-containing domain, structural genomics; 1.63A {Plasmodium falciparum} SCOP: a.118.8.1

Probab=99.18  E-value=5.7e-11  Score=87.29  Aligned_cols=122  Identities=18%  Similarity=0.118  Sum_probs=89.8

Q ss_pred             HhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhH----------HH
Q psy5288          51 KLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIM----------VA  119 (186)
Q Consensus        51 ~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~----------~a  119 (186)
                      ...|+++++.+.+......      ....+..+...|.++... ++++|+.+|++++++.....+...          ..
T Consensus        15 ~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~   88 (198)
T 2fbn_A           15 ENLYFQGAKKSIYDYTDEE------KVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEI   88 (198)
T ss_dssp             -------CCCSGGGCCHHH------HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHH
T ss_pred             hhhhhccccCchhhCCHHH------HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHH
Confidence            3345555555544433321      234466777888888766 999999999999998766543222          25


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         120 KHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       120 ~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      .++.++|.+|.. +|++++|+.++++++.+.+..      ..++.++|.+|..+|++++|+++|++
T Consensus        89 ~~~~~la~~~~~-~~~~~~A~~~~~~al~~~p~~------~~~~~~lg~~~~~~~~~~~A~~~~~~  147 (198)
T 2fbn_A           89 SCNLNLATCYNK-NKDYPKAIDHASKVLKIDKNN------VKALYKLGVANMYFGFLEEAKENLYK  147 (198)
T ss_dssp             HHHHHHHHHHHH-TTCHHHHHHHHHHHHHHSTTC------HHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH-hcCHHHHHHHHHHHHHhCccc------HHHHHHHHHHHHHcccHHHHHHHHHH
Confidence            789999999999 499999999999999986543      36889999999999999999999976

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=99.18  E-value=2e-09  Score=74.98  Aligned_cols=58  Identities=10%  Similarity=0.068  Sum_probs=29.3

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHH
Q psy5288          47 GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHT  110 (186)
Q Consensus        47 g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~  110 (186)
                      |.++...|++++|+.+|.+++.+     +|... ..+..+|.+|... ++++|+.+|++++++..
T Consensus        59 g~~~~~~g~~~~A~~~~~~al~~-----~p~~~-~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p  117 (142)
T 2xcb_A           59 GACRQSLGLYEQALQSYSYGALM-----DINEP-RFPFHAAECHLQLGDLDGAESGFYSARALAA  117 (142)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH-----CTTCT-HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHHhc-----CCCCc-HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            34455555555555555555554     22221 2333555555544 55555555555555554

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A

Probab=99.18  E-value=2.6e-11  Score=96.99  Aligned_cols=120  Identities=14%  Similarity=0.115  Sum_probs=97.6

Q ss_pred             cCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCC---------hhHHHHHH
Q psy5288          53 GKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGR---------FIMVAKHH  122 (186)
Q Consensus        53 ~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~---------~~~~a~~~  122 (186)
                      ++++++|+++|.++.+.      ....+..+.++|.+|... ++++|+.+|++|+.+......         ....+.++
T Consensus       126 L~~~~~A~~~~~~a~~~------~p~~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~  199 (336)
T 1p5q_A          126 LKSFEKAKESWEMNSEE------KLEQSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASH  199 (336)
T ss_dssp             EEEEECCCCGGGCCHHH------HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHH
T ss_pred             EeecccccchhcCCHHH------HHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHH
Confidence            45566777777766665      234466777889888776 999999999999999876642         12336799


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         123 ENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       123 ~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      .++|.+|.. +|++++|+.+|++|+.+.+..      ..++.++|.+|..+|++++|+..|++
T Consensus       200 ~nla~~~~~-~g~~~~A~~~~~~al~~~p~~------~~a~~~lg~~~~~~g~~~~A~~~~~~  255 (336)
T 1p5q_A          200 LNLAMCHLK-LQAFSAAIESCNKALELDSNN------EKGLSRRGEAHLAVNDFELARADFQK  255 (336)
T ss_dssp             HHHHHHHHH-TTCHHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHH-cCCHHHHHHHHHHHHHhCCCc------HHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            999999999 499999999999999997653      37889999999999999999999986

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=99.17  E-value=1.7e-09  Score=76.28  Aligned_cols=57  Identities=14%  Similarity=0.110  Sum_probs=26.4

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHH
Q psy5288          48 NLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHT  110 (186)
Q Consensus        48 ~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~  110 (186)
                      .++...|++++|+.+|.+++.+     +|... ..+.++|.+|... ++++|+.+|++++++..
T Consensus        63 ~~~~~~g~~~~A~~~~~~al~l-----~p~~~-~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p  120 (148)
T 2vgx_A           63 ACRQAMGQYDLAIHSYSYGAVM-----DIXEP-RFPFHAAECLLQXGELAEAESGLFLAQELIA  120 (148)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH-----STTCT-HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHhhHHHHHHHHHHHHhc-----CCCCc-hHHHHHHHHHHHcCCHHHHHHHHHHHHHHCc
Confidence            3444555555555555555544     22221 2233445555444 55555555555544443

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*

Probab=99.16  E-value=5.4e-10  Score=76.58  Aligned_cols=121  Identities=19%  Similarity=0.238  Sum_probs=94.4

Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhH
Q psy5288          39 AIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIM  117 (186)
Q Consensus        39 A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~  117 (186)
                      ....+...|..+...|++++|+.+|.+++.+     +|.. ...+..+|.+|... ++++|+.++++++.+....     
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~-----~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~-----   76 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITR-----NPLV-AVYYTNRALCYLKMQQPEQALADCRRALELDGQS-----   76 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----CTTC-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC-----
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhh-----CcCc-HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchh-----
Confidence            3567888899999999999999999999998     3333 46778999999887 9999999999999876442     


Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhc
Q psy5288         118 VAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALT  173 (186)
Q Consensus       118 ~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~  173 (186)
                       ..++..+|.+|.. +|++++|+.+|++++.+.+....... ..+...+..+..+.
T Consensus        77 -~~~~~~l~~~~~~-~~~~~~A~~~~~~a~~~~p~~~~~~~-~~~~~~l~~~~~~~  129 (137)
T 3q49_B           77 -VKAHFFLGQCQLE-MESYDEAIANLQRAYSLAKEQRLNFG-DDIPSALRIAKKKR  129 (137)
T ss_dssp             -HHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHTTCCCT-THHHHHHHHHHHHH
T ss_pred             -HHHHHHHHHHHHH-HhhHHHHHHHHHHHHHHChhHHHHHH-HHHHHHHHHHHHHH
Confidence             4589999999999 49999999999999999886321111 23444445544443

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=99.16  E-value=2.1e-09  Score=71.53  Aligned_cols=119  Identities=19%  Similarity=0.305  Sum_probs=95.3

Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCCh
Q psy5288          37 DEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRF  115 (186)
Q Consensus        37 ~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~  115 (186)
                      ......+...|.++...|++++|+.+|.++++..     +.. ...+..+|.++... ++++|+.++++++++....   
T Consensus         6 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-----~~~-~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~---   76 (125)
T 1na0_A            6 GNSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-----PNN-AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNN---   76 (125)
T ss_dssp             -CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-----TTC-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC---
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-----cCc-HHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCcc---
Confidence            3456778888999999999999999999999872     322 45677889998877 9999999999998764322   


Q ss_pred             hHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhcc
Q psy5288         116 IMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTD  174 (186)
Q Consensus       116 ~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g  174 (186)
                         ...+..+|.++... |++++|+.+|++++.+.+..      ...+..++.++...|
T Consensus        77 ---~~~~~~la~~~~~~-~~~~~A~~~~~~~~~~~~~~------~~~~~~l~~~~~~~g  125 (125)
T 1na0_A           77 ---AEAWYNLGNAYYKQ-GDYDEAIEYYQKALELDPNN------AEAKQNLGNAKQKQG  125 (125)
T ss_dssp             ---HHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHHHC
T ss_pred             ---HHHHHHHHHHHHHh-cCHHHHHHHHHHHHHhCCCc------HHHHHHHHHHHHhcc
Confidence               45788999999994 99999999999999986543      357788888887654

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=99.15  E-value=3.1e-09  Score=89.32  Aligned_cols=116  Identities=9%  Similarity=-0.003  Sum_probs=98.3

Q ss_pred             CHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH-cC-ChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHH
Q psy5288          35 KTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLK-NN-NKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTD  111 (186)
Q Consensus        35 ~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~-~~-~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~  111 (186)
                      ++...+..+..+|.+|..+|+|++|..+|.+++.++.+ +| +....+..+.++|.+|... ++++|...|++|++|...
T Consensus       346 ~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~~G~~~eA~~~~~~Al~i~~~  425 (490)
T 3n71_A          346 TNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMRAGLTNWHAGHIEVGHGMICKAYAILLV  425 (490)
T ss_dssp             TSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHH
Confidence            33444455555578899999999999999999999986 44 4446788899999999987 999999999999999966


Q ss_pred             c-C-ChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHh
Q psy5288         112 M-G-RFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYA  151 (186)
Q Consensus       112 ~-~-~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~  151 (186)
                      . | +++..+....+++.++..+ +.+++|...|.++.+-.-
T Consensus       426 ~lG~~Hp~~~~~~~~l~~~~~e~-~~~~~ae~~~~~~~~~~~  466 (490)
T 3n71_A          426 THGPSHPITKDLEAMRMQTEMEL-RMFRQNEFMYHKMREAAL  466 (490)
T ss_dssp             HTCTTSHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHH
T ss_pred             HhCCCChHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHh
Confidence            5 4 7889999999999999984 999999999999987653

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.14  E-value=1e-09  Score=85.91  Aligned_cols=116  Identities=14%  Similarity=0.084  Sum_probs=81.6

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCCh-hHHHHHHHH
Q psy5288          47 GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRF-IMVAKHHEN  124 (186)
Q Consensus        47 g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~-~~~a~~~~~  124 (186)
                      |.++...|++++|+++|.+        +   ....++..+|.+|... ++++|+..+++++++...  +. ...+..+  
T Consensus       108 a~~~~~~g~~~~Al~~l~~--------~---~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~p~--~~~~~l~~a~--  172 (291)
T 3mkr_A          108 ASIYFYDQNPDAALRTLHQ--------G---DSLECMAMTVQILLKLDRLDLARKELKKMQDQDED--ATLTQLATAW--  172 (291)
T ss_dssp             HHHHHHTTCHHHHHHHHTT--------C---CSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT--CHHHHHHHHH--
T ss_pred             HHHHHHCCCHHHHHHHHhC--------C---CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCcC--cHHHHHHHHH--
Confidence            4556666666666666655        1   1124566788888876 899999999998877422  11 1111111  


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         125 IAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       125 lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                       ..++... |++++|+..|+++++.++..      ...+.++|.++..+|++++|++.|++
T Consensus       173 -~~l~~~~-~~~~eA~~~~~~~l~~~p~~------~~~~~~la~~~~~~g~~~eA~~~l~~  225 (291)
T 3mkr_A          173 -VSLAAGG-EKLQDAYYIFQEMADKCSPT------LLLLNGQAACHMAQGRWEAAEGVLQE  225 (291)
T ss_dssp             -HHHHHCT-THHHHHHHHHHHHHHHSCCC------HHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             -HHHHhCc-hHHHHHHHHHHHHHHhCCCc------HHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence             2333443 89999999999999986643      36889999999999999999999986

>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, super-helix,; 2.9A {Homo sapiens} SCOP: a.118.8.1 d.159.1.3

Probab=99.14  E-value=2.7e-11  Score=101.42  Aligned_cols=123  Identities=15%  Similarity=0.149  Sum_probs=95.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHH
Q psy5288          43 YVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKH  121 (186)
Q Consensus        43 y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~  121 (186)
                      +...|..+...|++++|+++|.+++++     ++.. +..+.++|.+|... ++++|+.+|++|+++...      -+..
T Consensus         9 ~~~lg~~~~~~g~~~~A~~~~~~Al~~-----~p~~-~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~------~~~~   76 (477)
T 1wao_1            9 LKTQANDYFKAKDYENAIKFYSQAIEL-----NPSN-AIYYGNRSLAYLRTECYGYALGDATRAIELDKK------YIKG   76 (477)
T ss_dssp             SSSSSSSTTTTTCHHHHHHHHHHHHHH-----CTTC-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTT------CHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHh-----CCcc-HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC------CHHH
Confidence            344456677788999999999999987     3333 56777999999887 999999999999988432      2568


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHH--HHhccCHHHHHHHHH
Q psy5288         122 HENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANY--SALTDHLDKAIKLYE  184 (186)
Q Consensus       122 ~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~--y~~~g~~~~A~~~~~  184 (186)
                      +.++|.+|..+ |++++|+.+|++|+.+.++..      .++.+++.+  +...|++++|++.++
T Consensus        77 ~~~lg~~~~~~-g~~~eA~~~~~~al~~~p~~~------~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           77 YYRRAASNMAL-GKFRAALRDYETVVKVKPHDK------DAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHH-TCHHHHHHHHHHHHHHSTTCT------THHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHc-CCHHHHHHHHHHHHHhCCCCH------HHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            89999999995 999999999999999976543      355667777  888999999999987

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=99.14  E-value=9.3e-11  Score=93.87  Aligned_cols=135  Identities=16%  Similarity=0.143  Sum_probs=83.4

Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHc------CChhHH-----HHHHHHHHHHHhcC-CHHHHHHHHHHH
Q psy5288          38 EAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKN------NNKHDA-----GLCFVDAANCYKKS-NPAEAIKAIERA  105 (186)
Q Consensus        38 ~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~------~~~~~a-----a~~~~~a~~~y~~~-~~~~A~~~~~~A  105 (186)
                      +.+..+...|+.+...|++++|+.+|.+++.+....      ++...+     ..++.++|.+|... ++++|+.+|+++
T Consensus       177 ~~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~l~~~~~~nla~~~~~~g~~~~A~~~~~~a  256 (338)
T 2if4_A          177 GAADRRKMDGNSLFKEEKLEEAMQQYEMAIAYMGDDFMFQLYGKYQDMALAVKNPCHLNIAACLIKLKRYDEAIGHCNIV  256 (338)
T ss_dssp             HHHHHHHHHHHHTCSSSCCHHHHHHHHHHHHHSCHHHHHTCCHHHHHHHHHHHTHHHHHHHHHHHTTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhccchhhhhcccHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            456667788999999999999999999999873210      011111     13788999999887 999999999999


Q ss_pred             HHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHH-hccCHHHHHHHHH
Q psy5288         106 VEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSA-LTDHLDKAIKLYE  184 (186)
Q Consensus       106 l~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~-~~g~~~~A~~~~~  184 (186)
                      +++....      ..++.++|.+|.. +|++++|+.+|++++.+.+..      ..++.+++.+.. ..+..+++...|.
T Consensus       257 l~~~p~~------~~a~~~lg~a~~~-~g~~~~A~~~l~~al~l~p~~------~~a~~~L~~l~~~~~~~~~~a~~~~~  323 (338)
T 2if4_A          257 LTEEEKN------PKALFRRGKAKAE-LGQMDSARDDFRKAQKYAPDD------KAIRRELRALAEQEKALYQKQKEMYK  323 (338)
T ss_dssp             HHHCTTC------HHHHHHHHHHHHT-TTCHHHHHHHHHHTTC-------------------------------------
T ss_pred             HHhCCCC------HHHHHHHHHHHHH-cCCHHHHHHHHHHHHHHCCCC------HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9875432      4589999999999 599999999999999987653      246667777744 4566777777765


Q ss_pred             h
Q psy5288         185 Q  185 (186)
Q Consensus       185 ~  185 (186)
                      +
T Consensus       324 ~  324 (338)
T 2if4_A          324 G  324 (338)
T ss_dssp             -
T ss_pred             H
Confidence            4

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*

Probab=99.14  E-value=8.1e-10  Score=75.67  Aligned_cols=93  Identities=18%  Similarity=0.115  Sum_probs=80.8

Q ss_pred             HHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHH
Q psy5288          80 GLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSS  158 (186)
Q Consensus        80 a~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~  158 (186)
                      +..+..+|.++... ++++|+.+|++++.+....      ..++..+|.++... |++++|+.+|++++.+.+..     
T Consensus         9 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~------~~~~~~l~~~~~~~-~~~~~A~~~~~~al~~~p~~-----   76 (137)
T 3q49_B            9 AQELKEQGNRLFVGRKYPEAAACYGRAITRNPLV------AVYYTNRALCYLKM-QQPEQALADCRRALELDGQS-----   76 (137)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTTC-----
T ss_pred             HHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCcCc------HHHHHHHHHHHHHh-cCHHHHHHHHHHHHHhCchh-----
Confidence            56677888888876 9999999999999886443      45899999999994 99999999999999987653     


Q ss_pred             HHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         159 ANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       159 ~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                       ..++.++|.+|..+|++++|+.+|++
T Consensus        77 -~~~~~~l~~~~~~~~~~~~A~~~~~~  102 (137)
T 3q49_B           77 -VKAHFFLGQCQLEMESYDEAIANLQR  102 (137)
T ss_dssp             -HHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             -HHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence             36889999999999999999999976

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=99.14  E-value=5.5e-10  Score=92.55  Aligned_cols=91  Identities=12%  Similarity=0.073  Sum_probs=82.0

Q ss_pred             CHHHHHHHHHHHHHHHHHc-C-ChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhcc--CChHHHHHHHHHHHHH
Q psy5288          94 NPAEAIKAIERAVEIHTDM-G-RFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGE--ENKSSANKCLIKIANY  169 (186)
Q Consensus        94 ~~~~A~~~~~~Al~i~~~~-~-~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~--~~~~~~~~~~~~la~~  169 (186)
                      ++++|+..|++++++.... | ++...+.++.+||.+|..+ |+|++|+.+|++++.++++.  .+++..+..+.|||.+
T Consensus       313 ~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~-g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~  391 (433)
T 3qww_A          313 SPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYM-QDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGRL  391 (433)
T ss_dssp             CHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhh-cCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHH
Confidence            7899999999999998654 4 6789999999999999995 99999999999999998873  3556667899999999


Q ss_pred             HHhccCHHHHHHHHHh
Q psy5288         170 SALTDHLDKAIKLYEQ  185 (186)
Q Consensus       170 y~~~g~~~~A~~~~~~  185 (186)
                      |..+|+|++|+.+|++
T Consensus       392 ~~~qg~~~eA~~~~~~  407 (433)
T 3qww_A          392 YMGLENKAAGEKALKK  407 (433)
T ss_dssp             HHHTTCHHHHHHHHHH
T ss_pred             HHhccCHHHHHHHHHH
Confidence            9999999999999986

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=99.14  E-value=6.8e-11  Score=102.97  Aligned_cols=134  Identities=10%  Similarity=-0.046  Sum_probs=108.5

Q ss_pred             CCCCHHHHHHHHHHH--------------HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHH
Q psy5288          32 GGNKTDEAIDLYVRA--------------GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPA   96 (186)
Q Consensus        32 ~~~~~~~A~~~y~~a--------------g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~   96 (186)
                      ..|++++|++.|.++              |.++...|++++|+.+|.+++++     +|.. ...+.++|.+|... +++
T Consensus       445 ~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l-----~P~~-~~~~~~lg~~~~~~g~~~  518 (681)
T 2pzi_A          445 DLGDVAKATRKLDDLAERVGWRWRLVWYRAVAELLTGDYDSATKHFTEVLDT-----FPGE-LAPKLALAATAELAGNTD  518 (681)
T ss_dssp             HHTCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH-----STTC-SHHHHHHHHHHHHHTCCC
T ss_pred             hcCCHHHHHHHHHHHhccCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-----CCCC-hHHHHHHHHHHHHcCChH
Confidence            447999999999888              66788999999999999999998     4444 45566999999876 888


Q ss_pred             HHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhcc--
Q psy5288          97 EAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTD--  174 (186)
Q Consensus        97 ~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g--  174 (186)
                      + +.+|++|+++....      ...+.++|.+|.. +|++++|+.+|++|+.+.+..      ...+.++|.++...+  
T Consensus       519 ~-~~~~~~al~~~P~~------~~a~~~lg~~~~~-~g~~~~A~~~~~~al~l~P~~------~~a~~~~~~~~~~~~~~  584 (681)
T 2pzi_A          519 E-HKFYQTVWSTNDGV------ISAAFGLARARSA-EGDRVGAVRTLDEVPPTSRHF------TTARLTSAVTLLSGRST  584 (681)
T ss_dssp             T-TCHHHHHHHHCTTC------HHHHHHHHHHHHH-TTCHHHHHHHHHTSCTTSTTH------HHHHHHHHHHTC-----
T ss_pred             H-HHHHHHHHHhCCch------HHHHHHHHHHHHH-cCCHHHHHHHHHhhcccCccc------HHHHHHHHHHHHccCCC
Confidence            9 99999999875443      3478999999999 599999999999999986542      367889999987644  


Q ss_pred             ------CHHHHHHHHHh
Q psy5288         175 ------HLDKAIKLYEQ  185 (186)
Q Consensus       175 ------~~~~A~~~~~~  185 (186)
                            ++.+|+..+.+
T Consensus       585 ~~~~~~~~~~A~~~l~~  601 (681)
T 2pzi_A          585 SEVTEEQIRDAARRVEA  601 (681)
T ss_dssp             --CCHHHHHHHHHHHHT
T ss_pred             CCCCHHHHHHHHHHHhh
Confidence                  47888877754

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=99.13  E-value=6.2e-11  Score=78.30  Aligned_cols=99  Identities=13%  Similarity=0.046  Sum_probs=80.9

Q ss_pred             HHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHH
Q psy5288          80 GLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSS  158 (186)
Q Consensus        80 a~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~  158 (186)
                      +..+..+|.++... ++++|+.+|++++++....      +.++.++|.+|.. +|++++|+.+|++++.+.+..+....
T Consensus         4 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~------~~~~~~lg~~~~~-~g~~~~A~~~~~~al~~~p~~~~~~~   76 (111)
T 2l6j_A            4 FEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQN------PVGYSNKAMALIK-LGEYTQAIQMCQQGLRYTSTAEHVAI   76 (111)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHH-TTCHHHHHHHHHHHHTSCSSTTSHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCC------HHHHHHHHHHHHH-hcCHHHHHHHHHHHHHhCCCccHHHH
Confidence            45567788888766 8999999999998875433      4578899999999 49999999999999999887655555


Q ss_pred             HHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         159 ANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       159 ~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ...++..+|.++..+|+++.|++.|++
T Consensus        77 ~~~~~~~~~~~~~~~~~~~~a~~~~~~  103 (111)
T 2l6j_A           77 RSKLQYRLELAQGAVGSVQIPVVEVDE  103 (111)
T ss_dssp             HHHHHHHHHHHHHHHHCCCCCSSSSSS
T ss_pred             HHHHHHHHHHHHHHHHhHhhhHhHHHH
Confidence            667889999999999998888776654

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=99.10  E-value=1.5e-10  Score=96.37  Aligned_cols=120  Identities=16%  Similarity=0.134  Sum_probs=96.4

Q ss_pred             cCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCC---------hhHHHHHH
Q psy5288          53 GKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGR---------FIMVAKHH  122 (186)
Q Consensus        53 ~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~---------~~~~a~~~  122 (186)
                      ++++++|+++|.++.+.      ....+..+.+.|.+|... ++++|+.+|++|+++......         ....+.++
T Consensus       247 l~~~~~A~~~~~~~~~~------~~~~a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~  320 (457)
T 1kt0_A          247 LKSFEKAKESWEMDTKE------KLEQAAIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAF  320 (457)
T ss_dssp             EEEEECCCCGGGSCHHH------HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHH
T ss_pred             hhhcccCcchhhcCHHH------HHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHH
Confidence            34455666666665554      234466777888888776 999999999999999876531         22346799


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         123 ENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       123 ~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      .++|.+|.. +|++++|+.+|++|+.+.+..      ...+.++|.+|..+|+|++|+..|++
T Consensus       321 ~nla~~~~~-~g~~~~A~~~~~~al~~~p~~------~~a~~~~g~a~~~~g~~~~A~~~~~~  376 (457)
T 1kt0_A          321 LNLAMCYLK-LREYTKAVECCDKALGLDSAN------EKGLYRRGEAQLLMNEFESAKGDFEK  376 (457)
T ss_dssp             HHHHHHHHH-TTCHHHHHHHHHHHHHHSTTC------HHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHH-hcCHHHHHHHHHHHHhcCCcc------HHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            999999999 599999999999999997653      37889999999999999999999986

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=99.09  E-value=4e-10  Score=76.90  Aligned_cols=100  Identities=11%  Similarity=0.002  Sum_probs=71.5

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHH
Q psy5288          40 IDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMV  118 (186)
Q Consensus        40 ~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~  118 (186)
                      ...+...|..+...|++++|+.+|.+++.+     +|.. ...+..+|.++... ++++|+.+|++++++....      
T Consensus        17 ~~~~~~~g~~~~~~g~~~~A~~~~~~al~~-----~P~~-~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~------   84 (121)
T 1hxi_A           17 HENPMEEGLSMLKLANLAEAALAFEAVCQK-----EPER-EEAWRSLGLTQAENEKDGLAIIALNHARMLDPKD------   84 (121)
T ss_dssp             CSCHHHHHHHHHHTTCHHHHHHHHHHHHHH-----STTC-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC------
T ss_pred             chhHHHHHHHHHHcCCHHHHHHHHHHHHHH-----CCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCC------
Confidence            356777888888888888888888888887     4444 45556788887766 7888888888887775443      


Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhc
Q psy5288         119 AKHHENIAEIYEKELEDQEKAIDHYQHAADCYAG  152 (186)
Q Consensus       119 a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~  152 (186)
                      ...+..+|.+|... |++++|+.+|++++.+.+.
T Consensus        85 ~~~~~~la~~~~~~-g~~~~A~~~~~~al~~~P~  117 (121)
T 1hxi_A           85 IAVHAALAVSHTNE-HNANAALASLRAWLLSQPQ  117 (121)
T ss_dssp             HHHHHHHHHHHHHH-HHHHHHHHHHHHHHC----
T ss_pred             HHHHHHHHHHHHHc-CCHHHHHHHHHHHHHhCcC
Confidence            23677788888874 8888888888888877553

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.08  E-value=3.1e-09  Score=73.24  Aligned_cols=118  Identities=17%  Similarity=0.134  Sum_probs=93.3

Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChh
Q psy5288          38 EAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFI  116 (186)
Q Consensus        38 ~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~  116 (186)
                      .....+...|..+...|++++|+.+|.+++++.   .+.......+..+|.+|... ++++|+.++++++.+....    
T Consensus        26 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~---~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~----   98 (148)
T 2dba_A           26 SSVEQLRKEGNELFKCGDYGGALAAYTQALGLD---ATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGD----   98 (148)
T ss_dssp             CCHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSC---CCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCC----
T ss_pred             HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHc---ccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccC----
Confidence            346677888999999999999999999998862   12222467788999999877 9999999999999874332    


Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHH
Q psy5288         117 MVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSA  171 (186)
Q Consensus       117 ~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~  171 (186)
                        ..++..+|.+|... |++++|+.+|++++.+.+..      ..++..++.+..
T Consensus        99 --~~~~~~~a~~~~~~-~~~~~A~~~~~~al~~~p~~------~~~~~~l~~~~~  144 (148)
T 2dba_A           99 --VKALYRRSQALEKL-GRLDQAVLDLQRCVSLEPKN------KVFQEALRNISG  144 (148)
T ss_dssp             --HHHHHHHHHHHHHH-TCHHHHHHHHHHHHHHCSSC------HHHHHHHHHHHC
T ss_pred             --HHHHHHHHHHHHHc-CCHHHHHHHHHHHHHcCCCc------HHHHHHHHHHHh
Confidence              56789999999995 99999999999999986653      245555555543

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.08  E-value=5.8e-09  Score=86.80  Aligned_cols=99  Identities=20%  Similarity=0.260  Sum_probs=53.6

Q ss_pred             CCCHHHHHHHHHHH------------HHHHHh----cCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhc----
Q psy5288          33 GNKTDEAIDLYVRA------------GNLFKL----GKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKK----   92 (186)
Q Consensus        33 ~~~~~~A~~~y~~a------------g~~~~~----~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~----   92 (186)
                      .+++++|+.+|.++            |.+|..    .+++++|+++|.++++.    |+    ..++..+|.+|..    
T Consensus        56 ~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~----~~----~~a~~~Lg~~y~~g~g~  127 (490)
T 2xm6_A           56 TKDLTQAMDWFRRAAEQGYTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALK----GL----PQAQQNLGVMYHEGNGV  127 (490)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT----TC----HHHHHHHHHHHHHTSSS
T ss_pred             CcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC----CC----HHHHHHHHHHHHcCCCC
Confidence            45677777776665            445665    66777777777776652    22    2334455555554    


Q ss_pred             C-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHH----hcCCHHHHHHHHHHHHH
Q psy5288          93 S-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEK----ELEDQEKAIDHYQHAAD  148 (186)
Q Consensus        93 ~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~----~lg~~~~Ai~~y~kA~~  148 (186)
                      . ++++|+.+|++|++.    |+    +..+..+|.+|..    . +++++|+.+|++|++
T Consensus       128 ~~~~~~A~~~~~~a~~~----~~----~~a~~~Lg~~y~~g~g~~-~d~~~A~~~~~~a~~  179 (490)
T 2xm6_A          128 KVDKAESVKWFRLAAEQ----GR----DSGQQSMGDAYFEGDGVT-RDYVMAREWYSKAAE  179 (490)
T ss_dssp             CCCHHHHHHHHHHHHHT----TC----HHHHHHHHHHHHHTSSSC-CCHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHC----CC----HHHHHHHHHHHHcCCCCC-CCHHHHHHHHHHHHH
Confidence            2 556666666665432    22    2344455555543    2 455555555555544

>1elw_A TPR1-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, HSP70, protein binding, chaperone; 1.60A {Homo sapiens} SCOP: a.118.8.1

Probab=99.08  E-value=2e-09  Score=70.99  Aligned_cols=112  Identities=17%  Similarity=0.162  Sum_probs=88.8

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHH
Q psy5288          40 IDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMV  118 (186)
Q Consensus        40 ~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~  118 (186)
                      ++.+...|..+...|++++|+.+|.+++...     |.. ...+..+|.+|... ++++|+.++++++++....      
T Consensus         4 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-----~~~-~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~------   71 (118)
T 1elw_A            4 VNELKEKGNKALSVGNIDDALQCYSEAIKLD-----PHN-HVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDW------   71 (118)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-----TTC-HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTC------
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-----CCc-HHHHHHHHHHHHhhccHHHHHHHHHHHHHhCccc------
Confidence            4567778889999999999999999999873     332 45677889888776 9999999999999875432      


Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHH
Q psy5288         119 AKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYS  170 (186)
Q Consensus       119 a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y  170 (186)
                      ..++..+|.++... |++++|+.+|++++.+.+..      ...+..++.+.
T Consensus        72 ~~~~~~~a~~~~~~-~~~~~A~~~~~~~~~~~~~~------~~~~~~l~~~~  116 (118)
T 1elw_A           72 GKGYSRKAAALEFL-NRFEEAKRTYEEGLKHEANN------PQLKEGLQNME  116 (118)
T ss_dssp             HHHHHHHHHHHHHT-TCHHHHHHHHHHHHTTCTTC------HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH-hhHHHHHHHHHHHHHcCCCC------HHHHHHHHHhh
Confidence            45788999999994 99999999999999986543      24556666554

>1elw_A TPR1-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, HSP70, protein binding, chaperone; 1.60A {Homo sapiens} SCOP: a.118.8.1

Probab=99.07  E-value=3.3e-09  Score=69.91  Aligned_cols=93  Identities=17%  Similarity=0.154  Sum_probs=79.2

Q ss_pred             HHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHH
Q psy5288          80 GLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSS  158 (186)
Q Consensus        80 a~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~  158 (186)
                      +..+...|.++... ++++|+.+|++++.+....      ..++..+|.++... |++++|+.++++++.+.+..     
T Consensus         4 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~------~~~~~~~a~~~~~~-~~~~~A~~~~~~~~~~~~~~-----   71 (118)
T 1elw_A            4 VNELKEKGNKALSVGNIDDALQCYSEAIKLDPHN------HVLYSNRSAAYAKK-GDYQKAYEDGCKTVDLKPDW-----   71 (118)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHHH-TCHHHHHHHHHHHHHHCTTC-----
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCc------HHHHHHHHHHHHhh-ccHHHHHHHHHHHHHhCccc-----
Confidence            45677888888766 9999999999999875432      45889999999995 99999999999999986643     


Q ss_pred             HHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         159 ANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       159 ~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                       ..++.++|.+|...|++++|+++|++
T Consensus        72 -~~~~~~~a~~~~~~~~~~~A~~~~~~   97 (118)
T 1elw_A           72 -GKGYSRKAAALEFLNRFEEAKRTYEE   97 (118)
T ss_dssp             -HHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             -HHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence             36889999999999999999999975

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=99.06  E-value=6.7e-10  Score=94.21  Aligned_cols=114  Identities=11%  Similarity=0.064  Sum_probs=81.3

Q ss_pred             cCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHH
Q psy5288          53 GKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEK  131 (186)
Q Consensus        53 ~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~  131 (186)
                      .|++++|+.+|.+++++.     +.. ...+..+|.+|... ++++|+.+|++++++....      +.++.++|.+|..
T Consensus         2 ~g~~~~A~~~~~~al~~~-----p~~-~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~------~~~~~~lg~~~~~   69 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHR-----PQD-FVAWLMLADAELGMGDTTAGEMAVQRGLALHPGH------PEAVARLGRVRWT   69 (568)
T ss_dssp             ------------------------CC-HHHHHHHHHHHHHHTCHHHHHHHHHHHHTTSTTC------HHHHHHHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhC-----CCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCC------HHHHHHHHHHHHH
Confidence            467888999998888763     332 45677899998876 9999999999999875433      5588999999999


Q ss_pred             hcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         132 ELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       132 ~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      . |++++|+.+|++++.+.++.      ...+.++|.+|...|++++|++.|++
T Consensus        70 ~-g~~~~A~~~~~~al~~~p~~------~~~~~~la~~~~~~g~~~~A~~~~~~  116 (568)
T 2vsy_A           70 Q-QRHAEAAVLLQQASDAAPEH------PGIALWLGHALEDAGQAEAAAAAYTR  116 (568)
T ss_dssp             T-TCHHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             C-CCHHHHHHHHHHHHhcCCCC------HHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            5 99999999999999986653      36889999999999999999999976

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=99.05  E-value=3.6e-09  Score=74.31  Aligned_cols=95  Identities=21%  Similarity=0.131  Sum_probs=81.7

Q ss_pred             HHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCCh
Q psy5288          78 DAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENK  156 (186)
Q Consensus        78 ~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~  156 (186)
                      ..+..+..+|.++... ++++|+.+|++++.+....      ..++..+|.++... |++++|+.+|++++.+.+..   
T Consensus        11 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~~------~~~~~~~a~~~~~~-~~~~~A~~~~~~a~~~~~~~---   80 (166)
T 1a17_A           11 KRAEELKTQANDYFKAKDYENAIKFYSQAIELNPSN------AIYYGNRSLAYLRT-ECYGYALGDATRAIELDKKY---   80 (166)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTC------HHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTTC---
T ss_pred             HHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCC------hHHHHHHHHHHHHc-CCHHHHHHHHHHHHHhCccc---
Confidence            4567778888888776 9999999999999875433      56889999999994 99999999999999986643   


Q ss_pred             HHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         157 SSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       157 ~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                         ..++.++|.+|...|++++|+++|++
T Consensus        81 ---~~~~~~~a~~~~~~~~~~~A~~~~~~  106 (166)
T 1a17_A           81 ---IKGYYRRAASNMALGKFRAALRDYET  106 (166)
T ss_dssp             ---HHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             ---HHHHHHHHHHHHHhccHHHHHHHHHH
Confidence               36889999999999999999999976

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=99.05  E-value=3.2e-09  Score=71.85  Aligned_cols=105  Identities=16%  Similarity=0.009  Sum_probs=84.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHH
Q psy5288          42 LYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAK  120 (186)
Q Consensus        42 ~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~  120 (186)
                      .+...|..+...|++++|+..|.++++..   .+.......+..+|.+|... ++++|+.+|++++.+....   .....
T Consensus         4 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~---p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~---~~~~~   77 (129)
T 2xev_A            4 TAYNVAFDALKNGKYDDASQLFLSFLELY---PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTH---DKAAG   77 (129)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHC---SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTS---TTHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHC---CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCC---cccHH
Confidence            35678899999999999999999988862   22223457788999999877 9999999999998876443   33567


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhcc
Q psy5288         121 HHENIAEIYEKELEDQEKAIDHYQHAADCYAGE  153 (186)
Q Consensus       121 ~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~  153 (186)
                      ++..+|.+|... |++++|+.+|++++..+++.
T Consensus        78 ~~~~la~~~~~~-g~~~~A~~~~~~~~~~~p~~  109 (129)
T 2xev_A           78 GLLKLGLSQYGE-GKNTEAQQTLQQVATQYPGS  109 (129)
T ss_dssp             HHHHHHHHHHHT-TCHHHHHHHHHHHHHHSTTS
T ss_pred             HHHHHHHHHHHc-CCHHHHHHHHHHHHHHCCCC
Confidence            889999999984 99999999999999987653

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=99.05  E-value=1.3e-09  Score=73.70  Aligned_cols=96  Identities=19%  Similarity=0.148  Sum_probs=81.3

Q ss_pred             hHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCC
Q psy5288          77 HDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEEN  155 (186)
Q Consensus        77 ~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~  155 (186)
                      ......+..+|.++... ++++|+.+|++++++....      ..++..+|.+|... |++++|+.+|++++.+.+..  
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~------~~~~~~la~~~~~~-~~~~~A~~~~~~a~~~~~~~--   83 (133)
T 2lni_A           13 PDLALMVKNKGNECFQKGDYPQAMKHYTEAIKRNPKD------AKLYSNRAACYTKL-LEFQLALKDCEECIQLEPTF--   83 (133)
T ss_dssp             SCHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCTTC------HHHHHHHHHHHTTT-TCHHHHHHHHHHHHHHCTTC--
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCc------HHHHHHHHHHHHHh-ccHHHHHHHHHHHHHhCCCc--
Confidence            34566777889888776 9999999999998764332      56899999999984 99999999999999986543  


Q ss_pred             hHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         156 KSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       156 ~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                          ..++.++|.+|...|++++|+++|++
T Consensus        84 ----~~~~~~la~~~~~~~~~~~A~~~~~~  109 (133)
T 2lni_A           84 ----IKGYTRKAAALEAMKDYTKAMDVYQK  109 (133)
T ss_dssp             ----HHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             ----hHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence                36889999999999999999999976

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.04  E-value=1.1e-08  Score=85.12  Aligned_cols=128  Identities=12%  Similarity=0.204  Sum_probs=87.4

Q ss_pred             CCCHHHHHHHHHHH------------HHHHHhc-----CCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC--
Q psy5288          33 GNKTDEAIDLYVRA------------GNLFKLG-----KKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS--   93 (186)
Q Consensus        33 ~~~~~~A~~~y~~a------------g~~~~~~-----g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~--   93 (186)
                      .+++++|+.+|.++            |.+|...     +++++|+.+|.++++.    +++    .++.++|.+|...  
T Consensus       272 ~~d~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~----~~~----~a~~~lg~~y~~~g~  343 (490)
T 2xm6_A          272 AKEPLKALEWYRKSAEQGNSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQ----GDA----TAQANLGAIYFRLGS  343 (490)
T ss_dssp             SCCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHT----TCH----HHHHHHHHHHHHSCC
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhc----CCH----HHHHHHHHHHHhCCC
Confidence            34555665555554            3344444     5566666666655542    222    3455677777653  


Q ss_pred             --CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHH----hcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHH
Q psy5288          94 --NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEK----ELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIA  167 (186)
Q Consensus        94 --~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~----~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la  167 (186)
                        ++++|+++|++|++.    ++    +..+.++|.+|..    . +++++|+.+|++|++.    ++    ...+.++|
T Consensus       344 ~~~~~~A~~~~~~a~~~----~~----~~a~~~Lg~~y~~g~g~~-~~~~~A~~~~~~A~~~----~~----~~a~~~Lg  406 (490)
T 2xm6_A          344 EEEHKKAVEWFRKAAAK----GE----KAAQFNLGNALLQGKGVK-KDEQQAAIWMRKAAEQ----GL----SAAQVQLG  406 (490)
T ss_dssp             HHHHHHHHHHHHHHHHT----TC----HHHHHHHHHHHHHTSSSC-CCHHHHHHHHHHHHHT----TC----HHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHC----CC----HHHHHHHHHHHHcCCCCC-CCHHHHHHHHHHHHhC----CC----HHHHHHHH
Confidence              677888888888754    33    4578889999887    6 7899999999998874    22    35778899


Q ss_pred             HHHHh----ccCHHHHHHHHHh
Q psy5288         168 NYSAL----TDHLDKAIKLYEQ  185 (186)
Q Consensus       168 ~~y~~----~g~~~~A~~~~~~  185 (186)
                      .+|..    .+|+++|+..|++
T Consensus       407 ~~y~~g~g~~~d~~~A~~~~~~  428 (490)
T 2xm6_A          407 EIYYYGLGVERDYVQAWAWFDT  428 (490)
T ss_dssp             HHHHHTSSSCCCHHHHHHHHHH
T ss_pred             HHHHcCCCCCCCHHHHHHHHHH
Confidence            99988    8999999998875

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=99.04  E-value=5.8e-09  Score=69.89  Aligned_cols=96  Identities=17%  Similarity=0.103  Sum_probs=81.0

Q ss_pred             hHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCC
Q psy5288          77 HDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEEN  155 (186)
Q Consensus        77 ~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~  155 (186)
                      ......+..+|.++... ++++|+.+|++++.+....      ..++..+|.++... |++++|+.++++++.+.+..  
T Consensus         9 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~------~~~~~~~a~~~~~~-~~~~~A~~~~~~~~~~~~~~--   79 (131)
T 2vyi_A            9 SAEAERLKTEGNEQMKVENFEAAVHFYGKAIELNPAN------AVYFCNRAAAYSKL-GNYAGAVQDCERAICIDPAY--   79 (131)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTTC--
T ss_pred             hhhhHHHHHHHHHHHHccCHHHHHHHHHHHHHcCCCC------HHHHHHHHHHHHHh-hchHHHHHHHHHHHhcCccC--
Confidence            34456777888888766 9999999999999875332      55889999999995 99999999999999986543  


Q ss_pred             hHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         156 KSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       156 ~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                          ..++..+|.+|...|++++|+++|++
T Consensus        80 ----~~~~~~~~~~~~~~~~~~~A~~~~~~  105 (131)
T 2vyi_A           80 ----SKAYGRMGLALSSLNKHVEAVAYYKK  105 (131)
T ss_dssp             ----HHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             ----HHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence                36889999999999999999999976

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=99.03  E-value=3.2e-09  Score=87.89  Aligned_cols=104  Identities=8%  Similarity=-0.035  Sum_probs=87.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHc--CChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhcc--CCh
Q psy5288          81 LCFVDAANCYKKSNPAEAIKAIERAVEIHTDM--GRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGE--ENK  156 (186)
Q Consensus        81 ~~~~~a~~~y~~~~~~~A~~~~~~Al~i~~~~--~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~--~~~  156 (186)
                      .....+..++...++++|+..+++++++....  .++...+.++.+||.+|..+ |+|++|+.++++++.++++.  ..+
T Consensus       289 ~ll~~ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~-g~~~eA~~~~~~~L~i~~~~lg~~H  367 (429)
T 3qwp_A          289 ESLKKIEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINL-GLLEEALFYGTRTMEPYRIFFPGSH  367 (429)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHH-TCHHHHHHHHHHHHHHHHHHSCSSC
T ss_pred             HHHHHHHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhh-ccHHHHHHHHHHHHHhHHHHcCCCC
Confidence            33444555555669999999999999987543  46788999999999999996 99999999999999999873  355


Q ss_pred             HHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         157 SSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       157 ~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      +..+..+.+||.+|..+|++++|+.+|++
T Consensus       368 p~~a~~l~nLa~~~~~~g~~~eA~~~~~~  396 (429)
T 3qwp_A          368 PVRGVQVMKVGKLQLHQGMFPQAMKNLRL  396 (429)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhcCCHHHHHHHHHH
Confidence            66678999999999999999999999986

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=99.03  E-value=7.8e-09  Score=69.90  Aligned_cols=60  Identities=8%  Similarity=0.049  Sum_probs=31.1

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHH
Q psy5288          47 GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIH  109 (186)
Q Consensus        47 g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~  109 (186)
                      |.++...|++++|+.+|.++++...   +.......+..+|.+|... ++++|+.+|+++++.+
T Consensus        46 g~~~~~~~~~~~A~~~~~~~~~~~p---~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~  106 (129)
T 2xev_A           46 GESYYATRNFQLAEAQFRDLVSRYP---THDKAAGGLLKLGLSQYGEGKNTEAQQTLQQVATQY  106 (129)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCT---TSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHhccHHHHHHHHHHHHHHCC---CCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            3345555666666666666555421   1111244455556665554 5666666666555544

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=99.03  E-value=2.7e-09  Score=70.95  Aligned_cols=97  Identities=24%  Similarity=0.365  Sum_probs=80.1

Q ss_pred             hhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccC
Q psy5288          76 KHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEE  154 (186)
Q Consensus        76 ~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~  154 (186)
                      +...+..+..+|.++... ++++|+.++++++.+....      ..++..+|.++... |++++|+.+|++++.+.+.. 
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~------~~~~~~la~~~~~~-~~~~~A~~~~~~~~~~~~~~-   76 (125)
T 1na0_A            5 PGNSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNN------AEAWYNLGNAYYKQ-GDYDEAIEYYQKALELDPNN-   76 (125)
T ss_dssp             --CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTTC-
T ss_pred             ccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCc------HHHHHHHHHHHHHh-CCHHHHHHHHHHHHHhCCcc-
Confidence            444567778889888876 9999999999998874321      45788999999995 99999999999999985543 


Q ss_pred             ChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         155 NKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       155 ~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                           ..++..+|.+|...|++++|+.+|++
T Consensus        77 -----~~~~~~la~~~~~~~~~~~A~~~~~~  102 (125)
T 1na0_A           77 -----AEAWYNLGNAYYKQGDYDEAIEYYQK  102 (125)
T ss_dssp             -----HHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             -----HHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence                 36788999999999999999999976

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=99.03  E-value=8.1e-09  Score=72.07  Aligned_cols=104  Identities=15%  Similarity=0.250  Sum_probs=73.7

Q ss_pred             CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHH--
Q psy5288          55 KWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEK--  131 (186)
Q Consensus        55 ~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~--  131 (186)
                      ++++|+.+|.++++.    |++...      +|.+|... .+++|+++|++|.+.    |+    +..+.++|.+|..  
T Consensus        10 d~~~A~~~~~~aa~~----g~~~a~------lg~~y~~g~~~~~A~~~~~~Aa~~----g~----~~a~~~Lg~~y~~G~   71 (138)
T 1klx_A           10 DLKKAIQYYVKACEL----NEMFGC------LSLVSNSQINKQKLFQYLSKACEL----NS----GNGCRFLGDFYENGK   71 (138)
T ss_dssp             HHHHHHHHHHHHHHT----TCTTHH------HHHHTCTTSCHHHHHHHHHHHHHT----TC----HHHHHHHHHHHHHCS
T ss_pred             CHHHHHHHHHHHHcC----CCHhhh------HHHHHHcCCCHHHHHHHHHHHHcC----CC----HHHHHHHHHHHHcCC
Confidence            566777777777653    333322      77777765 677788888888764    44    4567788888876  


Q ss_pred             --hcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHh----ccCHHHHHHHHHh
Q psy5288         132 --ELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSAL----TDHLDKAIKLYEQ  185 (186)
Q Consensus       132 --~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~----~g~~~~A~~~~~~  185 (186)
                        . +++++|+.+|++|.+.    ++    .....+||.+|..    .+|+++|+++|++
T Consensus        72 g~~-~d~~~A~~~~~~Aa~~----g~----~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~  122 (138)
T 1klx_A           72 YVK-KDLRKAAQYYSKACGL----ND----QDGCLILGYKQYAGKGVVKNEKQAVKTFEK  122 (138)
T ss_dssp             SSC-CCHHHHHHHHHHHHHT----TC----HHHHHHHHHHHHHTSSSCCCHHHHHHHHHH
T ss_pred             CCC-ccHHHHHHHHHHHHcC----CC----HHHHHHHHHHHHCCCCCCcCHHHHHHHHHH
Confidence              5 7888888888888764    22    2566788888887    7888888888765

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=99.03  E-value=5e-10  Score=73.38  Aligned_cols=92  Identities=16%  Similarity=0.103  Sum_probs=67.1

Q ss_pred             HHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHH
Q psy5288          83 FVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANK  161 (186)
Q Consensus        83 ~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~  161 (186)
                      +..+|.++... ++++|+.+|++++++....      ..++..+|.++... |++++|+.+|++++.+.+....    ..
T Consensus         9 ~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~------~~~~~~~a~~~~~~-~~~~~A~~~~~~a~~~~~~~~~----~~   77 (112)
T 2kck_A            9 YYLEGVLQYDAGNYTESIDLFEKAIQLDPEE------SKYWLMKGKALYNL-ERYEEAVDCYNYVINVIEDEYN----KD   77 (112)
T ss_dssp             GGGHHHHHHSSCCHHHHHHHHHHHHHHCCCC------HHHHHHHHHHHHHT-TCHHHHHHHHHHHHHTSCCTTC----HH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHHhCcCC------HHHHHHHHHHHHHc-cCHHHHHHHHHHHHHhCcccch----HH
Confidence            44566666655 7788888888877664321      34677888888884 8888888888888887654101    35


Q ss_pred             HHHHHHHHHHhc-cCHHHHHHHHHh
Q psy5288         162 CLIKIANYSALT-DHLDKAIKLYEQ  185 (186)
Q Consensus       162 ~~~~la~~y~~~-g~~~~A~~~~~~  185 (186)
                      ++.++|.+|..+ |++++|+++|++
T Consensus        78 ~~~~l~~~~~~~~~~~~~A~~~~~~  102 (112)
T 2kck_A           78 VWAAKADALRYIEGKEVEAEIAEAR  102 (112)
T ss_dssp             HHHHHHHHHTTCSSCSHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            778888888888 888888888875

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=99.02  E-value=2.5e-09  Score=76.75  Aligned_cols=115  Identities=13%  Similarity=0.142  Sum_probs=88.6

Q ss_pred             HhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHH-
Q psy5288          51 KLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEI-  128 (186)
Q Consensus        51 ~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~-  128 (186)
                      ...|++++|+.++.+++..     +|.. ...+..+|.+|... ++++|+.+|++++.+....      ..++..+|.+ 
T Consensus        21 ~~~~~~~~A~~~~~~al~~-----~p~~-~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~------~~~~~~la~~l   88 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRA-----NPQN-SEQWALLGEYYLWQNDYSNSLLAYRQALQLRGEN------AELYAALATVL   88 (177)
T ss_dssp             C-----CCCCHHHHHHHHH-----CCSC-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCSC------HHHHHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHh-----CCCc-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCC------HHHHHHHHHHH
Confidence            4578899999999999987     3433 35677899999876 9999999999999987543      4578899999 


Q ss_pred             HHHhcCCH--HHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHH-HhccCHHHHHHHHHh
Q psy5288         129 YEKELEDQ--EKAIDHYQHAADCYAGEENKSSANKCLIKIANYS-ALTDHLDKAIKLYEQ  185 (186)
Q Consensus       129 y~~~lg~~--~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y-~~~g~~~~A~~~~~~  185 (186)
                      +... |++  ++|+.+|++++.+.+..      ..++..+|.+| .. |++++|+.+|++
T Consensus        89 ~~~~-~~~~~~~A~~~~~~al~~~p~~------~~~~~~la~~~~~~-g~~~~A~~~~~~  140 (177)
T 2e2e_A           89 YYQA-SQHMTAQTRAMIDKALALDSNE------ITALMLLASDAFMQ-ANYAQAIELWQK  140 (177)
T ss_dssp             HHHT-TTCCCHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHHT-TCHHHHHHHHHH
T ss_pred             HHhc-CCcchHHHHHHHHHHHHhCCCc------HHHHHHHHHHHHHc-ccHHHHHHHHHH
Confidence            7774 999  99999999999987653      25666677665 44 889999998875

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=99.01  E-value=2.1e-09  Score=73.27  Aligned_cols=88  Identities=16%  Similarity=0.056  Sum_probs=56.3

Q ss_pred             HHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhc-cCChHHHH
Q psy5288          83 FVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAG-EENKSSAN  160 (186)
Q Consensus        83 ~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~-~~~~~~~~  160 (186)
                      +.+.|.++... ++++|+.+|++++.+....      +..+..+|.++... |++++|+.+|++|+.+.+. .......+
T Consensus        20 ~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~------~~a~~~lg~~~~~~-g~~~~A~~~~~~al~l~P~~~~~~~~la   92 (121)
T 1hxi_A           20 PMEEGLSMLKLANLAEAALAFEAVCQKEPER------EEAWRSLGLTQAEN-EKDGLAIIALNHARMLDPKDIAVHAALA   92 (121)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTTC------HHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCC------HHHHHHHHHHHHHc-CCHHHHHHHHHHHHHhCCCCHHHHHHHH
Confidence            34556555544 7788888888877765443      34677788887774 8888888888888877653 33334445


Q ss_pred             HHHHHHHHHHHhccCHHHHHHHHH
Q psy5288         161 KCLIKIANYSALTDHLDKAIKLYE  184 (186)
Q Consensus       161 ~~~~~la~~y~~~g~~~~A~~~~~  184 (186)
                      .++...|.       +++|+..|+
T Consensus        93 ~~~~~~g~-------~~~A~~~~~  109 (121)
T 1hxi_A           93 VSHTNEHN-------ANAALASLR  109 (121)
T ss_dssp             HHHHHHHH-------HHHHHHHHH
T ss_pred             HHHHHcCC-------HHHHHHHHH
Confidence            56666654       455555554

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=99.01  E-value=4.2e-09  Score=85.40  Aligned_cols=99  Identities=19%  Similarity=0.099  Sum_probs=84.2

Q ss_pred             HHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcC----------ChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q psy5288          80 GLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMG----------RFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAAD  148 (186)
Q Consensus        80 a~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~----------~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~  148 (186)
                      +..+.+.|..+... ++++|+.+|++|+++.....          .....+.++.++|.+|.. +|++++|+.+|++|+.
T Consensus       223 a~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~-~g~~~~A~~~~~~al~  301 (370)
T 1ihg_A          223 SEDLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLK-MSDWQGAVDSCLEALE  301 (370)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHh-ccCHHHHHHHHHHHHH
Confidence            45677888888766 99999999999999876531          345667899999999999 5999999999999999


Q ss_pred             HHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         149 CYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       149 l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      +.+..      ..++.++|.+|..+|++++|++.|++
T Consensus       302 ~~p~~------~~a~~~lg~~~~~~g~~~eA~~~l~~  332 (370)
T 1ihg_A          302 IDPSN------TKALYRRAQGWQGLKEYDQALADLKK  332 (370)
T ss_dssp             TCTTC------HHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             hCchh------HHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            86543      47889999999999999999999976

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=99.00  E-value=8.6e-10  Score=85.87  Aligned_cols=101  Identities=23%  Similarity=0.322  Sum_probs=85.2

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHH
Q psy5288          40 IDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMV  118 (186)
Q Consensus        40 ~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~  118 (186)
                      ...+...|..+...|++++|+.+|.+++.+     +|.. ...+.++|.+|... ++++|+..+++++++....      
T Consensus         4 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~-----~p~~-~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~------   71 (281)
T 2c2l_A            4 AQELKEQGNRLFVGRKYPEAAACYGRAITR-----NPLV-AVYYTNRALCYLKMQQPEQALADCRRALELDGQS------   71 (281)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----CSCC-HHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTC------
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-----CCcc-HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCC------
Confidence            356777889999999999999999999998     3433 45677999999887 9999999999998774322      


Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhcc
Q psy5288         119 AKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGE  153 (186)
Q Consensus       119 a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~  153 (186)
                      ..++..+|.+|.. +|++++|+.+|++++.+.++.
T Consensus        72 ~~~~~~lg~~~~~-~g~~~~A~~~~~~al~l~p~~  105 (281)
T 2c2l_A           72 VKAHFFLGQCQLE-MESYDEAIANLQRAYSLAKEQ  105 (281)
T ss_dssp             HHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHH-cCCHHHHHHHHHHHHHhCccc
Confidence            4578999999999 599999999999999998854

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.00  E-value=9.5e-09  Score=70.74  Aligned_cols=97  Identities=22%  Similarity=0.117  Sum_probs=81.4

Q ss_pred             HHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChH
Q psy5288          79 AGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKS  157 (186)
Q Consensus        79 aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~  157 (186)
                      .+..+...|.++... ++++|+.+|++++++.   .+......++..+|.+|... |++++|+.+|++++.+.+..    
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~---~~~~~~~~~~~~~a~~~~~~-~~~~~A~~~~~~~~~~~~~~----   98 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGLD---ATPQDQAVLHRNRAACHLKL-EDYDKAETEASKAIEKDGGD----   98 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSC---CCHHHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHTSCC----
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHc---ccchHHHHHHHHHHHHHHHH-ccHHHHHHHHHHHHhhCccC----
Confidence            356677888888766 9999999999998753   23344578899999999995 99999999999999986643    


Q ss_pred             HHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         158 SANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       158 ~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                        ..++.++|.+|...|++++|+.+|++
T Consensus        99 --~~~~~~~a~~~~~~~~~~~A~~~~~~  124 (148)
T 2dba_A           99 --VKALYRRSQALEKLGRLDQAVLDLQR  124 (148)
T ss_dssp             --HHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             --HHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence              36889999999999999999999976

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.99  E-value=3.2e-09  Score=78.77  Aligned_cols=112  Identities=16%  Similarity=0.187  Sum_probs=83.9

Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHH
Q psy5288          39 AIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMV  118 (186)
Q Consensus        39 A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~~~~~A~~~~~~Al~i~~~~~~~~~~  118 (186)
                      .++.+..-|..+...|++++|+.+|.+++.+     +|......+. .+     .                  .......
T Consensus         3 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~-----~p~~~~~~~~-~~-----~------------------~~~~~~~   53 (208)
T 3urz_A            3 SVDEMLQKVSAAIEAGQNGQAVSYFRQTIAL-----NIDRTEMYYW-TN-----V------------------DKNSEIS   53 (208)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----CHHHHHHHHH-HH-----S------------------CTTSHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-----CCCChHHHHH-hh-----h------------------cchhhhh
Confidence            3556677788888888888888888888887     5554433221 11     1                  0112223


Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHhC
Q psy5288         119 AKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQL  186 (186)
Q Consensus       119 a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~~  186 (186)
                      .....++|.+|... |++++|+.+|++++.+.++.      ..++.++|.+|...|++++|+++|+++
T Consensus        54 ~~~~~~lg~~~~~~-g~~~~A~~~~~~al~~~p~~------~~~~~~lg~~~~~~g~~~~A~~~~~~a  114 (208)
T 3urz_A           54 SKLATELALAYKKN-RNYDKAYLFYKELLQKAPNN------VDCLEACAEMQVCRGQEKDALRMYEKI  114 (208)
T ss_dssp             HHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHC-CCHHHHHHHHHHHHHHCCCC------HHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            44556799999995 99999999999999997754      378999999999999999999999863

>1xi4_A Clathrin heavy chain; alpha-ZIG-ZAG, beta-propeller, endocytosis-exocyto complex; 7.90A {Bos taurus} SCOP: i.23.1.1 PDB: 1xi5_A 3iyv_A

Probab=98.99  E-value=1.2e-08  Score=93.79  Aligned_cols=113  Identities=12%  Similarity=0.129  Sum_probs=76.6

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHH-------------HHc
Q psy5288          47 GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIH-------------TDM  112 (186)
Q Consensus        47 g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~-------------~~~  112 (186)
                      |..+...|++++|+++|.++       ++    ...|.+.+.++... ++++|+++|+.|.+..             .+.
T Consensus      1112 AKAql~~G~~kEAIdsYiKA-------dD----~say~eVa~~~~~lGkyEEAIeyL~mArk~~~e~~Idt~LafaYAKl 1180 (1630)
T 1xi4_A         1112 AKAQLQKGMVKEAIDSYIKA-------DD----PSSYMEVVQAANTSGNWEELVKYLQMARKKARESYVETELIFALAKT 1180 (1630)
T ss_pred             HHHHHhCCCHHHHHHHHHhc-------CC----hHHHHHHHHHHHHcCCHHHHHHHHHHHHhhcccccccHHHHHHHHhh
Confidence            45555555555555555444       11    23444567777766 7888888887766432             222


Q ss_pred             CChhHHHH--------HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHH
Q psy5288         113 GRFIMVAK--------HHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYE  184 (186)
Q Consensus       113 ~~~~~~a~--------~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~  184 (186)
                      ++......        .+.++|..+.+. |+|++|+.+|.+|              ..|.++|.+|.++|+|++|++++.
T Consensus      1181 ~rleele~fI~~~n~ad~~~iGd~le~e-g~YeeA~~~Y~kA--------------~ny~rLA~tLvkLge~q~AIEaar 1245 (1630)
T 1xi4_A         1181 NRLAELEEFINGPNNAHIQQVGDRCYDE-KMYDAAKLLYNNV--------------SNFGRLASTLVHLGEYQAAVDGAR 1245 (1630)
T ss_pred             cCHHHHHHHHhCCCHHHHHHHHHHHHhc-CCHHHHHHHHHhh--------------hHHHHHHHHHHHhCCHHHHHHHHH
Confidence            33332222        345799999985 9999999999986              367888999999999999999987


Q ss_pred             h
Q psy5288         185 Q  185 (186)
Q Consensus       185 ~  185 (186)
                      +
T Consensus      1246 K 1246 (1630)
T 1xi4_A         1246 K 1246 (1630)
T ss_pred             H
Confidence            5

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.96  E-value=2.8e-09  Score=83.15  Aligned_cols=125  Identities=9%  Similarity=-0.021  Sum_probs=102.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHH
Q psy5288          42 LYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAK  120 (186)
Q Consensus        42 ~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~  120 (186)
                      .+...|..+...|++++|+..|.+++.+     +|... ..+..+|.++... ++++|+..+++++....   +   ...
T Consensus       119 ~~~~~a~~~~~~g~~~~A~~~~~~al~~-----~P~~~-~a~~~la~~~~~~g~~~~A~~~l~~~~~~~p---~---~~~  186 (287)
T 3qou_A          119 LXAQQAMQLMQESNYTDALPLLXDAWQL-----SNQNG-EIGLLLAETLIALNRSEDAEAVLXTIPLQDQ---D---TRY  186 (287)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH-----TTSCH-HHHHHHHHHHHHTTCHHHHHHHHTTSCGGGC---S---HHH
T ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHHHHh-----CCcch-hHHHHHHHHHHHCCCHHHHHHHHHhCchhhc---c---hHH
Confidence            3456678889999999999999999998     45554 5567899999877 99999999999876543   1   223


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         121 HHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       121 ~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      .....+..+..+ ++.++|+..|++++...++.      ...+.++|.+|...|++++|+..|++
T Consensus       187 ~~~~~~~~l~~~-~~~~~a~~~l~~al~~~P~~------~~~~~~la~~l~~~g~~~~A~~~l~~  244 (287)
T 3qou_A          187 QGLVAQIELLXQ-AADTPEIQQLQQQVAENPED------AALATQLALQLHQVGRNEEALELLFG  244 (287)
T ss_dssp             HHHHHHHHHHHH-HTSCHHHHHHHHHHHHCTTC------HHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhh-cccCccHHHHHHHHhcCCcc------HHHHHHHHHHHHHcccHHHHHHHHHH
Confidence            455666667774 88999999999999997754      36889999999999999999999976

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.96  E-value=6.8e-10  Score=74.85  Aligned_cols=90  Identities=9%  Similarity=0.027  Sum_probs=54.6

Q ss_pred             cCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcCC-HHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHH
Q psy5288          53 GKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKSN-PAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEK  131 (186)
Q Consensus        53 ~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~~-~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~  131 (186)
                      +|++++|+.+|.+++++.  . +.......+..+|.+|.... +++|+.+|++++++.+..      ..++..+|.++..
T Consensus         3 ~g~~~~A~~~~~~al~~~--~-~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~------~~~~~~l~~~~~~   73 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASG--L-QGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPNH------QALRVFYAMVLYN   73 (117)
T ss_dssp             ----CCCHHHHHHHHSSC--C-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcC--C-CCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCc------hHHHHHHHHHHHH
Confidence            566777777777776641  0 02334556667777777666 567777777776664433      3466667777776


Q ss_pred             hcCCHHHHHHHHHHHHHHHhc
Q psy5288         132 ELEDQEKAIDHYQHAADCYAG  152 (186)
Q Consensus       132 ~lg~~~~Ai~~y~kA~~l~~~  152 (186)
                       +|++++|+.+|++++...+.
T Consensus        74 -~g~~~~A~~~~~~al~~~p~   93 (117)
T 3k9i_A           74 -LGRYEQGVELLLKIIAETSD   93 (117)
T ss_dssp             -HTCHHHHHHHHHHHHHHHCC
T ss_pred             -cCCHHHHHHHHHHHHHhCCC
Confidence             37777777777777776554

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=98.93  E-value=2e-09  Score=77.63  Aligned_cols=124  Identities=8%  Similarity=0.014  Sum_probs=94.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHH
Q psy5288          42 LYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAK  120 (186)
Q Consensus        42 ~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~  120 (186)
                      .+...|..+...|++++|+..|.+++++.     |.. ...+..+|.+|... ++++|+.++++++.+..   ++    .
T Consensus         8 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~-----P~~-~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~p---~~----~   74 (176)
T 2r5s_A            8 QLLKQVSELLQQGEHAQALNVIQTLSDEL-----QSR-GDVKLAKADCLLETKQFELAQELLATIPLEYQ---DN----S   74 (176)
T ss_dssp             THHHHHHHHHHTTCHHHHHHHHHTSCHHH-----HTS-HHHHHHHHHHHHHTTCHHHHHHHHTTCCGGGC---CH----H
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHC-----CCc-HHHHHHHHHHHHHCCCHHHHHHHHHHhhhccC---Ch----H
Confidence            45667788889999999999999999873     433 45677899999877 99999999999876554   21    1


Q ss_pred             HHHHHHHHH-HHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         121 HHENIAEIY-EKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       121 ~~~~lg~~y-~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ....++.+. ... +...+|+..|++++.+.++.      ...+.++|.++...|++++|+..|++
T Consensus        75 ~~~~~~~~~~~~~-~~~~~a~~~~~~al~~~P~~------~~~~~~la~~~~~~g~~~~A~~~~~~  133 (176)
T 2r5s_A           75 YKSLIAKLELHQQ-AAESPELKRLEQELAANPDN------FELACELAVQYNQVGRDEEALELLWN  133 (176)
T ss_dssp             HHHHHHHHHHHHH-HTSCHHHHHHHHHHHHSTTC------HHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhh-cccchHHHHHHHHHHhCCCC------HHHHHHHHHHHHHcccHHHHHHHHHH
Confidence            222334332 222 34456899999999987754      37889999999999999999999976

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.91  E-value=4.3e-09  Score=70.83  Aligned_cols=66  Identities=8%  Similarity=0.048  Sum_probs=52.7

Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHH
Q psy5288          39 AIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHT  110 (186)
Q Consensus        39 A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~  110 (186)
                      -...+...|.+|...|++++|+.+|.+++++     +|.. ...+..+|.+|... ++++|+.++++++.+..
T Consensus        26 ~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~-----~p~~-~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p   92 (117)
T 3k9i_A           26 LAECYLGLGSTFRTLGEYRKAEAVLANGVKQ-----FPNH-QALRVFYAMVLYNLGRYEQGVELLLKIIAETS   92 (117)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----CTTC-HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-----CCCc-hHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            3444555577899999999999999999998     4444 45677889998876 99999999999987754

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=98.91  E-value=3.5e-08  Score=77.27  Aligned_cols=128  Identities=11%  Similarity=0.102  Sum_probs=102.4

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHH
Q psy5288          41 DLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVA  119 (186)
Q Consensus        41 ~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a  119 (186)
                      ..+...|.++...|++++|..+|.+++++     +|......+...|.++... ++++|+..|++|+++....      .
T Consensus       100 ~~~~~~~~~~~~~~~~~~A~~~~~~al~~-----~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~------~  168 (308)
T 2ond_A          100 LLYFAYADYEESRMKYEKVHSIYNRLLAI-----EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDARTR------H  168 (308)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTS-----SSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTTCC------T
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhc-----cccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCCC------H
Confidence            45667788999999999999999999986     3333323788888888776 9999999999998764322      2


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         120 KHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       120 ~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      .++...+.+....+|++++|+..|++++.+++..      ...+.+++.++...|++++|+.+|++
T Consensus       169 ~~~~~~a~~~~~~~~~~~~A~~~~~~al~~~p~~------~~~~~~~~~~~~~~g~~~~A~~~~~~  228 (308)
T 2ond_A          169 HVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDI------PEYVLAYIDYLSHLNEDNNTRVLFER  228 (308)
T ss_dssp             HHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHTTC------HHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCc------HHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            3455556553322499999999999999998864      37889999999999999999999986

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=98.91  E-value=4.9e-08  Score=65.32  Aligned_cols=96  Identities=23%  Similarity=0.345  Sum_probs=77.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHH
Q psy5288          43 YVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKH  121 (186)
Q Consensus        43 y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~  121 (186)
                      +...+.++...|++++|..++.++..+.     +.. ...+..+|.++... ++++|+.++++++.+....      ..+
T Consensus        38 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~-----~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~------~~~  105 (136)
T 2fo7_A           38 WYNLGNAYYKQGDYDEAIEYYQKALELD-----PRS-AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRS------AEA  105 (136)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHC-----TTC-HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTC------HHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHC-----CCc-hHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCC------hHH
Confidence            3445778889999999999999998862     222 34567889998877 9999999999998864322      457


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHh
Q psy5288         122 HENIAEIYEKELEDQEKAIDHYQHAADCYA  151 (186)
Q Consensus       122 ~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~  151 (186)
                      +..+|.++... |++++|+.++++++.+.+
T Consensus       106 ~~~la~~~~~~-~~~~~A~~~~~~~~~~~~  134 (136)
T 2fo7_A          106 WYNLGNAYYKQ-GDYDEAIEYYQKALELDP  134 (136)
T ss_dssp             HHHHHHHHHTT-TCHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHH-ccHHHHHHHHHHHHccCC
Confidence            88899999985 999999999999998754

>1xi4_A Clathrin heavy chain; alpha-ZIG-ZAG, beta-propeller, endocytosis-exocyto complex; 7.90A {Bos taurus} SCOP: i.23.1.1 PDB: 1xi5_A 3iyv_A

Probab=98.86  E-value=1.3e-07  Score=87.12  Aligned_cols=138  Identities=12%  Similarity=0.058  Sum_probs=96.0

Q ss_pred             CCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHH
Q psy5288          33 GNKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTD  111 (186)
Q Consensus        33 ~~~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~  111 (186)
                      .+.+++|..+|.+++..-...+-+-+++..+.+|.+++.+..+    ...|.++|..+... ++.+|+.+|.+|      
T Consensus      1062 lglyEEAf~IYkKa~~~~~A~~VLie~i~nldrAiE~Aervn~----p~vWsqLAKAql~~G~~kEAIdsYiKA------ 1131 (1630)
T 1xi4_A         1062 NELFEEAFAIFRKFDVNTSAVQVLIEHIGNLDRAYEFAERCNE----PAVWSQLAKAQLQKGMVKEAIDSYIKA------ 1131 (1630)
T ss_pred             CCCHHHHHHHHHHcCCHHHHHHHHHHHHhhHHHHHHHHHhcCC----HHHHHHHHHHHHhCCCHHHHHHHHHhc------
Confidence            3678888888887753332233333344445555555555544    46677999999887 999999999887      


Q ss_pred             cCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhcc-------------CChHHH--------HHHHHHHHHHH
Q psy5288         112 MGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGE-------------ENKSSA--------NKCLIKIANYS  170 (186)
Q Consensus       112 ~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~-------------~~~~~~--------~~~~~~la~~y  170 (186)
                       ++    ...+.++|.++.. +|++++|+++|+.|....+..             +.....        ...+.++|..+
T Consensus      1132 -dD----~say~eVa~~~~~-lGkyEEAIeyL~mArk~~~e~~Idt~LafaYAKl~rleele~fI~~~n~ad~~~iGd~l 1205 (1630)
T 1xi4_A         1132 -DD----PSSYMEVVQAANT-SGNWEELVKYLQMARKKARESYVETELIFALAKTNRLAELEEFINGPNNAHIQQVGDRC 1205 (1630)
T ss_pred             -CC----hHHHHHHHHHHHH-cCCHHHHHHHHHHHHhhcccccccHHHHHHHHhhcCHHHHHHHHhCCCHHHHHHHHHHH
Confidence             33    3467889999999 599999999998877544221             111111        12466899999


Q ss_pred             HhccCHHHHHHHHHhC
Q psy5288         171 ALTDHLDKAIKLYEQL  186 (186)
Q Consensus       171 ~~~g~~~~A~~~~~~~  186 (186)
                      ...|+|++|+.+|.++
T Consensus      1206 e~eg~YeeA~~~Y~kA 1221 (1630)
T 1xi4_A         1206 YDEKMYDAAKLLYNNV 1221 (1630)
T ss_pred             HhcCCHHHHHHHHHhh
Confidence            9999999999999863

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.86  E-value=5.7e-09  Score=83.43  Aligned_cols=101  Identities=22%  Similarity=0.136  Sum_probs=81.0

Q ss_pred             HHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcC------ChhH-----HHHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q psy5288          79 AGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMG------RFIM-----VAKHHENIAEIYEKELEDQEKAIDHYQHA  146 (186)
Q Consensus        79 aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~------~~~~-----~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA  146 (186)
                      .+..+.+.|.++... ++++|+.+|++|+.+.....      +...     ...++.++|.+|.. +|++++|+.+|+++
T Consensus       178 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~l~~~~~~nla~~~~~-~g~~~~A~~~~~~a  256 (338)
T 2if4_A          178 AADRRKMDGNSLFKEEKLEEAMQQYEMAIAYMGDDFMFQLYGKYQDMALAVKNPCHLNIAACLIK-LKRYDEAIGHCNIV  256 (338)
T ss_dssp             HHHHHHHHHHHTCSSSCCHHHHHHHHHHHHHSCHHHHHTCCHHHHHHHHHHHTHHHHHHHHHHHT-TTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhccchhhhhcccHHHHHHHHHHHHHHHHHHHHHH-cCCHHHHHHHHHHH
Confidence            456677888888776 89999999999998753321      1111     11388999999999 59999999999999


Q ss_pred             HHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHhC
Q psy5288         147 ADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQL  186 (186)
Q Consensus       147 ~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~~  186 (186)
                      +.+.+..      ..++.++|.+|..+|++++|+..|+++
T Consensus       257 l~~~p~~------~~a~~~lg~a~~~~g~~~~A~~~l~~a  290 (338)
T 2if4_A          257 LTEEEKN------PKALFRRGKAKAELGQMDSARDDFRKA  290 (338)
T ss_dssp             HHHCTTC------HHHHHHHHHHHHTTTCHHHHHHHHHHT
T ss_pred             HHhCCCC------HHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            9986643      378899999999999999999999874

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.83  E-value=2.3e-09  Score=70.53  Aligned_cols=99  Identities=9%  Similarity=0.075  Sum_probs=83.5

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHH
Q psy5288          40 IDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMV  118 (186)
Q Consensus        40 ~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~  118 (186)
                      .+.+...|.++...|++++|+.+|.+++++     +|.. ...+.++|.+|... ++++|+.+|++++++....++....
T Consensus         4 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~-----~p~~-~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~   77 (111)
T 2l6j_A            4 FEKQKEQGNSLFKQGLYREAVHCYDQLITA-----QPQN-PVGYSNKAMALIKLGEYTQAIQMCQQGLRYTSTAEHVAIR   77 (111)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHH-----CTTC-HHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSSTTSHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhc-----CCCC-HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCccHHHHH
Confidence            466788899999999999999999999998     3433 45677999999887 9999999999999998877777777


Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHH
Q psy5288         119 AKHHENIAEIYEKELEDQEKAIDHYQH  145 (186)
Q Consensus       119 a~~~~~lg~~y~~~lg~~~~Ai~~y~k  145 (186)
                      ..++..+|.++.. +|+++.|+..+++
T Consensus        78 ~~~~~~~~~~~~~-~~~~~~a~~~~~~  103 (111)
T 2l6j_A           78 SKLQYRLELAQGA-VGSVQIPVVEVDE  103 (111)
T ss_dssp             HHHHHHHHHHHHH-HHCCCCCSSSSSS
T ss_pred             HHHHHHHHHHHHH-HHhHhhhHhHHHH
Confidence            8899999999998 4888877765543

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=98.83  E-value=8.7e-08  Score=80.41  Aligned_cols=128  Identities=12%  Similarity=0.141  Sum_probs=82.4

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHH
Q psy5288          40 IDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMV  118 (186)
Q Consensus        40 ~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~  118 (186)
                      ...+...+.++...|++++|..+|.+++++     ++......|...+.++... ++++|...|++|++....      .
T Consensus       321 ~~l~~~~~~~~~~~g~~~~A~~~~~~al~~-----~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~~~------~  389 (530)
T 2ooe_A          321 MLLYFAYADYEESRMKYEKVHSIYNRLLAI-----EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDART------R  389 (530)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHS-----SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCTTC------C
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHhCc-----cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhccCC------c
Confidence            345555566777788888888888888875     3333334666777776554 677888888887754211      1


Q ss_pred             HHHHHHHHHH-HHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         119 AKHHENIAEI-YEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       119 a~~~~~lg~~-y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ...+...+.+ +.. .|++++|+..|++++..+++.      ..+|.+++.++...|++++|..+|++
T Consensus       390 ~~~~~~~a~~~~~~-~~~~~~A~~~~e~al~~~p~~------~~~~~~~~~~~~~~g~~~~Ar~~~~~  450 (530)
T 2ooe_A          390 HHVYVTAALMEYYC-SKDKSVAFKIFELGLKKYGDI------PEYVLAYIDYLSHLNEDNNTRVLFER  450 (530)
T ss_dssp             THHHHHHHHHHHHH-TCCHHHHHHHHHHHHHHHTTC------HHHHHHHHHHHTTTTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHH-cCChhHHHHHHHHHHHHCCCC------HHHHHHHHHHHHhCCCHhhHHHHHHH
Confidence            1223333333 334 377777877787777776643      25677777777777777777777765

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=98.83  E-value=1.3e-08  Score=79.21  Aligned_cols=93  Identities=18%  Similarity=0.133  Sum_probs=78.9

Q ss_pred             HHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHH
Q psy5288          80 GLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSS  158 (186)
Q Consensus        80 a~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~  158 (186)
                      +..+...|.++... ++++|+.+|++++.+....      +.++.++|.+|.. +|++++|+..|++|+.+.+..     
T Consensus         4 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~------~~~~~~la~~~~~-~~~~~~A~~~~~~al~~~p~~-----   71 (281)
T 2c2l_A            4 AQELKEQGNRLFVGRKYPEAAACYGRAITRNPLV------AVYYTNRALCYLK-MQQPEQALADCRRALELDGQS-----   71 (281)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCC------HHHHHHHHHHHHH-TTCHHHHHHHHHHHTTSCTTC-----
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCcc------HHHHHHHHHHHHH-hcCHHHHHHHHHHHHHhCCCC-----
Confidence            34566788888766 9999999999999875432      4689999999999 499999999999999986543     


Q ss_pred             HHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         159 ANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       159 ~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                       ...+.++|.+|..+|++++|+..|++
T Consensus        72 -~~~~~~lg~~~~~~g~~~~A~~~~~~   97 (281)
T 2c2l_A           72 -VKAHFFLGQCQLEMESYDEAIANLQR   97 (281)
T ss_dssp             -HHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             -HHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence             36889999999999999999999975

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.80  E-value=3.7e-08  Score=77.04  Aligned_cols=132  Identities=13%  Similarity=0.055  Sum_probs=97.7

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHH
Q psy5288          40 IDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMV  118 (186)
Q Consensus        40 ~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~  118 (186)
                      -++...-+.++...|++++|.+.|.....     +.|... ..| ..|.++... ++++|+.+++++...    .++...
T Consensus       102 ~dl~LayA~~L~~~g~y~eA~~~l~~~~~-----~~p~~~-~~~-~~a~l~~~~~r~~dA~~~l~~a~~~----~d~~~~  170 (282)
T 4f3v_A          102 LAITMGFAACEAAQGNYADAMEALEAAPV-----AGSEHL-VAW-MKAVVYGAAERWTDVIDQVKSAGKW----PDKFLA  170 (282)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHTSSCC-----TTCHHH-HHH-HHHHHHHHTTCHHHHHHHHTTGGGC----SCHHHH
T ss_pred             hHHHHHHHHHHHHCCCHHHHHHHHHHHHh-----cCCchH-HHH-HHHHHHHHcCCHHHHHHHHHHhhcc----CCcccH
Confidence            34444446678889999999998877665     245555 444 555566555 999999999865322    133334


Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHhC
Q psy5288         119 AKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQL  186 (186)
Q Consensus       119 a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~~  186 (186)
                      ..++..+|.++.. +|++++|+.+|++++.-   ...|........++|.++..+|+.++|...|+++
T Consensus       171 ~~a~~~LG~al~~-LG~~~eAl~~l~~a~~g---~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a  234 (282)
T 4f3v_A          171 GAAGVAHGVAAAN-LALFTEAERRLTEANDS---PAGEACARAIAWYLAMARRSQGNESAAVALLEWL  234 (282)
T ss_dssp             HHHHHHHHHHHHH-TTCHHHHHHHHHHHHTS---TTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH-CCCHHHHHHHHHHHhcC---CCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            5688999999999 69999999999999842   1114334568899999999999999999999864

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.79  E-value=8.4e-09  Score=67.38  Aligned_cols=100  Identities=12%  Similarity=0.033  Sum_probs=81.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHH
Q psy5288          42 LYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAK  120 (186)
Q Consensus        42 ~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~  120 (186)
                      .+...|.++...|++++|+.+|.+++++.     +.. ...+..+|.+|... ++++|+.++++++++...    .....
T Consensus         8 ~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-----~~~-~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~----~~~~~   77 (112)
T 2kck_A            8 EYYLEGVLQYDAGNYTESIDLFEKAIQLD-----PEE-SKYWLMKGKALYNLERYEEAVDCYNYVINVIED----EYNKD   77 (112)
T ss_dssp             GGGGHHHHHHSSCCHHHHHHHHHHHHHHC-----CCC-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCC----TTCHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHhC-----cCC-HHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcc----cchHH
Confidence            35567888999999999999999999873     332 34677899999877 999999999999987543    11245


Q ss_pred             HHHHHHHHHHHhc-CCHHHHHHHHHHHHHHHhc
Q psy5288         121 HHENIAEIYEKEL-EDQEKAIDHYQHAADCYAG  152 (186)
Q Consensus       121 ~~~~lg~~y~~~l-g~~~~Ai~~y~kA~~l~~~  152 (186)
                      ++..+|.++.. + |++++|+.++++++...+.
T Consensus        78 ~~~~l~~~~~~-~~~~~~~A~~~~~~~~~~~p~  109 (112)
T 2kck_A           78 VWAAKADALRY-IEGKEVEAEIAEARAKLEHHH  109 (112)
T ss_dssp             HHHHHHHHHTT-CSSCSHHHHHHHHHHGGGCCC
T ss_pred             HHHHHHHHHHH-HhCCHHHHHHHHHHHhhcccC
Confidence            88999999998 9 9999999999999987654

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.79  E-value=9.2e-08  Score=60.44  Aligned_cols=86  Identities=22%  Similarity=0.320  Sum_probs=67.4

Q ss_pred             hhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccC
Q psy5288          76 KHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEE  154 (186)
Q Consensus        76 ~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~  154 (186)
                      +...+..+..+|.+|... ++++|+.+|++++++....      ..++..+|.++... |++++|+.+|++++.+.+.. 
T Consensus         5 ~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~------~~~~~~l~~~~~~~-~~~~~A~~~~~~a~~~~p~~-   76 (91)
T 1na3_A            5 PGNSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNN------AEAWYNLGNAYYKQ-GDYDEAIEYYQKALELDPNN-   76 (91)
T ss_dssp             -CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTTC-
T ss_pred             ccccHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCC------HHHHHHHHHHHHHH-hhHHHHHHHHHHHHhcCCCC-
Confidence            344566777888888776 8999999999998774332      45788999999995 99999999999999986543 


Q ss_pred             ChHHHHHHHHHHHHHHHhcc
Q psy5288         155 NKSSANKCLIKIANYSALTD  174 (186)
Q Consensus       155 ~~~~~~~~~~~la~~y~~~g  174 (186)
                           ...+.++|.++..+|
T Consensus        77 -----~~~~~~l~~~~~~~g   91 (91)
T 1na3_A           77 -----AEAKQNLGNAKQKQG   91 (91)
T ss_dssp             -----HHHHHHHHHHHHHHC
T ss_pred             -----HHHHHHHHHHHHhcC
Confidence                 367788999887764

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=98.78  E-value=6.7e-09  Score=74.40  Aligned_cols=90  Identities=17%  Similarity=0.070  Sum_probs=72.1

Q ss_pred             HhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-C----------HHHHHHHHHHHHHHHHHcCChhHHH
Q psy5288          51 KLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-N----------PAEAIKAIERAVEIHTDMGRFIMVA  119 (186)
Q Consensus        51 ~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~----------~~~A~~~~~~Al~i~~~~~~~~~~a  119 (186)
                      .+.+.+++|+.+|.+++++     +|..+ ..+.++|.++... +          +++|+.+|++|+++....      +
T Consensus        13 ~r~~~feeA~~~~~~Ai~l-----~P~~a-ea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~~------~   80 (158)
T 1zu2_A           13 DRILLFEQIRQDAENTYKS-----NPLDA-DNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKK------D   80 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHH-----CTTCH-HHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTC------H
T ss_pred             HHHhHHHHHHHHHHHHHHH-----CCCCH-HHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcCc------H
Confidence            3445688999999999998     45544 5677888888765 2          579999999999987664      4


Q ss_pred             HHHHHHHHHHHHhcC-----------CHHHHHHHHHHHHHHHhcc
Q psy5288         120 KHHENIAEIYEKELE-----------DQEKAIDHYQHAADCYAGE  153 (186)
Q Consensus       120 ~~~~~lg~~y~~~lg-----------~~~~Ai~~y~kA~~l~~~~  153 (186)
                      .++.++|.+|.+ +|           ++++|+.+|++|+++.++.
T Consensus        81 ~A~~~LG~ay~~-lg~l~P~~~~a~g~~~eA~~~~~kAl~l~P~~  124 (158)
T 1zu2_A           81 EAVWCIGNAYTS-FAFLTPDETEAKHNFDLATQFFQQAVDEQPDN  124 (158)
T ss_dssp             HHHHHHHHHHHH-HHHHCCCHHHHHHHHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHHHHHHHH-hcccCcchhhhhccHHHHHHHHHHHHHhCCCC
Confidence            478999999987 45           8999999999999997764

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=98.74  E-value=1.5e-07  Score=65.52  Aligned_cols=87  Identities=10%  Similarity=0.031  Sum_probs=73.4

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhc----C-CHHHHHHHHHHHHHHHHHcCChhHHHH
Q psy5288          46 AGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKK----S-NPAEAIKAIERAVEIHTDMGRFIMVAK  120 (186)
Q Consensus        46 ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~----~-~~~~A~~~~~~Al~i~~~~~~~~~~a~  120 (186)
                      +|.+|...+..++|+++|.++++.    |+    ..++.++|.+|..    . ++++|+.+|++|.+.    |+    +.
T Consensus        31 lg~~y~~g~~~~~A~~~~~~Aa~~----g~----~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~----g~----~~   94 (138)
T 1klx_A           31 LSLVSNSQINKQKLFQYLSKACEL----NS----GNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGL----ND----QD   94 (138)
T ss_dssp             HHHHTCTTSCHHHHHHHHHHHHHT----TC----HHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT----TC----HH
T ss_pred             HHHHHHcCCCHHHHHHHHHHHHcC----CC----HHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHcC----CC----HH
Confidence            567788888899999999999985    33    3567799999987    2 899999999999864    55    45


Q ss_pred             HHHHHHHHHHH----hcCCHHHHHHHHHHHHHH
Q psy5288         121 HHENIAEIYEK----ELEDQEKAIDHYQHAADC  149 (186)
Q Consensus       121 ~~~~lg~~y~~----~lg~~~~Ai~~y~kA~~l  149 (186)
                      .+.+||.+|..    . +++++|+.+|++|.+.
T Consensus        95 a~~~Lg~~y~~G~g~~-~d~~~A~~~~~~Aa~~  126 (138)
T 1klx_A           95 GCLILGYKQYAGKGVV-KNEKQAVKTFEKACRL  126 (138)
T ss_dssp             HHHHHHHHHHHTSSSC-CCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHCCCCCC-cCHHHHHHHHHHHHHC
Confidence            78999999998    6 8999999999999986

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=98.73  E-value=2.5e-07  Score=76.58  Aligned_cols=117  Identities=10%  Similarity=0.137  Sum_probs=57.5

Q ss_pred             HHHHHHHHhcC---CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-----CHHHHHHHHHHHHHHHHHcCCh
Q psy5288          44 VRAGNLFKLGK---KWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-----NPAEAIKAIERAVEIHTDMGRF  115 (186)
Q Consensus        44 ~~ag~~~~~~g---~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-----~~~~A~~~~~~Al~i~~~~~~~  115 (186)
                      ...|.+|...|   ++++|++.|.++++.    |+.  .+..+.++|.+|...     ++++|+.+|+++.     .|+ 
T Consensus       180 ~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~----g~~--~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa-----~g~-  247 (452)
T 3e4b_A          180 VELATVYQKKQQPEQQAELLKQMEAGVSR----GTV--TAQRVDSVARVLGDATLGTPDEKTAQALLEKIA-----PGY-  247 (452)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHT----TCS--CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG-----GGS-
T ss_pred             HHHHHHHHHcCCcccHHHHHHHHHHHHHC----CCH--HHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc-----CCC-
Confidence            34455666666   666666666666653    111  122234555555432     5556666666554     122 


Q ss_pred             hHHHHHHHHHHHH-H--HHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhcc-----CHHHHHHHHHh
Q psy5288         116 IMVAKHHENIAEI-Y--EKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTD-----HLDKAIKLYEQ  185 (186)
Q Consensus       116 ~~~a~~~~~lg~~-y--~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g-----~~~~A~~~~~~  185 (186)
                         +..+.++|.+ |  .. .+++++|+.+|++|.+.    ++    ...+.+||.+|. .|     |+++|+++|++
T Consensus       248 ---~~a~~~Lg~~~~~~~~-~~d~~~A~~~~~~Aa~~----g~----~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~  312 (452)
T 3e4b_A          248 ---PASWVSLAQLLYDFPE-LGDVEQMMKYLDNGRAA----DQ----PRAELLLGKLYY-EGKWVPADAKAAEAHFEK  312 (452)
T ss_dssp             ---THHHHHHHHHHHHSGG-GCCHHHHHHHHHHHHHT----TC----HHHHHHHHHHHH-HCSSSCCCHHHHHHHHHT
T ss_pred             ---HHHHHHHHHHHHhCCC-CCCHHHHHHHHHHHHHC----CC----HHHHHHHHHHHH-cCCCCCCCHHHHHHHHHH
Confidence               2245555555 2  23 25555555555555532    11    234445555554 33     55555555543

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=98.72  E-value=3.8e-07  Score=75.55  Aligned_cols=84  Identities=20%  Similarity=0.173  Sum_probs=39.0

Q ss_pred             HHHHHHHHhcC-----CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHH----hcCCHHHHHHHHHHHHHHHhcc
Q psy5288          83 FVDAANCYKKS-----NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEK----ELEDQEKAIDHYQHAADCYAGE  153 (186)
Q Consensus        83 ~~~a~~~y~~~-----~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~----~lg~~~~Ai~~y~kA~~l~~~~  153 (186)
                      +.++|.+|...     ++++|+.+|++|+     .|+    +..+.++|.+|..    . .++++|+.+|++|.+.    
T Consensus       286 ~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa-----~g~----~~A~~~Lg~~y~~G~g~~-~d~~~A~~~~~~Aa~~----  351 (452)
T 3e4b_A          286 ELLLGKLYYEGKWVPADAKAAEAHFEKAV-----GRE----VAADYYLGQIYRRGYLGK-VYPQKALDHLLTAARN----  351 (452)
T ss_dssp             HHHHHHHHHHCSSSCCCHHHHHHHHHTTT-----TTC----HHHHHHHHHHHHTTTTSS-CCHHHHHHHHHHHHTT----
T ss_pred             HHHHHHHHHcCCCCCCCHHHHHHHHHHHh-----CCC----HHHHHHHHHHHHCCCCCC-cCHHHHHHHHHHHHhh----
Confidence            33445555432     4555555555544     222    2344555555543    1 2555555555555542    


Q ss_pred             CChHHHHHHHHHHHHHHHh----ccCHHHHHHHHH
Q psy5288         154 ENKSSANKCLIKIANYSAL----TDHLDKAIKLYE  184 (186)
Q Consensus       154 ~~~~~~~~~~~~la~~y~~----~g~~~~A~~~~~  184 (186)
                      ++    .....+||.+|..    ..|+++|+..|+
T Consensus       352 g~----~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~  382 (452)
T 3e4b_A          352 GQ----NSADFAIAQLFSQGKGTKPDPLNAYVFSQ  382 (452)
T ss_dssp             TC----TTHHHHHHHHHHSCTTBCCCHHHHHHHHH
T ss_pred             Ch----HHHHHHHHHHHHhCCCCCCCHHHHHHHHH
Confidence            11    1234455555543    235555555554

>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, super-helix,; 2.9A {Homo sapiens} SCOP: a.118.8.1 d.159.1.3

Probab=98.72  E-value=9.3e-09  Score=86.00  Aligned_cols=92  Identities=22%  Similarity=0.134  Sum_probs=77.2

Q ss_pred             HHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHH
Q psy5288          81 LCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSA  159 (186)
Q Consensus        81 ~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~  159 (186)
                      ..+.++|.++... ++++|+.+|++|+++....      +.++.++|.+|..+ |++++|+.+|++|+.+.+..      
T Consensus         7 ~~~~~lg~~~~~~g~~~~A~~~~~~Al~~~p~~------~~~~~~lg~~~~~~-g~~~~A~~~~~~al~l~p~~------   73 (477)
T 1wao_1            7 EELKTQANDYFKAKDYENAIKFYSQAIELNPSN------AIYYGNRSLAYLRT-ECYGYALGDATRAIELDKKY------   73 (477)
T ss_dssp             TTSSSSSSSTTTTTCHHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHHT-TCHHHHHHHHHHHHHSCTTC------
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCcc------HHHHHHHHHHHHHh-cCHHHHHHHHHHHHHhCCCC------
Confidence            3444556666655 9999999999999985433      66899999999995 99999999999999986543      


Q ss_pred             HHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         160 NKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       160 ~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ..++.++|.+|..+|++++|++.|++
T Consensus        74 ~~~~~~lg~~~~~~g~~~eA~~~~~~   99 (477)
T 1wao_1           74 IKGYYRRAASNMALGKFRAALRDYET   99 (477)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            36889999999999999999999986

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=98.71  E-value=3.1e-08  Score=70.92  Aligned_cols=79  Identities=14%  Similarity=0.113  Sum_probs=66.0

Q ss_pred             CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCH----------HHHHHHHHHHHHHHhccCChHHHHHHH
Q psy5288          94 NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQ----------EKAIDHYQHAADCYAGEENKSSANKCL  163 (186)
Q Consensus        94 ~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~----------~~Ai~~y~kA~~l~~~~~~~~~~~~~~  163 (186)
                      .+++|+.++++++++....      +..+.++|.++.. ++++          ++||..|++|+.+.++.      ...+
T Consensus        17 ~feeA~~~~~~Ai~l~P~~------aea~~n~G~~l~~-l~~~~~g~~al~~~~eAi~~le~AL~ldP~~------~~A~   83 (158)
T 1zu2_A           17 LFEQIRQDAENTYKSNPLD------ADNLTRWGGVLLE-LSQFHSISDAKQMIQEAITKFEEALLIDPKK------DEAV   83 (158)
T ss_dssp             HHHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHH-HHHHSCHHHHHHHHHHHHHHHHHHHHHCTTC------HHHH
T ss_pred             HHHHHHHHHHHHHHHCCCC------HHHHHHHHHHHHH-hcccchhhhhHhHHHHHHHHHHHHHHhCcCc------HHHH
Confidence            4688999999998877654      4588889999887 4664          69999999999997764      3788


Q ss_pred             HHHHHHHHhcc-----------CHHHHHHHHHh
Q psy5288         164 IKIANYSALTD-----------HLDKAIKLYEQ  185 (186)
Q Consensus       164 ~~la~~y~~~g-----------~~~~A~~~~~~  185 (186)
                      .++|.+|..+|           ++++|+++|++
T Consensus        84 ~~LG~ay~~lg~l~P~~~~a~g~~~eA~~~~~k  116 (158)
T 1zu2_A           84 WCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQ  116 (158)
T ss_dssp             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcccCcchhhhhccHHHHHHHHHH
Confidence            99999999875           89999999986

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.70  E-value=2.9e-08  Score=66.27  Aligned_cols=76  Identities=14%  Similarity=0.098  Sum_probs=59.4

Q ss_pred             HHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCH
Q psy5288          97 EAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHL  176 (186)
Q Consensus        97 ~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~  176 (186)
                      +|+..|++++++....      +..+..+|.+|... |++++|+.+|++++.+.+..      ..++.++|.+|...|++
T Consensus         3 ~a~~~~~~al~~~p~~------~~~~~~lg~~~~~~-g~~~~A~~~~~~al~~~p~~------~~~~~~la~~~~~~g~~   69 (115)
T 2kat_A            3 AITERLEAMLAQGTDN------MLLRFTLGKTYAEH-EQFDAALPHLRAALDFDPTY------SVAWKWLGKTLQGQGDR   69 (115)
T ss_dssp             CHHHHHHHHHTTTCCC------HHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHHHHHhCCCc------HHHHHHHHHHHHHc-cCHHHHHHHHHHHHHHCCCc------HHHHHHHHHHHHHcCCH
Confidence            4677777776644322      45788899999884 99999999999999886543      35788899999999999


Q ss_pred             HHHHHHHHh
Q psy5288         177 DKAIKLYEQ  185 (186)
Q Consensus       177 ~~A~~~~~~  185 (186)
                      ++|+..|++
T Consensus        70 ~~A~~~~~~   78 (115)
T 2kat_A           70 AGARQAWES   78 (115)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999998875

>1b89_A Protein (clathrin heavy chain); triskelion, coated vesicles, endocytosis, SELF- assembly, alpha-alpha superhelix; 2.60A {Bos taurus} SCOP: a.118.1.3

Probab=98.67  E-value=3e-08  Score=82.00  Aligned_cols=135  Identities=16%  Similarity=0.137  Sum_probs=52.8

Q ss_pred             CCCCHHHHHHHHHHH---------HHHHHhcCCHHHHHHHHHHHHH-------------HHHHcCChhHH--------HH
Q psy5288          32 GGNKTDEAIDLYVRA---------GNLFKLGKKWNDGGNAFLQAGT-------------LHLKNNNKHDA--------GL   81 (186)
Q Consensus        32 ~~~~~~~A~~~y~~a---------g~~~~~~g~~~~A~~~y~~a~~-------------~~~~~~~~~~a--------a~   81 (186)
                      ..+++++|+++|.++         +..+...|++++|+.++..+.+             ++.++|+...+        ..
T Consensus        44 ~~g~~~eAIdsfika~D~~~y~~V~~~ae~~g~~EeAi~yl~~ark~~~~~~i~~~Li~~Y~Klg~l~e~e~f~~~pn~~  123 (449)
T 1b89_A           44 QKGMVKEAIDSYIKADDPSSYMEVVQAANTSGNWEELVKYLQMARKKARESYVETELIFALAKTNRLAELEEFINGPNNA  123 (449)
T ss_dssp             -----------------------------------------------------------------CHHHHTTTTTCC---
T ss_pred             HcCCHHHHHHHHHcCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCccchhHHHHHHHHHHhCCHHHHHHHHcCCcHH
Confidence            457889999988887         4456778899999998876664             23344443321        13


Q ss_pred             HHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHH
Q psy5288          82 CFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSAN  160 (186)
Q Consensus        82 ~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~  160 (186)
                      .+..+|..+... .+++|+.+|.++              ..+.++|.++.. +|++++|++.|.+|...-.    .....
T Consensus       124 a~~~IGd~~~~~g~yeeA~~~Y~~a--------------~n~~~LA~~L~~-Lg~yq~AVea~~KA~~~~~----Wk~v~  184 (449)
T 1b89_A          124 HIQQVGDRCYDEKMYDAAKLLYNNV--------------SNFGRLASTLVH-LGEYQAAVDGARKANSTRT----WKEVC  184 (449)
T ss_dssp             -------------CTTTHHHHHHHT--------------TCHHHHHHHHHT-TTCHHHHHHHHHHHTCHHH----HHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHh--------------hhHHHHHHHHHH-hccHHHHHHHHHHcCCchh----HHHHH
Confidence            566677666654 777888888765              257889999998 6999999999999943310    01111


Q ss_pred             HH-----------------------HHHHHHHHHhccCHHHHHHHHHh
Q psy5288         161 KC-----------------------LIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       161 ~~-----------------------~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      .+                       ...+...|.+.|++++|+.++++
T Consensus       185 ~aCv~~~ef~lA~~~~l~L~~~ad~l~~lv~~Yek~G~~eEai~lLe~  232 (449)
T 1b89_A          185 FACVDGKEFRLAQMCGLHIVVHADELEELINYYQDRGYFEELITMLEA  232 (449)
T ss_dssp             HHHHHTTCHHHHHHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHcCcHHHHHHHHHHHHhCHhhHHHHHHHHHHCCCHHHHHHHHHH
Confidence            12                       22345788888999999888875

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=98.64  E-value=1.9e-07  Score=61.10  Aligned_cols=60  Identities=15%  Similarity=0.176  Sum_probs=53.5

Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         119 AKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       119 a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      +.++..+|.+|... |++++|+.+|++++++.+...      .++.++|.+|..+|++++|++.|++
T Consensus         7 ~~~~~~lg~~~~~~-g~~~~A~~~~~~al~~~p~~~------~a~~~lg~~~~~~g~~~~A~~~~~~   66 (100)
T 3ma5_A            7 PFTRYALAQEHLKH-DNASRALALFEELVETDPDYV------GTYYHLGKLYERLDRTDDAIDTYAQ   66 (100)
T ss_dssp             HHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHSTTCT------HHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-CCHHHHHHHHHHHHHhCCCcH------HHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            45788999999995 999999999999999977542      5889999999999999999999976

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.63  E-value=3.1e-07  Score=61.08  Aligned_cols=101  Identities=6%  Similarity=0.068  Sum_probs=75.4

Q ss_pred             HHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCH
Q psy5288          58 DGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQ  136 (186)
Q Consensus        58 ~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~  136 (186)
                      +|+++|.++++.     +|.. ...+..+|.+|... ++++|+.+|++++.+....      ...+..+|.+|... |++
T Consensus         3 ~a~~~~~~al~~-----~p~~-~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~------~~~~~~la~~~~~~-g~~   69 (115)
T 2kat_A            3 AITERLEAMLAQ-----GTDN-MLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTY------SVAWKWLGKTLQGQ-GDR   69 (115)
T ss_dssp             CHHHHHHHHHTT-----TCCC-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHHH-TCH
T ss_pred             HHHHHHHHHHHh-----CCCc-HHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCc------HHHHHHHHHHHHHc-CCH
Confidence            467777777775     3333 35677999999877 9999999999999875433      44789999999995 999


Q ss_pred             HHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccC
Q psy5288         137 EKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDH  175 (186)
Q Consensus       137 ~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~  175 (186)
                      ++|+.+|++++.+.+..+..    .....+...+..+++
T Consensus        70 ~~A~~~~~~al~~~~~~~~~----~~~~~l~~~l~~l~~  104 (115)
T 2kat_A           70 AGARQAWESGLAAAQSRGDQ----QVVKELQVFLRRLAR  104 (115)
T ss_dssp             HHHHHHHHHHHHHHHHHTCH----HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccccccH----HHHHHHHHHHHHhcc
Confidence            99999999999998876543    233444455544443

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=98.59  E-value=6.3e-07  Score=58.55  Aligned_cols=84  Identities=21%  Similarity=0.277  Sum_probs=61.5

Q ss_pred             HHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHH
Q psy5288          81 LCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSA  159 (186)
Q Consensus        81 ~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~  159 (186)
                      ..+..+|.+|... ++++|+.+|++++++.....      .++..+|.+|.. +|++++|+.+|++++.+.+..++.   
T Consensus         8 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~------~a~~~lg~~~~~-~g~~~~A~~~~~~al~l~~~~~~~---   77 (100)
T 3ma5_A            8 FTRYALAQEHLKHDNASRALALFEELVETDPDYV------GTYYHLGKLYER-LDRTDDAIDTYAQGIEVAREEGTQ---   77 (100)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCT------HHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHSCH---
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcH------HHHHHHHHHHHH-cCCHHHHHHHHHHHHhhhhcCCch---
Confidence            4566788888776 88899999998888765432      378889999988 499999999999999988766543   


Q ss_pred             HHHHHHHHHHHHhccC
Q psy5288         160 NKCLIKIANYSALTDH  175 (186)
Q Consensus       160 ~~~~~~la~~y~~~g~  175 (186)
                       .....+..++...+.
T Consensus        78 -~~~~~l~~~l~~~~~   92 (100)
T 3ma5_A           78 -KDLSELQDAKLKAEG   92 (100)
T ss_dssp             -HHHHHHHHHHHHHHT
T ss_pred             -hHHHHHHHHHHHccc
Confidence             333455555555443

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.56  E-value=4.2e-07  Score=57.27  Aligned_cols=63  Identities=24%  Similarity=0.312  Sum_probs=55.1

Q ss_pred             hHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         116 IMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       116 ~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ...+..+..+|.++... |++++|+.+|++++.+.+..      ..++.++|.+|...|++++|+++|++
T Consensus         6 ~~~~~~~~~la~~~~~~-~~~~~A~~~~~~a~~~~~~~------~~~~~~l~~~~~~~~~~~~A~~~~~~   68 (91)
T 1na3_A            6 GNSAEAWYNLGNAYYKQ-GDYDEAIEYYQKALELDPNN------AEAWYNLGNAYYKQGDYDEAIEYYQK   68 (91)
T ss_dssp             CHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHc-cCHHHHHHHHHHHHhcCCCC------HHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            44567889999999995 99999999999999986543      36889999999999999999999976

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=98.51  E-value=1.5e-06  Score=72.82  Aligned_cols=162  Identities=12%  Similarity=0.169  Sum_probs=111.6

Q ss_pred             hHHHHHHHHHHhhccCCCCc--c---cccc-CCCCHHHHHHHHHHH---------------HHHHHhcCCHHHHHHHHHH
Q psy5288           7 KARQLVAEAEKKISSSSKGF--F---SQFT-GGNKTDEAIDLYVRA---------------GNLFKLGKKWNDGGNAFLQ   65 (186)
Q Consensus         7 ~~~~~~~~a~~~~~~~~~~~--~---~~~~-~~~~~~~A~~~y~~a---------------g~~~~~~g~~~~A~~~y~~   65 (186)
                      +|...+.+|-+.+. | ...  +   ..++ ..|++++|...|.++               +.++.+.|++++|..+|.+
T Consensus       304 ~A~~~~~~Al~~~~-p-~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~  381 (530)
T 2ooe_A          304 EAANIYERAISTLL-K-KNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKK  381 (530)
T ss_dssp             HHHHHHHHHTTTTC-S-SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSSSSCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-c-ccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCccccCchHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence            67777777765222 2 211  1   1111 457999999888887               3345567888888888888


Q ss_pred             HHHHHHHcCChhHHHHHHHHHHHH-Hh-cCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHH
Q psy5288          66 AGTLHLKNNNKHDAGLCFVDAANC-YK-KSNPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHY  143 (186)
Q Consensus        66 a~~~~~~~~~~~~aa~~~~~a~~~-y~-~~~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y  143 (186)
                      +++..     +.. ...+...+.+ |. ..++++|...|+++++.....      ..++..++.++.. +|+.++|..+|
T Consensus       382 Al~~~-----~~~-~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~p~~------~~~~~~~~~~~~~-~g~~~~Ar~~~  448 (530)
T 2ooe_A          382 AREDA-----RTR-HHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDI------PEYVLAYIDYLSH-LNEDNNTRVLF  448 (530)
T ss_dssp             HHTCT-----TCC-THHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHTTC------HHHHHHHHHHHTT-TTCHHHHHHHH
T ss_pred             HHhcc-----CCc-hHHHHHHHHHHHHHcCChhHHHHHHHHHHHHCCCC------HHHHHHHHHHHHh-CCCHhhHHHHH
Confidence            87641     221 2223233323 33 348999999999999987533      4578899999988 59999999999


Q ss_pred             HHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         144 QHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       144 ~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ++|+...+.  ++......|..........|+.+.+..++.+
T Consensus       449 ~~al~~~~~--~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r  488 (530)
T 2ooe_A          449 ERVLTSGSL--PPEKSGEIWARFLAFESNIGDLASILKVEKR  488 (530)
T ss_dssp             HHHHHSCCS--CGGGCHHHHHHHHHHHHHSSCHHHHHHHHHH
T ss_pred             HHHHhccCC--CHHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            999987442  2222345788888888889999999988865

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=98.50  E-value=7e-07  Score=59.07  Aligned_cols=66  Identities=17%  Similarity=0.055  Sum_probs=55.3

Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCC-hHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         119 AKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEEN-KSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       119 a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~-~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      +.-+..||..+..+ ++|+.|+.||++|+...+.... ......++.++|.+|.++|++++|+.++++
T Consensus         5 a~dc~~lG~~~~~~-~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~   71 (104)
T 2v5f_A            5 AEDCFELGKVAYTE-ADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKK   71 (104)
T ss_dssp             HHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-cchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            44677899999996 9999999999999999865421 123347899999999999999999999876

>1b89_A Protein (clathrin heavy chain); triskelion, coated vesicles, endocytosis, SELF- assembly, alpha-alpha superhelix; 2.60A {Bos taurus} SCOP: a.118.1.3

Probab=98.50  E-value=3.7e-07  Score=75.48  Aligned_cols=130  Identities=15%  Similarity=0.119  Sum_probs=52.0

Q ss_pred             HhHHHHHHHHHHhhccC--CCCccccccCCCCHHHHHH--------HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCC
Q psy5288           6 QKARQLVAEAEKKISSS--SKGFFSQFTGGNKTDEAID--------LYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNN   75 (186)
Q Consensus         6 ~~~~~~~~~a~~~~~~~--~~~~~~~~~~~~~~~~A~~--------~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~   75 (186)
                      ++|..+++.+.+.++++  -+.+...+-+-|+++++.+        .+...|..+...|++++|..+|.++         
T Consensus        78 EeAi~yl~~ark~~~~~~i~~~Li~~Y~Klg~l~e~e~f~~~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------  148 (449)
T 1b89_A           78 EELVKYLQMARKKARESYVETELIFALAKTNRLAELEEFINGPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------  148 (449)
T ss_dssp             -------------------------------CHHHHTTTTTCC----------------CTTTHHHHHHHT---------
T ss_pred             HHHHHHHHHHHHhCccchhHHHHHHHHHHhCCHHHHHHHHcCCcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------
Confidence            55666666666654311  0011111112345544433        4566677788888888888887654         


Q ss_pred             hhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHH---------HHHcCChhHHH----------HHHHHHHHHHHHhcCC
Q psy5288          76 KHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEI---------HTDMGRFIMVA----------KHHENIAEIYEKELED  135 (186)
Q Consensus        76 ~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i---------~~~~~~~~~~a----------~~~~~lg~~y~~~lg~  135 (186)
                           ..|.+++.++..+ ++++|+++|++|..+         +.+.|+++.+-          .....+..+|+.. |.
T Consensus       149 -----~n~~~LA~~L~~Lg~yq~AVea~~KA~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~~~ad~l~~lv~~Yek~-G~  222 (449)
T 1b89_A          149 -----SNFGRLASTLVHLGEYQAAVDGARKANSTRTWKEVCFACVDGKEFRLAQMCGLHIVVHADELEELINYYQDR-GY  222 (449)
T ss_dssp             -----TCHHHHHHHHHTTTCHHHHHHHHHHHTCHHHHHHHHHHHHHTTCHHHHHHTTTTTTTCHHHHHHHHHHHHHT-TC
T ss_pred             -----hhHHHHHHHHHHhccHHHHHHHHHHcCCchhHHHHHHHHHHcCcHHHHHHHHHHHHhCHhhHHHHHHHHHHC-CC
Confidence                 3455556666555 566666666665322         12223222221          1233456788884 99


Q ss_pred             HHHHHHHHHHHHHHH
Q psy5288         136 QEKAIDHYQHAADCY  150 (186)
Q Consensus       136 ~~~Ai~~y~kA~~l~  150 (186)
                      +++|+.++++++.+-
T Consensus       223 ~eEai~lLe~aL~le  237 (449)
T 1b89_A          223 FEELITMLEAALGLE  237 (449)
T ss_dssp             HHHHHHHHHHHTTST
T ss_pred             HHHHHHHHHHHhCCc
Confidence            999999998887653

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=98.31  E-value=3.3e-06  Score=54.30  Aligned_cols=61  Identities=18%  Similarity=0.208  Sum_probs=38.8

Q ss_pred             HHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHH-HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhcc
Q psy5288          86 AANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAK-HHENIAEIYEKELEDQEKAIDHYQHAADCYAGE  153 (186)
Q Consensus        86 a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~-~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~  153 (186)
                      .|.++... ++++|+..|++++++....      .. .+..+|.+|... |++++|+.+|++++.+.+..
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~p~~------~~~~~~~lg~~~~~~-~~~~~A~~~~~~al~~~p~~   68 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTEPVG------KDEAYYLMGNAYRKL-GDWQKALNNYQSAIELNPDS   68 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCSST------HHHHHHHHHHHHHHH-TCHHHHHHHHHHHHHHCTTS
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCc------HHHHHHHHHHHHHHc-CCHHHHHHHHHHHHhcCCCc
Confidence            34444433 6777777777776653221      23 667777777774 77777777777777776543

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.29  E-value=1.1e-05  Score=62.90  Aligned_cols=96  Identities=14%  Similarity=0.051  Sum_probs=77.6

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCC--hhHHHHHHH
Q psy5288          47 GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGR--FIMVAKHHE  123 (186)
Q Consensus        47 g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~--~~~~a~~~~  123 (186)
                      |.++...+++++|+.+|.++...    .++......+..+|.++..+ ++++|+.+|++++     .+.  +........
T Consensus       142 a~l~~~~~r~~dA~~~l~~a~~~----~d~~~~~~a~~~LG~al~~LG~~~eAl~~l~~a~-----~g~~~P~~~~da~~  212 (282)
T 4f3v_A          142 AVVYGAAERWTDVIDQVKSAGKW----PDKFLAGAAGVAHGVAAANLALFTEAERRLTEAN-----DSPAGEACARAIAW  212 (282)
T ss_dssp             HHHHHHTTCHHHHHHHHTTGGGC----SCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH-----TSTTTTTTHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHhhcc----CCcccHHHHHHHHHHHHHHCCCHHHHHHHHHHHh-----cCCCCccccHHHHH
Confidence            56888999999999999755432    24444456677999999987 9999999999986     233  433677889


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHHHhc
Q psy5288         124 NIAEIYEKELEDQEKAIDHYQHAADCYAG  152 (186)
Q Consensus       124 ~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~  152 (186)
                      .+|.++.. +|+.++|+..|++++...+.
T Consensus       213 ~~glaL~~-lGr~deA~~~l~~a~a~~P~  240 (282)
T 4f3v_A          213 YLAMARRS-QGNESAAVALLEWLQTTHPE  240 (282)
T ss_dssp             HHHHHHHH-HTCHHHHHHHHHHHHHHSCC
T ss_pred             HHHHHHHH-cCCHHHHHHHHHHHHhcCCc
Confidence            99999999 59999999999999998664

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=98.25  E-value=9.4e-05  Score=52.93  Aligned_cols=104  Identities=9%  Similarity=0.009  Sum_probs=82.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCC---hhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCCh--
Q psy5288          82 CFVDAANCYKKSNPAEAIKAIERAVEIHTDMGR---FIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENK--  156 (186)
Q Consensus        82 ~~~~a~~~y~~~~~~~A~~~~~~Al~i~~~~~~---~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~--  156 (186)
                      .+.++-.++....++.|+-....++.+.....+   +...++++..+|..+..+ ++|-+|...|++|+.+.+.....  
T Consensus        23 l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~-~eyrrA~~~y~qALq~~k~l~k~~s  101 (167)
T 3ffl_A           23 VIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHD-KEYRNAVSKYTMALQQKKALSKTSK  101 (167)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHCC-----
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcc-cHHHHHHHHHHHHHHHHHHHhcCCC
Confidence            344455666666899999999998888866554   688899999999999997 99999999999999987743211  


Q ss_pred             -----------------HHHHHHHHHHHHHHHhccCHHHHHHHHHhC
Q psy5288         157 -----------------SSANKCLIKIANYSALTDHLDKAIKLYEQL  186 (186)
Q Consensus       157 -----------------~~~~~~~~~la~~y~~~g~~~~A~~~~~~~  186 (186)
                                       ....++..+++.||.++|++++|+.+++.|
T Consensus       102 ~~~~~~~~ss~p~s~~~~~e~Elkykia~C~~~l~~~~~Ai~~Le~I  148 (167)
T 3ffl_A          102 VRPSTGNSASTPQSQCLPSEIEVKYKLAECYTVLKQDKDAIAILDGI  148 (167)
T ss_dssp             ---------------CCCCHHHHHHHHHHHHHHTTCHHHHHHHHHTS
T ss_pred             ccccccccCCCcccccccchHHHHHHHHHHHHHHCCHHHHHHHHhcC
Confidence                             112367889999999999999999998764

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=98.20  E-value=5.1e-06  Score=53.37  Aligned_cols=56  Identities=13%  Similarity=0.082  Sum_probs=49.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHH-HHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         123 ENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANK-CLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       123 ~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~-~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      .+.|.++... |++++|+..|++++.+.+..      .. ++.++|.+|...|++++|++.|++
T Consensus         4 ~~~a~~~~~~-~~~~~A~~~~~~al~~~p~~------~~~~~~~lg~~~~~~~~~~~A~~~~~~   60 (99)
T 2kc7_A            4 LKTIKELINQ-GDIENALQALEEFLQTEPVG------KDEAYYLMGNAYRKLGDWQKALNNYQS   60 (99)
T ss_dssp             HHHHHHHHHH-TCHHHHHHHHHHHHHHCSST------HHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHc-CCHHHHHHHHHHHHHHCCCc------HHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            4678888885 99999999999999986643      25 889999999999999999999986

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=98.17  E-value=3e-05  Score=51.00  Aligned_cols=71  Identities=11%  Similarity=0.012  Sum_probs=58.1

Q ss_pred             HHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCC-hhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhcc
Q psy5288          81 LCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGR-FIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGE  153 (186)
Q Consensus        81 ~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~-~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~  153 (186)
                      .++ .+|..+... ++..|+.+|++|++....... ....+.++..+|.+|.. +|+++.|+.++++|+.+.+..
T Consensus         7 dc~-~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~-~g~~~~A~~~~~~al~l~P~~   79 (104)
T 2v5f_A            7 DCF-ELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQ-QGDLDKALLLTKKLLELDPEH   79 (104)
T ss_dssp             HHH-HHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHCTTC
T ss_pred             HHH-HHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHH-ccCHHHHHHHHHHHHhcCCCC
Confidence            444 788877765 999999999999998865532 23456789999999999 599999999999999987654

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=98.12  E-value=8.1e-05  Score=60.10  Aligned_cols=137  Identities=7%  Similarity=-0.027  Sum_probs=93.0

Q ss_pred             CHHHHHHHHHHHHHHHHh--cCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-----CHHHHHHHHHHHHH
Q psy5288          35 KTDEAIDLYVRAGNLFKL--GKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-----NPAEAIKAIERAVE  107 (186)
Q Consensus        35 ~~~~A~~~y~~ag~~~~~--~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-----~~~~A~~~~~~Al~  107 (186)
                      .-.+|.++|.++-..+..  ..++.+|+.+|++|+++     +|..+. ++..++.+|...     .....+....+++.
T Consensus       192 ~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~l-----DP~~a~-A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~  265 (372)
T 3ly7_A          192 HRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQS-----SPEFTY-ARAEKALVDIVRHSQHPLDEKQLAALNTEID  265 (372)
T ss_dssp             SSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHH-----CTTCHH-HHHHHHHHHHHHHHHSCCCHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHh-----CCCCHH-HHHHHHHHHHHHhccCCCchhhHHHHHHHHH
Confidence            346899999998554443  34468999999999998     676432 233344444321     11223333444444


Q ss_pred             HHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         108 IHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       108 i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      -......-+..+.++.-++.++... |++++|+.++++|+.+.+     .  ...+.-+|.++.-.|++++|++.|++
T Consensus       266 a~~a~~~~~~~a~~~~alal~~l~~-gd~d~A~~~l~rAl~Ln~-----s--~~a~~llG~~~~~~G~~~eA~e~~~~  335 (372)
T 3ly7_A          266 NIVTLPELNNLSIIYQIKAVSALVK-GKTDESYQAINTGIDLEM-----S--WLNYVLLGKVYEMKGMNREAADAYLT  335 (372)
T ss_dssp             HHHTCGGGTTCHHHHHHHHHHHHHH-TCHHHHHHHHHHHHHHCC-----C--HHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHhcccCCcCHHHHHHHHHHHHhC-CCHHHHHHHHHHHHhcCC-----C--HHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            3333333344566888888888775 999999999999999942     1  24668889999999999999999975

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=98.03  E-value=4.8e-05  Score=64.89  Aligned_cols=131  Identities=8%  Similarity=-0.005  Sum_probs=98.4

Q ss_pred             HHHHHHHHHHH--------------HHHHHhcCC----------HHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHh
Q psy5288          36 TDEAIDLYVRA--------------GNLFKLGKK----------WNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYK   91 (186)
Q Consensus        36 ~~~A~~~y~~a--------------g~~~~~~g~----------~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~   91 (186)
                      -++|++++.++              +.++...|+          ++++++++.+++..     +|...-. |..=+-+..
T Consensus        45 ~eeal~~~~~~l~~nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~-----~pK~y~a-W~hR~w~l~  118 (567)
T 1dce_A           45 DESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRV-----NPKSYGT-WHHRCWLLS  118 (567)
T ss_dssp             SHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHH-----CTTCHHH-HHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHCchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHh-----CCCCHHH-HHHHHHHHH
Confidence            35778888888              445666777          89999999999987     4443333 333344444


Q ss_pred             cC---CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHhccCChHHHHHHHHHHH
Q psy5288          92 KS---NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELE-DQEKAIDHYQHAADCYAGEENKSSANKCLIKIA  167 (186)
Q Consensus        92 ~~---~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg-~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la  167 (186)
                      ..   ++++++.++.+++++...+      ..++..-+.+... +| .+++++++++++++..+.+      ...|.+.+
T Consensus       119 ~l~~~~~~~el~~~~k~l~~d~~N------~~aW~~R~~~l~~-l~~~~~~el~~~~~~I~~~p~n------~saW~~r~  185 (567)
T 1dce_A          119 RLPEPNWARELELCARFLEADERN------FHCWDYRRFVAAQ-AAVAPAEELAFTDSLITRNFSN------YSSWHYRS  185 (567)
T ss_dssp             TCSSCCHHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHH-TCCCHHHHHHHHHTTTTTTCCC------HHHHHHHH
T ss_pred             HcccccHHHHHHHHHHHHhhcccc------ccHHHHHHHHHHH-cCCChHHHHHHHHHHHHHCCCC------ccHHHHHH
Confidence            43   6799999999999987665      3378888888888 58 8999999999999986654      36888888


Q ss_pred             HHHHhc--------------cCHHHHHHHHHh
Q psy5288         168 NYSALT--------------DHLDKAIKLYEQ  185 (186)
Q Consensus       168 ~~y~~~--------------g~~~~A~~~~~~  185 (186)
                      .++..+              +.+++|++++++
T Consensus       186 ~ll~~l~~~~~~~~~~~~~~~~~~eel~~~~~  217 (567)
T 1dce_A          186 CLLPQLHPQPDSGPQGRLPENVLLKELELVQN  217 (567)
T ss_dssp             HHHHHHSCCCCSSSCCSSCHHHHHHHHHHHHH
T ss_pred             HHHHhhcccccccccccccHHHHHHHHHHHHH
Confidence            888774              668999988865

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=97.98  E-value=0.0014  Score=51.82  Aligned_cols=150  Identities=10%  Similarity=0.002  Sum_probs=90.9

Q ss_pred             CCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHh-------------------cCC
Q psy5288          34 NKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYK-------------------KSN   94 (186)
Q Consensus        34 ~~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~-------------------~~~   94 (186)
                      |+|-+|-..|.-....|.+++++++|++.....+..+-+.|....++..-.-+.++|.                   ...
T Consensus        27 G~yYEAhQ~~Rtl~~Ry~~~~~~~eAidlL~~ga~~ll~~~Q~~sa~DLa~llvev~~~~~~~~~~~~~~rl~~l~~~~p  106 (312)
T 2wpv_A           27 GDYYEAHQTLRTIANRYVRSKSYEHAIELISQGALSFLKAKQGGSGTDLIFYLLEVYDLAEVKVDDISVARLVRLIAELD  106 (312)
T ss_dssp             TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCCSHHHHHHHHHHHTTCC
T ss_pred             cChHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCC
Confidence            4666666666666666666666666666655555555555555544444333344443                   321


Q ss_pred             --HHHHHHHHHHHHHHHHHcCC-hhHHHHHHHHHHHHHHHhcCCHHHHHHHHHH------------HHHHHhcc--CChH
Q psy5288          95 --PAEAIKAIERAVEIHTDMGR-FIMVAKHHENIAEIYEKELEDQEKAIDHYQH------------AADCYAGE--ENKS  157 (186)
Q Consensus        95 --~~~A~~~~~~Al~i~~~~~~-~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~k------------A~~l~~~~--~~~~  157 (186)
                        ...=..+..+++.-..+.|. ..+-...+..+|..|... +++.+|..+|--            ..+++...  +.+.
T Consensus       107 ~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e-~~~~~A~~H~i~~~~~s~~~~a~~l~~w~~~~~~~~~~  185 (312)
T 2wpv_A          107 PSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEG-DFVYEAERYFMLGTHDSMIKYVDLLWDWLCQVDDIEDS  185 (312)
T ss_dssp             TTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHT-TCHHHHHHHHHTSCHHHHHHHHHHHHHHHHHTTCCCHH
T ss_pred             CCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhc-CCHHHHHHHHHhCCCccHHHHHHHHHHHHHhcCCCCcc
Confidence              11124566677777766643 455567899999999997 999999988731            12223222  4555


Q ss_pred             HHHHHHHHHHHHHHhccCHHHHHHHHH
Q psy5288         158 SANKCLIKIANYSALTDHLDKAIKLYE  184 (186)
Q Consensus       158 ~~~~~~~~la~~y~~~g~~~~A~~~~~  184 (186)
                      ...-...+....|..+|+...|...|+
T Consensus       186 e~dlf~~RaVL~yL~l~n~~~A~~~~~  212 (312)
T 2wpv_A          186 TVAEFFSRLVFNYLFISNISFAHESKD  212 (312)
T ss_dssp             HHHHHHHHHHHHHHHTTBHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            544444555556788999999988875

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=97.91  E-value=0.00021  Score=56.45  Aligned_cols=129  Identities=9%  Similarity=-0.035  Sum_probs=87.8

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHH
Q psy5288          44 VRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHH  122 (186)
Q Consensus        44 ~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~  122 (186)
                      .-+|.++...|++++|++.+.+.+..    +.......++..++.++... +++.|.+.+++..++..+.-+.+..  +.
T Consensus       104 ~~la~i~~~~g~~eeAL~~l~~~i~~----~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~~~~d~~~~~d~--~l  177 (310)
T 3mv2_B          104 YLLATAQAILGDLDKSLETCVEGIDN----DEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTNAIEDTVSGDNE--MI  177 (310)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHTS----SCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCHHHHHHHH--HH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHhcc----CCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCccccccchH--HH
Confidence            47789999999999999999887543    11135677788889999887 9999999998865543210001122  33


Q ss_pred             HHHHHH--HHHh-cCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         123 ENIAEI--YEKE-LEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       123 ~~lg~~--y~~~-lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ..++..  .... .+++++|+..|+++.+-++..    .....+.+   ++..+|++++|.+.++.
T Consensus       178 ~~Laea~v~l~~g~~~~q~A~~~f~El~~~~p~~----~~~~lLln---~~~~~g~~~eAe~~L~~  236 (310)
T 3mv2_B          178 LNLAESYIKFATNKETATSNFYYYEELSQTFPTW----KTQLGLLN---LHLQQRNIAEAQGIVEL  236 (310)
T ss_dssp             HHHHHHHHHHHHTCSTTTHHHHHHHHHHTTSCSH----HHHHHHHH---HHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCccHHHHHHHHHHHHHhCCCc----ccHHHHHH---HHHHcCCHHHHHHHHHH
Confidence            444433  3332 148999999999987765430    11233344   89999999999998864

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=97.88  E-value=0.00072  Score=53.28  Aligned_cols=130  Identities=9%  Similarity=0.037  Sum_probs=90.4

Q ss_pred             HHHHHHHHHH--------------HHHHHhcC--CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHH----hc----
Q psy5288          37 DEAIDLYVRA--------------GNLFKLGK--KWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCY----KK----   92 (186)
Q Consensus        37 ~~A~~~y~~a--------------g~~~~~~g--~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y----~~----   92 (186)
                      ++|+.++.++              +.+...+|  +++++++++.+++.+     +|..... +..=+.+.    ..    
T Consensus        50 ~~aL~~t~~~L~~nP~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~-----nPk~y~a-W~~R~~iL~~~~~~l~~~  123 (306)
T 3dra_A           50 ERALHITELGINELASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALD-----NEKNYQI-WNYRQLIIGQIMELNNND  123 (306)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHH-----CTTCCHH-HHHHHHHHHHHHHHTTTC
T ss_pred             HHHHHHHHHHHHHCcHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHH-----CcccHHH-HHHHHHHHHHHHHhcccc
Confidence            5788888887              44566777  899999999998886     3332211 11112222    11    


Q ss_pred             CCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHH--HHHHHHHHHHHHHhccCChHHHHHHHHHHHHHH
Q psy5288          93 SNPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQE--KAIDHYQHAADCYAGEENKSSANKCLIKIANYS  170 (186)
Q Consensus        93 ~~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~--~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y  170 (186)
                      .++++++.++.+++++..++      ..++..-+.+... +|.++  +++++++++++..+.+      ..+|.+.+.++
T Consensus       124 ~~~~~EL~~~~~~l~~~pkn------y~aW~~R~~vl~~-l~~~~~~~EL~~~~~~i~~d~~N------~sAW~~R~~ll  190 (306)
T 3dra_A          124 FDPYREFDILEAMLSSDPKN------HHVWSYRKWLVDT-FDLHNDAKELSFVDKVIDTDLKN------NSAWSHRFFLL  190 (306)
T ss_dssp             CCTHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHH-TTCTTCHHHHHHHHHHHHHCTTC------HHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCCC------HHHHHHHHHHHHH-hcccChHHHHHHHHHHHHhCCCC------HHHHHHHHHHH
Confidence            36788888888888766544      3367777778777 58888  8888888888876654      26777778888


Q ss_pred             HhccC------HHHHHHHHHh
Q psy5288         171 ALTDH------LDKAIKLYEQ  185 (186)
Q Consensus       171 ~~~g~------~~~A~~~~~~  185 (186)
                      ..+|+      ++++++++++
T Consensus       191 ~~l~~~~~~~~~~eEl~~~~~  211 (306)
T 3dra_A          191 FSKKHLATDNTIDEELNYVKD  211 (306)
T ss_dssp             HSSGGGCCHHHHHHHHHHHHH
T ss_pred             HhccccchhhhHHHHHHHHHH
Confidence            87777      8888887754

>3txn_A 26S proteasome regulatory complex subunit P42B; PCI domain, alpha solenoid, regulatory PART LID, hydrolase, protein binding; 2.50A {Drosophila melanogaster} PDB: 3txm_A

Probab=97.81  E-value=0.0091  Score=48.62  Aligned_cols=147  Identities=9%  Similarity=-0.060  Sum_probs=113.9

Q ss_pred             HHHHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCC
Q psy5288          37 DEAIDLYVRAGNLFKL-GKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGR  114 (186)
Q Consensus        37 ~~A~~~y~~ag~~~~~-~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~  114 (186)
                      .++++.-....+.|.. -+..+.-++....+++..+.-+...--...-.++|.+|... ++.+|+..+.+..+-.+..++
T Consensus        55 ak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~~~r~flr~~l~~kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd  134 (394)
T 3txn_A           55 AKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWAKQEKRTFLRQSLEARLIALYFDTALYTEALALGAQLLRELKKLDD  134 (394)
T ss_dssp             HHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSSC
T ss_pred             HHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhcccc
Confidence            4555555555555543 34566667777777777665544443334445888888876 999999999999998888888


Q ss_pred             hhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhcc-CChHHHHHHHHHHHHHHH-hccCHHHHHHHHH
Q psy5288         115 FIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGE-ENKSSANKCLIKIANYSA-LTDHLDKAIKLYE  184 (186)
Q Consensus       115 ~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~-~~~~~~~~~~~~la~~y~-~~g~~~~A~~~~~  184 (186)
                      ....-.++..-..+|.. ++++.++..+|.+|..+.... .+|...+....--|..+. ..++|..|..+|-
T Consensus       135 ~~~llev~lle~~~~~~-~~n~~k~k~~l~~a~~~~~ai~~~p~i~a~i~~~~Gi~~l~~~rdyk~A~~~F~  205 (394)
T 3txn_A          135 KNLLVEVQLLESKTYHA-LSNLPKARAALTSARTTANAIYCPPKVQGALDLQSGILHAADERDFKTAFSYFY  205 (394)
T ss_dssp             THHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTSCHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHH-hccHHHHHHHHHHHHhhhccCCCCHHHHHHHHHHhhHHHHHhccCHHHHHHHHH
Confidence            88888899999999999 599999999999999987654 567777777788888899 8999999999884

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=97.79  E-value=0.00074  Score=53.32  Aligned_cols=135  Identities=10%  Similarity=0.035  Sum_probs=88.7

Q ss_pred             CCHHHHHHHHHHH----------------HHHHHhcCCHHHHHHHHHHHHHHHHHcCCh-----hHHHHHHHHHHHH---
Q psy5288          34 NKTDEAIDLYVRA----------------GNLFKLGKKWNDGGNAFLQAGTLHLKNNNK-----HDAGLCFVDAANC---   89 (186)
Q Consensus        34 ~~~~~A~~~y~~a----------------g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~-----~~aa~~~~~a~~~---   89 (186)
                      |++++|+.++.+.                ..++..+|+++.|...+.+..++     ++     +....  ..++..   
T Consensus       114 g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~~-----~~d~~~~~d~~l--~~Laea~v~  186 (310)
T 3mv2_B          114 GDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTNA-----IEDTVSGDNEMI--LNLAESYIK  186 (310)
T ss_dssp             TCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----SCHHHHHHHHHH--HHHHHHHHH
T ss_pred             CCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc-----CccccccchHHH--HHHHHHHHH
Confidence            6777777777766                34688899999999988887666     34     12222  233333   


Q ss_pred             -HhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCCh----HHHHHHH
Q psy5288          90 -YKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENK----SSANKCL  163 (186)
Q Consensus        90 -y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~----~~~~~~~  163 (186)
                       .... ++.+|...|++..+-+   ++ ......+.+   ++.. +|++++|...+++....+++.+..    +.-..++
T Consensus       187 l~~g~~~~q~A~~~f~El~~~~---p~-~~~~~lLln---~~~~-~g~~~eAe~~L~~l~~~~p~~~~k~~~~p~~~~~L  258 (310)
T 3mv2_B          187 FATNKETATSNFYYYEELSQTF---PT-WKTQLGLLN---LHLQ-QRNIAEAQGIVELLLSDYYSVEQKENAVLYKPTFL  258 (310)
T ss_dssp             HHHTCSTTTHHHHHHHHHHTTS---CS-HHHHHHHHH---HHHH-HTCHHHHHHHHHHHHSHHHHTTTCHHHHSSHHHHH
T ss_pred             HHhCCccHHHHHHHHHHHHHhC---CC-cccHHHHHH---HHHH-cCCHHHHHHHHHHHHHhcccccccccCCCCCHHHH
Confidence             2222 7889999998854322   22 122333444   7787 499999999999888887542110    1124788


Q ss_pred             HHHHHHHHhccCHHHHHHHHHh
Q psy5288         164 IKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       164 ~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      .|+..+...+|+  +|.+++++
T Consensus       259 aN~i~l~~~lgk--~a~~l~~q  278 (310)
T 3mv2_B          259 ANQITLALMQGL--DTEDLTNQ  278 (310)
T ss_dssp             HHHHHHHHHTTC--TTHHHHHH
T ss_pred             HHHHHHHHHhCh--HHHHHHHH
Confidence            888888888887  77777765

>3txn_A 26S proteasome regulatory complex subunit P42B; PCI domain, alpha solenoid, regulatory PART LID, hydrolase, protein binding; 2.50A {Drosophila melanogaster} PDB: 3txm_A

Probab=97.78  E-value=0.0036  Score=50.96  Aligned_cols=111  Identities=13%  Similarity=-0.011  Sum_probs=97.8

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHc-CChhHHHHHH
Q psy5288          45 RAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDM-GRFIMVAKHH  122 (186)
Q Consensus        45 ~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~-~~~~~~a~~~  122 (186)
                      +.|.+|...|+|.+|..++.+..+-.+++++.......+..-.++|... ++.++...|.+|..+.... .++...+.+.
T Consensus       104 kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai~~~p~i~a~i~  183 (394)
T 3txn_A          104 RLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPPKVQGALD  183 (394)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccCCCCHHHHHHHH
Confidence            4477899999999999999999999988888888888888888888877 9999999999999998776 7788899999


Q ss_pred             HHHHHHHH-HhcCCHHHHHHHHHHHHHHHhccCCh
Q psy5288         123 ENIAEIYE-KELEDQEKAIDHYQHAADCYAGEENK  156 (186)
Q Consensus       123 ~~lg~~y~-~~lg~~~~Ai~~y~kA~~l~~~~~~~  156 (186)
                      .--|.++. .. ++|..|..+|-+|..-|...+.+
T Consensus       184 ~~~Gi~~l~~~-rdyk~A~~~F~eaf~~f~~~~~~  217 (394)
T 3txn_A          184 LQSGILHAADE-RDFKTAFSYFYEAFEGFDSVDSV  217 (394)
T ss_dssp             HHHHHHHHHTT-SCHHHHHHHHHHHHHHHTTTCHH
T ss_pred             HHhhHHHHHhc-cCHHHHHHHHHHHHhcccccccH
Confidence            99999999 76 99999999999999888766544

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=97.72  E-value=0.0011  Score=52.20  Aligned_cols=131  Identities=9%  Similarity=-0.057  Sum_probs=96.9

Q ss_pred             CCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhc-C--CHHHHHHHHHHHHHHH
Q psy5288          33 GNKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKK-S--NPAEAIKAIERAVEIH  109 (186)
Q Consensus        33 ~~~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~-~--~~~~A~~~~~~Al~i~  109 (186)
                      +.+|.++...+...   .......++|+.++.+++.+     +|.....-. .=+.+... .  ++++++.++.+++.+.
T Consensus        29 ~~~y~~~~~~~~a~---~~~~e~s~~aL~~t~~~L~~-----nP~~~taWn-~R~~~L~~l~~~~~~eeL~~~~~~L~~n   99 (306)
T 3dra_A           29 DEDYKQIMGLLLAL---MKAEEYSERALHITELGINE-----LASHYTIWI-YRFNILKNLPNRNLYDELDWCEEIALDN   99 (306)
T ss_dssp             CHHHHHHHHHHHHH---HHTTCCSHHHHHHHHHHHHH-----CTTCHHHHH-HHHHHHHTCTTSCHHHHHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHH---HHcCCCCHHHHHHHHHHHHH-----CcHHHHHHH-HHHHHHHHcccccHHHHHHHHHHHHHHC
Confidence            45666666666553   44455567999999999998     566544333 33444433 3  7999999999999877


Q ss_pred             HHcCChhHHHHHHHHHHHHH----HHhc---CCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHH--HHH
Q psy5288         110 TDMGRFIMVAKHHENIAEIY----EKEL---EDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLD--KAI  180 (186)
Q Consensus       110 ~~~~~~~~~a~~~~~lg~~y----~~~l---g~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~--~A~  180 (186)
                      .+.-.      ++..-+.++    .. +   +++++++.+++++++..+++      ..+|.+.+-++..+|.++  +++
T Consensus       100 Pk~y~------aW~~R~~iL~~~~~~-l~~~~~~~~EL~~~~~~l~~~pkn------y~aW~~R~~vl~~l~~~~~~~EL  166 (306)
T 3dra_A          100 EKNYQ------IWNYRQLIIGQIMEL-NNNDFDPYREFDILEAMLSSDPKN------HHVWSYRKWLVDTFDLHNDAKEL  166 (306)
T ss_dssp             TTCCH------HHHHHHHHHHHHHHH-TTTCCCTHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHHTTCTTCHHHH
T ss_pred             cccHH------HHHHHHHHHHHHHHh-ccccCCHHHHHHHHHHHHHhCCCC------HHHHHHHHHHHHHhcccChHHHH
Confidence            66643      555556666    44 4   78999999999999998765      378999999999999998  999


Q ss_pred             HHHHh
Q psy5288         181 KLYEQ  185 (186)
Q Consensus       181 ~~~~~  185 (186)
                      +++++
T Consensus       167 ~~~~~  171 (306)
T 3dra_A          167 SFVDK  171 (306)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            98875

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=97.66  E-value=0.0015  Score=55.64  Aligned_cols=128  Identities=9%  Similarity=0.018  Sum_probs=93.9

Q ss_pred             HHHHHHHHHHH---HhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-C----------HHHHHHHHHH
Q psy5288          40 IDLYVRAGNLF---KLGK-KWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-N----------PAEAIKAIER  104 (186)
Q Consensus        40 ~~~y~~ag~~~---~~~g-~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~----------~~~A~~~~~~  104 (186)
                      +..|..+-..+   ...| ..++|++++.+++.+     +|.... +|..=+.+.... +          +++++.++.+
T Consensus        25 ~~~y~~~~~~~~~~~~~~~~~eeal~~~~~~l~~-----nP~~~t-aW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~   98 (567)
T 1dce_A           25 LKLYQSATQAVFQKRQAGELDESVLELTSQILGA-----NPDFAT-LWNCRREVLQHLETEKSPEESAALVKAELGFLES   98 (567)
T ss_dssp             HHHHHHHHHHHHHHHHTTCCSHHHHHHHHHHHHH-----CTTCHH-HHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHH-----CchhHH-HHHHHHHHHHhcccccchhhhhhhHHHHHHHHHH
Confidence            44455543322   2334 456779999999998     555433 333334444443 3          8999999999


Q ss_pred             HHHHHHHcCChhHHHHHHHHHHHHHHHhcC--CHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhcc-CHHHHHH
Q psy5288         105 AVEIHTDMGRFIMVAKHHENIAEIYEKELE--DQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTD-HLDKAIK  181 (186)
Q Consensus       105 Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg--~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g-~~~~A~~  181 (186)
                      ++++..+.      ..++..-+.++.. ++  +++++++++++++++.+++      ..+|.+.+.++...| .++++++
T Consensus        99 ~l~~~pK~------y~aW~hR~w~l~~-l~~~~~~~el~~~~k~l~~d~~N------~~aW~~R~~~l~~l~~~~~~el~  165 (567)
T 1dce_A           99 CLRVNPKS------YGTWHHRCWLLSR-LPEPNWARELELCARFLEADERN------FHCWDYRRFVAAQAAVAPAEELA  165 (567)
T ss_dssp             HHHHCTTC------HHHHHHHHHHHHT-CSSCCHHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHHTCCCHHHHHH
T ss_pred             HHHhCCCC------HHHHHHHHHHHHH-cccccHHHHHHHHHHHHhhcccc------ccHHHHHHHHHHHcCCChHHHHH
Confidence            98766554      3478888999888 69  7799999999999997765      378999999999999 9999999


Q ss_pred             HHHhC
Q psy5288         182 LYEQL  186 (186)
Q Consensus       182 ~~~~~  186 (186)
                      ++++.
T Consensus       166 ~~~~~  170 (567)
T 1dce_A          166 FTDSL  170 (567)
T ss_dssp             HHHTT
T ss_pred             HHHHH
Confidence            98763

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.65  E-value=0.00022  Score=46.05  Aligned_cols=61  Identities=16%  Similarity=0.054  Sum_probs=50.3

Q ss_pred             HHHHHHHHHHHHHhcCC---HHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHhC
Q psy5288         119 AKHHENIAEIYEKELED---QEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQL  186 (186)
Q Consensus       119 a~~~~~lg~~y~~~lg~---~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~~  186 (186)
                      +..+..+|.++... ++   .++|..++++|+.+.+++      ...+..+|.++...|+|++|+.+++++
T Consensus         6 ~~~~~~~a~al~~~-~~~~~~~~A~~~l~~AL~~dp~~------~rA~~~lg~~~~~~g~y~~Ai~~w~~~   69 (93)
T 3bee_A            6 ATQLAAKATTLYYL-HKQAMTDEVSLLLEQALQLEPYN------EAALSLIANDHFISFRFQEAIDTWVLL   69 (93)
T ss_dssp             HHHHHHHHHHHHHT-TTTCCCHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh-cCCCCCHHHHHHHHHHHHHCcCC------HHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            45677788887643 44   799999999999997764      368889999999999999999999864

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=97.58  E-value=0.011  Score=46.97  Aligned_cols=146  Identities=14%  Similarity=0.162  Sum_probs=85.0

Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHH-------------------HHHHHHhcCCH--
Q psy5288          37 DEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFV-------------------DAANCYKKSNP--   95 (186)
Q Consensus        37 ~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~-------------------~a~~~y~~~~~--   95 (186)
                      -+|-..|.-....|...++|++|++.....+..+-+.|....++..-.                   ++.+++....+  
T Consensus        32 YEAHQ~~RTi~~Ry~~~k~y~eAidLL~~GA~~ll~~~Q~~sg~DL~~llvevy~~~~~~~~~~~~~rL~~L~~~~~~~~  111 (336)
T 3lpz_A           32 YEAAQETRLVAARYSKQGNWAAAVDILASVSQTLLRSGQGGSGGDLAVLLVDTFRQAGQRVDGASRGKLLGCLRLFQPGE  111 (336)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTSCTTC
T ss_pred             cHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCCC
Confidence            555555555555555555555555555555555555554444443333                   44444443311  


Q ss_pred             HHHHHHHHHHHHHHHHcC-ChhHHHHHHHHHHHHHHHhcCCHHHHHHHHH------------HHHHHHhccCChHHHHHH
Q psy5288          96 AEAIKAIERAVEIHTDMG-RFIMVAKHHENIAEIYEKELEDQEKAIDHYQ------------HAADCYAGEENKSSANKC  162 (186)
Q Consensus        96 ~~A~~~~~~Al~i~~~~~-~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~------------kA~~l~~~~~~~~~~~~~  162 (186)
                      ..=..+..+|+.-..+.| ...+-...+..+|.+|... +++.+|..+|-            -..+++... .+....-.
T Consensus       112 p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e-~~~~~Ae~H~ilg~~~s~~~~a~mL~ew~~~~-~~~e~dlf  189 (336)
T 3lpz_A          112 PVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEE-GEFEAAEKHLVLGTKESPEVLARMEYEWYKQD-ESHTAPLY  189 (336)
T ss_dssp             HHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHT-TCHHHHHHHHTTSCTTHHHHHHHHHHHHHHTS-CGGGHHHH
T ss_pred             cHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHcc-CCHHHHHHHHHhcCCchHHHHHHHHHHHHHhc-CCccHHHH
Confidence            122446666666666544 2444456888899999986 99999988862            112222322 34444445


Q ss_pred             HHHHHHHHHhccCHHHHHHHHH
Q psy5288         163 LIKIANYSALTDHLDKAIKLYE  184 (186)
Q Consensus       163 ~~~la~~y~~~g~~~~A~~~~~  184 (186)
                      ..+....|..+++...|-..|+
T Consensus       190 iaRaVL~yL~l~n~~~A~~~~~  211 (336)
T 3lpz_A          190 CARAVLPYLLVANVRAANTAYR  211 (336)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHH
Confidence            5666667888999999988654

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=97.49  E-value=0.0087  Score=42.71  Aligned_cols=95  Identities=14%  Similarity=0.036  Sum_probs=72.9

Q ss_pred             HHhcCCHHHHHHHHHHHHHHHHHcC---ChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChh---------
Q psy5288          50 FKLGKKWNDGGNAFLQAGTLHLKNN---NKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFI---------  116 (186)
Q Consensus        50 ~~~~g~~~~A~~~y~~a~~~~~~~~---~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~---------  116 (186)
                      ....|.|+.|+-....++.+.....   .+......+.-.|+.+... +|..|...|++|+.+.+...+..         
T Consensus        30 L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~~k~l~k~~s~~~~~~~~  109 (167)
T 3ffl_A           30 MAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQKKALSKTSKVRPSTGNS  109 (167)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCC-------------
T ss_pred             HHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHhcCCCcccccccc
Confidence            3456789999999988888876544   3666777787888887765 99999999999999987553222         


Q ss_pred             ----------HHHHHHHHHHHHHHHhcCCHHHHHHHHHH
Q psy5288         117 ----------MVAKHHENIAEIYEKELEDQEKAIDHYQH  145 (186)
Q Consensus       117 ----------~~a~~~~~lg~~y~~~lg~~~~Ai~~y~k  145 (186)
                                .-..+-.+++.||.. ++++++||..++.
T Consensus       110 ss~p~s~~~~~e~Elkykia~C~~~-l~~~~~Ai~~Le~  147 (167)
T 3ffl_A          110 ASTPQSQCLPSEIEVKYKLAECYTV-LKQDKDAIAILDG  147 (167)
T ss_dssp             -------CCCCHHHHHHHHHHHHHH-TTCHHHHHHHHHT
T ss_pred             CCCcccccccchHHHHHHHHHHHHH-HCCHHHHHHHHhc
Confidence                      123678999999999 6999999988654

>3dss_A Geranylgeranyl transferase type-2 subunit alpha; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} PDB: 3dst_A* 3dsu_A* 3dsv_A* 3dsw_A* 3dsx_A* 3hxb_A* 3hxc_A* 3hxd_A* 3hxe_A* 3hxf_A* 3pz1_A* 3pz2_A* 3pz3_A* 3c72_A* 4gtv_A* 4gts_A* 4ehm_A* 4gtt_A*

Probab=97.41  E-value=0.0034  Score=49.96  Aligned_cols=134  Identities=7%  Similarity=-0.045  Sum_probs=94.3

Q ss_pred             CCCHH-HHHHHHHHHH--------------HHHHhcCC----------HHHHHHHHHHHHHHHHHcCChhHHHHHHHHHH
Q psy5288          33 GNKTD-EAIDLYVRAG--------------NLFKLGKK----------WNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAA   87 (186)
Q Consensus        33 ~~~~~-~A~~~y~~ag--------------~~~~~~g~----------~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~   87 (186)
                      +++++ +|+.++..+.              .+....+.          +++++.++..++..     +|..- .++..=+
T Consensus        42 ~~e~s~eaL~~t~~~L~~nP~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~-----~PKny-~aW~hR~  115 (331)
T 3dss_A           42 AGELDESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRV-----NPKSY-GTWHHRC  115 (331)
T ss_dssp             TTCCSHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHH-----CTTCH-HHHHHHH
T ss_pred             cCCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHh-----CCCCH-HHHHHHH
Confidence            34555 7888888883              34444443          56777887777775     33332 2233333


Q ss_pred             HHHhcC---CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCC-HHHHHHHHHHHHHHHhccCChHHHHHHH
Q psy5288          88 NCYKKS---NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELED-QEKAIDHYQHAADCYAGEENKSSANKCL  163 (186)
Q Consensus        88 ~~y~~~---~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~-~~~Ai~~y~kA~~l~~~~~~~~~~~~~~  163 (186)
                      -+....   .+++++.++.+++++...+..      ++..-+.+... +|. ++++++++.++++..+.+      ..+|
T Consensus       116 wlL~~l~~~~~~~EL~~~~k~l~~dprNy~------AW~~R~~vl~~-l~~~~~eel~~~~~~I~~~p~N------~SAW  182 (331)
T 3dss_A          116 WLLSRLPEPNWARELELCARFLEADERNFH------CWDYRRFVAAQ-AAVAPAEELAFTDSLITRNFSN------YSSW  182 (331)
T ss_dssp             HHHHHCSSCCHHHHHHHHHHHHHHCTTCHH------HHHHHHHHHHH-TTCCHHHHHHHHHHHHHHCSCC------HHHH
T ss_pred             HHHhccCcccHHHHHHHHHHHHHhCCCCHH------HHHHHHHHHHH-hCcCHHHHHHHHHHHHHHCCCC------HHHH
Confidence            444443   489999999999987765533      67778888887 588 699999999999987654      3678


Q ss_pred             HHHHHHHHhc--------------cCHHHHHHHHHh
Q psy5288         164 IKIANYSALT--------------DHLDKAIKLYEQ  185 (186)
Q Consensus       164 ~~la~~y~~~--------------g~~~~A~~~~~~  185 (186)
                      .+.+.++..+              +.++++++++.+
T Consensus       183 ~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~  218 (331)
T 3dss_A          183 HYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQN  218 (331)
T ss_dssp             HHHHHHHHHHSCCC------CCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhccccccccccchHHHHHHHHHHHH
Confidence            8888888776              568889988864

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=97.37  E-value=0.0039  Score=54.28  Aligned_cols=128  Identities=12%  Similarity=0.101  Sum_probs=86.6

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHHHHHc------CChh----------HHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHH
Q psy5288          47 GNLFKLGKKWNDGGNAFLQAGTLHLKN------NNKH----------DAGLCFVDAANCYKKS-NPAEAIKAIERAVEIH  109 (186)
Q Consensus        47 g~~~~~~g~~~~A~~~y~~a~~~~~~~------~~~~----------~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~  109 (186)
                      +.+....|+++.|...|.++++.....      ..|.          .....|...+.+-... +.+.|...|.+|+...
T Consensus       385 a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~  464 (679)
T 4e6h_A          385 SEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLK  464 (679)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTG
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhc
Confidence            445667889999999999998864210      0011          2233455555555444 7888999999887652


Q ss_pred             HHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         110 TDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       110 ~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ...     ...++...+.+.....++++.|...|++++..++..      ...+...+......|+.++|..+|++
T Consensus       465 ~~~-----~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~~p~~------~~~w~~y~~fe~~~~~~~~AR~lfer  529 (679)
T 4e6h_A          465 KLV-----TPDIYLENAYIEYHISKDTKTACKVLELGLKYFATD------GEYINKYLDFLIYVNEESQVKSLFES  529 (679)
T ss_dssp             GGS-----CTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTTC------HHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             CCC-----ChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCCCc------hHHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            111     123556666665542245899999999999998764      24566777788888999999999986

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=97.37  E-value=0.0041  Score=48.58  Aligned_cols=83  Identities=13%  Similarity=0.168  Sum_probs=66.1

Q ss_pred             HHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHH
Q psy5288          95 PAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKE----LEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYS  170 (186)
Q Consensus        95 ~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~----lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y  170 (186)
                      ..+|...+++|+++-..-    .-+.++.-+|.+|...    .|+.++|..+|++|+.+.++.+     ..++...|..+
T Consensus       179 l~~A~a~lerAleLDP~~----~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~-----id~~v~YA~~l  249 (301)
T 3u64_A          179 VHAAVMMLERACDLWPSY----QEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHD-----PDHHITYADAL  249 (301)
T ss_dssp             HHHHHHHHHHHHHHCTTH----HHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTC-----SHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHhCCCc----ccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCC-----chHHHHHHHHH
Confidence            578888899998876542    2345888999999871    2999999999999999987432     25777889999


Q ss_pred             Hhc-cCHHHHHHHHHhC
Q psy5288         171 ALT-DHLDKAIKLYEQL  186 (186)
Q Consensus       171 ~~~-g~~~~A~~~~~~~  186 (186)
                      ... |+++.|..+++++
T Consensus       250 ~~~~gd~~~a~~~L~kA  266 (301)
T 3u64_A          250 CIPLNNRAGFDEALDRA  266 (301)
T ss_dssp             TTTTTCHHHHHHHHHHH
T ss_pred             HHhcCCHHHHHHHHHHH
Confidence            885 9999999999863

>3dss_A Geranylgeranyl transferase type-2 subunit alpha; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} PDB: 3dst_A* 3dsu_A* 3dsv_A* 3dsw_A* 3dsx_A* 3hxb_A* 3hxc_A* 3hxd_A* 3hxe_A* 3hxf_A* 3pz1_A* 3pz2_A* 3pz3_A* 3c72_A* 4gtv_A* 4gts_A* 4ehm_A* 4gtt_A*

Probab=97.35  E-value=0.0048  Score=49.12  Aligned_cols=131  Identities=8%  Similarity=0.019  Sum_probs=88.8

Q ss_pred             HHHHHHHHHHH--------------HHHHHhcC--CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-C-HHH
Q psy5288          36 TDEAIDLYVRA--------------GNLFKLGK--KWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-N-PAE   97 (186)
Q Consensus        36 ~~~A~~~y~~a--------------g~~~~~~g--~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~-~~~   97 (186)
                      +++++.++..+              +.+....+  .+++++.++.+++++.     +..- .++..-+-+.... . +++
T Consensus        90 l~~EL~~~~~~L~~~PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~d-----prNy-~AW~~R~~vl~~l~~~~~e  163 (331)
T 3dss_A           90 VKAELGFLESCLRVNPKSYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-----ERNF-HCWDYRRFVAAQAAVAPAE  163 (331)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHC-----TTCH-HHHHHHHHHHHHTTCCHHH
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhC-----CCCH-HHHHHHHHHHHHhCcCHHH
Confidence            56666776666              34566777  4899999999999973     3322 2333334444444 4 689


Q ss_pred             HHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhc--------------CCHHHHHHHHHHHHHHHhccCChHHHHHHH
Q psy5288          98 AIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKEL--------------EDQEKAIDHYQHAADCYAGEENKSSANKCL  163 (186)
Q Consensus        98 A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~l--------------g~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~  163 (186)
                      +++++.+++++...+.+      ++...+.++.. +              +.++++++++.+++.+.+++.      .+|
T Consensus       164 el~~~~~~I~~~p~N~S------AW~~R~~ll~~-l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~P~d~------SaW  230 (331)
T 3dss_A          164 ELAFTDSLITRNFSNYS------SWHYRSCLLPQ-LHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQ------SAW  230 (331)
T ss_dssp             HHHHHHHHHHHCSCCHH------HHHHHHHHHHH-HSCCC------CCCHHHHHHHHHHHHHHHHHSTTCH------HHH
T ss_pred             HHHHHHHHHHHCCCCHH------HHHHHHHHHHH-hhhccccccccccchHHHHHHHHHHHHHHHhCCCCH------HHH
Confidence            99999999986654433      66667777665 4              458999999999999987652      455


Q ss_pred             HHHHHHHHhc-----------cCHHHHHHHHHh
Q psy5288         164 IKIANYSALT-----------DHLDKAIKLYEQ  185 (186)
Q Consensus       164 ~~la~~y~~~-----------g~~~~A~~~~~~  185 (186)
                      ..+.-++...           +.++++++++++
T Consensus       231 ~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~e  263 (331)
T 3dss_A          231 FYHRWLLGAGSGRCELSVEKSTVLQSELESCKE  263 (331)
T ss_dssp             HHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccCccccchHHHHHHHHHHHHHHH
Confidence            5444444443           457888888765

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=97.22  E-value=0.002  Score=51.65  Aligned_cols=130  Identities=9%  Similarity=0.019  Sum_probs=87.1

Q ss_pred             HHHHHHHHHH--------------HHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhc--C-CHHHH
Q psy5288          37 DEAIDLYVRA--------------GNLFKLGK-KWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKK--S-NPAEA   98 (186)
Q Consensus        37 ~~A~~~y~~a--------------g~~~~~~g-~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~--~-~~~~A   98 (186)
                      ++|++++.++              +.+....| .+++++.++.+++..     +|..- .++..=+.+...  . +++++
T Consensus        71 e~AL~lt~~~L~~nP~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~-----nPKny-~aW~hR~wlL~~l~~~~~~~E  144 (349)
T 3q7a_A           71 ERALELTEIIVRMNPAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQ-----NLKSY-QVWHHRLLLLDRISPQDPVSE  144 (349)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHT-----TCCCH-HHHHHHHHHHHHHCCSCCHHH
T ss_pred             HHHHHHHHHHHHhCchhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHh-----CCCcH-HHHHHHHHHHHHhcCCChHHH
Confidence            5677776666              33455666 477888887777765     23222 222222333332  2 66788


Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHH--------HHHHHHHHHHHHHhccCChHHHHHHHHHHHHHH
Q psy5288          99 IKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQE--------KAIDHYQHAADCYAGEENKSSANKCLIKIANYS  170 (186)
Q Consensus        99 ~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~--------~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y  170 (186)
                      +.++.+++++...+      ..++..-+.+... +|.++        +++++++++++..+.+      ..+|.+.+.++
T Consensus       145 L~~~~k~L~~dpkN------y~AW~~R~wvl~~-l~~~~~~~~~~~~eELe~~~k~I~~dp~N------~SAW~~R~~lL  211 (349)
T 3q7a_A          145 IEYIHGSLLPDPKN------YHTWAYLHWLYSH-FSTLGRISEAQWGSELDWCNEMLRVDGRN------NSAWGWRWYLR  211 (349)
T ss_dssp             HHHHHHHTSSCTTC------HHHHHHHHHHHHH-HHHTTCCCHHHHHHHHHHHHHHHHHCTTC------HHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCC------HHHHHHHHHHHHH-hccccccchhhHHHHHHHHHHHHHhCCCC------HHHHHHHHHHH
Confidence            88888877654443      2356666777666 47776        9999999999987654      37889999999


Q ss_pred             HhccC-------HHHHHHHHHh
Q psy5288         171 ALTDH-------LDKAIKLYEQ  185 (186)
Q Consensus       171 ~~~g~-------~~~A~~~~~~  185 (186)
                      ..+++       ++++++++++
T Consensus       212 ~~l~~~~~~~~~~~eELe~~~~  233 (349)
T 3q7a_A          212 VSRPGAETSSRSLQDELIYILK  233 (349)
T ss_dssp             TTSTTCCCCHHHHHHHHHHHHH
T ss_pred             HhccccccchHHHHHHHHHHHH
Confidence            99887       7899988764

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=97.20  E-value=0.035  Score=44.11  Aligned_cols=144  Identities=10%  Similarity=-0.024  Sum_probs=96.6

Q ss_pred             CCHHHHHHHHHHHHHHHHhcCCH---HHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHH
Q psy5288          34 NKTDEAIDLYVRAGNLFKLGKKW---NDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIH  109 (186)
Q Consensus        34 ~~~~~A~~~y~~ag~~~~~~g~~---~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~  109 (186)
                      ++.++.+.-+..-    -..|+|   =+|-+.|.-...=|.+.+++..+...+..-+..+.+. +...|.+...--++++
T Consensus        10 ~~~~~~i~rl~~~----I~~G~y~~~YEAHQ~~RTi~~Ry~~~k~y~eAidLL~~GA~~ll~~~Q~~sg~DL~~llvevy   85 (336)
T 3lpz_A           10 NKIERIIARLQRR----IAEGQPEEQYEAAQETRLVAARYSKQGNWAAAVDILASVSQTLLRSGQGGSGGDLAVLLVDTF   85 (336)
T ss_dssp             CHHHHHHHHHHHH----HHHCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHH----HhCCCCccccHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHCCCcchHHHHHHHHHHHH
Confidence            3444444444432    235777   5666666665555667788888888888877777766 8888888888888888


Q ss_pred             HHcCChhHHHHHHHHHHHHHHHhcCCHHH-HHHHHHHHHHHHhccC-ChHHHHHHHHHHHHHHHhccCHHHHHHHH
Q psy5288         110 TDMGRFIMVAKHHENIAEIYEKELEDQEK-AIDHYQHAADCYAGEE-NKSSANKCLIKIANYSALTDHLDKAIKLY  183 (186)
Q Consensus       110 ~~~~~~~~~a~~~~~lg~~y~~~lg~~~~-Ai~~y~kA~~l~~~~~-~~~~~~~~~~~la~~y~~~g~~~~A~~~~  183 (186)
                      .+.+..... ....++..++.. +..-+. =..+..+|+.+..+.+ .+..-.....-+|.+|.+.++|.+|..+|
T Consensus        86 ~~~~~~~~~-~~~~rL~~L~~~-~~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~~Ae~H~  159 (336)
T 3lpz_A           86 RQAGQRVDG-ASRGKLLGCLRL-FQPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFEAAEKHL  159 (336)
T ss_dssp             HHHTCCCCH-HHHHHHHHHHTT-SCTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHcCCCCCH-HHHHHHHHHHHh-CCCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHHHHHHHH
Confidence            887654332 466777777765 343221 2345677777766532 23333467788999999999999998876

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.15  E-value=0.042  Score=47.66  Aligned_cols=98  Identities=15%  Similarity=0.017  Sum_probs=57.2

Q ss_pred             HHHHHHHHHHhcC-CHHHHHHHHHHH------HHHHHHcCChhHHHHH---H------HHHHHHHHHhcCCHHHHHHHH-
Q psy5288          81 LCFVDAANCYKKS-NPAEAIKAIERA------VEIHTDMGRFIMVAKH---H------ENIAEIYEKELEDQEKAIDHY-  143 (186)
Q Consensus        81 ~~~~~a~~~y~~~-~~~~A~~~~~~A------l~i~~~~~~~~~~a~~---~------~~lg~~y~~~lg~~~~Ai~~y-  143 (186)
                      ..+.++|+.+.+. +++.|.++|.++      ..++...++.......   .      .....+|.. +|++++|++.| 
T Consensus       682 ~~W~~la~~al~~~~~~~A~~~y~~~~d~~~l~~l~~~~~~~~~~~~~~~~a~~~~~~~~A~~~~~~-~g~~~~a~~~~~  760 (814)
T 3mkq_A          682 MKWRALGDASLQRFNFKLAIEAFTNAHDLESLFLLHSSFNNKEGLVTLAKDAETTGKFNLAFNAYWI-AGDIQGAKDLLI  760 (814)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHTCHHHHHHHHHHTTCHHHHHHHHHHHHHTTCHHHHHHHHHH-HTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHcCCHHHHHHHHHHccChhhhHHHHHHcCCHHHHHHHHHHHHHcCchHHHHHHHHH-cCCHHHHHHHHH
Confidence            5677888888776 888998888775      3344445554432221   1      112223444 47777777775 


Q ss_pred             -----HHHHHHHhccCChH-HHHHHHHHHHHHHHhccCHHHH
Q psy5288         144 -----QHAADCYAGEENKS-SANKCLIKIANYSALTDHLDKA  179 (186)
Q Consensus       144 -----~kA~~l~~~~~~~~-~~~~~~~~la~~y~~~g~~~~A  179 (186)
                           .+|+.+.+..+... ....+....+.-+...|+++.|
T Consensus       761 ~~~~~~~A~~lA~~~~~~~~~i~~~~~~~~~~L~~~~~~~~a  802 (814)
T 3mkq_A          761 KSQRFSEAAFLGSTYGLGDNEVNDIVTKWKENLILNGKNTVS  802 (814)
T ss_dssp             HTTCHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHTTTCHHHH
T ss_pred             HcCChHHHHHHHHHhCCChHHHHHHHHHHHHHHHhccchhHH
Confidence                 45556555444322 1345666677777777875433

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=97.14  E-value=0.014  Score=45.93  Aligned_cols=129  Identities=9%  Similarity=0.013  Sum_probs=93.3

Q ss_pred             cCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHH
Q psy5288          53 GKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEK  131 (186)
Q Consensus        53 ~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~  131 (186)
                      .|+|=+|-+.|.-...=+.+.++...+...+..-+..+.+. +...|.+...--++++.+.+.... .....++..++..
T Consensus        26 ~G~yYEAhQ~~Rtl~~Ry~~~~~~~eAidlL~~ga~~ll~~~Q~~sa~DLa~llvev~~~~~~~~~-~~~~~rl~~l~~~  104 (312)
T 2wpv_A           26 AGDYYEAHQTLRTIANRYVRSKSYEHAIELISQGALSFLKAKQGGSGTDLIFYLLEVYDLAEVKVD-DISVARLVRLIAE  104 (312)
T ss_dssp             HTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCCS-HHHHHHHHHHHTT
T ss_pred             ccChHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHCCCcchHHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHH
Confidence            46666888887777776777788888888888877777665 888888888888888888876543 3366677777765


Q ss_pred             hcCCHH-HHHHHHHHHHHHHhccCC-hHHHHHHHHHHHHHHHhccCHHHHHHHH
Q psy5288         132 ELEDQE-KAIDHYQHAADCYAGEEN-KSSANKCLIKIANYSALTDHLDKAIKLY  183 (186)
Q Consensus       132 ~lg~~~-~Ai~~y~kA~~l~~~~~~-~~~~~~~~~~la~~y~~~g~~~~A~~~~  183 (186)
                       +..-+ .=..+..+|+.+..+.+. +..-...+.-+|..|.+.|++.+|..+|
T Consensus       105 -~p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A~~H~  157 (312)
T 2wpv_A          105 -LDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERYF  157 (312)
T ss_dssp             -CCTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             -CCCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHHHHHH
Confidence             23222 124666778887665432 3333467889999999999999999887

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.12  E-value=0.064  Score=44.24  Aligned_cols=118  Identities=5%  Similarity=-0.052  Sum_probs=91.5

Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHH-HHHHcCChh
Q psy5288          39 AIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVE-IHTDMGRFI  116 (186)
Q Consensus        39 A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~-i~~~~~~~~  116 (186)
                      -+.+-...+.+|...|++.+|++.......=.....+...-...+.....+|... ++.+|...+.++.. .+.....+.
T Consensus       136 rarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~~~d~~~a~~~~~ki~~~~~~~~~~~~  215 (445)
T 4b4t_P          136 RARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSILKGDYSQATVLSRKILKKTFKNPKYES  215 (445)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSSCCHH
T ss_pred             HHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhcccCCcHH
Confidence            3455667788999999999999988776543333445556677777777777665 99999999999875 444556677


Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChH
Q psy5288         117 MVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKS  157 (186)
Q Consensus       117 ~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~  157 (186)
                      ..+.++.-.|.++... ++|.+|..+|.++.+.+...+++.
T Consensus       216 lk~~~~~~~~~~~~~e-~~y~~a~~~y~e~~~~~~~~~d~~  255 (445)
T 4b4t_P          216 LKLEYYNLLVKISLHK-REYLEVAQYLQEIYQTDAIKSDEA  255 (445)
T ss_dssp             HHHHHHHHHHHHHHHH-CCHHHHHHHHHHHHHHHHHHSCHH
T ss_pred             HHHHHHHHHHHHHHHh-hhHHHHHHHHHHHHhcccccCCHH
Confidence            8889999999999987 999999999999998876655543

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=97.10  E-value=0.0079  Score=42.39  Aligned_cols=62  Identities=15%  Similarity=0.042  Sum_probs=47.7

Q ss_pred             HHHHHHHHHHHHHhcC---CHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         119 AKHHENIAEIYEKELE---DQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       119 a~~~~~lg~~y~~~lg---~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ..+.+++|.++... .   +.+++|..+++.++..    .|....+|+.++|..|.++|+|++|.+++++
T Consensus        32 ~~~~F~ya~~Lv~S-~~~~~~~~gI~lLe~ll~~~----~p~~~rd~lY~LAv~~~kl~~Y~~A~~y~~~   96 (152)
T 1pc2_A           32 KSTQFEYAWCLVRS-KYNDDIRKGIVLLEELLPKG----SKEEQRDYVFYLAVGNYRLKEYEKALKYVRG   96 (152)
T ss_dssp             HHHHHHHHHHHHTC-SSHHHHHHHHHHHHHHHHHS----CHHHHHHHHHHHHHHHHHTSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcC-CCHHHHHHHHHHHHHHHhcC----CccchHHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            45778888888773 6   5668999999888853    2223457889999999999999999998875

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=97.04  E-value=0.013  Score=47.30  Aligned_cols=129  Identities=13%  Similarity=0.047  Sum_probs=78.5

Q ss_pred             hHHHHHHHHHHhhccCCCCccccccCCCCHHHHHHHHHHHHHH--------------H----HhcCCHHHHHHHHHHHHH
Q psy5288           7 KARQLVAEAEKKISSSSKGFFSQFTGGNKTDEAIDLYVRAGNL--------------F----KLGKKWNDGGNAFLQAGT   68 (186)
Q Consensus         7 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~A~~~y~~ag~~--------------~----~~~g~~~~A~~~y~~a~~   68 (186)
                      +|-+++-+|...+.   .+      -..+..+|+++|+++..+              |    ...+...........+..
T Consensus       195 ~Aydl~Lra~~~l~---~~------~~~~~~~A~~l~e~Al~lDP~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~  265 (372)
T 3ly7_A          195 ALLTNFYQAHDYLL---HG------DDKSLNRASELLGEIVQSSPEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEID  265 (372)
T ss_dssp             GGHHHHHHHHHHHH---HC------SHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH---cC------CHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHH
Confidence            45566666666665   11      224678999999998432              1    011111112222222222


Q ss_pred             HHHHcCChhHHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q psy5288          69 LHLKNNNKHDAGLCFVDAANCYK-KSNPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAA  147 (186)
Q Consensus        69 ~~~~~~~~~~aa~~~~~a~~~y~-~~~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~  147 (186)
                      ....+......+.++.-++.++. ..++++|+..+++|+.+.   .+    +..+..+|.++.-. |++++|++.|++|+
T Consensus       266 a~~a~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln---~s----~~a~~llG~~~~~~-G~~~eA~e~~~~Al  337 (372)
T 3ly7_A          266 NIVTLPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE---MS----WLNYVLLGKVYEMK-GMNREAADAYLTAF  337 (372)
T ss_dssp             HHHTCGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC---CC----HHHHHHHHHHHHHT-TCHHHHHHHHHHHH
T ss_pred             HHHhcccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC---CC----HHHHHHHHHHHHHC-CCHHHHHHHHHHHH
Confidence            21122112223344544554443 359999999999999984   22    34668899999985 99999999999999


Q ss_pred             HHHhc
Q psy5288         148 DCYAG  152 (186)
Q Consensus       148 ~l~~~  152 (186)
                      .+.+.
T Consensus       338 rL~P~  342 (372)
T 3ly7_A          338 NLRPG  342 (372)
T ss_dssp             HHSCS
T ss_pred             hcCCC
Confidence            99664

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=96.94  E-value=0.006  Score=48.91  Aligned_cols=132  Identities=5%  Similarity=-0.022  Sum_probs=97.7

Q ss_pred             CCCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC--CHHHHHHHHHHHHHHH
Q psy5288          32 GGNKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS--NPAEAIKAIERAVEIH  109 (186)
Q Consensus        32 ~~~~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~--~~~~A~~~~~~Al~i~  109 (186)
                      =+++|.++...+..   +....+..++|++++.+++.+     +|.... ++..=+.+...+  .+++++.++.+++.+.
T Consensus        49 y~~~y~~~~~~~r~---~~~~~e~se~AL~lt~~~L~~-----nP~~yt-aWn~R~~iL~~l~~~l~eEL~~~~~~L~~n  119 (349)
T 3q7a_A           49 YSEEYKDAMDYFRA---IAAKEEKSERALELTEIIVRM-----NPAHYT-VWQYRFSLLTSLNKSLEDELRLMNEFAVQN  119 (349)
T ss_dssp             CCHHHHHHHHHHHH---HHHTTCCSHHHHHHHHHHHHH-----CTTCHH-HHHHHHHHHHHTTCCHHHHHHHHHHHHHTT
T ss_pred             eCHHHHHHHHHHHH---HHHhCCCCHHHHHHHHHHHHh-----CchhHH-HHHHHHHHHHHhhhhHHHHHHHHHHHHHhC
Confidence            34677777666654   455567788999999999998     555443 333444555544  5899999999998666


Q ss_pred             HHcCChhHHHHHHHHHHHHHHHhc-C-CHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHH--------HH
Q psy5288         110 TDMGRFIMVAKHHENIAEIYEKEL-E-DQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLD--------KA  179 (186)
Q Consensus       110 ~~~~~~~~~a~~~~~lg~~y~~~l-g-~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~--------~A  179 (186)
                      .+.      ..++..-+.++.. + + +++++++++.++++..+++      ..+|.+.+-++..+|.++        ++
T Consensus       120 PKn------y~aW~hR~wlL~~-l~~~~~~~EL~~~~k~L~~dpkN------y~AW~~R~wvl~~l~~~~~~~~~~~~eE  186 (349)
T 3q7a_A          120 LKS------YQVWHHRLLLLDR-ISPQDPVSEIEYIHGSLLPDPKN------YHTWAYLHWLYSHFSTLGRISEAQWGSE  186 (349)
T ss_dssp             CCC------HHHHHHHHHHHHH-HCCSCCHHHHHHHHHHTSSCTTC------HHHHHHHHHHHHHHHHTTCCCHHHHHHH
T ss_pred             CCc------HHHHHHHHHHHHH-hcCCChHHHHHHHHHHHHhCCCC------HHHHHHHHHHHHHhccccccchhhHHHH
Confidence            544      3477777888887 5 7 8999999999999987664      368888888888888777        88


Q ss_pred             HHHHHh
Q psy5288         180 IKLYEQ  185 (186)
Q Consensus       180 ~~~~~~  185 (186)
                      ++++++
T Consensus       187 Le~~~k  192 (349)
T 3q7a_A          187 LDWCNE  192 (349)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            888764

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=96.91  E-value=0.0045  Score=39.74  Aligned_cols=64  Identities=16%  Similarity=0.007  Sum_probs=50.6

Q ss_pred             HHHHHHHHHh-cC---CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhc
Q psy5288          82 CFVDAANCYK-KS---NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAG  152 (186)
Q Consensus        82 ~~~~a~~~y~-~~---~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~  152 (186)
                      .+...|.++. ..   ..++|..++++|+.+...+.      ..+..+|.++..+ |+|++|+.+|+++++..+.
T Consensus         8 ~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~------rA~~~lg~~~~~~-g~y~~Ai~~w~~~l~~~p~   75 (93)
T 3bee_A            8 QLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNE------AALSLIANDHFIS-FRFQEAIDTWVLLLDSNDP   75 (93)
T ss_dssp             HHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCH------HHHHHHHHHHHHT-TCHHHHHHHHHHHHTCCCT
T ss_pred             HHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCH------HHHHHHHHHHHHc-CCHHHHHHHHHHHHhhCCC
Confidence            3445555553 22   46999999999999876663      3777899999996 9999999999999998776

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.83  E-value=0.035  Score=45.53  Aligned_cols=105  Identities=5%  Similarity=-0.063  Sum_probs=85.1

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHH
Q psy5288          45 RAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHE  123 (186)
Q Consensus        45 ~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~  123 (186)
                      ..|..|...|+++.|+++|.++..-....   ......+.....++... ++..+..++.++..+....+++...+....
T Consensus       136 ~la~~~~~~Gd~~~A~~~~~~~~~~~~~~---~~kid~~l~~irl~l~~~d~~~~~~~~~ka~~~~~~~~d~~~~~~lk~  212 (429)
T 4b4t_R          136 NLGEYYAQIGDKDNAEKTLGKSLSKAIST---GAKIDVMLTIARLGFFYNDQLYVKEKLEAVNSMIEKGGDWERRNRYKT  212 (429)
T ss_dssp             HHHHHHHHHCCCTTHHHHHHHHHHHHTCC---CSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTCCCTHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhcCCh---HHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhhcCCCHHHHHHHHH
Confidence            34778899999999999999987755433   33455666666666554 999999999999999988899888888888


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHHHhcc
Q psy5288         124 NIAEIYEKELEDQEKAIDHYQHAADCYAGE  153 (186)
Q Consensus       124 ~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~  153 (186)
                      -.|.++... ++|..|..+|-.+..-+...
T Consensus       213 ~~gl~~l~~-r~f~~Aa~~f~e~~~t~~~~  241 (429)
T 4b4t_R          213 YYGIHCLAV-RNFKEAAKLLVDSLATFTSI  241 (429)
T ss_dssp             HHHHGGGGT-SCHHHHHHHHHHHHHHSCCS
T ss_pred             HHHHHHHHh-ChHHHHHHHHHHHhccCCcc
Confidence            889998885 99999999999988766543

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=96.68  E-value=0.19  Score=44.18  Aligned_cols=122  Identities=7%  Similarity=-0.018  Sum_probs=76.3

Q ss_pred             hcCC-HHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC--CHHHHHHHHHHHHHHH----HHcCCh--------h
Q psy5288          52 LGKK-WNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS--NPAEAIKAIERAVEIH----TDMGRF--------I  116 (186)
Q Consensus        52 ~~g~-~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~--~~~~A~~~~~~Al~i~----~~~~~~--------~  116 (186)
                      ..++ ++.|++.+++...-     +|........-...+....  +--+|++...++++-.    ..+...        .
T Consensus       260 ~t~~~~~~a~~~le~L~~~-----~p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~~~~~~  334 (754)
T 4gns_B          260 ITPSLVDFTIDYLKGLTKK-----DPIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADSARLMN  334 (754)
T ss_dssp             TCGGGHHHHHHHHHHHHHH-----CGGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHHHHHHH
T ss_pred             ccccHHHHHHHHHHHHHhh-----CCchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhcccccccccccC
Confidence            3444 46677777665443     4444332222222233332  3456777777776432    222111        1


Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         117 MVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       117 ~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ..+..+..-+.-+.++ |+|+-|+++-++|+.+.+.+      -.+|..|+.+|+.+|+|+.|+-.++.
T Consensus       335 ~~~~LL~~Qa~FLl~K-~~~elAL~~Ak~AV~~aPse------F~tW~~La~vYi~l~d~e~ALLtLNS  396 (754)
T 4gns_B          335 CMSDLLNIQTNFLLNR-GDYELALGVSNTSTELALDS------FESWYNLARCHIKKEEYEKALFAINS  396 (754)
T ss_dssp             HHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCSSC------HHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHhcc-CcHHHHHHHHHHHHhcCchh------hHHHHHHHHHHHHhccHHHHHHHHhc
Confidence            1222444445555666 99999999999999997764      37999999999999999999987653

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=96.65  E-value=0.046  Score=47.58  Aligned_cols=165  Identities=11%  Similarity=0.074  Sum_probs=104.0

Q ss_pred             HHhHH-HHHHHHHHhhccCCCCcc---cccc-CCCCHHHHHHHHHHHHHHH-----------------------------
Q psy5288           5 EQKAR-QLVAEAEKKISSSSKGFF---SQFT-GGNKTDEAIDLYVRAGNLF-----------------------------   50 (186)
Q Consensus         5 ~~~~~-~~~~~a~~~~~~~~~~~~---~~~~-~~~~~~~A~~~y~~ag~~~-----------------------------   50 (186)
                      +++|. ..+..|-+... .+..++   ..+. ..+++++|-++|.++....                             
T Consensus       359 ~~~a~r~il~rAi~~~P-~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vW  437 (679)
T 4e6h_A          359 DSTVITKYLKLGQQCIP-NSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVY  437 (679)
T ss_dssp             CTTHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHH
Confidence            35664 77888866554 111111   1112 4577888888887775432                             


Q ss_pred             -------HhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC--CHHHHHHHHHHHHHHHHHcCChhHHHHH
Q psy5288          51 -------KLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS--NPAEAIKAIERAVEIHTDMGRFIMVAKH  121 (186)
Q Consensus        51 -------~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~--~~~~A~~~~~~Al~i~~~~~~~~~~a~~  121 (186)
                             ++.|+.+.|...|.+|.+..     +......|...+.+-...  +++.|...|+++++.+....      ..
T Consensus       438 i~y~~~erR~~~l~~AR~vf~~A~~~~-----~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~~p~~~------~~  506 (679)
T 4e6h_A          438 CVYMNTMKRIQGLAASRKIFGKCRRLK-----KLVTPDIYLENAYIEYHISKDTKTACKVLELGLKYFATDG------EY  506 (679)
T ss_dssp             HHHHHHHHHHHCHHHHHHHHHHHHHTG-----GGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTTCH------HH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhc-----CCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCCCch------HH
Confidence                   23444555555555554420     111123344444443333  58999999999999865442      24


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         122 HENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       122 ~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      +...+..... +|+.+.|..+|++|+...+.   +......|......-...|+.+.+.+++++
T Consensus       507 w~~y~~fe~~-~~~~~~AR~lferal~~~~~---~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R  566 (679)
T 4e6h_A          507 INKYLDFLIY-VNEESQVKSLFESSIDKISD---SHLLKMIFQKVIFFESKVGSLNSVRTLEKR  566 (679)
T ss_dssp             HHHHHHHHHH-HTCHHHHHHHHHHHTTTSSS---TTHHHHHHHHHHHHHHHTCCSHHHHHHHHH
T ss_pred             HHHHHHHHHh-CCCHHHHHHHHHHHHHhcCC---HHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            5566777677 49999999999999997653   123346778878888888999999988875

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=96.64  E-value=0.021  Score=44.59  Aligned_cols=87  Identities=14%  Similarity=0.078  Sum_probs=69.6

Q ss_pred             HHHHHHHHHHHHHHHHHcCChh-HHHHHHHHHHHHHhcC------CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHH
Q psy5288          56 WNDGGNAFLQAGTLHLKNNNKH-DAGLCFVDAANCYKKS------NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEI  128 (186)
Q Consensus        56 ~~~A~~~y~~a~~~~~~~~~~~-~aa~~~~~a~~~y~~~------~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~  128 (186)
                      ...|....++++++     +|. ..+.+|.-+|.+|...      ++++|.++|++|++|....+     ...++..|..
T Consensus       179 l~~A~a~lerAleL-----DP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~-----id~~v~YA~~  248 (301)
T 3u64_A          179 VHAAVMMLERACDL-----WPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHD-----PDHHITYADA  248 (301)
T ss_dssp             HHHHHHHHHHHHHH-----CTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTC-----SHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh-----CCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCC-----chHHHHHHHH
Confidence            67788888888888     555 3577888999999883      89999999999999987431     2266777887


Q ss_pred             HHHhcCCHHHHHHHHHHHHHHHhc
Q psy5288         129 YEKELEDQEKAIDHYQHAADCYAG  152 (186)
Q Consensus       129 y~~~lg~~~~Ai~~y~kA~~l~~~  152 (186)
                      +....|+++.|..++++|+..-+.
T Consensus       249 l~~~~gd~~~a~~~L~kAL~a~p~  272 (301)
T 3u64_A          249 LCIPLNNRAGFDEALDRALAIDPE  272 (301)
T ss_dssp             TTTTTTCHHHHHHHHHHHHHCCGG
T ss_pred             HHHhcCCHHHHHHHHHHHHcCCCC
Confidence            765239999999999999998665

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=96.63  E-value=0.054  Score=45.35  Aligned_cols=93  Identities=17%  Similarity=0.157  Sum_probs=61.3

Q ss_pred             HHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHH
Q psy5288          82 CFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSAN  160 (186)
Q Consensus        82 ~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~  160 (186)
                      .|..+...|-+. ++++|.+.+++-.    ..|-.+. ..++..+=..|-.. |+.++|...|++..+.    +..+.. 
T Consensus       107 tyn~lI~~~~~~g~~~~A~~l~~~M~----~~g~~Pd-~~tyn~lI~~~~~~-g~~~~A~~l~~~M~~~----G~~Pd~-  175 (501)
T 4g26_A          107 TFTNGARLAVAKDDPEMAFDMVKQMK----AFGIQPR-LRSYGPALFGFCRK-GDADKAYEVDAHMVES----EVVPEE-  175 (501)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHH----HTTCCCC-HHHHHHHHHHHHHT-TCHHHHHHHHHHHHHT----TCCCCH-
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHH----HcCCCCc-cceehHHHHHHHHC-CCHHHHHHHHHHHHhc----CCCCCH-
Confidence            354555555444 7777777776532    2232221 22455566666774 9999999999887652    222222 


Q ss_pred             HHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         161 KCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       161 ~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      .+|..+-..|.+.|+.++|.++|++
T Consensus       176 ~ty~~Li~~~~~~g~~d~A~~ll~~  200 (501)
T 4g26_A          176 PELAALLKVSMDTKNADKVYKTLQR  200 (501)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhCCCHHHHHHHHHH
Confidence            5788888999999999999999876

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.59  E-value=0.13  Score=44.54  Aligned_cols=74  Identities=22%  Similarity=0.143  Sum_probs=42.0

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHH------HHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHH------HHHHH
Q psy5288          41 DLYVRAGNLFKLGKKWNDGGNAFLQAGT------LHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAI------ERAVE  107 (186)
Q Consensus        41 ~~y~~ag~~~~~~g~~~~A~~~y~~a~~------~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~------~~Al~  107 (186)
                      ..+.++|..+...++++.|.+||.++.+      ++...++++.    +.+++.+.... ++..|..+|      ++|++
T Consensus       682 ~~W~~la~~al~~~~~~~A~~~y~~~~d~~~l~~l~~~~~~~~~----~~~~~~~a~~~~~~~~A~~~~~~~g~~~~a~~  757 (814)
T 3mkq_A          682 MKWRALGDASLQRFNFKLAIEAFTNAHDLESLFLLHSSFNNKEG----LVTLAKDAETTGKFNLAFNAYWIAGDIQGAKD  757 (814)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHTCHHHHHHHHHHTTCHHH----HHHHHHHHHHTTCHHHHHHHHHHHTCHHHHHH
T ss_pred             hHHHHHHHHHHHcCCHHHHHHHHHHccChhhhHHHHHHcCCHHH----HHHHHHHHHHcCchHHHHHHHHHcCCHHHHHH
Confidence            4567778888888888888888876533      3333444432    22445554443 555555444      34445


Q ss_pred             HHHHcCChhHH
Q psy5288         108 IHTDMGRFIMV  118 (186)
Q Consensus       108 i~~~~~~~~~~  118 (186)
                      ++.+.+..+.+
T Consensus       758 ~~~~~~~~~~A  768 (814)
T 3mkq_A          758 LLIKSQRFSEA  768 (814)
T ss_dssp             HHHHTTCHHHH
T ss_pred             HHHHcCChHHH
Confidence            55555554444

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=95.92  E-value=0.2  Score=35.18  Aligned_cols=68  Identities=15%  Similarity=0.018  Sum_probs=52.7

Q ss_pred             HHHHHHHHHHhcC----CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhcc
Q psy5288          81 LCFVDAANCYKKS----NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGE  153 (186)
Q Consensus        81 ~~~~~a~~~y~~~----~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~  153 (186)
                      .+..+.|-++...    +.++++..++..++..    ++..-..++..+|..|.. +|+|++|..++++++++-|++
T Consensus        33 ~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~----~p~~~rd~lY~LAv~~~k-l~~Y~~A~~y~~~lL~ieP~n  104 (152)
T 1pc2_A           33 STQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG----SKEEQRDYVFYLAVGNYR-LKEYEKALKYVRGLLQTEPQN  104 (152)
T ss_dssp             HHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS----CHHHHHHHHHHHHHHHHH-TSCHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC----CccchHHHHHHHHHHHHH-ccCHHHHHHHHHHHHhcCCCC
Confidence            4445667676654    4568999988876632    344667899999999988 599999999999999997753

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.80  E-value=0.085  Score=43.21  Aligned_cols=101  Identities=12%  Similarity=0.083  Sum_probs=78.9

Q ss_pred             HHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHH
Q psy5288          81 LCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSA  159 (186)
Q Consensus        81 ~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~  159 (186)
                      ..+..+|..|.+. ++++|+++|.+..+.....+.   ...++..+-+++... +++..+..++.++-.+....+++...
T Consensus       132 ~~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~---kid~~l~~irl~l~~-~d~~~~~~~~~ka~~~~~~~~d~~~~  207 (429)
T 4b4t_R          132 QAWINLGEYYAQIGDKDNAEKTLGKSLSKAISTGA---KIDVMLTIARLGFFY-NDQLYVKEKLEAVNSMIEKGGDWERR  207 (429)
T ss_dssp             SCCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCS---HHHHHHHHHHHHHHH-TCHHHHHHHHHHHHHHHTTCCCTHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHH---HHHHHHHHHHHHHHh-ccHHHHHHHHHHHHHhhhcCCCHHHH
Confidence            3455778888765 889999999997765544443   445666677777775 99999999999999998887777666


Q ss_pred             HHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         160 NKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       160 ~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      +....--|.++...++|..|..+|-.
T Consensus       208 ~~lk~~~gl~~l~~r~f~~Aa~~f~e  233 (429)
T 4b4t_R          208 NRYKTYYGIHCLAVRNFKEAAKLLVD  233 (429)
T ss_dssp             HHHHHHHHHGGGGTSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhChHHHHHHHHHH
Confidence            66666778888899999999998853

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=95.70  E-value=0.22  Score=41.65  Aligned_cols=127  Identities=9%  Similarity=-0.041  Sum_probs=86.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcC-ChhHHHHHHHHHHHHHhcC----------CHHHHHHHHHHHHHHHH
Q psy5288          42 LYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNN-NKHDAGLCFVDAANCYKKS----------NPAEAIKAIERAVEIHT  110 (186)
Q Consensus        42 ~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~-~~~~aa~~~~~a~~~y~~~----------~~~~A~~~~~~Al~i~~  110 (186)
                      .+....+.|.+.|+.++|.+.|.++.+-    | .|+  ...|.-+...+...          ..++|.+.|++-.    
T Consensus        28 ~l~~~id~c~k~G~~~~A~~lf~~M~~~----Gv~pd--~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~----   97 (501)
T 4g26_A           28 LLKQKLDMCSKKGDVLEALRLYDEARRN----GVQLS--QYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMI----   97 (501)
T ss_dssp             HHHHHHHHTTTSCCHHHHHHHHHHHHHH----TCCCC--HHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHH----
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHc----CCCCC--HhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHH----
Confidence            4566678889999999999999887653    2 222  33465565566432          2456666665432    


Q ss_pred             HcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         111 DMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       111 ~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ..|-.+. ..++..+-..|-.. |++++|...|++....    +..+. ..+|..+-..|.+.|+.++|.++|++
T Consensus        98 ~~G~~Pd-~~tyn~lI~~~~~~-g~~~~A~~l~~~M~~~----g~~Pd-~~tyn~lI~~~~~~g~~~~A~~l~~~  165 (501)
T 4g26_A           98 VDKVVPN-EATFTNGARLAVAK-DDPEMAFDMVKQMKAF----GIQPR-LRSYGPALFGFCRKGDADKAYEVDAH  165 (501)
T ss_dssp             HTTCCCC-HHHHHHHHHHHHHH-TCHHHHHHHHHHHHHT----TCCCC-HHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HhCCCCC-HHHHHHHHHHHHhc-CCHHHHHHHHHHHHHc----CCCCc-cceehHHHHHHHHCCCHHHHHHHHHH
Confidence            2232221 23667777778885 9999999999886542    22222 25788888999999999999999976

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=95.30  E-value=0.26  Score=33.45  Aligned_cols=62  Identities=11%  Similarity=0.025  Sum_probs=41.6

Q ss_pred             HHHHHHHHHHHHHhcCCHHH---HHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         119 AKHHENIAEIYEKELEDQEK---AIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       119 a~~~~~lg~~y~~~lg~~~~---Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ..+.+++|.++... .+...   +|..++..+.-    +.+.....|+..||..+.++|+|++|..+++.
T Consensus        35 ~~~~F~yAw~Lv~S-~~~~d~~~GI~lLe~l~~~----~~p~~~Rd~lY~LAvg~yklg~Y~~A~~~~~~   99 (126)
T 1nzn_A           35 KSTQFEYAWCLVRT-RYNDDIRKGIVLLEELLPK----GSKEEQRDYVFYLAVGNYRLKEYEKALKYVRG   99 (126)
T ss_dssp             HHHHHHHHHHHTTS-SSHHHHHHHHHHHHHHTTT----SCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcC-CCHHHHHHHHHHHHHHHhc----CCcchHHHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence            34667777777653 55544   77777765542    22334557888888888888888888888764

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=95.17  E-value=0.82  Score=37.96  Aligned_cols=80  Identities=9%  Similarity=-0.069  Sum_probs=52.9

Q ss_pred             CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhc
Q psy5288          94 NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALT  173 (186)
Q Consensus        94 ~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~  173 (186)
                      +.+.|...|++| .   ..+   ....++...+.+.....++++.|...|++++..+++.  +    ..+...+......
T Consensus       301 ~~~~AR~i~~~A-~---~~~---~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~~~~--~----~~~~~yid~e~~~  367 (493)
T 2uy1_A          301 GLELFRKLFIEL-G---NEG---VGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKHPDS--T----LLKEEFFLFLLRI  367 (493)
T ss_dssp             CHHHHHHHHHHH-T---TSC---CCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHCTTC--H----HHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHh-h---CCC---CChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCCCC--H----HHHHHHHHHHHHc
Confidence            455566666666 1   111   1234566666665543236999999999999987643  1    3455567777889


Q ss_pred             cCHHHHHHHHHhC
Q psy5288         174 DHLDKAIKLYEQL  186 (186)
Q Consensus       174 g~~~~A~~~~~~~  186 (186)
                      |+.++|..+|+++
T Consensus       368 ~~~~~aR~l~er~  380 (493)
T 2uy1_A          368 GDEENARALFKRL  380 (493)
T ss_dssp             TCHHHHHHHHHHS
T ss_pred             CCHHHHHHHHHHH
Confidence            9999999998874

>1ya0_A SMG-7 transcript variant 2; alpha-helical repeat, tetratricopetide repeat (TPR), 14-3-3, signaling protein; 2.55A {Homo sapiens} SCOP: a.118.8.1

Probab=95.06  E-value=0.1  Score=43.79  Aligned_cols=60  Identities=15%  Similarity=0.145  Sum_probs=53.2

Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         119 AKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       119 a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      -.++..||.+...+ ..++.|..+|.+|..+.+..|      ..++.||.+....|+.-+|+=+|-|
T Consensus       152 hr~l~~LGDL~RY~-~~~~~A~~~Y~~A~~~~P~~G------~~~nqLavla~~~~~~l~a~y~y~r  211 (497)
T 1ya0_A          152 QHCLVHLGDIARYR-NQTSQAESYYRHAAQLVPSNG------QPYNQLAILASSKGDHLTTIFYYCR  211 (497)
T ss_dssp             HHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTTBS------HHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHcccHHHHH-HHHHHHHHHHHHHHHhCCCCC------chHHHHHHHHhcccccHHHHHHHHH
Confidence            34788999999996 999999999999999999887      6889999999999999999877654

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=94.99  E-value=1.2  Score=36.48  Aligned_cols=102  Identities=9%  Similarity=-0.053  Sum_probs=71.8

Q ss_pred             HHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-HHhccCChHHHH
Q psy5288          83 FVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAAD-CYAGEENKSSAN  160 (186)
Q Consensus        83 ~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~-l~~~~~~~~~~~  160 (186)
                      -..++.+|... ++.+|...++....=.....+......++....++|... +++.+|...+.++.. .+.....+....
T Consensus       140 ~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~~-~d~~~a~~~~~ki~~~~~~~~~~~~lk~  218 (445)
T 4b4t_P          140 TKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSILK-GDYSQATVLSRKILKKTFKNPKYESLKL  218 (445)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHHH-TCHHHHHHHHHHHHHHHHHSSCCHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHC-CCHHHHHHHHHHHHHhhcccCCcHHHHH
Confidence            34556666544 666776666554322222234455566677777788885 999999999999875 455555666777


Q ss_pred             HHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         161 KCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       161 ~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      .++.-.|.++...++|.+|..+|..
T Consensus       219 ~~~~~~~~~~~~e~~y~~a~~~y~e  243 (445)
T 4b4t_P          219 EYYNLLVKISLHKREYLEVAQYLQE  243 (445)
T ss_dssp             HHHHHHHHHHHHHCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHH
Confidence            8889999999999999999998864

>2wm9_A Dedicator of cytokinesis protein 9; polymorphism, cell membrane, phosphoprotein, nucleotide-binding, alternative splicing; 2.20A {Homo sapiens} PDB: 2wmn_A* 2wmo_A*

Probab=94.40  E-value=0.47  Score=38.90  Aligned_cols=34  Identities=0%  Similarity=0.025  Sum_probs=27.7

Q ss_pred             CHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q psy5288          35 KTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGT   68 (186)
Q Consensus        35 ~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~   68 (186)
                      ..+-=++++.++.+.+...|++.+|+.|+..++.
T Consensus         6 ~pdl~~~wl~~La~~h~~~~n~~EAa~cl~~~aa   39 (428)
T 2wm9_A            6 TPELRKTWLDSMARIHVKNGDLSEAAMCYVHVTA   39 (428)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            4455568888999999999999999999976554

>2yin_A DOCK2, dedicator of cytokinesis protein 2; apoptosis, DOCK, DOCK guanine nucleotide exchange factors; 2.70A {Homo sapiens} PDB: 3b13_A

Probab=94.35  E-value=0.69  Score=38.02  Aligned_cols=98  Identities=13%  Similarity=0.099  Sum_probs=67.5

Q ss_pred             CCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCh------------h-----HHHHHHHHHHHHHhcC-CH
Q psy5288          34 NKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNK------------H-----DAGLCFVDAANCYKKS-NP   95 (186)
Q Consensus        34 ~~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~------------~-----~aa~~~~~a~~~y~~~-~~   95 (186)
                      ++.+-=+.++.++.+.+...++|.+|+-|+...++++.-...+            .     ..-..|..+...+.+. .+
T Consensus        29 ~~~el~i~~l~~L~~~h~~~~ny~EAa~~l~lhA~l~~w~~~~~~~~~~~~~~~~~qt~~~~ke~L~~~~i~~f~kg~~~  108 (436)
T 2yin_A           29 NREEMYIRYLYKLRDLHLDCDNYTEAAYTLLLHTWLLKWSDEQCASQVMQTGQQHPQTHRQLKETLYETIIGYFDKGKMW  108 (436)
T ss_dssp             TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSSCCC--------------CHHHHHHHHHHHHHHHHHHHTCH
T ss_pred             CChHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHhCCCccccCcccccCCCCccccHHHHHHHHHHHHHHHHHhcCcH
Confidence            5677778888888899999999999999986665553311110            0     0112455666666655 67


Q ss_pred             HHHHHHHHHHHHHHHHc-CChhHHHHHHHHHHHHHHH
Q psy5288          96 AEAIKAIERAVEIHTDM-GRFIMVAKHHENIAEIYEK  131 (186)
Q Consensus        96 ~~A~~~~~~Al~i~~~~-~~~~~~a~~~~~lg~~y~~  131 (186)
                      +.|+..|+..+.++... -++...+.++..++.+|..
T Consensus       109 E~ai~l~k~L~~~yE~~~~Dy~~Ls~~~~~~a~~y~~  145 (436)
T 2yin_A          109 EEAISLCKELAEQYEMEIFDYELLSQNLIQQAKFYES  145 (436)
T ss_dssp             HHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            77888888877777765 7777777777777777764

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=93.05  E-value=2.5  Score=33.89  Aligned_cols=57  Identities=16%  Similarity=0.073  Sum_probs=38.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         122 HENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       122 ~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ...++..+.. +|++++|+..+.+++...+-..      ..+..+-.+|...|+..+|++.|++
T Consensus       174 ~~~~~~~~l~-~g~~~~a~~~l~~~~~~~P~~E------~~~~~lm~al~~~Gr~~~Al~~y~~  230 (388)
T 2ff4_A          174 HTAKAEAEIA-CGRASAVIAELEALTFEHPYRE------PLWTQLITAYYLSDRQSDALGAYRR  230 (388)
T ss_dssp             HHHHHHHHHH-TTCHHHHHHHHHHHHHHSTTCH------HHHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHH-CCCHHHHHHHHHHHHHhCCCCH------HHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            3445555566 4788888877777777655321      4566666777778888888877764

>1ya0_A SMG-7 transcript variant 2; alpha-helical repeat, tetratricopetide repeat (TPR), 14-3-3, signaling protein; 2.55A {Homo sapiens} SCOP: a.118.8.1

Probab=92.49  E-value=0.33  Score=40.67  Aligned_cols=62  Identities=15%  Similarity=0.197  Sum_probs=54.0

Q ss_pred             HHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q psy5288          81 LCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADC  149 (186)
Q Consensus        81 ~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l  149 (186)
                      .++..+|++.+-. .+..|..+|.+|..+.+..|.      .++.||.+...+ |+.-+|+-+|.+++..
T Consensus       153 r~l~~LGDL~RY~~~~~~A~~~Y~~A~~~~P~~G~------~~nqLavla~~~-~~~l~a~y~y~rsl~~  215 (497)
T 1ya0_A          153 HCLVHLGDIARYRNQTSQAESYYRHAAQLVPSNGQ------PYNQLAILASSK-GDHLTTIFYYCRSIAV  215 (497)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTBSH------HHHHHHHHHHHT-TCHHHHHHHHHHHHSS
T ss_pred             HHHHHcccHHHHHHHHHHHHHHHHHHHHhCCCCCc------hHHHHHHHHhcc-cccHHHHHHHHHHHhc
Confidence            3566778887765 789999999999999999998      688899999996 9999999999999864

>2yin_A DOCK2, dedicator of cytokinesis protein 2; apoptosis, DOCK, DOCK guanine nucleotide exchange factors; 2.70A {Homo sapiens} PDB: 3b13_A

Probab=92.46  E-value=3.9  Score=33.57  Aligned_cols=132  Identities=18%  Similarity=0.109  Sum_probs=87.6

Q ss_pred             HHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC--CHHHHHHHHHHHHHHHHHcC
Q psy5288          36 TDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS--NPAEAIKAIERAVEIHTDMG  113 (186)
Q Consensus        36 ~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~--~~~~A~~~~~~Al~i~~~~~  113 (186)
                      -|+-..+-.++.+.|+..++.+-=+.+..+..+++...++..+||.++.-.+.++.-.  ..-.++.   +.. -+...-
T Consensus        11 ~d~r~~~~~~l~~~y~~~~~~el~i~~l~~L~~~h~~~~ny~EAa~~l~lhA~l~~w~~~~~~~~~~---~~~-~~~~qt   86 (436)
T 2yin_A           11 KDNRMSCTVNLLNFYKDNNREEMYIRYLYKLRDLHLDCDNYTEAAYTLLLHTWLLKWSDEQCASQVM---QTG-QQHPQT   86 (436)
T ss_dssp             HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSSCCC------------------C
T ss_pred             cchHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHhCCCccccCcccc---cCC-CCcccc
Confidence            3444456678888999999999999999999999999999999998886655443221  1111110   000 000000


Q ss_pred             ChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhcc-CChHHHHHHHHHHHHHHHh
Q psy5288         114 RFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGE-ENKSSANKCLIKIANYSAL  172 (186)
Q Consensus       114 ~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~-~~~~~~~~~~~~la~~y~~  172 (186)
                      ........+..+...+.. .+.|+.|+..|+..+.+++.. .+....+.++..++.+|..
T Consensus        87 ~~~~ke~L~~~~i~~f~k-g~~~E~ai~l~k~L~~~yE~~~~Dy~~Ls~~~~~~a~~y~~  145 (436)
T 2yin_A           87 HRQLKETLYETIIGYFDK-GKMWEEAISLCKELAEQYEMEIFDYELLSQNLIQQAKFYES  145 (436)
T ss_dssp             HHHHHHHHHHHHHHHHHH-HTCHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHh-cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            111122356667777776 588999999999999999875 6666667788888888754

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=91.96  E-value=2.2  Score=30.54  Aligned_cols=22  Identities=5%  Similarity=-0.213  Sum_probs=10.2

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHH
Q psy5288          43 YVRAGNLFKLGKKWNDGGNAFL   64 (186)
Q Consensus        43 y~~ag~~~~~~g~~~~A~~~y~   64 (186)
                      +.+.|......|+++=|.+||.
T Consensus        37 Wk~Lg~~AL~~gn~~lAe~cy~   58 (177)
T 3mkq_B           37 WERLIQEALAQGNASLAEMIYQ   58 (177)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHcCChHHHHHHHH
Confidence            3344444444555554444443

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=91.81  E-value=1.2  Score=31.24  Aligned_cols=62  Identities=18%  Similarity=0.230  Sum_probs=46.7

Q ss_pred             hHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         116 IMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       116 ~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ..=+..+.+-+.. .. +++.++|.+.|+.++.++++     . +.+|+..|..-++.|+.++|.+++.+
T Consensus        58 rrYI~LWIrYA~~-~e-i~D~d~aR~vy~~a~~~hKk-----F-AKiwi~~AqFEiRqgnl~kARkILg~  119 (161)
T 4h7y_A           58 ESFARIQVRFAEL-KA-IQEPDDARDYFQMARANCKK-----F-AFVHISFAQFELSQGNVKKSKQLLQK  119 (161)
T ss_dssp             HHHHHHHHHHHHH-HH-HHCGGGCHHHHHHHHHHCTT-----B-HHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH-HH-hcCHHHHHHHHHHHHHHhHH-----H-HHHHHHHHHHHHHcccHHHHHHHHHH
Confidence            3445566666755 44 48999999999999887221     2 58899999999999999999888754

>4b4t_S RPN3, 26S proteasome regulatory subunit RPN3; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=90.72  E-value=1  Score=37.87  Aligned_cols=76  Identities=9%  Similarity=-0.043  Sum_probs=61.0

Q ss_pred             ChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHc-CChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhc
Q psy5288          75 NKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDM-GRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAG  152 (186)
Q Consensus        75 ~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~-~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~  152 (186)
                      +....+..+.-+-..|... .+++|..+..++.  +.+. .+..+.+.++.-+|.++--+ ++|.+|-+++..|+...+.
T Consensus       226 D~~~qa~l~nllLRnYL~~~~y~qA~~lvsk~~--fP~~~~sn~q~~rY~YY~GRI~a~q-~~Y~eA~~~L~~A~rkap~  302 (523)
T 4b4t_S          226 DNETKAMLINLILRDFLNNGEVDSASDFISKLE--YPHTDVSSSLEARYFFYLSKINAIQ-LDYSTANEYIIAAIRKAPH  302 (523)
T ss_dssp             SSCHHHHHHHHHHHHHHHSSCSTTHHHHHHHHC--SCTTTSCHHHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHTSSCSC
T ss_pred             CcchhHHHHHHHHHHHHccCcHHHHHHHHhcCc--CCcccCCHHHHHHHHHHHHHHHHHh-ccHHHHHHHHHHHHHhCCc
Confidence            5667788888888888877 7888888888774  4333 34567789999999999997 9999999999999987765


Q ss_pred             c
Q psy5288         153 E  153 (186)
Q Consensus       153 ~  153 (186)
                      .
T Consensus       303 ~  303 (523)
T 4b4t_S          303 N  303 (523)
T ss_dssp             S
T ss_pred             c
Confidence            3

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=90.61  E-value=3.2  Score=29.09  Aligned_cols=91  Identities=19%  Similarity=0.026  Sum_probs=66.3

Q ss_pred             CCH------HHHHHHHHHHHHHHHH--cCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHH
Q psy5288          54 KKW------NDGGNAFLQAGTLHLK--NNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHEN  124 (186)
Q Consensus        54 g~~------~~A~~~y~~a~~~~~~--~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~  124 (186)
                      |++      ++-.++|++|......  -+....=+..+.+-+.. ... ++++|.+.|+.++.+   ...+   |.++..
T Consensus        27 g~p~~d~~l~rlrd~YerAia~~Pp~k~~~wrrYI~LWIrYA~~-~ei~D~d~aR~vy~~a~~~---hKkF---AKiwi~   99 (161)
T 4h7y_A           27 SVPLSDALLNKLIGRYSQAIEALPPDKYGQNESFARIQVRFAEL-KAIQEPDDARDYFQMARAN---CKKF---AFVHIS   99 (161)
T ss_dssp             TCSCCHHHHHHHHHHHHHHHHHSCGGGGTTCHHHHHHHHHHHHH-HHHHCGGGCHHHHHHHHHH---CTTB---HHHHHH
T ss_pred             CCCchhhHHHHHHHHHHHHHHcCCccccccHHHHHHHHHHHHHH-HHhcCHHHHHHHHHHHHHH---hHHH---HHHHHH
Confidence            777      7778888888775422  11222223334344433 333 899999999999997   4455   889999


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHHHhc
Q psy5288         125 IAEIYEKELEDQEKAIDHYQHAADCYAG  152 (186)
Q Consensus       125 lg~~y~~~lg~~~~Ai~~y~kA~~l~~~  152 (186)
                      .|.--..+ |+.+.|...+.+|+.+.++
T Consensus       100 ~AqFEiRq-gnl~kARkILg~AiG~~~k  126 (161)
T 4h7y_A          100 FAQFELSQ-GNVKKSKQLLQKAVERGAV  126 (161)
T ss_dssp             HHHHHHHT-TCHHHHHHHHHHHHHTTCB
T ss_pred             HHHHHHHc-ccHHHHHHHHHHHhccCCC
Confidence            99988887 9999999999999998765

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=90.43  E-value=2.7  Score=29.01  Aligned_cols=64  Identities=13%  Similarity=0.038  Sum_probs=42.5

Q ss_pred             HHHHHHHHHHHHHHHh--cCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         117 MVAKHHENIAEIYEKE--LEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       117 ~~a~~~~~lg~~y~~~--lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ....+.++.|.++...  -.+..++|..++..+.-.+     .....|+..||.-+.++|+|++|.++.+.
T Consensus        37 vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~-----~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~  102 (144)
T 1y8m_A           37 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAE-----SRRRECLYYLTIGCYKLGEYSMAKRYVDT  102 (144)
T ss_dssp             SCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCC-----STHHHHHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCc-----cchhHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence            3455667777776552  1234577777777666321     12357888888888888888888887754

>3kae_A CDC27, possible protein of nuclear scaffold; tetratricopeptide repeat protein, protein binding; 2.30A {Encephalitozoon cuniculi}

Probab=90.05  E-value=4.1  Score=29.40  Aligned_cols=61  Identities=15%  Similarity=0.124  Sum_probs=44.8

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHH--HHHhc----------cCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         124 NIAEIYEKELEDQEKAIDHYQHAA--DCYAG----------EENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       124 ~lg~~y~~~lg~~~~Ai~~y~kA~--~l~~~----------~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      --+.||.. +.+|..|+.+.++.+  ++-+.          --++....-.+..+|.++..+|+-++||.+|.+
T Consensus        67 Yk~LCy~k-lKdYkkA~~~le~il~~kvd~d~~~d~~~~~ffvd~~DkEfFy~l~a~lltq~g~r~EaI~y~~~  139 (242)
T 3kae_A           67 YESLCYKK-KKDYKKAIKSLESILEGKVERDPDVDARIQEMFVDPGDEEFFESLLGDLCTLSGYREEGIGHYVR  139 (242)
T ss_dssp             HHHHHHHH-TTCHHHHHHHHHHHHTTCSBCCCCCCHHHHTTSCCTTCHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHH-HHHHHHHHHHHHHHHhcccccCcccccccceeeeccchHHHHHHHHHHHHHHhcCHHHhhhHhhh
Confidence            34667888 699999999999998  32211          012223334678899999999999999999864

>2w2u_A Hypothetical P60 katanin; hydrolase transport complex, nucleotide-binding, ESCRT, AAA-ATPase, cytokinesis, ATP-binding; 2.20A {Sulfolobus acidocaldarius}

Probab=89.64  E-value=1.1  Score=27.84  Aligned_cols=36  Identities=8%  Similarity=-0.052  Sum_probs=25.5

Q ss_pred             HHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Q psy5288          36 TDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLK   72 (186)
Q Consensus        36 ~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~   72 (186)
                      .++|+++..+| .-....|++++|+.+|..+++.+..
T Consensus        16 ~~~Ai~lv~~A-ve~D~~g~y~eAl~lY~~aie~l~~   51 (83)
T 2w2u_A           16 EEMARKYAINA-VKADKEGNAEEAITNYKKAIEVLAQ   51 (83)
T ss_dssp             HHHHHHHHHHH-HHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHH-HHHHHhccHHHHHHHHHHHHHHHHH
Confidence            35566655555 5567888888888888888887653

>2v6y_A AAA family ATPase, P60 katanin; MIT, VPS4, archaea, AAA-ATPase, ATP-binding, microtubule INT and trafficking domain, nucleotide-binding; HET: SRT; 2.40A {Sulfolobus solfataricus} PDB: 2v6y_B*

Probab=89.04  E-value=1.3  Score=27.48  Aligned_cols=34  Identities=18%  Similarity=-0.048  Sum_probs=20.9

Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH
Q psy5288          37 DEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHL   71 (186)
Q Consensus        37 ~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~   71 (186)
                      +.|+++..+| .-....|++++|+.+|.++++.+.
T Consensus         9 ~~Ai~lv~~A-ve~D~~g~y~eAl~lY~~aie~l~   42 (83)
T 2v6y_A            9 DMARKYAILA-VKADKEGKVEDAITYYKKAIEVLS   42 (83)
T ss_dssp             HHHHHHHHHH-HHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHH-HHHHHhccHHHHHHHHHHHHHHHH
Confidence            4555544444 445667777777777777777654

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=88.78  E-value=4.2  Score=37.38  Aligned_cols=124  Identities=6%  Similarity=0.001  Sum_probs=78.3

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHHHHHc-----------------CChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHH
Q psy5288          46 AGNLFKLGKKWNDGGNAFLQAGTLHLKN-----------------NNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVE  107 (186)
Q Consensus        46 ag~~~~~~g~~~~A~~~y~~a~~~~~~~-----------------~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~  107 (186)
                      .|.++...|++++|.+||.++..-....                 .....-..+|..+..++.+. -++.++++.+.|++
T Consensus       848 ~g~~~L~~ge~~~A~~~F~kaa~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~  927 (1139)
T 4fhn_B          848 KALIYLKSKEAVKAVRCFKTTSLVLYSHTSQFAVLREFQEIAEKYHHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADA  927 (1139)
T ss_dssp             HHHHHHHTTCHHHHHHHHHTCCCSCTTCCCSCSSHHHHHHHHHTTTSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHH
T ss_pred             HHHHHHhcCCHHHHHHHHHHHhhhhcccchhhhhhcccccccccccccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3778889999999999998875432110                 01111235677888888776 67888998888877


Q ss_pred             HHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHH
Q psy5288         108 IHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDK  178 (186)
Q Consensus       108 i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~  178 (186)
                      .. ..++.......+.++=..+.. +|+|++|...+...=    ....   ...|+..|-..+...|..++
T Consensus       928 ~~-~~~~~~~~~~l~~~iFk~~L~-l~~ye~Ay~aL~~~p----d~~~---r~~cLr~LV~~lce~~~~~~  989 (1139)
T 4fhn_B          928 SK-ETDDEDLSIAITHETLKTACA-AGKFDAAHVALMVLS----TTPL---KKSCLLDFVNQLTKQGKINQ  989 (1139)
T ss_dssp             HC-CSCCHHHHHHHHHHHHHHHHH-HCCSGGGGHHHHHHH----HSSS---CHHHHHHHHHHHHHHCCHHH
T ss_pred             hc-cCCChhhHHHHHHHHHHHHHh-hCCHHHHHHHHHhCC----CHHH---HHHHHHHHHHHHHhCCChhh
Confidence            53 223444445567777677777 699999877764322    1111   13566666666665555443

>2crb_A Nuclear receptor binding factor 2; NRBF-2, MIT domain, helix bundle, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: a.7.16.1

Probab=88.66  E-value=1.4  Score=27.95  Aligned_cols=38  Identities=16%  Similarity=0.105  Sum_probs=30.8

Q ss_pred             ChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhc
Q psy5288         114 RFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAG  152 (186)
Q Consensus       114 ~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~  152 (186)
                      .+-..|-.+...+..+... |.|++||+++++|..+..+
T Consensus        10 spLn~AH~~~RrAe~ll~~-gkydeAIech~kAa~yL~e   47 (97)
T 2crb_A           10 GPLNLAHQQSRRADRLLAA-GKYEEAISCHRKATTYLSE   47 (97)
T ss_dssp             THHHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHH
T ss_pred             chhhhhhHhhhHHHHHHhc-CCHHHHHHHHHHHHHHHHH
Confidence            3445567778888888886 9999999999999988764

>2w2u_A Hypothetical P60 katanin; hydrolase transport complex, nucleotide-binding, ESCRT, AAA-ATPase, cytokinesis, ATP-binding; 2.20A {Sulfolobus acidocaldarius}

Probab=88.50  E-value=1.3  Score=27.54  Aligned_cols=26  Identities=35%  Similarity=0.448  Sum_probs=19.0

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHHHhc
Q psy5288         126 AEIYEKELEDQEKAIDHYQHAADCYAG  152 (186)
Q Consensus       126 g~~y~~~lg~~~~Ai~~y~kA~~l~~~  152 (186)
                      |.-.... |+|++|+.+|.+|++++..
T Consensus        26 Ave~D~~-g~y~eAl~lY~~aie~l~~   51 (83)
T 2w2u_A           26 AVKADKE-GNAEEAITNYKKAIEVLAQ   51 (83)
T ss_dssp             HHHHHHT-TCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHh-ccHHHHHHHHHHHHHHHHH
Confidence            3333443 8999999999999888664

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=88.15  E-value=4.6  Score=33.39  Aligned_cols=120  Identities=13%  Similarity=0.088  Sum_probs=73.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC--CHHHHHHHHHHHHHHHHHcCChhHHH
Q psy5288          42 LYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS--NPAEAIKAIERAVEIHTDMGRFIMVA  119 (186)
Q Consensus        42 ~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~--~~~~A~~~~~~Al~i~~~~~~~~~~a  119 (186)
                      .|..-+....+.+..+.|...|.+| ..      +......|...+.+-...  +++.|...|++++..+..  ++    
T Consensus       288 lw~~y~~~~~r~~~~~~AR~i~~~A-~~------~~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~~~--~~----  354 (493)
T 2uy1_A          288 LRINHLNYVLKKRGLELFRKLFIEL-GN------EGVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKHPD--ST----  354 (493)
T ss_dssp             HHHHHHHHHHHHHCHHHHHHHHHHH-TT------SCCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHCTT--CH----
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHh-hC------CCCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCCC--CH----
Confidence            3444444555567788888888877 21      111123444444333222  688999999999886532  22    


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         120 KHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       120 ~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ..+...+..... +|+.+.|...|+++.    +      ....|......-...|+.+.+.+++++
T Consensus       355 ~~~~~yid~e~~-~~~~~~aR~l~er~~----k------~~~lw~~~~~fE~~~G~~~~~r~v~~~  409 (493)
T 2uy1_A          355 LLKEEFFLFLLR-IGDEENARALFKRLE----K------TSRMWDSMIEYEFMVGSMELFRELVDQ  409 (493)
T ss_dssp             HHHHHHHHHHHH-HTCHHHHHHHHHHSC----C------BHHHHHHHHHHHHHHSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH-cCCHHHHHHHHHHHH----H------HHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            234455666666 599999999999872    1      124566666655666888777776654

>2v6y_A AAA family ATPase, P60 katanin; MIT, VPS4, archaea, AAA-ATPase, ATP-binding, microtubule INT and trafficking domain, nucleotide-binding; HET: SRT; 2.40A {Sulfolobus solfataricus} PDB: 2v6y_B*

Probab=87.47  E-value=1.6  Score=27.03  Aligned_cols=27  Identities=30%  Similarity=0.363  Sum_probs=19.9

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHHHhc
Q psy5288         125 IAEIYEKELEDQEKAIDHYQHAADCYAG  152 (186)
Q Consensus       125 lg~~y~~~lg~~~~Ai~~y~kA~~l~~~  152 (186)
                      -|.-.... |+|++|+.+|.+|++++..
T Consensus        17 ~Ave~D~~-g~y~eAl~lY~~aie~l~~   43 (83)
T 2v6y_A           17 LAVKADKE-GKVEDAITYYKKAIEVLSQ   43 (83)
T ss_dssp             HHHHHHHT-TCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHh-ccHHHHHHHHHHHHHHHHH
Confidence            33334453 8999999999999998764

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=87.00  E-value=2.9  Score=38.45  Aligned_cols=97  Identities=10%  Similarity=0.035  Sum_probs=71.5

Q ss_pred             HHHHHHhcC-CHHHHHHHHHHHHHHH-----------------HHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q psy5288          85 DAANCYKKS-NPAEAIKAIERAVEIH-----------------TDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHA  146 (186)
Q Consensus        85 ~a~~~y~~~-~~~~A~~~~~~Al~i~-----------------~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA  146 (186)
                      -.|.+|... ++++|.++|++|..-.                 ...........+|..+..+++.. +.++.++++-..|
T Consensus       847 l~g~~~L~~ge~~~A~~~F~kaa~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~YY~hv~~LFe~~-~~~~~vi~fa~lA  925 (1139)
T 4fhn_B          847 LKALIYLKSKEAVKAVRCFKTTSLVLYSHTSQFAVLREFQEIAEKYHHQNLLSCYYLHLSKKLFEE-SAYIDALEFSLLA  925 (1139)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHTCCCSCTTCCCSCSSHHHHHHHHHTTTSCCSSHHHHHHHHHHHHHT-SCCHHHHHHHHHH
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHhhhhcccchhhhhhcccccccccccccccHHHHHHHHHHHHHHc-CCHHHHHHHHHHH
Confidence            567777776 9999999998874321                 11112233456899999999996 9999999999999


Q ss_pred             HHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHH
Q psy5288         147 ADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLY  183 (186)
Q Consensus       147 ~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~  183 (186)
                      +..... +.+......|.++=..+..+|+|++|...+
T Consensus       926 i~~~~~-~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL  961 (1139)
T 4fhn_B          926 DASKET-DDEDLSIAITHETLKTACAAGKFDAAHVAL  961 (1139)
T ss_dssp             HHHCCS-CCHHHHHHHHHHHHHHHHHHCCSGGGGHHH
T ss_pred             HHhccC-CChhhHHHHHHHHHHHHHhhCCHHHHHHHH
Confidence            986443 333334457778888889999999997765

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=86.96  E-value=6.7  Score=28.03  Aligned_cols=27  Identities=7%  Similarity=-0.076  Sum_probs=18.9

Q ss_pred             HHHHHHHHHHhcC-CHHHHHHHHHHHHH
Q psy5288          81 LCFVDAANCYKKS-NPAEAIKAIERAVE  107 (186)
Q Consensus        81 ~~~~~a~~~y~~~-~~~~A~~~~~~Al~  107 (186)
                      ..|.++|+..... +++-|.+||+++-+
T Consensus        35 ~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D   62 (177)
T 3mkq_B           35 ITWERLIQEALAQGNASLAEMIYQTQHS   62 (177)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHhCC
Confidence            4677777777665 77888888776544

>2cpt_A SKD1 protein, vacuolar sorting protein 4B; MIT, helix bundle, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.7.14.1

Probab=86.83  E-value=1.3  Score=29.49  Aligned_cols=29  Identities=28%  Similarity=0.382  Sum_probs=20.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHhc
Q psy5288         123 ENIAEIYEKELEDQEKAIDHYQHAADCYAG  152 (186)
Q Consensus       123 ~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~  152 (186)
                      ...|.-.... |+|++|+.+|.+|++++-.
T Consensus        22 v~~Ave~D~a-g~y~eAl~lY~~Aie~l~~   50 (117)
T 2cpt_A           22 ASKAAQEDKA-GNYEEALQLYQHAVQYFLH   50 (117)
T ss_dssp             HHHHHHHHHH-TCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHc-cCHHHHHHHHHHHHHHHHH
Confidence            3334344443 8999999999999998664

>4b4t_S RPN3, 26S proteasome regulatory subunit RPN3; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=86.66  E-value=2  Score=36.17  Aligned_cols=82  Identities=11%  Similarity=0.053  Sum_probs=63.4

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhcc-CChHHHHHHHHHHHHHHHhccCHHHH
Q psy5288         101 AIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGE-ENKSSANKCLIKIANYSALTDHLDKA  179 (186)
Q Consensus       101 ~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~-~~~~~~~~~~~~la~~y~~~g~~~~A  179 (186)
                      .+-.+++....-.|....+.+++.+=+.|... +.|++|..+..++-  ++.. ........++.-+|.++.-.++|.+|
T Consensus       213 ~Ll~~~rta~lr~D~~~qa~l~nllLRnYL~~-~~y~qA~~lvsk~~--fP~~~~sn~q~~rY~YY~GRI~a~q~~Y~eA  289 (523)
T 4b4t_S          213 TMMKFLKIASLKHDNETKAMLINLILRDFLNN-GEVDSASDFISKLE--YPHTDVSSSLEARYFFYLSKINAIQLDYSTA  289 (523)
T ss_dssp             HHHHHHHHCCSCSSSCHHHHHHHHHHHHHHHS-SCSTTHHHHHHHHC--SCTTTSCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHhcccCcchhHHHHHHHHHHHHcc-CcHHHHHHHHhcCc--CCcccCCHHHHHHHHHHHHHHHHHhccHHHH
Confidence            33444444444467788999999999999995 99999999999885  5543 23344467888999999999999999


Q ss_pred             HHHHHh
Q psy5288         180 IKLYEQ  185 (186)
Q Consensus       180 ~~~~~~  185 (186)
                      .+++..
T Consensus       290 ~~~L~~  295 (523)
T 4b4t_S          290 NEYIIA  295 (523)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            998863

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=86.61  E-value=5.8  Score=26.99  Aligned_cols=62  Identities=13%  Similarity=0.049  Sum_probs=42.0

Q ss_pred             HHHHHHHHHHHHHh--cCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         119 AKHHENIAEIYEKE--LEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       119 a~~~~~lg~~y~~~--lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ..+.++.|.++...  -.+..++|..++..+.-.     +.....|+..||.-+.++|+|++|.++.+.
T Consensus        40 ~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~-----~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~  103 (134)
T 3o48_A           40 IQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA-----ESRRRECLYYLTIGCYKLGEYSMAKRYVDT  103 (134)
T ss_dssp             HHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHC-----GGGHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-----cchhHHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence            35666777666542  123457788887766532     223457888888888899999988888764

>2v6x_A Vacuolar protein sorting-associated protein 4; protein transport, vacuole, endosome, transport, ESCRT-III, VPS2, VPS4, SKD1, VPS4B, VPS4A; 1.98A {Saccharomyces cerevisiae}

Probab=85.53  E-value=3.9  Score=25.29  Aligned_cols=37  Identities=11%  Similarity=0.134  Sum_probs=26.6

Q ss_pred             CHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Q psy5288          35 KTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLK   72 (186)
Q Consensus        35 ~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~   72 (186)
                      -.+.|+.+..+| .-....|++++|+.+|..+++.+..
T Consensus         9 ~l~~A~~l~~~A-v~~D~~g~y~eAl~~Y~~aie~l~~   45 (85)
T 2v6x_A            9 FLTKGIELVQKA-IDLDTATQYEEAYTAYYNGLDYLML   45 (85)
T ss_dssp             HHHHHHHHHHHH-HHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH-HHHHHcCCHHHHHHHHHHHHHHHHH
Confidence            356666666655 4557788888888888888887653

>1wfd_A Hypothetical protein 1500032H18; MIT domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Mus musculus} SCOP: a.7.14.1

Probab=85.46  E-value=3.7  Score=25.99  Aligned_cols=38  Identities=11%  Similarity=0.189  Sum_probs=29.1

Q ss_pred             CCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Q psy5288          34 NKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLK   72 (186)
Q Consensus        34 ~~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~   72 (186)
                      +-.+.|+++..+| .-....|++++|+.+|..+++.+..
T Consensus        10 ~~l~~Ai~lv~~A-ve~D~~g~y~eAl~~Y~~Aie~l~~   47 (93)
T 1wfd_A           10 SDSTAAVAVLKRA-VELDAESRYQQALVCYQEGIDMLLQ   47 (93)
T ss_dssp             CHHHHHHHHHHHH-HHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH-HHHHHhCCHHHHHHHHHHHHHHHHH
Confidence            4455666666665 5568889999999999999998764

>4a5x_A MITD1, MIT domain-containing protein 1; protein transport, ESCRT, cytokinesis, midbody; HET: P15; 1.91A {Homo sapiens}

Probab=84.27  E-value=5.6  Score=24.76  Aligned_cols=33  Identities=21%  Similarity=0.116  Sum_probs=23.4

Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhc
Q psy5288         119 AKHHENIAEIYEKELEDQEKAIDHYQHAADCYAG  152 (186)
Q Consensus       119 a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~  152 (186)
                      |.-+..-|.-.... |+|++|+.+|.+|++++-.
T Consensus        16 A~~lv~~Ave~D~~-g~y~eAl~lY~~Aie~ll~   48 (86)
T 4a5x_A           16 AATVLKRAVELDSE-SRYPQALVCYQEGIDLLLQ   48 (86)
T ss_dssp             HHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHH
Confidence            33344444444554 9999999999999998664

>2cpt_A SKD1 protein, vacuolar sorting protein 4B; MIT, helix bundle, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.7.14.1

Probab=84.15  E-value=2.7  Score=27.91  Aligned_cols=36  Identities=19%  Similarity=0.207  Sum_probs=27.9

Q ss_pred             HHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Q psy5288          36 TDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLK   72 (186)
Q Consensus        36 ~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~   72 (186)
                      .+.|+.+..+| .-....|++++|+.+|..+++++..
T Consensus        15 l~kAi~lv~~A-ve~D~ag~y~eAl~lY~~Aie~l~~   50 (117)
T 2cpt_A           15 LQKAIDLASKA-AQEDKAGNYEEALQLYQHAVQYFLH   50 (117)
T ss_dssp             HHHHHHHHHHH-HHHHHHTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHH-HHHHHccCHHHHHHHHHHHHHHHHH
Confidence            56777766666 4557789999999999999997664

>4a5x_A MITD1, MIT domain-containing protein 1; protein transport, ESCRT, cytokinesis, midbody; HET: P15; 1.91A {Homo sapiens}

Probab=83.79  E-value=3.1  Score=25.94  Aligned_cols=38  Identities=13%  Similarity=0.139  Sum_probs=27.1

Q ss_pred             CCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Q psy5288          34 NKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLK   72 (186)
Q Consensus        34 ~~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~   72 (186)
                      |.-..|+++..+| .-....|++++|+.+|..+++.+..
T Consensus        11 ~~~~~A~~lv~~A-ve~D~~g~y~eAl~lY~~Aie~ll~   48 (86)
T 4a5x_A           11 PQSTAAATVLKRA-VELDSESRYPQALVCYQEGIDLLLQ   48 (86)
T ss_dssp             CHHHHHHHHHHHH-HHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHH-HHHHHcCCHHHHHHHHHHHHHHHHH
Confidence            4445666666655 4457788899999999888887653

>1wfd_A Hypothetical protein 1500032H18; MIT domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Mus musculus} SCOP: a.7.14.1

Probab=83.16  E-value=6.6  Score=24.76  Aligned_cols=30  Identities=20%  Similarity=0.134  Sum_probs=21.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHhc
Q psy5288         122 HENIAEIYEKELEDQEKAIDHYQHAADCYAG  152 (186)
Q Consensus       122 ~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~  152 (186)
                      +...|.-.... |+|++|+.+|.+|++++..
T Consensus        18 lv~~Ave~D~~-g~y~eAl~~Y~~Aie~l~~   47 (93)
T 1wfd_A           18 VLKRAVELDAE-SRYQQALVCYQEGIDMLLQ   47 (93)
T ss_dssp             HHHHHHHHHHT-TCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHh-CCHHHHHHHHHHHHHHHHH
Confidence            33444444554 8999999999999998764

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=82.35  E-value=3.9  Score=27.83  Aligned_cols=54  Identities=7%  Similarity=-0.093  Sum_probs=42.2

Q ss_pred             CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhcc
Q psy5288          94 NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGE  153 (186)
Q Consensus        94 ~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~  153 (186)
                      +..+++..++..+.   .  ++...-.++.-+|.-+.. +|+|++|..+.+..+++-+.+
T Consensus        58 d~~~GI~LLe~l~~---~--~~~~~Rd~LYyLAvg~yk-lgdY~~Ar~y~d~lL~~eP~N  111 (134)
T 3o48_A           58 DERLGVKILTDIYK---E--AESRRRECLYYLTIGCYK-LGEYSMAKRYVDTLFEHERNN  111 (134)
T ss_dssp             HHHHHHHHHHHHHH---H--CGGGHHHHHHHHHHHHHH-HTCHHHHHHHHHHHHTTCTTC
T ss_pred             HHHHHHHHHHHHHh---c--CcchhHHHHHHHHHHHHH-hhhHHHHHHHHHHHHhhCCCC
Confidence            44577777765443   2  255677899999999998 699999999999999986654

>2v6x_A Vacuolar protein sorting-associated protein 4; protein transport, vacuole, endosome, transport, ESCRT-III, VPS2, VPS4, SKD1, VPS4B, VPS4A; 1.98A {Saccharomyces cerevisiae}

Probab=81.60  E-value=7.1  Score=24.02  Aligned_cols=31  Identities=16%  Similarity=0.050  Sum_probs=21.9

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhc
Q psy5288         121 HHENIAEIYEKELEDQEKAIDHYQHAADCYAG  152 (186)
Q Consensus       121 ~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~  152 (186)
                      .+...|.-.... |+|++|+.+|.+|++++-.
T Consensus        15 ~l~~~Av~~D~~-g~y~eAl~~Y~~aie~l~~   45 (85)
T 2v6x_A           15 ELVQKAIDLDTA-TQYEEAYTAYYNGLDYLML   45 (85)
T ss_dssp             HHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHH
Confidence            334444444554 9999999999999998654

>2wm9_A Dedicator of cytokinesis protein 9; polymorphism, cell membrane, phosphoprotein, nucleotide-binding, alternative splicing; 2.20A {Homo sapiens} PDB: 2wmn_A* 2wmo_A*

Probab=81.08  E-value=15  Score=29.93  Aligned_cols=116  Identities=16%  Similarity=0.139  Sum_probs=62.7

Q ss_pred             HHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhc-------CCHH-HHHHHH-----H-HHHH--H-HHHcC-ChhH
Q psy5288          56 WNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKK-------SNPA-EAIKAI-----E-RAVE--I-HTDMG-RFIM  117 (186)
Q Consensus        56 ~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~-------~~~~-~A~~~~-----~-~Al~--i-~~~~~-~~~~  117 (186)
                      ++-=+..+.+..+.+...++..+|+.++.-++.+...       ..++ .+....     + .++.  . ..... ...+
T Consensus         7 pdl~~~wl~~La~~h~~~~n~~EAa~cl~~~aaliae~L~~~~~~~~~~~~f~~i~p~~~ee~~~~~d~g~~~~~fte~~   86 (428)
T 2wm9_A            7 PELRKTWLDSMARIHVKNGDLSEAAMCYVHVTALVAEYLTRKGVFRQGCTAFRVITPNIDEEASMMEDVGMQDVHFNEDV   86 (428)
T ss_dssp             HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHTTSSSCCGGGGTTTCGGGGGGC---------CCSSSHHH
T ss_pred             HHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHhhcCCCccchhccccccCCCccccCHHH
Confidence            3333556667777777777777777777555443333       1110 000000     0 0000  0 00000 1222


Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHh
Q psy5288         118 VAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSAL  172 (186)
Q Consensus       118 ~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~  172 (186)
                      .-..+......+.. .+.++.|+..|+..+.+++...+......++..++.+|..
T Consensus        87 l~~ll~~ai~~f~k-g~~~E~ai~~~k~L~~~ye~~~dy~~Ls~~~~~~a~~y~~  140 (428)
T 2wm9_A           87 LMELLEQCADGLWK-AERYELIADIYKLIIPIYEKRRDFERLAHLYDTLHRAYSK  140 (428)
T ss_dssp             HHHHHHHHHHHHHH-TTCGGGHHHHHTTTHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh-cCcHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHH
Confidence            33345556666666 5778888888888888888776666666677777777654

>2crb_A Nuclear receptor binding factor 2; NRBF-2, MIT domain, helix bundle, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: a.7.16.1

Probab=80.01  E-value=4.1  Score=25.86  Aligned_cols=31  Identities=13%  Similarity=0.082  Sum_probs=20.9

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHH
Q psy5288          40 IDLYVRAGNLFKLGKKWNDGGNAFLQAGTLH   70 (186)
Q Consensus        40 ~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~   70 (186)
                      +-.+.+-++.+...|+|++||+|..+++...
T Consensus        15 AH~~~RrAe~ll~~gkydeAIech~kAa~yL   45 (97)
T 2crb_A           15 AHQQSRRADRLLAAGKYEEAISCHRKATTYL   45 (97)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             hhHhhhHHHHHHhcCCHHHHHHHHHHHHHHH
Confidence            4445555666777777777777777777653

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	186
d1qqea_	290	a.118.8.1 (A:) Vesicular transport protein sec17 {	4e-22

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 290

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 88.5 bits (218), Expect = 4e-22
 Identities = 66/182 (36%), Positives = 103/182 (56%), Gaps = 4/182 (2%)

Query: 8   ARQLVAEAEKKISSSSKGFFSQFTGGN--KTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQ 65
             +L+  AEKK   SS GF   F+G +  K +EA DL V+A  +++L K+ N  G++FL+
Sbjct: 4   PVELLKRAEKKGVPSS-GFMKLFSGSDSYKFEEAADLCVQAATIYRLRKELNLAGDSFLK 62

Query: 66  AGTLHLKNNNKHDAGLCFVDAANCYK-KSNPAEAIKAIERAVEIHTDMGRFIMVAKHHEN 124
           A     K  N+ +AG  +V+A  C+K   N   A+ ++E A++I T  G+F   A     
Sbjct: 63  AADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFE 122

Query: 125 IAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYE 184
           + EI E +L D  KAID Y+ A + YA +++ + +NKC IK A+  AL     +A  +Y 
Sbjct: 123 LGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYS 182

Query: 185 QL 186
           +L
Sbjct: 183 KL 184

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	186
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	99.97
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	99.84
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	99.57
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	99.55
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.54
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.49
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.46
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	99.44
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	99.41
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	99.4
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	99.39
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	99.39
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	99.39
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.39
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	99.37
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	99.37
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	99.35
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	99.34
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.34
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	99.34
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.33
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	99.32
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.31
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.27
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.25
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	99.25
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	99.24
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.23
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	99.22
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.21
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	99.21
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	99.2
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	99.14
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.13
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	99.05
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	99.03
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.99
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.97
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.9
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.82
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.66
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.6
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.59
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.57
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.55
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.48
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.27
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	98.25
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.21
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.09
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	98.09
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.53
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	97.36
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.15
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	97.02
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	96.82
d2crba1	83	Nuclear receptor binding factor 2, NRBF2, N-termin	92.13
d2crba1	83	Nuclear receptor binding factor 2, NRBF2, N-termin	91.13
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	89.99
d1wr0a1	77	Vacuolar sorting protein 4b (VPS4B, SKD1 protein)	87.16
d1wfda_	93	Hypothetical protein 1500032H18Rik {Mouse (Mus mus	85.99
d1wfda_	93	Hypothetical protein 1500032H18Rik {Mouse (Mus mus	85.67
d1wr0a1	77	Vacuolar sorting protein 4b (VPS4B, SKD1 protein)	80.3

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.97  E-value=7.7e-30  Score=199.10  Aligned_cols=180  Identities=36%  Similarity=0.589  Sum_probs=167.6

Q ss_pred             HhHHHHHHHHHHhhccCCCCccccccCC--CCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHH
Q psy5288           6 QKARQLVAEAEKKISSSSKGFFSQFTGG--NKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCF   83 (186)
Q Consensus         6 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~   83 (186)
                      ++|+++|++|++.++ ++.+||+-++++  ++|++|+++|.++|++|+..|++++|+++|.++++++.+.+++..++.+|
T Consensus         2 ~~~~~~l~~aek~~~-~~~~~~~~~~~~~~~~~~~Aa~~y~~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~   80 (290)
T d1qqea_           2 SDPVELLKRAEKKGV-PSSGFMKLFSGSDSYKFEEAADLCVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTY   80 (290)
T ss_dssp             CCHHHHHHHHHHHSS-CCCTHHHHHSCCSHHHHHHHHHHHHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CCHHHHHHHHHHhcC-cchhHHHHhcCCccccHHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHH
Confidence            478999999999999 767777755544  45899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHH
Q psy5288          84 VDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKC  162 (186)
Q Consensus        84 ~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~  162 (186)
                      .++|.+|... ++++|+++|+++++++...+++..++.++.++|.+|...+|++++|+.+|++|+++++..+.+.....+
T Consensus        81 ~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~  160 (290)
T d1qqea_          81 VEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKC  160 (290)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhH
Confidence            9999999987 999999999999999999999999999999999999764699999999999999999998888888899


Q ss_pred             HHHHHHHHHhccCHHHHHHHHHhC
Q psy5288         163 LIKIANYSALTDHLDKAIKLYEQL  186 (186)
Q Consensus       163 ~~~la~~y~~~g~~~~A~~~~~~~  186 (186)
                      +.++|.+|..+|+|++|+++|+++
T Consensus       161 ~~~la~~~~~~g~y~~A~~~~~~~  184 (290)
T d1qqea_         161 FIKCADLKALDGQYIEASDIYSKL  184 (290)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcChHHHHHHHHHHH
Confidence            999999999999999999999863

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.84  E-value=4e-19  Score=137.73  Aligned_cols=168  Identities=15%  Similarity=0.099  Sum_probs=144.7

Q ss_pred             HhHHHHHHHHHHhhccCCCCccccccCCCCHHHHHHHHHHH--------------------HHHHHhcCCHHHHHHHHHH
Q psy5288           6 QKARQLVAEAEKKISSSSKGFFSQFTGGNKTDEAIDLYVRA--------------------GNLFKLGKKWNDGGNAFLQ   65 (186)
Q Consensus         6 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~A~~~y~~a--------------------g~~~~~~g~~~~A~~~y~~   65 (186)
                      ++|.+++.+|...++           ..++|++|+++|.++                    |.+|..+|++++|+++|.+
T Consensus        34 ~~Aa~~y~~aa~~y~-----------~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~  102 (290)
T d1qqea_          34 EEAADLCVQAATIYR-----------LRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLEN  102 (290)
T ss_dssp             HHHHHHHHHHHHHHH-----------HTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH-----------HCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHH
Confidence            677888888877777           124666666666555                    6678889999999999999


Q ss_pred             HHHHHHHcCChhHHHHHHHHHHHHHhc-C-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHH
Q psy5288          66 AGTLHLKNNNKHDAGLCFVDAANCYKK-S-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHY  143 (186)
Q Consensus        66 a~~~~~~~~~~~~aa~~~~~a~~~y~~-~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y  143 (186)
                      +++++...+++..++.++.++|.+|.. . ++++|+++|++|++++...+++...+.++.++|.+|... |+|++|+.+|
T Consensus       103 a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~-g~y~~A~~~~  181 (290)
T d1qqea_         103 AIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALD-GQYIEASDIY  181 (290)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHT-TCHHHHHHHH
T ss_pred             hhHHhhhcccchhHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHc-ChHHHHHHHH
Confidence            999999999999999999999999864 3 899999999999999999999999999999999999994 9999999999


Q ss_pred             HHHHHHHhccC-ChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         144 QHAADCYAGEE-NKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       144 ~kA~~l~~~~~-~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ++++.+.+... .+......+.+++.++...|+++.|...|++
T Consensus       182 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~~  224 (290)
T d1qqea_         182 SKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQE  224 (290)
T ss_dssp             HHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHG
T ss_pred             HHHHHhCccchhhhhhHHHHHHHHHHHHHHhccHHHHHHHHHH
Confidence            99999987754 3445557788999999999999999999876

>d1hh8a_ a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Neutrophil cytosolic factor 2 (NCF-2, p67-phox)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.57  E-value=7.2e-14  Score=101.87  Aligned_cols=133  Identities=25%  Similarity=0.225  Sum_probs=108.8

Q ss_pred             HHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCC
Q psy5288          36 TDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGR  114 (186)
Q Consensus        36 ~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~  114 (186)
                      +.+++.+|++ |..+...|++++|+++|.++       .++.  +..+.++|.+|... ++++|+++|++|+++.+..  
T Consensus         2 ~~~~~~l~~~-g~~~~~~~d~~~Al~~~~~i-------~~~~--~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~~--   69 (192)
T d1hh8a_           2 LVEAISLWNE-GVLAADKKDWKGALDAFSAV-------QDPH--SRICFNIGCMYTILKNMTEAEKAFTRSINRDKHL--   69 (192)
T ss_dssp             HHHHHHHHHH-HHHHHHTTCHHHHHHHHHTS-------SSCC--HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC--
T ss_pred             HHHHHHHHHH-HHHHHHCCCHHHHHHHHHhc-------CCCC--HHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhh--
Confidence            4578889987 88899999999999998753       2332  24577999999987 9999999999999876433  


Q ss_pred             hhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccC----------ChHHHHHHHHHHHHHHHhccCHHHHHHHHH
Q psy5288         115 FIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEE----------NKSSANKCLIKIANYSALTDHLDKAIKLYE  184 (186)
Q Consensus       115 ~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~----------~~~~~~~~~~~la~~y~~~g~~~~A~~~~~  184 (186)
                          +.++.++|.+|.. +|++++|+..|++|+...+.+.          .+.....++.++|.+|..+|++++|++.|+
T Consensus        70 ----~~a~~~~g~~~~~-~g~~~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~  144 (192)
T d1hh8a_          70 ----AVAYFQRGMLYYQ-TEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLA  144 (192)
T ss_dssp             ----HHHHHHHHHHHHH-TTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             ----hhhHHHHHHHHHh-hccHHHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence                5589999999999 5999999999999998765432          122334688999999999999999999987


Q ss_pred             h
Q psy5288         185 Q  185 (186)
Q Consensus       185 ~  185 (186)
                      +
T Consensus       145 ~  145 (192)
T d1hh8a_         145 L  145 (192)
T ss_dssp             H
T ss_pred             H
Confidence            5

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=99.55  E-value=4.6e-13  Score=94.18  Aligned_cols=127  Identities=9%  Similarity=0.084  Sum_probs=102.1

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHHHHHcCCh------hHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCC-----
Q psy5288          47 GNLFKLGKKWNDGGNAFLQAGTLHLKNNNK------HDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGR-----  114 (186)
Q Consensus        47 g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~------~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~-----  114 (186)
                      |+.+...|+|++|++.|.+++++....++.      ...+.+|.++|.+|..+ ++++|+..+++++.++.....     
T Consensus        16 g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~   95 (156)
T d2hr2a1          16 AQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDE   95 (156)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccc
Confidence            778888999999999999999999876542      23578899999999988 999999999999999987643     


Q ss_pred             hhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccC-ChHHHHHHHHHHHHHHHhcc
Q psy5288         115 FIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEE-NKSSANKCLIKIANYSALTD  174 (186)
Q Consensus       115 ~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~-~~~~~~~~~~~la~~y~~~g  174 (186)
                      ....+.++.++|.+|.. +|++++|+.+|++|+++.++.. ...........++.-+.++|
T Consensus        96 ~~~~~~a~~~~g~~~~~-lg~~eeA~~~~~~Al~l~~~~~~~~~~~~~~~~~~~~~l~~lg  155 (156)
T d2hr2a1          96 GKLWISAVYSRALALDG-LGRGAEAMPEFKKVVEMIEERKGETPGKERMMEVAIDRIAQLG  155 (156)
T ss_dssp             HHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHCCSCCTTHHHHHHHHHHHHHHHH
T ss_pred             cchhHHHHhhhHHHHHH-HHHHHHHHHHHHHHHHhhHHhhchHHHHHHHHHHHHHHHHHcC
Confidence            23456678999999999 5999999999999999998753 22333345566666555544

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.54  E-value=1.6e-13  Score=105.86  Aligned_cols=88  Identities=10%  Similarity=0.141  Sum_probs=62.4

Q ss_pred             HHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHH
Q psy5288          85 DAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCL  163 (186)
Q Consensus        85 ~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~  163 (186)
                      .+|.++... ++++|+.+|++++.+.+..      +.++..+|.+|... |++++|+.+|++++++.+..      ..++
T Consensus       177 ~l~~~~~~~~~~~~A~~~~~~al~~~p~~------~~~~~~lg~~~~~~-g~~~~A~~~~~~al~~~p~~------~~a~  243 (323)
T d1fcha_         177 GLGVLFNLSGEYDKAVDCFTAALSVRPND------YLLWNKLGATLANG-NQSEEAVAAYRRALELQPGY------IRSR  243 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTTC------HHHH
T ss_pred             hhHHHHHHHHHHhhhhccccccccccccc------ccchhhhhhccccc-ccchhHHHHHHHHHHHhhcc------HHHH
Confidence            344455444 6667777777666554322      44677888888884 88888888888888875432      3577


Q ss_pred             HHHHHHHHhccCHHHHHHHHHh
Q psy5288         164 IKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       164 ~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      .++|.+|...|++++|+++|++
T Consensus       244 ~~lg~~~~~~g~~~~A~~~~~~  265 (323)
T d1fcha_         244 YNLGISCINLGAHREAVEHFLE  265 (323)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHH
Confidence            8888888888888888888875

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.49  E-value=2e-13  Score=106.05  Aligned_cols=135  Identities=20%  Similarity=0.249  Sum_probs=107.6

Q ss_pred             CCCCHHHHHHHHHHH--------------HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHH
Q psy5288          32 GGNKTDEAIDLYVRA--------------GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPA   96 (186)
Q Consensus        32 ~~~~~~~A~~~y~~a--------------g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~   96 (186)
                      ..+++++|+..|.++              |.++...|++++|+.+|.+++++     +|.. ...+..+|.+|... +++
T Consensus       215 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~-----~p~~-~~~~~~l~~~~~~~~~~~  288 (388)
T d1w3ba_         215 EARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIEL-----QPHF-PDAYCNLANALKEKGSVA  288 (388)
T ss_dssp             TTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT-----CSSC-HHHHHHHHHHHHHHSCHH
T ss_pred             ccccHHHHHHHHHHhHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-----CCCC-HHHHHHHHHHHHHcCCHH
Confidence            457888888887765              56788889999999999998876     3333 34566888888766 889


Q ss_pred             HHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCH
Q psy5288          97 EAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHL  176 (186)
Q Consensus        97 ~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~  176 (186)
                      +|+..++++.......      ..++..+|.++... |++++|+.+|++++++.++.      ..++.++|.+|..+|++
T Consensus       289 ~A~~~~~~~~~~~~~~------~~~~~~l~~~~~~~-~~~~~A~~~~~~al~~~p~~------~~~~~~la~~~~~~g~~  355 (388)
T d1w3ba_         289 EAEDCYNTALRLCPTH------ADSLNNLANIKREQ-GNIEEAVRLYRKALEVFPEF------AAAHSNLASVLQQQGKL  355 (388)
T ss_dssp             HHHHHHHHHHHHCTTC------HHHHHHHHHHHHTT-TCHHHHHHHHHHHTTSCTTC------HHHHHHHHHHHHTTTCC
T ss_pred             HHHHHHHhhhccCCcc------chhhhHHHHHHHHC-CCHHHHHHHHHHHHHhCCCC------HHHHHHHHHHHHHcCCH
Confidence            9999998887654332      44778899999984 99999999999999987653      36888999999999999


Q ss_pred             HHHHHHHHh
Q psy5288         177 DKAIKLYEQ  185 (186)
Q Consensus       177 ~~A~~~~~~  185 (186)
                      ++|++.|++
T Consensus       356 ~~A~~~~~~  364 (388)
T d1w3ba_         356 QEALMHYKE  364 (388)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999999976

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=99.46  E-value=1.1e-12  Score=98.00  Aligned_cols=102  Identities=18%  Similarity=0.048  Sum_probs=85.2

Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCCh
Q psy5288          37 DEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRF  115 (186)
Q Consensus        37 ~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~  115 (186)
                      ++-+..|...|.+|...|++++|+++|.+++++     +|.. ..+|.++|.+|... ++++|+.+|++++++.+...  
T Consensus        34 ~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l-----~p~~-~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~--  105 (259)
T d1xnfa_          34 DERAQLLYERGVLYDSLGLRALARNDFSQALAI-----RPDM-PEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYN--  105 (259)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----CCCC-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCT--
T ss_pred             HHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhcc-----CCCC-HHHHhhhchHHHHHHHHHHhhhhhhHHHHHHhhhh--
Confidence            345667778899999999999999999999998     4544 45677999999887 99999999999999866543  


Q ss_pred             hHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHh
Q psy5288         116 IMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYA  151 (186)
Q Consensus       116 ~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~  151 (186)
                          .++.++|.+|.. +|++++|+..|++++.+.+
T Consensus       106 ----~a~~~lg~~~~~-~g~~~~A~~~~~~al~~~p  136 (259)
T d1xnfa_         106 ----YAHLNRGIALYY-GGRDKLAQDDLLAFYQDDP  136 (259)
T ss_dssp             ----HHHHHHHHHHHH-TTCHHHHHHHHHHHHHHCT
T ss_pred             ----hhHHHHHHHHHH-HhhHHHHHHHHHHHHhhcc
Confidence                378999999998 4999999999999887643

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.44  E-value=4e-12  Score=86.47  Aligned_cols=104  Identities=18%  Similarity=0.170  Sum_probs=91.5

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcC-ChhHH
Q psy5288          41 DLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMG-RFIMV  118 (186)
Q Consensus        41 ~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~-~~~~~  118 (186)
                      .-+.+.|+.|...|+|++|+++|.+++++     +|.. ..++.++|.+|... ++++|+..|++|+++.+... .....
T Consensus         5 ~~~k~~G~~~~~~~~y~~Ai~~y~~al~~-----~p~~-~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~   78 (128)
T d1elra_           5 LKEKELGNDAYKKKDFDTALKHYDKAKEL-----DPTN-MTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQI   78 (128)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----CTTC-HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHh-----Cccc-HHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHH
Confidence            45678899999999999999999999998     4554 45777999999887 99999999999999998874 56778


Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHh
Q psy5288         119 AKHHENIAEIYEKELEDQEKAIDHYQHAADCYA  151 (186)
Q Consensus       119 a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~  151 (186)
                      +.++..+|.++.. ++++++|+.+|++++...+
T Consensus        79 a~~~~~lg~~~~~-~~~~~~A~~~~~kal~~~~  110 (128)
T d1elra_          79 AKAYARIGNSYFK-EEKYKDAIHFYNKSLAEHR  110 (128)
T ss_dssp             HHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHHH-hCCHHHHHHHHHHHHhcCC
Confidence            8999999999999 5999999999999998744

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP52 (FKBP4), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.41  E-value=4.7e-12  Score=90.23  Aligned_cols=129  Identities=14%  Similarity=0.098  Sum_probs=102.8

Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChh---------HHHHHHHHHHHHHhcC-CHHHHHHHHHHHHH
Q psy5288          38 EAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKH---------DAGLCFVDAANCYKKS-NPAEAIKAIERAVE  107 (186)
Q Consensus        38 ~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~---------~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~  107 (186)
                      +.+..+..-|+.+...|+|++|+.+|.+++++........         ....+|.++|.||.+. ++++|+.+++++++
T Consensus        11 ~~a~~l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~y~k~~~~~~A~~~~~~al~   90 (170)
T d1p5qa1          11 EQSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALE   90 (170)
T ss_dssp             HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhccccchHHHhhhchhHHHHHHHHHHHHHhhhhcccccchhhhhhh
Confidence            4677777889999999999999999999999876433211         2346778899999988 99999999999998


Q ss_pred             HHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHH
Q psy5288         108 IHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKA  179 (186)
Q Consensus       108 i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A  179 (186)
                      +.+..      ..++..+|.+|.. +|++++|+..|++++.+.|++      ..+...++.+..+.+.+.+.
T Consensus        91 ~~p~~------~~a~~~~g~~~~~-~g~~~~A~~~~~~al~l~P~n------~~~~~~l~~~~~~~~~~~~~  149 (170)
T d1p5qa1          91 LDSNN------EKGLSRRGEAHLA-VNDFELARADFQKVLQLYPNN------KAAKTQLAVCQQRIRRQLAR  149 (170)
T ss_dssp             HCTTC------HHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHCSSC------HHHHHHHHHHHHHHHHHHHH
T ss_pred             ccccc------hhhhHHHHHHHHH-hhhHHHHHHHHHHHHHhCCCC------HHHHHHHHHHHHHHHHHHHH
Confidence            85443      5589999999999 599999999999999997753      24566777777666555443

>d1a17a_ a.118.8.1 (A:) Protein phosphatase 5 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Protein phosphatase 5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.40  E-value=4.3e-12  Score=89.16  Aligned_cols=125  Identities=15%  Similarity=0.155  Sum_probs=98.1

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHH
Q psy5288          40 IDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMV  118 (186)
Q Consensus        40 ~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~  118 (186)
                      ++.+..-|+.|...|+|++|+.+|.+++++     +|.. ...|.++|.+|... ++++|+.+|++++++....      
T Consensus        10 a~~l~~~gn~~~~~~~y~~A~~~~~~al~~-----~p~~-~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~------   77 (159)
T d1a17a_          10 AEELKTQANDYFKAKDYENAIKFYSQAIEL-----NPSN-AIYYGNRSLAYLRTECYGYALGDATRAIELDKKY------   77 (159)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----STTC-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC------
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHhhhcccc-----chhh-hhhhhhhHHHHHhccccchHHHHHHHHHHHcccc------
Confidence            344556688899999999999999999998     4543 56677999999987 9999999999999886443      


Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHH--HHhccCHHHHHHHH
Q psy5288         119 AKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANY--SALTDHLDKAIKLY  183 (186)
Q Consensus       119 a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~--y~~~g~~~~A~~~~  183 (186)
                      ..++..+|.++.. +|++++|+.+|++++.+.+...      .++..++.+  ....+.+++|+...
T Consensus        78 ~~a~~~~g~~~~~-~g~~~eA~~~~~~a~~~~p~~~------~~~~~l~~~~~~~~~~~~~~a~~~~  137 (159)
T d1a17a_          78 IKGYYRRAASNMA-LGKFRAALRDYETVVKVKPHDK------DAKMKYQECNKIVKQKAFERAIAGD  137 (159)
T ss_dssp             HHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHSTTCH------HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHH-cCCHHHHHHHHHHHHHcCCCCH------HHHHHHHHHHHHHHHHHHHHHHhCc
Confidence            3578999999999 5999999999999999976532      334444444  34556677777653

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=99.39  E-value=7e-12  Score=87.93  Aligned_cols=105  Identities=16%  Similarity=0.059  Sum_probs=84.6

Q ss_pred             HHHHHHH--HHHHhc-CCHHHHHHHHHHHHHHHHHcCC------hhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHH
Q psy5288          80 GLCFVDA--ANCYKK-SNPAEAIKAIERAVEIHTDMGR------FIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCY  150 (186)
Q Consensus        80 a~~~~~a--~~~y~~-~~~~~A~~~~~~Al~i~~~~~~------~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~  150 (186)
                      +.+|..+  |..+.. .++++|+..|++|++|....++      ....+.++.++|.+|.. +|++++|+..+++++.++
T Consensus         7 a~a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~-lg~~~~A~~~~~~al~~~   85 (156)
T d2hr2a1           7 VGAYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAG-LRSFDEALHSADKALHYF   85 (156)
T ss_dssp             HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHH-cCccchhhHhhhhhhhcc
Confidence            4444444  445544 4999999999999999988764      23467899999999999 699999999999999998


Q ss_pred             hccCC-----hHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         151 AGEEN-----KSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       151 ~~~~~-----~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ++...     ......++.++|.+|..+|++++|++.|++
T Consensus        86 ~~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~  125 (156)
T d2hr2a1          86 NRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKK  125 (156)
T ss_dssp             HHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             cccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHH
Confidence            86422     223345789999999999999999999986

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=99.39  E-value=2.9e-12  Score=91.11  Aligned_cols=128  Identities=13%  Similarity=0.146  Sum_probs=102.2

Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCC---------hhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHH
Q psy5288          38 EAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNN---------KHDAGLCFVDAANCYKKS-NPAEAIKAIERAVE  107 (186)
Q Consensus        38 ~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~---------~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~  107 (186)
                      +.++.+.+.|+.+...|+|.+|+.+|.+++.+....-.         ......+|.++|.||..+ ++++|+.+++++++
T Consensus        13 ~~a~~~~e~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Ai~~~~~al~   92 (168)
T d1kt1a1          13 EQAAIVKEKGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALG   92 (168)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhccchhhhhhcchhHHHHHHhHHHHHHHhhhcccchhhhhhhhh
Confidence            45677888899999999999999999999988653221         112456788999999988 99999999999998


Q ss_pred             HHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHH
Q psy5288         108 IHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDK  178 (186)
Q Consensus       108 i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~  178 (186)
                      +.+..      ..++.++|.+|.. +|++++|+..|++++.+.|++      ..+...++.+....+.+.+
T Consensus        93 l~p~~------~~a~~~~~~~~~~-l~~~~~A~~~~~~al~l~P~n------~~~~~~l~~~~~~~~~~~e  150 (168)
T d1kt1a1          93 LDSAN------EKGLYRRGEAQLL-MNEFESAKGDFEKVLEVNPQN------KAARLQIFMCQKKAKEHNE  150 (168)
T ss_dssp             HCTTC------HHHHHHHHHHHHH-TTCHHHHHHHHHHHHHSCTTC------HHHHHHHHHHHHHHHHHHH
T ss_pred             cccch------HHHHHHHHHHHHH-cCCHHHHHHHHHHHHHhCCCC------HHHHHHHHHHHHHHHhHHH
Confidence            85443      4589999999999 599999999999999997654      2566777777777665543

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.39  E-value=6e-12  Score=85.56  Aligned_cols=99  Identities=19%  Similarity=0.195  Sum_probs=85.6

Q ss_pred             HHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccC-ChH
Q psy5288          80 GLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEE-NKS  157 (186)
Q Consensus        80 a~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~-~~~  157 (186)
                      +..+.++|..|... ++++|+.+|.+++++.+..      +.++.++|.+|... |++++|+..|++|+++.++.. ...
T Consensus         4 a~~~k~~G~~~~~~~~y~~Ai~~y~~al~~~p~~------~~~~~~~a~~~~~~-~~~~~A~~~~~~al~l~~~~~~~~~   76 (128)
T d1elra_           4 ALKEKELGNDAYKKKDFDTALKHYDKAKELDPTN------MTYITNQAAVYFEK-GDYNKCRELCEKAIEVGRENREDYR   76 (128)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHHH-TCHHHHHHHHHHHHHHHHHSTTCHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccc------HHHHHhHHHHHHHc-CchHHHHHHHHHHHHhCcccHHHHH
Confidence            55677899888766 9999999999999985432      45899999999995 999999999999999988754 445


Q ss_pred             HHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         158 SANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       158 ~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ..+.++.++|.++..++++++|+++|++
T Consensus        77 ~~a~~~~~lg~~~~~~~~~~~A~~~~~k  104 (128)
T d1elra_          77 QIAKAYARIGNSYFKEEKYKDAIHFYNK  104 (128)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            5568999999999999999999999975

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Transcription factor MalT domain III
domain: Transcription factor MalT domain III
species: Escherichia coli [TaxId: 562]

Probab=99.39  E-value=1e-10  Score=89.19  Aligned_cols=142  Identities=11%  Similarity=0.063  Sum_probs=122.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcC--ChhHH
Q psy5288          42 LYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMG--RFIMV  118 (186)
Q Consensus        42 ~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~--~~~~~  118 (186)
                      .+...|.++...|++++|+..|.+++.+....++.......+..++.++... ++..|...+.+++.+.....  .....
T Consensus        53 a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~  132 (366)
T d1hz4a_          53 ATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMH  132 (366)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHH
Confidence            3444578899999999999999999999999999998999999999999876 99999999999999998764  34566


Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         119 AKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       119 a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      +.++..+|.++... |+++.+..++.++....+..+.... ..++..++.++...|++.++...+.+
T Consensus       133 ~~~~~~la~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~a~~~~~~  197 (366)
T d1hz4a_         133 EFLVRIRAQLLWAW-ARLDEAEASARSGIEVLSSYQPQQQ-LQCLAMLIQCSLARGDLDNARSQLNR  197 (366)
T ss_dssp             HHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHTTTSCGGGG-HHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh-cchhhhHHHHHHHHHHhhhhhhhhH-HHHHHHHHHHHHhhhhHHHHHHHHHH
Confidence            77888999999995 9999999999999999887654443 46788899999999999999988754

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=99.37  E-value=3.3e-12  Score=89.49  Aligned_cols=124  Identities=15%  Similarity=0.097  Sum_probs=95.0

Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChh----------HHHHHHHHHHHHHhcC-CHHHHHHHHHHHH
Q psy5288          38 EAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKH----------DAGLCFVDAANCYKKS-NPAEAIKAIERAV  106 (186)
Q Consensus        38 ~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~----------~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al  106 (186)
                      +.+..+..-|+.+...|+|.+|+.+|.+++++........          ....+|.++|.||.++ ++++|++++++|+
T Consensus        15 ~~a~~~~~~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Al~~~~~al   94 (153)
T d2fbna1          15 QSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVL   94 (153)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHHhhhhHHHHHHhhHHHHHHHhcccchhhhhhhccc
Confidence            3444566678888888999999999999998765433211          1246788999999988 9999999999999


Q ss_pred             HHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhcc
Q psy5288         107 EIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTD  174 (186)
Q Consensus       107 ~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g  174 (186)
                      ++.+..      ..++.++|.+|.. +|++++|+.+|++++.+.|.+      ..+...++.+..+++
T Consensus        95 ~~~p~~------~ka~~~~g~~~~~-lg~~~~A~~~~~~al~l~P~n------~~~~~~l~~~~~kl~  149 (153)
T d2fbna1          95 KIDKNN------VKALYKLGVANMY-FGFLEEAKENLYKAASLNPNN------LDIRNSYELCVNKLK  149 (153)
T ss_dssp             HHSTTC------HHHHHHHHHHHHH-HTCHHHHHHHHHHHHHHSTTC------HHHHHHHHHHHHHHH
T ss_pred             cccchh------hhhhHHhHHHHHH-cCCHHHHHHHHHHHHHhCCCC------HHHHHHHHHHHHHHH
Confidence            885443      3589999999999 599999999999999998754      245566666655543

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=99.37  E-value=1.4e-11  Score=87.43  Aligned_cols=131  Identities=13%  Similarity=0.116  Sum_probs=102.1

Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcC----------ChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHH
Q psy5288          37 DEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNN----------NKHDAGLCFVDAANCYKKS-NPAEAIKAIERA  105 (186)
Q Consensus        37 ~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~----------~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~A  105 (186)
                      -..++.+...|+.+...|+|.+|+++|.+++++.....          .....+.++.++|.+|.+. ++++|+.+|.+|
T Consensus        24 ~~~a~~~~~~~~~~~~~~~y~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~Ai~~~~~a  103 (169)
T d1ihga1          24 LLISEDLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEA  103 (169)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhhhhhhhhhhHHHHHhChhhHHHHHHHHHHHHhhcccchhhhhhhhh
Confidence            34555677778899999999999999999988754211          1123456788999999988 999999999999


Q ss_pred             HHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHH
Q psy5288         106 VEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAI  180 (186)
Q Consensus       106 l~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~  180 (186)
                      +++.+..      +.++..+|.+|.. +|++++|+..|++|+++.+++      ..+...++.++.....+.++.
T Consensus       104 l~~~p~~------~~a~~~~g~~~~~-l~~~~~A~~~~~~al~l~p~n------~~~~~~l~~~~~~l~~~~~~~  165 (169)
T d1ihga1         104 LEIDPSN------TKALYRRAQGWQG-LKEYDQALADLKKAQEIAPED------KAIQAELLKVKQKIKAQKDKE  165 (169)
T ss_dssp             HTTCTTC------HHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhhhhh------hhHHHhHHHHHHH-ccCHHHHHHHHHHHHHhCCCC------HHHHHHHHHHHHHHHHHHHHH
Confidence            9875432      5679999999999 599999999999999997654      256677778877766665543

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.35  E-value=1.1e-11  Score=82.99  Aligned_cols=110  Identities=18%  Similarity=0.182  Sum_probs=90.1

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHH
Q psy5288          41 DLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVA  119 (186)
Q Consensus        41 ~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a  119 (186)
                      +-+..-|+.+...|++++|+.+|.+++++     +|... .+|...|.+|... ++++|+..|.+++++.+..      .
T Consensus         4 ~~l~~~g~~~~~~g~~~eAi~~~~~al~~-----~p~~~-~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~------~   71 (117)
T d1elwa_           4 NELKEKGNKALSVGNIDDALQCYSEAIKL-----DPHNH-VLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDW------G   71 (117)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----CTTCH-HHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTC------H
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhc-----CCcch-hhhhcccccccccccccccchhhhhHHHhccch------h
Confidence            33556789999999999999999999998     45554 4677999999887 9999999999999886543      3


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHH
Q psy5288         120 KHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANY  169 (186)
Q Consensus       120 ~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~  169 (186)
                      ..+.++|.++.. +|++++|+..|++++.+.+.+      ..++..++.+
T Consensus        72 ~~~~~~g~~~~~-~~~~~~A~~~~~~a~~~~p~~------~~~~~~l~~l  114 (117)
T d1elwa_          72 KGYSRKAAALEF-LNRFEEAKRTYEEGLKHEANN------PQLKEGLQNM  114 (117)
T ss_dssp             HHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCTTC------HHHHHHHHHH
T ss_pred             hHHHHHHHHHHH-ccCHHHHHHHHHHHHHhCCCC------HHHHHHHHHH
Confidence            478999999999 599999999999999987754      2455566554

>d2c2la1 a.118.8.1 (A:24-224) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.34  E-value=1.6e-12  Score=93.69  Aligned_cols=100  Identities=23%  Similarity=0.327  Sum_probs=86.2

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHH
Q psy5288          41 DLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVA  119 (186)
Q Consensus        41 ~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a  119 (186)
                      +-+.+.|+.|...|+|++|+.+|.+++++     +|.. +.+|.++|.+|... ++++|+.+|++|+++.+..      .
T Consensus         5 ~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~-----~p~~-~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~~------~   72 (201)
T d2c2la1           5 QELKEQGNRLFVGRKYPEAAACYGRAITR-----NPLV-AVYYTNRALCYLKMQQPEQALADCRRALELDGQS------V   72 (201)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----CSCC-HHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTC------H
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHh-----CCCC-HHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCCc------H
Confidence            34667899999999999999999999998     4544 46777999999988 9999999999998775433      4


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhcc
Q psy5288         120 KHHENIAEIYEKELEDQEKAIDHYQHAADCYAGE  153 (186)
Q Consensus       120 ~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~  153 (186)
                      .++.++|.+|.. +|++++|+.+|++|+.+.+..
T Consensus        73 ~a~~~lg~~~~~-l~~~~~A~~~~~~al~l~p~~  105 (201)
T d2c2la1          73 KAHFFLGQCQLE-MESYDEAIANLQRAYSLAKEQ  105 (201)
T ss_dssp             HHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHH-CCCHHHHHHHHHHHHHhCccc
Confidence            479999999999 599999999999999998854

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.34  E-value=3.6e-12  Score=99.33  Aligned_cols=129  Identities=12%  Similarity=0.023  Sum_probs=94.2

Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC--CHHHHHHHHHHHHHHHHHcCCh
Q psy5288          38 EAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS--NPAEAIKAIERAVEIHTDMGRF  115 (186)
Q Consensus        38 ~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~--~~~~A~~~~~~Al~i~~~~~~~  115 (186)
                      +-.+.|...|.++...+.+++|+++|.+++++     +|... .+|...|.++...  ++++|+.++++++++.++.   
T Consensus        41 ~~~~a~~~~~~~~~~~e~~~~Al~~~~~ai~l-----nP~~~-~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~~---  111 (315)
T d2h6fa1          41 KFRDVYDYFRAVLQRDERSERAFKLTRDAIEL-----NAANY-TVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKN---  111 (315)
T ss_dssp             HHHHHHHHHHHHHHHTCCCHHHHHHHHHHHHH-----CTTCH-HHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTC---
T ss_pred             HHHHHHHHHHHHHHhCCchHHHHHHHHHHHHH-----CCCCh-HHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHhh---
Confidence            34455666677788888888888888888887     55554 3455677776654  5788888888887776554   


Q ss_pred             hHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         116 IMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       116 ~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                         ..++..+|.++.. +|++++|+..|.+++.+.+++      ..+|.++|.++..+|++++|++.|++
T Consensus       112 ---~~a~~~~~~~~~~-l~~~~eAl~~~~kal~~dp~n------~~a~~~~~~~~~~~~~~~~Al~~~~~  171 (315)
T d2h6fa1         112 ---YQVWHHRRVLVEW-LRDPSQELEFIADILNQDAKN------YHAWQHRQWVIQEFKLWDNELQYVDQ  171 (315)
T ss_dssp             ---HHHHHHHHHHHHH-HTCCTTHHHHHHHHHHHCTTC------HHHHHHHHHHHHHHTCCTTHHHHHHH
T ss_pred             ---hhHHHHHhHHHHh-hccHHHHHHHHhhhhhhhhcc------hHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence               3477778888887 488888888888888876654      36777888888888888888887765

>d1hh8a_ a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Neutrophil cytosolic factor 2 (NCF-2, p67-phox)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.34  E-value=1.7e-11  Score=88.92  Aligned_cols=114  Identities=19%  Similarity=0.226  Sum_probs=92.8

Q ss_pred             CCCHHHHHHHHH-----------HHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHH
Q psy5288          33 GNKTDEAIDLYV-----------RAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIK  100 (186)
Q Consensus        33 ~~~~~~A~~~y~-----------~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~  100 (186)
                      .++|+.|++.|.           +.|.+|..+|++++|+++|.+|+++     +|.. +.+|.+.|.+|... ++++|+.
T Consensus        18 ~~d~~~Al~~~~~i~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~l-----dp~~-~~a~~~~g~~~~~~g~~~~A~~   91 (192)
T d1hh8a_          18 KKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINR-----DKHL-AVAYFQRGMLYYQTEKYDLAIK   91 (192)
T ss_dssp             TTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----CTTC-HHHHHHHHHHHHHTTCHHHHHH
T ss_pred             CCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHH-----hhhh-hhhHHHHHHHHHhhccHHHHHH
Confidence            457777777554           4599999999999999999999998     5655 45777999999877 9999999


Q ss_pred             HHHHHHHHHHHcCC----------hhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhcc
Q psy5288         101 AIERAVEIHTDMGR----------FIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGE  153 (186)
Q Consensus       101 ~~~~Al~i~~~~~~----------~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~  153 (186)
                      .|++|+........          ......++.++|.+|.. +|++++|++.+++|+.+.++.
T Consensus        92 ~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~-~~~~~~A~~~l~~A~~~~~~~  153 (192)
T d1hh8a_          92 DLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAK-KEEWKKAEEQLALATSMKSEP  153 (192)
T ss_dssp             HHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCSG
T ss_pred             HHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHH-CCCHHHHHHHHHHHHhcCCCc
Confidence            99999986543321          12346788999999999 599999999999999987654

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.33  E-value=1.7e-11  Score=94.82  Aligned_cols=134  Identities=22%  Similarity=0.298  Sum_probs=107.2

Q ss_pred             CCCHHHHHHHHHHH--------------HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHH
Q psy5288          33 GNKTDEAIDLYVRA--------------GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAE   97 (186)
Q Consensus        33 ~~~~~~A~~~y~~a--------------g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~   97 (186)
                      .+++++|...+.++              |.++...|++++|+..|.++..+.     +. ....+..+|.+|... ++++
T Consensus       182 ~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-----~~-~~~~~~~l~~~~~~~~~~~~  255 (388)
T d1w3ba_         182 QGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-----PN-HAVVHGNLACVYYEQGLIDL  255 (388)
T ss_dssp             TTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-----TT-CHHHHHHHHHHHHHTTCHHH
T ss_pred             cCcHHHHHHHHHHHHHhCcccHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-----hh-HHHHHHHHHHHHHHCCCHHH
Confidence            35677776666554              567888899999999998887762     22 245566888888877 9999


Q ss_pred             HHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHH
Q psy5288          98 AIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLD  177 (186)
Q Consensus        98 A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~  177 (186)
                      |+.+|++++++.+..      ..++..+|.++... |++++|+..|+++....+..      ..++..+|.+|...|+++
T Consensus       256 A~~~~~~al~~~p~~------~~~~~~l~~~~~~~-~~~~~A~~~~~~~~~~~~~~------~~~~~~l~~~~~~~~~~~  322 (388)
T d1w3ba_         256 AIDTYRRAIELQPHF------PDAYCNLANALKEK-GSVAEAEDCYNTALRLCPTH------ADSLNNLANIKREQGNIE  322 (388)
T ss_dssp             HHHHHHHHHHTCSSC------HHHHHHHHHHHHHH-SCHHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHTTTCHH
T ss_pred             HHHHHHHHHHhCCCC------HHHHHHHHHHHHHc-CCHHHHHHHHHhhhccCCcc------chhhhHHHHHHHHCCCHH
Confidence            999999998775432      45788999999995 99999999999999886643      367889999999999999


Q ss_pred             HHHHHHHh
Q psy5288         178 KAIKLYEQ  185 (186)
Q Consensus       178 ~A~~~~~~  185 (186)
                      +|+++|++
T Consensus       323 ~A~~~~~~  330 (388)
T d1w3ba_         323 EAVRLYRK  330 (388)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99999986

>d2c2la1 a.118.8.1 (A:24-224) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.32  E-value=2.6e-12  Score=92.62  Aligned_cols=93  Identities=18%  Similarity=0.133  Sum_probs=80.4

Q ss_pred             HHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHH
Q psy5288          80 GLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSS  158 (186)
Q Consensus        80 a~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~  158 (186)
                      +..+.+.|..|... ++++|+.+|++|+++.+..      +.++.++|.+|.. +|++++|+.+|++|+.+.++.     
T Consensus         4 a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~p~~------~~~~~~lg~~y~~-~~~~~~Ai~~~~~al~l~p~~-----   71 (201)
T d2c2la1           4 AQELKEQGNRLFVGRKYPEAAACYGRAITRNPLV------AVYYTNRALCYLK-MQQPEQALADCRRALELDGQS-----   71 (201)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCC------HHHHHHHHHHHHH-TTCHHHHHHHHHHHTTSCTTC-----
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCC------HHHHHhHHHHHhh-hhhhhhhhHHHHHHHHhCCCc-----
Confidence            34466788888766 9999999999999986443      5689999999999 599999999999999986643     


Q ss_pred             HHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         159 ANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       159 ~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                       ..+|.++|.+|..+|+|++|+..|++
T Consensus        72 -~~a~~~lg~~~~~l~~~~~A~~~~~~   97 (201)
T d2c2la1          72 -VKAHFFLGQCQLEMESYDEAIANLQR   97 (201)
T ss_dssp             -HHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             -HHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence             36899999999999999999999975

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Transcription factor MalT domain III
domain: Transcription factor MalT domain III
species: Escherichia coli [TaxId: 562]

Probab=99.31  E-value=1.7e-10  Score=87.86  Aligned_cols=142  Identities=6%  Similarity=-0.124  Sum_probs=119.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHH
Q psy5288          42 LYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAK  120 (186)
Q Consensus        42 ~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~  120 (186)
                      ...--+.++...|++++|+.+|.+++++.... ++...+.++..+|.+|... ++++|+..|++++++....++......
T Consensus        14 ~~~lrA~~~~~~g~~~~A~~~~~~aL~~~~~~-~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~   92 (366)
T d1hz4a_          14 FNALRAQVAINDGNPDEAERLAKLALEELPPG-WFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALW   92 (366)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTT-CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhhCcCC-CcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHH
Confidence            34444788889999999999999999875432 3334566788899999876 999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccC--ChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         121 HHENIAEIYEKELEDQEKAIDHYQHAADCYAGEE--NKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       121 ~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~--~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      .+..++.++... |++..|+..+.+++.+.+...  .......++..+|.++...|+++.|...+++
T Consensus        93 ~~~~~~~~~~~~-~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~  158 (366)
T d1hz4a_          93 SLIQQSEILFAQ-GFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARS  158 (366)
T ss_dssp             HHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH-HHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHH
Confidence            999999999995 999999999999999987643  2234446778999999999999999998864

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=99.27  E-value=3.5e-11  Score=89.59  Aligned_cols=97  Identities=9%  Similarity=0.022  Sum_probs=84.5

Q ss_pred             hhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccC
Q psy5288          76 KHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEE  154 (186)
Q Consensus        76 ~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~  154 (186)
                      +...+..|.+.|.+|... ++++|+.+|++|+++.+..      +.++.++|.+|... |++++|+.+|++++.+.+...
T Consensus        33 ~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~~------~~a~~~lg~~~~~~-g~~~~A~~~~~~al~~~p~~~  105 (259)
T d1xnfa_          33 DDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPDM------PEVFNYLGIYLTQA-GNFDAAYEAFDSVLELDPTYN  105 (259)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCC------HHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTTCT
T ss_pred             CHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccCCCC------HHHHhhhchHHHHH-HHHHHhhhhhhHHHHHHhhhh
Confidence            445677788999999987 9999999999999885433      55799999999995 999999999999999977542


Q ss_pred             ChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         155 NKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       155 ~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                            .++.++|.+|..+|++++|++.|++
T Consensus       106 ------~a~~~lg~~~~~~g~~~~A~~~~~~  130 (259)
T d1xnfa_         106 ------YAHLNRGIALYYGGRDKLAQDDLLA  130 (259)
T ss_dssp             ------HHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             ------hhHHHHHHHHHHHhhHHHHHHHHHH
Confidence                  6889999999999999999999975

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=99.25  E-value=8.6e-12  Score=82.86  Aligned_cols=89  Identities=16%  Similarity=0.065  Sum_probs=71.6

Q ss_pred             HHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHH
Q psy5288          84 VDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKC  162 (186)
Q Consensus        84 ~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~  162 (186)
                      .+.|.++... ++++|+.+|++++.+.+..      +.++..+|.++.. +|++++|+.+|++|+.+.+..      ..+
T Consensus        20 ~~~g~~~~~~g~~~~A~~~~~~al~~~p~~------~~a~~~lg~~~~~-~~~~~~A~~~~~~al~~~p~~------~~a   86 (112)
T d1hxia_          20 MEEGLSMLKLANLAEAALAFEAVCQKEPER------EEAWRSLGLTQAE-NEKDGLAIIALNHARMLDPKD------IAV   86 (112)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHSTTC------HHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHCTTC------HHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHhhhccccccc------chhhhhhhhhhhh-hhhHHHhhccccccccccccc------ccc
Confidence            4566666655 8888888888888775443      4578889999988 499999999999999987654      368


Q ss_pred             HHHHHHHHHhccCHHHHHHHHHh
Q psy5288         163 LIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       163 ~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      +.++|.+|...|++++|++++++
T Consensus        87 ~~~la~~y~~~g~~~~A~~~l~~  109 (112)
T d1hxia_          87 HAALAVSHTNEHNANAALASLRA  109 (112)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHCCCHHHHHHHHHH
Confidence            88999999999999999999886

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP52 (FKBP4), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.25  E-value=6.4e-11  Score=84.19  Aligned_cols=101  Identities=15%  Similarity=0.124  Sum_probs=83.4

Q ss_pred             HHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCC---------hhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q psy5288          78 DAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGR---------FIMVAKHHENIAEIYEKELEDQEKAIDHYQHAA  147 (186)
Q Consensus        78 ~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~---------~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~  147 (186)
                      ..+..+.+.|..+... ++++|+.+|++|++++.....         ......++.++|.+|.. +|++++|+.++++|+
T Consensus        11 ~~a~~l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~y~k-~~~~~~A~~~~~~al   89 (170)
T d1p5qa1          11 EQSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLK-LQAFSAAIESCNKAL   89 (170)
T ss_dssp             HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhccccchHHHhhhchhHHHHHHHHHHHHHh-hhhcccccchhhhhh
Confidence            3466677778776654 999999999999998765543         12345678899999999 599999999999999


Q ss_pred             HHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         148 DCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       148 ~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      .+.+..      ..++.++|.+|..+|+|++|+..|++
T Consensus        90 ~~~p~~------~~a~~~~g~~~~~~g~~~~A~~~~~~  121 (170)
T d1p5qa1          90 ELDSNN------EKGLSRRGEAHLAVNDFELARADFQK  121 (170)
T ss_dssp             HHCTTC------HHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             hccccc------hhhhHHHHHHHHHhhhHHHHHHHHHH
Confidence            996653      47899999999999999999999986

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.24  E-value=3.5e-11  Score=80.39  Aligned_cols=90  Identities=18%  Similarity=0.193  Sum_probs=77.2

Q ss_pred             HHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHH
Q psy5288          83 FVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANK  161 (186)
Q Consensus        83 ~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~  161 (186)
                      +.+-|..+... ++++|+.+|.+++++.+..      +.++.++|.+|... |++++|+..|++++.+.+..      ..
T Consensus         6 l~~~g~~~~~~g~~~eAi~~~~~al~~~p~~------~~~~~~~a~~~~~~-~~~~~A~~~~~~al~~~p~~------~~   72 (117)
T d1elwa_           6 LKEKGNKALSVGNIDDALQCYSEAIKLDPHN------HVLYSNRSAAYAKK-GDYQKAYEDGCKTVDLKPDW------GK   72 (117)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHHH-TCHHHHHHHHHHHHHHCTTC------HH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhcCCcc------hhhhhccccccccc-ccccccchhhhhHHHhccch------hh
Confidence            44567766555 9999999999999875444      45899999999995 99999999999999997654      36


Q ss_pred             HHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         162 CLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       162 ~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      .|.++|.+|..+|++++|+..|++
T Consensus        73 ~~~~~g~~~~~~~~~~~A~~~~~~   96 (117)
T d1elwa_          73 GYSRKAAALEFLNRFEEAKRTYEE   96 (117)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHH
Confidence            889999999999999999999986

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.23  E-value=7.6e-11  Score=90.52  Aligned_cols=124  Identities=15%  Similarity=0.205  Sum_probs=96.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHH
Q psy5288          45 RAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHE  123 (186)
Q Consensus        45 ~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~  123 (186)
                      ..|.++...|++++|+.+|.+++.+     +|.. ...+..+|.+|... ++++|+++|++++++.+..      +.++.
T Consensus       177 ~l~~~~~~~~~~~~A~~~~~~al~~-----~p~~-~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~------~~a~~  244 (323)
T d1fcha_         177 GLGVLFNLSGEYDKAVDCFTAALSV-----RPND-YLLWNKLGATLANGNQSEEAVAAYRRALELQPGY------IRSRY  244 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH-----CTTC-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC------HHHHH
T ss_pred             hhHHHHHHHHHHhhhhccccccccc-----cccc-ccchhhhhhcccccccchhHHHHHHHHHHHhhcc------HHHHH
Confidence            3467888999999999999999887     3332 46777999999887 9999999999999874332      45899


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHH-----HHHHHHHHHHHHHhccCHHHHHH
Q psy5288         124 NIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSS-----ANKCLIKIANYSALTDHLDKAIK  181 (186)
Q Consensus       124 ~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~-----~~~~~~~la~~y~~~g~~~~A~~  181 (186)
                      ++|.+|... |++++|+.+|++|+.+.++......     ...++.+++.++..+|+.+.+..
T Consensus       245 ~lg~~~~~~-g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~l~~al~~~~~~d~~~~  306 (323)
T d1fcha_         245 NLGISCINL-GAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGA  306 (323)
T ss_dssp             HHHHHHHHH-TCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHH
T ss_pred             HHHHHHHHC-CCHHHHHHHHHHHHHhCCcChhhhhhhHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            999999995 9999999999999999887532211     11366778888888887765543

>d1a17a_ a.118.8.1 (A:) Protein phosphatase 5 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Protein phosphatase 5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.22  E-value=5e-11  Score=83.55  Aligned_cols=93  Identities=22%  Similarity=0.130  Sum_probs=78.2

Q ss_pred             HHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHH
Q psy5288          80 GLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSS  158 (186)
Q Consensus        80 a~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~  158 (186)
                      +..+..-|..|... ++++|+.+|++++++.+..      +.++.++|.+|.. +|++++|+..|++|+++.++.     
T Consensus        10 a~~l~~~gn~~~~~~~y~~A~~~~~~al~~~p~~------~~~~~~lg~~~~~-~~~~~~A~~~~~kal~~~p~~-----   77 (159)
T d1a17a_          10 AEELKTQANDYFKAKDYENAIKFYSQAIELNPSN------AIYYGNRSLAYLR-TECYGYALGDATRAIELDKKY-----   77 (159)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTC------HHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHCTTC-----
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHhhhccccchhh------hhhhhhhHHHHHh-ccccchHHHHHHHHHHHcccc-----
Confidence            34444556665554 9999999999999986543      5589999999999 599999999999999997653     


Q ss_pred             HHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         159 ANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       159 ~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                       ..++.++|.+|..+|++++|++.|++
T Consensus        78 -~~a~~~~g~~~~~~g~~~eA~~~~~~  103 (159)
T d1a17a_          78 -IKGYYRRAASNMALGKFRAALRDYET  103 (159)
T ss_dssp             -HHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             -hHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence             36889999999999999999999976

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.21  E-value=5.2e-11  Score=92.60  Aligned_cols=133  Identities=8%  Similarity=0.023  Sum_probs=109.6

Q ss_pred             CCHHHHHHHHHHH--------------HHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHH
Q psy5288          34 NKTDEAIDLYVRA--------------GNLFKLGK-KWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAE   97 (186)
Q Consensus        34 ~~~~~A~~~y~~a--------------g~~~~~~g-~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~   97 (186)
                      +.+++|+.+|.++              |.++...| ++++|++++.+++++     +|.. ..+|...|.++... ++++
T Consensus        57 e~~~~Al~~~~~ai~lnP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~-----~p~~-~~a~~~~~~~~~~l~~~~e  130 (315)
T d2h6fa1          57 ERSERAFKLTRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEE-----QPKN-YQVWHHRRVLVEWLRDPSQ  130 (315)
T ss_dssp             CCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH-----CTTC-HHHHHHHHHHHHHHTCCTT
T ss_pred             CchHHHHHHHHHHHHHCCCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHH-----HHhh-hhHHHHHhHHHHhhccHHH
Confidence            5789999999988              55677766 599999999999998     4444 45667889998877 8999


Q ss_pred             HHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccC--
Q psy5288          98 AIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDH--  175 (186)
Q Consensus        98 A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~--  175 (186)
                      |+.++.+++++....      ..++.++|.++.. +|++++|+.+|++++++.+.+      ..+|.++|.++...++  
T Consensus       131 Al~~~~kal~~dp~n------~~a~~~~~~~~~~-~~~~~~Al~~~~~al~~~p~n------~~a~~~r~~~l~~~~~~~  197 (315)
T d2h6fa1         131 ELEFIADILNQDAKN------YHAWQHRQWVIQE-FKLWDNELQYVDQLLKEDVRN------NSVWNQRYFVISNTTGYN  197 (315)
T ss_dssp             HHHHHHHHHHHCTTC------HHHHHHHHHHHHH-HTCCTTHHHHHHHHHHHCTTC------HHHHHHHHHHHHHTTCSC
T ss_pred             HHHHHhhhhhhhhcc------hHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHCCcc------HHHHHHHHHHHHHccccc
Confidence            999999999886555      4589999999999 599999999999999996654      3688899999887766  


Q ss_pred             ----HHHHHHHHHh
Q psy5288         176 ----LDKAIKLYEQ  185 (186)
Q Consensus       176 ----~~~A~~~~~~  185 (186)
                          +++|++.+.+
T Consensus       198 ~~~~~~~ai~~~~~  211 (315)
T d2h6fa1         198 DRAVLEREVQYTLE  211 (315)
T ss_dssp             SHHHHHHHHHHHHH
T ss_pred             hhhhhHHhHHHHHH
Confidence                6788887764

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=99.21  E-value=8.1e-11  Score=82.22  Aligned_cols=99  Identities=21%  Similarity=0.222  Sum_probs=78.6

Q ss_pred             HHHHHHHHHHHhc-CCHHHHHHHHHHHHHHHHHcCCh----------hHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q psy5288          80 GLCFVDAANCYKK-SNPAEAIKAIERAVEIHTDMGRF----------IMVAKHHENIAEIYEKELEDQEKAIDHYQHAAD  148 (186)
Q Consensus        80 a~~~~~a~~~y~~-~~~~~A~~~~~~Al~i~~~~~~~----------~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~  148 (186)
                      +..+.+-|..+.+ .++.+|+.+|++|++++......          .....++.++|.+|.. +|++++|+.+|++|++
T Consensus        17 a~~~~~~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~-l~~~~~Al~~~~~al~   95 (153)
T d2fbna1          17 AFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNK-NKDYPKAIDHASKVLK   95 (153)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHHhhhhHHHHHHhhHHHHHHH-hcccchhhhhhhcccc
Confidence            4445556655544 48899999999998876544321          1234578899999999 5999999999999999


Q ss_pred             HHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         149 CYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       149 l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      +.+..      ..++.++|.+|..+|++++|+..|++
T Consensus        96 ~~p~~------~ka~~~~g~~~~~lg~~~~A~~~~~~  126 (153)
T d2fbna1          96 IDKNN------VKALYKLGVANMYFGFLEEAKENLYK  126 (153)
T ss_dssp             HSTTC------HHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             ccchh------hhhhHHhHHHHHHcCCHHHHHHHHHH
Confidence            96654      37999999999999999999999986

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=99.20  E-value=1.7e-10  Score=81.68  Aligned_cols=100  Identities=17%  Similarity=0.149  Sum_probs=80.5

Q ss_pred             HHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcC---------ChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q psy5288          79 AGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMG---------RFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAAD  148 (186)
Q Consensus        79 aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~---------~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~  148 (186)
                      .+..+.+.|..+... ++.+|+.+|++|+.+....-         .......++.++|.+|.. +|++++|+.++++++.
T Consensus        14 ~a~~~~e~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~-l~~~~~Ai~~~~~al~   92 (168)
T d1kt1a1          14 QAAIVKEKGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLK-LREYTKAVECCDKALG   92 (168)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhccchhhhhhcchhHHHHHHhHHHHHHH-hhhcccchhhhhhhhh
Confidence            355566667666655 88999999999988764332         123455688999999999 5999999999999999


Q ss_pred             HHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         149 CYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       149 l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      +.+..      ..++.++|.+|..+|+|++|++.|++
T Consensus        93 l~p~~------~~a~~~~~~~~~~l~~~~~A~~~~~~  123 (168)
T d1kt1a1          93 LDSAN------EKGLYRRGEAQLLMNEFESAKGDFEK  123 (168)
T ss_dssp             HCTTC------HHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             cccch------HHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            96653      37899999999999999999999986

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=99.14  E-value=3.9e-10  Score=79.70  Aligned_cols=96  Identities=20%  Similarity=0.121  Sum_probs=75.2

Q ss_pred             HHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcC----------ChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHh
Q psy5288          83 FVDAANCYKKS-NPAEAIKAIERAVEIHTDMG----------RFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYA  151 (186)
Q Consensus        83 ~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~----------~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~  151 (186)
                      +.+.|..+... ++.+|+..|.+|+.+.....          ..+..+.++.++|.+|.. +|++++||..|++|+++.+
T Consensus        30 ~~~~~~~~~~~~~y~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~-~~~~~~Ai~~~~~al~~~p  108 (169)
T d1ihga1          30 LKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLK-MSDWQGAVDSCLEALEIDP  108 (169)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhhhhhhhhhhhHHHHHhChhhHHHHHHHHHHHHh-hcccchhhhhhhhhhhhhh
Confidence            34455555444 78888888888877643221          124566788999999999 5999999999999999866


Q ss_pred             ccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         152 GEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       152 ~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ..      ..+|.++|.+|..+|+|++|++.|++
T Consensus       109 ~~------~~a~~~~g~~~~~l~~~~~A~~~~~~  136 (169)
T d1ihga1         109 SN------TKALYRRAQGWQGLKEYDQALADLKK  136 (169)
T ss_dssp             TC------HHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             hh------hhHHHhHHHHHHHccCHHHHHHHHHH
Confidence            43      37899999999999999999999986

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=99.13  E-value=7.9e-11  Score=78.04  Aligned_cols=92  Identities=12%  Similarity=0.034  Sum_probs=80.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHH
Q psy5288          43 YVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKH  121 (186)
Q Consensus        43 y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~  121 (186)
                      ....|..+...|++++|+.+|.+++.+     +|.. ..+|..+|.+|... ++++|+.+|++++++.+..      ..+
T Consensus        19 ~~~~g~~~~~~g~~~~A~~~~~~al~~-----~p~~-~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~------~~a   86 (112)
T d1hxia_          19 PMEEGLSMLKLANLAEAALAFEAVCQK-----EPER-EEAWRSLGLTQAENEKDGLAIIALNHARMLDPKD------IAV   86 (112)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH-----STTC-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC------HHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHhhhccc-----cccc-chhhhhhhhhhhhhhhHHHhhccccccccccccc------ccc
Confidence            346788999999999999999999998     4543 57788999999887 9999999999999987554      458


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHH
Q psy5288         122 HENIAEIYEKELEDQEKAIDHYQHAA  147 (186)
Q Consensus       122 ~~~lg~~y~~~lg~~~~Ai~~y~kA~  147 (186)
                      +..+|.+|..+ |++++|++++++.+
T Consensus        87 ~~~la~~y~~~-g~~~~A~~~l~~~l  111 (112)
T d1hxia_          87 HAALAVSHTNE-HNANAALASLRAWL  111 (112)
T ss_dssp             HHHHHHHHHHH-HHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHC-CCHHHHHHHHHHHh
Confidence            99999999995 99999999999876

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.05  E-value=1.2e-09  Score=70.03  Aligned_cols=84  Identities=7%  Similarity=-0.035  Sum_probs=68.0

Q ss_pred             HHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcC-ChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHH
Q psy5288          83 FVDAANCYKKS-NPAEAIKAIERAVEIHTDMG-RFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSAN  160 (186)
Q Consensus        83 ~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~-~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~  160 (186)
                      +.++|.++... ++++|+.+|++|+++..... .....+.++.++|.+|.. +|++++|+.+|++|+++.|+.      .
T Consensus         8 c~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~-~g~~~~A~~~y~~aL~l~P~~------~   80 (95)
T d1tjca_           8 SFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQ-QGDLDKALLLTKKLLELDPEH------Q   80 (95)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHCTTC------H
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHh-cCChHHHHHHHHHHHHhCcCC------H
Confidence            34888888766 99999999999999988764 334567899999999999 599999999999999997754      2


Q ss_pred             HHHHHHHHHHHhc
Q psy5288         161 KCLIKIANYSALT  173 (186)
Q Consensus       161 ~~~~~la~~y~~~  173 (186)
                      .++.|++.+...+
T Consensus        81 ~a~~Nl~~~~~~l   93 (95)
T d1tjca_          81 RANGNLKYFEYIM   93 (95)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh
Confidence            5777777655443

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.03  E-value=6.2e-10  Score=71.50  Aligned_cols=67  Identities=18%  Similarity=0.098  Sum_probs=57.3

Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccC-ChHHHHHHHHHHHHHHHhccCHHHHHHHHHhC
Q psy5288         119 AKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEE-NKSSANKCLIKIANYSALTDHLDKAIKLYEQL  186 (186)
Q Consensus       119 a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~-~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~~  186 (186)
                      +.-+.++|.++..+ |+|++|+.+|++|+.+.+... .......++.++|.+|.++|++++|+++|+++
T Consensus         5 addc~~lG~~~~~~-g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~a   72 (95)
T d1tjca_           5 AEDSFELGKVAYTE-ADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKL   72 (95)
T ss_dssp             HHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHC-CCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHH
Confidence            44577999999996 999999999999999988753 22344589999999999999999999999863

>d1nzna_ a.118.8.1 (A:) Mitochondria fission protein Fis1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.99  E-value=3.1e-09  Score=71.39  Aligned_cols=99  Identities=12%  Similarity=-0.014  Sum_probs=77.1

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC----CHHHHHHHHHHHHHHHHHcCChhHHH
Q psy5288          44 VRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS----NPAEAIKAIERAVEIHTDMGRFIMVA  119 (186)
Q Consensus        44 ~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~----~~~~A~~~~~~Al~i~~~~~~~~~~a  119 (186)
                      +...+.+...+++++|.+.|.+++.+     +|... .++.+.|.++...    ++.+|+..|++++..    +..+..+
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~-----~p~~~-~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~----~~~~~~~   72 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAA-----GSVSK-STQFEYAWCLVRTRYNDDIRKGIVLLEELLPK----GSKEEQR   72 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH-----SCCCH-HHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTT----SCHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhh-----CCCCH-HHHHHHHHHHHHhcchHHHHHHHHHHHHHHhc----cCCchHH
Confidence            34556677788999999999999998     45543 4566899998753    556788888887642    2334456


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhcc
Q psy5288         120 KHHENIAEIYEKELEDQEKAIDHYQHAADCYAGE  153 (186)
Q Consensus       120 ~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~  153 (186)
                      .++.++|.+|.. +|++++|+.+|++++.+.|..
T Consensus        73 ~~~~~Lg~~y~~-~g~~~~A~~~~~~aL~~~P~~  105 (122)
T d1nzna_          73 DYVFYLAVGNYR-LKEYEKALKYVRGLLQTEPQN  105 (122)
T ss_dssp             HHHHHHHHHHHH-TTCHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHHHHHHHH-HhhhHHHHHHHHHHHHhCcCC
Confidence            789999999999 599999999999999997754

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=98.97  E-value=5.7e-10  Score=77.23  Aligned_cols=113  Identities=16%  Similarity=0.045  Sum_probs=83.9

Q ss_pred             HHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-----------CHHHHHHHHHHHHHHHHHcCChhH
Q psy5288          49 LFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-----------NPAEAIKAIERAVEIHTDMGRFIM  117 (186)
Q Consensus        49 ~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-----------~~~~A~~~~~~Al~i~~~~~~~~~  117 (186)
                      .|.+++.|++|+.+|++++++     +|..+ .++.++|.++...           .+++|+.+|++|+++.+..     
T Consensus         6 ~~~r~~~fe~A~~~~e~al~~-----~P~~~-~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~P~~-----   74 (145)
T d1zu2a1           6 EFDRILLFEQIRQDAENTYKS-----NPLDA-DNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKK-----   74 (145)
T ss_dssp             SHHHHHHHHHHHHHHHHHHHH-----CTTCH-HHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTC-----
T ss_pred             HHHHHccHHHHHHHHHHHHhh-----CCcch-HHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhcchh-----
Confidence            356677799999999999998     56655 5566888887542           4678999999999886544     


Q ss_pred             HHHHHHHHHHHHHHhcC-----------CHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHH
Q psy5288         118 VAKHHENIAEIYEKELE-----------DQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAI  180 (186)
Q Consensus       118 ~a~~~~~lg~~y~~~lg-----------~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~  180 (186)
                       +.++.++|.+|..+ |           ++++|+++|++|+++.+.+      ..++..|+.+....+.|.++.
T Consensus        75 -~~a~~~lG~~y~~~-g~~~~~~~~~~~~~~~A~~~~~kal~l~P~~------~~~~~~L~~~~ka~~~~~e~~  140 (145)
T d1zu2a1          75 -DEAVWCIGNAYTSF-AFLTPDETEAKHNFDLATQFFQQAVDEQPDN------THYLKSLEMTAKAPQLHAEAY  140 (145)
T ss_dssp             -HHHHHHHHHHHHHH-HHHCCCHHHHHHHHHHHHHHHHHHHHHCTTC------HHHHHHHHHHHTHHHHHHHHH
T ss_pred             -hHHHhhHHHHHHHc-ccchhhHHHHHHhHHHhhhhhhcccccCCCH------HHHHHHHHHHHHHHHHHHHHH
Confidence             44788899998763 4           3788999999999987754      256677777766655555543

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.90  E-value=5.8e-09  Score=85.60  Aligned_cols=115  Identities=11%  Similarity=0.041  Sum_probs=69.4

Q ss_pred             HHHHHHHHHHHHHHHHH-cCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhc
Q psy5288          56 WNDGGNAFLQAGTLHLK-NNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKEL  133 (186)
Q Consensus        56 ~~~A~~~y~~a~~~~~~-~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~l  133 (186)
                      ...|...|..++..+++ .+-.......+.++|.++.+. ++++|+..+++++.+..        ..++.++|.++..+ 
T Consensus        95 l~~a~~~Y~~ai~~l~~~~~l~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~--------~~~~~~LG~l~~~~-  165 (497)
T d1ya0a1          95 LEAASGFYTQLLQELCTVFNVDLPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSYIC--------QHCLVHLGDIARYR-  165 (497)
T ss_dssp             HHHHHHHHHHHHHHHTC-------------------------------CCHHHHHHH--------HHHHHHHHHHHHHT-
T ss_pred             HHHHHHHHHHHHHHHHHHHCCChhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCCH--------HHHHHHHHHHHHHc-
Confidence            34455555555554432 111222334455777777665 77888888888887654        24788999999995 


Q ss_pred             CCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         134 EDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       134 g~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      |++++|+.+|++|+.+.++.+      ..+.+||.+|...|++.+|+.+|.|
T Consensus       166 ~~~~~A~~~y~~A~~l~P~~~------~~~~~Lg~~~~~~~~~~~A~~~y~r  211 (497)
T d1ya0a1         166 NQTSQAESYYRHAAQLVPSNG------QPYNQLAILASSKGDHLTTIFYYCR  211 (497)
T ss_dssp             TCHHHHHHHHHHHHHHCTTBS------HHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHCCCch------HHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            999999999999999988775      7899999999999999999999976

>d1nzna_ a.118.8.1 (A:) Mitochondria fission protein Fis1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.82  E-value=3.5e-09  Score=71.09  Aligned_cols=92  Identities=12%  Similarity=-0.013  Sum_probs=70.4

Q ss_pred             HHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHh--cCCHHHHHHHHHHHHHHHhccCChHHHHH
Q psy5288          85 DAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKE--LEDQEKAIDHYQHAADCYAGEENKSSANK  161 (186)
Q Consensus        85 ~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~--lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~  161 (186)
                      +++..+... ++++|.+.|++++.+....      ..+++++|.++...  .+++++||..|++++...+.    .....
T Consensus         4 ~l~n~~~~~~~l~~Ae~~Y~~aL~~~p~~------~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~----~~~~~   73 (122)
T d1nzna_           4 AVLNELVSVEDLLKFEKKFQSEKAAGSVS------KSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSK----EEQRD   73 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHSCCC------HHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCH----HHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHhhCCCC------HHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCC----chHHH
Confidence            344444444 7899999999998876554      44899999998642  25677899999999875332    22346


Q ss_pred             HHHHHHHHHHhccCHHHHHHHHHhC
Q psy5288         162 CLIKIANYSALTDHLDKAIKLYEQL  186 (186)
Q Consensus       162 ~~~~la~~y~~~g~~~~A~~~~~~~  186 (186)
                      ++.++|.+|..+|+|++|+++|+++
T Consensus        74 ~~~~Lg~~y~~~g~~~~A~~~~~~a   98 (122)
T d1nzna_          74 YVFYLAVGNYRLKEYEKALKYVRGL   98 (122)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHH
Confidence            8999999999999999999999863

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.66  E-value=3.8e-09  Score=81.68  Aligned_cols=141  Identities=8%  Similarity=-0.130  Sum_probs=94.0

Q ss_pred             CCCCHHHHHHHHHHH---------------HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CH
Q psy5288          32 GGNKTDEAIDLYVRA---------------GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NP   95 (186)
Q Consensus        32 ~~~~~~~A~~~y~~a---------------g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~   95 (186)
                      +.+++++|+.++.++               |.++...+.+++|+.++.+++.+     +|.. ..++..+|.++... ++
T Consensus       121 ~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~-----~p~~-~~a~~~l~~~~~~~~~~  194 (334)
T d1dcea1         121 PEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITR-----NFSN-YSSWHYRSCLLPQLHPQ  194 (334)
T ss_dssp             SSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTT-----TCCC-HHHHHHHHHHHHHHSCC
T ss_pred             ccccHHHHHHHHHHHHhhCchhhhhhhhHHHHHHHhccccHHHHHHHHHHHHc-----CCCC-HHHHHHHHHHHHHhcCH
Confidence            556788888888887               45677788888888888888776     3433 34566777777654 32


Q ss_pred             HHHH-------HHHHHHHHHH---HHcCChhHHHHHH--------------HHHHHHHHHhcCCHHHHHHHHHHHHHHHh
Q psy5288          96 AEAI-------KAIERAVEIH---TDMGRFIMVAKHH--------------ENIAEIYEKELEDQEKAIDHYQHAADCYA  151 (186)
Q Consensus        96 ~~A~-------~~~~~Al~i~---~~~~~~~~~a~~~--------------~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~  151 (186)
                      ++|+       .......++.   ...+....+...+              ..+|.++.. ++++++|+..+.+++...+
T Consensus       195 ~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~a~~~~~~~l~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~p  273 (334)
T d1dcea1         195 PDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGRAEPLFRCELSVEKSTV-LQSELESCKELQELEPENK  273 (334)
T ss_dssp             CCSSSCCSSCHHHHHHHHHHHHHHHHHCSSCSHHHHHHHHHHSCCCCSSSCCCCHHHHHH-HHHHHHHHHHHHHHCTTCH
T ss_pred             HHHHHHHHHhHHhHHHHHHHHHHHHHhcchhHHHHHHHHHHHhCcchhhHHHHHHHHHHH-HhhHHHHHHHHHHHHhhCc
Confidence            2222       2222221111   1222222333322              246777777 4899999999998887754


Q ss_pred             ccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         152 GEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       152 ~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      .      ...++..+|.+|...|++++|+++|++
T Consensus       274 ~------~~~~~~~l~~~~~~~~~~~eA~~~~~~  301 (334)
T d1dcea1         274 W------CLLTIILLMRALDPLLYEKETLQYFST  301 (334)
T ss_dssp             H------HHHHHHHHHHHHCTGGGHHHHHHHHHH
T ss_pred             h------HHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            3      247899999999999999999999986

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=98.60  E-value=5.6e-07  Score=63.94  Aligned_cols=115  Identities=11%  Similarity=-0.058  Sum_probs=68.3

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHH
Q psy5288          41 DLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVAK  120 (186)
Q Consensus        41 ~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~~~~~A~~~~~~Al~i~~~~~~~~~~a~  120 (186)
                      +.....|......|++++|+++|.+|+.+++.  ++..-         +............++            .....
T Consensus        12 ~~~~~~g~~~~~~g~~e~A~~~~~~AL~l~rG--~~l~~---------~~~~~w~~~~r~~l~------------~~~~~   68 (179)
T d2ff4a2          12 VAEKTAGVHAAAAGRFEQASRHLSAALREWRG--PVLDD---------LRDFQFVEPFATALV------------EDKVL   68 (179)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCS--STTGG---------GTTSTTHHHHHHHHH------------HHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHhhCcc--ccccc---------CcchHHHHHHHHHHH------------HHHHH
Confidence            34455677777888888888888888887642  11100         000000000000000            11233


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         121 HHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       121 ~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      ++.+++.++.. +|++++|+.++++++.+.+..      ...+..++.+|..+|++.+|+..|++
T Consensus        69 a~~~la~~~~~-~g~~~~Al~~~~~al~~~P~~------e~~~~~l~~al~~~Gr~~eAl~~y~~  126 (179)
T d2ff4a2          69 AHTAKAEAEIA-CGRASAVIAELEALTFEHPYR------EPLWTQLITAYYLSDRQSDALGAYRR  126 (179)
T ss_dssp             HHHHHHHHHHH-TTCHHHHHHHHHHHHHHSTTC------HHHHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHH-CCCchHHHHHHHHHHHhCCcc------HHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence            56667777777 477777777777777776643      25677777777777777777777765

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.59  E-value=6.5e-07  Score=68.28  Aligned_cols=83  Identities=7%  Similarity=0.088  Sum_probs=35.6

Q ss_pred             CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhc
Q psy5288          94 NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALT  173 (186)
Q Consensus        94 ~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~  173 (186)
                      +++.|...|++++..+...      ...+...+..+... |++++|...|++|+...+...  ......|......-...
T Consensus       184 ~~~~a~~i~e~~l~~~p~~------~~~w~~y~~~~~~~-g~~~~aR~~fe~ai~~~~~~~--~~~~~iw~~~~~fE~~~  254 (308)
T d2onda1         184 DKSVAFKIFELGLKKYGDI------PEYVLAYIDYLSHL-NEDNNTRVLFERVLTSGSLPP--EKSGEIWARFLAFESNI  254 (308)
T ss_dssp             CHHHHHHHHHHHHHHHTTC------HHHHHHHHHHHHTT-CCHHHHHHHHHHHHHSSSSCG--GGCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhhhhh------HHHHHHHHHHHHHc-CChHHHHHHHHHHHHhCCCCh--HHHHHHHHHHHHHHHHc
Confidence            4444555555444433222      12344444444442 555555555555554332111  01123444444444444


Q ss_pred             cCHHHHHHHHHh
Q psy5288         174 DHLDKAIKLYEQ  185 (186)
Q Consensus       174 g~~~~A~~~~~~  185 (186)
                      |+.+.+.++++|
T Consensus       255 G~~~~~~~~~~r  266 (308)
T d2onda1         255 GDLASILKVEKR  266 (308)
T ss_dssp             SCHHHHHHHHHH
T ss_pred             CCHHHHHHHHHH
Confidence            555555554443

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=98.57  E-value=6e-08  Score=66.69  Aligned_cols=80  Identities=13%  Similarity=0.062  Sum_probs=63.4

Q ss_pred             CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHh---------cCCHHHHHHHHHHHHHHHhccCChHHHHHHHH
Q psy5288          94 NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKE---------LEDQEKAIDHYQHAADCYAGEENKSSANKCLI  164 (186)
Q Consensus        94 ~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~---------lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~  164 (186)
                      .+++|+.+|++|+++.+..      +.++.++|.++...         .+.+++|+..|++|+++.++.      ..++.
T Consensus        12 ~fe~A~~~~e~al~~~P~~------~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~P~~------~~a~~   79 (145)
T d1zu2a1          12 LFEQIRQDAENTYKSNPLD------ADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKK------DEAVW   79 (145)
T ss_dssp             HHHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTC------HHHHH
T ss_pred             cHHHHHHHHHHHHhhCCcc------hHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhcchh------hHHHh
Confidence            5789999999999887666      44788888887531         256789999999999997654      36889


Q ss_pred             HHHHHHHhccC-----------HHHHHHHHHh
Q psy5288         165 KIANYSALTDH-----------LDKAIKLYEQ  185 (186)
Q Consensus       165 ~la~~y~~~g~-----------~~~A~~~~~~  185 (186)
                      ++|.+|..+|+           |++|+++|++
T Consensus        80 ~lG~~y~~~g~~~~~~~~~~~~~~~A~~~~~k  111 (145)
T d1zu2a1          80 CIGNAYTSFAFLTPDETEAKHNFDLATQFFQQ  111 (145)
T ss_dssp             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHcccchhhHHHHHHhHHHhhhhhhc
Confidence            99999987653           6888888875

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.55  E-value=1.1e-07  Score=77.87  Aligned_cols=106  Identities=9%  Similarity=0.018  Sum_probs=73.1

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHH
Q psy5288          47 GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENI  125 (186)
Q Consensus        47 g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~l  125 (186)
                      |..+...|+++.|+..+.+++.+.     +   ..++..+|.++... ++++|+.+|++|+++.+..|+      .+.++
T Consensus       127 g~~~~~~~~~~~A~~~~~~al~~~-----~---~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~P~~~~------~~~~L  192 (497)
T d1ya0a1         127 GIISNKQTHTSAIVKPQSSSCSYI-----C---QHCLVHLGDIARYRNQTSQAESYYRHAAQLVPSNGQ------PYNQL  192 (497)
T ss_dssp             ----------------CCHHHHHH-----H---HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTBSH------HHHHH
T ss_pred             HHHHHhCCCHHHHHHHHHHHhCCC-----H---HHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCchH------HHHHH
Confidence            556667778888888888777652     2   35677899999877 999999999999999988876      89999


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhc
Q psy5288         126 AEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALT  173 (186)
Q Consensus       126 g~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~  173 (186)
                      |.++... |++.+|+.+|.+|+.+-+.-      ...+.||+.++.+.
T Consensus       193 g~~~~~~-~~~~~A~~~y~ral~~~~~~------~~a~~nL~~~~~~~  233 (497)
T d1ya0a1         193 AILASSK-GDHLTTIFYYCRSIAVKFPF------PAASTNLQKALSKA  233 (497)
T ss_dssp             HHHHHHT-TCHHHHHHHHHHHHSSSBCC------HHHHHHHHHHHHHH
T ss_pred             HHHHHHc-CCHHHHHHHHHHHHhCCCCC------HHHHHHHHHHHHHh
Confidence            9999995 99999999999999874321      25667777777543

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.48  E-value=7.9e-08  Score=74.05  Aligned_cols=117  Identities=4%  Similarity=-0.176  Sum_probs=87.6

Q ss_pred             HHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC---CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHH
Q psy5288          50 FKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS---NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIA  126 (186)
Q Consensus        50 ~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~---~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg  126 (186)
                      +...|++.+|+.+|.+++..     +|... ..+...|.++...   ++++|+.++++++++...     ........+|
T Consensus        83 ~~~~~~~~~al~~~~~~l~~-----~pk~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~-----~~~~~~~~~~  151 (334)
T d1dcea1          83 EESAALVKAELGFLESCLRV-----NPKSY-GTWHHRCWLLSRLPEPNWARELELCARFLEADER-----NFHCWDYRRF  151 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH-----CTTCH-HHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCTT-----CHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHh-----CCCcH-HHHHHhhHHHHHhccccHHHHHHHHHHHHhhCch-----hhhhhhhHHH
Confidence            33445578888888888876     34333 4455677776554   689999999999987432     2333456788


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHH
Q psy5288         127 EIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYE  184 (186)
Q Consensus       127 ~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~  184 (186)
                      .++... +++++|+.++++++.+.+.+      ...|.++|.++..+|++++|+..+.
T Consensus       152 ~~~~~~-~~~~~Al~~~~~~i~~~p~~------~~a~~~l~~~~~~~~~~~~A~~~~~  202 (334)
T d1dcea1         152 VAAQAA-VAPAEELAFTDSLITRNFSN------YSSWHYRSCLLPQLHPQPDSGPQGR  202 (334)
T ss_dssp             HHHHTC-CCHHHHHHHHHTTTTTTCCC------HHHHHHHHHHHHHHSCCCCSSSCCS
T ss_pred             HHHHhc-cccHHHHHHHHHHHHcCCCC------HHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            999885 99999999999999987653      3688999999999999988765543

>d1ouva_ a.118.18.1 (A:) Cysteine rich protein C (HcpC) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein C (HcpC)
species: Helicobacter pylori [TaxId: 210]

Probab=98.27  E-value=6.8e-05  Score=55.02  Aligned_cols=58  Identities=17%  Similarity=0.281  Sum_probs=45.9

Q ss_pred             HHHHHHHHHHHHH----hcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHh----ccCHHHHHHHHHh
Q psy5288         119 AKHHENIAEIYEK----ELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSAL----TDHLDKAIKLYEQ  185 (186)
Q Consensus       119 a~~~~~lg~~y~~----~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~----~g~~~~A~~~~~~  185 (186)
                      +.++.++|.+|..    . .++++|+.+|++|.+.    ++    ...+.+||.+|..    ..|+++|+++|++
T Consensus       178 ~~A~~~lg~~y~~g~~~~-~d~~~A~~~~~~aa~~----g~----~~a~~~LG~~y~~G~g~~~n~~~A~~~~~k  243 (265)
T d1ouva_         178 SPGCFNAGNMYHHGEGAT-KNFKEALARYSKACEL----EN----GGGCFNLGAMQYNGEGVTRNEKQAIENFKK  243 (265)
T ss_dssp             HHHHHHHHHHHHHTCSSC-CCHHHHHHHHHHHHHT----TC----HHHHHHHHHHHHTTSSSSCCSTTHHHHHHH
T ss_pred             cccccchhhhcccCcccc-cchhhhhhhHhhhhcc----cC----HHHHHHHHHHHHcCCCCccCHHHHHHHHHH
Confidence            4467889999886    3 5899999999999885    22    2566899999986    4489999999975

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=98.25  E-value=9.9e-06  Score=54.14  Aligned_cols=99  Identities=14%  Similarity=0.104  Sum_probs=75.1

Q ss_pred             CCHHHHHHHHHHHHHH----------HHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-----CHHHH
Q psy5288          34 NKTDEAIDLYVRAGNL----------FKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-----NPAEA   98 (186)
Q Consensus        34 ~~~~~A~~~y~~ag~~----------~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-----~~~~A   98 (186)
                      .|+++|+.+|.++...          .....++++|++.|.++++.    |++    .+...+|.+|...     ++.+|
T Consensus         7 kd~~~A~~~~~kaa~~g~~~a~~~l~~~~~~~~~~a~~~~~~aa~~----g~~----~a~~~Lg~~y~~g~~~~~d~~~A   78 (133)
T d1klxa_           7 KDLKKAIQYYVKACELNEMFGCLSLVSNSQINKQKLFQYLSKACEL----NSG----NGCRFLGDFYENGKYVKKDLRKA   78 (133)
T ss_dssp             HHHHHHHHHHHHHHHTTCTTHHHHHHTCTTSCHHHHHHHHHHHHHT----TCH----HHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             cCHHHHHHHHHHHHHCCChhhhhhhccccccCHHHHHHHHhhhhcc----cch----hhhhhHHHhhhhccccchhhHHH
Confidence            4778888888887442          22355788999999888863    443    4456889998753     78999


Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHH----hcCCHHHHHHHHHHHHHH
Q psy5288          99 IKAIERAVEIHTDMGRFIMVAKHHENIAEIYEK----ELEDQEKAIDHYQHAADC  149 (186)
Q Consensus        99 ~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~----~lg~~~~Ai~~y~kA~~l  149 (186)
                      +++|++|.+    .|+    +.....||.+|..    . .++++|+.+|++|.+.
T Consensus        79 ~~~~~~aa~----~g~----~~a~~~Lg~~y~~G~gv~-~d~~~A~~~~~~Aa~~  124 (133)
T d1klxa_          79 AQYYSKACG----LND----QDGCLILGYKQYAGKGVV-KNEKQAVKTFEKACRL  124 (133)
T ss_dssp             HHHHHHHHH----TTC----HHHHHHHHHHHHHTSSSC-CCHHHHHHHHHHHHHT
T ss_pred             HHHHhhhhc----cCc----chHHHHHHHHHHcCCccC-CCHHHHHHHHHHHHHC
Confidence            999999964    355    3467889999987    2 5899999999999985

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.21  E-value=1.5e-05  Score=60.40  Aligned_cols=127  Identities=11%  Similarity=0.112  Sum_probs=99.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHH
Q psy5288          42 LYVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAK  120 (186)
Q Consensus        42 ~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~  120 (186)
                      ++...+.+....|+++.|...|.+++..     .+......+...+.+.... +++.|.+.|++++.......      .
T Consensus       101 l~~~ya~~~~~~~~~~~a~~i~~~~l~~-----~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~~~~~------~  169 (308)
T d2onda1         101 LYFAYADYEESRMKYEKVHSIYNRLLAI-----EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDARTRH------H  169 (308)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTS-----SSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTTCCT------H
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHHH-----hcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCcH------H
Confidence            4555578889999999999999999875     3444445566777777665 89999999999987654332      2


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         121 HHENIAEIYEKELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       121 ~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      .+...|.+.....|+.+.|...|++++..++..      ...+...+..+...|++++|..+|++
T Consensus       170 ~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~p~~------~~~w~~y~~~~~~~g~~~~aR~~fe~  228 (308)
T d2onda1         170 VYVTAALMEYYCSKDKSVAFKIFELGLKKYGDI------PEYVLAYIDYLSHLNEDNNTRVLFER  228 (308)
T ss_dssp             HHHHHHHHHHHTSCCHHHHHHHHHHHHHHHTTC------HHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccCHHHHHHHHHHHHHhhhhh------HHHHHHHHHHHHHcCChHHHHHHHHH
Confidence            566667664432489999999999999998764      37889999999999999999999986

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=98.09  E-value=8.9e-06  Score=57.47  Aligned_cols=122  Identities=13%  Similarity=0.040  Sum_probs=89.8

Q ss_pred             hHHhHHHHHHHHHHhhccCCCCccccccCCCCHHHHHHHHHHHHHHHHhcCC----HHHHHHHHHHHHHHHHHcCChhHH
Q psy5288           4 NEQKARQLVAEAEKKISSSSKGFFSQFTGGNKTDEAIDLYVRAGNLFKLGKK----WNDGGNAFLQAGTLHLKNNNKHDA   79 (186)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~A~~~y~~ag~~~~~~g~----~~~A~~~y~~a~~~~~~~~~~~~a   79 (186)
                      ++..-+.+...+.+.+.            .|++++|++.|.+|..++.  |.    +....+.......+      ....
T Consensus         7 D~~~f~~~~~~g~~~~~------------~g~~e~A~~~~~~AL~l~r--G~~l~~~~~~~w~~~~r~~l------~~~~   66 (179)
T d2ff4a2           7 DLGRFVAEKTAGVHAAA------------AGRFEQASRHLSAALREWR--GPVLDDLRDFQFVEPFATAL------VEDK   66 (179)
T ss_dssp             HHHHHHHHHHHHHHHHH------------TTCHHHHHHHHHHHHTTCC--SSTTGGGTTSTTHHHHHHHH------HHHH
T ss_pred             cHHHHHHHHHHHHHHHH------------CCCHHHHHHHHHHHHhhCc--ccccccCcchHHHHHHHHHH------HHHH
Confidence            34556667777777766            3699999999999977653  32    11222222333332      1233


Q ss_pred             HHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhc
Q psy5288          80 GLCFVDAANCYKKS-NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAG  152 (186)
Q Consensus        80 a~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~  152 (186)
                      ..++.+++.++... ++++|+.++++++.+.....+      .+..++.++.. +|++++|+..|+++...+.+
T Consensus        67 ~~a~~~la~~~~~~g~~~~Al~~~~~al~~~P~~e~------~~~~l~~al~~-~Gr~~eAl~~y~~~~~~L~~  133 (179)
T d2ff4a2          67 VLAHTAKAEAEIACGRASAVIAELEALTFEHPYREP------LWTQLITAYYL-SDRQSDALGAYRRVKTTLAD  133 (179)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHH------HHHHHHHHHHT-TTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCchHHHHHHHHHHHhCCccHH------HHHHHHHHHHH-hcCHHHHHHHHHHHHHHHHH
Confidence            56777889998877 999999999999998876533      88999999999 59999999999999888764

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=98.09  E-value=6.2e-05  Score=50.05  Aligned_cols=106  Identities=16%  Similarity=0.264  Sum_probs=78.5

Q ss_pred             CCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHH--
Q psy5288          54 KKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKSNPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEK--  131 (186)
Q Consensus        54 g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~--  131 (186)
                      .|+++|+++|.++++.    |++..    ...++.. ...++++|+.+|++|.+    .|+    +..+..||.+|..  
T Consensus         7 kd~~~A~~~~~kaa~~----g~~~a----~~~l~~~-~~~~~~~a~~~~~~aa~----~g~----~~a~~~Lg~~y~~g~   69 (133)
T d1klxa_           7 KDLKKAIQYYVKACEL----NEMFG----CLSLVSN-SQINKQKLFQYLSKACE----LNS----GNGCRFLGDFYENGK   69 (133)
T ss_dssp             HHHHHHHHHHHHHHHT----TCTTH----HHHHHTC-TTSCHHHHHHHHHHHHH----TTC----HHHHHHHHHHHHHCS
T ss_pred             cCHHHHHHHHHHHHHC----CChhh----hhhhccc-cccCHHHHHHHHhhhhc----ccc----hhhhhhHHHhhhhcc
Confidence            4688999999999864    45433    2233322 12288999999999874    355    3467889999986  


Q ss_pred             --hcCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHh----ccCHHHHHHHHHh
Q psy5288         132 --ELEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSAL----TDHLDKAIKLYEQ  185 (186)
Q Consensus       132 --~lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~----~g~~~~A~~~~~~  185 (186)
                        . .++++|+.+|++|.+.    ++    .....+||.+|..    ..|+.+|+++|++
T Consensus        70 ~~~-~d~~~A~~~~~~aa~~----g~----~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~  120 (133)
T d1klxa_          70 YVK-KDLRKAAQYYSKACGL----ND----QDGCLILGYKQYAGKGVVKNEKQAVKTFEK  120 (133)
T ss_dssp             SSC-CCHHHHHHHHHHHHHT----TC----HHHHHHHHHHHHHTSSSCCCHHHHHHHHHH
T ss_pred             ccc-hhhHHHHHHHhhhhcc----Cc----chHHHHHHHHHHcCCccCCCHHHHHHHHHH
Confidence              3 5789999999999875    22    2566889999987    4699999999976

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=97.53  E-value=3.4e-05  Score=57.78  Aligned_cols=51  Identities=8%  Similarity=0.009  Sum_probs=26.3

Q ss_pred             cCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHH
Q psy5288          53 GKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPAEAIKAIERAVEIH  109 (186)
Q Consensus        53 ~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~~A~~~~~~Al~i~  109 (186)
                      .|++++|+..|.++++.     +|..+ ..+..++.++... ++++|+..|++++++.
T Consensus         9 ~G~l~eAl~~l~~al~~-----~P~d~-~ar~~La~lL~~~G~~e~A~~~l~~a~~l~   60 (264)
T d1zbpa1           9 EGQLQQALELLIEAIKA-----SPKDA-SLRSSFIELLCIDGDFERADEQLMQSIKLF   60 (264)
T ss_dssp             TTCHHHHHHHHHHHHHT-----CTTCH-HHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             CCCHHHHHHHHHHHHHH-----CCCCH-HHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            45555555555555554     23332 2333555555443 5666666666655543

>d1ouva_ a.118.18.1 (A:) Cysteine rich protein C (HcpC) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein C (HcpC)
species: Helicobacter pylori [TaxId: 210]

Probab=97.36  E-value=0.004  Score=45.08  Aligned_cols=90  Identities=18%  Similarity=0.216  Sum_probs=52.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-----CHHHHHHHHHHHHHHHHHcCChhH
Q psy5288          43 YVRAGNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-----NPAEAIKAIERAVEIHTDMGRFIM  117 (186)
Q Consensus        43 y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-----~~~~A~~~~~~Al~i~~~~~~~~~  117 (186)
                      +...|..+...+++++|+++|+++++.    |+.    .++..+|.+|...     ++..|..+++.+..    .+.+  
T Consensus         5 ~~~lG~~~~~~~d~~~A~~~~~kAa~~----g~~----~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~----~~~~--   70 (265)
T d1ouva_           5 LVGLGAKSYKEKDFTQAKKYFEKACDL----KEN----SGCFNLGVLYYQGQGVEKNLKKAASFYAKACD----LNYS--   70 (265)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHT----TCH----HHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHH----TTCH--
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHC----CCH----HHHHHHHHHHHcCCCcchhHHHHHHhhccccc----cccc--
Confidence            445567777777888888888877653    333    3455677777652     67777777766542    2221  


Q ss_pred             HHHHHHHHHHHHHHh---cCCHHHHHHHHHHHHH
Q psy5288         118 VAKHHENIAEIYEKE---LEDQEKAIDHYQHAAD  148 (186)
Q Consensus       118 ~a~~~~~lg~~y~~~---lg~~~~Ai~~y~kA~~  148 (186)
                        .....+|.++...   -.+.++|+.+|+++.+
T Consensus        71 --~a~~~l~~~~~~~~~~~~~~~~a~~~~~~a~~  102 (265)
T d1ouva_          71 --NGCHLLGNLYYSGQGVSQNTNKALQYYSKACD  102 (265)
T ss_dssp             --HHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHH
T ss_pred             --chhhccccccccccccchhhHHHHHHHhhhhh
Confidence              2334455555420   1456666666666654

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=97.15  E-value=0.0012  Score=49.10  Aligned_cols=110  Identities=10%  Similarity=0.059  Sum_probs=72.2

Q ss_pred             CCCCHHHHHHHHHHH--------------HHHHHhcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHhcC-CHH
Q psy5288          32 GGNKTDEAIDLYVRA--------------GNLFKLGKKWNDGGNAFLQAGTLHLKNNNKHDAGLCFVDAANCYKKS-NPA   96 (186)
Q Consensus        32 ~~~~~~~A~~~y~~a--------------g~~~~~~g~~~~A~~~y~~a~~~~~~~~~~~~aa~~~~~a~~~y~~~-~~~   96 (186)
                      ..|++++|+..|.++              +.++...|++++|...|.+++++     +|.... .+..++.++... ...
T Consensus         8 ~~G~l~eAl~~l~~al~~~P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l-----~P~~~~-~~~~l~~ll~a~~~~~   81 (264)
T d1zbpa1           8 SEGQLQQALELLIEAIKASPKDASLRSSFIELLCIDGDFERADEQLMQSIKL-----FPEYLP-GASQLRHLVKAAQARK   81 (264)
T ss_dssp             TTTCHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH-----CGGGHH-HHHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-----CCCcHH-HHHHHHHHHHhccccH
Confidence            356888888888888              66899999999999999999998     455443 333445444322 222


Q ss_pred             HHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhcc
Q psy5288          97 EAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGE  153 (186)
Q Consensus        97 ~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~  153 (186)
                      ++...+.+.    ...+.+ .....+...+.++... |++++|+..++++.++.+..
T Consensus        82 ~a~~~~~~~----~~~~~p-~~~~~~l~~a~~~~~~-gd~~~A~~~~~~a~e~~p~~  132 (264)
T d1zbpa1          82 DFAQGAATA----KVLGEN-EELTKSLVSFNLSMVS-QDYEQVSELALQIEELRQEK  132 (264)
T ss_dssp             HHTTSCCCE----ECCCSC-HHHHHHHHHHHHHHHH-TCHHHHHHHHHHHHHHCCCC
T ss_pred             HHHHHhhhh----hcccCc-hHHHHHHHHHHHHHhC-CCHHHHHHHHHHHHhcCCCC
Confidence            221111110    011222 3334555677777875 99999999999999987754

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.02  E-value=0.0018  Score=42.49  Aligned_cols=61  Identities=13%  Similarity=0.048  Sum_probs=30.4

Q ss_pred             HHHHHHHHHHHHh--cCCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHHHh
Q psy5288         120 KHHENIAEIYEKE--LEDQEKAIDHYQHAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLYEQ  185 (186)
Q Consensus       120 ~~~~~lg~~y~~~--lg~~~~Ai~~y~kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~  185 (186)
                      +..++.|.++...  ..+.+++|..+++++...+     .....|+..||..|.++|+|++|.+++++
T Consensus        36 qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p-----~~~rd~lY~Lav~yyklgdy~~A~~~~~~   98 (124)
T d2pqrb1          36 QSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAE-----SRRRECLYYLTIGCYKLGEYSMAKRYVDT   98 (124)
T ss_dssp             HHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCG-----GGHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             chHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCc-----hhHHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            4445555554321  1334556666655554311     11235566666666666666666666543

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.82  E-value=0.0092  Score=38.91  Aligned_cols=67  Identities=10%  Similarity=-0.124  Sum_probs=50.6

Q ss_pred             HHHHHHHHHHhcC----CHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhcc
Q psy5288          81 LCFVDAANCYKKS----NPAEAIKAIERAVEIHTDMGRFIMVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAGE  153 (186)
Q Consensus        81 ~~~~~a~~~y~~~----~~~~A~~~~~~Al~i~~~~~~~~~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~~  153 (186)
                      ..-++.|-+..+.    +.++++..++.++..     ++.....++..||..|.. +|+|++|..++++++++-+.+
T Consensus        36 qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~-----~p~~~rd~lY~Lav~yyk-lgdy~~A~~~~~~~L~ieP~n  106 (124)
T d2pqrb1          36 QSRFNYAWGLIKSTDVNDERLGVKILTDIYKE-----AESRRRECLYYLTIGCYK-LGEYSMAKRYVDTLFEHERNN  106 (124)
T ss_dssp             HHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHH-----CGGGHHHHHHHHHHHHHH-HTCHHHHHHHHHHHHHHCTTC
T ss_pred             chHHHHHHHHHcCCcHHHHHHHHHHHHHHHhc-----CchhHHHHHHHHHHHHHH-HhhHHHHHHHHHHHHccCCCc
Confidence            3444555555433    567888888876542     455567899999999999 699999999999999997764

>d2crba1 a.7.16.1 (A:8-90) Nuclear receptor binding factor 2, NRBF2, N-terminal domain {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: Spectrin repeat-like
superfamily: MIT domain-like
family: MIT domain
domain: Nuclear receptor binding factor 2, NRBF2, N-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.13  E-value=0.2  Score=29.57  Aligned_cols=13  Identities=38%  Similarity=0.330  Sum_probs=6.8

Q ss_pred             CHHHHHHHHHHHH
Q psy5288          35 KTDEAIDLYVRAG   47 (186)
Q Consensus        35 ~~~~A~~~y~~ag   47 (186)
                      .|++|++|+.++.
T Consensus        23 rydeAIech~kA~   35 (83)
T d2crba1          23 KYEEAISCHRKAT   35 (83)
T ss_dssp             CHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHH
Confidence            5555555555443

>d2crba1 a.7.16.1 (A:8-90) Nuclear receptor binding factor 2, NRBF2, N-terminal domain {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: Spectrin repeat-like
superfamily: MIT domain-like
family: MIT domain
domain: Nuclear receptor binding factor 2, NRBF2, N-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=91.13  E-value=0.34  Score=28.52  Aligned_cols=35  Identities=17%  Similarity=0.133  Sum_probs=27.9

Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhc
Q psy5288         117 MVAKHHENIAEIYEKELEDQEKAIDHYQHAADCYAG  152 (186)
Q Consensus       117 ~~a~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~  152 (186)
                      -.|-.+..-+.-+... |.||+||+++++|..+..+
T Consensus         6 N~AH~~~RrAer~l~~-~rydeAIech~kA~~yl~e   40 (83)
T d2crba1           6 NLAHQQSRRADRLLAA-GKYEEAISCHRKATTYLSE   40 (83)
T ss_dssp             HHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHH
Confidence            3455666677777776 9999999999999998765

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=89.99  E-value=2.1  Score=31.98  Aligned_cols=54  Identities=15%  Similarity=0.154  Sum_probs=35.8

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHH---------HHHHHHhccCChHHHHHHHHHHHHHHHhccCHHHHHHHH
Q psy5288         121 HHENIAEIYEKELEDQEKAIDHYQ---------HAADCYAGEENKSSANKCLIKIANYSALTDHLDKAIKLY  183 (186)
Q Consensus       121 ~~~~lg~~y~~~lg~~~~Ai~~y~---------kA~~l~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~  183 (186)
                      .+..++.+|..  -+.++-.+++.         +++.++.+.+       .|..+..+|.+.|++++|+.+.
T Consensus       135 ~~~~L~~lyak--~~~~kl~e~l~~~s~~y~~~k~~~~c~~~~-------l~~elv~Ly~~~~~~~~A~~~~  197 (336)
T d1b89a_         135 MFTELAILYSK--FKPQKMREHLELFWSRVNIPKVLRAAEQAH-------LWAELVFLYDKYEEYDNAIITM  197 (336)
T ss_dssp             HHHHHHHHHHT--TCHHHHHHHHHHHSTTSCHHHHHHHHHTTT-------CHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHH--hChHHHHHHHHhccccCCHHHHHHHHHHcC-------ChHHHHHHHHhcCCHHHHHHHH
Confidence            57788888876  36677666653         3444444332       3455667888999999988764

>d1wr0a1 a.7.14.1 (A:5-81) Vacuolar sorting protein 4b (VPS4B, SKD1 protein) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: Spectrin repeat-like
superfamily: MIT domain
family: MIT domain
domain: Vacuolar sorting protein 4b (VPS4B, SKD1 protein)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.16  E-value=0.24  Score=28.93  Aligned_cols=39  Identities=18%  Similarity=0.201  Sum_probs=29.0

Q ss_pred             CCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Q psy5288          33 GNKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLK   72 (186)
Q Consensus        33 ~~~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~   72 (186)
                      ++..++|+++..+|- -+...|+|++|+.+|..+++.+..
T Consensus         5 ~~~l~~A~~l~~~Av-~~D~~~~y~~A~~~Y~~a~~~l~~   43 (77)
T d1wr0a1           5 SPNLQKAIDLASKAA-QEDKAGNYEEALQLYQHAVQYFLH   43 (77)
T ss_dssp             CHHHHHHHHHHHHHH-HHHHTTCCSSHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHH-HHHHcCCHHHHHHHHHHHHHHHHH
Confidence            356677777777664 567788888888888888887653

>d1wfda_ a.7.14.1 (A:) Hypothetical protein 1500032H18Rik {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: Spectrin repeat-like
superfamily: MIT domain
family: MIT domain
domain: Hypothetical protein 1500032H18Rik
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=85.99  E-value=2.2  Score=25.44  Aligned_cols=32  Identities=19%  Similarity=0.100  Sum_probs=24.0

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhc
Q psy5288         120 KHHENIAEIYEKELEDQEKAIDHYQHAADCYAG  152 (186)
Q Consensus       120 ~~~~~lg~~y~~~lg~~~~Ai~~y~kA~~l~~~  152 (186)
                      ..+.+-|.-+... |+|++|+.+|.+|++++..
T Consensus        16 ~~l~~~Av~~D~~-g~y~eA~~~Y~~aie~l~~   47 (93)
T d1wfda_          16 VAVLKRAVELDAE-SRYQQALVCYQEGIDMLLQ   47 (93)
T ss_dssp             HHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHH
Confidence            3344455555664 9999999999999998764

>d1wfda_ a.7.14.1 (A:) Hypothetical protein 1500032H18Rik {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: Spectrin repeat-like
superfamily: MIT domain
family: MIT domain
domain: Hypothetical protein 1500032H18Rik
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=85.67  E-value=2.3  Score=25.36  Aligned_cols=40  Identities=10%  Similarity=0.172  Sum_probs=32.0

Q ss_pred             CCCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Q psy5288          32 GGNKTDEAIDLYVRAGNLFKLGKKWNDGGNAFLQAGTLHLK   72 (186)
Q Consensus        32 ~~~~~~~A~~~y~~ag~~~~~~g~~~~A~~~y~~a~~~~~~   72 (186)
                      ..++...|+++..+| .-+...|+|++|+.+|..+++++..
T Consensus         8 ~~~~~~~A~~l~~~A-v~~D~~g~y~eA~~~Y~~aie~l~~   47 (93)
T d1wfda_           8 QDSDSTAAVAVLKRA-VELDAESRYQQALVCYQEGIDMLLQ   47 (93)
T ss_dssp             CCCHHHHHHHHHHHH-HHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHH-HHHHHcCCHHHHHHHHHHHHHHHHH
Confidence            456777888886665 5667899999999999999998764

>d1wr0a1 a.7.14.1 (A:5-81) Vacuolar sorting protein 4b (VPS4B, SKD1 protein) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: Spectrin repeat-like
superfamily: MIT domain
family: MIT domain
domain: Vacuolar sorting protein 4b (VPS4B, SKD1 protein)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=80.30  E-value=0.87  Score=26.33  Aligned_cols=26  Identities=31%  Similarity=0.441  Sum_probs=19.0

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHHHhc
Q psy5288         126 AEIYEKELEDQEKAIDHYQHAADCYAG  152 (186)
Q Consensus       126 g~~y~~~lg~~~~Ai~~y~kA~~l~~~  152 (186)
                      |.-.... |+|++|+.+|.+|++++..
T Consensus        18 Av~~D~~-~~y~~A~~~Y~~a~~~l~~   43 (77)
T d1wr0a1          18 AAQEDKA-GNYEEALQLYQHAVQYFLH   43 (77)
T ss_dssp             HHHHHHT-TCCSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHc-CCHHHHHHHHHHHHHHHHH
Confidence            3334554 8999999999999887653